Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018468.1 Corchorus olitorius cultivar O-4 contig18501, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19518
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Found at i:1359 original size:35 final size:35
Alignment explanation
Indices: 1320--1395 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
1310 AGTTCGTTTA
*
1320 TGTTCACGAACATG-CTCGTTTATTGTTCATTTGAG
1 TGTTCACGAACA-GACTCGTTTATTGTTCATTTAAG
*
1355 TGTTCACGAACAGATTCGTTTATTGTTCATTTAAG
1 TGTTCACGAACAGACTCGTTTATTGTTCATTTAAG
1390 TGTTCA
1 TGTTCA
1396 TTTATATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 1 0.03
35 37 0.97
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (35 bp):
TGTTCACGAACAGACTCGTTTATTGTTCATTTAAG
Found at i:1457 original size:16 final size:16
Alignment explanation
Indices: 1436--1467 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1426 TATAATTATT
1436 TATATATTAATAATAA
1 TATATATTAATAATAA
*
1452 TATATATTATTAATAA
1 TATATATTAATAATAA
1468 AAATTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATATTAATAATAA
Found at i:1462 original size:19 final size:19
Alignment explanation
Indices: 1420--1467 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1410 GAACGTTCGT
* *
1420 TTATTATATAATTATTTATA
1 TTATTA-ATAATAATATATA
1440 -TATTAATAATAATATATA
1 TTATTAATAATAATATATA
1458 TTATTAATAA
1 TTATTAATAA
1468 AAATTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTATTAATAATAATATATA
Found at i:1622 original size:18 final size:18
Alignment explanation
Indices: 1595--1629 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1585 AATTATTACA
1595 TTGTTCATGAACAATTTT
1 TTGTTCATGAACAATTTT
*
1613 TTGTTTATGAACAATTT
1 TTGTTCATGAACAATTT
1630 CAGTTTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (18 bp):
TTGTTCATGAACAATTTT
Found at i:6997 original size:60 final size:60
Alignment explanation
Indices: 6925--7043 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
6915 GTGATTTTTG
*
6925 ATCACCTGTGGTGATCTTAACAGGTGATCTCAGATCACCCGTTTAATTATATTTTTTGGA
1 ATCACCTGTGGTGATCTTAACAGGTGATCTCAGATCAACCGTTTAATTATATTTTTTGGA
* *
6985 ATCACCTGTGGTGATCTTAACAGGTGATCTTAGATCAACCGTTTGATTATATTTTTTGG
1 ATCACCTGTGGTGATCTTAACAGGTGATCTCAGATCAACCGTTTAATTATATTTTTTGG
7044 TTAAAATACC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.39
Consensus pattern (60 bp):
ATCACCTGTGGTGATCTTAACAGGTGATCTCAGATCAACCGTTTAATTATATTTTTTGGA
Found at i:16959 original size:320 final size:316
Alignment explanation
Indices: 13944--18967 Score: 3487
Period size: 313 Copynumber: 15.5 Consensus size: 316
13934 TTAGCCCCGA
* * * *
13944 CTCAGTTTTGCATGATTTTTGACGTAAAAACTCCTTGAAATA-CTATATTCATCGAACTAAATCC
1 CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * *
14008 CAGCCACATTCGATTTAAGGATTTGTTTTTATGAGCA-CGTAAATCTCGTTTCAATTTAATTAGA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATC-TGAATCTTGTTTCGATTTAATTAGA
* * * * *
14072 AATTAATTCGAAAAAAAAAAAGAAAAACGATATTAGAAGCGT-AAAAACCCCTCCAATCTTTTTG
130 AATAAATTCG---GAAAAAATGAAAAACGATATTAGAAGCGTGAAAAA-CCCTTCAAT-TTTTTT
* * ** * * *
14136 GCCTTGAACTATATATTTTTTATGAGTATTGTGGCAAAAAATAAAGAAAAAAATTTTCAGATCAG
190 GCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTCGGGTCAG
* ** * * ** *
14201 TTTTTAGCCGAAATC--GGGT---C--ACGGTTTTTGGCTAAAAATGCATTCCGGGATCTC-G
255 TTTTT-GTCGAAATCTTGTCTAACCATACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCAG
* * * * * * *
14256 ACTCAATTTTGCATGGTTTTTGGCATAAAAACTCCTTGAAATATCTATATTAATCTAATCAAATC
1 -CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATC
* * * * *
14321 TCAGTCACATTGGATTTAAGGATTTGCTTTTAAGAGCATCTGAATCTTATTTCAATTTAATTAGA
65 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * *** *
14386 AATAAATTCAGAAAATAAAATGGAGAACGATATTAGATTAGTGAAAACCCCTTCAATTTTTTTGG
