Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 53 of 345
Found at i:15124359 original size:12 final size:11
Alignment explanation
Indices: 15124342--15124377 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
15124332 TTAGTACTTA
15124342 TTTTTTTCTTCT
1 TTTTTTTCTT-T
15124354 TTTTTTTCTTT
1 TTTTTTTCTTT
15124365 TTTTTTT-TTT
1 TTTTTTTCTTT
15124375 TTT
1 TTT
15124378 AAATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 6 0.25
11 8 0.33
12 10 0.42
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:15124362 original size:9 final size:9
Alignment explanation
Indices: 15124343--15124377 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
15124333 TAGTACTTAT
15124343 TTTTTTCTTC
1 TTTTTT-TTC
15124353 TTTTTTTTC
1 TTTTTTTTC
15124362 TTTTTTTT-
1 TTTTTTTTC
15124370 TTTTTTTT
1 TTTTTTTT
15124378 AAATTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 11 0.44
10 6 0.24
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:15124681 original size:116 final size:117
Alignment explanation
Indices: 15124502--15124730 Score: 361
Period size: 116 Copynumber: 2.0 Consensus size: 117
15124492 TATTTCCGGT
*
15124502 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGAC-CGAAGTAGAATAACAACCCAAGCAC
* *
15124567 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
65 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
15124620 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGA-CGAAGTAGAATAACAACCCAAGCACC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACCGAAGTAGAATAACAACCCAAGCACC
**
15124684 CTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
15124731 ATGGAAAACA
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
116 68 0.67
118 34 0.33
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (117 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACCGAAGTAGAATAACAACCCAAGCACC
CTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:15125690 original size:7 final size:7
Alignment explanation
Indices: 15125680--15125767 Score: 73
Period size: 7 Copynumber: 12.9 Consensus size: 7
15125670 AACTAAAATA
15125680 AAATAAT
1 AAATAAT
15125687 AAATAAT
1 AAATAAT
15125694 AAATAAT
1 AAATAAT
15125701 -AA-AAT
1 AAATAAT
15125706 AAAATAAT
1 -AAATAAT
15125714 AAATAAT
1 AAATAAT
15125721 AAA-AGA-
1 AAATA-AT
*
15125727 AAATAAAGGA
1 AAAT-AA--T
15125737 AAATAAT
1 AAATAAT
15125744 AAATAA-
1 AAATAAT
15125750 AAATAA-
1 AAATAAT
15125756 AAATAA-
1 AAATAAT
15125762 AAATAA
1 AAATAA
15125768 AGATTGGGTT
Statistics
Matches: 71, Mismatches: 1, Indels: 19
0.78 0.01 0.21
Matches are distributed among these distances:
5 3 0.04
6 24 0.34
7 34 0.48
8 4 0.06
9 2 0.03
10 4 0.06
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.20
Consensus pattern (7 bp):
AAATAAT
Found at i:15125704 original size:27 final size:27
Alignment explanation
Indices: 15125673--15125763 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
15125663 AATATTTAAC
15125673 TAAAATAAAATAATAAATAATAAATAA
1 TAAAATAAAATAATAAATAATAAATAA
*
15125700 TAAAATAAAATAATAAATAATAAAAGAAAA
1 TAAAATAAAATAATAAATAAT--AA-ATAA
**
15125730 TAAAGGAAAATAATAAATAA-AAAT-A
1 TAAAATAAAATAATAAATAATAAATAA
15125755 -AAAATAAAA
1 TAAAATAAAA
15125764 ATAAAGATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
24 7 0.13
25 1 0.02
26 1 0.02
27 23 0.42
29 2 0.04
30 21 0.38
