diff --git a/ex11_1.sh b/ex11_1.sh
new file mode 100644
index 0000000..d27b786
--- /dev/null
+++ b/ex11_1.sh
@@ -0,0 +1,20 @@
+#!/bin/bash
+#Marya Poterek
+
+#Question 1
+
+for file in spore*
+do
+cat $file >> spore_all.fasta
+echo  >> spore_all.fasta
+done
+
+/Users/mlpoterek/Biocomp/muscle3.8.31_i86darwin32 -in spore_all.fasta -out spore.align
+
+for file in transporter*
+do
+cat $file >> transporter_all.fasta
+echo >> transporter_all.fasta
+done
+
+/Users/mlpoterek/Biocomp/muscle3.8.31_i86darwin32 -in transporter_all.fasta -out transporter.align
diff --git a/ex11_2.sh b/ex11_2.sh
new file mode 100644
index 0000000..785d588
--- /dev/null
+++ b/ex11_2.sh
@@ -0,0 +1,19 @@
+#!/bin/bash
+#Marya Poterek
+
+#Question 2
+
+/afs/nd.edu/user8/mpoterek/local/bin/hmmbuild transporter.hmm transporter.align
+
+for file in /afs/nd.edu/user8/mpoterek/proteomes/*.fasta
+do
+/afs/nd.edu/user8/mpoterek/local/bin/hmmsearch --tblout $file.hmm.out transporter.hmm $file
+done
+
+for file in /afs/nd.edu/user8/mpoterek/proteomes/*.hmm.out
+do
+a=$(basename $file)
+b=`basename $a .fasta.hmm.out`
+echo $b >> hmm_hits.txt
+grep -v '#' $file | wc -l >> hmm_hits.txt
+done
diff --git a/gene_sequences/A9CH19_A b/gene_sequences/A9CH19_A
new file mode 100644
index 0000000..e69de29
diff --git a/gene_sequences/ex11.sh b/gene_sequences/ex11.sh
new file mode 100644
index 0000000..d27b786
--- /dev/null
+++ b/gene_sequences/ex11.sh
@@ -0,0 +1,20 @@
+#!/bin/bash
+#Marya Poterek
+
+#Question 1
+
+for file in spore*
+do
+cat $file >> spore_all.fasta
+echo  >> spore_all.fasta
+done
+
+/Users/mlpoterek/Biocomp/muscle3.8.31_i86darwin32 -in spore_all.fasta -out spore.align
+
+for file in transporter*
+do
+cat $file >> transporter_all.fasta
+echo >> transporter_all.fasta
+done
+
+/Users/mlpoterek/Biocomp/muscle3.8.31_i86darwin32 -in transporter_all.fasta -out transporter.align
diff --git a/gene_sequences/finalfile.txt b/gene_sequences/finalfile.txt
new file mode 100644
index 0000000..4731d62
--- /dev/null
+++ b/gene_sequences/finalfile.txt
@@ -0,0 +1,103 @@
+>Q8XVY0_RALSO/26164
+TTTTFSVSTTVNATCVINSASALTFAAFDPSQGAQASTSSISVNCTNTTPFNIGLNAGTGTGATVASRVMTSGANTLTYSLYQDSGHASVWGNTVGTNTVAGTGAGMAAGNAITKTVYGLIPSQPNTVPGNYADTVTVT
+>Q0BSH7_GRABC/37169
+TTTTFQVTATVQASCIIQATNLSFGNYSGSQTDATSTIQVTCTNSTPYNVGLSAGTGSGATVSNRKMSLNSTSALPYALYSDASRSTNWGNTPNQDTVSGTGNGSAQSLTVYGRIQTGNYPTPGSYADTITAT
+>Q0AAK3_ALKEH/24160
+DTATFDVTATVDPTCTVDADNLVFGTYDPFSDTPLDENSEIRVQCTSDTPYDIGLDDGDNTGAEGERRMALADESDFLEYDLYHDNHGGTSWGDIDSGAELTGLSGTGSEQSYVVYGRIFAEQSVAVGNYVDTIEVT
+>Q8XPY6_RALSO/36170
+KTTTFTVSLTLQADCSISANALNFGTQGVLAANVDQTATLSVTCSNTAPYNVGFDAGTTTGSTIAARLLAGSGAATVGFQLYSDSARTQIWGNTVGTDTVSGTGSGTAQVLTVYGRVPSQNSPAAGTYSTTITAT
+>Q63W79_BURPS/31169
+ATATFTVSLTIQANCTISANALSFGTNGVLATAVNQQTTLSVTCSNTTSYNVGLDAGNVSGSTVSSRLLAGTTTGNTSTTVSFQLYQDSGHTTIWGNTVGTNTVSGTGNGTAQTLSVYGQVPAQTTPKPDTYESTVTAT>Q7CVQ4_AGRFC/27162
+ATTNFNVQITIQAACQINSAGNLDFGTNGVIGAPIDVTSQIVVQCTASTPFSLGLSAGAGSGATVANRLMTSAAGATISYSLYTTAAHSTVWGNTVGTDRQTGTGTGAPQNFTVFGRVPAQTTPAVGVYTDTVTAT
+>Q985D5_RHILO/27162
+ATGNMTVRITIQAECKVQTATDMDFGTNGVIDANVDQTSTISVQCTNSTPYNVGLSAGVGAGATVAVRKMTGPAAAVLNYSLYRDVARAQLWGTTIGTDTVAGTGNGAAQPLTVYGRVPPQTTPGAGVYTDTVAIT
+>A6X8A6_OCHA4/27162
+ATGNMNVRITIQAECKIVTATDLDFGTKGVIDVNVDQTSTISVQCTNGTPYTVGLSAGGGAGATVAMRKMTGAASATINYTIYRDAARTQVWGVTAGTDVVSGTGNGNAQSITAYGRVPAQTTPAPGVYSDVVSVT
+>A9CH19_AGRFC/182313
+TQVPFTVSAAVAPTCIISAQNINFGSHGVLNTAVDANGAINLTCTNGLNYSVALNGGLSNSPPAARQMVQGAASIIYGLYRDVSRTNVWGSAAGQIATGTGNGSLQTLTVFGRVPAQNTPAPGNYADTVVVT
+>Q985D8_RHILO/205338
+DRPTFTINAIVPANCLLAIQNIDFGSNGILGANVDATGGVSITCTPGTPYTVSLSNGTTGSAPTARKMSKGVETVTYGLYKDNARSQVWGDAAMPGSTVAGSGSGAAQNLTIYGRVPAQTTPSAGVYTDTVVVT
+>A7H7Q6_ANADF/25150
+ATAQFQVTATVVKKCKISATTIAFGNYDPATILSAEGTLTLKCTKGTLYSVALDGGSTGSRQMTQAAEVLDYELYSDAGHTAVWPSTAAAPSVAAAGADEALIIFAQVPADQYPAPGAYADTVTAT
+>Q2IFL0_ANADE/27162
+ATATLDVTATVVPSCTIAATPVAFGSYDPLVTNAATALDAQGTVTVTCTTGTAYTVGLGAGNSGSGSRAMQHASIAGAQLPYELYQEAARTTVWDSTVMQAGTAASITPVQYTVYGRIPAAQNVPTGNYADAVVAT
+>Q0C623_HYPNA/23151
+ANGTLDVQATVVNTCVVLTAPVVFASVGLDEVTANGSITVNCTNTSAFTVALDGGDSGDISARSLTHASLPASFNYQLYTDAGLTTVWGDGVTGSQANGSGPSQTLTVYGRTTSTPDTAGAYADEVQVT
+>Q63W78_BURPS/193326
+TFAFTASATVVNDCFINATNVAFGSTGVIQGALTATGTISAQCTNGDAFRIALNGGASGNVAARAMQRTGGGGAVNYQLYLDAAHSTIWGDGTAGTSTATGTGSGLSQSLTVYGQVPAQTTPAPGTYSDTITAT
+>Q8XVY3_RALSO/23163
+VLVALASWAPGALAVSCSVSANALSFGAYNTTSNLTGTTTVTITCGAWGGASSINYTLSASVGSGTYANRQVLNGSNVIAYNLYTTSADTSIWGDGNGDGTVTLSGTVTKQVGTVNLTIYGKINGGQNVVPGSYATTIPIT
+>Q8XPY9_RALSO/25163
+ASAQSCSVASASLNFGSISPVQAGNTDTSTTLTVSCSGFLLQGTVARACLNLGVGSGDTGISPRVLSAGANQLQYNLYADSARSVVWGGRTTPATPAIQVDVSLGLLGFGSATVTVYGRVPGGQTTVPAGAYTQSFSGT>A9CH19_AGRFC/11158
+IAAAFVASPVLAQSCTFSMSDMNFGFVNLAGGAAVDTTATLSVTCNNPLSLALSIRICPNINAGGGGQSGGIRRMLQGSNILNYQLYQTSARTTAWGSVTQPALGAPPPIDMALPLLINSTTRTVYGRINAGQASAARGLYLSSFAGG
+>Q985D8_RHILO/37183
+SAALLLPTVAWAQSCSFGVSAMNFGLVDTLSGSSSNSTATLSVNCTGLLLQRILVCPNLGTGSGGATASARQMLSGANDLNYQLYSDSARSVVWGSYAWPYPPTAPGFALTLNVLGSGSASQTIYGAILGGQATAVPSTYLSTFSGS
+>Q3A2W0_PELCD/10150
+IIVLLFAVDAYAFHCEVTTTPVSFGAYDVFSSFSLDTTGRISVSCNNPEKKRMPVTISISRGAANSFSPRQMRRIGGSDRMDYYLFVDASRTAVWGDGTGGSSTYVGMIDRTSPLNVPIYGRIPARQNLRAGSYQDILVVT>A7H7Q5_ANADF/16150
+APRAVDAAQPPSPGPSCSVSAGSVAFGAYDPLSPTHLDSTGTIGLTCAVRQLVTISLGTGQSGTFARELRGPGGAALRYDLYTDATRTQVWGDGTAGTATWPFETERGRYVPVYARVLAGQDVPAGPYSDTIVVT
+>Q2IFK8_ANADE/19157
+ATALSLVAPAAARAASCSLTMGTSIAFGAYDPLSPVPLTTTGMLQYRCSRGQPIRITFTAGSSGDVYARTLRQGPWTLAYNLYADAGFGTVWGDGTGGTAAAPAVTTLSNGLTVAYVFGRIPARQEPPVGPYSDTIVVT
+>Q1D5L1_MYXXD/13153
