Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 106 of 120
Found at i:15044538 original size:13 final size:13
Alignment explanation
Indices: 15044520--15044545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15044510 TATAAAATTA
15044520 AAATTTTATAAAT
1 AAATTTTATAAAT
15044533 AAATTTTATAAAT
1 AAATTTTATAAAT
15044546 TTTGAATTTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTTTATAAAT
Found at i:15044567 original size:14 final size:14
Alignment explanation
Indices: 15044534--15044581 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 14
15044524 TTTATAAATA
15044534 AATTTTATAAATTTT
1 AATTTTA-AAATTTT
15044549 GAATTTTAAAATTTT
1 -AATTTTAAAATTTT
15044564 AATTTT--AATTTT
1 AATTTTAAAATTTT
15044576 AATTTT
1 AATTTT
15044582 CGAAATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.38
14 6 0.19
15 7 0.22
16 7 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
AATTTTAAAATTTT
Found at i:15044569 original size:6 final size:6
Alignment explanation
Indices: 15044543--15044581 Score: 51
Period size: 6 Copynumber: 6.0 Consensus size: 6
15044533 AAATTTTATA
15044543 AATTTT GAATTTT AAAATTTT AATTTT AATTTT AATTTT
1 AATTTT -AATTTT --AATTTT AATTTT AATTTT AATTTT
15044582 CGAAATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 18 0.60
7 6 0.20
8 6 0.20
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:15048926 original size:11 final size:11
Alignment explanation
Indices: 15048912--15048937 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15048902 GTTTTTAAAA
15048912 AAAAAAATTTG
1 AAAAAAATTTG
15048923 AAAAAAATTTG
1 AAAAAAATTTG
15048934 AAAA
1 AAAA
15048938 TTTTCCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (11 bp):
AAAAAAATTTG
Found at i:15049676 original size:101 final size:101
Alignment explanation
Indices: 15049554--15049737 Score: 241
Period size: 99 Copynumber: 1.8 Consensus size: 101
15049544 TGCAAGAAAG
* * * *
15049554 AAAAAAAGGAATTTCTAAATAGG-CTCAAATGGTAGAAAATTTAGAAATTTTGAAAA-AAAAAAT
1 AAAAAAAGAAATTTCTAAATAGGTC-CAAATGATAAAAAATTTAGAAA--TTCAAAAGAAAAAA-
15049617 ATATTTTTAAATTGACCCAAATGGTGAAAATTTTAGAGAT
62 ATATTTTTAAATTGACCCAAATGGTGAAAATTTTAGAGAT
* *
15049657 AAAAAAA-AAATTT-TAAATAGGTCCAAATTATAAAAAATTTAGAAATTCAAAAGAAGAAAATAT
1 AAAAAAAGAAATTTCTAAATAGGTCCAAATGATAAAAAATTTAGAAATTCAAAAGAAAAAAATAT
*
15049720 TTTTAATTTGACCCAAAT
66 TTTTAAATTGACCCAAAT
15049738 TGTGGAATAA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
99 27 0.38
100 5 0.07
101 27 0.38
102 6 0.08
103 7 0.10
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (101 bp):
AAAAAAAGAAATTTCTAAATAGGTCCAAATGATAAAAAATTTAGAAATTCAAAAGAAAAAAATAT
TTTTAAATTGACCCAAATGGTGAAAATTTTAGAGAT
Found at i:15071321 original size:3 final size:3
Alignment explanation
Indices: 15071315--15071350 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15071305 ACAAAGACTT
15071315 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
15071351 TAAACTTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:15076983 original size:30 final size:30
Alignment explanation
Indices: 15076938--15076996 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
15076928 AATATAAATT
* *
15076938 TTATTTATTAGTTTATTATATAATAATAAA
1 TTATTAATTAATTTATTATATAATAATAAA
15076968 TTATTAATTAATTTATTATATAATAATAA
1 TTATTAATTAATTTATTATATAATAATAA
15076997 TAATCAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
TTATTAATTAATTTATTATATAATAATAAA
Found at i:15078101 original size:58 final size:58
Alignment explanation
Indices: 15078037--15078161 Score: 205
Period size: 58 Copynumber: 2.2 Consensus size: 58
15078027 AAAAAAGAAG
* * *
15078037 AACAAAATCGGGGATTTTTTTTAAATCAATCTCGAAATCAGGTTTGCATGAAATTTGA
1 AACAAAATCAGAGATTTTTTTTAAATCAATCTCGAAATCAGGTTTGCATGAAATTCGA
*
15078095 AACAAAATCAGAGATTTTTTTTAAATCAATCTCGGAATCAGGTTTGCATGAAATTCGA
1 AACAAAATCAGAGATTTTTTTTAAATCAATCTCGAAATCAGGTTTGCATGAAATTCGA
*
15078153 AATAAAATC
1 AACAAAATC
15078162 TAAGCATTGA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (58 bp):
AACAAAATCAGAGATTTTTTTTAAATCAATCTCGAAATCAGGTTTGCATGAAATTCGA
Found at i:15078180 original size:58 final size:57
Alignment explanation
Indices: 15078059--15078182 Score: 144
Period size: 58 Copynumber: 2.1 Consensus size: 57
15078049 GATTTTTTTT
* ** *
15078059 AAATCAATCTCGAAATCAGGTTTGCATGAAATTTGAAACAAAATCAGAGATTTTTTTT
1 AAATCAATCTCGAAATCAGGTTTGCATGAAATTCGAAACAAAATCAGAGA-TTTGATC
* *
15078117 AAATCAATCTCGGAATCAGGTTTGCATGAAATTCGAAATAAAATCTA-AGCA-TTGATC
1 AAATCAATCTCGAAATCAGGTTTGCATGAAATTCGAAACAAAATC-AGAG-ATTTGATC
15078174 AGAATCAAT
1 A-AATCAAT
15078183 TTAAAAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
57 4 0.07
58 51 0.89
59 2 0.04
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (57 bp):
AAATCAATCTCGAAATCAGGTTTGCATGAAATTCGAAACAAAATCAGAGATTTGATC
Found at i:15078569 original size:5 final size:5
Alignment explanation
Indices: 15078559--15078621 Score: 60
Period size: 5 Copynumber: 12.8 Consensus size: 5
15078549 ACCCAACTGT
* * *
15078559 TTTTA TTTTA TTTTA TTTTA TTTTGG TTTT- TATT- TTTTA TTTTT TTATTA
1 TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TT-TTA
15078609 -TTTA TTTTA TTTT
1 TTTTA TTTTA TTTT
15078622 TAGATAATAG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
4 9 0.18
5 34 0.69
6 6 0.12
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:15079760 original size:58 final size:59
Alignment explanation
Indices: 15079665--15080038 Score: 284
Period size: 59 Copynumber: 6.1 Consensus size: 59
15079655 TTTTCAATGA
* * * *
15079665 TCTCTTTAAAATGAAAATTTGAAAAAAAAAATATTTTTGAAGAAAAATTGAATGTATCAATT
1 TCTCTTGAAAATAAAAATTT---AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATT
* * * *
15079727 TC-CTTTGAACATAAAAA-TTAAAAAAAATATTTTTGAGGGAAAGTTAAAAGTATCAATT
1 TCTC-TTGAAAATAAAAATTTAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATT
** *
15079785 TCTCTTGAAAATAAAAATTTTCAAAAAATATTTTT-AAGGAAAAGTTGAAAATATCAATT
1 TCTCTTGAAAATAAAAATTTAAAAAAAATATTTTTGAA-GAAAAGTTGAAAGTATCAATT
* ** *
15079844 TTTCTTGAAAATAAAAA-AAAAAGATTTCAATAATGGATTTTT-AAGGAAAAGTTAAAAGTATCA
1 TCTCTTGAAAATAAAAATTTAAA-A----AA-AAT--ATTTTTGAA-GAAAAGTTGAAAGTATCA
15079907 ATT
57 ATT
* *
15079910 TTTCTTGAAAATAAAAATTTTCAAAAAAAATCATTTCTT-AAGGAAAAGTT-AGAAGTACCAATT
1 TCTCTTGAAAATAAAAA-TTT-AAAAAAAAT-ATTT-TTGAA-GAAAAGTTGA-AAGTATCAATT
* *
15079973 T-TCTTTAAAA-ATAAAATTTGAAGAAAAATATTTTT-AAGAAAAGATTGAAAGTATCAAATT
1 TCTCTTGAAAATA-AAAATTT-AAAAAAAATATTTTTGAAGAAAAG-TTGAAAGTATC-AATT
15080033 T-TCTTG
1 TCTCTTG
15080039 TATAAAAGCA
Statistics
Matches: 260, Mismatches: 31, Indels: 44
0.78 0.09 0.13
Matches are distributed among these distances:
58 56 0.22
59 63 0.24
60 14 0.05
61 15 0.06
62 29 0.11
63 29 0.11
64 5 0.02
66 45 0.17
68 1 0.00
69 3 0.01
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (59 bp):
TCTCTTGAAAATAAAAATTTAAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATT
Found at i:15081035 original size:25 final size:25
Alignment explanation
Indices: 15080999--15081046 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
15080989 TGAGGAGAAT
15080999 TTTTTCTAGAAATTT-TGGCGAAAAA
1 TTTTTCTAGAAATTTCTGG-GAAAAA
*
15081024 TTTTTCTGGAAATTTCTGGGAAA
1 TTTTTCTAGAAATTTCTGGGAAA
15081047 TTTCCAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (25 bp):
TTTTTCTAGAAATTTCTGGGAAAAA
Found at i:15081211 original size:20 final size:20
Alignment explanation
Indices: 15081186--15081223 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15081176 ACTTCCGGCG
*
15081186 AAATTTCCAGATTCCGACGA
1 AAATTTCCAGAATCCGACGA
15081206 AAATTTCCAGAATCCGAC
1 AAATTTCCAGAATCCGAC
15081224 ACCAGTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (20 bp):
AAATTTCCAGAATCCGACGA
Found at i:15081583 original size:13 final size:12
Alignment explanation
Indices: 15081548--15081597 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
15081538 TTTTTTTGAA
15081548 TTTT-TTTTATT
1 TTTTATTTTATT
*
15081559 TCTTT-GTTTATT
1 T-TTTATTTTATT
15081571 TGTTTATTTTATT
1 T-TTTATTTTATT
15081584 TTTTATTTTTATT
1 TTTTA-TTTTATT
15081597 T
1 T
15081598 ATTAGATTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 1 0.03
12 17 0.52
13 15 0.45
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:15081588 original size:12 final size:12
Alignment explanation
Indices: 15081549--15081597 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
15081539 TTTTTTGAAT
15081549 TTTTTTTATTTC
1 TTTTTTTATTTC
* *
15081561 TTTGTTTATTTG
1 TTTTTTTATTTC
*
15081573 TTTATTTTATTTT
1 TTT-TTTTATTTC
15081586 TTATTTTTATTT
1 TT-TTTTTATTT
15081598 ATTAGATTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
12 13 0.42
13 17 0.55
14 1 0.03
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (12 bp):
TTTTTTTATTTC
Found at i:15081740 original size:59 final size:58
Alignment explanation
Indices: 15081684--15082190 Score: 711
Period size: 57 Copynumber: 8.6 Consensus size: 58
15081674 CTAAAAAATT
15081684 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC-AAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
*
15081741 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC-AAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
* * * *
15081798 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAAAAATTTCAAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC-CAAAAAA
15081857 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCC-AAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCCAAAAAA
* * *
15081914 ATATTTTTAGAGAAAAATTGAAAGTATCAATTTTTCTTAGAAATAAATTTCCAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC-AAAAAA
15081973 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC-AAAAAA
* *