130 AATAAATTC-G-GAA-AAAATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTT-G
* * * * *
14451 CATTGAATTATATATTATTTCTGAGTATTG-GGGAAAAAATTGA-GAAAAATCTTTTCGAGTCAG
191 CATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAA-ATTTTCGGGTCAG
* * *
14514 TTTTTG-CAAAATTTTAGCTAAAATCGTGTATTATCCATCACAGTTTTTGGCTAAAAACGCGTTC
255 TTTTTGTCGAAA---T--CT----T-GTCTA--A-CCAT-ACGGTTTTTGGCTAAAAACGCGTTC
*
14578 CGGAGCCCC-G
306 CGGGGCCCCAG
* * * *
14588 ACTCAATTTTGCATTG-TTTTTGACGCAAAGACTCCTTGAAATATCTATATTCATCGTACCAAAT
1 -CTCAGTTTTGCA-TGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAAT
* * * * *
14652 CTCAGCCACATTGGATATAAAGATTTGTTTTTA-GAAGAATCTCAATCTTATTTCGATTTAATTA
64 CTCAGCCACATTGGATTTAAGGATTTGTTTTTACG-AGCATCTGAATCTTGTTTCGATTTAATTA
* * * * * * *
14716 CAAATTAATTCAGAAAAAAAGAAAAAA-GAAAAATGATATTAGAAGTGTGAAAAGCCCGTCAATC
128 GAAATAAATTC-G-------GAAAAAATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATT
* * * * *
14780 TTTTTGAAGTTGAATTATATATTTTTTATGAGTGTCGTGGC-AAAAACTGAGAAAAAAATCTTTC
185 TTTTTGCA-TTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAAAT-TTTC
* * * * * * *
14844 -GGTTAGTTTTTCGCCGAAATCGTGAACTAACCATCACGATTTTTCGCTAAAAACGCGTTTCAGG
248 GGGTCAGTTTTT-GTCGAAATCTTG-TCTAACCAT-ACGGTTTTTGGCTAAAAACGCG-TTCCGG
*
14908 GCCCCAGTTCAG
309 GGCCC----CAG
* * * * * *
14920 CTTAGTTTTACATGATTTTTGACATAAAGACTCCTTGAAATATCCATATTCATCTAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * * * * * *
14985 CATCTACATTAGATTTACGGATTTGCTTTTACAAGTATCTAAATCTTGTTTCGATTTAATTAAAA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * * *
15050 ATTAATTCGGAAAAAAAACGAAAAACGATATTAGAATCGTGAAAAAACCCTTCAATTTTTTTTGT
131 ATAAATTCGG--AAAAAATGAAAAACGATATTAGAAGCGTG-AAAAACCCTTCAA-TTTTTTTGC
* ** * * * * *
15115 ATTGAATTATATATTTTTTCTGACAATTGTGGCAAAAAATTGAGGTAAAAGTCTTCGAGACAGTT
192 ATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTCGGGTCAGTT
* * ** * *
15180 TTTGCAAAATTTTAGCCGAAATCGTGAACTAACCATCAAAGTTTTT-TCTAAAAACACGTTCCGG
257 TTTG--------T---CGAAATCTTG-TCTAACCAT-ACGGTTTTTGGCTAAAAACGCGTTCCGG
*
15244 GGCCCCGG
309 GGCCCCAG
* ** * * * *
15252 CTCAGTTTTGCAT-ATTTTTGGCGTGAAGTTTTCTTGAAATATCTATAATCATCGAACCGAATCC
1 CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * *
15316 CAGCCACATAGGATAATAAGGATTTGTTTTTACGAGTATCTGAATCTTGTATAGA--T--TT---
66 CAGCCACATTGGAT-TTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * *
15374 AATAAATTCGGAAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAATCCTTCAATCGTTTTG
130 AATAAATTCGG---AAAAAAT-GAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTTT
** * * ** * *
15439 GTGTTGAATTATATATTTTTT-TAGAGTATTGTGG-TAAAAATTCAGGAAAAAGA-AATCAGCTC
190 GCATTGAATTATATATTTTTTAT-GAGTATTGTGGCAAAAAATTGAGGAAAAA-ATTTTCGGGTC
* * * * * **
15501 AATTTTTAGCCGAAATCATGTACGT--TC-TCACGATTTTTCTTCTAAAAACGTGTTCCGCCGTT
253 AGTTTTT-GTCGAAATCTTGT-C-TAACCAT-ACGGTTTTT-GGCTAAAAA-------CG-CGTT
* * *
15563 CTGGGGTCCCGG
305 CCGGGGCCCCAG
* * * * * *
15575 CTTAGTTTTGCATGATTTTTAGCGTGAAGAATTCTTGAAATATCTATATTCATCTAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * *
15640 CAGACACTTTGGATTGAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTACAA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* **
15705 ATAAATTCGGAAAACAAATATATGGAAAAACGATATTAGAAGCATGAAAAACCCTTCTTTTTTTT
131 ATAAATTCGG---A-AAA-A-AT-GAAAAACGATATTAGAAGCGTGAAAAACCCTTC-AATTTTT
** * * * * * *
15770 TTAGTGTTGAGTTATATA-TTTTTACTGAATATTGTAGCAAAAAACTGA-GAAAAATTTTTCGTG
188 TT-GCATTGAATTATATATTTTTTA-TGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTCGGG
* * * **
15833 TCAGTTTTTGCAAAATTTTAGCCGTAACTCGAAATGATGTATTAATCATCACGGTTTTTTACTAA
251 TCAGTTTTTG--------T---CG-AAATC----T--TGT-CTAACCAT-ACGGTTTTTGGCTAA
* * *** **
15898 AAACACGTTCCAGTATCCTGG
296 AAACGCGTTCCGGGGCCCCAG
* ** *
15919 CTCAGTTTTGCATAATTTTTGGCGTAAATG-CTTATTGAAGTATCTATATTCATCGAACCAAAT-
