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in -i2 exists >NonamEVm004010t4 which has 100% identity with >NonamEVm004010t1 (when aligned with external tool). (Identity 100% cover 92%)
NonamEVm004010t4 is found on non-redundant sequences from db2 output
Running this command:
cd-hit-2d -i main_set -i2 transcriptos_alternativos -o comparacion_70 -c 0.70 -M 8000 -T 15 -g 1 -G 0 -aS 0.3 -aL 0.3 -A 0.3
Both -i and -i2 are nucleotide
The following cluster is created:
in -i2 exists >NonamEVm004010t4 which has 100% identity with >NonamEVm004010t1 (when aligned with external tool). (Identity 100% cover 92%)
NonamEVm004010t4 is found on non-redundant sequences from db2 output
Alignment
NonamEVm004010t1 CGCAAGCAAGGCACGCCGCTTTCACGCCCCAAGCCCGCCGTCGAGCCGGAATGCGGTGCCNonamEVm004010t4 --------------------------------------------------------------------------------------------
NonamEVm004010t1 CAATTGGTTCCGCATTTCGGCTGCGCAAATGCAACGCCAGTCGCCAGACCACACAGCCTA
NonamEVm004010t4 -------------------------------------------------------------------------------------------
NonamEVm004010t1 TTCCCCGCCGCTCGATCTGCAACCACTCTGCTCCGACGTGACCCTCGAGCCACGACCCGT
NonamEVm004010t4 ------------CGCTCGATCTGCAACCACTCTGCTCCGACGTGACCCTCGAGCCACGACCCGT
NonamEVm004010t1 AACACCTGCTTTACTTCCATATTCCGTTTGCATCGCCTTTCGCTCTCTTTTTCCCATCCT
NonamEVm004010t4 AACACCTGCTTTACTTCCATATTCCGTTTGCATCGCCTTTCGCTCTCTTTTTCCCATCCT
NonamEVm004010t1 CACGAACTGGCGATCCACCACCTCCCCAATATGATTCCCTCTTCTTCGTCCAAGCTCTTC
NonamEVm004010t4 CACGAACTGGCGATCCACCACCTCCCCAATATGATTCCCTCTTCTTCGTCCAAGCTCTTC
NonamEVm004010t1 TTGCGATCCAGCGTCGCCGCCTCTCGTGCCACCATGACCGCGCGGCCGGCCATTCGCGCC
NonamEVm004010t4 TTGCGATCCAGCGTCGCCGCCTCTCGTGCCACCATGACCGCGCGGCCGGCCATTCGCGCC
NonamEVm004010t1 TTTTCAACGTCTCTCGCTAGCCAAAAGGAGGTCAAGAACGTCACAGTCTTCGGTGCCGGC
NonamEVm004010t4 TTTTCAACGTCTCTCGCTAGCCAAAAGGAGGTCAAGAACGTCACAGTCTTCGGTGCCGGC
NonamEVm004010t1 CTCATGGGCGCCGGCATCGCTCAGGTCCTGGCGCACAAGGGAAAGTACAACGTCACTCTC
NonamEVm004010t4 CTCATGGGCGCCGGCATCGCTCAGGTCCTGGCGCACAAGGGAAAGTACAACGTCACTCTC
NonamEVm004010t1 TCGGACGTCACCGACAAGGCGCTCGCCAACGGACAGTCGATTATCTCCAAGTCACTCACA
NonamEVm004010t4 TCGGACGTCACCGACAAGGCGCTCGCCAACGGACAGTCGATTATCTCCAAGTCACTCACA
NonamEVm004010t1 AGGATCGCAAAGAAGGCCTTGGCCGAATCGTCGGCCGACGAGCAGTCCCACTTTGTCAAA
NonamEVm004010t4 AGGATCGCAAAGAAGGCCTTGGCCGAATCGTCGGCCGACGAGCAGTCCCACTTTGTCAAA
NonamEVm004010t1 GGCATCGTTGATTCGATCAAGGTCACCACCGATCCCGAGGCCGCCGTGGAAGACACCGAC
NonamEVm004010t4 GGCATCGTTGATTCGATCAAGGTCACCACCGATCCCGAGGCCGCCGTGGAAGACACCGAC