15082037 AGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAGAATCAAAATTTCAAAAAAA
1 A-TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AAT--AAATTTCCAAAAAA
* *
15082098 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
**
15082156 AGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTT
1 A-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTT
15082191 TCCTAAAAAA
Statistics
Matches: 412, Mismatches: 20, Indels: 34
0.88 0.04 0.07
Matches are distributed among these distances:
57 157 0.38
58 16 0.04
59 121 0.29
60 43 0.10
61 10 0.02
62 9 0.02
64 20 0.05
65 36 0.09
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.34
Consensus pattern (58 bp):
ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
Found at i:15081889 original size:116 final size:115
Alignment explanation
Indices: 15081684--15082204 Score: 726
Period size: 116 Copynumber: 4.4 Consensus size: 115
15081674 CTAAAAAATT
* * *
15081684 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC-CAAAAAATATTTT
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAAAATTTCAAAAAAAATATTTT
*
15081748 TGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
66 TAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
*
15081798 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAAAAATTTCAAAAAAAAATATTT
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAAAATTTC-AAAAAAAATATTT
15081863 TTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCCAAAAA
65 TTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCCAAAAA
* * * * *
15081914 ATATTTTTAGAGAAAAATTGAAAGTATCAATTTTTCTTAGAAATAAATTTCCAAAAAAAATATTT
1 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAAAATTT-CAAAAAAAATATTT
15081979 TTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAA
65 TTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC--AAAAA
*
15082037 AGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAGAATCAAAATTTCAAAAAAAATAT
1 A-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAA-AAAAATTTCAAAAAAAATAT
* *
15082102 TTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAA
63 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
* *
15082155 A-AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCC-TAAAAAAAAAT
1 ATA---TTTTTGGGGAAAAGTTGAAAGTATCAA-TTTTCCTTAGAAAAAAAT
15082205 CATTCTCTCC
Statistics
Matches: 366, Mismatches: 22, Indels: 35
0.87 0.05 0.08
Matches are distributed among these distances:
114 48 0.13
115 1 0.00
116 149 0.41
117 6 0.02
118 9 0.02
119 28 0.08
120 17 0.05
121 11 0.03
122 3 0.01
123 6 0.02
124 33 0.09
125 49 0.13
126 6 0.02
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (115 bp):
ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAAAATTTCAAAAAAAATATTTT
TAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
Found at i:15083671 original size:15 final size:15
Alignment explanation
Indices: 15083653--15083681 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15083643 TATTTTATTT
15083653 TATTATTTTTATATA
1 TATTATTTTTATATA
15083668 TATTATTTTTATAT
1 TATTATTTTTATAT
15083682 TTTAATATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTATTTTTATATA
Found at i:15083674 original size:23 final size:24
Alignment explanation
Indices: 15083647--15083699 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
15083637 TTATTTTATT
15083647 TTATTTTATTAT-TTTTATATAT-A
1 TTATTTTATTATATTTTA-ATATCA
15083670 TTA-TTT-TTATATTTTAATATCA
1 TTATTTTATTATATTTTAATATCA
15083692 TTATTTTA
1 TTATTTTA
15083700 AATGATTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 8 0.31
22 12 0.46
23 6 0.23
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATTTTATTATATTTTAATATCA
Found at i:15083814 original size:21 final size:20
Alignment explanation
Indices: 15083790--15083843 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
15083780 TTTTGGCATA
*
15083790 AATTTAATATATTTGTATGGT
1 AATTT-ATATATTTGTATGAT
* *
15083811 AATTTATATTAATTGTGTGAT
1 AATTTATA-TATTTGTATGAT
15083832 AATTTATATATT
1 AATTTATATATT
15083844 ATATTATTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (20 bp):
AATTTATATATTTGTATGAT
Found at i:15084201 original size:103 final size:103
Alignment explanation
Indices: 15084081--15084268 Score: 279
Period size: 103 Copynumber: 1.8 Consensus size: 103
15084071 TAAAAAAATT
* * ** *
15084081 CTACCAACAGATTAGAGGATTATTCTTAACCAAAAATCTTATTAACATATT-AGAAGATATTTCT
1 CTACCAACAGATTAGAGGATAATTCTTAACAAAAAATCTTACCAACATATTGA-AAAATATTTCT
15084145 GAAAATAAATTATTTTCACAAACAAATAAAATTTCAATC
65 GAAAATAAATTATTTTCACAAACAAATAAAATTTCAATC
* *
15084184 CTACCAACAGATTAGAGGATAATTCTTGATAAAAAATCTTACCAACATATTGAAAAATATTTCTG
1 CTACCAACAGATTAGAGGATAATTCTTAACAAAAAATCTTACCAACATATTGAAAAATATTTCTG
* *
15084249 ATAATAAATTATTTTTACAA
66 AAAATAAATTATTTTCACAA
15084269 GTAAAATTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
103 74 0.99
104 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (103 bp):
CTACCAACAGATTAGAGGATAATTCTTAACAAAAAATCTTACCAACATATTGAAAAATATTTCTG
AAAATAAATTATTTTCACAAACAAATAAAATTTCAATC
Found at i:15086093 original size:27 final size:27
Alignment explanation
Indices: 15086024--15086093 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
15086014 TCTTTAAATA
* *
15086024 TATATTTTTTAATAAAAATATATTAATT
1 TATATTATTTAATAAAAA-ATAATAATT
**
15086052 T-TA--A-TTAATCTAAAATAATAATT
1 TATATTATTTAATAAAAAATAATAATT
15086075 TATATTATTTAATAAAAAA
1 TATATTATTTAATAAAAAA
15086094 ATGTATTTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
23 9 0.28
24 10 0.31
26 1 0.03
27 11 0.34
28 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
TATATTATTTAATAAAAAATAATAATT
Found at i:15088180 original size:33 final size:34
Alignment explanation
Indices: 15088135--15088203 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 34
15088125 TAATAAAATT
* *
15088135 AAAATAAATGATGAAATATATATATTTAAATAAA
1 AAAATAAATGATGAAATAGAGATATTTAAATAAA
* *
15088169 AAAAT-AATGATGAGATAGGGATATTTAAATAAA
1 AAAATAAATGATGAAATAGAGATATTTAAATAAA
15088202 AA
1 AA
15088204 TAAAAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (34 bp):
AAAATAAATGATGAAATAGAGATATTTAAATAAA
Found at i:15088243 original size:30 final size:29
Alignment explanation
Indices: 15088202--15088269 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 29
15088192 TTTAAATAAA
* *
15088202 AATAAAAATTATTTATTAGTTTATTATAT
1 AATAAAAATTATTAATTAATTTATTATAT
15088231 AATAATAAATTATTAATTAATTTATTATAT
1 AATAA-AAATTATTAATTAATTTATTATAT
15088261 AATAAAAAT
1 AATAAAAAT
15088270 AAAAATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 9 0.25
30 27 0.75
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
AATAAAAATTATTAATTAATTTATTATAT
Found at i:15088311 original size:19 final size:20
Alignment explanation
Indices: 15088287--15088331 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
15088277 AAATTTATTT
15088287 ATTAATTCATTATATAAT-A
1 ATTAATTCATTATATAATAA
* * *
15088306 ATTAATTTATTTTATATTAA
1 ATTAATTCATTATATAATAA
15088326 ATTAAT
1 ATTAAT
15088332 AACTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTAATTCATTATATAATAA
Found at i:15096091 original size:25 final size:26
Alignment explanation
Indices: 15096062--15096110 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
15096052 TTTTTAAAAG
*
15096062 TTTATATATAT-AAATGTGCATTTAA
1 TTTATATATATAAAATATGCATTTAA
*
15096087 TTTATATTTATAAAATATGCATTT
1 TTTATATATATAAAATATGCATTT
15096111 TATGATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (26 bp):
TTTATATATATAAAATATGCATTTAA
Found at i:15096756 original size:25 final size:24
Alignment explanation
Indices: 15096728--15096777 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
15096718 AAAAAAATCA
15096728 TATTAAATAATTATAAATGAGAGTT
1 TATTAAATAATT-TAAATGAGAGTT
** *
15096753 TATTTGATTATTTAAATGAGAGTT
1 TATTAAATAATTTAAATGAGAGTT
15096777 T
1 T
15096778 TCAAAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
TATTAAATAATTTAAATGAGAGTT
Found at i:15102718 original size:61 final size:62
Alignment explanation
Indices: 15102582--15102719 Score: 149
Period size: 64 Copynumber: 2.2 Consensus size: 62
15102572 TTCAATTTTT
* *
15102582 TTAGATTATTTAATACATTTTTTGTCAATAAATATCTTAAATAATTATTTATAAAAAAATTGAA
1 TTAGATTATTTAATACATTTTCTGACAATAAATATCTTAAATAATTA--TATAAAAAAATTGAA
* * * *
15102646 TGAGATTATTTAATACGTTTTCTGACAA-AAATA-CTTTAAATAATTCA-CTAAAAAATTTG-A
1 TTAGATTATTTAATACATTTTCTGACAATAAATATC-TTAAATAATT-ATATAAAAAAATTGAA
15102706 TTAGTATTATTTAA
1 TTAG-ATTATTTAA
15102720 GGTATTTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
60 4 0.06
61 19 0.30
62 1 0.02
63 15 0.23
64 25 0.39
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (62 bp):
TTAGATTATTTAATACATTTTCTGACAATAAATATCTTAAATAATTATATAAAAAAATTGAA
Found at i:15103276 original size:60 final size:60
Alignment explanation
Indices: 15103118--15103286 Score: 180
Period size: 60 Copynumber: 2.8 Consensus size: 60
15103108 TATAAGTAAT
* * * *
15103118 TAAAAGAATTATTTAAGACGTTTTTTTATT-AAATATACCTTAAATTATTATTTTTAAAAAA
1 TAAAAAAATTATTTAAGAC-ATTTTTTATTGAAA-ATACCTTAAATAATTATTTTAAAAAAA
* * * ** * **
15103179 TATTAGAGATTATTTAAGATGTTTTTGACAGAAAATACCTTAAATAATTA-TTTAAAAAAA
1 TA-AAAAAATTATTTAAGACATTTTTTATTGAAAATACCTTAAATAATTATTTTAAAAAAA
15103239 TAAAAAAATTATTTAAGACATTTTTTATTGAGAAATACCTTAAATAAT
1 TAAAAAAATTATTTAAGACATTTTTTATTGA-AAATACCTTAAATAAT
15103287 CTCTACTATT
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
59 21 0.24
60 27 0.31
61 23 0.27
62 15 0.17
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (60 bp):
TAAAAAAATTATTTAAGACATTTTTTATTGAAAATACCTTAAATAATTATTTTAAAAAAA
Found at i:15103616 original size:16 final size:16
Alignment explanation