1 CTCAGTTTTGCATGATTTTTGGCGTAAA-GACTCCTTGAAATATCTATATTCATCGAACCAAATC
* * * * *
15982 TCCAGCCAAATTCGATTTAACGATTTCTTTTTATGAGCATCTGAATCTTGTTTCGATTTAATTAG
65 T-CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* * * * * * *
16047 AAATTAATTCAG-ATAAATGAAAAACGATATTAGAAGTGTGAAAAACCGTTCAATCTTTTTGGAG
129 AAATAAATTCGGAAAAAATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGCA-
* * *
16111 TTGAATTATATATTTTTTATGTGTATTAG-GGCAAAAAATTGAGAAAAAAAAATTCTTCGGCTCA
193 TTGAATTATATATTTTTTATGAGTATT-GTGGCAAAAAATTGAG--GAAAAAATT-TTCGGGTCA
* * * * * * * * * *
16175 GTTTTTAGCCGAAATCGTGTATTTATCATCAAGGCTTTT-GCTAAAAACGCGTTTCTGGGCCTC-
254 GTTTTT-GTCGAAATCTTGT-CTAACCAT-ACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCA
16238 G
316 G
* * ** *
16239 ACTCATTTTTTCATGGCTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATC
1 -CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATC
* * * * * *
16304 TCAGCCACAGTGGATATAACGATTTGTTTTTACGAGCATCTTAGTCTTGTTTCGGTTTAATTAGA
65 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * * * *
16369 AATTAATTCGGAAATAAAATGGAAAAGGATATTAGAAGCGTGAAAAGCCCGTT-AATCTTATTGG
130 AATAAATTCGG-AA-AAAATGAAAAACGATATTAGAAGCGTGAAAAACCC-TTCAAT-TTTTTTG
* ** * * *
16433 CGA-TGAATTGTATATTTTTCCTGAGTATTGTGGC-AAAAATGGCA-GAAAAATTGTTTCAGGTC
191 C-ATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTG-AGGAAAAAAT-TTTCGGGTC
* * * * * ***
16495 AATTTTTAGTCGATATCGTGTGCTAACCACCACGGTATTTGGGCTAAAAACGCGTTCCACAGCCC
253 AGTTTTT-GTCGAAATCTTGT-CTAACCA-TACGGT-TTTTGGCTAAAAACGCGTTCCGGGGCCC
16560 CAG
314 CAG
* * * *
16563 CTCAATTTTGCATGATATTTGGCAG-AAAGACTCCTAGAAATATCTATATTCATCTAACCAAATC
1 CTCAGTTTTGCATGATTTTTGGC-GTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATC
* * * * *
16627 TTAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATTTGAAGCCTGTTTCGATTTAATTAGA
65 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
*
16692 AATAAATTCGGGAAAAATGAAAAAACGATATTAGAAGCGTGAAAAAACCCTTCAATTTTTTTGCA
130 AATAAATTCGGAAAAAATG-AAAAACGATATTAGAAGCGTG-AAAAACCCTTCAATTTTTTTGCA
* * * * * *
16757 TTGAATTATATATTTATTATGACTATTGTGATG-AAATAATTGAGGAAAAAGTTTTCGAGTCAAT
193 TTGAATTATATATTTTTTATGAGTATTGTG--GCAAAAAATTGAGGAAAAAATTTTCGGGTCAGT
* * * * * * * * * * *
16821 TTTTG-CAAAATTTTAGTCGGAATCGTGCGGTTTTTTGTTAAAAGCGCCTTCCGGGGCCCCAT
256 TTTTGTCGAAATCTT-GTC-TAACCATACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCAG
* *
16883 CTCAGTTTTGCATGATTTTTGACGTAAAAACTCCTTGAAATATCTATATTCATCGAACCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * *
16948 CAGCCACATTGGCTTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCCATTTAATTAGAA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * * *
17013 ATAAATTCGGGAAAAAATGGAAAAACGATATTAGAGGCATGAAAAACCC-TCAATCCTTTTGGCA
131 ATAAATTC-GGAAAAAAT-GAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTTTGCA
* * * *
17077 TTGAATTATATATATTTTATGAGTATTGTGGTAAAAAATTGA-GAAAAACTATTT-GGGTTAGTT
193 TTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAAAT-TTTCGGGTCAGTT
* ** * * * * *
17140 TTAT-CCGAAATCGGGTACTAACCATCATGGTTTTTCGCAAAAAAACGCGTTTCGGGGCCTC-G
257 TT-TGTCGAAATCTTGT-CTAACCAT-ACGGTTTTTGGC-TAAAAACGCGTTCCGGGGCCCCAG
* * * * * * *
17202 CCTCAGTATTGCAT-AGTTTTTTGCATAAATACTCCTTGAAATATTTATATTCATCTAAACAAAT
1 -CTCAGTTTTGCATGA-TTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAAT
* * *
17266 CTCAGCCACATTGGATTTAATGATTTGTTTTTACGAGCATCTAAATCTTGTTTTGA-TTAATTAG
64 CTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* *
17330 AAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCATGAAAAGCCCTTCAATATTTTTTGC
129 AAATAAATTCGGAAAAAAT-GAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTTTGC
* * ** * * * *
17395 GTTGAATTATATA-TTTTTATGAGTATTGTGGC--AAATTTCG-GG--TTAGTTTT--TGTAAAA
192 ATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATT-GAGGAAAAAATTTTCGGGT-CAG