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (27 bp):
TAAAATAAAATAATAAATAATAAATAA
Found at i:15125710 original size:20 final size:20
Alignment explanation
Indices: 15125676--15125732 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
15125666 ATTTAACTAA
15125676 AATAAAATAATAAATAATAAAT
1 AATAAAAT-A-AAATAATAAAT
15125698 AATAAAATAAAATAATAAAT
1 AATAAAATAAAATAATAAAT
*
15125718 AATAAAAGAAAATAA
1 AATAAAATAAAATAA
15125733 AGGAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 25 0.74
21 1 0.03
22 8 0.24
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (20 bp):
AATAAAATAAAATAATAAAT
Found at i:15125722 original size:30 final size:29
Alignment explanation
Indices: 15125673--15125768 Score: 115
Period size: 30 Copynumber: 3.3 Consensus size: 29
15125663 AATATTTAAC
*
15125673 TAAAATAAAATAATAAATAAT-A-AATAA
1 TAAAATAAAATAATAAATAATAATAAAAA
*
15125700 TAAAATAAAATAATAAATAATAAAAGAAAA
1 TAAAATAAAATAATAAATAATAATA-AAAA
** *
15125730 TAAAGGAAAATAATAAATAAAAATAAAAA
1 TAAAATAAAATAATAAATAATAATAAAAA
15125759 TAAAAATAAA
1 T-AAAATAAA
15125769 GATTGGGTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.36
28 1 0.02
29 6 0.10
30 30 0.52
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (29 bp):
TAAAATAAAATAATAAATAATAATAAAAA
Found at i:15135290 original size:2 final size:2
Alignment explanation
Indices: 15135283--15135317 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15135273 ATAAATTAAA
15135283 AT AT AT AT 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 AT AT AT AT A
15135318 AAAAGCTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15137595 original size:1 final size:1
Alignment explanation
Indices: 15137589--15137613 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
15137579 AAACAAAGGT
15137589 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
15137614 GCATTCCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15143721 original size:31 final size:30
Alignment explanation
Indices: 15143680--15143750 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
15143670 AAACAACAAC
* *
15143680 AATTTAACTCTTTTTAAAAGATTGATGGTCA
1 AATTTAACTCTTTTAAAAAGATTGA-GGCCA
* *
15143711 AATTTGACTCTTTTAAAAAGGTTGAGGCCA
1 AATTTAACTCTTTTAAAAAGATTGAGGCCA
15143741 AATTTAACTC
1 AATTTAACTC
15143751 AAATAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 13 0.37
31 22 0.63
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (30 bp):
AATTTAACTCTTTTAAAAAGATTGAGGCCA
Found at i:15144584 original size:2 final size:2
Alignment explanation
Indices: 15144577--15144601 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15144567 AATTATAAGC
15144577 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 A
15144602 GGACGCGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15146357 original size:95 final size:95
Alignment explanation
Indices: 15146197--15146372 Score: 289
Period size: 95 Copynumber: 1.9 Consensus size: 95
15146187 TTGAGTGATT
* * *
15146197 ATTTGATCAATAAAATTTATATACTAAAAAATTAGTTGAAATAAGAGTGGAAATGGGATAATCAA
1 ATTTGATCAATAAAATTTATATACTAAAAAAATAGTTGAAATAAGAGTGAAAATGAGATAATCAA
*
15146262 TAATTATATATATTATGTAATTAAGTGACC
66 TAATTAGATATATTATGTAATTAAGTGACC
* * *
15146292 ATTTGATCAATAAAATTTATATATTAAAAAAATAGTTGAAATACGAGTGAAAATGAGATATTCAA
1 ATTTGATCAATAAAATTTATATACTAAAAAAATAGTTGAAATAAGAGTGAAAATGAGATAATCAA
15146357 TAATTAGATATATTAT
66 TAATTAGATATATTAT
