Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010069.1 Corchorus capsularis cultivar CVL-1 contig10090, 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: 104297
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2324 original size:31 final size:30
Alignment explanation
Indices: 2289--2364 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 30
2279 ATACGGTACA
*
2289 GGTCCCTCTACTTATAAAAAGGGTTCAATTT
1 GGTCCCTCTACTTATAAAAACGG-TCAATTT
* * *
2320 GGTCCCTCTAC-T-GAAACACTGTCAATTT
1 GGTCCCTCTACTTATAAAAACGGTCAATTT
*
2348 GGTCACTCTACTTATAA
1 GGTCCCTCTACTTATAA
2365 TTTGGTATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
28 17 0.46
29 6 0.16
30 3 0.08
31 11 0.30
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (30 bp):
GGTCCCTCTACTTATAAAAACGGTCAATTT
Found at i:5587 original size:18 final size:18
Alignment explanation
Indices: 5566--5600 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5556 TCGATATTTA
* *
5566 TCGATATCTCGATAAATC
1 TCGATATATCCATAAATC
5584 TCGATATATCCATAAAT
1 TCGATATATCCATAAAT
5601 ATCCGTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (18 bp):
TCGATATATCCATAAATC
Found at i:7066 original size:12 final size:12
Alignment explanation
Indices: 7049--7104 Score: 85
Period size: 12 Copynumber: 4.6 Consensus size: 12
7039 CATCGATACC
*
7049 TCGATATATCCA
1 TCGATATATCCG
7061 TCGATATATCCG
1 TCGATATATCCG
7073 TCGATATATCCG
1 TCGATATATCCG
*
7085 TTCAATATATCCG
1 -TCGATATATCCG
7098 TCGATAT
1 TCGATAT
7105 CTGTATTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
12 29 0.73
13 11 0.28
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (12 bp):
TCGATATATCCG
Found at i:7094 original size:13 final size:13
Alignment explanation
Indices: 7064--7098 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
7054 ATATCCATCG
*
7064 ATATATCCG-TCG
1 ATATATCCGTTCA
7076 ATATATCCGTTCA
1 ATATATCCGTTCA
7089 ATATATCCGT
1 ATATATCCGT
7099 CGATATCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (13 bp):
ATATATCCGTTCA
Found at i:7098 original size:25 final size:24
Alignment explanation
Indices: 7049--7104 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
7039 CATCGATACC
*
7049 TCGATATATCCATCGATATATCCG
1 TCGATATATCCATCAATATATCCG
*
7073 TCGATATATCCGTTCAATATATCCG
1 TCGATATATCC-ATCAATATATCCG
7098 TCGATAT
1 TCGATAT
7105 CTGTATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (24 bp):
TCGATATATCCATCAATATATCCG
Found at i:7230 original size:31 final size:31
Alignment explanation
Indices: 7162--7232 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
7152 GGGGAAACTT
* *
7162 TATATTTTCCGATTGTACCCTTATTTTTAAAA
1 TATA-TTTCCAATTATACCCTTATTTTTAAAA
* *
7194 CATATTTCCAATTATATCCTT-TTTTTAAAAA
1 TATATTTCCAATTATACCCTTATTTTT-AAAA
7225 TATATTTC
1 TATATTTC
7233 TAAATTACCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 5 0.15
31 25 0.76
32 3 0.09
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (31 bp):
TATATTTCCAATTATACCCTTATTTTTAAAA
Found at i:7255 original size:29 final size:27
Alignment explanation
Indices: 7218--7278 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 27
7208 TATCCTTTTT
7218 TTAAAAATATATTTCTAAATTA-CCATTA
1 TTAAAAATATATTT-T-AATTATCCATTA
7246 TTAAATAATATATTTTAATTATTCCATTA
1 TTAAA-AATATATTTTAATTA-TCCATTA
7275 TTAA
1 TTAA
7279 TTATTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 5 0.17
28 6 0.20
29 19 0.63
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAAAAATATATTTTAATTATCCATTA
Found at i:17046 original size:13 final size:13
Alignment explanation
Indices: 17028--17052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17018 TGATCTTACC
17028 CTTTTTTTCTTTT
1 CTTTTTTTCTTTT
17041 CTTTTTTTCTTT
1 CTTTTTTTCTTT
17053 CAAATTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
CTTTTTTTCTTTT
Found at i:34285 original size:30 final size:30
Alignment explanation
Indices: 34237--34293 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
34227 TCAATTTTAA
**
34237 ACATTTTGCCCCCCGAACTCTAAATTTTGG
1 ACATTTTGCCCAACGAACTCTAAATTTTGG
* *
34267 ACATTTTGCCCAATGAACTCTCAATTT
1 ACATTTTGCCCAACGAACTCTAAATTT
34294 GAGACTCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (30 bp):
ACATTTTGCCCAACGAACTCTAAATTTTGG
Found at i:39644 original size:12 final size:12
Alignment explanation
Indices: 39627--39656 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
39617 GGGTTCCTAG
39627 TAAGACAATTCC
1 TAAGACAATTCC
39639 TAAGACAATTCC
1 TAAGACAATTCC
39651 TAAGAC
1 TAAGAC
39657 TCCTTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.10, T:0.23
Consensus pattern (12 bp):
TAAGACAATTCC
Found at i:45031 original size:2 final size:2
Alignment explanation
Indices: 45024--45061 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
45014 CTTCCAATCT
45024 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45062 TCATTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48868 original size:29 final size:29
Alignment explanation
Indices: 48826--48883 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
48816 TGAGAGCTTT
*
48826 GTTTCCTGATAAATAATCGAGCTTTTAAA
1 GTTTCCTAATAAATAATCGAGCTTTTAAA
* *
48855 GTTTCCTAATAAATAATTGGGCTTTTAAA
1 GTTTCCTAATAAATAATCGAGCTTTTAAA
48884 CTTTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (29 bp):
GTTTCCTAATAAATAATCGAGCTTTTAAA
Found at i:48940 original size:4 final size:4
Alignment explanation