+AVAGVCGLLPGLAGAVCQIRSTIGVSFGTYLTTDLLPRDSAGSITYRCEGQITPITIDFSAGGSGTPLARSMAGPGAQRLEYNLYVDATRLIVWGNGTSGTGRYGPVVPLFGVEVTVPIFGRIPAGQAIPAGAYADTVVMT
+>Q60C08_METCA/20167
+LLACPKISDADPYQCDIGNISVPHAVYDPTDSNPNSSGVGTVGITCHLKNAKQTQQVQYTIALSRGSSGSYNPRRMSGGRGSLGYNLYLDAARVTIWGDGSGGTFPLRGTLLLNPTTPVQQVIHNIYGLIPPLQDVYAGTYTDTVTIT
+>Q0AAK6_ALKEH/8153
+SLFLVAAGSGSAQAYTCSISADPLAFGQYDPITGAQVDGASEVSVSCSLLGLVSLLVSYEISLDPGTGGSYHPRALSSATDTLDYNLYVDTARTEIWGDGTDDTATVTDSYTLGVLTVTRYYPVYGRVFADQNVAAGVYDDTITAT
+>Q12FX3_POLSJ/50194
+TWGVLLAAGTAHATISCSVSGNGFTSVYDPISTVPNDNVSSVTINCSRASGDPTTTTYSLASTNGLYPQGQNNRAYYPTNKYLKYDIYKDAAYSSRWGPGGSAPFTGTLNFGSGTSASLTLPYYNRVAAQQSAVAADYTDTMTAT
+>A1VIJ0_POLNA/19170
+ALFLLLATAGPAQAGSCTVGSSGLAFGAYQPLTFAGKLTSSAVTSNASISVVCTGIASGGAYSIALGPSTTGSGDRISTRYLGNSNGGDDMSFNIYTSASYSTVWGNGTTGGLVGGSIPVGDSNQSQPVYGRIAASQNTLRAGSYSGSLTMT
+
+>Q8XVY0_RALSO/26164
+TTTTFSVSTTVNATCVINSASALTFAAFDPSQGAQASTSSISVNCTNTTPFNIGLNAGTGTGATVASRVMTSGANTLTYSLYQDSGHASVWGNTVGTNTVAGTGAGMAAGNAITKTVYGLIPSQPNTVPGNYADTVTVT
+>Q0BSH7_GRABC/37169
+TTTTFQVTATVQASCIIQATNLSFGNYSGSQTDATSTIQVTCTNSTPYNVGLSAGTGSGATVSNRKMSLNSTSALPYALYSDASRSTNWGNTPNQDTVSGTGNGSAQSLTVYGRIQTGNYPTPGSYADTITAT
+>Q0AAK3_ALKEH/24160
+DTATFDVTATVDPTCTVDADNLVFGTYDPFSDTPLDENSEIRVQCTSDTPYDIGLDDGDNTGAEGERRMALADESDFLEYDLYHDNHGGTSWGDIDSGAELTGLSGTGSEQSYVVYGRIFAEQSVAVGNYVDTIEVT
+>Q8XPY6_RALSO/36170
+KTTTFTVSLTLQADCSISANALNFGTQGVLAANVDQTATLSVTCSNTAPYNVGFDAGTTTGSTIAARLLAGSGAATVGFQLYSDSARTQIWGNTVGTDTVSGTGSGTAQVLTVYGRVPSQNSPAAGTYSTTITAT
+>Q63W79_BURPS/31169
+ATATFTVSLTIQANCTISANALSFGTNGVLATAVNQQTTLSVTCSNTTSYNVGLDAGNVSGSTVSSRLLAGTTTGNTSTTVSFQLYQDSGHTTIWGNTVGTNTVSGTGNGTAQTLSVYGQVPAQTTPKPDTYESTVTAT
+>Q7CVQ4_AGRFC/27162
+ATTNFNVQITIQAACQINSAGNLDFGTNGVIGAPIDVTSQIVVQCTASTPFSLGLSAGAGSGATVANRLMTSAAGATISYSLYTTAAHSTVWGNTVGTDRQTGTGTGAPQNFTVFGRVPAQTTPAVGVYTDTVTAT
+>Q985D5_RHILO/27162
+ATGNMTVRITIQAECKVQTATDMDFGTNGVIDANVDQTSTISVQCTNSTPYNVGLSAGVGAGATVAVRKMTGPAAAVLNYSLYRDVARAQLWGTTIGTDTVAGTGNGAAQPLTVYGRVPPQTTPGAGVYTDTVAIT
+>A6X8A6_OCHA4/27162
+ATGNMNVRITIQAECKIVTATDLDFGTKGVIDVNVDQTSTISVQCTNGTPYTVGLSAGGGAGATVAMRKMTGAASATINYTIYRDAARTQVWGVTAGTDVVSGTGNGNAQSITAYGRVPAQTTPAPGVYSDVVSVT
+>A9CH19_AGRFC/182313
+TQVPFTVSAAVAPTCIISAQNINFGSHGVLNTAVDANGAINLTCTNGLNYSVALNGGLSNSPPAARQMVQGAASIIYGLYRDVSRTNVWGSAAGQIATGTGNGSLQTLTVFGRVPAQNTPAPGNYADTVVVT
+>Q985D8_RHILO/205338
+DRPTFTINAIVPANCLLAIQNIDFGSNGILGANVDATGGVSITCTPGTPYTVSLSNGTTGSAPTARKMSKGVETVTYGLYKDNARSQVWGDAAMPGSTVAGSGSGAAQNLTIYGRVPAQTTPSAGVYTDTVVVT
+>A7H7Q6_ANADF/25150
+ATAQFQVTATVVKKCKISATTIAFGNYDPATILSAEGTLTLKCTKGTLYSVALDGGSTGSRQMTQAAEVLDYELYSDAGHTAVWPSTAAAPSVAAAGADEALIIFAQVPADQYPAPGAYADTVTAT
+>Q2IFL0_ANADE/27162
+ATATLDVTATVVPSCTIAATPVAFGSYDPLVTNAATALDAQGTVTVTCTTGTAYTVGLGAGNSGSGSRAMQHASIAGAQLPYELYQEAARTTVWDSTVMQAGTAASITPVQYTVYGRIPAAQNVPTGNYADAVVAT
+>Q0C623_HYPNA/23151
+ANGTLDVQATVVNTCVVLTAPVVFASVGLDEVTANGSITVNCTNTSAFTVALDGGDSGDISARSLTHASLPASFNYQLYTDAGLTTVWGDGVTGSQANGSGPSQTLTVYGRTTSTPDTAGAYADEVQVT
+>Q63W78_BURPS/193326
+TFAFTASATVVNDCFINATNVAFGSTGVIQGALTATGTISAQCTNGDAFRIALNGGASGNVAARAMQRTGGGGAVNYQLYLDAAHSTIWGDGTAGTSTATGTGSGLSQSLTVYGQVPAQTTPAPGTYSDTITAT
+>Q8XVY3_RALSO/23163
+VLVALASWAPGALAVSCSVSANALSFGAYNTTSNLTGTTTVTITCGAWGGASSINYTLSASVGSGTYANRQVLNGSNVIAYNLYTTSADTSIWGDGNGDGTVTLSGTVTKQVGTVNLTIYGKINGGQNVVPGSYATTIPIT
+>Q8XPY9_RALSO/25163
+ASAQSCSVASASLNFGSISPVQAGNTDTSTTLTVSCSGFLLQGTVARACLNLGVGSGDTGISPRVLSAGANQLQYNLYADSARSVVWGGRTTPATPAIQVDVSLGLLGFGSATVTVYGRVPGGQTTVPAGAYTQSFSGT
+>A9CH19_AGRFC/11158
+IAAAFVASPVLAQSCTFSMSDMNFGFVNLAGGAAVDTTATLSVTCNNPLSLALSIRICPNINAGGGGQSGGIRRMLQGSNILNYQLYQTSARTTAWGSVTQPALGAPPPIDMALPLLINSTTRTVYGRINAGQASAARGLYLSSFAGG
+>Q985D8_RHILO/37183
+SAALLLPTVAWAQSCSFGVSAMNFGLVDTLSGSSSNSTATLSVNCTGLLLQRILVCPNLGTGSGGATASARQMLSGANDLNYQLYSDSARSVVWGSYAWPYPPTAPGFALTLNVLGSGSASQTIYGAILGGQATAVPSTYLSTFSGS
+>Q3A2W0_PELCD/10150
+IIVLLFAVDAYAFHCEVTTTPVSFGAYDVFSSFSLDTTGRISVSCNNPEKKRMPVTISISRGAANSFSPRQMRRIGGSDRMDYYLFVDASRTAVWGDGTGGSSTYVGMIDRTSPLNVPIYGRIPARQNLRAGSYQDILVVT
+>A7H7Q5_ANADF/16150
+APRAVDAAQPPSPGPSCSVSAGSVAFGAYDPLSPTHLDSTGTIGLTCAVRQLVTISLGTGQSGTFARELRGPGGAALRYDLYTDATRTQVWGDGTAGTATWPFETERGRYVPVYARVLAGQDVPAGPYSDTIVVT
+>Q2IFK8_ANADE/19157
+ATALSLVAPAAARAASCSLTMGTSIAFGAYDPLSPVPLTTTGMLQYRCSRGQPIRITFTAGSSGDVYARTLRQGPWTLAYNLYADAGFGTVWGDGTGGTAAAPAVTTLSNGLTVAYVFGRIPARQEPPVGPYSDTIVVT
+>Q1D5L1_MYXXD/13153
+AVAGVCGLLPGLAGAVCQIRSTIGVSFGTYLTTDLLPRDSAGSITYRCEGQITPITIDFSAGGSGTPLARSMAGPGAQRLEYNLYVDATRLIVWGNGTSGTGRYGPVVPLFGVEVTVPIFGRIPAGQAIPAGAYADTVVMT
+>Q60C08_METCA/20167
+LLACPKISDADPYQCDIGNISVPHAVYDPTDSNPNSSGVGTVGITCHLKNAKQTQQVQYTIALSRGSSGSYNPRRMSGGRGSLGYNLYLDAARVTIWGDGSGGTFPLRGTLLLNPTTPVQQVIHNIYGLIPPLQDVYAGTYTDTVTIT
+>Q0AAK6_ALKEH/8153
+SLFLVAAGSGSAQAYTCSISADPLAFGQYDPITGAQVDGASEVSVSCSLLGLVSLLVSYEISLDPGTGGSYHPRALSSATDTLDYNLYVDTARTEIWGDGTDDTATVTDSYTLGVLTVTRYYPVYGRVFADQNVAAGVYDDTITAT
+>Q12FX3_POLSJ/50194
+TWGVLLAAGTAHATISCSVSGNGFTSVYDPISTVPNDNVSSVTINCSRASGDPTTTTYSLASTNGLYPQGQNNRAYYPTNKYLKYDIYKDAAYSSRWGPGGSAPFTGTLNFGSGTSASLTLPYYNRVAAQQSAVAADYTDTMTAT
+>A1VIJ0_POLNA/19170
+ALFLLLATAGPAQAGSCTVGSSGLAFGAYQPLTFAGKLTSSAVTSNASISVVCTGIASGGAYSIALGPSTTGSGDRISTRYLGNSNGGDDMSFNIYTSASYSTVWGNGTTGGLVGGSIPVGDSNQSQPVYGRIAASQNTLRAGSYSGSLTMT
+
diff --git a/gene_sequences/newfile b/gene_sequences/newfile
new file mode 100644
index 0000000..d06aa1e
--- /dev/null
+++ b/gene_sequences/newfile
@@ -0,0 +1,101 @@
+>Q8XVY0_RALSO/26164
+TTTTFSVSTTVNATCVINSASALTFAAFDPSQGAQASTSSISVNCTNTTPFNIGLNAGTGTGATVASRVMTSGANTLTYSLYQDSGHASVWGNTVGTNTVAGTGAGMAAGNAITKTVYGLIPSQPNTVPGNYADTVTVT
+>Q0BSH7_GRABC/37169
