Mercurial > repos > dave > pipelign

annotate test-data/files/NODE_2.aln @ 0:9a3a2e04f47a draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author dave
date Mon, 10 Jun 2019 16:04:10 -0400
parents
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
1 >K03455|HIVHXB2CG_1312_1798_2_0_0_1_0_0_a/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
2 ---------------------------------------------------------TTA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
3 TCAGAAGG------------------AGCCACCCCACAAGATTTAAAC--ACCATGCTAC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
4 ACCC-------AGTGGGGGGACATCAAGCAGCCA--
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
5 >K03455|HIVHXB2CG_1302_1790_0_0_0_1_0_0_1c/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
6 -----------------------------------------------GTTTTCAGCATTA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
7 TCAGAAGG------------------AGCCACCCCACAAGATTTAAAC--ACCATGCTAA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
8 ACAC-------AGTGGGGGGACAT------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
9 >K03455|HIVHXB2CG_1286_1769_0_0_0_4_0_0_0/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
10 -------------------------------CAGAAGTGATACCCATGTTTTCAGCATTA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
11 TCAGAAGG------------------AGCCACCCCACAAGATTTAAAC--ACCATGCTAA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
12 A-----------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
13 >K03455|HIVHXB2CG_6810_7300_0_0_0_0_0_0_2d/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
14 -------------------------------TGT-------------AACACCTCAGTCA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
15 TTA------CACAGG--CCTGTCCAAAGGTATCCTTTGAGCCAATTCC--CATACATTAT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
16 TGTG--------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
17 >K03455|HIVHXB2CG_6323_6872_1_0_0_2_0_0_50/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
18 -------------------------------ATG-------------TATG---------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
19 ------------GGA--ATTGGCTGAAAGGATACCTTTGGACAGGCCT--GAGTAATGAC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
20 TGAGGTGTTACAA---------CTTGTC--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
21 >K03455|HIVHXB2CG_7609_8146_1_0_0_1_0_0_5e/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
22 -------------------------------AA--------------GCTTGTGTAATTG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
23 TTAATTTC---TCTG--TCCCACTCCATCCAGGTCGTGTGATTCCAAC--TCTGTTCCAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
24 --------------------------AG--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
25 >K03455|HIVHXB2CG_2685_3250_0_0_0_0_0_0_46/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
26 -------------------------------AA--------------AATTTCAAA----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
27 --------------------------AATTGGGCCTGAAAATCCATAC--AATACTCCAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
28 TATT-TGCCATAAAGAAAAAAGACAGTA--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
29 >K03455|HIVHXB2CG_217_724_2_1_0_2_0_0_36/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
30 -------------------------------GC--------------CTGCATGGAATGG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
31 ATGACCCGGAGAGAG--AAGTGTTAGAGTGGAGGTTTGAGAGCCACCT--AGCAATTCA-
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
32 ------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
33 >K03455|HIVHXB2CG_8325_8818_2_0_0_2_0_0_15/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
34 -------------------------------GTA-------------CTTTCTATAGTGA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
35 ATAGAGTTAGGCAGG--TATATTCACCATTATCGTTTGAGACCCACCT--CCCAACCC--
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
36 ------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
37 >K03455|HIVHXB2CG_756_1235_2_0_0_1_0_0_34/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
38 -----------------------------------------------------GGT----
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
39 --------------------------GATATGGGCTGATGTACCATTT--GCCCCTGGAT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
40 GTTC-TGCACTATAGGGTAATTTTGGCTGACCTGAT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
41 >K03455|HIVHXB2CG_1835_2322_3_0_0_1_0_0_57/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
42 -------------------------------ATAGAG----------CTTCCTTTAGTTG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
43 CCCCCCTATCTTTAT--TGTGACGAGGGGACGTTGCCAAAGAGTGACC--TG--------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
44 ------------------AGG---------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
45 >K03455|HIVHXB2CG_2894_3537_2_0_0_0_0_0_18/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
46 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