Indices: 48931--48976 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
48921 AAAATCTCTA
*
48931 TATC TATC TATC TATC AATC TATC TA-- TATC TATC TATC TATAC TAT
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TAT-C TAT
48977 ATAAAATCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.05
4 31 0.84
5 4 0.11
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (4 bp):
TATC
Found at i:48962 original size:18 final size:19
Alignment explanation
Indices: 48939--48978 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
48929 TATATCTATC
48939 TATCTATCAATCTAT-CTA
1 TATCTATCAATCTATACTA
*
48957 TATCTATCTATCTATACTA
1 TATCTATCAATCTATACTA
48976 TAT
1 TAT
48979 AAAATCACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (19 bp):
TATCTATCAATCTATACTA
Found at i:49251 original size:15 final size:15
Alignment explanation
Indices: 49226--49278 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
49216 TAATAATTTT
49226 TTTAGATTATAATATA
1 TTTA-ATTATAATATA
49242 TTTAATTATAATAT-
1 TTTAATTATAATATA
* *
49256 TATTATTTATAGTATA
1 T-TTAATTATAATATA
49272 TTATAAT
1 TT-TAAT
49279 ATTAATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 1 0.03
15 22 0.71
16 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (15 bp):
TTTAATTATAATATA
Found at i:49559 original size:13 final size:14
Alignment explanation
Indices: 49534--49568 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
49524 ACACAAAATG
49534 ATCATTCTGATTA-A
1 ATCATT-TGATTACA
49548 ATCATTTGATTACA
1 ATCATTTGATTACA
49562 ATCATTT
1 ATCATTT
49569 TGTTTAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (14 bp):
ATCATTTGATTACA
Found at i:54550 original size:29 final size:29
Alignment explanation
Indices: 54502--54562 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
54492 AATAAATCAA
54502 TTTCATAACCAACTAAATCAAAAGAAGTT
1 TTTCATAACCAACTAAATCAAAAGAAGTT
* * * *
54531 TTTCATAACCAATTAGATCAGAATAAGTT
1 TTTCATAACCAACTAAATCAAAAGAAGTT
54560 TTT
1 TTT
54563 ATTCAAAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (29 bp):
TTTCATAACCAACTAAATCAAAAGAAGTT
Found at i:54858 original size:13 final size:14
Alignment explanation
Indices: 54840--54874 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
54830 CAGTAATGAT
*
54840 CAAACACCAAAA-C
1 CAAACAACAAAAGC
54853 CAAACAACAAAAGC
1 CAAACAACAAAAGC
54867 CAAACAAC
1 CAAACAAC
54875 TCTGGCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.63, C:0.34, G:0.03, T:0.00
Consensus pattern (14 bp):
CAAACAACAAAAGC
Found at i:57714 original size:330 final size:328
Alignment explanation
Indices: 56448--59110 Score: 2122
Period size: 330 Copynumber: 8.1 Consensus size: 328
56438 AATCTTTTTG
* * *
56448 GCGTGAAAACGTCCTTCAATATTTTTAGCGTT-AGATTATATATATTTCATGAGTATTTTAGCCA
1 GCGTGAAAA-GTCCTTCAAT-CTTTTGGCGTTGA-ATTATATATATTTTATGAGTATTTTAGCC-
* * * * * * *
56512 AAAATTAAGGAAAAAATTTTT-TGGTCATTTTTTGCAAAATTTTAGACGAAATTGTTTATTAACC
62 AAAATTGAGG-AAAAATTTTTCGGGTCAATTTTTGCAAAA-TTTAGCCGAAATCGTGTACTAACC
* * * *
56576 ATCACGGTTTTTTTTTTTTGCTAAAAAACGCGTTTCGGGGGCCTCGGGTTAGTTTTACATGATTT
125 ATCACGG------TTTTTGGCT-AAAAACGCGTTTC-GGGGCCCCGGCTTAGTTTTGCATGATTT
** * * * * *
56641 TTGGCATCGAGACTCCTTAAAATATATATATTCATCTAATCAAATCTCAGCCACATTGCATTTAT
182 TTGGCGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTA-
* ** *
56706 A-GATTTGTTTTTTTACGAGCTTCTGAATCTTGTTTCGATTTAATTAGATTTTAATTTAGAAAAA
246 AGGATTTG--TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAA
56770 TATGAAAAACGATATTAAAA
309 TATGAAAAACGATATTAAAA
* * * * * * *
56790 GCGTGAAAATTGC-TCTAATATTTATGGAGTTGAGTTATATATATTTTGTGAGTATTTTAGACAA
1 GCGTGAAAAGTCCTTC-AATCTTT-TGGCGTTGAATTATATATATTTTATGAGTATTTTAGCCAA
* * * **
56854 ATATTGAGGAAAACTATTTCTGGTCAATTTTTGCAAAATATTAGCCGAAATCGTGTACATTTGTC
64 A-ATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAAT-TTAGCCGAAATCGTGTAC---TAAC
* ** * * * * *
56919 GAAATCACGGTTTTTTCCTAAAAACGTGTTCCGGGGCTCCGG-TTCAGTGTTGCATGATTTTTTG
124 --CATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTT-AGTTTTGCATGATTTTTGG
* ** * * * * * * *
56983 CACTGATACTCCTTGAAATGTCTATATTAATGTAACCTAATCTCATCCACAATGGATTTAAGGAT
186 CGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGAT
*** * * * *
57048 TTG-TAAAACAAGCATCTGAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAATAATAAGA
251 TTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAA-AATATGA
* *
57112 AAAACGATACTAGAA
314 AAAACGATATTAAAA
* * * * *** *
57127 GCATGAAAAGCCCTTCAATATTTTTGGCGTTGAATAATATA-ATTTTTATGAGTATTGCGGCTAA
1 GCGTGAAAAGTCCTTCAAT-CTTTTGGCGTTGAATTATATATA-TTTTATGAGTATTTTAGC-CA
** * *
57191 AAATTGA-GAAAATAACTTTCGAGTCAATTTTTGCAAAATTCTAGCCGAAATCGTGTGA-TAATC
63 AAATTGAGGAAAA-ATTTTTCGGGTCAATTTTTGCAAAATT-TAGCCGAAATCGTGT-ACTAACC
* * * * **
57254 ATCACTGGTTTTTGGCTAAAAACGCG-TTCCGGGTCCCAGCTAAGTTTTGCATGATTTTTTACGC
125 ATCAC-GGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTTAGTTTTGCATGATTTTTGGCGC
* * * * * * * * * *
57318 CAAAATTCTTTGAGATATCCATATTCATATAATCAAATCTCAGCTACATTGGATTGAAGAATTTG
189 CAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTG
*
57383 TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAGTATGAAAAAC
254 TTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAAC
57448 GATATTAAAA
319 GATATTAAAA
* ** *
57458 GCATGAAAAGTCCACCAATCCTTTTGGCGTTAAATTATATATATTTTATGAGTA-TTTATGCCAA
1 GCGTGAAAAGTCCTTCAAT-CTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTA-GCCAA