+TTTTFQVTATVQASCIIQATNLSFGNYSGSQTDATSTIQVTCTNSTPYNVGLSAGTGSGATVSNRKMSLNSTSALPYALYSDASRSTNWGNTPNQDTVSGTGNGSAQSLTVYGRIQTGNYPTPGSYADTITAT
+>Q0AAK3_ALKEH/24160
+DTATFDVTATVDPTCTVDADNLVFGTYDPFSDTPLDENSEIRVQCTSDTPYDIGLDDGDNTGAEGERRMALADESDFLEYDLYHDNHGGTSWGDIDSGAELTGLSGTGSEQSYVVYGRIFAEQSVAVGNYVDTIEVT
+>Q8XPY6_RALSO/36170
+KTTTFTVSLTLQADCSISANALNFGTQGVLAANVDQTATLSVTCSNTAPYNVGFDAGTTTGSTIAARLLAGSGAATVGFQLYSDSARTQIWGNTVGTDTVSGTGSGTAQVLTVYGRVPSQNSPAAGTYSTTITAT
+>Q63W79_BURPS/31169
+ATATFTVSLTIQANCTISANALSFGTNGVLATAVNQQTTLSVTCSNTTSYNVGLDAGNVSGSTVSSRLLAGTTTGNTSTTVSFQLYQDSGHTTIWGNTVGTNTVSGTGNGTAQTLSVYGQVPAQTTPKPDTYESTVTAT>Q7CVQ4_AGRFC/27162
+ATTNFNVQITIQAACQINSAGNLDFGTNGVIGAPIDVTSQIVVQCTASTPFSLGLSAGAGSGATVANRLMTSAAGATISYSLYTTAAHSTVWGNTVGTDRQTGTGTGAPQNFTVFGRVPAQTTPAVGVYTDTVTAT
+>Q985D5_RHILO/27162
+ATGNMTVRITIQAECKVQTATDMDFGTNGVIDANVDQTSTISVQCTNSTPYNVGLSAGVGAGATVAVRKMTGPAAAVLNYSLYRDVARAQLWGTTIGTDTVAGTGNGAAQPLTVYGRVPPQTTPGAGVYTDTVAIT
+>A6X8A6_OCHA4/27162
+ATGNMNVRITIQAECKIVTATDLDFGTKGVIDVNVDQTSTISVQCTNGTPYTVGLSAGGGAGATVAMRKMTGAASATINYTIYRDAARTQVWGVTAGTDVVSGTGNGNAQSITAYGRVPAQTTPAPGVYSDVVSVT
+>A9CH19_AGRFC/182313
+TQVPFTVSAAVAPTCIISAQNINFGSHGVLNTAVDANGAINLTCTNGLNYSVALNGGLSNSPPAARQMVQGAASIIYGLYRDVSRTNVWGSAAGQIATGTGNGSLQTLTVFGRVPAQNTPAPGNYADTVVVT
+>Q985D8_RHILO/205338
+DRPTFTINAIVPANCLLAIQNIDFGSNGILGANVDATGGVSITCTPGTPYTVSLSNGTTGSAPTARKMSKGVETVTYGLYKDNARSQVWGDAAMPGSTVAGSGSGAAQNLTIYGRVPAQTTPSAGVYTDTVVVT
+>A7H7Q6_ANADF/25150
+ATAQFQVTATVVKKCKISATTIAFGNYDPATILSAEGTLTLKCTKGTLYSVALDGGSTGSRQMTQAAEVLDYELYSDAGHTAVWPSTAAAPSVAAAGADEALIIFAQVPADQYPAPGAYADTVTAT
+>Q2IFL0_ANADE/27162
+ATATLDVTATVVPSCTIAATPVAFGSYDPLVTNAATALDAQGTVTVTCTTGTAYTVGLGAGNSGSGSRAMQHASIAGAQLPYELYQEAARTTVWDSTVMQAGTAASITPVQYTVYGRIPAAQNVPTGNYADAVVAT
+>Q0C623_HYPNA/23151
+ANGTLDVQATVVNTCVVLTAPVVFASVGLDEVTANGSITVNCTNTSAFTVALDGGDSGDISARSLTHASLPASFNYQLYTDAGLTTVWGDGVTGSQANGSGPSQTLTVYGRTTSTPDTAGAYADEVQVT
+>Q63W78_BURPS/193326
+TFAFTASATVVNDCFINATNVAFGSTGVIQGALTATGTISAQCTNGDAFRIALNGGASGNVAARAMQRTGGGGAVNYQLYLDAAHSTIWGDGTAGTSTATGTGSGLSQSLTVYGQVPAQTTPAPGTYSDTITAT
+>Q8XVY3_RALSO/23163
+VLVALASWAPGALAVSCSVSANALSFGAYNTTSNLTGTTTVTITCGAWGGASSINYTLSASVGSGTYANRQVLNGSNVIAYNLYTTSADTSIWGDGNGDGTVTLSGTVTKQVGTVNLTIYGKINGGQNVVPGSYATTIPIT
+>Q8XPY9_RALSO/25163
+ASAQSCSVASASLNFGSISPVQAGNTDTSTTLTVSCSGFLLQGTVARACLNLGVGSGDTGISPRVLSAGANQLQYNLYADSARSVVWGGRTTPATPAIQVDVSLGLLGFGSATVTVYGRVPGGQTTVPAGAYTQSFSGT>A9CH19_AGRFC/11158
+IAAAFVASPVLAQSCTFSMSDMNFGFVNLAGGAAVDTTATLSVTCNNPLSLALSIRICPNINAGGGGQSGGIRRMLQGSNILNYQLYQTSARTTAWGSVTQPALGAPPPIDMALPLLINSTTRTVYGRINAGQASAARGLYLSSFAGG
+>Q985D8_RHILO/37183
+SAALLLPTVAWAQSCSFGVSAMNFGLVDTLSGSSSNSTATLSVNCTGLLLQRILVCPNLGTGSGGATASARQMLSGANDLNYQLYSDSARSVVWGSYAWPYPPTAPGFALTLNVLGSGSASQTIYGAILGGQATAVPSTYLSTFSGS
+>Q3A2W0_PELCD/10150
+IIVLLFAVDAYAFHCEVTTTPVSFGAYDVFSSFSLDTTGRISVSCNNPEKKRMPVTISISRGAANSFSPRQMRRIGGSDRMDYYLFVDASRTAVWGDGTGGSSTYVGMIDRTSPLNVPIYGRIPARQNLRAGSYQDILVVT>A7H7Q5_ANADF/16150
+APRAVDAAQPPSPGPSCSVSAGSVAFGAYDPLSPTHLDSTGTIGLTCAVRQLVTISLGTGQSGTFARELRGPGGAALRYDLYTDATRTQVWGDGTAGTATWPFETERGRYVPVYARVLAGQDVPAGPYSDTIVVT
+>Q2IFK8_ANADE/19157
+ATALSLVAPAAARAASCSLTMGTSIAFGAYDPLSPVPLTTTGMLQYRCSRGQPIRITFTAGSSGDVYARTLRQGPWTLAYNLYADAGFGTVWGDGTGGTAAAPAVTTLSNGLTVAYVFGRIPARQEPPVGPYSDTIVVT
+>Q1D5L1_MYXXD/13153
+AVAGVCGLLPGLAGAVCQIRSTIGVSFGTYLTTDLLPRDSAGSITYRCEGQITPITIDFSAGGSGTPLARSMAGPGAQRLEYNLYVDATRLIVWGNGTSGTGRYGPVVPLFGVEVTVPIFGRIPAGQAIPAGAYADTVVMT
+>Q60C08_METCA/20167
+LLACPKISDADPYQCDIGNISVPHAVYDPTDSNPNSSGVGTVGITCHLKNAKQTQQVQYTIALSRGSSGSYNPRRMSGGRGSLGYNLYLDAARVTIWGDGSGGTFPLRGTLLLNPTTPVQQVIHNIYGLIPPLQDVYAGTYTDTVTIT
+>Q0AAK6_ALKEH/8153
+SLFLVAAGSGSAQAYTCSISADPLAFGQYDPITGAQVDGASEVSVSCSLLGLVSLLVSYEISLDPGTGGSYHPRALSSATDTLDYNLYVDTARTEIWGDGTDDTATVTDSYTLGVLTVTRYYPVYGRVFADQNVAAGVYDDTITAT
+>Q12FX3_POLSJ/50194
+TWGVLLAAGTAHATISCSVSGNGFTSVYDPISTVPNDNVSSVTINCSRASGDPTTTTYSLASTNGLYPQGQNNRAYYPTNKYLKYDIYKDAAYSSRWGPGGSAPFTGTLNFGSGTSASLTLPYYNRVAAQQSAVAADYTDTMTAT
+>A1VIJ0_POLNA/19170
+ALFLLLATAGPAQAGSCTVGSSGLAFGAYQPLTFAGKLTSSAVTSNASISVVCTGIASGGAYSIALGPSTTGSGDRISTRYLGNSNGGDDMSFNIYTSASYSTVWGNGTTGGLVGGSIPVGDSNQSQPVYGRIAASQNTLRAGSYSGSLTMT
+>Q8XVY0_RALSO/26164
+TTTTFSVSTTVNATCVINSASALTFAAFDPSQGAQASTSSISVNCTNTTPFNIGLNAGTGTGATVASRVMTSGANTLTYSLYQDSGHASVWGNTVGTNTVAGTGAGMAAGNAITKTVYGLIPSQPNTVPGNYADTVTVT
+>Q0BSH7_GRABC/37169
+TTTTFQVTATVQASCIIQATNLSFGNYSGSQTDATSTIQVTCTNSTPYNVGLSAGTGSGATVSNRKMSLNSTSALPYALYSDASRSTNWGNTPNQDTVSGTGNGSAQSLTVYGRIQTGNYPTPGSYADTITAT
+>Q0AAK3_ALKEH/24160
+DTATFDVTATVDPTCTVDADNLVFGTYDPFSDTPLDENSEIRVQCTSDTPYDIGLDDGDNTGAEGERRMALADESDFLEYDLYHDNHGGTSWGDIDSGAELTGLSGTGSEQSYVVYGRIFAEQSVAVGNYVDTIEVT
+>Q8XPY6_RALSO/36170
+KTTTFTVSLTLQADCSISANALNFGTQGVLAANVDQTATLSVTCSNTAPYNVGFDAGTTTGSTIAARLLAGSGAATVGFQLYSDSARTQIWGNTVGTDTVSGTGSGTAQVLTVYGRVPSQNSPAAGTYSTTITAT
+>Q63W79_BURPS/31169
+ATATFTVSLTIQANCTISANALSFGTNGVLATAVNQQTTLSVTCSNTTSYNVGLDAGNVSGSTVSSRLLAGTTTGNTSTTVSFQLYQDSGHTTIWGNTVGTNTVSGTGNGTAQTLSVYGQVPAQTTPKPDTYESTVTAT
+>Q7CVQ4_AGRFC/27162
+ATTNFNVQITIQAACQINSAGNLDFGTNGVIGAPIDVTSQIVVQCTASTPFSLGLSAGAGSGATVANRLMTSAAGATISYSLYTTAAHSTVWGNTVGTDRQTGTGTGAPQNFTVFGRVPAQTTPAVGVYTDTVTAT
+>Q985D5_RHILO/27162
+ATGNMTVRITIQAECKVQTATDMDFGTNGVIDANVDQTSTISVQCTNSTPYNVGLSAGVGAGATVAVRKMTGPAAAVLNYSLYRDVARAQLWGTTIGTDTVAGTGNGAAQPLTVYGRVPPQTTPGAGVYTDTVAIT
+>A6X8A6_OCHA4/27162
+ATGNMNVRITIQAECKIVTATDLDFGTKGVIDVNVDQTSTISVQCTNGTPYTVGLSAGGGAGATVAMRKMTGAASATINYTIYRDAARTQVWGVTAGTDVVSGTGNGNAQSITAYGRVPAQTTPAPGVYSDVVSVT
+>A9CH19_AGRFC/182313
+TQVPFTVSAAVAPTCIISAQNINFGSHGVLNTAVDANGAINLTCTNGLNYSVALNGGLSNSPPAARQMVQGAASIIYGLYRDVSRTNVWGSAAGQIATGTGNGSLQTLTVFGRVPAQNTPAPGNYADTVVVT
+>Q985D8_RHILO/205338