Indices: 15103597--15103627 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15103587 AATTACCTTA
15103597 AAAATTTCACGAATTT
1 AAAATTTCACGAATTT
15103613 AAAATTTCACGAATT
1 AAAATTTCACGAATT
15103628 AATTACCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (16 bp):
AAAATTTCACGAATTT
Found at i:15116990 original size:14 final size:14
Alignment explanation
Indices: 15116971--15117013 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
15116961 TATAATCTTA
15116971 AATTATAATTAAAT
1 AATTATAATTAAAT
15116985 AATTAT-ATTATAAT
1 AATTATAATTA-AAT
*
15116999 AATTATAAATAAAT
1 AATTATAATTAAAT
15117013 A
1 A
15117014 TTTTCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 4 0.15
14 19 0.73
15 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTATAATTAAAT
Found at i:15117004 original size:28 final size:30
Alignment explanation
Indices: 15116971--15117047 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 30
15116961 TATAATCTTA
15116971 AATTATAATTAAATAATTAT-A-TTATAAT
1 AATTATAATTAAATAATTATCATTTATAAT
* * *
15116999 AATTATAAATAAAT-ATTTTCATTTATCAT
1 AATTATAATTAAATAATTATCATTTATAAT
*
15117028 AATTA-AATTATATGAATTAT
1 AATTATAATTAAAT-AATTAT
15117048 TTAATATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 4 0.10
28 20 0.51
29 11 0.28
30 4 0.10
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (30 bp):
AATTATAATTAAATAATTATCATTTATAAT
Found at i:15137402 original size:19 final size:19
Alignment explanation
Indices: 15137384--15137420 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15137374 AAGATATTAT
*
15137384 TAAAATATAA-ATAATTTA
1 TAAAAAATAATATAATTTA
15137402 TAAAAAATAATATAATTTA
1 TAAAAAATAATATAATTTA
15137421 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAAATAATATAATTTA
Found at i:15138071 original size:17 final size:19
Alignment explanation
Indices: 15138028--15138086 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 19
15138018 ATTAAAGTAA
15138028 AAAAATTATAATTACAATT
1 AAAAATTATAATTACAATT
*
15138047 AAACATTAT-ATT-C-ATAT
1 AAAAATTATAATTACAAT-T
15138064 AAAAATTATTGAATTA-AATT
1 AAAAATTA-T-AATTACAATT
15138084 AAA
1 AAA
15138087 TAAATGAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
16 2 0.06
17 9 0.28
18 4 0.12
19 8 0.25
20 7 0.22
21 2 0.06
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAATTATAATTACAATT
Found at i:15138231 original size:2 final size:2
Alignment explanation
Indices: 15138220--15138252 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
15138210 TTTCATTGAC
15138220 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15138253 ACATTGTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:15138327 original size:2 final size:2
Alignment explanation
Indices: 15138320--15138349 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15138310 AAAATAGTAT
15138320 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15138350 CCCTTCAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15148619 original size:28 final size:28
Alignment explanation
Indices: 15148566--15148620 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
15148556 TTAAAATCAA
* * *
15148566 ATTAATCGAATTATATTATTTTATTTTT
1 ATTAATCAAATTAAATTATTTAATTTTT
15148594 ATTAATCAAATTAAAATT-TTTAATTTT
1 ATTAATCAAATT-AAATTATTTAATTTT
15148621 AAAAATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTAATCAAATTAAATTATTTAATTTTT
Found at i:15149465 original size:12 final size:13
Alignment explanation
Indices: 15149442--15149466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15149432 TATTTTGTAG
15149442 AAAATGATTTTTA
1 AAAATGATTTTTA
15149455 AAAATGATTTTT
1 AAAATGATTTTT
15149467 GTAATTTTAG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
AAAATGATTTTTA
Found at i:15149524 original size:22 final size:22
Alignment explanation
Indices: 15149490--15149539 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
15149480 TATGTTTGAT
*
15149490 AAAA-AACTAACTAATTAATGA
1 AAAATAACTAACTAATAAATGA
* *
15149511 AAAATAACTTACTAGTAAATGA
1 AAAATAACTAACTAATAAATGA
15149533 AAAATAA
1 AAAATAA
15149540 AGTCATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24
Consensus pattern (22 bp):
AAAATAACTAACTAATAAATGA
Found at i:15149768 original size:23 final size:22
Alignment explanation
Indices: 15149716--15149768 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
15149706 TTTTGTTTAA
15149716 TTTTACTTAAAATTTTAAAATAT
1 TTTTA-TTAAAATTTTAAAATAT
** **
15149739 TAATATTAAAAGTTTTTGAATAT
1 TTTTATTAAAA-TTTTAAAATAT
15149762 TTTTATT
1 TTTTATT
15149769 TTAAATATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
TTTTATTAAAATTTTAAAATAT
Found at i:15150043 original size:39 final size:39
Alignment explanation
Indices: 15149984--15150097 Score: 94
Period size: 42 Copynumber: 2.9 Consensus size: 39
15149974 TTAGTATTTC
*
15149984 AATAATAAATAGTAT--T-ATATTATTATTTTAATAATA
1 AATAATAAATAATATAATAATATTATTATTTTAATAATA
* *
15150020 AATAATAACAT-ATATAATAATATTTTTATTATTTTAATTATT
1 AATAATAA-ATAATATAATAATA---TTATTATTTTAATAATA
** *
15150062 AATGTTAAATAATCTAATAATATTATT-TTCTTAATA
1 AATAATAAATAATATAATAATATTATTATT-TTAATA
15150098 TGAATATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
36 11 0.18
37 2 0.03
38 3 0.05
39 13 0.21
41 2 0.03
42 31 0.50
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (39 bp):
AATAATAAATAATATAATAATATTATTATTTTAATAATA
Found at i:15150290 original size:15 final size:16
Alignment explanation
Indices: 15150258--15150293 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
15150248 AAAATGTAAG
15150258 TATTTTAATAGTATAAA
1 TATTTTAATAG-ATAAA
15150275 TATTTTAATA-ATAAA
1 TATTTTAATAGATAAA
15150290 TATT
1 TATT
15150294 ACTATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
17 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TATTTTAATAGATAAA
Found at i:15150610 original size:26 final size:28
Alignment explanation
Indices: 15150582--15150635 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
15150572 TTTTTATTAA
*
15150582 TTTATCCAAATA-ATAAAAATATTTTAT
1 TTTATCAAAATATATAAAAATATTTTAT
* *
15150609 TTTTTCAAAATATATAAATATATTTTA
1 TTTATCAAAATATATAAAAATATTTTA
15150636 AAAAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (28 bp):
TTTATCAAAATATATAAAAATATTTTAT
Found at i:15157515 original size:6 final size:6
Alignment explanation
Indices: 15157505--15157541 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
15157495 AATACTAACA
*
15157505 CTGCTA CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT C
1 CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT CTGCTT C
15157542 CACATCAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.03, C:0.35, G:0.16, T:0.46
Consensus pattern (6 bp):
CTGCTT
Found at i:15165848 original size:12 final size:14
Alignment explanation
Indices: 15165819--15165847 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15165809 TATTTATTTA
15165819 TTTATAAATATATT
1 TTTATAAATATATT
15165833 TTTA-AAATATATT
1 TTTATAAATATATT
15165846 TT
1 TT
15165848 ATTATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTATAAATATATT
Found at i:15165874 original size:20 final size:20
Alignment explanation
Indices: 15165839--15165918 Score: 71
Period size: 20 Copynumber: 4.1 Consensus size: 20
15165829 TATTTTTAAA
*
15165839 ATATATTTTATTATTATTATT
1 ATATA-TTTATCATTATTATT
*
15165860 AT-TATTTATCAATTAATA-T
1 ATATATTTATC-ATTATTATT
*
15165879 ATATATTTAT--TTATTAAT
1 ATATATTTATCATTATTATT
15165897 ATATATTT-TCTATTATTATT
1 ATATATTTATC-ATTATTATT
15165917 AT
1 AT
15165919 TTTTATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
17 6 0.12
18 9 0.18
19 8 0.16
20 24 0.49
21 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATATTTATCATTATTATT
Found at i:15166713 original size:19 final size:19
Alignment explanation
Indices: 15166676--15166713 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15166666 TCTTATTTAT
*
15166676 TTATTTATTATTATTATTA
1 TTATTTATTATTATGATTA
15166695 TTATTTATTGATTA-GATTA
1 TTATTTATT-ATTATGATTA
15166714 GAATAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTATTTATTATTATGATTA
Found at i:15166743 original size:6 final size:6
Alignment explanation
Indices: 15166728--15166760 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
15166718 AATTTGATAT
15166728 TTTTTA -TTTTA TTTTTA TTTTTA -TTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
15166761 TTAATGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:15166744 original size:11 final size:10
Alignment explanation
Indices: 15166727--15166762 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
15166717 TAATTTGATA
15166727 TTTTTTATTT
1 TTTTTTATTT
15166737 TATTTTTATTT
1 T-TTTTTATTT
15166748 TTATTTTATTT
1 TT-TTTTATTT
15166759 TTTT
1 TTTT
15166763 AATGATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:15166750 original size:17 final size:17
Alignment explanation
Indices: 15166728--15166760 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15166718 AATTTGATAT
15166728 TTTTTATTTTATTTTTA
1 TTTTTATTTTATTTTTA
15166745 TTTTTATTTTATTTTT
1 TTTTTATTTTATTTTT
15166761 TTAATGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTATTTTATTTTTA
Found at i:15166828 original size:57 final size:58
Alignment explanation
Indices: 15166768--15167072 Score: 338
Period size: 58 Copynumber: 5.3 Consensus size: 58
15166758 TTTTTAATGA
* *
15166768 TTTTCTT-AAAATAAAATTTTAAAAAAAATATTTTTGAGTAAAAGTTAAAAGCATCAA-
1 TTTTCTTGAAAATAAAATTTT-AAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAAT
* * * *
15166825 TTTTCTTTGAAAAT-AAGTTTTCTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAAT
1 TTTTC-TTGAAAATAAAATTTT-AAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAAT
15166884 TTTTCTTGAAAAT-AAATTTTAAAAAAATATTTTTGAGAAAAAAG-TAAAAGTATCAA-
1 TTTTCTTGAAAATAAAATTTTAAAAAAATATTTTTGAG-AAAAAGTTAAAAGTATCAAT
* * *
15166940 TTTTCATTGAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTC-TTGAAAATAAAATTTTAAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAAT
* * * * * * *
15166999 TTTTCTCG-AAATTAAAGTTTAAGAAAAATA-TTTTGGGGAAAAGTTAGAAGTACCAAT
1 TTTTCTTGAAAATAAAATTTTAA-AAAAATATTTTTGAGAAAAAGTTAAAAGTATCAAT
* *
15167056 TTTTCTTAAAAAAAAAA
1 TTTTCTTGAAAATAAAA
15167073 ACGTTTTAAG
Statistics
Matches: 212, Mismatches: 26, Indels: 19
0.82 0.10 0.07
Matches are distributed among these distances:
56 5 0.02
57 84 0.40
58 108 0.51
59 15 0.07
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (58 bp):
TTTTCTTGAAAATAAAATTTTAAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAAT
Found at i:15166941 original size:115 final size:115
Alignment explanation
Indices: 15166768--15167058 Score: 383
Period size: 115 Copynumber: 2.5 Consensus size: 115
15166758 TTTTTAATGA
* *
15166768 TTTTCTT-AAAATAAAATTTTAAAAAAAATATTTTTGAGTAAAAGTTAAAAGCATCAATTTTCTT
1 TTTTCTTGAAAAT-AAATTTT-AAAAAAATATTTTTGAGAAAAAGTTAAAAGCATCAATTTTCAT
*
15166832 TGAAAAT-AAGTTTTCTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAAT
64 TGAAAATAAAATTTT-TAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAAT
*
15166884 TTTTCTTGAAAATAAATTTTAAAAAAATATTTTTGAGAAAAAAG-TAAAAGTATCAATTTTCATT
1 TTTTCTTGAAAATAAATTTTAAAAAAATATTTTTGAG-AAAAAGTTAAAAGCATCAATTTTCATT
* *
15166948 GAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
65 GAAAATAAAATTTTTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAAT
* * * * * * * *
15166999 TTTTCTCGAAATTAAAGTTTAAGAAAAATA-TTTTGGGGAAAAGTTAGAAGTACCAATTTT
1 TTTTCTTGAAAATAAATTTTAA-AAAAATATTTTTGAGAAAAAGTTAAAAGCATCAATTTT
15167059 TCTTAAAAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
114 5 0.03
115 115 0.73
116 32 0.20
117 5 0.03
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.37
Consensus pattern (115 bp):
TTTTCTTGAAAATAAATTTTAAAAAAATATTTTTGAGAAAAAGTTAAAAGCATCAATTTTCATTG
AAAATAAAATTTTTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAAT
Found at i:15177217 original size:9 final size:9
Alignment explanation
Indices: 15177203--15177247 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
15177193 TATTATGCTT
15177203 AAAAAAAAG
1 AAAAAAAAG
*
15177212 AAAAAAAATT
1 AAAAAAAA-G
15177222 AAAAAAATA-
1 AAAAAAA-AG
15177231 AAAAAAAAG
1 AAAAAAAAG
15177240 AAAAAAAA
1 AAAAAAAA
15177248 TGGAATGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 1 0.03
9 23 0.72
10 7 0.22
11 1 0.03
ACGTcount: A:0.89, C:0.00, G:0.04, T:0.07
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:15177225 original size:19 final size:18
Alignment explanation
Indices: 15177201--15177247 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
15177191 AGTATTATGC
15177201 TTAAAAAAAAGAAAAAAAA
1 TTAAAAAAAA-AAAAAAAA
15177220 TTAAAAAAATAAAAAAAAA
1 TTAAAAAAA-AAAAAAAAA
*
15177239 -GAAAAAAAA
1 TTAAAAAAAA
15177248 TGGAATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 7 0.27
19 17 0.65
20 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (18 bp):
TTAAAAAAAAAAAAAAAA
Found at i:15178294 original size:44 final size:44
Alignment explanation
Indices: 15178244--15178498 Score: 329
Period size: 44 Copynumber: 5.9 Consensus size: 44
15178234 CAAGGAGTAA
*
15178244 TTTATTTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * * *
15178288 TTTATTTTTTCAAAGTTGTTGAACCTTTGTTTAGATGAGCTTTG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * *
15178332 TTTATTTTTTCAAAGTCGTTTAACCTCTATTTAGAGGAGCTTTG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * * *
15178376 TTTATTTTTCCAAAGTAGTTGAGCCTCTGATTAGAGGAGCTTTC
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* *
15178420 TTTA-TTTTTCAAAGTCGTTGAGCTTCTGATTAGAGGAGCTTTAG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT-G
* *
15178464 -TTA-TTTTTCAAAGTTG-TGAGCCTCTGCTTAGAGGA
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGA
15178499 ACTTAATCAA
Statistics
Matches: 186, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 17 0.09
43 50 0.27
44 119 0.64
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (44 bp):
TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
Found at i:15178771 original size:20 final size:20
Alignment explanation
Indices: 15178746--15178787 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
15178736 TTTATTATTA
15178746 TTATTTATCAATTAATATAT
1 TTATTTATCAATTAATATAT
**
15178766 TTATTTATTTATTAATATAT
1 TTATTTATCAATTAATATAT
15178786 TT
1 TT
15178788 TTTCTATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTATCAATTAATATAT
Found at i:15179551 original size:12 final size:11
Alignment explanation
Indices: 15179533--15179576 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
15179523 AAAGTTTTTA
15179533 TTTTTATTATT
1 TTTTTATTATT
15179544 TCTTTTATTATT
1 T-TTTTATTATT
*
15179556 ATTATTATTATT
1 -TTTTTATTATT
*
15179568 TATTTATTA
1 TTTTTATTA
15179577 GATTAGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 8 0.29
12 19 0.68
13 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:15179563 original size:24 final size:23
Alignment explanation
Indices: 15179530--15179576 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
15179520 CCAAAAGTTT
* *
15179530 TTATTTTTATTATTTCTTTTATTA
1 TTATTATTATTATTT-ATTTATTA
15179554 TTATTATTATTATTTATTTATTA
1 TTATTATTATTATTTATTTATTA
15179577 GATTAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATTATTATTATTTATTTATTA
Found at i:15179607 original size:5 final size:5
Alignment explanation
Indices: 15179597--15179626 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
15179587 ATTTGATATT
15179597 TTTTA TTTTA TTTTA TTTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTT
15179627 TTTAATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:15179616 original size:11 final size:11
Alignment explanation
Indices: 15179597--15179627 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15179587 ATTTGATATT
15179597 TTTTA-TTTTA
1 TTTTATTTTTA
15179607 TTTTATTTTTA
1 TTTTATTTTTA
15179618 TTTTATTTTT
1 TTTTATTTTT
15179628 TTAATGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:15179617 original size:16 final size:16
Alignment explanation
Indices: 15179596--15179626 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15179586 AATTTGATAT
15179596 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
15179612 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
15179627 TTTAATGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:15179697 original size:58 final size:59
Alignment explanation
Indices: 15179635--15179996 Score: 354
Period size: 58 Copynumber: 6.3 Consensus size: 59
15179625 TTTTTAATGA
* ** ** * * *
15179635 TTTTCTT-AAAATAAAATTGTAAAAAAAATATTTTTTTGAAAAAGTTAAAAGCATCAAT
1 TTTTCTTGAAAATAAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * *
15179693 TTTTCTTGAAAAT-AAGTTTTCTAAAAAATATATTCGAGGAAAAGTTGAAAGTATTAA-
1 TTTTCTTGAAAATAAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* *
15179750 TTTTCTTTGAAAAT--AATTTTCTAAAAAATATTTTTGAGGAAAAGGTAAAAGTATCAAT
1 TTTTC-TTGAAAATAAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
*
15179808 TTTTCTTGAAAATAAAATTTT-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * * * *
15179866 TTTTCTTAAAAATAAATTTTTTTAAAAATTATTTTTGAGAAAAAGTTGAAAGTATTAAT
1 TTTTCTTGAAAATAAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
* * * ** * *
15179925 TTTT-TTCG-AAATTAAAGTTTC-AGAAAAACA-TTTTGAAAAAAAGTTAAAAGTACCAA-
1 TTTTCTT-GAAAATAAAATTTTCTA-AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
15179981 TTTTCTT-AAAA-AAAAT
1 TTTTCTTGAAAATAAAAT
15179997 GTTTTAAGGA
Statistics
Matches: 254, Mismatches: 40, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
55 3 0.01
56 7 0.03
57 75 0.30
58 121 0.48
59 48 0.19
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (59 bp):
TTTTCTTGAAAATAAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
Found at i:15179836 original size:115 final size:117
Alignment explanation
Indices: 15179635--15180001 Score: 383
Period size: 115 Copynumber: 3.2 Consensus size: 117
15179625 TTTTTAATGA
* * ** ** *
15179635 TTTTCTT-AAAATAAAATTGTAAAAAAAATATTTTTTTGAAAAAGTTAAAAGCATCAATTTTTCT
1 TTTTCTTAAAAATAAATTTTTCTAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCT
* * *
15179699 TGAAAATAAGTTTTCTAAAAAATATATTCGAGGAAAAGTTGAAAGTATTAA-
66 TGAAAATAAATTTTCAAAAAAATATATTCGAGGAAAAGTTGAAAGTATCAAT
* * *
15179750 TTTTCTTTGAAAAT-AA-TTTTCTAAAAAATATTTTTGAGGAAAAGGTAAAAGTATCAATTTTTC
1 TTTTC-TTAAAAATAAATTTTTCTAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTC
* *
15179813 TTGAAAATAAAATTTT-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT
65 TTGAAAAT-AAATTTTCAAAAAAATATATTCGAGGAAAAGTTGAAAGTATCAAT
* * * *
15179866 TTTTCTTAAAAATAAATTTTTTTAAAAATTATTTTTGAGAAAAAGTTGAAAGTATTAATTTTT-T
1 TTTTCTTAAAAATAAATTTTTCTAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCT
* * * * * ** * *
15179930 TCGAAATTAAAGTTTCAGAAAAACAT-TTTGAAAAAAAGTTAAAAGTACCAA-
66 T-GAAAATAAATTTTCAAAAAAATATATTCGAGGAAAAGTTGAAAGTATCAAT
15179981 TTTTCTTAAAAA-AAATGTTTT
1 TTTTCTTAAAAATAAAT-TTTT
15180002 AAGGAAAAGT
Statistics
Matches: 215, Mismatches: 28, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
114 4 0.02
115 107 0.50
116 46 0.21
117 58 0.27
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (117 bp):
TTTTCTTAAAAATAAATTTTTCTAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCT
TGAAAATAAATTTTCAAAAAAATATATTCGAGGAAAAGTTGAAAGTATCAAT
Found at i:15179890 original size:16 final size:17
Alignment explanation