* * * * *
57522 AATTGACGGAAAAATTTTTCGGATCATTTTTTACAAAATTTAGCCGAAATAGTGTATTAACCATC
64 AATTGA-GGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTAGCCGAAATCGTGTACTAACCATC
* * * * **
57587 ATGGTTTTTGGCTTAAAACGTGTTTCGGGACCCCGGCTTAGTTTTGCATGATTTTTGGCATCAAG
128 ACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTTAGTTTTGCATGATTTTTGGCGCCAAG
* * *
57652 ACTCCTTGAAATATCTATATTCATCTAATCAAATATCAGCCACATTGAATTTAAGGATTTGTTTT
193 ACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTT
* *
57717 TACGAGTATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAAAAAAATATGAAAAACGATA
258 TACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATA
57782 TTAAAA
323 TTAAAA
* * * * * * * * **
57788 GCGTTG-AGACTCCTCCAATCTTTTTGGCTTTTAATTATATATATTCTATGAGTATTGTGGTTAA
1 GCG-TGAAAAGTCCTTCAATC-TTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAG-CCA
* * ** *
57852 AAATGGAGGAAAAATATTTCGGGTCAATTTTTGCAAAATTTAGTTGAAATCGTG---T-ACCATT
63 AAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTAGCCGAAATCGTGTACTAACCATC
* * * *
57913 ACGGTTTTTTTTTGGCTAAAAATGCGTTCTGGGGGCCCCGGGTAAGTTTTGCATGATTTTTGGTC
128 ACGG----TTTTTGGCTAAAAACGCGTT-TCGGGGCCCCGGCTTAGTTTTGCATGATTTTTGG-C
* * * * *
57978 G-CAACATTCCTTTAAATATCTATATTCATCT-ACCAAATCTTAGCTACATTGGATTTAAGGATT
187 GCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATT
* * * * * * * *
58041 TGTTTTCACAAGCATTTGAATCATGTTTCAATTTAATTAGAAATTAATTTGAAAACAAATAGGAA
252 TGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA-TTCAGAA-AAATATGAA
*
58106 AAACGATATTAGAA
315 AAACGATATTAAAA
* * * * *
58120 GCGTGAGAAGTCCTTCAATCTCTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCTAAA
1 GCGTGAAAAGTCCTTCAATCT-TTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGC-CAA
* * * * * * * *
58185 AATTGA-GAAAAATATTTCGGGTCAGTTTTTGTAAAGCTTTAGCCGAAATCTTATACT-ATCATG
64 AATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAA-ATTTAGCCGAAATCGTGTACTAACCATC
*** * * ** *
58248 ATTTTTTTTTTGCTAAAACCGCGTTTCGGGGCTCTAGG-TCAGTTTTGCATGATTTTTGGCGCCA
128 A-CGGTTTTTGGCTAAAAACGCGTTTCGGGGC-CCCGGCTTAGTTTTGCATGATTTTTGGCGCCA
* * *
58312 AGACTCCTT----TATATATATTCATCTAACCAAATTTCAGCCACATTGTATTTAAGGATTTGTT
191 AGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTT
* ** * * * * *
58373 TGTACGAGTTTCTAAATCCTGTTTCGATTTAATTAGAAATTAATTTTGAAATAAAATAGGAAAAA
256 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA--TTCAGA-AAAATATGAAAAA
* *
58438 CAATATTAGAA
318 CGATATTAAAA
* * * *
58449 GCGTGAAAAAGGCTTTCAA----TT----TT---TT-TAT-T-TTTTATGAGTATTTTCGCTAGA
1 GCGTG-AAAAGTCCTTCAATCTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCCA-A
* * * * * *
58500 AATCGAGGAAAAATTTTTCAGGTTAATTTTTGTAAAATTTAGCCAAAATCATGTACTAACCATCA
64 AATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTAGCCGAAATCGTGTACTAACCATCA
* * * ** * * *
58565 CGGTTTTCGGCTAAAAATGCGTTCCACGG-TCCGGCTCAGTTTTTGCATGATTTTTGGTGCCAAG
129 CGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTTAG-TTTTGCATGATTTTTGGCGCCAAG
* * * * *
58629 ACTCCTTGAAATATTTATATTAATCTAACCAAATTTCAGCCACATTAGATTTAAGGATTTATTTT
193 ACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTT
* * *
58694 TACGAACATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTC-G--------GAAAAACAATA
258 TACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATA
58750 TTAGAAA
323 TTA-AAA
** * *** * *
58757 -CGTTCAAAGCCCTTCAATCTTTTGATATCGAATTATATATTTTTTATGAGTATTTTAGCCAAAA
1 GCGTGAAAAGTCCTTCAATCTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCC-AAA
* * * * * *
58821 ATTGAGGAAATATATTTT-GGGTTAATTTTTACAAAATTTTAGCCGAAATTGTGTACAAATCATC
65 ATTGAGGAAAAAT-TTTTCGGGTCAATTTTTGCAAAA-TTTAGCCGAAATCGTGTACTAACCATC
* * * * * * * ** ***
58885 ACAGTTTTTGGCTAAATACGCGTTACAGGGTCACGACTCT-GTTTTGCATGATTTTTTACGTTGA
128 ACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCT-TAGTTTTGCATGATTTTTGGCGCCAA
* * * * *
58949 TACTCCATGAAATATCTTTATTTATCTAACCAAATCTCAGCCACATTGGATGTAAGGATTTGTTT
192 GACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTT
* * * * * **
59014 TTATGTA-CATTTGAATTTTGTTTCGATTTAATAAAAAATTAATTCAGAAAAAATATGAAACGCG
257 TTACG-AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAG-AAAAATATGAAAAACG
59078 ATATTAAAA
320 ATATTAAAA
*
59087 TCGTGAAAAGT-CTTCCAATCTTTT
1 GCGTGAAAAGTCCTT-CAATCTTTT
59111 TTTGACATCT
Statistics
Matches: 1871, Mismatches: 351, Indels: 209
0.77 0.14 0.09
Matches are distributed among these distances:
306 10 0.01
307 17 0.01
308 2 0.00
310 2 0.00
313 2 0.00
314 6 0.00
315 88 0.05
316 31 0.02
317 7 0.00
318 5 0.00
319 84 0.04
320 45 0.02
321 165 0.09
322 7 0.00
325 2 0.00
326 8 0.00
327 15 0.01
328 66 0.04
329 54 0.03
330 373 0.20
331 252 0.13
332 198 0.11
333 61 0.03
334 1 0.00
335 45 0.02
336 10 0.01
337 102 0.05
338 86 0.05
339 11 0.01
340 25 0.01
341 72 0.04
342 10 0.01
344 2 0.00
346 7 0.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (328 bp):
GCGTGAAAAGTCCTTCAATCTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGCCAAAA
TTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTAGCCGAAATCGTGTACTAACCATCACG
GTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTTAGTTTTGCATGATTTTTGGCGCCAAGACT
CCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTAC
GAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTA
AAA
Found at i:58228 original size:662 final size:654
Alignment explanation
Indices: 56482--59093 Score: 2073