+DRPTFTINAIVPANCLLAIQNIDFGSNGILGANVDATGGVSITCTPGTPYTVSLSNGTTGSAPTARKMSKGVETVTYGLYKDNARSQVWGDAAMPGSTVAGSGSGAAQNLTIYGRVPAQTTPSAGVYTDTVVVT
+>A7H7Q6_ANADF/25150
+ATAQFQVTATVVKKCKISATTIAFGNYDPATILSAEGTLTLKCTKGTLYSVALDGGSTGSRQMTQAAEVLDYELYSDAGHTAVWPSTAAAPSVAAAGADEALIIFAQVPADQYPAPGAYADTVTAT
+>Q2IFL0_ANADE/27162
+ATATLDVTATVVPSCTIAATPVAFGSYDPLVTNAATALDAQGTVTVTCTTGTAYTVGLGAGNSGSGSRAMQHASIAGAQLPYELYQEAARTTVWDSTVMQAGTAASITPVQYTVYGRIPAAQNVPTGNYADAVVAT
+>Q0C623_HYPNA/23151
+ANGTLDVQATVVNTCVVLTAPVVFASVGLDEVTANGSITVNCTNTSAFTVALDGGDSGDISARSLTHASLPASFNYQLYTDAGLTTVWGDGVTGSQANGSGPSQTLTVYGRTTSTPDTAGAYADEVQVT
+>Q63W78_BURPS/193326
+TFAFTASATVVNDCFINATNVAFGSTGVIQGALTATGTISAQCTNGDAFRIALNGGASGNVAARAMQRTGGGGAVNYQLYLDAAHSTIWGDGTAGTSTATGTGSGLSQSLTVYGQVPAQTTPAPGTYSDTITAT
+>Q8XVY3_RALSO/23163
+VLVALASWAPGALAVSCSVSANALSFGAYNTTSNLTGTTTVTITCGAWGGASSINYTLSASVGSGTYANRQVLNGSNVIAYNLYTTSADTSIWGDGNGDGTVTLSGTVTKQVGTVNLTIYGKINGGQNVVPGSYATTIPIT
+>Q8XPY9_RALSO/25163
+ASAQSCSVASASLNFGSISPVQAGNTDTSTTLTVSCSGFLLQGTVARACLNLGVGSGDTGISPRVLSAGANQLQYNLYADSARSVVWGGRTTPATPAIQVDVSLGLLGFGSATVTVYGRVPGGQTTVPAGAYTQSFSGT
+>A9CH19_AGRFC/11158
+IAAAFVASPVLAQSCTFSMSDMNFGFVNLAGGAAVDTTATLSVTCNNPLSLALSIRICPNINAGGGGQSGGIRRMLQGSNILNYQLYQTSARTTAWGSVTQPALGAPPPIDMALPLLINSTTRTVYGRINAGQASAARGLYLSSFAGG
+>Q985D8_RHILO/37183
+SAALLLPTVAWAQSCSFGVSAMNFGLVDTLSGSSSNSTATLSVNCTGLLLQRILVCPNLGTGSGGATASARQMLSGANDLNYQLYSDSARSVVWGSYAWPYPPTAPGFALTLNVLGSGSASQTIYGAILGGQATAVPSTYLSTFSGS
+>Q3A2W0_PELCD/10150
+IIVLLFAVDAYAFHCEVTTTPVSFGAYDVFSSFSLDTTGRISVSCNNPEKKRMPVTISISRGAANSFSPRQMRRIGGSDRMDYYLFVDASRTAVWGDGTGGSSTYVGMIDRTSPLNVPIYGRIPARQNLRAGSYQDILVVT
+>A7H7Q5_ANADF/16150
+APRAVDAAQPPSPGPSCSVSAGSVAFGAYDPLSPTHLDSTGTIGLTCAVRQLVTISLGTGQSGTFARELRGPGGAALRYDLYTDATRTQVWGDGTAGTATWPFETERGRYVPVYARVLAGQDVPAGPYSDTIVVT
+>Q2IFK8_ANADE/19157
+ATALSLVAPAAARAASCSLTMGTSIAFGAYDPLSPVPLTTTGMLQYRCSRGQPIRITFTAGSSGDVYARTLRQGPWTLAYNLYADAGFGTVWGDGTGGTAAAPAVTTLSNGLTVAYVFGRIPARQEPPVGPYSDTIVVT
+>Q1D5L1_MYXXD/13153
+AVAGVCGLLPGLAGAVCQIRSTIGVSFGTYLTTDLLPRDSAGSITYRCEGQITPITIDFSAGGSGTPLARSMAGPGAQRLEYNLYVDATRLIVWGNGTSGTGRYGPVVPLFGVEVTVPIFGRIPAGQAIPAGAYADTVVMT
+>Q60C08_METCA/20167
+LLACPKISDADPYQCDIGNISVPHAVYDPTDSNPNSSGVGTVGITCHLKNAKQTQQVQYTIALSRGSSGSYNPRRMSGGRGSLGYNLYLDAARVTIWGDGSGGTFPLRGTLLLNPTTPVQQVIHNIYGLIPPLQDVYAGTYTDTVTIT
+>Q0AAK6_ALKEH/8153
+SLFLVAAGSGSAQAYTCSISADPLAFGQYDPITGAQVDGASEVSVSCSLLGLVSLLVSYEISLDPGTGGSYHPRALSSATDTLDYNLYVDTARTEIWGDGTDDTATVTDSYTLGVLTVTRYYPVYGRVFADQNVAAGVYDDTITAT
+>Q12FX3_POLSJ/50194
+TWGVLLAAGTAHATISCSVSGNGFTSVYDPISTVPNDNVSSVTINCSRASGDPTTTTYSLASTNGLYPQGQNNRAYYPTNKYLKYDIYKDAAYSSRWGPGGSAPFTGTLNFGSGTSASLTLPYYNRVAAQQSAVAADYTDTMTAT
+>A1VIJ0_POLNA/19170
+ALFLLLATAGPAQAGSCTVGSSGLAFGAYQPLTFAGKLTSSAVTSNASISVVCTGIASGGAYSIALGPSTTGSGDRISTRYLGNSNGGDDMSFNIYTSASYSTVWGNGTTGGLVGGSIPVGDSNQSQPVYGRIAASQNTLRAGSYSGSLTMT
diff --git a/gene_sequences/spore.align b/gene_sequences/spore.align
new file mode 100644
index 0000000..9ef8b9d
--- /dev/null
+++ b/gene_sequences/spore.align
@@ -0,0 +1,208 @@
+>Q12FX3_POLSJ/50194
+TWGVLLAAGTAHATISCSV-SGNGFT-SVYDPIS------TVPNDNVSSVTINCS-R---
+-ASGDPTTTTYSLASTNGLYPQGQNNRAYYPTNKYLK--YDIYKDAAYSSRWGPG---GS
+APFTGTLNFGSGT-SASLTLP-YYNRVAA-QQSAVAADYTDTMTAT
+>Q12FX3_POLSJ/50194
+TWGVLLAAGTAHATISCSV-SGNGFT-SVYDPIS------TVPNDNVSSVTINCS-R---
+-ASGDPTTTTYSLASTNGLYPQGQNNRAYYPTNKYLK--YDIYKDAAYSSRWGPG---GS
+APFTGTLNFGSGT-SASLTLP-YYNRVAA-QQSAVAADYTDTMTAT
+>Q60C08_METCA/20167
+LLACPKIS--DADPYQCDI-GNISVPHAVYDPTDS-----NPNSSGVGTVGITCHLKNAK
+QTQQVQYTIALSRGSSGSYNP--RRMSG---GRGSLG--YNLYLDAARVTIWGDGSG-GT
+FPLRGTLLLNPTTPVQQVIHN-IYGLIPP-LQDVYAGTYTDTVTIT
+>Q60C08_METCA/20167
+LLACPKIS--DADPYQCDI-GNISVPHAVYDPTDS-----NPNSSGVGTVGITCHLKNAK
+QTQQVQYTIALSRGSSGSYNP--RRMSG---GRGSLG--YNLYLDAARVTIWGDGSG-GT
+FPLRGTLLLNPTTPVQQVIHN-IYGLIPP-LQDVYAGTYTDTVTIT
+>A9CH19_AGRFC/11158
+IAAAFVAS--PVLAQSCTF-SMSDMNFGFVNLAG------GAAVDTTATLSVTCN-NPLS
+LALSIRICPNINAGGGGQSGGIRRMLQ----GSNILN--YQLYQTSARTTAWGSVTQ-PA
+LGAPPPIDMALPLLINSTTRT-VYGRINAGQASAARGLYLSSFAGG
+>A9CH19_AGRFC/11158
+IAAAFVAS--PVLAQSCTF-SMSDMNFGFVNLAG------GAAVDTTATLSVTCN-NPLS
+LALSIRICPNINAGGGGQSGGIRRMLQ----GSNILN--YQLYQTSARTTAWGSVTQ-PA
+LGAPPPIDMALPLLINSTTRT-VYGRINAGQASAARGLYLSSFAGG
+>Q985D8_RHILO/37183
+SAALLLPT--VAWAQSCSF-GVSAMNFGLVDTLS------GSSSNSTATLSVNCT-GLLL
+QR--ILVCPNLGTGSGGATASARQMLS----GANDLN--YQLYSDSARSVVWGSYAWPYP
+PTAPGFALTLNVLGSGSASQT-IYGAILGGQATAVPSTYLSTFSGS
+>Q985D8_RHILO/37183
+SAALLLPT--VAWAQSCSF-GVSAMNFGLVDTLS------GSSSNSTATLSVNCT-GLLL
+QR--ILVCPNLGTGSGGATASARQMLS----GANDLN--YQLYSDSARSVVWGSYAWPYP
+PTAPGFALTLNVLGSGSASQT-IYGAILGGQATAVPSTYLSTFSGS
+>Q8XPY9_RALSO/25163
+-----------ASAQSCSV-ASASLNFGSISPVQ------AGNTDTSTTLTVSCS-GFLL
+QG--TVARACLNLGVGSGDTGISPRVLSA--GANQLQ--YNLYADSARSVVWGGRTTPAT
+PAIQVDVSLGLLGFGSA-TVT-VYGRVPGGQTTVPAGAYTQSFSGT
+>Q8XPY9_RALSO/25163
+-----------ASAQSCSV-ASASLNFGSISPVQ------AGNTDTSTTLTVSCS-GFLL
+QG--TVARACLNLGVGSGDTGISPRVLSA--GANQLQ--YNLYADSARSVVWGGRTTPAT
+PAIQVDVSLGLLGFGSA-TVT-VYGRVPGGQTTVPAGAYTQSFSGT
+>Q8XVY3_RALSO/23163
+VLVALASWAPGALAVSCSV-SANALSFGAYNT--------TSNLTGTTTVTITCG-A---
+WGGASSINYTLSASVGSGTYANRQVLN----GSNVIA--YNLYTTSADTSIWGDGNGDGT
+VTLSGTVTKQ----VGTVNLT-IYGKING-GQNVVPGSYATTIPIT
+>Q8XVY3_RALSO/23163
+VLVALASWAPGALAVSCSV-SANALSFGAYNT--------TSNLTGTTTVTITCG-A---
+WGGASSINYTLSASVGSGTYANRQVLN----GSNVIA--YNLYTTSADTSIWGDGNGDGT
+VTLSGTVTKQ----VGTVNLT-IYGKING-GQNVVPGSYATTIPIT
+>A1VIJ0_POLNA/19170
+ALFLLLATAGPAQAGSCTV-GSSGLAFGAYQPLTFAGKLTSSAVTSNASISVVCT-GIAS
+GG---AYSIALGPSTTGSGDRISTRYLGNSNGGDDMS--FNIYTSASYSTVWGNGTT--G
+GLVGGSIPVG----DSNQSQP-VYGRIAASQNTLRAGSYSGSLTMT
