diff test-data/files/input.merge.2.fas @ 0:9a3a2e04f47a draft default tip

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/files/input.merge.2.fas	Mon Jun 10 16:04:10 2019 -0400
@@ -0,0 +1,152 @@
+>K03455|HIVHXB2CG_6501_7035_0_0_0_0_0_0_b/1
+---------------------------CTACCTCTTCTTCTGCTAGACTGCC-------A
+TTTAACAGCAGTTGAGTTGATACTACTGGCCTAATTCCATGTGT
+>K03455|HIVHXB2CG_6976_7493_0_0_0_0_0_0_12/1
+-------------TTAGGCCAGTAGTATCAACTCAACTGCTGTTAAATGGCA-------G
+TCTAGCAGAAGAAGAGGTAGTAAT-------TAGATC-------
+>K03455|HIVHXB2CG_5516_5958_3_0_0_2_0_0_20/1
+---TAACGCCACCTTTGCCTAGTGTTACGAAACTGCCAGAGGATAGATGGAAC---AAGC
+CCCAGAAGACGAAGGG----------------------------
+>K03455|HIVHXB2CG_8434_8946_0_0_0_1_0_0_21/1
+GTGGAGA--------GAGAGACAGAGACAGATCCATTCGATTAGTGAACGGATCC-----
+-TTGGCACTTATCTGGGA-------------CGATCT-------
+>K03455|HIVHXB2CG_7957_8508_2_0_0_2_1_0_2c/1
+TCCGAAGATCGTCCCAGATAAGTGCCAAGGATCCGTTCACTACTCGAATGGATCTGA--C
+TCTGTCTCT-------------------------CTC-------
+>K03455|HIVHXB2CG_5251_5720_0_0_0_1_0_0_4/1
+CCAAGTA-----TCCCCATAAGTTTCATAGATATGATGCCCTAAGCCATGGAGCCAAATC
+CTAGGAAAATGTCTA-----------------------------
+>K03455|HIVHXB2CG_5199_5715_1_0_0_2_0_0_1a/1
+-----TA-----TCCCCATAAGTTTCATCGATATGTTGCCCTAAGCGATGGAGCCAAATC
+CTAGGAAAATGTCTAAC-----------------AGC-------
+>K03455|HIVHXB2CG_1672_2143_3_0_0_2_0_0_1d/1
+----TGC-----TCTGAAGAAAATTCCCTG----GCCTTCCCTTGTAGTAAGGCCATATC
+TTCCCTAAAAAATTAGC-----------------CTGTCT----
+>K03455|HIVHXB2CG_2020_2541_3_0_0_6_0_0_2f/1
+AAGTGCAA------------------GCAATCTGATTCACCCGATTTCTTCC-------A
+ATTATGATGACAGGTGTAGGTCCTACTAATACAGT---------
+>K03455|HIVHXB2CG_5150_5584_1_0_0_2_0_0_42/1
+GAT---------------------------------------------------------
+----------------------------GGTTTTATAGACATCACTATGAAAGCCCTCAT
+CCAAGAAAAAGTTCAGAAGTACACA------------------TCCCACTAGG-------
+--
+>K03455|HIVHXB2CG_3569_4048_0_0_0_4_0_0_3e/1
+AA----------------------------------------------------------
+-------------------------------TTTATCAAGAGCCATTTAAAAATCTGAAA
+ACAGGAAAATATGCAAGAATGAGGGG--------------TGCCCACACTAAT-------
+--
+>K03455|HIVHXB2CG_6322_6838_1_0_0_0_1_0_63/1
+AATTG----TGGGTCACAGTCT---------ATTATGGGGTACC----TGTGTGGC----
+-----AGGAAGCAACCACCACTCTATT-----------------------TTGTGCATC-
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_5794_6187_2_0_0_0_0_0_5b/1
+AGCAGA--ATAGGCGTTACTCG---------ACAGAGGAGAGCA----AGAAATGT----
+-----AGCCAGTAGATCCTAGACTAT-------------------------AGCCCTGG-
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_906_1404_1_0_0_3_0_0_45/1
+--------------------------------------GGAGCT----AGAACGAT----
+-----TCGCAGTTAATCCTGGCGTGTTAGAAACATCAGAAGGCTGTAGACAAATACTGGG
+A-----------------------------------------------------------
+--
+>K03455|HIVHXB2CG_1667_2209_4_0_0_2_0_0_2a/1
+----GAGGGGGAGTTGTTGTCT---------GTACCCCAGACCT----GAAGCTCTCTTC
+TTGTGGGGCTGTTGGCTCTGGTCTGCT---------------------------------
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_1644_2213_4_0_0_3_0_0_4f/1
+TTCTGAGGGGGAGATGTTGTCT---------CTAGCCCAGACCT----GAAGCTCTCTTC
+TGGTGGGGCAGTTGGCTCTGGTC-------------------------------------
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_5034_5548_1_0_0_4_0_0_13/1
+A-------------------------------------GGGATTATGGAAAACAGA----
+-----TGGCAGGTGATGATTGTGTGGCAATTAGACAGGATGAGGATTAGAACATGG----
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_9174_9651_1_0_0_0_0_0_4e/1
+------------CGGGCACAC----------------------------ACT--------
+ACTTGAAGCACTCAAGGCAAGCTTTATTGAGGCTTAAGCAGTGGGTTCCCTAG--TTAGC
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_9142_9638_2_0_0_2_0_0_3c/1