15146373 TGTTGGAGTC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (95 bp):
ATTTGATCAATAAAATTTATATACTAAAAAAATAGTTGAAATAAGAGTGAAAATGAGATAATCAA
TAATTAGATATATTATGTAATTAAGTGACC
Found at i:15148614 original size:14 final size:15
Alignment explanation
Indices: 15148587--15148615 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15148577 TTAAAGTATT
15148587 TTTAAAAAACTTTAA
1 TTTAAAAAACTTTAA
15148602 TTTAAAAAA-TTTAA
1 TTTAAAAAACTTTAA
15148616 GTATTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTAAAAAACTTTAA
Found at i:15149613 original size:17 final size:17
Alignment explanation
Indices: 15149580--15149621 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
15149570 CTGGTAATTA
*
15149580 GAGTTGTT-AGCTTTCT
1 GAGTTGTTAAGCTCTCT
15149596 GAGTTGTTAAGCTCTCT
1 GAGTTGTTAAGCTCTCT
*
15149613 GAGCTGTTA
1 GAGTTGTTA
15149622 GTTTGTTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.43
Consensus pattern (17 bp):
GAGTTGTTAAGCTCTCT
Found at i:15154537 original size:17 final size:17
Alignment explanation
Indices: 15154511--15154549 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
15154501 TAATTAGAGT
15154511 TGTT-AGCTCTCTGAGC
1 TGTTGAGCTCTCTGAGC
15154527 TGTTGAGCTCTCTGAGC
1 TGTTGAGCTCTCTGAGC
15154544 TGTTGA
1 TGTTGA
15154550 ACTGTTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.13, C:0.21, G:0.28, T:0.38
Consensus pattern (17 bp):
TGTTGAGCTCTCTGAGC
Found at i:15155412 original size:66 final size:66
Alignment explanation
Indices: 15155333--15155465 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
15155323 CAAGTGCAAC
* *
15155333 AAAAAAATCGATACCTTTAACATTGAGTGAAGAAGCATGAGGACAAAGAA-GAAAAAAATTGATA
1 AAAAAAATCGATACCTTCAACATTGAGTGAAGAAGCATAAGGACAAAGAAGGAAAAAAATTGATA
15155397 T
66 T
*
15155398 AAAAAAATTTGATACCTTCAACATTGAGTGAAGAAGCATAAGGACAAAGAAGGAAAAAAATTGAT
1 AAAAAAA-TCGATACCTTCAACATTGAGTGAAGAAGCATAAGGACAAAGAAGGAAAAAAATTGAT
15155463 AT
65 AT
15155465 A
1 A
15155466 TTCTTAGCTA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 7 0.11
66 40 0.63
67 16 0.25
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.20
Consensus pattern (66 bp):
AAAAAAATCGATACCTTCAACATTGAGTGAAGAAGCATAAGGACAAAGAAGGAAAAAAATTGATA
T
Found at i:15157983 original size:48 final size:48
Alignment explanation
Indices: 15157912--15158003 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
15157902 GTCATAACTT
* *
15157912 AACTTTGAAGGGATAACAATACATTAACATCATCATCCTATATATATA
1 AACTTTGAAGGGACAACAATACATAAACATCATCATCCTATATATATA
*
15157960 AACTTTTAAGGGACAACAATACATAAACATCATCATCCTATATA
1 AACTTTGAAGGGACAACAATACATAAACATCATCATCCTATATA
15158004 AACCTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (48 bp):
AACTTTGAAGGGACAACAATACATAAACATCATCATCCTATATATATA
Found at i:15167706 original size:3 final size:3
Alignment explanation
Indices: 15167700--15167997 Score: 77
Period size: 3 Copynumber: 99.3 Consensus size: 3
15167690 GAGAGTGTTG
* *
15167700 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- CTA TATA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * * * * * * * *
15167745 CTG TT- TTC TT- TT- TTA TTA TTA TTA GTA GTA CGTA ATA GTG TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * *
15167788 TTA TTA TTT TTA TCT- TT- TTA TTA CTA TTA TTA TTAA CCTA CTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT-A -TTA TTA TTA
* * * ** * *