+>A1VIJ0_POLNA/19170
+ALFLLLATAGPAQAGSCTV-GSSGLAFGAYQPLTFAGKLTSSAVTSNASISVVCT-GIAS
+GG---AYSIALGPSTTGSGDRISTRYLGNSNGGDDMS--FNIYTSASYSTVWGNGTT--G
+GLVGGSIPVG----DSNQSQP-VYGRIAASQNTLRAGSYSGSLTMT
+>Q0AAK6_ALKEH/8153
+SLFLVAAGSGSAQAYTCSI-SADPLAFGQYDPIT------GAQVDGASEVSVSCS-LLGL
+VSLLVSYEISLDPGTGGSYHPRALSS-----ATDTLD--YNLYVDTARTEIWGDGTD-DT
+ATVTDSYTLGVL--TVTRYYP-VYGRVFA-DQNVAAGVYDDTITAT
+>Q0AAK6_ALKEH/8153
+SLFLVAAGSGSAQAYTCSI-SADPLAFGQYDPIT------GAQVDGASEVSVSCS-LLGL
+VSLLVSYEISLDPGTGGSYHPRALSS-----ATDTLD--YNLYVDTARTEIWGDGTD-DT
+ATVTDSYTLGVL--TVTRYYP-VYGRVFA-DQNVAAGVYDDTITAT
+>Q1D5L1_MYXXD/13153
+AVAGVCGLLPGLAGAVCQIRSTIGVSFGTYLTTD------LLPRDSAGSITYRCE-G---
+QI--TPITIDFSAGGSG--TPLARSMAGP--GAQRLE--YNLYVDATRLIVWGNGTS-GT
+GRYGPVVPLF----GVEVTVP-IFGRIPA-GQAIPAGAYADTVVMT
+>Q1D5L1_MYXXD/13153
+AVAGVCGLLPGLAGAVCQIRSTIGVSFGTYLTTD------LLPRDSAGSITYRCE-G---
+QI--TPITIDFSAGGSG--TPLARSMAGP--GAQRLE--YNLYVDATRLIVWGNGTS-GT
+GRYGPVVPLF----GVEVTVP-IFGRIPA-GQAIPAGAYADTVVMT
+>Q3A2W0_PELCD/10150
+IIVLLFAV--DAYAFHCEV-TTTPVSFGAYDVFS------SFSLDTTGRISVSCN-NPEK
+KR--MPVTISISRGAANSFSPRQMRRIG---GSDRMD--YYLFVDASRTAVWGDGTG-GS
+STYVGMIDR-----TSPLNVP-IYGRIPA-RQNLRAGSYQDILVVT
+>Q3A2W0_PELCD/10150
+IIVLLFAV--DAYAFHCEV-TTTPVSFGAYDVFS------SFSLDTTGRISVSCN-NPEK
+KR--MPVTISISRGAANSFSPRQMRRIG---GSDRMD--YYLFVDASRTAVWGDGTG-GS
+STYVGMIDR-----TSPLNVP-IYGRIPA-RQNLRAGSYQDILVVT
+>Q0C623_HYPNA/23151
+ANGTLDVQ--ATVVNTCVV-LTAPVVFASVG---------LDEVTANGSITVNCT-N---
+-T--SAFTVALDGGDSGDISARSLTHAS---LPASFN--YQLYTDAGLTTVWGDGVT-GS
+QANGS---------GPSQTLT-VYGRTTS-TPDTA-GAYADEVQVT
+>Q0C623_HYPNA/23151
+ANGTLDVQ--ATVVNTCVV-LTAPVVFASVG---------LDEVTANGSITVNCT-N---
+-T--SAFTVALDGGDSGDISARSLTHAS---LPASFN--YQLYTDAGLTTVWGDGVT-GS
+QANGS---------GPSQTLT-VYGRTTS-TPDTA-GAYADEVQVT
+>A7H7Q5_ANADF/16150
+APRAVDAAQPPSPGPSCSV-SAGSVAFGAYDPLS------PTHLDSTGTIGLTCA-V---
+-R--QLVTISLGTGQSG---TFARELRGP--GGAALR--YDLYTDATRTQVWGDGTA-GT
+ATWPFET-------ERGRYVP-VYARVLA-GQDVPAGPYSDTIVVT
+>A7H7Q5_ANADF/16150
+APRAVDAAQPPSPGPSCSV-SAGSVAFGAYDPLS------PTHLDSTGTIGLTCA-V---
+-R--QLVTISLGTGQSG---TFARELRGP--GGAALR--YDLYTDATRTQVWGDGTA-GT
+ATWPFET-------ERGRYVP-VYARVLA-GQDVPAGPYSDTIVVT
+>Q2IFK8_ANADE/19157
+ATALSLVAPAAARAASCSLTMGTSIAFGAYDPLS------PVPLTTTGMLQYRCS-R---
+-G--QPIRITFTAGSSGDVYARTLRQ-----GPWTLA--YNLYADAGFGTVWGDGTG-GT
+AAAPAVTTL-----SNGLTVAYVFGRIPA-RQEPPVGPYSDTIVVT
+>Q2IFK8_ANADE/19157
+ATALSLVAPAAARAASCSLTMGTSIAFGAYDPLS------PVPLTTTGMLQYRCS-R---
+-G--QPIRITFTAGSSGDVYARTLRQ-----GPWTLA--YNLYADAGFGTVWGDGTG-GT
+AAAPAVTTL-----SNGLTVAYVFGRIPA-RQEPPVGPYSDTIVVT
+>Q0AAK3_ALKEH/24160
+DTATFDVT--ATVDPTCTV-DADNLVFGTYDPFS------DTPLDENSEIRVQCT-S---
+-D--TPYDIGLDDGDNTGAEGERRMALAD--ESDFLE--YDLYHDNHGGTSWGDIDS-GA
+ELTGLSGT------GSEQSYV-VYGRIFA-EQSVAVGNYVDTIEVT
+>Q0AAK3_ALKEH/24160
+DTATFDVT--ATVDPTCTV-DADNLVFGTYDPFS------DTPLDENSEIRVQCT-S---
+-D--TPYDIGLDDGDNTGAEGERRMALAD--ESDFLE--YDLYHDNHGGTSWGDIDS-GA
+ELTGLSGT------GSEQSYV-VYGRIFA-EQSVAVGNYVDTIEVT
+>A7H7Q6_ANADF/25150
+ATAQFQVT--ATVVKKCKI-SATTIAFGNYDP--------ATILSAEGTLTLKCT-K---
+-G--TLYSVALDGGSTG-----SRQMTQ---AAEVLD--YELYSDAGHTAVWPSTAA-AP
+SVAAA---------GADEALI-IFAQVPA-DQYPAPGAYADTVTAT
+>A7H7Q6_ANADF/25150
+ATAQFQVT--ATVVKKCKI-SATTIAFGNYDP--------ATILSAEGTLTLKCT-K---
+-G--TLYSVALDGGSTG-----SRQMTQ---AAEVLD--YELYSDAGHTAVWPSTAA-AP
+SVAAA---------GADEALI-IFAQVPA-DQYPAPGAYADTVTAT
+>Q2IFL0_ANADE/27162
+ATATLDVT--ATVVPSCTI-AATPVAFGSYDPLVTN---AATALDAQGTVTVTCT-T---
+-G--TAYTVGLGAGNSGSGSRAMQHASI---AGAQLP--YELYQEAARTTVWDSTVM-QA
+GTAAS---------ITPVQYT-VYGRIPA-AQNVPTGNYADAVVAT
+>Q2IFL0_ANADE/27162
+ATATLDVT--ATVVPSCTI-AATPVAFGSYDPLVTN---AATALDAQGTVTVTCT-T---
+-G--TAYTVGLGAGNSGSGSRAMQHASI---AGAQLP--YELYQEAARTTVWDSTVM-QA
+GTAAS---------ITPVQYT-VYGRIPA-AQNVPTGNYADAVVAT
+>Q985D8_RHILO/205338
+DRPTFTIN--AIVPANCLL-AIQNIDFGSNGIL-------GANVDATGGVSITCT-P---
+-G--TPYTVSLSNGT-TGSAPTARKMSK---GVETVT--YGLYKDNARSQVWGDAAM-PG
+STVAGSGS------GAAQNLT-IYGRVPA-QTTPSAGVYTDTVVVT
+>Q985D8_RHILO/205338
+DRPTFTIN--AIVPANCLL-AIQNIDFGSNGIL-------GANVDATGGVSITCT-P---
+-G--TPYTVSLSNGT-TGSAPTARKMSK---GVETVT--YGLYKDNARSQVWGDAAM-PG
+STVAGSGS------GAAQNLT-IYGRVPA-QTTPSAGVYTDTVVVT
+>Q8XVY0_RALSO/26164
+TTTTFSVS--TTVNATCVINSASALTFAAFDPS-------QGAQASTSSISVNCT-N---
+-T--TPFNIGLNAGTGTGATVASRVMTS---GANTLT--YSLYQDSGHASVWGN-TV-GT
+NTVAGTGAGMAA--GNAITKT-VYGLIPS-QPNTVPGNYADTVTVT
+>Q8XVY0_RALSO/26164
+TTTTFSVS--TTVNATCVINSASALTFAAFDPS-------QGAQASTSSISVNCT-N---
+-T--TPFNIGLNAGTGTGATVASRVMTS---GANTLT--YSLYQDSGHASVWGN-TV-GT
+NTVAGTGAGMAA--GNAITKT-VYGLIPS-QPNTVPGNYADTVTVT
+>Q0BSH7_GRABC/37169
+TTTTFQVT--ATVQASCII-QATNLSFGNYS---------GSQTDATSTIQVTCT-N---
+-S--TPYNVGLSAGTGSGATVSNRKMSLN--STSALP--YALYSDASRSTNWGN-TP-NQ
+DTVSGTGN------GSAQSLT-VYGRIQT-GNYPTPGSYADTITAT
+>Q0BSH7_GRABC/37169
+TTTTFQVT--ATVQASCII-QATNLSFGNYS---------GSQTDATSTIQVTCT-N---
+-S--TPYNVGLSAGTGSGATVSNRKMSLN--STSALP--YALYSDASRSTNWGN-TP-NQ
+DTVSGTGN------GSAQSLT-VYGRIQT-GNYPTPGSYADTITAT
+>Q8XPY6_RALSO/36170
+KTTTFTVS--LTLQADCSI-SANALNFGTQGVL-------AANVDQTATLSVTCS-N---
+-T--APYNVGFDAGTTTGSTIAARLLAGS--GAATVG--FQLYSDSARTQIWGN-TV-GT
+DTVSGTGS------GTAQVLT-VYGRVPS-QNSPAAGTYSTTITAT
+>Q8XPY6_RALSO/36170
+KTTTFTVS--LTLQADCSI-SANALNFGTQGVL-------AANVDQTATLSVTCS-N---
+-T--APYNVGFDAGTTTGSTIAARLLAGS--GAATVG--FQLYSDSARTQIWGN-TV-GT
+DTVSGTGS------GTAQVLT-VYGRVPS-QNSPAAGTYSTTITAT
+>Q63W79_BURPS/31169
+ATATFTVS--LTIQANCTI-SANALSFGTNGVL-------ATAVNQQTTLSVTCS-N---
+-T--TSYNVGLDAGNVSGSTVSSRLLAGTTTGNTSTTVSFQLYQDSGHTTIWGN-TV-GT
+NTVSGTGN------GTAQTLS-VYGQVPA-QTTPKPDTYESTVTAT