Indices: 15179863--15179894 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15179853 TGAAAGTATC
15179863 AATTTTTCTTAAAAATA
1 AATTTTTCTTAAAAATA
15179880 AATTTTT-TTAAAAAT
1 AATTTTTCTTAAAAAT
15179895 TATTTTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTTTCTTAAAAATA
Found at i:15179901 original size:16 final size:16
Alignment explanation
Indices: 15179863--15179901 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15179853 TGAAAGTATC
15179863 AATTTTTCTTAAAAAT
1 AATTTTTCTTAAAAAT
15179879 AAATTTTT-TTAAAAAT
1 -AATTTTTCTTAAAAAT
*
15179895 TATTTTT
1 AATTTTT
15179902 GAGAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 8 0.38
17 7 0.33
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTTTCTTAAAAAT
Found at i:15191288 original size:3 final size:3
Alignment explanation
Indices: 15191280--15191310 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15191270 TAAAATACTA
15191280 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15191311 GTCCCTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15197898 original size:25 final size:25
Alignment explanation
Indices: 15197846--15197899 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
15197836 TATTATTTGT
* * **
15197846 TTTATTTTATTATTAAGATATATTA
1 TTTAATTTATTAATAAGATATAAAA
*
15197871 TTTAATTTATTAATAATATATAAAA
1 TTTAATTTATTAATAAGATATAAAA
15197896 TTTA
1 TTTA
15197900 TATATCGATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
TTTAATTTATTAATAAGATATAAAA
Found at i:15198713 original size:14 final size:15
Alignment explanation
Indices: 15198683--15198723 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
15198673 TATTTTTATT
15198683 TATTTATTTATAAATA
1 TATTT-TTTATAAATA
15198699 TATTTTTTA-AAATA
1 TATTTTTTATAAATA
15198713 TATTTTATTAT
1 TATTTT-TTAT
15198724 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.48
15 7 0.30
16 5 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTTTTATAAATA
Found at i:15198745 original size:20 final size:20
Alignment explanation
Indices: 15198710--15198789 Score: 71
Period size: 20 Copynumber: 4.1 Consensus size: 20
15198700 ATTTTTTAAA
*
15198710 ATATATTTTATTATTATTATT
1 ATATA-TTTATCATTATTATT
*
15198731 AT-TATTTATCAATTAATA-T
1 ATATATTTATC-ATTATTATT
*
15198750 ATATATTTAT--TTATTAAT
1 ATATATTTATCATTATTATT
15198768 ATATATTT-TCTATTATTATT
1 ATATATTTATC-ATTATTATT
15198788 AT
1 AT
15198790 TTTTATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
17 6 0.12
18 9 0.18
19 8 0.16
20 24 0.49
21 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATATTTATCATTATTATT
Found at i:15198757 original size:54 final size:59
Alignment explanation
Indices: 15198673--15198797 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 59
15198663 AGTCTATTTG
** *
15198673 TATTTTTATTTATTTATTTATAAATATATTT-TTTA-AA-ATATA-TTT-TATTATTAT
1 TATTTTTATTTATCAATTAATAAATATATTTATTTATAATATATATTTTCTATTATTAT
* *
15198727 TATTATTATTTATCAATTAATATATATATTTATTTATTAATATATATTTTCTATTATTAT
1 TATTTTTATTTATCAATTAATAAATATATTTATTTA-TAATATATATTTTCTATTATTAT
15198787 TATTTTTATTT
1 TATTTTTATTT
15198798 TTTAACTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
54 26 0.44
55 4 0.07
57 2 0.03
58 5 0.08
59 3 0.05
60 19 0.32
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (59 bp):
TATTTTTATTTATCAATTAATAAATATATTTATTTATAATATATATTTTCTATTATTAT
Found at i:15199582 original size:19 final size:19
Alignment explanation
Indices: 15199545--15199582 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15199535 TCTTATTTAT
*
15199545 TTATTTATTATTATTATTA
1 TTATTTATTATTATGATTA
15199564 TTATTTATTGATTA-GATTA
1 TTATTTATT-ATTATGATTA
15199583 GAATAATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTATTTATTATTATGATTA
Found at i:15199613 original size:6 final size:6
Alignment explanation
Indices: 15199598--15199630 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
15199588 ATTTGATATT
15199598 TTTTTA -TTTTA TTTTTA TTTTTA -TTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
15199631 TAATGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:15199614 original size:11 final size:10
Alignment explanation
Indices: 15199596--15199631 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
15199586 TAATTTGATA
15199596 TTTTTTTATT
1 TTTTTTTATT
15199606 TTATTTTTATT
1 TT-TTTTTATT
15199617 TTTATTTTATT
1 TTT-TTTTATT
15199628 TTTT
1 TTTT
15199632 AATGATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:15199620 original size:17 final size:17
Alignment explanation
Indices: 15199598--15199630 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15199588 ATTTGATATT
15199598 TTTTTATTTTATTTTTA
1 TTTTTATTTTATTTTTA
15199615 TTTTTATTTTATTTTT
1 TTTTTATTTTATTTTT
15199631 TAATGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTATTTTATTTTTA
Found at i:15199759 original size:57 final size:55
Alignment explanation
Indices: 15199636--15199933 Score: 332
Period size: 57 Copynumber: 5.3 Consensus size: 55
15199626 TTTTTTAATG
* *
15199636 ATTTTTCTT-AAAATAAATTTTAAAAAAAATATTTTGAGTAAAAGTTAAAGCATCA
1 ATTTTTCTTGAAAATAAATTTT-AAAAAAATATTTTGAGAAAAAGTTAAAGTATCA
* **
15199691 A-TTTTCTTTGAAAATAAGTTTTTTAAAAATATTTTCGAGAAAAAGTTGAAAGTATCA
1 ATTTTTC-TTGAAAATAAATTTTAAAAAAATATTTT-GAGAAAAAGTT-AAAGTATCA
*
15199748 ATTTTTCTTGAAAATAAATTTTAAAAAAATATTTTTGAGAAAAAAGTAAAAGTATCA
1 ATTTTTCTTGAAAATAAATTTTAAAAAAATA-TTTTGAG-AAAAAGTTAAAGTATCA
* *
15199805 A-TTTTCATTGAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTTTC-TTGAAAAT-AAATTTTAAAAAAATA-TTTTGAGAAAAAGTT-AAAGTATCA
* * * * * *
15199863 ATTTTTCTCGAAATTAAAGTTTAAGAAAAATATTTTGGGGAAAAGTTAGAAGTACCA
1 ATTTTTCTTGAAAATAAATTTTAA-AAAAATATTTTGAGAAAAAGTTA-AAGTATCA
*
15199920 ATTTTTCTTAAAAA
1 ATTTTTCTTGAAAA
15199934 AAAAAACGTT
Statistics
Matches: 209, Mismatches: 21, Indels: 24
0.82 0.08 0.09
Matches are distributed among these distances:
54 5 0.02
55 14 0.07
56 27 0.13
57 96 0.46
58 62 0.30
59 5 0.02
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (55 bp):
ATTTTTCTTGAAAATAAATTTTAAAAAAATATTTTGAGAAAAAGTTAAAGTATCA
Found at i:15199866 original size:115 final size:113
Alignment explanation
Indices: 15199636--15199898 Score: 377
Period size: 115 Copynumber: 2.3 Consensus size: 113
15199626 TTTTTTAATG
* * *
15199636 ATTTTTCTT-AAAATAAATTTTAAAAAAA-ATATTTTGAGTAAAAGTTAAAGCATCAATTTTCTT
1 ATTTTTCTTGAAAATAAATTTTAAAAAAATAT-TTTTGAGAAAAAGTAAAAGCATCAATTTTCAT
* *
15199699 TGAAAATAAGTTTTTTAAAAATATTTTCGAGAAAAAGTTGAAAGTATCA
65 TGAAAATAAATTTTTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCA
*
15199748 ATTTTTCTTGAAAATAAATTTTAAAAAAATATTTTTGAGAAAAAAGTAAAAGTATCAATTTTCAT
1 ATTTTTCTTGAAAATAAATTTTAAAAAAATATTTTTGAG-AAAAAGTAAAAGCATCAATTTTCAT
* *
15199813 TGAAAATAAAATTTTTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
65 TGAAAAT-AAATTTTTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCA
* * *
15199863 ATTTTTCTCGAAATTAAAGTTTAAGAAAAATATTTT
1 ATTTTTCTTGAAAATAAATTTTAA-AAAAATATTTT
15199899 GGGGAAAAGT
Statistics
Matches: 135, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
112 9 0.07
113 26 0.19
114 30 0.22
115 59 0.44
116 11 0.08
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (113 bp):
ATTTTTCTTGAAAATAAATTTTAAAAAAATATTTTTGAGAAAAAGTAAAAGCATCAATTTTCATT
GAAAATAAATTTTTAAAAAATATTTTCGAGAAAAAGTTGAAAGTATCA
Found at i:15210095 original size:19 final size:19
Alignment explanation
Indices: 15210071--15210124 Score: 92
Period size: 19 Copynumber: 2.8 Consensus size: 19
15210061 TATTATGCTT
15210071 AAAAAAAAGAAAAAAAATA
1 AAAAAAAAGAAAAAAAATA
15210090 AAAAAAATA-AAAAAAAATA
1 AAAAAAA-AGAAAAAAAATA
15210109 AAAAAAAAGAAAAAAA
1 AAAAAAAAGAAAAAAA
15210125 TGGAATGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.03
19 31 0.94
20 1 0.03
ACGTcount: A:0.91, C:0.00, G:0.04, T:0.06
Consensus pattern (19 bp):
AAAAAAAAGAAAAAAAATA
Found at i:15210136 original size:1 final size:1
Alignment explanation
Indices: 15210071--15210124 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
15210061 TATTATGCTT
* * * * *
15210071 AAAAAAAAGAAAAAAAATAAAAAAAATAAAAAAAAATAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15210125 TGGAATGAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.91, C:0.00, G:0.04, T:0.06
Consensus pattern (1 bp):
A
Found at i:15211329 original size:43 final size:44
Alignment explanation
Indices: 15211121--15211375 Score: 338
Period size: 44 Copynumber: 5.9 Consensus size: 44
15211111 CAAGGAGTAA
*
15211121 TTTATTTTTTCAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * * *
15211165 TTTATTTTTTCAAAGTTGTTGAACCTTTGTTTAGATGAGCTTTG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* *
15211209 TTTATTTTTTCAAAGTCGTTTAACCTCTGTTTAGAGGAGCTTTG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * * *
15211253 TTTATTTTTCCAAATTCGTTGAGCCTCTGATTAGAGGAGCTTTC
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* *
15211297 TTTA-TTTTTCAAAGTCGTTGAGCTTCTGATTAGAGGAGCTTTAG
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTT-G
* *
15211341 -TTA-TTTTTCAAAGTTG-TGAGCCTCTGCTTAGAGGA
1 TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGA
15211376 ACTTAATCAA
Statistics
Matches: 188, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 17 0.09
43 50 0.27
44 121 0.64
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.45
Consensus pattern (44 bp):
TTTATTTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
Found at i:15211647 original size:20 final size:20
Alignment explanation
Indices: 15211622--15211663 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
15211612 TTTATTATTA
15211622 TTATTTATCAATTAATATAT
1 TTATTTATCAATTAATATAT
**
15211642 TTATTTATTTATTAATATAT
1 TTATTTATCAATTAATATAT
15211662 TT