15167834 TTA TTT TTA TTA ATA -TA GTA TTA TT- TCC TT- TTT TTA -TA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * *
15167878 TTA TTA TTA TTA GCA CGTA -TA TTA TTA TTA TTAA TGTA TCA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA
* * * *
15167925 TTT TCTA TT- TTA TTA TTA CTT- TTA TTA CTA TTG TT- TCGA TTA TTA
1 TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA
15167970 TTA TT- TTCA TTA CTTCCA TTA TTA TTA T
1 TTA TTA TT-A TTA -TT--A TTA TTA TTA T
15167998 CATCATTTTC
Statistics
Matches: 226, Mismatches: 41, Indels: 56
0.70 0.13 0.17
Matches are distributed among these distances:
2 26 0.12
3 172 0.76
4 23 0.10
5 4 0.02
6 1 0.00
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:15167855 original size:23 final size:23
Alignment explanation
Indices: 15167806--15167858 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
15167796 TTTATCTTTT
* *
15167806 TATTACTATTATTATTAACCTAC
1 TATTATTATTATTATTAACATAC
* * *
15167829 TATTATTATTTTTATTAATATAG
1 TATTATTATTATTATTAACATAC
15167852 TATTATT
1 TATTATT
15167859 TCCTTTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTATTATTATTATTAACATAC
Found at i:15168116 original size:24 final size:24
Alignment explanation
Indices: 15168080--15168131 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
15168070 ATATATTTAC
15168080 TTTTTTAAATATTATTACCATTAT
1 TTTTTTAAATATTATTACCATTAT
* *
15168104 ATTTTTT-ATTATTATTACTATTAT
1 -TTTTTTAAATATTATTACCATTAT
15168128 TTTT
1 TTTT
15168132 ATTTTCCGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 15 0.60
25 6 0.24
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTTTAAATATTATTACCATTAT
Found at i:15173041 original size:24 final size:24
Alignment explanation
Indices: 15172997--15173042 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
15172987 AGAGAAAGGG
*
15172997 GCAAAGATCAGAGCCAGCATCACT
1 GCAAAGATCAAAGCCAGCATCACT
*
15173021 GCAAAGA-CAAAGCGAGACATCA
1 GCAAAGATCAAAGCCAG-CATCA
15173043 TTGAGTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.43, C:0.26, G:0.22, T:0.09
Consensus pattern (24 bp):
GCAAAGATCAAAGCCAGCATCACT
Found at i:15173599 original size:7 final size:7
Alignment explanation
Indices: 15173587--15173622 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
15173577 AAAAGAAAGA
15173587 AAAAAAC
1 AAAAAAC
15173594 AAAAAAC
1 AAAAAAC
15173601 AAAAAAC
1 AAAAAAC
15173608 AAAAACAAC
1 -AAAA-AAC
15173617 AAAAAA
1 AAAAAA
15173623 ATTTGTGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 16 0.59
8 8 0.30
9 3 0.11
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:15173606 original size:14 final size:16
Alignment explanation
Indices: 15173587--15173622 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15173577 AAAAGAAAGA
15173587 AAAAAAC-AAAA-AAC
1 AAAAAACAAAAACAAC
15173601 AAAAAACAAAAACAAC
1 AAAAAACAAAAACAAC
15173617 AAAAAA
1 AAAAAA
15173623 ATTTGTGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.35
15 4 0.20
16 9 0.45
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAACAAAAACAAC
Found at i:15175602 original size:133 final size:133
Alignment explanation
Indices: 15175364--15175624 Score: 337
Period size: 133 Copynumber: 2.0 Consensus size: 133
15175354 AACACTGGTG
* * * *
15175364 AAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCTGATCGAAGACGGCAAATATTATCTCTC
1 AAATTGCAGATCTTATCTCCCTAAGCAATAGTAGAGCAGATCGAAAACGGCAAATATTATCTCTC