+>Q63W79_BURPS/31169
+ATATFTVS--LTIQANCTI-SANALSFGTNGVL-------ATAVNQQTTLSVTCS-N---
+-T--TSYNVGLDAGNVSGSTVSSRLLAGTTTGNTSTTVSFQLYQDSGHTTIWGN-TV-GT
+NTVSGTGN------GTAQTLS-VYGQVPA-QTTPKPDTYESTVTAT
+>Q7CVQ4_AGRFC/27162
+ATTNFNVQ--ITIQAACQINSAGNLDFGTNGVI-------GAPIDVTSQIVVQCT-A---
+-S--TPFSLGLSAGAGSGATVANRLMTSA--AGATIS--YSLYTTAAHSTVWGN-TV-GT
+DRQTGTGT------GAPQNFT-VFGRVPA-QTTPAVGVYTDTVTAT
+>Q7CVQ4_AGRFC/27162
+ATTNFNVQ--ITIQAACQINSAGNLDFGTNGVI-------GAPIDVTSQIVVQCT-A---
+-S--TPFSLGLSAGAGSGATVANRLMTSA--AGATIS--YSLYTTAAHSTVWGN-TV-GT
+DRQTGTGT------GAPQNFT-VFGRVPA-QTTPAVGVYTDTVTAT
+>Q985D5_RHILO/27162
+ATGNMTVR--ITIQAECKVQTATDMDFGTNGVI-------DANVDQTSTISVQCT-N---
+-S--TPYNVGLSAGVGAGATVAVRKMTGP--AAAVLN--YSLYRDVARAQLWGT-TI-GT
+DTVAGTGN------GAAQPLT-VYGRVPP-QTTPGAGVYTDTVAIT
+>Q985D5_RHILO/27162
+ATGNMTVR--ITIQAECKVQTATDMDFGTNGVI-------DANVDQTSTISVQCT-N---
+-S--TPYNVGLSAGVGAGATVAVRKMTGP--AAAVLN--YSLYRDVARAQLWGT-TI-GT
+DTVAGTGN------GAAQPLT-VYGRVPP-QTTPGAGVYTDTVAIT
+>A6X8A6_OCHA4/27162
+ATGNMNVR--ITIQAECKIVTATDLDFGTKGVI-------DVNVDQTSTISVQCT-N---
+-G--TPYTVGLSAGGGAGATVAMRKMTGA--ASATIN--YTIYRDAARTQVWGV-TA-GT
+DVVSGTGN------GNAQSIT-AYGRVPA-QTTPAPGVYSDVVSVT
+>A6X8A6_OCHA4/27162
+ATGNMNVR--ITIQAECKIVTATDLDFGTKGVI-------DVNVDQTSTISVQCT-N---
+-G--TPYTVGLSAGGGAGATVAMRKMTGA--ASATIN--YTIYRDAARTQVWGV-TA-GT
+DVVSGTGN------GNAQSIT-AYGRVPA-QTTPAPGVYSDVVSVT
+>A9CH19_AGRFC/182313
+TQVPFTVS--AAVAPTCII-SAQNINFGSHGVL-------NTAVDANGAINLTCT-N---
+-G--LNYSVALNGGLSNS-PPAARQMVQ---GAASII--YGLYRDVSRTNVWGSAAG---
+QIATGTGN------GSLQTLT-VFGRVPA-QNTPAPGNYADTVVVT
+>A9CH19_AGRFC/182313
+TQVPFTVS--AAVAPTCII-SAQNINFGSHGVL-------NTAVDANGAINLTCT-N---
+-G--LNYSVALNGGLSNS-PPAARQMVQ---GAASII--YGLYRDVSRTNVWGSAAG---
+QIATGTGN------GSLQTLT-VFGRVPA-QNTPAPGNYADTVVVT
+>Q63W78_BURPS/193326
+-TFAFTAS--ATVVNDCFI-NATNVAFGSTGVI-------QGALTATGTISAQCT-N---
+-G--DAFRIALNGGASGNVAARAMQRTG---GGGAVN--YQLYLDAAHSTIWGDGTA-GT
+STATGTGS------GLSQSLT-VYGQVPA-QTTPAPGTYSDTITAT
+>Q63W78_BURPS/193326
+-TFAFTAS--ATVVNDCFI-NATNVAFGSTGVI-------QGALTATGTISAQCT-N---
+-G--DAFRIALNGGASGNVAARAMQRTG---GGGAVN--YQLYLDAAHSTIWGDGTA-GT
+STATGTGS------GLSQSLT-VYGQVPA-QTTPAPGTYSDTITAT
diff --git a/gene_sequences/spore_all.fasta b/gene_sequences/spore_all.fasta
new file mode 100644
index 0000000..5433a24
--- /dev/null
+++ b/gene_sequences/spore_all.fasta
@@ -0,0 +1,158 @@
+>Q12FX3_POLSJ/50194
+TWGVLLAAGTAHATISCSV-SGNGFT-SVYDPIS------TVPNDNVSSVTINCS-R---
+-ASGDPTTTTYSLASTNGLYPQGQNNRAY--YPTNKYLKYDIYKDAAYSSRWG--PGGSA
+PFTG--TLNFGS-GTSASLTLPYYNRVAA-QQSAVAADYTDTMTAT
+>Q60C08_METCA/20167
+LLACPKIS--DADPYQCDI-GNISVPHAVYDPTDS-----NPNSSGVGTVGITCHLKNAK
+QTQQVQYTIALSRGSSGSYNP--RRMSG-----GRGSLGYNLYLDAARVTIWGDGSGGTF
+PLRGTLLLNPTTPVQQVIHN-IY-GLIPP-LQDVYAGTYTDTVTIT
+>A9CH19_AGRFC/11158
+IAAAFVAS--PVLAQSCTF-SMSDMNFGFVNLAG------GAAVDTTATLSVTCN-NPLS
+LA--LSIRICPNINAGGGGQSGGIRRMLQ----GSNILNYQLYQTSARTTAWGSVTQPAL
+GAPPPIDMALPLLINSTTRT-VY-GRINAGQASAARGLYLSSFAGG
+>Q985D8_RHILO/37183
+SAALLLPT--VAWAQSCSF-GVSAMNFGLVDTLS------GSSSNSTATLSVNCT-G---
+-LLLQRILVCPNLGTGSGGATASARQMLS----GANDLNYQLYSDSARSVVWGSYAWPYP
+PTAPGFALTLNVLGSGSASQTIY-GAILGGQATAVPSTYLSTFSGS
+>Q8XPY9_RALSO/25163
+-----------ASAQSCSV-ASASLNFGSISPVQ------AGNTDTSTTLTVSCS-GFLL
+QG--TVARACLNLGVGSGDTGISPRVLSA----GANQLQYNLYADSARSVVWGGRTTPAT
+PAIQ-VDVSLGLLGFGSATVTVY-GRVPGGQTTVPAGAYTQSFSGT
+>Q8XVY3_RALSO/23163
+VLVALASWAPGALAVSCSV-SANALSFGAYNT--------TSNLTGTTTVTITCG-A---
+WGGASSINYTLSASVGSGTYANRQVLN------GSNVIAYNLYTTSADTSIWGD-GNGDG
+TVTL--SGTVTKQVGTVNLT-IY-GKING-GQNVVPGSYATTIPIT
+>A1VIJ0_POLNA/19170
+ALFLLLATAGPAQAGSCTV-GSSGLAFGAYQPLTFAGKLTSSAVTSNASISVVCT-GIAS
+GG---AYSIALGPSTTGSGDRISTRYLGN--SNGGDDMSFNIYTSASYSTVWGNGTTG-G
+LVGG--SIPVG--DSNQSQP-VY-GRIAASQNTLRAGSYSGSLTMT
+>Q0AAK6_ALKEH/8153
+SLFLVAAGSGSAQAYTCSI-SADPLAFGQYDPIT------GAQVDGASEVSVSCS-LLGL
+VSLLVSYEISLDPGTGGSYHPRALSS-------ATDTLDYNLYVDTARTEIWGDGTDDTA
+TVTD--SYTLGVLTVTRYYP-VY-GRVFA-DQNVAAGVYDDTITAT
+>Q1D5L1_MYXXD/13153
+AVAGVCGLLPGLAGAVCQIRSTIGVSFGTYLTTD------LLPRDSAGSITYRCE-G---
+QI--TPITIDFSAGGSG--TPLARSMAGP----GAQRLEYNLYVDATRLIVWGNGTSGTG
+RYGP--VVPLF--GVEVTVP-IF-GRIPA-GQAIPAGAYADTVVMT
+>Q3A2W0_PELCD/10150
+IIVLLFAV--DAYAFHCEV-TTTPVSFGAYDVFS------SFSLDTTGRISVSCN-NPEK
+KR--MPVTISISRGAANSFSPRQMRRIG-----GSDRMDYYLFVDASRTAVWGDGTGGSS
+TYVG--MIDR---TSPLNVP-IY-GRIPA-RQNLRAGSYQDILVVT
+>Q0C623_HYPNA/23151
+ANGTLDVQ--ATVVNTCVV-LTAPVVFASVG---------LDEVTANGSITVNCT-N---
+-T--SAFTVALDGGDSGDISARSLTHAS-----LPASFNYQLYTDAGLTTVWGDGVTGSQ
+ANGS---------GPSQTLT-VY-GRTTS--TPDTAGAYADEVQVT
+>A7H7Q5_ANADF/16150
+APRAVDAAQPPSPGPSCSV-SAGSVAFGAYDPLS------PTHLDSTGTIGLTCA-V---
+-R--QLVTISLGTGQSG---TFARELRGP----GGAALRYDLYTDATRTQVWGDGTAGTA
+TWPF--ET-----ERGRYVP-VY-ARVLA-GQDVPAGPYSDTIVVT
+>Q2IFK8_ANADE/19157
+ATALSLVAPAAARAASCSLTMGTSIAFGAYDPLS------PVPLTTTGMLQYRCS-R---
+-G--QPIRITFTAGSSGDVYARTLRQ-------GPWTLAYNLYADAGFGTVWGDGTGGTA
+AAPA--VTTL---SNGLTVAYVF-GRIPA-RQEPPVGPYSDTIVVT
+>Q0AAK3_ALKEH/24160
+DTATFDVT--ATVDPTCTV-DADNLVFGTYDPFS------DTPLDENSEIRVQCT-S---
+-D--TPYDIGLDDGDNTGAEGERRMALAD----ESDFLEYDLYHDNHGGTSWGDIDSGAE
+LTGL--SGT----GSEQSYV-VY-GRIFA-EQSVAVGNYVDTIEVT
+>A7H7Q6_ANADF/25150
+ATAQFQVT--ATVVKKCKI-SATTIAFGNYDP--------ATILSAEGTLTLKCT-K---
+-G--TLYSVALDGGSTGS-----RQMTQ-----AAEVLDYELYSDAGHTAVWPSTAAAPS
+VAAA---------GADEALI-IF-AQVPA-DQYPAPGAYADTVTAT
+>Q2IFL0_ANADE/27162
+ATATLDVT--ATVVPSCTI-AATPVAFGSYDPLVTN---AATALDAQGTVTVTCT-T---
+-G--TAYTVGLGAGNSGSGSRAMQHASI-----AGAQLPYELYQEAARTTVWDSTVMQAG
+TAAS---------ITPVQYT-VY-GRIPA-AQNVPTGNYADAVVAT
+>Q985D8_RHILO/205338