* * * * * * * * *
17452 TTTTAGTTGAAATCTTGTACTAACCATCACGATTTTTGGTTAAAAACGCATTTCAGGGTCTC-G
255 TTTTTGTCGAAATCTTGT-CTAACCAT-ACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCAG
* ** *
17515 ACTCAATTTTGCATGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATC
1 -CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATC
* * ** *
17580 TCAGCCACATTGGATTTAAGAATTTGTTTTCA-GTTTCAT-TCAAGTCTTGTTTCGATTT-ATTA
65 TCAGCCACATTGGATTTAAGGATTTGTTTTTACG-AGCATCTGAA-TCTTGTTTCGATTTAATTA
* * * * ** *
17642 TAAATAAAAAGTTCAGAAAAAAGGAAAAACAATATTAGCCGCGTGAATAACCCTTCAATTTTTTT
128 GAAAT--AAA-TTCGGAAAAAATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTT
** * * ** *
17707 GGTGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAACAATT-AAAAAAAAACTTTCGGGTCA
190 -GCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTCGGGTCA
** * * * *
17771 G-TTTT-T-GAAAAATT-T-T-AGCATCACGGTTTTTGGCTAAAAACGCAG-TGCGGAGCCCCGG
254 GTTTTTGTCGAAATCTTGTCTAACCAT-ACGGTTTTTGGCTAAAAACGC-GTTCCGGGGCCCCAG
* ** * * *
17829 CTCAATTTCACATGATTTTTGGCTTAAAGACTCCTTGAAATATCTATATTTATCGAATCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
*
17894 CAGCCACATTGGATATAAGGATTT-TTTCTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
66 CAGCCACATTGGATTTAAGGATTTGTTT-TTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * * * * * *
17958 AATTAATTTGGAAAAAAAGAAAAACAATATTAGAAGCGTGAAAAATCCGTCAATCTTTTTGGCGT
130 AATAAATTCGGAAAAAATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTTTGCAT
* * * * * ** *
18023 TAAATTATATATTTTTTCTGAGTATTGTGGCGAAAAATTCAGAAAAAAAAAATTCGGGTTAGTTT
194 TGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAG-GAAAAAATTTTCGGGTCAGTTT
* * * * * *
18088 TAAGTCGAAATCGTGTACTAACCATGACGGTGTTTGGGCTAAAAACGCGTTTCGGGGCCTCGG
258 T-TGTCGAAATCTTGT-CTAACCAT-ACGGT-TTTTGGCTAAAAACGCGTTCCGGGGCCCCAG
* * *
18151 CTCAGTTTTGCATGATTTTTGGCAG-AAAGACTCCTCGAAATATCTATATTCATCTAACTAAATC
1 CTCAGTTTTGCATGATTTTTGGC-GTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATC
* * *
18215 TCAACCACATTAGATTTAAGGATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTTAATTA-A
65 TCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
* * ** *
18279 AGATAAATTCAGAAAAAAAATTGGAAAAACGATATTAGATGCGTGAAAAACTGTTCATTTTTTTT
130 A-ATAAATTC-G-GAAAAAA-T-GAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTT
* * * * * *
18344 GCGTTGAATTATATATTTTTTCTGACTATTGTGGCAAAAAATTAAGGAAAAATTTTTTGGGTCAC
190 GCATTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTCGGGTCA-
* * * * *
18409 TTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCATGGTTTTTTGCTAAAAACGTGTTC
254 GTTTTTG--------T---CGAAATCTTGT-CTAACCAT-ACGGTTTTTGGCTAAAAACGCGTTC
*
18474 CGGGGCTCCAG
306 CGGGGCCCCAG
* * * * *
18485 TTCAGTTATGCATGATTTTTGGCGTAAAGACTTCTTGAAATATCTATATTCATCGAATCAAATCC
1 CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
*
18550 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTTATTTCGATTTAATTAGA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATC-TTGTTTCGATTTAATTAGA
* * * * *
18615 AATTAATTCAGAAAAAATTG-AAAA--ATATTAGAAGCGTGAAAAACCCGTCAACATTTTTGGCA
130 AATAAATTCGGAAAAAA-TGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAA-TTTTTTTGCA
* *
18677 TTGAATTATATATTTTTTCTTG-GTATTGTGGCAAAAAATTGA-GAAAGAACTCTTTTC-GGTCA
193 TTGAATTATATATTTTTT-ATGAGTATTGTGGCAAAAAATTGAGGAAA-AA--ATTTTCGGGTCA
* * * * * ** * ***
18739 GTTTTTAGCCGAAA--TTGTGT-A-CATTCAAGGTTTTTGACTAAAAACGCCTTTTGAGGCCGTG
254 GTTTTT-GTCGAAATCTTGTCTAACCA-T-ACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCA
18800 G
316 G
* *** * * * ** **
18801 CTCAGTTTTGCATGGTTTTTGGCGCCTAGACTTCTTGAAATATCTTTATTAATTTAGTCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* * * * * *
18866 CAGTCACATTGAATTTAAGGAATTATTTTTACGTGCATCTGAATCTTGTTTCGATTGAATTAGAA