1 TT
15211664 TTTCTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTATCAATTAATATAT
Found at i:15211673 original size:20 final size:20
Alignment explanation
Indices: 15211632--15211686 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
15211622 TTATTTATCA
*
15211632 ATTAATATATTTATTTATTT
1 ATTAATATATTTTTTTATTT
15211652 ATTAATATATTTTTTCTA-TT
1 ATTAATATATTTTTT-TATTT
*
15211672 ATTATTATTATTTTT
1 ATTAATA-TATTTTT
15211687 GACTTTATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTAATATATTTTTTTATTT
Found at i:15212606 original size:57 final size:57
Alignment explanation
Indices: 15212508--15212927 Score: 408
Period size: 57 Copynumber: 7.3 Consensus size: 57
15212498 TTTTTTAATG
* ** * *
15212508 ATTTTCTT-AAAATAAAATTGTAAAAAAAATATTTTTTGA--AAAAGTTAAAAGCATCA
1 ATTTTCTTGAAAAT-AAATTTTCTAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCA
* * * *
15212564 ATTTTCTTGAAAAT-AAGTTTCTAAAAAATATATTCGAGGAAAAGTTGAAAGTATTA
1 ATTTTCTTGAAAATAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* *
15212620 ATTTTCTTTGAAAAT-AATTTTCTAAAAAATATTTTTGAGGAAAAGGTAAAAGTATCA
1 ATTTTC-TTGAAAATAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* *
15212677 ATTTTTCTTGAAAATAAAATTTT-AAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCA
1 A-TTTTCTTGAAAAT-AAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* * *
15212735 ATTTTTCTTAAAAATAATTTTTTTAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
1 A-TTTTCTTGAAAATAAATTTTCT--AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* * * *
15212795 ATTTTCCTTAAAAATAAATTTTTTTAAAAATTATTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTT-CTTGAAAATAAA-TTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
* * * * ** * *
15212854 ATTTTTCTCGAAATTAAAGTTTC-AGAAAAACA-TTTTGAAAAAAAGTTAAAAGTACCA
1 A-TTTTCTTGAAAATAAATTTTCTA-AAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
*
15212911 ATTTTCTT-AAAAAAAAT
1 ATTTTCTTGAAAATAAAT
15212928 GTTTTAAGAA
Statistics
Matches: 310, Mismatches: 40, Indels: 29
0.82 0.11 0.08
Matches are distributed among these distances:
54 5 0.02
55 18 0.06
56 34 0.11
57 88 0.28
58 58 0.19
59 52 0.17
60 49 0.16
61 6 0.02
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (57 bp):
ATTTTCTTGAAAATAAATTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
Found at i:15212760 original size:15 final size:15
Alignment explanation
Indices: 15212734--15212773 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
15212724 TGAAAGTATC
*
15212734 AATTTTTCTTAAAAAT
1 AATTTTT-TTAAAAAA
15212750 AATTTTTTTAAAAAA
1 AATTTTTTTAAAAAA
15212765 AATATTTTT
1 AAT-TTTTT
15212774 GAGGAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTTTTTTAAAAAA
Found at i:15224057 original size:50 final size:50
Alignment explanation
Indices: 15223976--15224071 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
15223966 AAAAAATTTG
* * **
15223976 AAATCTTGATAAAGCTTGAGAGCTATTTAAATCGA-TAATTACAAAATTCA
1 AAATCTTGATAAAGCTTGAAAACTACATAAATCGAGT-ATTACAAAATTCA
* *
15224026 AAATCTTTATAAAGCTTGAAAATTACATAAATCGAGTATTACAAAA
1 AAATCTTGATAAAGCTTGAAAACTACATAAATCGAGTATTACAAAA
15224072 CTGGAAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 38 0.97
51 1 0.03
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.31
Consensus pattern (50 bp):
AAATCTTGATAAAGCTTGAAAACTACATAAATCGAGTATTACAAAATTCA
Found at i:15224235 original size:3 final size:3
Alignment explanation
Indices: 15224227--15224254 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15224217 TAAAATACTA
15224227 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15224255 GTCCCTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15236912 original size:3 final size:3
Alignment explanation
Indices: 15236904--15236928 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15236894 TTGTTGGTTT
15236904 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
15236929 CAAATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15240275 original size:2 final size:2
Alignment explanation
Indices: 15240264--15240292 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15240254 GATACTTCTC
15240264 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15240293 GTTGCCAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:15240697 original size:3 final size:3
Alignment explanation
Indices: 15240689--15240726 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
15240679 CACTTATATG
15240689 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15240727 AACATACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15241365 original size:233 final size:232
Alignment explanation
Indices: 15240959--15241653 Score: 863
Period size: 250 Copynumber: 2.9 Consensus size: 232
15240949 TCTGTACGTT
* ** * * *
15240959 ACCTCATCTCAATTTAAAACTAATTTTAAACCAATTGATCTTTTTTAACTTATTTGGAGTTAATA
1 ACCTCATCTCAATTTAAAATTAATTTTAAAGTAATTTATCTTTTTTAATTTATTTGCAGTTAATA
*
15241024 TGAATATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTGTAAAT
66 TGAATATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAAT
* *
15241089 AATCTCTACATTATCTTTAATTTTTAAATGTATTACACAAAGGAAATGTGAAACAAATATATAAA
131 AATCT-TACATTATCTTTAATTTTTAAATATATTTCACAAAGGAAATGTGAAA-AAATATATAAA
* *
15241154 TACTAGAACAACTTTAT-GA-AAGTTTCTCTTATACATC
194 TACTAGAACAACTTTATACACAAGTTTCTCCTATACATC
* ** *
15241191 ACCTCATCTCAATTTAAAATTAATTTTAAAGTAATTTATCTTTTTTTAATTTATCTATAGTTAAC
1 ACCTCATCTCAATTTAAAATTAATTTTAAAGTAATTTATC-TTTTTTAATTTATTTGCAGTTAAT
* * *
15241256 ATGAACATTTAAATTTATCACGACTTTTAAAAATTTTATTTAATATCTTTAATATTTTTTATAAA
65 ATGAATATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAA
** * *
15241321 TAATCCTTACATTATCTTTCGTTTTTAAATATATTTCACAAAGGAAATGAGAAAAAATAAATAAA
130 TAAT-CTTACATTATCTTTAATTTTTAAATATATTTCACAAAGGAAATGTGAAAAAATATATAAA
* * *
15241386 TGCCAAAACAACTTCAAAAAAGTTTTTTTTATACATCAAGTTTCTCCTATACATC
194 TACTAGAACAA---C------------TTTATACA-CAAGTTTCTCCTATACATC
* * *
15241441 ACCTTATCTCAATTTAAAATCAATTTTAAAGTAATTTATCTTTTCTAATTTATTTGCAGTTAATA
1 ACCTCATCTCAATTTAAAATTAATTTTAAAGTAATTTATCTTTTTTAATTTATTTGCAGTTAATA
*
15241506 TGAATATTTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAA
66 TGAATA-TTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAA
* * *
15241571 TAATTATTGCATTATCTTTAATTTTTAAATATATTTCACAAAAGAAATGTGAACAAAAATATATA
130 TAA-TCTTACATTATCTTTAATTTTTAAATATATTTCACAAAGGAAATGTG-A-AAAAATATATA
*
15241636 AAAACTAGAACAACTTTA
192 AATACTAGAACAACTTTA
15241654 GGATAGTCCT
Statistics
Matches: 393, Mismatches: 46, Indels: 43
0.82 0.10 0.09
Matches are distributed among these distances:
232 54 0.14
233 126 0.32
234 2 0.01
235 1 0.00
237 4 0.01
247 5 0.01
248 1 0.00
249 26 0.07
250 153 0.39
251 2 0.01
252 19 0.05
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.43
Consensus pattern (232 bp):
ACCTCATCTCAATTTAAAATTAATTTTAAAGTAATTTATCTTTTTTAATTTATTTGCAGTTAATA
TGAATATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATATTTTTTATAAAT
AATCTTACATTATCTTTAATTTTTAAATATATTTCACAAAGGAAATGTGAAAAAATATATAAATA
CTAGAACAACTTTATACACAAGTTTCTCCTATACATC
Found at i:15241566 original size:32 final size:33
Alignment explanation
Indices: 15241530--15241596 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
15241520 TTATCATAAC
*
15241530 TTTTAAAAAT-ATTATT-TAATATCTTTAATATT
1 TTTTAAAAATAATTATTGCAATATCTTTAAT-TT
* *
15241562 TTTTATAAATAATTATTGCATTATCTTTAATTT
1 TTTTAAAAATAATTATTGCAATATCTTTAATTT
15241595 TT
1 TT
15241597 AAATATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 9 0.30
33 10 0.33
34 11 0.37
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (33 bp):
TTTTAAAAATAATTATTGCAATATCTTTAATTT
Found at i:15242874 original size:13 final size:14
Alignment explanation
Indices: 15242848--15242878 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
15242838 TGTGTATAAA
15242848 AATTTAATAAAATT
1 AATTTAATAAAATT
15242862 AATTTAA-AAAATT
1 AATTTAATAAAATT
15242875 AATT
1 AATT
15242879 AACTAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTTAATAAAATT
Found at i:15251542 original size:18 final size:18
Alignment explanation
Indices: 15251519--15251643 Score: 73
Period size: 18 Copynumber: 6.9 Consensus size: 18
15251509 TTTTAGTATA
15251519 ATTTTACTT-ATAAATAAT
1 ATTTTA-TTAATAAATAAT
15251537 ATTTTATTAATAAATAAT
1 ATTTTATTAATAAATAAT
**
15251555 ATACTATTAAT--ATAAT
1 ATTTTATTAATAAATAAT
*
15251571 A---TCTTAATAAATAAT
1 ATTTTATTAATAAATAAT
* ** *
15251586 ATTATATGCATAAACAAT
1 ATTTTATTAATAAATAAT
15251604 ATTATAATATATTAATAAATAAT
1 A-T-T--T-TATTAATAAATAAT
**
15251627 ATTACATTAATAAATAA
1 ATTTTATTAATAAATAA
15251644 CAATATATTA
Statistics
Matches: 83, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
13 6 0.07
15 6 0.07
16 6 0.07
17 2 0.02
18 47 0.57
19 1 0.01
20 1 0.01
21 1 0.01
22 1 0.01
23 12 0.14
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (18 bp):
ATTTTATTAATAAATAAT
Found at i:15251591 original size:23 final size:23
Alignment explanation
Indices: 15251565--15251630 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 23
15251555 ATACTATTAA
15251565 TATAATATCTTAATAAATAATAT
1 TATAATATCTTAATAAATAATAT
* *
15251588 TAT-AT-GC---ATAAACAATAT
1 TATAATATCTTAATAAATAATAT
*
15251606 TATAATATATTAATAAATAATAT
1 TATAATATCTTAATAAATAATAT
15251629 TA
1 TA
15251631 CATTAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
18 13 0.39
19 2 0.06
21 1 0.03
22 2 0.06
23 15 0.45
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (23 bp):
TATAATATCTTAATAAATAATAT
Found at i:15251653 original size:18 final size:18
Alignment explanation
Indices: 15251609--15251654 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
15251599 ACAATATTAT
*
15251609 AATATATTAATAAATAAT