+DRPTFTIN--AIVPANCLL-AIQNIDFGSNGIL-------GANVDATGGVSITCT-P---
+-G--TPYTVSLSNGT-TGSAPTARKMSK-----GVETVTYGLYKDNARSQVWGDAAMPGS
+TVAG--SGS----GAAQNLT-IY-GRVPA-QTTPSAGVYTDTVVVT
+>Q8XVY0_RALSO/26164
+TTTTFSVS--TTVNATCVINSASALTFAAFDPS-------QGAQASTSSISVNCT-N---
+-T--TPFNIGLNAGTGTGATVASRVMTS-----GANTLTYSLYQDSGHASVWGN-TVGTN
+TVAG--TGAGMAAGNAITKT-VY-GLIPS-QPNTVPGNYADTVTVT
+>Q0BSH7_GRABC/37169
+TTTTFQVT--ATVQASCII-QATNLSFGNYS---------GSQTDATSTIQVTCT-N---
+-S--TPYNVGLSAGTGSGATVSNRKMSLN----STSALPYALYSDASRSTNWGN-TPNQD
+TVSG--TGN----GSAQSLT-VY-GRIQT-GNYPTPGSYADTITAT
+>Q8XPY6_RALSO/36170
+KTTTFTVS--LTLQADCSI-SANALNFGTQGVL-------AANVDQTATLSVTCS-N---
+-T--APYNVGFDAGTTTGSTIAARLLAGS----GAATVGFQLYSDSARTQIWGN-TVGTD
+TVSG--TGS----GTAQVLT-VY-GRVPS-QNSPAAGTYSTTITAT
+>Q63W79_BURPS/31169
+ATATFTVS--LTIQANCTI-SANALSFGTNGVL-------ATAVNQQTTLSVTCS-N---
+-T--TSYNVGLDAGNVSGSTVSSRLLAGTTTGNTSTTVSFQLYQDSGHTTIWGN-TVGTN
+TVSG--TGN----GTAQTLS-VY-GQVPA-QTTPKPDTYESTVTAT
+>Q7CVQ4_AGRFC/27162
+ATTNFNVQ--ITIQAACQINSAGNLDFGTNGVI-------GAPIDVTSQIVVQCT-A---
+-S--TPFSLGLSAGAGSGATVANRLMTSA----AGATISYSLYTTAAHSTVWGN-TVGTD
+RQTG--TGT----GAPQNFT-VF-GRVPA-QTTPAVGVYTDTVTAT
+>Q985D5_RHILO/27162
+ATGNMTVR--ITIQAECKVQTATDMDFGTNGVI-------DANVDQTSTISVQCT-N---
+-S--TPYNVGLSAGVGAGATVAVRKMTGP----AAAVLNYSLYRDVARAQLWGT-TIGTD
+TVAG--TGN----GAAQPLT-VY-GRVPP-QTTPGAGVYTDTVAIT
+>A6X8A6_OCHA4/27162
+ATGNMNVR--ITIQAECKIVTATDLDFGTKGVI-------DVNVDQTSTISVQCT-N---
+-G--TPYTVGLSAGGGAGATVAMRKMTGA----ASATINYTIYRDAARTQVWGV-TAGTD
+VVSG--TGN----GNAQSIT-AY-GRVPA-QTTPAPGVYSDVVSVT
+>A9CH19_AGRFC/182313
+TQVPFTVS--AAVAPTCII-SAQNINFGSHGVL-------NTAVDANGAINLTCT-N---
+-G--LNYSVALNGGLSNS-PPAARQMVQ-----GAASIIYGLYRDVSRTNVWG--SAAGQ
+IATG--TGN----GSLQTLT-VF-GRVPA-QNTPAPGNYADTVVVT
+>Q63W78_BURPS/193326
+-TFAFTAS--ATVVNDCFI-NATNVAFGSTGVI-------QGALTATGTISAQCT-N---
+-G--DAFRIALNGGASGNVAARAMQRTG-----GGGAVNYQLYLDAAHSTIWGDGTAGTS
+TATG--TGS----GLSQSLT-VY-GQVPA-QTTPAPGTYSDTITAT
+
+>Q8XVY0_RALSO/26164
+TTTTFSVSTTVNATCVINSASALTFAAFDPSQGAQASTSSISVNCTNTTPFNIGLNAGTGTGATVASRVMTSGANTLTYSLYQDSGHASVWGNTVGTNTVAGTGAGMAAGNAITKTVYGLIPSQPNTVPGNYADTVTVT
+>Q0BSH7_GRABC/37169
+TTTTFQVTATVQASCIIQATNLSFGNYSGSQTDATSTIQVTCTNSTPYNVGLSAGTGSGATVSNRKMSLNSTSALPYALYSDASRSTNWGNTPNQDTVSGTGNGSAQSLTVYGRIQTGNYPTPGSYADTITAT
+>Q0AAK3_ALKEH/24160
+DTATFDVTATVDPTCTVDADNLVFGTYDPFSDTPLDENSEIRVQCTSDTPYDIGLDDGDNTGAEGERRMALADESDFLEYDLYHDNHGGTSWGDIDSGAELTGLSGTGSEQSYVVYGRIFAEQSVAVGNYVDTIEVT
+>Q8XPY6_RALSO/36170
+KTTTFTVSLTLQADCSISANALNFGTQGVLAANVDQTATLSVTCSNTAPYNVGFDAGTTTGSTIAARLLAGSGAATVGFQLYSDSARTQIWGNTVGTDTVSGTGSGTAQVLTVYGRVPSQNSPAAGTYSTTITAT
+>Q63W79_BURPS/31169
+ATATFTVSLTIQANCTISANALSFGTNGVLATAVNQQTTLSVTCSNTTSYNVGLDAGNVSGSTVSSRLLAGTTTGNTSTTVSFQLYQDSGHTTIWGNTVGTNTVSGTGNGTAQTLSVYGQVPAQTTPKPDTYESTVTAT
+>Q7CVQ4_AGRFC/27162
+ATTNFNVQITIQAACQINSAGNLDFGTNGVIGAPIDVTSQIVVQCTASTPFSLGLSAGAGSGATVANRLMTSAAGATISYSLYTTAAHSTVWGNTVGTDRQTGTGTGAPQNFTVFGRVPAQTTPAVGVYTDTVTAT
+>Q985D5_RHILO/27162
+ATGNMTVRITIQAECKVQTATDMDFGTNGVIDANVDQTSTISVQCTNSTPYNVGLSAGVGAGATVAVRKMTGPAAAVLNYSLYRDVARAQLWGTTIGTDTVAGTGNGAAQPLTVYGRVPPQTTPGAGVYTDTVAIT
+>A6X8A6_OCHA4/27162
+ATGNMNVRITIQAECKIVTATDLDFGTKGVIDVNVDQTSTISVQCTNGTPYTVGLSAGGGAGATVAMRKMTGAASATINYTIYRDAARTQVWGVTAGTDVVSGTGNGNAQSITAYGRVPAQTTPAPGVYSDVVSVT
+>A9CH19_AGRFC/182313
+TQVPFTVSAAVAPTCIISAQNINFGSHGVLNTAVDANGAINLTCTNGLNYSVALNGGLSNSPPAARQMVQGAASIIYGLYRDVSRTNVWGSAAGQIATGTGNGSLQTLTVFGRVPAQNTPAPGNYADTVVVT
+>Q985D8_RHILO/205338
+DRPTFTINAIVPANCLLAIQNIDFGSNGILGANVDATGGVSITCTPGTPYTVSLSNGTTGSAPTARKMSKGVETVTYGLYKDNARSQVWGDAAMPGSTVAGSGSGAAQNLTIYGRVPAQTTPSAGVYTDTVVVT
+>A7H7Q6_ANADF/25150
+ATAQFQVTATVVKKCKISATTIAFGNYDPATILSAEGTLTLKCTKGTLYSVALDGGSTGSRQMTQAAEVLDYELYSDAGHTAVWPSTAAAPSVAAAGADEALIIFAQVPADQYPAPGAYADTVTAT
+>Q2IFL0_ANADE/27162
+ATATLDVTATVVPSCTIAATPVAFGSYDPLVTNAATALDAQGTVTVTCTTGTAYTVGLGAGNSGSGSRAMQHASIAGAQLPYELYQEAARTTVWDSTVMQAGTAASITPVQYTVYGRIPAAQNVPTGNYADAVVAT
+>Q0C623_HYPNA/23151
+ANGTLDVQATVVNTCVVLTAPVVFASVGLDEVTANGSITVNCTNTSAFTVALDGGDSGDISARSLTHASLPASFNYQLYTDAGLTTVWGDGVTGSQANGSGPSQTLTVYGRTTSTPDTAGAYADEVQVT
+>Q63W78_BURPS/193326
+TFAFTASATVVNDCFINATNVAFGSTGVIQGALTATGTISAQCTNGDAFRIALNGGASGNVAARAMQRTGGGGAVNYQLYLDAAHSTIWGDGTAGTSTATGTGSGLSQSLTVYGQVPAQTTPAPGTYSDTITAT
+>Q8XVY3_RALSO/23163
+VLVALASWAPGALAVSCSVSANALSFGAYNTTSNLTGTTTVTITCGAWGGASSINYTLSASVGSGTYANRQVLNGSNVIAYNLYTTSADTSIWGDGNGDGTVTLSGTVTKQVGTVNLTIYGKINGGQNVVPGSYATTIPIT
+>Q8XPY9_RALSO/25163
+ASAQSCSVASASLNFGSISPVQAGNTDTSTTLTVSCSGFLLQGTVARACLNLGVGSGDTGISPRVLSAGANQLQYNLYADSARSVVWGGRTTPATPAIQVDVSLGLLGFGSATVTVYGRVPGGQTTVPAGAYTQSFSGT
+>A9CH19_AGRFC/11158
+IAAAFVASPVLAQSCTFSMSDMNFGFVNLAGGAAVDTTATLSVTCNNPLSLALSIRICPNINAGGGGQSGGIRRMLQGSNILNYQLYQTSARTTAWGSVTQPALGAPPPIDMALPLLINSTTRTVYGRINAGQASAARGLYLSSFAGG
+>Q985D8_RHILO/37183
+SAALLLPTVAWAQSCSFGVSAMNFGLVDTLSGSSSNSTATLSVNCTGLLLQRILVCPNLGTGSGGATASARQMLSGANDLNYQLYSDSARSVVWGSYAWPYPPTAPGFALTLNVLGSGSASQTIYGAILGGQATAVPSTYLSTFSGS
+>Q3A2W0_PELCD/10150
+IIVLLFAVDAYAFHCEVTTTPVSFGAYDVFSSFSLDTTGRISVSCNNPEKKRMPVTISISRGAANSFSPRQMRRIGGSDRMDYYLFVDASRTAVWGDGTGGSSTYVGMIDRTSPLNVPIYGRIPARQNLRAGSYQDILVVT
+>A7H7Q5_ANADF/16150
+APRAVDAAQPPSPGPSCSVSAGSVAFGAYDPLSPTHLDSTGTIGLTCAVRQLVTISLGTGQSGTFARELRGPGGAALRYDLYTDATRTQVWGDGTAGTATWPFETERGRYVPVYARVLAGQDVPAGPYSDTIVVT
+>Q2IFK8_ANADE/19157
+ATALSLVAPAAARAASCSLTMGTSIAFGAYDPLSPVPLTTTGMLQYRCSRGQPIRITFTAGSSGDVYARTLRQGPWTLAYNLYADAGFGTVWGDGTGGTAAAPAVTTLSNGLTVAYVFGRIPARQEPPVGPYSDTIVVT
+>Q1D5L1_MYXXD/13153
+AVAGVCGLLPGLAGAVCQIRSTIGVSFGTYLTTDLLPRDSAGSITYRCEGQITPITIDFSAGGSGTPLARSMAGPGAQRLEYNLYVDATRLIVWGNGTSGTGRYGPVVPLFGVEVTVPIFGRIPAGQAIPAGAYADTVVMT