* ** * * * *
15175429 TGTAGCGGTAATAGAGCAGATTTAAGCGACCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGAC
66 TGTAACGACAATAGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGAC
15175494 TAA
131 TAA
* * *
15175497 AAATTGTAGATCTTATCTCCCTAAGCAATAGTAGAGCAGATCGAAAATGGCAAATCTTATCTC-C
1 AAATTGCAGATCTTATCTCCCTAAGCAATAGTAGAGCAGATCGAAAACGGCAAATATTATCTCTC
* * *
15175561 ATGTAACGACAATGGAGCTA-ATTTAAGCCACTAGCCTTATCTCCCTTAAGTTGCAGTAGAGCAG
66 -TGTAACGACAATAGAGC-AGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAG
15175625 GTTCAAGATA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
132 1 0.01
133 107 0.98
134 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (133 bp):
AAATTGCAGATCTTATCTCCCTAAGCAATAGTAGAGCAGATCGAAAACGGCAAATATTATCTCTC
TGTAACGACAATAGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTAGAGCAGAC
TAA
Found at i:15175669 original size:177 final size:177
Alignment explanation
Indices: 15175460--15175978 Score: 674
Period size: 177 Copynumber: 2.9 Consensus size: 177
15175450 TTAAGCGACC
* * *
15175460 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAAATTGTAGATCTTATCTCCCTAAGCAA
1 AGTCTTATTTTCCTGAAGTTGTAGTGGAGCAGACTAAAAATTGTAGATCTTATCTCCCTAAGCAG
*
15175525 TAGTAGAGCAGATCGAAAATGGCAAATCTTATCTCCATGTAACGACAATGGAGCTA-ATTTAAGC
66 TAGT-GAGCAGATCGAAAATGGCAAATCTTATCTCCATGTAACGGCAATGGAGCTAGATTTAAGC
* * *
15175589 CACTAGCCTTATCTCCCTTAAGTTGCAGTAGAGCAGGTTCAAGATACA
130 CACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAGATACA
* * * *
15175637 AGTCTTATTTTCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGTAGATCTTACCTCCCTAAGTAG
1 AGTCTTATTTTCCTGAAGTTGTAGTGGAGCAGACTAAAAATTGTAGATCTTATCTCCCTAAGCAG
* * * *
15175702 TAGTGATGCAAATCGAAGACT-ACAAATCTTATCTTCATGTAGA-GGCAATGGAGC-AGATTTAA
66 TAGTGA-GCAGATCGAA-AATGGCAAATCTTATCTCCATGTA-ACGGCAATGGAGCTAGATTTAA
* *
15175764 GCCACCAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTCAAGATACA
128 GCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAGATACA
* * * *
15175814 AATCTTA-TCTCTCTAAAGTTGTAGTGAAGCAGACTAAAAATT-TCAGATCTTATCTCCCTAAGC
1 AGTCTTATTTTC-CTGAAGTTGTAGTGGAGCAGACTAAAAATTGT-AGATCTTATCTCCCTAAGC
* * * *
15175877 AGTAGTGGAGCAGATCGAAGACGGCAAATCTTCTCTCCATGTAGCGGCAATGGAG-TAGATTTAA
64 AGTAGT-GAGCAGATCGAAAATGGCAAATCTTATCTCCATGTAACGGCAATGGAGCTAGATTTAA
* * *
15175941 GCTACCAGCTTTATCTCCCTGAAGTTACAGTGGAGCAG
128 GCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAG
15175979 ACTGAAAATT
Statistics
Matches: 294, Mismatches: 38, Indels: 20
0.84 0.11 0.06
Matches are distributed among these distances:
176 7 0.02
177 282 0.96
178 5 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (177 bp):
AGTCTTATTTTCCTGAAGTTGTAGTGGAGCAGACTAAAAATTGTAGATCTTATCTCCCTAAGCAG
TAGTGAGCAGATCGAAAATGGCAAATCTTATCTCCATGTAACGGCAATGGAGCTAGATTTAAGCC
ACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAGATACA
Found at i:15175821 original size:44 final size:44
Alignment explanation
Indices: 15175596--15176724 Score: 291
Period size: 44 Copynumber: 25.5 Consensus size: 44
15175586 AGCCACTAGC
* * * *
15175596 CTTATCTCCCTTAAGTTGCAGTAGAGCAGGTTCAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATACAAAT
* * * * * ** *
15175640 CTTATTTTCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGTAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGA-TACAAAT