66 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * * * *
18931 ATTAATTTAGAAAAAAATGAAAGACGATATTAAAAGC
131 A-TAAATTCGGAAAAAATGAAAAACGATATTAGAAGC
18968 AAGAAAAGTT
Statistics
Matches: 3763, Mismatches: 699, Indels: 493
0.76 0.14 0.10
Matches are distributed among these distances:
311 83 0.02
312 21 0.01
313 350 0.09
314 197 0.05
315 96 0.03
316 170 0.05
317 14 0.00
318 96 0.03
319 82 0.02
320 315 0.08
321 227 0.06
322 224 0.06
323 240 0.06
324 147 0.04
325 99 0.03
326 127 0.03
327 74 0.02
328 37 0.01
329 32 0.01
330 69 0.02
331 181 0.05
332 201 0.05
333 56 0.01
334 162 0.04
335 92 0.02
336 123 0.03
337 28 0.01
338 42 0.01
339 15 0.00
340 1 0.00
343 1 0.00
344 130 0.03
345 6 0.00
350 1 0.00
351 4 0.00
352 10 0.00
353 10 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (316 bp):
CTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
ATAAATTCGGAAAAAATGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTTGCATTG
AATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGGAAAAAATTTTCGGGTCAGTTTTTG
TCGAAATCTTGTCTAACCATACGGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCAG
Found at i:17590 original size:313 final size:315
Alignment explanation
Indices: 13941--19007 Score: 3429
Period size: 320 Copynumber: 15.7 Consensus size: 315
13931 TTTTTAGCCC
* * * *
13941 CGACTCAGTTTTGCATGATTTTTGACGTAAAAACTCCTTGAAATA-CTATATTCATCGAACTAAA
1 CGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
* * * * * *
14005 TCCCAGCCACATTCGATTTAAGGATTTGTTTTTATGAGCA-CGTAAATCTCGTTTCAATTTAATT
66 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATC-TGAATCTTGTTTCGATTTAATT
* * ** *
14069 AGAAATTAATTCGAAAAAAAAAAAGAAAAACGATATTAGAAGCGT-AAAAACCCCTCCAATCTTT
130 AGAAATAAATTCG--GAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAA-CCCTTCAATCTTT
* * * * *
14133 TTGGCCTTGAACTATATATTTTTTATGAGTATTGTGGCAAAAAATAAAGAAAAAAATTTTCAGAT
192 TTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC--AAAAT--TGAGAAAAATTTT--GGT
* ** * * * * * *
14198 CAGTTTTTAGCCGAAATCG-G--------GTCACGGTTTTTGGCTAAAAATGC-ATTCCGGGATC
251 AAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGGG-CC
14253 T
315 T
* * * * * *
14254 CGACTCAATTTTGCATGGTTTTTGGCATAAAAACTCCTTGAAATATCTATATTAATCTAATCAAA
1 CGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
* * * * *
14319 TCTCAGTCACATTGGATTTAAGGATTTGCTTTTAAGAGCATCTGAATCTTATTTCAATTTAATTA
66 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
* * *** * *
14384 GAAATAAATTCAGAAAATAAAATGG-AGAACGATATTAGATTAGTGAAAACCCCTTCAATTTTTT
131 GAAATAAATTC-G-GAA-AAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTTT
* * * * *
14448 TGGCATTGAATTATATATTATTTCTGAGTATTGGGGAAAAAATTGAGAAAAATCTTTTCGAGTCA
193 TGGCGTTGAATTATATATTTTTTATGAGTATTGTGG-CAAAATTGAGAAAAA--TTTT---G---
* * * *
14513 GTTTTTGCAAAATTTTAG-CTAAAATCGTGTATTATCCATCACAGTTTTTGGCTAAAAACGCG-T
249 G----T--AAAATTTTAGTC-GAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTT
* *
14576 TCCGGAGCCC
307 TCAGG-GCCT
* * ** *
14586 CGACTCAATTTTGCATTG-TTTTTGACGCAAAGACTCCTTGAAATATCTATATTCATCGTACCAA
1 CGACTCAGTTTTGCA-TGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAA
* * * * *
14650 ATCTCAGCCACATTGGATATAAAGATTTGTTTTTA-GAAGAATCTCAATCTTATTTCGATTTAAT
65 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACG-AGCATCTGAATCTTGTTTCGATTTAAT
* * * * * * * *
14714 TACAAATTAATTCAGAAAAAAAGAAAAAAGAAAAATGATATTAGAAGTGTGAAAAGCCCGTCAAT
129 TAGAAATAAATTCGGAAAAAATG------GAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT
** * * *
14779 CTTTTTGAAGTTGAATTATATATTTTTTATGAGTGTCGTGGCAAAAACTGAGAAAAAAATCTTTC
188 CTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC-AAAATTGAG--AAAAAT-TTT-
* ** * * * * *
14844 GGTTAGTTTTTCGCCGAAATCGTGAACTAACCATCACGATTTTTCGCTAAAAACGCGTTTCAGGG
248 GGTAAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGGG
*
14909 CCC