+>Q60C08_METCA/20167
+LLACPKISDADPYQCDIGNISVPHAVYDPTDSNPNSSGVGTVGITCHLKNAKQTQQVQYTIALSRGSSGSYNPRRMSGGRGSLGYNLYLDAARVTIWGDGSGGTFPLRGTLLLNPTTPVQQVIHNIYGLIPPLQDVYAGTYTDTVTIT
+>Q0AAK6_ALKEH/8153
+SLFLVAAGSGSAQAYTCSISADPLAFGQYDPITGAQVDGASEVSVSCSLLGLVSLLVSYEISLDPGTGGSYHPRALSSATDTLDYNLYVDTARTEIWGDGTDDTATVTDSYTLGVLTVTRYYPVYGRVFADQNVAAGVYDDTITAT
+>Q12FX3_POLSJ/50194
+TWGVLLAAGTAHATISCSVSGNGFTSVYDPISTVPNDNVSSVTINCSRASGDPTTTTYSLASTNGLYPQGQNNRAYYPTNKYLKYDIYKDAAYSSRWGPGGSAPFTGTLNFGSGTSASLTLPYYNRVAAQQSAVAADYTDTMTAT
+>A1VIJ0_POLNA/19170
+ALFLLLATAGPAQAGSCTVGSSGLAFGAYQPLTFAGKLTSSAVTSNASISVVCTGIASGGAYSIALGPSTTGSGDRISTRYLGNSNGGDDMSFNIYTSASYSTVWGNGTTGGLVGGSIPVGDSNQSQPVYGRIAASQNTLRAGSYSGSLTMT
+
diff --git a/gene_sequences/sporecoat04.fasta b/gene_sequences/sporecoat04.fasta
index 809ace1..0c368ad 100755
--- a/gene_sequences/sporecoat04.fasta
+++ b/gene_sequences/sporecoat04.fasta
@@ -11,4 +11,4 @@ SLFLVAAGSGSAQAYTCSISADPLAFGQYDPITGAQVDGASEVSVSCSLLGLVSLLVSYEISLDPGTGGSYHPRALSSAT
 >Q12FX3_POLSJ/50194
 TWGVLLAAGTAHATISCSVSGNGFTSVYDPISTVPNDNVSSVTINCSRASGDPTTTTYSLASTNGLYPQGQNNRAYYPTNKYLKYDIYKDAAYSSRWGPGGSAPFTGTLNFGSGTSASLTLPYYNRVAAQQSAVAADYTDTMTAT
 >A1VIJ0_POLNA/19170
-ALFLLLATAGPAQAGSCTVGSSGLAFGAYQPLTFAGKLTSSAVTSNASISVVCTGIASGGAYSIALGPSTTGSGDRISTRYLGNSNGGDDMSFNIYTSASYSTVWGNGTTGGLVGGSIPVGDSNQSQPVYGRIAASQNTLRAGSYSGSLTMT
\ No newline at end of file
+ALFLLLATAGPAQAGSCTVGSSGLAFGAYQPLTFAGKLTSSAVTSNASISVVCTGIASGGAYSIALGPSTTGSGDRISTRYLGNSNGGDDMSFNIYTSASYSTVWGNGTTGGLVGGSIPVGDSNQSQPVYGRIAASQNTLRAGSYSGSLTMT
diff --git a/gene_sequences/transporter.align b/gene_sequences/transporter.align
new file mode 100644
index 0000000..2f47110
--- /dev/null
+++ b/gene_sequences/transporter.align
@@ -0,0 +1,32 @@
+>A0A026RKY7_ECOLX/4411
+NIPFRNAYYRFASSYSFLFFISWSLWWSLYAIWLKGHLGLTGTELGTLYSVNQFTSILFM
+MFYGIVQDKLGLKKPLIWCMSFILVLTGPFMIYVYEPLLQSNFSVGLILGALFFGLGYLA
+GCGLLDSFTEKMARNFHFEYGTARAWGSFGYAIGAFFAGIFFSISPHINFWLVSLFGAVF
+-MMINMRFKDKDHQCIAADAGGVKKEDF-----IAVFKDRNFWVFVIFIVGTWSFYNIFD
+QQLFPVFYAGLFESHDVGTRLYGYLNSFQVVLEALCMAIIPFFVNRVGPKNALLIGVVIM
+ALRILSCALFVNPWIISLVKLLHAIEVPLCVISVFKYSVANFDKRLSSTIFLIGFQIASS
+LGIVLLSTPTGILFDHAGYQTVFFAISGIVCLMLLFGIFFLSKKREQIVMETPV
+>RAFB_ECOLX/4415
+ASTHKNTDFWIFGLFFFLYFFIMATCFPFLPVWLSDVVGLSKTDTGIVFSCLSLFAISFQ
+PLLGVISDRLGLKKNLIWSISLLLVFFAPFFLYVFAPLLHLNIWAGALTGGVFIGFVFSA
+GAGAIEAYIERVSRSSGFEYGKARMFGCLGWALCATMAGILFNVDPSLVFWMGSGGALLL
+LLLLYLARPSTSQTAMVMNALGANSSLISTRMVFSLFRMRQMWMFVLYTIGVACVYDVFD
+QQ-FAIFFRSFFDTPQAGIKAFGFATTAGEICNAIIMFCTPWIINRIGAKNTLLVAGGIM
+TIRITGSAFATTMTEVVILKMLHALEVPFLLVGAFKYITGVFDTRLSATVYLIGFQFSKQ
+LAAILLSTFAGHLYDRMGFQNTYFVLGMIVLTVTVISAFTLS-SSPGIVHPSVE
+>LACY_CITFR/1412
+MYYLKNTNFWMFGFFFFFYFFIMGAYFPFFPIWLHEVNHISKGDTGIIFACISLFSLLFQ
+PIFGLLSDKLGLRKHLLWVITGMLVMFAPFFIYVFGPLLQVNILLGSIVGGIYLGFIYNA
+GAPAIEAYIEKASRRSNFEFGRARMFGCVGWALCASIAGIMFTINNQFVFWLGSGCAVIL
+ALLLLFSKTDVPSSAKVADAVGANNSAFSLKLALELFKQPKLWLISLYVVGVSCTYDVFD
+QQ-FANFFTSFFATGEQGTRVFGYVTTMGELLNASIMFFAPLIVNRIGGKNALLLAGTIM
+SVRIIGS-HSHTALEVVILKTLHMFEIPFLIVGCFKYITSQFEVRFSATIYLVCFCFFKQ
+LAMIFMSVLAGKMYESIGFQGAYLVLGIIRVSFTLISVFTLSGPGPFSLLRRRE
+>LACY_KLEOX/6416
+LAPRERHNFIYFMLFFFFYYFIMSAYFPFFPVWLAEVNHLTKTETGIVFSCISLFAIIFQ
+PVFGLISDKLGLRKHLLWTITILLILFAPFFIFVFSPLLQMNIMAGALVGGVYLGIVFSS
+RSGAVEAYIERVSRANRFEYGKVRVSGCVGWALCASITGILFSIDPNITFWIASGFALIL
+GVLLWVSKPESSNSAEVIDALGANRQAFSMRTAAELFRMPRFWGFIIYVVGVASVYDVFD
+QQ-FANFFKGFFSSPQRGTEVFGFVTTGGELLNALIMFCAPAIINRIGAKNALLIAGLIM
+SVRILGSSFATSAVEVIILKMLHMFEIPFLLVGTFKYISSAFKGKLSATLFLIGFNLSKQ
+LSSVVLSAWVGRMYDTVGFHQAYLILGCITLSFTVISLFTL--KGSKTLLPATA
diff --git a/gene_sequences/transporter_all.fasta b/gene_sequences/transporter_all.fasta
new file mode 100644
index 0000000..c75277a
--- /dev/null
+++ b/gene_sequences/transporter_all.fasta
@@ -0,0 +1,8 @@
+>LACY_CITFR/1412
+MYYLKNTNFWMFGFFFFFYFFIMGAYFPFFPIWLHEVNHISKGDTGIIFACISLFSLLFQPIFGLLSDKLGLRKHLLWVITGMLVMFAPFFIYVFGPLLQVNILLGSIVGGIYLGFIYNAGAPAIEAYIEKASRRSNFEFGRARMFGCVGWALCASIAGIMFTINNQFVFWLGSGCAVILALLLLFSKTDVPSSAKVADAVGANNSAFSLKLALELFKQPKLWLISLYVVGVSCTYDVFDQQFANFFTSFFATGEQGTRVFGYVTTMGELLNASIMFFAPLIVNRIGGKNALLLAGTIMSVRIIGSHSHTALEVVILKTLHMFEIPFLIVGCFKYITSQFEVRFSATIYLVCFCFFKQLAMIFMSVLAGKMYESIGFQGAYLVLGIIRVSFTLISVFTLSGPGPFSLLRRRE
+>LACY_KLEOX/6416
+LAPRERHNFIYFMLFFFFYYFIMSAYFPFFPVWLAEVNHLTKTETGIVFSCISLFAIIFQPVFGLISDKLGLRKHLLWTITILLILFAPFFIFVFSPLLQMNIMAGALVGGVYLGIVFSSRSGAVEAYIERVSRANRFEYGKVRVSGCVGWALCASITGILFSIDPNITFWIASGFALILGVLLWVSKPESSNSAEVIDALGANRQAFSMRTAAELFRMPRFWGFIIYVVGVASVYDVFDQQFANFFKGFFSSPQRGTEVFGFVTTGGELLNALIMFCAPAIINRIGAKNALLIAGLIMSVRILGSSFATSAVEVIILKMLHMFEIPFLLVGTFKYISSAFKGKLSATLFLIGFNLSKQLSSVVLSAWVGRMYDTVGFHQAYLILGCITLSFTVISLFTLKGSKTLLPATA
+>RAFB_ECOLX/4415
+ASTHKNTDFWIFGLFFFLYFFIMATCFPFLPVWLSDVVGLSKTDTGIVFSCLSLFAISFQPLLGVISDRLGLKKNLIWSISLLLVFFAPFFLYVFAPLLHLNIWAGALTGGVFIGFVFSAGAGAIEAYIERVSRSSGFEYGKARMFGCLGWALCATMAGILFNVDPSLVFWMGSGGALLLLLLLYLARPSTSQTAMVMNALGANSSLISTRMVFSLFRMRQMWMFVLYTIGVACVYDVFDQQFAIFFRSFFDTPQAGIKAFGFATTAGEICNAIIMFCTPWIINRIGAKNTLLVAGGIMTIRITGSAFATTMTEVVILKMLHALEVPFLLVGAFKYITGVFDTRLSATVYLIGFQFSKQLAAILLSTFAGHLYDRMGFQNTYFVLGMIVLTVTVISAFTLSSSPGIVHPSVE
+>A0A026RKY7_ECOLX/4411
+NIPFRNAYYRFASSYSFLFFISWSLWWSLYAIWLKGHLGLTGTELGTLYSVNQFTSILFMMFYGIVQDKLGLKKPLIWCMSFILVLTGPFMIYVYEPLLQSNFSVGLILGALFFGLGYLAGCGLLDSFTEKMARNFHFEYGTARAWGSFGYAIGAFFAGIFFSISPHINFWLVSLFGAVFMMINMRFKDKDHQCIAADAGGVKKEDFIAVFKDRNFWVFVIFIVGTWSFYNIFDQQLFPVFYAGLFESHDVGTRLYGYLNSFQVVLEALCMAIIPFFVNRVGPKNALLIGVVIMALRILSCALFVNPWIISLVKLLHAIEVPLCVISVFKYSVANFDKRLSSTIFLIGFQIASSLGIVLLSTPTGILFDHAGYQTVFFAISGIVCLMLLFGIFFLSKKREQIVMETPV