+------------------------------------------------------------
+-CTTGAAGCACTCAAGGCAAGCTTTATTGCGGCTTAATCAGTGGGTTCCCTAG--TTAGC
+CAGA----------------------------------------GAGCTCCCA-------
+--
+>K03455|HIVHXB2CG_8231_8877_0_0_0_3_0_0_25/1
+---------------------------------------------------------TGC
+TGCTGGCTCAGCTCGTCT---CATTCATTCCCTTACAGTAGGCCATCCAATCACACTACA
+TATT-------------------------------------------GACCAC-------
+--
+>K03455|HIVHXB2CG_8446_8894_4_0_0_3_0_0_10/1
+------------GCTGCTCCC----------------------------ACCCTATCTTG
+TGCTGGCTCAGCTCGTCT---CATTGTTTCCCTTACAGTAGGCCATCCAATCA-------
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_5329_5821_2_0_0_2_0_0_43/1
+------------------------------------------------------------
+TCCTCTGTCGAGTAACGC---CTATTCTGCTATGACGACACCCAATTCTGAAA--CTGGA
+TAAA--------------------------------------CAGCAGTTGTT-------
+--
+>K03455|HIVHXB2CG_7972_8486_1_0_0_0_0_0_e/1
+------------------------------------------------------------
+--------------------------------TGCCAAGGATCCGTTCACTAA--TCGAA
+TGGA---------TCTGTCTCTGTCTCTCTCTCCACCTTCTTCTTCTATTCCT-------
+--
+>K03455|HIVHXB2CG_2808_3255_0_0_0_1_0_0_22/1
+------------------------------------------------------------
+TTCTGGGAAGTTCAAT----------------TAGGAATACCACATCCCGCAGGGTTAAA
+AAAG---------AAAAAATCAGT------------------AACAGTACTGG-------
+--
+>K03455|HIVHXB2CG_3580_4035_1_0_0_0_0_0_3/1
+------------------------------------------------------------
+CTATG------TTTAC----------------TTCTAATCCCGAATCCTGCAAAGCTAGA
+TAAAT----TGCTTGTAACTCAGTC-----------------TTCTGATTTGT-------
+--
+>K03455|HIVHXB2CG_9061_9383_1_0_0_4_0_0_3b/1
+------------C------ACTTATTAAAAGAAAAGGGGGGACTGGAAGGGCTAATTCAC
+TCCCAAAGAAGACAAG----ATATCCTTGATC----------------------------
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_9067_9580_2_0_0_1_0_0_4c/1
+------------------------TTAAAAGAAAAGGGGGGACTGGAAGGGCTAATTCAC
+TGCCAAAGAAGACAAG----ATATCCTTGATCTGAGGA----------------------
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_7_537_2_0_0_1_0_0_1e/1
+-------------------------------------------------GGCTAATTCAC
+TCCCAACGAAGACAAG----ATATCCTTGATCTGTGGATGTACCACCCACAAG-------
+-------------------------------------------GCTACTTCCC-------
+--
+>K03455|HIVHXB2CG_4165_4569_2_0_0_3_0_0_8/1
+---------------------------------ACAACGGAATTGG---AGGAAATGAAC
+CAGTAGATAAATTAGT----CAGTGCTGGAATCAGGAAAGTACTATTTTT----------
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_3703_4231_2_0_0_1_0_0_62/1
+-----------------------------------AATAGTACTTT---CCTGATTCCAG
+CACTGACTAAATTATC----TACTTGTTCATTTCCTCCAATTCCTTTGTGTG--------
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_5977_6467_2_0_0_2_0_0_1/1
+-----------------------------GAAGAAGCGGAGACAGC---GACGAAGAGCT
+CATCAGAACAGTCAGA----CTCATCAAGCTTCTCAATCAAATCAG--------------
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_5968_6386_1_0_0_1_0_0_d/1
+--------------------CTATGGCAGGAAGAAGCGGAGACAGC---GACGAAGAGCT
+CATCAGAACAGTCAGA----CTCATCAAGCTTCTGTA-----------------------
+------------------------------------------------------------
+--
+>K03455|HIVHXB2CG_5989_6545_2_0_0_1_0_0_19/1
+-----------------------------------------ACAGC---GACGAAGAGCT
+CATCAGAACAGACAGA----CTCATCAAGCTTCTCTATCAAAGCAGTAAGTA--------
+--------------------------------------------TTACAT----------
+--
+>K03455|HIVHXB2CG_3875_4298_2_0_0_1_0_0_24/1
+------------------------------------------------------------
+-------------------------------------AGCCATTGCTCTCCAA--TTACT
+GTGA---------TATTTCTCATGTTCATCTTGGGCCTT----AACTATTCCATCTAAAA
+AT