313 CCT
* * * * *
14912 CAGTTCAGCTTAGTTTTACATGATTTTTGACATAAAGACTCCTTGAAATATCCATATTCATCTAA
1 C-G---A-CTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAA
* * * * * * * *
14977 CCAAATCTCATCTACATTAGATTTACGGATTTGCTTTTACAAGTATCTAAATCTTGTTTCGATTT
61 CCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTT
* * ** * *
15042 AATTAAAAATTAATTCGGAAAAAAAACGAAAAACGATATTAGAATCGTGAAAAAACCCTTCAATT
126 AATTAGAAATAAATTCGG-AAAAAATGGAAAAACGATATTAGAAGCGTG-AAAAACCCTTCAATC
* ** * **
15107 TTTTTTGTATTGAATTATATATTTTTTCTGACAATTGTGGCAAAAAATTGAGGTAAAAGTCTTCG
189 TTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC--AAAATTGA-G---AA-------
* * * * ** * *
15172 AGACAGTTTTTGCAAAATTTTAGCCGAAATCGTGAACTAACCATCAAAGTTTTT-TCTAAAAACA
241 A-A-A-TTTTGGTAAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACG
* * *
15236 CGTTCCGGGGCCC
303 CGTTTCAGGGCCT
* * * ** * * *
15249 CGGCTCAGTTTTGCAT-ATTTTTGGCGTGAAGTTTTCTTGAAATATCTATAATCATCGAACCGAA
1 CGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
* * * * * *
15313 TCCCAGCCACATAGGATAATAAGGATTTGTTTTTACGAGTATCTGAATCTTGTATAGA--T--TT
66 TCTCAGCCACATTGGAT-TTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
* *
15374 ---AATAAATTCGGAAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAATCCTTCAATCGTT
130 AGAAATAAATTCGG---AAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTT
* * * * ** *
15436 TTGGTGTTGAATTATATATTTTTT-TAGAGTATTGTGGTAAAAATTCAGGAAAAAGAAATCAGCT
192 TTGGCGTTGAATTATATATTTTTTAT-GAGTATTGTGG-CAAAATT---GAGAAA-AATTTTGGT
* * * * * * ** *
15500 CAATTTTTAGCCGAAATCATGTACGT--TC-TCACGATTTTTCTTCTAAAAACGTGTTCCGCCGT
251 AAAATTTTAGTCGAAATCGTGTAC-TAACCATCACGGTTTTT-GGCTAAAAAC--G---CG--TT
*
15562 TCTGGGGTCC-
307 TC-AGGG-CCT
* * * * * * * *
15572 CGGCTTAGTTTTGCATGATTTTTAGCGTGAAGAATTCTTGAAATATCTATATTCATCTAACCAAA
1 CGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
* * * *
15637 TCTCAGACACTTTGGATTGAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
66 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
* * ** *
15702 CAAATAAATTCGGAAAACAAATATATGGAAAAACGATATTAGAAGCATGAAAAACCCTTCTTTTT
131 GAAATAAATTCGG---A-AAA-A-ATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTC-AATC
* * * * * *
15767 TTTTTAGTGTTGAGTTATATA-TTTTTACTGAATATTGTAGCAAAAAACTGAGAAAAATTTTTCG
189 TTTTTGGCGTTGAATTATATATTTTTTA-TGAGTATTGTGGC--AAAATTGAGAAAAA--TTT--
* * **
15831 TGTCAGTTTTTGCAAAATTTTAGCCGTAACTCGAAAT-GATGTATTAATCATCACGGTTTTTTAC
247 TG---G----T--AAAATTTTA---G----TCGAAATCG-TGTACTAACCATCACGGTTTTTGGC
* * **
15895 TAAAAACACGTTCCAGTATCCT
295 TAAAAACGCGTTTCAG-GGCCT
* * * ** *
15917 -GGCTCAGTTTTGCATAATTTTTGGCGTAAATG-CTTATTGAAGTATCTATATTCATCGAACCAA
1 CGACTCAGTTTTGCATGATTTTTGGCATAAA-GACTCCTTGAAATATCTATATTCATCGAACCAA
* * * * *
15980 AT-TCCAGCCAAATTCGATTTAACGATTTCTTTTTATGAGCATCTGAATCTTGTTTCGATTTAAT
65 ATCT-CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
* * * * *
16044 TAGAAATTAATTCAG-ATAAAT-GAAAAACGATATTAGAAGTGTGAAAAACCGTTCAATCTTTTT
129 TAGAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTT
* *
16107 GGAGTTGAATTATATATTTTTTATGTGTATTAG-GGCAAAAAATTGAGAAAAAAAAATTCTTCGG
194 GGCGTTGAATTATATATTTTTTATGAGTATT-GTGGC--AAAATTGAG----AAAAATT-TT-GG
* ** * * * * * * *
16171 CTCAGTTTTTAGCCGAAATCGTGTATTTATCATCAAGGCTTTT-GCTAAAAACGCGTTTCTGGGC
250 -TAAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGGGC
16235 CT
314 CT
* * **
16237 CGACTCATTTTTTCATGGCTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
1 CGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
* * * * * *
16302 TCTCAGCCACAGTGGATATAACGATTTGTTTTTACGAGCATCTTAGTCTTGTTTCGGTTTAATTA
66 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
* * * *
16367 GAAATTAATTCGGAAATAAAATGG-AAAAGGATATTAGAAGCGTGAAAAGCCCGTT-AATCTTAT
131 GAAATAAATTCGG-AA-AAAATGGAAAAACGATATTAGAAGCGTGAAAAACCC-TTCAATCTTTT