NonamEVm004010t1 CTCGTTATCGAGGCCATCATCGAGAACGTCGGCATCAAGAAGGACCTCTTTGGCTTCCTC
NonamEVm004010t4 CTCGTTATCGAGGCCATCATCGAGAACGTCGGCATCAAGAAGGACCTCTTTGGCTTCCTC
NonamEVm004010t1 GACGGCAAGGCGCCCAAGGACGCTATCTTTGCGACCAACACGAGCTCGCTCAGCATCACC
NonamEVm004010t4 GACGGCAAGGCGCCCAAGGACGCTATCTTTGCGACCAACACGAGCTCGCTCAGCATCACC
NonamEVm004010t1 GACGTCGCCGAGGCTGTCGAGAGAAAGGAGCGGTTCGCCGGCTTCCACGCCTTCAACCCG
NonamEVm004010t4 GACGTCGCCGAGGCTGTCGAGAGAAAGGAGCGGTTCGCCGGCTTCCACGCCTTCAACCCG
NonamEVm004010t1 GTGCCCCAGATGAAGCTGGTCGAGATCGTGCGCACCAGCCAGACCAGCGACGAGACCTAC
NonamEVm004010t4 GTGCCCCAGATGAAGCTGGTCGAGATCGTGCGCACCAGCCAGACCAGCGACGAGACCTAC
NonamEVm004010t1 GACAGCCTGATGGAGGTGGCCAAGAGGATGGGCAAGGTCCCCGTCACTTGCGTCGACTCG
NonamEVm004010t4 GACAGCCTGATGGAGGTGGCCAAGAGGATGGGCAAGGTCCCCGTCACTTGCGTCGACTCG
NonamEVm004010t1 CCGG--------------------------------------------------------
NonamEVm004010t4 CCGGGGTGAGTCGACAGCTCCGACTAGGAGGCATCCCGATGTGTCCGGAAACGCTTTCCC
NonamEVm004010t1 --------------------------------------------------GATTCATCGT
NonamEVm004010t4 CTCTGAAGAAACTCCTGGCGACTCTGCCTTTCGTCTCCTGCTGCGGCACAGATTCATCGT
NonamEVm004010t1 CAACCGACTGCTGGTACCCTACATGTTTGAGGCCATCCGACTCGTTGAGCGAGGCGAGGC
NonamEVm004010t4 CAACCGACTGCTGGTACCCTACATGTTTGAGGCCATCCGACTCGTTGAGCGAGGCGAGGC
NonamEVm004010t1 GTCGATCAAGGATGTGGACACCGCTATGAAGCTCGGCGCTGGATACCCCATGGGTCCGTT
NonamEVm004010t4 GTCGATCAAGGATGTGGACACCGCTATGAAGCTCGGCGCTGGATACCCCATGGGTCCGTT
NonamEVm004010t1 TGAGCTCGCCGATCTGGTCGGCCTCGATACGCTGTCCCACATTGCCAAGGGCTGGAGGGA
NonamEVm004010t4 TGAGCTCGCCGATCTGGTCGGCCTCGATACGCTGTCCCACATTGCCAAGGGCTGGAGGGA
NonamEVm004010t1 GACTCGGGTCAAGACGGGAGAGATCAGCGCCGAGGCGGTCAAGGAATCGAAGCTGCTCGA
NonamEVm004010t4 GACTCGGGTCAAGACGGGAGAGATCAGCGCCGAGGCGGTCAAGGAATCGAAGCTGCTCGA
NonamEVm004010t1 GGATCTGGTGGCCCAGGGCAAGCTTGGCAAAAAGAGCGGAGAGAAGGGCGGTTTCTACAA
NonamEVm004010t4 GGATCTGGTGGCCCAGGGCAAGCTTGGCAAAAAGAGCGGAGAGAAGGGCGGTTTCTACAA
NonamEVm004010t1 ATACCCGGCGTCCAATAAGTGAGGCGAGGCA-----------------------------
NonamEVm004010t4 ATACCCGGCGTCCAATAAGTGAGGCGAGGCAGCTTTCCGGATGGTCTCTGCTAGCCGATC
NonamEVm004010t1 ------------------------------------------------------------
NonamEVm004010t4 GAGGACAGATCGGTTGAGGCACCAGTGTAGGGCTGCATCATTGGATCAGCAATGAGGAAG
NonamEVm004010t1 -------------------------------------
NonamEVm004010t4 GCGGTTGCGTACAAATACAAAGAGTGATAGAAGGTGC
Can someone explain this behavior? is something wrong with my command?
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