1 AATATATTAATAAATAAC
* *
15251627 ATTACATTAATAAATAAC
1 AATATATTAATAAATAAC
15251645 AATATATTAA
1 AATATATTAA
15251655 ATACTTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATATTAATAAATAAC
Found at i:15251678 original size:22 final size:21
Alignment explanation
Indices: 15251652--15251740 Score: 87
Period size: 22 Copynumber: 4.3 Consensus size: 21
15251642 AACAATATAT
* *
15251652 TAAATACTTTTAATTTAATTAA
1 TAAATA-TTATAATATAATTAA
15251674 TAAATATTATAATAATATATTAA
1 TAAATATTATAAT-ATA-ATTAA
15251697 T-AATATTATAATAT-ATTAA
1 TAAATATTATAATATAATTAA
* *
15251716 TAAATAATATAA-AGAA-TAA
1 TAAATATTATAATATAATTAA
15251735 TAAATA
1 TAAATA
15251741 GTTTTGTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
19 16 0.27
20 10 0.17
21 8 0.14
22 19 0.32
23 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (21 bp):
TAAATATTATAATATAATTAA
Found at i:15251689 original size:19 final size:20
Alignment explanation
Indices: 15251565--15251740 Score: 104
Period size: 19 Copynumber: 8.9 Consensus size: 20
15251555 ATACTATTAA
* *
15251565 TATAATATCTTAATAAATAA
1 TATAATATATTAATAAATAT
*
15251585 TATTATATGCA-TAA-ACAATAT
1 TATAATAT--ATTAATA-AATAT
15251606 TATAATATATTAATAAATA-
1 TATAATATATTAATAAATAT
* *
15251625 -ATATTACATTAATAAATA-
1 TATAATATATTAATAAATAT
*
15251643 -ACAATATA-T--TAAATACT
1 TATAATATATTAATAAATA-T
* *
15251660 TTTAATTTAATTAATAAATATT
1 TATAATAT-ATTAATAAATA-T
15251682 ATAATAATATATTAAT-AATAT
1 -T-ATAATATATTAATAAATAT
*
15251703 TATAATATATTAATAAATAA
1 TATAATATATTAATAAATAT
* *
15251723 TATAA-AGAATAATAAATA
1 TATAATATATTAATAAATA
15251741 GTTTTGTTTT
Statistics
Matches: 123, Mismatches: 18, Indels: 31
0.72 0.10 0.18
Matches are distributed among these distances:
15 6 0.05
17 1 0.01
18 25 0.20
19 26 0.21
20 26 0.21
21 16 0.13
22 11 0.09
23 7 0.06
24 5 0.04
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (20 bp):
TATAATATATTAATAAATAT
Found at i:15251692 original size:8 final size:8
Alignment explanation
Indices: 15251601--15251727 Score: 52
Period size: 8 Copynumber: 15.9 Consensus size: 8
15251591 ATGCATAAAC
*
15251601 AATATTAT
1 AATATAAT
*
15251609 AATATATT
1 AATATAAT
15251617 AATA-AAT
1 AATATAAT
15251624 AATAT--T
1 AATATAAT
15251630 ACAT-TAAT
1 A-ATATAAT
*
15251638 AA-ATAAC
1 AATATAAT
*
15251645 AATATATT
1 AATATAAT
**
15251653 AAATACTTTT
1 -AATA-TAAT
*
15251663 AATTTAATT
1 AATATAA-T
15251672 AATA-AAT
1 AATATAAT
*
15251679 ATTATAAT
1 AATATAAT
15251687 AATATATTAAT
1 -A-ATA-TAAT
*
15251698 AATATTAT
1 AATATAAT
*
15251706 AATATATT
1 AATATAAT
15251714 AATA-AAT
1 AATATAAT
15251721 AATATAA
1 AATATAA
15251728 AGAATAATAA
Statistics
Matches: 88, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
6 3 0.03
7 24 0.27
8 36 0.41
9 15 0.17
10 6 0.07
11 4 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (8 bp):
AATATAAT
Found at i:15251830 original size:16 final size:16
Alignment explanation
Indices: 15251755--15251845 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 16
15251745 TGTTTTAAGT
15251755 ATTTTT-ATATTAACATA
1 ATTTTTAATA-TAA-ATA
15251772 ATATTTTAATATTAAATA
1 AT-TTTTAATA-TAAATA
* *
15251790 TTATTATTAAAATATAATTA
1 --ATT-TT-TAATATAAATA
*
15251810 TTTTTTAATATAAATA
1 ATTTTTAATATAAATA
*
15251826 A-TTTTAATAACAAATA
1 ATTTTTAAT-ATAAATA
15251842 ATTT
1 ATTT
15251846 CACTATATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
15 7 0.12
16 16 0.27
17 6 0.10
18 9 0.15
19 8 0.14
20 9 0.15
21 4 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTTAATATAAATA
Found at i:15251832 original size:15 final size:16
Alignment explanation
Indices: 15251812--15251845 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15251802 TATAATTATT
*
15251812 TTTTAAT-ATAAATAA
1 TTTTAATAACAAATAA
15251827 TTTTAATAACAAATAA
1 TTTTAATAACAAATAA
15251843 TTT
1 TTT
15251846 CACTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTAATAACAAATAA
Found at i:15251843 original size:36 final size:41
Alignment explanation
Indices: 15251772--15251877 Score: 109
Period size: 36 Copynumber: 2.6 Consensus size: 41
15251762 TATTAACATA
*
15251772 ATATTTTAATATTAAAT-ATTATTATTAAAATATAA-TT-A-T
1 ATATTTTAATA-TAAATAATT-TTAATAAAATATAATTTCACT
15251811 -T-TTTTAATATAAATAATTTTAATAACAA-ATAATTTCACT
1 ATATTTTAATATAAATAATTTTAATAA-AATATAATTTCACT
15251850 ATATTTTAATAATAAATAAATTTTAATA
1 ATATTTTAAT-ATAAAT-AATTTTAATA
15251878 TTTTAATAGT
Statistics
Matches: 57, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
36 15 0.26
37 15 0.26
38 2 0.04
39 1 0.02
40 1 0.02
41 7 0.12
42 6 0.11
43 10 0.18
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (41 bp):
ATATTTTAATATAAATAATTTTAATAAAATATAATTTCACT
Found at i:15251884 original size:25 final size:25
Alignment explanation
Indices: 15251826--15251885 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
15251816 AATATAAATA
15251826 ATTTTAATAACAAATAATTTCACTAT
1 ATTTTAATAACAAATAATTTCAC-AT
* *
15251852 ATTTTAATAATAAATAAATTTTA-AT
1 ATTTTAATAACAAAT-AATTTCACAT
15251877 ATTTTAATA
1 ATTTTAATA
15251886 GTTATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 11 0.35
26 14 0.45
27 6 0.19
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTTTAATAACAAATAATTTCACAT
Found at i:15252244 original size:15 final size:15
Alignment explanation
Indices: 15252225--15252264 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
15252215 AAAAAAAAAA
*
15252225 AAAACAAAACGAATC
1 AAAACAAAACGAAAC
* *
15252240 GAAACGAAACGAAAC
1 AAAACAAAACGAAAC
15252255 AAAACAAAAC
1 AAAACAAAAC
15252265 AATGCAGCCG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.68, C:0.20, G:0.10, T:0.03
Consensus pattern (15 bp):
AAAACAAAACGAAAC
Found at i:15254439 original size:36 final size:36
Alignment explanation
Indices: 15254364--15254470 Score: 180
Period size: 36 Copynumber: 3.0 Consensus size: 36
15254354 ATCATAACCT
15254364 CCCAGTCATGTCTCTCCACGTGGCACAT-CCCATTG
1 CCCAGTCATGTCTCTCCACGTGGCACATCCCCATTG
*
15254399 CCCAGTCATGTCTCTCCACGTGGCAAATCCCCATTG
1 CCCAGTCATGTCTCTCCACGTGGCACATCCCCATTG
* *
15254435 CCCAGTCATGTTTCTCAACGTGGCACATCCCCATTG
1 CCCAGTCATGTCTCTCCACGTGGCACATCCCCATTG
15254471 GTTCAATCTC
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 27 0.40
36 40 0.60
ACGTcount: A:0.19, C:0.38, G:0.17, T:0.26
Consensus pattern (36 bp):
CCCAGTCATGTCTCTCCACGTGGCACATCCCCATTG
Found at i:15262533 original size:2 final size:2
Alignment explanation
Indices: 15262526--15262552 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15262516 TGTGTTGATA
15262526 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15262553 ACTTACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15263242 original size:17 final size:17
Alignment explanation
Indices: 15263220--15263257 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
15263210 TTAACAAGCC
*
15263220 TTAAAA-ATTCAACAATA
1 TTAAAATATT-AAAAATA
15263237 TTAAAATATTAAAAATA
1 TTAAAATATTAAAAATA
15263254 TTAA
1 TTAA
15263258 TATTGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAAAATATTAAAAATA
Found at i:15264521 original size:30 final size:31
Alignment explanation
Indices: 15264487--15264551 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
15264477 ATTTCTCAAG
*
15264487 TTTGA-TTTTTGGTATTCG-TACTTAATTTGT
1 TTTGAGTTTTTGGTAGT-GATACTTAATTTGT
*
15264517 TTTGAGTTTTTGGTAGTGATATTTAATTTGT
1 TTTGAGTTTTTGGTAGTGATACTTAATTTGT
15264548 TTTG
1 TTTG
15264552 CAGCTTGTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (31 bp):
TTTGAGTTTTTGGTAGTGATACTTAATTTGT
Found at i:15269706 original size:29 final size:32
Alignment explanation
Indices: 15269645--15269730 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 32
15269635 ATAACTTTTG
* * * * *
15269645 AATTAT-AATATAATATTTAATGTGATATTTA
1 AATTATAAATTTATTATTTAATATAATATATA
15269676 AATT-TAAATTT-TT-TTTAATATAATATATA
1 AATTATAAATTTATTATTTAATATAATATATA
*
15269705 AATTATAAATTTATTAATTAATATAA
1 AATTATAAATTTATTATTTAATATAA
15269731 CATTCATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 17 0.38
30 9 0.20
31 10 0.22
32 9 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (32 bp):
AATTATAAATTTATTATTTAATATAATATATA
Found at i:15275296 original size:34 final size:33
Alignment explanation
Indices: 15275250--15275378 Score: 84
Period size: 34 Copynumber: 3.8 Consensus size: 33
15275240 CTTACGAAAA
15275250 TTTAAAATTTTTAGAAATAAATATTCAAAAACCT
1 TTTAAAA-TTTTAGAAATAAATATTCAAAAACCT
* ** * *
15275284 TTTAAAACTTTTAAAAATTTATTTTCAAAAA-TT
1 TTTAAAA-TTTTAGAAATAAATATTCAAAAACCT
* * *
15275317 TTTAAATATTTTCAGATAT-TAT-TTGTAAAAACCT
1 TTTAAA-ATTTT-AGAAATAAATATT-CAAAAACCT
*
15275351 TTTAAAAATTTTTGAAAATAAAATATTC
1 TTT-AAAATTTTAG-AAAT-AAATATTC
15275379 CAATAAAGTA
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
32 2 0.03
33 20 0.28
34 43 0.60
35 3 0.04
36 2 0.03
37 2 0.03
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (33 bp):
TTTAAAATTTTAGAAATAAATATTCAAAAACCT
Found at i:15279791 original size:16 final size:15
Alignment explanation
Indices: 15279770--15279835 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
15279760 TCTGTTTGGA
15279770 TTTTCTGCTTGTTTT-T
1 TTTTCT-CTT-TTTTCT
15279786 TTTTCTCTTTTTTCTT
1 TTTTCTCTTTTTTC-T
*
15279802 TTTTTTCTTTCTTT-T
1 TTTTCTCTTT-TTTCT
* *
15279817 TTTCCTCTTTTTTAT
1 TTTTCTCTTTTTTCT
15279832 TTTT
1 TTTT
15279836 AAATTAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 7 0.17
15 16 0.38
16 16 0.38
17 3 0.07
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTCTCTTTTTTCT
Found at i:15279806 original size:20 final size:20
Alignment explanation
Indices: 15279781--15279818 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15279771 TTTCTGCTTG
*
15279781 TTTTTTTT-TCTCTTTTTTC