Period size: 662 Copynumber: 4.0 Consensus size: 654
56472 TTAGCGTTAG
* * * * ** ** *
56482 ATTATATATATTTCATGAGTATTTTAGCCAAAAATTAAGGAAAAA-ATTTTTTGGTCATTTTTTG
1 ATTATATATATTTTATGAGTATTGTGGCTAAAAATCGAGGAAAAATA-TTTCGGGTCAATTTTTG
* * * *
56546 CAAAATTTTAGACGAAATTGTTTATTAACCATCACGGTTTTTTTTTTTTGCTAAAAAACGCGTTT
65 CAAAA-TTTAGCCGAAATCG--T-GTAACCATCACGG--TTTTTTTTTGGCT-AAAAACGCG-TT
* * * * ** * * * * *
56611 CGGGGGCCTCGGGTTAGTTTTACATGATTTTTGG-CATCGAGACTCCTTAAAATATATATATTCA
122 CGGGGGCCCCGGCTAAGTTTTGCATGATTTTTGGTCGCCAACATTCCTTTAAATATCTATATTCA
* * * *
56675 TCTAATCAAATCTCAGCCACATTGCATTTATA-GATTTGTTTTTTTACGAGCTTCTGAATCTTGT
187 TCTAACCAAATCTCAGCCACATTGGATTTA-AGGATTTG--TTTTTACAAGCATCTGAATCTTGT
** * * *
56739 TTCGATTTAATTAGATTTTAATTTAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAATTGC-
249 TTCGATTTAATTAGAAATTAA-TTAGAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGTCCT
* * * * * * *
56803 TCTAATATTTATGGAGTTGAGTTATATATATTTTGTGAGTATTTTAGACAAATATTGAGGAAAAC
313 TC-AATCTTT-TGGCGTTGAATTATATATATTTTATGAGTATTTTAGGCAAAAATTGAGGAAAAA
* ** *
56868 TATTTCTGGTCAATTTTTGC-AAAATATTAGCCGAAATCGTGTACATTTGTCGAAATCACGGTTT
376 TATTTCGGGTCAATTTTTGCAAAAAT-TTAGCCGAAATCGTGTAC---TAAC--CATCACGGTTT
** * * * * * * *
56932 TTTCCTAAAAACGTGTTCCGGGGCTCCGGTTCAGTGTTGCATGATTTTTTGCA-CTGATACTCCT
435 TTGGCT-AAAACGCGTTTCGGGGCCCCGGTT-AGTTTTGCATGATTTTTGGCATC-AAGACTCCT
* * * * * * *** *
56996 TGAAATGTCTATATTAATGTAACCTAATCTCATCCACAATGGATTTAAGGATTTG-TAAAACAAG
497 TGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAG
* * * * *
57060 CATCTGAATCATGTTTCGATTTAATTAGAAATTAATTCGGAAAATAATAAGAAAAACGATACTAG
562 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC--AAAAAAATATGAAAAACGATATTAA
* * *
57125 AAGCATGAAAAGCCCTTCAATATTTTTGGCGTTGA
625 AAGCGTG--AA-CCC-TCAAT-TTTTTGGCTTTCA
* * * *
57160 ATAATATA-ATTTTTATGAGTATTGCGGCTAAAAATTGA-G-AAAATAACTTTCGAGTCAATTTT
1 ATTATATATA-TTTTATGAGTATTGTGGCTAAAAATCGAGGAAAAAT-A-TTTCGGGTCAATTTT
*
57222 TGCAAAATTCTAGCCGAAATCGTGTGATAATCATCACTGG----TTTTTGGCTAAAAACGCGTTC
63 TGCAAAATT-TAGCCGAAATC--GTG-TAACCATCAC-GGTTTTTTTTTGGCTAAAAACGCGTTC
* * * * * *
57283 -CGGGTCCCAGCTAAGTTTTGCATGATTTTT--TACGCCAAAATT-CTTTGAGATATCCATATTC
123 GGGGGCCCCGGCTAAGTTTTGCATGATTTTTGGT-CGCCAACATTCCTTT-AAATATCTATATTC
* * * * * *
57344 ATATAATCAAATCTCAGCTACATTGGATTGAAGAATTTGTTTTTACGAGCATCTGAATCTTGTTT
186 ATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTT
* * * **
57409 CGATTTAATTAGAAATTAATTCAGAAAAGTATGAAAAACGATATTAAAAGCATGAAAAGTCCACC
251 CGATTTAATTAGAAATTAATT-AGAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGTCCTTC
* * * *
57474 AATCCTTTTGGCGTTAAATTATATATATTTTATGAGTA-TTTATGCCAAAATTGACGGAAAAATT
315 AAT-CTTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGGCAAAAATTGA-GGAAAAATA
* * * * * *
57538 TTTCGGATCATTTTTTAC-AAAATTTAGCCGAAATAGTGTATTAACCATCATGGTTTTTGGCTTA
378 TTTCGGGTCAATTTTTGCAAAAATTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGC-TA
* *
57602 AAACGTGTTTCGGGACCCCGGCTTAGTTTTGCATGATTTTTGGCATCAAGACTCCTTGAAATATC
442 AAACGCGTTTCGGGGCCCCGG-TTAGTTTTGCATGATTTTTGGCATCAAGACTCCTTGAAATATC
* * * *
57667 TATATTCATCTAATCAAATATCAGCCACATTGAATTTAAGGATTTGTTTTTACGAGTATCTGAAT
506 TATATTCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAAT
57732 CTTGTTTCGATTTAATTAGAAATTAATTCAAAAAAATATGAAAAACGATATTAAAAGCGTTGAGA
571 CTTGTTTCGATTTAATTAGAAATTAATTCAAAAAAATATGAAAAACGATATTAAAAGCG-TGA-A
*
57797 CTCCTCCAATCTTTTTGGCTTTTA
634 C-CCT-CAAT-TTTTTGGCTTTCA
* * *
57821 ATTATATATATTCTATGAGTATTGTGGTTAAAAATGGAGGAAAAATATTTCGGGTCAATTTTTGC
1 ATTATATATATTTTATGAGTATTGTGGCTAAAAATCGAGGAAAAATATTTCGGGTCAATTTTTGC
** * *
57886 AAAATTTAGTTGAAATCGTGT-ACCATTACGGTTTTTTTTTGGCTAAAAATGCGTTCTGGGGGCC
66 AAAATTTAGCCGAAATCGTGTAACCATCACGGTTTTTTTTTGGCTAAAAACGCGTTC-GGGGGCC
*
57950 CCGGGTAAGTTTTGCATGATTTTTGGTCG-CAACATTCCTTTAAATATCTATATTCATCT-ACCA
130 CCGGCTAAGTTTTGCATGATTTTTGGTCGCCAACATTCCTTTAAATATCTATATTCATCTAACCA
* * * * * *
58013 AATCTTAGCTACATTGGATTTAAGGATTTGTTTTCACAAGCATTTGAATCATGTTTCAATTTAAT
195 AATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAAT
* * *
58078 TAGAAATTAATTTGAAAACAAATAGGAAAAACGATATTAGAAGCGTGAGAAGTCCTTCAATCTCT
260 TAGAAATTAA-TT-AGAA-AAATAGGAAAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCT-T
* *
58143 TTGGCGTTGAATTATATATTTTTTATGAGTATTGT-GGCTAAAAATTGA-GAAAAATATTTCGGG
321 TTGGCGTTGAATTATATATATTTTATGAGTATTTTAGGC-AAAAATTGAGGAAAAATATTTCGGG
* * ** * * * * *** *
58206 TCAGTTTTTGTAAAGCTTTAGCCGAAATCTTATACT-ATCATGATTTTTTTTTTGCTAAAACCGC
385 TCAATTTTTGCAAAAATTTAGCCGAAATCGTGTACTAACCATCA-CGGTTTTTGGCTAAAA-CGC
** * ** *
58270 GTTTCGGGGCTCTAGGTCAGTTTTGCATGATTTTTGGCGCCAAGACTCCTT----TATATATATT
448 GTTTCGGGGC-CCCGGTTAGTTTTGCATGATTTTTGGCATCAAGACTCCTTGAAATATCTATATT
* * * ** * *
58331 CATCTAACCAAATTTCAGCCACATTGTATTTAAGGATTTGTTTGTACGAGTTTCTAAATCCTGTT
512 CATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTT
* * * *
58396 TCGATTTAATTAGAAATTAATTTTGAAATAAAATAGGAAAAACAATATTAGAAGCGTGAA-----
577 TCGATTTAATTAGAAATTAA--TTCAAA-AAAATATGAAAAACGATATTAAAAGCGTGAACCCTC
*
58456 AA-----AGGCTTTCA
639 AATTTTTTGGCTTTCA
* * * * * * * * *
58467 ATTTTTTTATTTTTTATGAGTATTTTCGCTAGAAATCGAGGAAAAATTTTTCAGGTTAATTTTTG
1 A-TTATATATATTTTATGAGTATTGTGGCTAAAAATCGAGGAAAAATATTTCGGGTCAATTTTTG
* * * * * ***
58532 TAAAATTTAGCCAAAATCATGTACTAACCATCACGG----TTTTCGGCTAAAAATGCGTTCCACG
65 CAAAATTTAGCCGAAATC--GT-GTAACCATCACGGTTTTTTTTTGGCTAAAAACGCGTTCGGGG
* * * * * * *