47 -------TTTTTCAG--TTCGCTTAGATGAAGACTTCAGGCAGTATAC--TGCATTTACC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
48 ATACCTAGTATAAACAATGAG---------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
49 >K03455|HIVHXB2CG_3672_4151_0_0_0_1_0_0_27/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
50 ------------------------ATAACCACAGAA-----------------AGCATAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
51 TAATATGG------------------GGAAAGACTCCTAAATTTAAACTGCCCATACAAA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
52 A---------------GGAAACAT------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
53 >K03455|HIVHXB2CG_4939_5430_1_0_0_0_0_0_49/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
54 ---------------GACCAGCAAAGCACCTCTGGAA----------AGGTGAAGGGGCA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
55 GTAGTAATACAAGAT--AATAGTGACATAAAAGTAGT-----------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
56 ------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
57 >K03455|HIVHXB2CG_4957_5462_2_0_0_1_0_0_2e/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
58 ---------------------------------GGAA----------AGGTGAAGGGGCA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
59 GTAGTAATACAAGAT--AATAGTGACATAACAGTAGTG----------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
60 -----------------CGAAGAAGAAAAGCAAA--
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
61 >K03455|HIVHXB2CG_3027_3517_0_0_0_6_0_0_53/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
62 ------------------------------------------------TTTTATGGTTCA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
63 TAATCCACTCCATGT--ACTGGTTCTTTTAGAATCTCTCATTTTTCT--GCCCGTTCTAG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
64 CT----------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
65 >K03455|HIVHXB2CG_3441_3888_1_0_0_0_0_0_5c/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
66 -------------GAAGCAGAGCTAGAACTGGCAGAA----------AACAGAGAGATTC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
67 TAAAATAACCAGTAC--ATGGAGTGTATTATGACC-------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
68 ------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
69 >K03455|HIVHXB2CG_5108_5621_3_0_0_2_0_0_23/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
70 -------------------------------------------------------CTCTA
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
71 GTGTCCATTCATTGT--GTGGCTCCCTCTGTGGCCCTTGGTCTTCTTGGGCTTGTTCCAT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
72 CTCTCCT-----------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
73 >K03455|HIVHXB2CG_3447_3973_0_0_0_1_0_0_1f/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
74 TGATTTGTTGTGTCAGTTAGGGTGACAACT------------------TTTTGTGTTCCT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
75 CTATTAGTAACATAT--CCTGCTTTTCCTA------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
76 ------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
77 >K03455|HIVHXB2CG_2276_2810_0_0_0_0_0_0_58/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
78 ----------------------------------GAA----------GTCTTGAGTTCTC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
79 TTATTAA--------------GTTCTCTGAAATCTACTAATTTTCTCCATTTAGTACTGT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
80 CTTTTTTC----------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
81 >K03455|HIVHXB2CG_2252_2786_0_0_0_0_0_0_c/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
82 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
83 ----------------------TTCTCTGAAATCTACTAATTTTCTCCATTTAGTACTGT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
84 CTTTTTTCTTT--ATGGCAAATACTGGAGTATTG--
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
85 >K03455|HIVHXB2CG_4803_5329_1_0_0_2_0_0_1b/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
86 ---------------GGGGGGAACAGTGCAGGGGAAA----------GAATAGTAGACAT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
87 AATAGCAACAGACAT--ACAAACTAAAGAATTACAA------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
88 ---------------------------------A--
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
89 >K03455|HIVHXB2CG_4642_5125_0_0_0_3_0_0_28/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
90 ------------------------------------------------------------
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
91 ------------------------TAAGGTGTTTTACTAAACTTTTCCATGTTGTAATCC
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
92 TCATCCTGTCTCCTTGCCACACAATCATCACCTG--
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
93 >K03455|HIVHXB2CG_368_934_2_0_0_3_0_0_f/1
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
94 ------------------------------------------------CAGGATTAACTG
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
95 CGAATCTT---TCTAGCTCCCTTGTTGCCCATACTATATGTTTTAATT--TATATTTTTT
9a3a2e04f47a Uploaded
dave
parents:
diff changeset
96 --------------------------CT-------T