1 TTTTTTTTCTTTCTTTTTTC
15279800 TTTTTTTTCTTTCTTTTTT
1 TTTTTTTTCTTTCTTTTTT
15279819 TCCTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (20 bp):
TTTTTTTTCTTTCTTTTTTC
Found at i:15279812 original size:22 final size:21
Alignment explanation
Indices: 15279781--15279829 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
15279771 TTTCTGCTTG
*
15279781 TTTTTTTTTCTCTTTTTT-CTT
1 TTTTTTTTTCT-TTTTTTCCTC
15279802 TTTTTTCTTTCTTTTTTTCCTC
1 TTTTTT-TTTCTTTTTTTCCTC
15279824 TTTTTT
1 TTTTTT
15279830 ATTTTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTTTTCTTTTTTTCCTC
Found at i:15279897 original size:19 final size:19
Alignment explanation
Indices: 15279873--15279909 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15279863 TTAAACCAAT
* *
15279873 ATTATTTTTTTTAAAAAAA
1 ATTATTATTATTAAAAAAA
15279892 ATTATTATTATTAAAAAA
1 ATTATTATTATTAAAAAA
15279910 TATAAACCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTATTATTATTAAAAAAA
Found at i:15280249 original size:24 final size:24
Alignment explanation
Indices: 15280217--15280266 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
15280207 CCACGAATCG
*
15280217 AAATCATGCTCGAAGGTCTTACAA
1 AAATCATGCCCGAAGGTCTTACAA
*
15280241 AAATCATGCCCGAAGGTTTTACAA
1 AAATCATGCCCGAAGGTCTTACAA
15280265 AA
1 AA
15280267 TCGACTGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (24 bp):
AAATCATGCCCGAAGGTCTTACAA
Found at i:15280402 original size:87 final size:87
Alignment explanation
Indices: 15280240--15280435 Score: 277
Period size: 87 Copynumber: 2.3 Consensus size: 87
15280230 AGGTCTTACA
* * * * * *
15280240 AAAATCATGCCCGAAGGTTTTACAAAATCGAC-TGAGACAACACCGTAAGTCGAGAATAATGAAT
1 AAAATTATGCCCGAAGGTCTTATAGAATCAACTTG-GACAACACCGCAAGTCGAGAATAATGAAT
*
15280304 CGATCGAGATAACACCGCGAATC
65 CAATCGAGATAACACCGCGAATC
* *
15280327 GAAATTATGTCCGAAGGTCTTATAGAATCAACTTGGACAACACCGCAAGTCGAGAATAATGAATC
1 AAAATTATGCCCGAAGGTCTTATAGAATCAACTTGGACAACACCGCAAGTCGAGAATAATGAATC
*
15280392 AATCGGGATAACACCGCGAATC
66 AATCGAGATAACACCGCGAATC
*
15280414 AAAATTATGCCCGGAGGTCTTA
1 AAAATTATGCCCGAAGGTCTTA
15280436 GAAATCATGT
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 93 0.98
88 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (87 bp):
AAAATTATGCCCGAAGGTCTTATAGAATCAACTTGGACAACACCGCAAGTCGAGAATAATGAATC
AATCGAGATAACACCGCGAATC
Found at i:15280511 original size:109 final size:109
Alignment explanation
Indices: 15280343--15280544 Score: 280
Period size: 109 Copynumber: 1.9 Consensus size: 109
15280333 ATGTCCGAAG
* * * * ** * *
15280343 GTCTTATAGAATCAACTTGGACAACACCGCAAGTCGAGAATAATGAATCAATCGGGATAACACCG
1 GTCTTACAGAATCAACTGGGACAACACCACAAGTCGAAAATAAAAAATCAATCGAGATAACACCA
*
15280408 CGAATCAAAATTATGCCCGGAGGTCTTAGAAATCATGTCTAAAA
66 CGAATCAAAATCATGCCCGGAGGTCTTAGAAATCATGTCTAAAA
* * *
15280452 GTCTTACAGAATCGACTGGGATAACACCACAAGTC-AAAATTAAAAAATCGATCGAGATAACACC
1 GTCTTACAGAATCAACTGGGACAACACCACAAGTCGAAAA-TAAAAAATCAATCGAGATAACACC
15280516 ACGAATCAAAATCATGCCCGGAGGTCTTA
65 ACGAATCAAAATCATGCCCGGAGGTCTTA
15280545 CAGAATCGAC
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 3 0.04
109 77 0.96
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (109 bp):
GTCTTACAGAATCAACTGGGACAACACCACAAGTCGAAAATAAAAAATCAATCGAGATAACACCA
CGAATCAAAATCATGCCCGGAGGTCTTAGAAATCATGTCTAAAA
Found at i:15280702 original size:87 final size:87
Alignment explanation
Indices: 15280452--15280718 Score: 356
Period size: 87 Copynumber: 3.1 Consensus size: 87
15280442 ATGTCTAAAA
* * *
15280452 GTCTTACAGAATCGACTGGGATAACACCACAAGTC-AAAATTAAAAAATCGATCGAGATAACACC
1 GTCTTACAGAATCGACTGGGATAACACCGCAAGTCGAGAA-TAATAAATCGATCGAGATAACACC
* * *
15280516 ACGAATCAAAATCATGCCCGGAG
65 GCGAATCAAAATTATGCCCGAAG
* * * * *
15280539 GTCTTACAGAATCGACTAGAACAACATCGCAAGTCGAGAATAATAAATCGATCGGGATAACACCG
1 GTCTTACAGAATCGACTGGGATAACACCGCAAGTCGAGAATAATAAATCGATCGAGATAACACCG
* *
15280604 CAAATCAAAATTATGCTCGAAG
66 CGAATCAAAATTATGCCCGAAG
* *
15280626 GTCTTACAAAATCGACTGGGATAACACCGCAAGTCGAGAATAATAAATCGATCAAGATAACACCG
1 GTCTTACAGAATCGACTGGGATAACACCGCAAGTCGAGAATAATAAATCGATCGAGATAACACCG
* *
15280691 CGAATCAAAATTATACCTGAAG
66 CGAATCAAAATTATGCCCGAAG
*
15280713 ATCTTA
1 GTCTTA
15280719 GAAATCAAGA
Statistics
Matches: 154, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
87 151 0.98
88 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (87 bp):
GTCTTACAGAATCGACTGGGATAACACCGCAAGTCGAGAATAATAAATCGATCGAGATAACACCG
CGAATCAAAATTATGCCCGAAG
Found at i:15281321 original size:32 final size:32
Alignment explanation
Indices: 15281285--15281532 Score: 189
Period size: 32 Copynumber: 7.7 Consensus size: 32
15281275 CTTCTTTTGG
* * * *
15281285 GGCCAAATAAACTAGGCTTAAATTTTATTGAA
1 GGCCAGATAAACTGGGCTTAAACTTCATTGAA
* * * *
15281317 GGCCAGCTAAATTGGGTTTAAAACCTCATTTG-A
1 GGCCAGATAAACTGGGCTT-AAACTTCA-TTGAA
* * *
15281350 GGCTAGATAAACTGGGTTTAAAACTTCATTGAT
1 GGCCAGATAAACTGGGCTT-AAACTTCATTGAA
* *
15281383 GGCCAGATAAATTAGGC-TAATACTTCATTTG-A
1 GGCCAGATAAACTGGGCTTAA-ACTTCA-TTGAA
* * * *
15281415 GGCTAGATAAACTGGACTTAAATTTTATTGAA
1 GGCCAGATAAACTGGGCTTAAACTTCATTGAA
*
15281447 GGTCAGATAAACTGGGCTTAAAACTTCATTTG-A
1 GGCCAGATAAACTGGGCTT-AAACTTCA-TTGAA
* * *
15281480 GGCTAGATAAACTGGGCTTAAATTTTATTGAA
1 GGCCAGATAAACTGGGCTTAAACTTCATTGAA
* * *
15281512 GGTCAAATAAACTGAGCTTAA
1 GGCCAGATAAACTGGGCTTAA
15281533 CTGGGCTTAG
Statistics
Matches: 169, Mismatches: 37, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
31 8 0.05
32 82 0.49
33 73 0.43
34 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (32 bp):
GGCCAGATAAACTGGGCTTAAACTTCATTGAA
Found at i:15281339 original size:65 final size:64
Alignment explanation
Indices: 15281270--15281743 Score: 328
Period size: 65 Copynumber: 7.1 Consensus size: 64
15281260 CTTGAAACTC
* * * * * *
15281270 TAAAACTTCTTTTGGGGCCAAATAAACTAGGCTTAAATTTTATTGAAGGCCAGCTAAATTGGGTT
1 TAAAACTTCATTTGAGGCTAGATAAACTGGGCTTAAATTTTATTGAAGGCCAGATAAATTGGG-T
* * * * * * *
15281335 TAAAACCTCATTTGAGGCTAGATAAACTGGGTTTAAAACTTCATTGATGGCCAGATAAATTAGGC
1 TAAAACTTCATTTGAGGCTAGATAAACTGGGCTT-AAATTTTATTGAAGGCCAGATAAATTGGGT
* * * *
15281400 TAATACTTCATTTGAGGCTAGATAAACTGGACTTAAATTTTATTGAAGGTCAGATAAACTGGGCT
1 TAAAACTTCATTTGAGGCTAGATAAACTGGGCTTAAATTTTATTGAAGGCCAGATAAATTGGG-T
* *
15281465 TAAAACTTCATTTGAGGCTAGATAAACTGGGCTTAAATTTTATTGAAGGTCAAATAAACTGAGCT
1 TAAAACTTCATTTGAGGCTAGATAAACTGGGCTTAAATTTTATTGAAGGCCAGAT-AA---A---
15281530 TAACTGGGCT
59 T---TGGG-T
* * * * *
15281540 TAGAACTTCA-TTGATGGCTAGATAAACTGGGCTTAAAACTTCATTTG-AGGCTAGATAAACTGA
1 TAAAACTTCATTTGA-GGCTAGATAAACTGGGCTT-AAATTTTA-TTGAAGGCCAGATAAATTG-
*
15281603 GCT
62 GGT
* * * * ** * * * *
15281606 T-AAATTTTA-TTGAATGCCAGATAAACTGAACTTAAATTTTATTGAAGGCTAGCTAAACTAGGC
1 TAAAACTTCATTTG-AGGCTAGATAAACTGGGCTTAAATTTTATTGAAGGCCAGATAAA-TTGGG
15281669 T
64 T
* * * * * * *
15281670 TAAAACCTCATTTGAGG-TCAGATAAACTAGGCTTAAAACTTCATTGATGGCCAGACAAACTGGG
1 TAAAACTTCATTTGAGGCT-AGATAAACTGGGCTT-AAATTTTATTGAAGGCCAGATAAATTGGG
15281734 CT
64 -T
15281736 TAAAACTT
1 TAAAACTT
15281744 TTTTTTTTTA
Statistics
Matches: 319, Mismatches: 66, Indels: 47
0.74 0.15 0.11
Matches are distributed among these distances:
63 3 0.01
64 44 0.14
65 154 0.48
66 60 0.19
67 1 0.00
69 1 0.00
72 1 0.00
74 4 0.01
75 36 0.11
76 12 0.04
77 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (64 bp):
TAAAACTTCATTTGAGGCTAGATAAACTGGGCTTAAATTTTATTGAAGGCCAGATAAATTGGGT
Found at i:15281366 original size:33 final size:33
Alignment explanation
Indices: 15281270--15281743 Score: 305
Period size: 33 Copynumber: 14.2 Consensus size: 33
15281260 CTTGAAACTC
* * * * *
15281270 TAAAACTTCTTTTGGGGCCAAATAAACTAGGCT
1 TAAAACTTCATTTGAGGCTAGATAAACTGGGCT
* * * * * *
15281303 T-AAATTTTA-TTGAAGGCCAGCTAAATTGGGTT
1 TAAAACTTCATTTG-AGGCTAGATAAACTGGGCT
* *
15281335 TAAAACCTCATTTGAGGCTAGATAAACTGGGTT
1 TAAAACTTCATTTGAGGCTAGATAAACTGGGCT
* * *
15281368 TAAAACTTCA-TTGATGGCCAGATAAATTAGGC-
1 TAAAACTTCATTTGA-GGCTAGATAAACTGGGCT
* *
15281400 TAATACTTCATTTGAGGCTAGATAAACTGGACT
1 TAAAACTTCATTTGAGGCTAGATAAACTGGGCT
* *
15281433 T-AAATTTTA-TTGAAGG-TCAGATAAACTGGGCT
1 TAAAACTTCATTTG-AGGCT-AGATAAACTGGGCT
15281465 TAAAACTTCATTTGAGGCTAGATAAACTGGGCT
1 TAAAACTTCATTTGAGGCTAGATAAACTGGGCT
* * *
15281498 T-AAATTTTA-TTGAAGGTCAAATAAACTGAGCTTAACTGGGCT
1 TAAAACTTCATTTG-AGG-C---T--A--GA--TAAACTGGGCT
*
15281540 TAGAACTTCA-TTGATGGCTAGATAAACTGGGCT
1 TAAAACTTCATTTGA-GGCTAGATAAACTGGGCT
*
15281573 TAAAACTTCATTTGAGGCTAGATAAACTGAGCT
1 TAAAACTTCATTTGAGGCTAGATAAACTGGGCT
* * * * **
15281606 T-AAATTTTA-TTGAATGCCAGATAAACTGAACT
1 TAAAACTTCATTTG-AGGCTAGATAAACTGGGCT
* * * *
15281638 T-AAATTTTA-TTGAAGGCTAGCTAAACTAGGCT
1 TAAAACTTCATTTG-AGGCTAGATAAACTGGGCT
* *
15281670 TAAAACCTCATTTGAGG-TCAGATAAACTAGGCT
1 TAAAACTTCATTTGAGGCT-AGATAAACTGGGCT
* *
15281703 TAAAACTTCA-TTGATGGCCAGACAAACTGGGCT
1 TAAAACTTCATTTGA-GGCTAGATAAACTGGGCT
15281736 TAAAACTT
1 TAAAACTT
15281744 TTTTTTTTTA
Statistics
Matches: 351, Mismatches: 59, Indels: 62
0.74 0.12 0.13
Matches are distributed among these distances:
31 13 0.04
32 130 0.37
33 163 0.46
34 14 0.04
35 2 0.01
36 1 0.00
37 1 0.00
38 1 0.00
39 1 0.00
40 2 0.01
42 13 0.04
43 10 0.03
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (33 bp):
TAAAACTTCATTTGAGGCTAGATAAACTGGGCT
Found at i:15282937 original size:11 final size:11
Alignment explanation
Indices: 15282921--15282962 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
15282911 TCTCAAAAAA
*
15282921 TTTTTTAGTTT
1 TTTTTTAATTT
15282932 TTTTTTAATTT
1 TTTTTTAATTT
*
15282943 TTTTTTATCTTT
1 TTTTTTA-ATTT
15282955 TTTTTTAA
1 TTTTTTAA
15282963 AAACTTTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTTAATTT
Done.