58593 G-TCCGGCTCAGTTTTTGCATGATTTTTGGT-GCCAAGACTCCTTGAAATATTTATATTAATCTA
127 GCCCCGGCTAAG-TTTTGCATGATTTTTGGTCGCCAACATTCCTTTAAATATCTATATTCATCTA
* * *
58656 ACCAAATTTCAGCCACATTAGATTTAAGGATTTATTTTTACGAA-CATCTGAATCTTGTTTCGAT
191 ACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTAC-AAGCATCTGAATCTTGTTTCGAT
* * * ** *
58720 TTAATT--AAA--AATT----AATTCGGAAAAACAATATTAGAAA-CGTTCAAAGCCCTTCAATC
255 TTAATTAGAAATTAATTAGAAAAATAGGAAAAACGATATTA-AAAGCGTGAAAAGTCCTTCAATC
*** * * * * *
58776 TTTTGATATCGAATTATATATTTTTTATGAGTATTTTAGCCAAAAATTGAGGAAATATATTTTGG
319 TTTTGGCGTTGAATTATATATATTTTATGAGTATTTTAGGCAAAAATTGAGGAAAAATATTTCGG
* * * * * * *
58841 GTTAATTTTTACAAAATTTTAGCCGAAATTGTGTACAAATCATCACAGTTTTTGGCTAAATACGC
384 GTCAATTTTTGCAAAAATTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAA-ACGC
* * * * * ** * ** * * *
58906 GTTACAGGGTCACGACTCT-GTTTTGCATGATTTTTTACGTTGATACTCCATGAAATATCTTTAT
448 GTTTCGGGGCCCCG-GT-TAGTTTTGCATGATTTTTGGCATCAAGACTCCTTGAAATATCTATAT
* * * * *
58970 TTATCTAACCAAATCTCAGCCACATTGGATGTAAGGATTTGTTTTTATGTA-CATTTGAATTTTG
511 TCATCTAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACG-AGCATCTGAATCTTG
* * ** *
59034 TTTCGATTTAATAAAAAATTAATTCAGAAAAAATATGAAACGCGATATTAAAATCGTGAA
575 TTTCGATTTAATTAGAAATTAATTCA-AAAAAATATGAAAAACGATATTAAAAGCGTGAA
59094 AAGTCTTCCA
Statistics
Matches: 1579, Mismatches: 285, Indels: 180
0.77 0.14 0.09
Matches are distributed among these distances:
635 42 0.03
636 121 0.08
637 9 0.01
638 28 0.02
639 2 0.00
640 77 0.05
641 1 0.00
642 2 0.00
643 2 0.00
645 11 0.01
646 53 0.03
647 143 0.09
648 2 0.00
649 2 0.00
650 1 0.00
651 9 0.01
652 2 0.00
655 2 0.00
656 6 0.00
657 1 0.00
658 90 0.06
659 21 0.01
660 90 0.06
661 206 0.13
662 250 0.16
663 64 0.04
664 2 0.00
667 30 0.02
668 133 0.08
669 8 0.01
670 71 0.04
671 3 0.00
672 9 0.01
673 8 0.01
676 4 0.00
677 4 0.00
678 67 0.04
679 2 0.00
680 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (654 bp):
ATTATATATATTTTATGAGTATTGTGGCTAAAAATCGAGGAAAAATATTTCGGGTCAATTTTTGC
AAAATTTAGCCGAAATCGTGTAACCATCACGGTTTTTTTTTGGCTAAAAACGCGTTCGGGGGCCC
CGGCTAAGTTTTGCATGATTTTTGGTCGCCAACATTCCTTTAAATATCTATATTCATCTAACCAA
ATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATT
AGAAATTAATTAGAAAAATAGGAAAAACGATATTAAAAGCGTGAAAAGTCCTTCAATCTTTTGGC
GTTGAATTATATATATTTTATGAGTATTTTAGGCAAAAATTGAGGAAAAATATTTCGGGTCAATT
TTTGCAAAAATTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAACGCGTTTCGGG
GCCCCGGTTAGTTTTGCATGATTTTTGGCATCAAGACTCCTTGAAATATCTATATTCATCTAACC
AAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAA
TTAGAAATTAATTCAAAAAAATATGAAAAACGATATTAAAAGCGTGAACCCTCAATTTTTTGGCT
TTCA
Found at i:63355 original size:11 final size:11
Alignment explanation
Indices: 63339--63369 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
63329 ACCCATGAAT
63339 ATATAATAATA
1 ATATAATAATA
63350 ATATAATAATA
1 ATATAATAATA
*
63361 ATCTAATAA
1 ATATAATAA
63370 CATAATAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAATAATA
Found at i:64243 original size:205 final size:205
Alignment explanation
Indices: 63891--64265 Score: 628
Period size: 205 Copynumber: 1.8 Consensus size: 205
63881 TCACACCGGT
* * *
63891 GGTGTAAATTTTGGATTCCACAAGCGGGGTTGTGGAGTTGATATATGTCCATTTTTTAATTAATT
1 GGTGTAAATTTTGGACTCCACAAGCGGGGTTGTGGAGTTGACACATGTCCATTTTTTAATTAATT
* * *
63956 AAGTTTTAAAAATTTCAATCTAGTCCATAGGGGACATATGTCACCCTTTAGGACCCGCTTGTGTA
66 AAGTTTTAAAAATTTCAATCTAGTCCATAGGAGACACATGTCACCCTTCAGGACCCGCTTGTGTA
*
64021 GTCTGCTAAACTCCACTGACGGTGTATTGTATAATGTGCCTTAATTTTTTTAGGGTAATTATTTG
131 GTCTCCTAAACTCCACTGACGGTGTATTGTATAATGTGCCTTAATTTTTTTAGGGTAATTATTTG
64086 ATACACTGAC
196 ATACACTGAC
64096 GGTGTAAATTTTGGACTCCACAAGC-GGGTTGTGGAGTTGACACATGTCCATTTTTTGAATTAAT
1 GGTGTAAATTTTGGACTCCACAAGCGGGGTTGTGGAGTTGACACATGTCCATTTTTT-AATTAAT
* *
64160 TAAGTTTTAAATATTTCAATCTAGTCCCTA-GAGATCACATGTCACCCTTCAGGACCCGCTTGTG
65 TAAGTTTTAAAAATTTCAATCTAGTCCATAGGAGA-CACATGTCACCCTTCAGGACCCGCTTGTG
*
64224 TAGTCTCCTAAACTCCACTGACGGTGTATTGTATAATTTGCC
129 TAGTCTCCTAAACTCCACTGACGGTGTATTGTATAATGTGCC
64266 ATTTTAAACC
Statistics
Matches: 158, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
204 32 0.20
205 126 0.80
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (205 bp):
GGTGTAAATTTTGGACTCCACAAGCGGGGTTGTGGAGTTGACACATGTCCATTTTTTAATTAATT
AAGTTTTAAAAATTTCAATCTAGTCCATAGGAGACACATGTCACCCTTCAGGACCCGCTTGTGTA
GTCTCCTAAACTCCACTGACGGTGTATTGTATAATGTGCCTTAATTTTTTTAGGGTAATTATTTG
ATACACTGAC
Found at i:64810 original size:29 final size:30
Alignment explanation
Indices: 64743--64812 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
64733 TATAGCATAA
* *
64743 GGGCTTATCTGGTAAAAATTGATAGTTCAT
1 GGGCTTATTTGGTAAAAATTGATAGCTCAT
* **
64773 AGGCTTATTTGGTCGAAATTGA-AGCTCAT
1 GGGCTTATTTGGTAAAAATTGATAGCTCAT
64802 GGGCTTATTTG
1 GGGCTTATTTG
64813 ACCGTTGGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (30 bp):
GGGCTTATTTGGTAAAAATTGATAGCTCAT
Found at i:69147 original size:13 final size:13
Alignment explanation
Indices: 69129--69154 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69119 TTGTCCCTAC
69129 ATTATTAATTGAA
1 ATTATTAATTGAA
69142 ATTATTAATTGAA
1 ATTATTAATTGAA
69155 TTGTTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTATTAATTGAA
Found at i:69865 original size:14 final size:15
Alignment explanation
Indices: 69840--69886 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 15