* * ** * *
16430 TGGCGATGAATTGTATATTTTTCCTGAGTATTGTGGCAAAAATGGCAGAAAAATTGTTTCAGGTC
193 TGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC-AAAATTG-AGAAAAA-T-TTT--GGTA
* * * * * * **
16495 AATTTTTAGTCGATATCGTGTGCTAACCACCACGGTATTTGGGCTAAAAACGCGTTCCACAGCC-
252 AAATTTTAGTCGAAATCGTGTACTAACCATCACGGT-TTTTGGCTAAAAACGCGTTTCAGGGCCT
* * * * * *
16559 CCAGCTCAATTTTGCATGATATTTGGCAGAAAGACTCCTAGAAATATCTATATTCATCTAACCAA
1 CGA-CTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAA
* * * * *
16624 ATCTTAGCCACATTGGATTTAAGGATTTATTTTTACGAGCATTTGAAGCCTGTTTCGATTTAATT
65 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
* *
16689 AGAAATAAATTCGGGAAAAATGAAAAAACGATATTAGAAGCGTGAAAAAACCCTTCAAT-TTTTT
130 AGAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAAACCCTTCAATCTTTTT
* * * * *
16753 TGCATTGAATTATATATTTATTATGACTATTGTGATGAAATAATTGAGGAAAAAGTTTTCGAGT-
194 GGCGTTGAATTATATATTTTTTATGAGTATTGTG--GCAA-AATTGA-GAAAAA-TTTT-G-GTA
* * * ** * * * * * * * * * *
16817 CAATTTTTG-CAAAATTTTAGT-CGGAATCGT-GCGGTTTTTTGTTAAAAGCGCCTTCCGGGGCC
252 AAATTTTAGTCGAAATCGT-GTAC-TAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGGGCC
16879 -
315 T
* * * *
16879 CCATCTCAGTTTTGCATGATTTTTGACGTAAAAACTCCTTGAAATATCTATATTCATCGAACCAA
1 CGA-CTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAA
* * *
16944 ATCTCAGCCACATTGGCTTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCCATTTAATT
65 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
* * *
17009 AGAAATAAATTCGGGAAAAAATGGAAAAACGATATTAGAGGCATGAAAAACCC-TCAATCCTTTT
130 AGAAATAAATTC-GGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTT
* * * *
17073 GGCATTGAATTATATATATTTTATGAGTATTGTGGTAAAAAATTGAGAAAAACTATTTGGGT-TA
194 GGCGTTGAATTATATATTTTTTATGAGTATTGTGG--CAAAATTGAGAAAAA-T-TTT-GGTAAA
* * * * * *
17137 GTTTTA-TCCGAAATCGGGTACTAACCATCATGGTTTTTCGCAAAAAAACGCGTTTCGGGGCCT
254 ATTTTAGT-CGAAATCGTGTACTAACCATCACGGTTTTTGGC-TAAAAACGCGTTTCAGGGCCT
* * * * * * *
17200 CGCCTCAGTATTGCAT-AGTTTTTTGCATAAATACTCCTTGAAATATTTATATTCATCTAAACAA
1 CGACTCAGTTTTGCATGA-TTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAA
* * *
17264 ATCTCAGCCACATTGGATTTAATGATTTGTTTTTACGAGCATCTAAATCTTGTTTTGA-TTAATT
65 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT
* * * *
17328 AGAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCATGAAAAGCCCTTCAATATTTTTT
130 AGAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTG
* *** * *
17393 GCGTTGAATTATATA-TTTTTATGAGTATTGTGGCAAATTTCG-GGTTAGTTTTTGTAAAATTTT
195 GCGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAATT-GAGAAAAATTTTGGTAAAATTTT
* * * * * *
17456 AGTTGAAATCTTGTACTAACCATCACGATTTTTGGTTAAAAACGCATTTCAGGGTCT
259 AGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGGGCCT
* * *
17513 CGACTCAATTTTGCATGATTTTTGGCAAAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
1 CGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
* * ** *
17578 TCTCAGCCACATTGGATTTAAGAATTTGTTTTCA-GTTTCAT-TCAAGTCTTGTTTCGATTT-AT
66 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACG-AGCATCTGAA-TCTTGTTTCGATTTAAT
* * * ** * *
17640 TATAAATAAAAAGTTCAGAAAAAA-GGAAAAACAATATTAGCCGCGTGAATAACCCTTCAATTTT
129 TAGAAAT--AAA-TTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTT
* * * * *
17704 TTTGGTGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAACAATTAAAAAAAAACTTTCGGGT
191 TTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC-AA-AATT-GAGAAAAA-TTT-TGGT
* * ** * * *
17769 -CAGTTTT--T-GAAA-AAT-T--TTAGCATCACGGTTTTTGGCTAAAAACGCAG-TGC-GGAGC
251 AAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGC-GTTTCAGG-GC
*
17824 CC
314 CT
* * ** * * *
17826 CGGCTCAATTTCACATGATTTTTGGCTTAAAGACTCCTTGAAATATCTATATTTATCGAATCAAA
1 CGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
*
17891 TCTCAGCCACATTGGATATAAGGATTT-TTTCTTACGAGCATCTGAATCTTGTTTCGATTTAATT
66 TCTCAGCCACATTGGATTTAAGGATTTGTTT-TTACGAGCATCTGAATCTTGTTTCGATTTAATT
* * * * * *
17955 AGAAATTAATTTGGAAAAAA-AGAAAAACAATATTAGAAGCGTGAAAAATCCGTCAATCTTTTTG
130 AGAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTG
* * * ** *
18019 GCGTTAAATTATATATTTTTTCTGAGTATTGTGGCGAAAAATTCAGAAAAAAAAAATTCGGGT-T
195 GCGTTGAATTATATATTTTTTATGAGTATTGTGGC--AAAATT--G---AGAAAAATTTTGGTAA
* * * *
18083 AGTTTTAAGTCGAAATCGTGTACTAACCATGACGGTGTTTGGGCTAAAAACGCGTTTCGGGGCCT
253 AATTTT-AGTCGAAATCGTGTACTAACCATCACGGT-TTTTGGCTAAAAACGCGTTTCAGGGCCT
* * * * *
18148 CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTCGAAATATCTATATTCATCTAACTAAA
1 CGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
* * *
18213 TCTCAACCACATTAGATTTAAGGATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTTAATTA
66 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
* * ** *
18278 -AAGATAAATTCAGAAAAAAAATTGGAAAAACGATATTAGATGCGTGAAAAACTGTTC-ATTTTT
131 GAA-ATAAATTC-G-GAAAAAA-TGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTT
* * * *
18341 TTTGCGTTGAATTATATATTTTTTCTGACTATTGTGGCAAAAAATTAAGGAAAAATTTTTTGGGT
192 TTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC--AAAATTGA-GAAAAA--TTTT-GG-
* * * *
18406 CACTTTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCATGGTTTTTTGCTAAAAACGTG
250 --------T--AAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCG
* *
18471 -TTCCGGGGCT
305 TTTCAGGGCCT
* * * * * *
18481 CCAGTTCAGTTATGCATGATTTTTGGCGTAAAGACTTCTTGAAATATCTATATTCATCGAATCAA
1 CGA-CTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAA
* *
18546 ATCCCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTTATTTCGATTTAAT
65 ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATC-TTGTTTCGATTTAAT
* * * *
18611 TAGAAATTAATTCAGAAAAAATTG-AAAA--ATATTAGAAGCGTGAAAAACCCGTCAA-CATTTT
129 TAGAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATC-TTTT
* *
18672 TGGCATTGAATTATATATTTTTTCTTG-GTATTGTGGCAAAAAATTGAGAAAGAACTCTTTTCGG
193 TGGCGTTGAATTATATATTTTTT-ATGAGTATTGTGGC--AAAATTGAGAAA-AA---TTTT-GG
* ** * * * * * * *
18736 TCAGTTTTTAGCCGAAATTGTGTAC--A--TTCAAGGTTTTTGACTAAAAACGCCTTT-TGAGGC
250 TAAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAG-GGC
18796 CGT
314 C-T
* * **** * * * ** **
18799 -GGCTCAGTTTTGCATGGTTTTTGGCGCCTAGACTTCTTGAAATATCTTTATTAATTTAGTCAAA
1 CGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
* * * * * *
18863 TCTCAGTCACATTGAATTTAAGGAATTATTTTTACGTGCATCTGAATCTTGTTTCGATTGAATTA
66 TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
* * * * * ** ***
18928 GAAATTAATTTAGAAAAAAAT-GAAAGACGATATTAAAAGCAAGAAAAGTTC-TCTAATCTTTTT
131 GAAA-TAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTC-AATCTTTTT
18991 GGCGTTGAATTATATAT
194 GGCGTTGAATTATATAT
19008 ATATATATTA
Statistics
Matches: 3798, Mismatches: 700, Indels: 507
0.76 0.14 0.10
Matches are distributed among these distances:
311 90 0.02
312 15 0.00
313 324 0.09
314 197 0.05
315 124 0.03
316 166 0.04
317 21 0.01
318 122 0.03
319 74 0.02
320 348 0.09
321 229 0.06
322 240 0.06
323 240 0.06
324 146 0.04
325 68 0.02
326 139 0.04
327 81 0.02
328 13 0.00
329 37 0.01
330 71 0.02
331 185 0.05
332 207 0.05
333 59 0.02
334 140 0.04
335 95 0.03
336 114 0.03
337 29 0.01
338 43 0.01
339 11 0.00
340 1 0.00
342 1 0.00
343 1 0.00
344 129 0.03
345 3 0.00
347 3 0.00
350 1 0.00
351 10 0.00
352 11 0.00
353 10 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (315 bp):
CGACTCAGTTTTGCATGATTTTTGGCATAAAGACTCCTTGAAATATCTATATTCATCGAACCAAA
TCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
GAAATAAATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGG
CGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAATTGAGAAAAATTTTGGTAAAATTTTAG
TCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCAGGGCCT
Done.