69830 CGCTCCATTT
*
69840 TTTACACTTTTGCCC
1 TTTACACTTTTGCAC
69855 TTTAC-CTTTTGCAC
1 TTTACACTTTTGCAC
69869 TTTTTACACTTTTGCAC
1 --TTTACACTTTTGCAC
69886 T
1 T
69887 AAGCCTCCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 5 0.18
17 9 0.32
ACGTcount: A:0.15, C:0.28, G:0.06, T:0.51
Consensus pattern (15 bp):
TTTACACTTTTGCAC
Found at i:74125 original size:35 final size:36
Alignment explanation
Indices: 74068--74205 Score: 165
Period size: 36 Copynumber: 3.8 Consensus size: 36
74058 GACTTTGTTG
*
74068 TTGCTTTG-TTGATGGTGAAGAAGAACTTTGCTT-TGTT
1 TTGCTTTGCTTGAT-G-G-AGAAGAACTTTGCTTCTGAT
* * *
74105 GTTGCTTCG-TTGATGGAGAAGATCTTTGCTTCAGAT
1 -TTGCTTTGCTTGATGGAGAAGAACTTTGCTTCTGAT
*
74141 TTGCTTTGCTTGATGGAGAAGAACTTTGTTTCTGAT
1 TTGCTTTGCTTGATGGAGAAGAACTTTGCTTCTGAT
*
74177 TTGCTTTGCTTGATGCAGAAGAACTTTGC
1 TTGCTTTGCTTGATGGAGAAGAACTTTGC
74206 CTTGCTTTGA
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
35 21 0.24
36 54 0.61
37 1 0.01
38 12 0.14
ACGTcount: A:0.20, C:0.12, G:0.26, T:0.42
Consensus pattern (36 bp):
TTGCTTTGCTTGATGGAGAAGAACTTTGCTTCTGAT
Found at i:78455 original size:11 final size:11
Alignment explanation
Indices: 78434--78463 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
78424 AGGAAGTGGT
78434 GTTAG-AGACG
1 GTTAGCAGACG
78444 GTTAGCAGACG
1 GTTAGCAGACG
78455 GTTAGCAGA
1 GTTAGCAGA
78464 GGAGAAGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.30, C:0.13, G:0.37, T:0.20
Consensus pattern (11 bp):
GTTAGCAGACG
Found at i:81532 original size:9 final size:9
Alignment explanation
Indices: 81518--81542 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
81508 TTAATGTTTT
81518 TTCTAATAC
1 TTCTAATAC
81527 TTCTAATAC
1 TTCTAATAC
81536 TTCTAAT
1 TTCTAAT
81543 GACTGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (9 bp):
TTCTAATAC
Found at i:90147 original size:12 final size:12
Alignment explanation
Indices: 90130--90157 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
90120 GGCACAAGGA
90130 GACTGATTTATG
1 GACTGATTTATG
90142 GACTGATTTATG
1 GACTGATTTATG
90154 GACT
1 GACT
90158 CTGGTTGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (12 bp):
GACTGATTTATG
Found at i:96124 original size:3 final size:3
Alignment explanation
Indices: 96116--96144 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
96106 GATATAGTTA
96116 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
96145 AAAAGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:99377 original size:21 final size:21
Alignment explanation
Indices: 99330--99371 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
99320 AATACAACTT
*
99330 GTTTGTGAAATAGTCAGACAA
1 GTTTGTGAAATAGTAAGACAA
99351 GTTTGTGAAATAGTAAGACAA
1 GTTTGTGAAATAGTAAGACAA
99372 TATTGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (21 bp):
GTTTGTGAAATAGTAAGACAA
Found at i:102646 original size:72 final size:72
Alignment explanation
Indices: 102559--102697 Score: 217
Period size: 72 Copynumber: 1.9 Consensus size: 72
102549 AGCCGGTGCT
* * *
102559 GTGCTTGGTCGAGGTCGGCTCTCCACCGCCTGCCAGCCGGTCTCACT-GGACCCTTAAGAGGGTT
1 GTGCTTGGTCAAGGTCGGCTCTCCACCGCCTGCCAGCCGGTATCACTAGG-CCCTTAAGAGGGCT
102623 CTTCATCC
65 CTTCATCC
* *
102631 GTGCTTGGTCAAGGTCGGCTCTCCACCGCCTGCTAGCCGGTATCTCTAGGCCCTTAAGAGGGCTC
1 GTGCTTGGTCAAGGTCGGCTCTCCACCGCCTGCCAGCCGGTATCACTAGGCCCTTAAGAGGGCTC
102696 TT
66 TT
102698 AGTCCAGTCT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 59 0.97
73 2 0.03
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.26
Consensus pattern (72 bp):
GTGCTTGGTCAAGGTCGGCTCTCCACCGCCTGCCAGCCGGTATCACTAGGCCCTTAAGAGGGCTC
TTCATCC
Found at i:103490 original size:97 final size:98
Alignment explanation
Indices: 103306--103536 Score: 374
Period size: 97 Copynumber: 2.4 Consensus size: 98
103296 AATTTTCTGG
*
103306 TCTCAAGGAGCATTCTCCACTTGGCGCTCGGCGAGCTACCTACACCTCGCGTTTGGCGAGCGTCA
1 TCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCTACCTACACCTCGCGTTTGGCGAGCGTCA
103371 TCTTTTTCACCTTCTCGGGCGTTCCCCATCTAC
66 TCTTTTTCACCTTCTCGGGCGTTCCCCATCTAC
* * *
103404 TCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGC-ATCTACGCTTCGCGTTTGGCGAGCGTCA
1 TCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCTACCTACACCTCGCGTTTGGCGAGCGTCA
** * *
103468 TCTTTTTTGCCTTCTCGGGCGTTCTCCATCTGC
66 TCTTTTTCACCTTCTCGGGCGTTCCCCATCTAC
*
103501 TCTTAAGGAGCATTCTCCATTTGGCGCTCGGCGAGC
1 TCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGC
103537 GTCATCTCTT
Statistics
Matches: 124, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
97 89 0.72
98 35 0.28
ACGTcount: A:0.13, C:0.32, G:0.24, T:0.30
Consensus pattern (98 bp):
TCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCTACCTACACCTCGCGTTTGGCGAGCGTCA
TCTTTTTCACCTTCTCGGGCGTTCCCCATCTAC
Found at i:103496 original size:73 final size:73
Alignment explanation
Indices: 103436--103606 Score: 200
Period size: 73 Copynumber: 2.4 Consensus size: 73
103426 GGCGCTCGGC
* * * * *
103436 GAGCA-TCTACGCTTCGCGTTTGGCGAGCGTCATCTTTTTTGCCTTCTCGGGCGTTCTCCATCTG
1 GAGCATTCTACACTTCGCGCTCGGCGAGCGTCATCTCTTTCGCCTTCTCGGGCGTTCTCCATCTG
*
103500 CTCTTAAG
66 CGCTTAAG
* * * *
103508 GAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCTCTTTCGCCTTCTCGGGCGTTCTCCATCTA
1 GAGCATTCTACACTTCGCGCTCGGCGAGCGTCATCTCTTTCGCCTTCTCGGGCGTTCTCCATCTG
* *
103573 CTCTCAAG
66 CGCTTAAG
* * *
103581 GAGCATTCTCCATTTGGCGCTCGGCG
1 GAGCATTCTACACTTCGCGCTCGGCG
103607 GGTGTCTACG
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 5 0.06
73 83 0.94
ACGTcount: A:0.12, C:0.32, G:0.24, T:0.33
Consensus pattern (73 bp):
GAGCATTCTACACTTCGCGCTCGGCGAGCGTCATCTCTTTCGCCTTCTCGGGCGTTCTCCATCTG
CGCTTAAG
Found at i:103760 original size:98 final size:98
Alignment explanation
Indices: 103530--103807 Score: 450
Period size: 98 Copynumber: 2.8 Consensus size: 98
103520 TTTGGCGCTC
* *
103530 GGCGAGCGTCATCTCTTTCGCCTTCTCGGGCGTTCTCCATCTACTCTCAAGGAGCATTCTCCATT
1 GGCGAGCGTCATCTTTTTCGCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCATT
* *
103595 TGGCGCTCGGCGGGTGT-CTACGCTTCGCGTTT
66 TGGCGCTCGGCGAGCGTCCTACGCTTCGCGTTT
*
103627 GGCGAGCGTCATCTTTTTCGCCTTCTCGGGCGTTCTCTATCTGCTCTCAAGGAGCATTCTCCATT
1 GGCGAGCGTCATCTTTTTCGCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCATT
* * *
103692 TCGCGATCGGCGAGCGTCCTACGCTTTGCGTTT
66 TGGCGCTCGGCGAGCGTCCTACGCTTCGCGTTT
* * *
103725 GGCGAGCATCATCTTTTTCGCTTTCTCGGGTGTTCTCCATCTGCTCTCAAGGAGCATTCTCCATT
1 GGCGAGCGTCATCTTTTTCGCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCATT
103790 TGGCGCTCGGCGAGCGTC
66 TGGCGCTCGGCGAGCGTC
103808 ATCTTTTTTC
Statistics
Matches: 166, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
97 75 0.45
98 91 0.55
ACGTcount: A:0.11, C:0.31, G:0.25, T:0.33
Consensus pattern (98 bp):
GGCGAGCGTCATCTTTTTCGCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCATT
TGGCGCTCGGCGAGCGTCCTACGCTTCGCGTTT
Found at i:103858 original size:24 final size:24
Alignment explanation
Indices: 103831--103886 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
103821 TTCTCGGGCG
103831 TTCTCCATATGCTCTCAAGGAGCA
1 TTCTCCATATGCTCTCAAGGAGCA
* * *
103855 TTCTCCGTCTGCTCTCTAGGAGCA
1 TTCTCCATATGCTCTCAAGGAGCA
103879 TTCTCCAT
1 TTCTCCAT
103887 TTGGCGTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (24 bp):
TTCTCCATATGCTCTCAAGGAGCA
Found at i:103859 original size:98 final size:97
Alignment explanation
Indices: 103757--103959 Score: 361
Period size: 98 Copynumber: 2.1 Consensus size: 97
103747 TTCTCGGGTG
103757 TTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCTTTTTTCGCCT
1 TTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATC-TTTTTCGCCT
103822 TCTCGGGCGTTCTCCATATGCTCTCAAGGAGCA
65 TCTCGGGCGTTCTCCATATGCTCTCAAGGAGCA
* * *
103855 TTCTCCGTCTGCTCTCTAGGAGCATTCTCCATTTGGCGTTCGGCGAGCGTCATCTTTTTCGCCTT
1 TTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCTTTTTCGCCTT
*
103920 CTCGGGCGTTCTCCATCTGCTCTCAAGGAGCA
66 CTCGGGCGTTCTCCATATGCTCTCAAGGAGCA
103952 TTCTCCAT
1 TTCTCCAT
103960 TTCGCGTTCG
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 49 0.49
98 51 0.51
ACGTcount: A:0.13, C:0.32, G:0.21, T:0.34
Consensus pattern (97 bp):
TTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCTTTTTCGCCTT
CTCGGGCGTTCTCCATATGCTCTCAAGGAGCA
Found at i:103915 original size:171 final size:172
Alignment explanation
Indices: 103618--104297 Score: 616
Period size: 171 Copynumber: 4.0 Consensus size: 172
103608 GTGTCTACGC
* * *
103618 TTCGCGTTTGGCGAGCGTCATC-TTTTTCGCCTTCTCGGGCGTTCTCTATCTGCTCTCAAGGAGC
1 TTCGCGCTCGGCGAGCGTCATCTTTTTTCGCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGC
* * * * *
103682 ATTCTCCATTTCGCGATCGGCGAGCGTCCTACGCTTTGCGTTTGGCGAGCATCATCTTTTTCGCT
66 ATTCTCCATCTCGCGATCAGCGAGCATCCTACGCTTTGCGTTCGGCGAGCATCATCTTTTTCGCC
*
103747 TTCTCGGGTGTTCTCCATCTGCTCTCAAGGAGCATTCTCCAT
131 TTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCAT
* *
103789 TTGGCGCTCGGCGAGCGTCATCTTTTTTCGCCTTCTCGGGCGTTCTCCATATGCTCTCAAGGAGC
1 TTCGCGCTCGGCGAGCGTCATCTTTTTTCGCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGC
* ** * *
103854 ATTCTCCGTCT-GCTCTCTAG-GAGCATTCT-C-CATTTGGCGTTCGGCGAGCGTCATCTTTTTC
66 ATTCTCCATCTCGCGATC-AGCGAGCATCCTACGC-TTT-GCGTTCGGCGAGCATCATCTTTTTC
103915 GCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCAT
128 GCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCAT
* * * *
103960 TTCGCGTTCGGCGAGCGTCCTACTCTTTT-GCCTTCTCGGGCGTTCTCGATCTGCTCTCAAGGAG
1 TTCGCGCTCGGCGAGCGTCAT-CTTTTTTCGCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAG
* * * * * * ** ** * * * ** **
104024 CATTCTCCATTTGGCGCTCGGCGAGCGTCAT-CTTTTTCGCCATC-TCGGGCGTTTTCCATTT-G
65 CATTCTCCATCTCGCGATCAGCGAGCATCCTACGCTTT-GCGTTCGGCGAGCATCATCTTTTTCG
* * * * * * * **
104086 -C-TCTCAATGAGCATTCTCCAT-TTCGTGCTC-GGTGAGCGTCCTACGC
129 CCTTCTC---GGGCGTTCTCCATCTGC-T-CTCAAG-GAGCATTCTCCAT
* * * * * *
104132 TTCGCGTTCGGCGAGTGTCATC-TTTTTCGCCATCTCGGGCGTTCTTCGTCTGCCCAT-AAGGAG
1 TTCGCGCTCGGCGAGCGTCATCTTTTTTCGCCTTCTCGGGCGTTCTCCATCTGCTC-TCAAGGAG
* * * * * * *
104195 CATTCTCAATTTCGCGCTCGGCGAGCGTCCTACGCTTCGCGTTCGGCGAGCGTCATCTTTTTCGC
65 CATTCTCCATCTCGCGATCAGCGAGCATCCTACGCTTTGCGTTCGGCGAGCATCATCTTTTTCGC
104260 CTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTC
130 CTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTC
Statistics
Matches: 410, Mismatches: 76, Indels: 46
0.77 0.14 0.09
Matches are distributed among these distances:
168 4 0.01
169 2 0.00
170 11 0.03
171 252 0.61
172 133 0.32
173 3 0.01
174 1 0.00
175 4 0.01
ACGTcount: A:0.11, C:0.31, G:0.24, T:0.34
Consensus pattern (172 bp):
TTCGCGCTCGGCGAGCGTCATCTTTTTTCGCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGC
ATTCTCCATCTCGCGATCAGCGAGCATCCTACGCTTTGCGTTCGGCGAGCATCATCTTTTTCGCC
TTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCAT
Found at i:104022 original size:74 final size:73
Alignment explanation
Indices: 103855--104125 Score: 391
Period size: 73 Copynumber: 3.7 Consensus size: 73
103845 TCAAGGAGCA
* * * *
103855 TTCTCCGTCTGCTCTCTAGGAGCATTCTCCATTTGGCGTTCGGCGAGCGTCATCTTTTTCGCCTT
1 TTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTCGCGCTCGGCGAGCGTCATCTTTTTCGCCTT
103920 CTCGGGCG
66 CTCGGGCG
* *
103928 TTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTCGCGTTCGGCGAGCGTCCTACTCTTTT-GCC
1 TTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTCGCGCTCGGCGAGCGTCAT-CT-TTTTCGCC
103992 TTCTCGGGCG
64 TTCTCGGGCG
* * *
104002 TTCTCGATCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCTTTTTCGCCAT
1 TTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTCGCGCTCGGCGAGCGTCATCTTTTTCGCCTT
104067 CTCGGGCG
66 CTCGGGCG
* * * * *
104075 TTTTCCATTTGCTCTCAATGAGCATTCTCCATTTCGTGCTCGGTGAGCGTC
1 TTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTCGCGCTCGGCGAGCGTC
104126 CTACGCTTCG
Statistics
Matches: 179, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
72 4 0.02
73 107 0.60
74 64 0.36
75 4 0.02
ACGTcount: A:0.11, C:0.31, G:0.23, T:0.35
Consensus pattern (73 bp):
TTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTCGCGCTCGGCGAGCGTCATCTTTTTCGCCTT
CTCGGGCG
Found at i:104044 original size:245 final size:245
Alignment explanation
Indices: 103747--104227 Score: 700
Period size: 245 Copynumber: 2.0 Consensus size: 245
103737 CTTTTTCGCT
*
103747 TTCTCGGGTGTTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCT
1 TTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATC-
* *
103812 TTTTTCGCCTTCTCGGGCGTTCTCCATATGCTCTCAAGGAGCATTCTCCGTCTGC-T-CTCTAG-
65 TTTTTCGCCATCTCGGGCGTTCTCCATATGCTCTCAAGGAGCATTCTCCAT-TGCGTGCTC-AGT
* * * * *
103874 GAGCATTCTCCATTTGGCGTTCGGCGAGCGTCATCTTTTTCGCCTTCTCGGGCGTTCTCCATCTG
128 GAGCATCCTACACTTCGCGTTCGGCGAGCGTCATCTTTTTCGCCATCTCGGGCGTTCTCCATCTG
* * *
103939 CTC-TCAAGGAGCATTCTCCATTTCGCGTTCGGCGAGCGTCCTACTCTTTTGCC
193 CCCAT-AAGGAGCATTCTCAATTTCGCGCTCGGCGAGCGTCCTACTCTTTTGCC
*
103992 TTCTCGGGCGTTCTCGATCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCT
1 TTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCT
* * * * *
104057 TTTTCGCCATCTCGGGCGTTTTCCATTTGCTCTCAATGAGCATTCTCCATTTCGTGCTCGGTGAG
66 TTTTCGCCATCTCGGGCGTTCTCCATATGCTCTCAAGGAGCATTCTCCATTGCGTGCTCAGTGAG
* * * * *
104122 CGTCCTACGCTTCGCGTTCGGCGAGTGTCATCTTTTTCGCCATCTCGGGCGTTCTTCGTCTGCCC
131 CATCCTACACTTCGCGTTCGGCGAGCGTCATCTTTTTCGCCATCTCGGGCGTTCTCCATCTGCCC
104187 ATAAGGAGCATTCTCAATTTCGCGCTCGGCGAGCGTCCTAC
196 ATAAGGAGCATTCTCAATTTCGCGCTCGGCGAGCGTCCTAC
104228 GCTTCGCGTT
Statistics
Matches: 210, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
243 2 0.01
244 48 0.23
245 159 0.76
246 1 0.00
ACGTcount: A:0.12, C:0.31, G:0.23, T:0.33
Consensus pattern (245 bp):
TTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCT
TTTTCGCCATCTCGGGCGTTCTCCATATGCTCTCAAGGAGCATTCTCCATTGCGTGCTCAGTGAG
CATCCTACACTTCGCGTTCGGCGAGCGTCATCTTTTTCGCCATCTCGGGCGTTCTCCATCTGCCC
ATAAGGAGCATTCTCAATTTCGCGCTCGGCGAGCGTCCTACTCTTTTGCC
Found at i:104049 original size:147 final size:147
Alignment explanation
Indices: 103862--104129 Score: 455
Period size: 147 Copynumber: 1.8 Consensus size: 147
103852 GCATTCTCCG
* * *
103862 TCTGCTCTCTAGGAGCATTCTCCATTTGGCGTTCGGCGAGCGTCATCTTTTTCGCCTTCTCGGGC
1 TCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCTTTTTCGCCATCTCGGGC
*
103927 GTTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTCGCGTTCGGCGAGCGTCCTACTCTTTTGCC
66 GTTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTCGCGCTCGGCGAGCGTCCTACTCTTTTGCC
103992 TTCTCGGGCGTTCTCGA
131 TTCTCGGGCGTTCTCGA
104009 TCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCTTTTTCGCCATCTCGGGC
1 TCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCTTTTTCGCCATCTCGGGC
* * * * *
104074 GTTTTCCATTTGCTCTCAATGAGCATTCTCCATTTCGTGCTCGGTGAGCGTCCTAC
66 GTTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTCGCGCTCGGCGAGCGTCCTAC
104130 GCTTCGCGTT
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 112 1.00
ACGTcount: A:0.12, C:0.31, G:0.23, T:0.34
Consensus pattern (147 bp):
TCTGCTCTCAAGGAGCATTCTCCATTTGGCGCTCGGCGAGCGTCATCTTTTTCGCCATCTCGGGC
GTTCTCCATCTGCTCTCAAGGAGCATTCTCCATTTCGCGCTCGGCGAGCGTCCTACTCTTTTGCC
TTCTCGGGCGTTCTCGA
Found at i:104156 original size:98 final size:98
Alignment explanation
Indices: 104041--104297 Score: 392
Period size: 98 Copynumber: 2.6 Consensus size: 98
104031 CATTTGGCGC
* * *
104041 TCGGCGAGCGTCATCTTTTTCGCCATCTCGGGCGTTTTCCATTTGCTCTCAATGAGCATTCTCCA
1 TCGGCGAGCGTCATCTTTTTCGCCATCTCGGGCGTTTTCCATCTGCTCTCAAGGAGCATTCTCAA
* *
104106 TTTCGTGCTCGGTGAGCGTCCTACGCTTCGCGT
66 TTTCGCGCTCGGCGAGCGTCCTACGCTTCGCGT
* * *
104139 TCGGCGAGTGTCATCTTTTTCGCCATCTCGGGCGTTCTT-CGTCTGCCCAT-AAGGAGCATTCTC
1 TCGGCGAGCGTCATCTTTTTCGCCATCTCGGGCGTT-TTCCATCTGCTC-TCAAGGAGCATTCTC
104202 AATTTCGCGCTCGGCGAGCGTCCTACGCTTCGCGT
64 AATTTCGCGCTCGGCGAGCGTCCTACGCTTCGCGT
* *
104237 TCGGCGAGCGTCATCTTTTTCGCCTTCTCGGGCGTTCTCCATCTGCTCTCAAGGAGCATTC
1 TCGGCGAGCGTCATCTTTTTCGCCATCTCGGGCGTTTTCCATCTGCTCTCAAGGAGCATTC
Statistics
Matches: 142, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
97 2 0.01
98 137 0.96
99 3 0.02
ACGTcount: A:0.12, C:0.32, G:0.24, T:0.33
Consensus pattern (98 bp):
TCGGCGAGCGTCATCTTTTTCGCCATCTCGGGCGTTTTCCATCTGCTCTCAAGGAGCATTCTCAA
TTTCGCGCTCGGCGAGCGTCCTACGCTTCGCGT
Done.