* * * *
15175685 CTTACCTCCCT-AAGTAGTAGT-GATGCA-AATCGAAGACTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTC-AAGA-TACAAAT
* * * ** * * ** * *
15175729 CTTATCTTCATGTAGAGGCAATGGAGCAGATTTAAGCCACCAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATACAAAT
* *
15175773 CTTATCTCCCTGAAGTTGCAATGGAGCAGGTTCAAGATACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATACAAAT
* * * * * * * * *
15175817 CTTATCTCTCTAAAGTTGTAGTGAAGCAGACTAAAAATTTCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGA-TACAAAT
** * **
15175862 CTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAAGACGGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTC-AAGA-TACAAAT
* * * ** * * * * * *
15175906 CTTCTCTCCATGTAGCGGCAATGGAGTAGATTTAAGCTAC-CAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATACAAAT
* * * * * *
15175949 CTTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATTGCAGAT
1 C-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGA-TACAAAT
** * * ** *
15175995 CTTATCTCCCT-AAGCAGAAGTGGAGCAGA-TCGAGGACGGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTC-AAGA-TACAAAT
* * ** * * * ** * **
15176039 CTTATCTCCATGTAGCGGTAATGGAGCAGATTTAAGCCACCAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATACAAAT
* * * * * *
15176083 CTTATCTCCCTGAAGTTGTAGTGAAGTAGGTTCAAGATATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATACAAAT
* * * * **
15176127 CCTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATA-CAAAT
**** * * * * *
15176172 CTTATCTCCCT-AAGCAATAGTGAAGTAGA-TCGTAGATGGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTC-AAGAT-ACAAAT
* * * ** * * ** *
15176216 TTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATA-CAAAT
* * * ** *
15176261 CTTATTTCTCTGAAGTTACAGTGGAATAGA-TCAAGGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAA-GATA-CAAAT
** * * * * * * **
15176306 CTTATCTCTTTGAAGTTGTAG-AGAACAGGTTGAAGTTACAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATACAAAT
* * * * * * *
15176349 GTCATCTCTCTGAAGTTACAGTGGAGGAGATTGAA-ATAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATA-CAAAT
* * * *
15176393 CTTATCTCCCTGAAGTTGTAGCGAAGCAGA-TCAAAGATAGTAAA-
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTC-AAGATA-CAAAT
** * * * * *
15176437 CTTTATCTATCTGAAGTTGCAGTAGAGCAGGTTGAA-TTAGCAAGT
1 C-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATA-CAAAT
* * * *
15176482 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGA-TACAAAT
* *
15176527 CTTATCTCCCTGAAGTTGCAGTGGAGCACG-TTGAA-ATTACCAACT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTCAAGA-TA-CAAAT
* * * ** * * *
15176572 CTTACCTCCTTGAAGTTCCAACGAAGTAGA-TCGAAGCTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTC-AAGATACAAAT
* * * * * * ** *
15176616 CTCT-TCTCCCTAAAATTACATTGGAGCTGATTGAAGCCACAAGT
1 CT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATACAAAT
* * * * * *
15176660 CTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGACATCTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATA-CAAAT
*
15176705 CCTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCA
15176725 TTAGAGTGGA
Statistics
Matches: 758, Mismatches: 285, Indels: 83
0.67 0.25 0.07
Matches are distributed among these distances:
43 31 0.04
44 443 0.58
45 272 0.36
46 12 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGATACAAAT
Found at i:15175914 original size:133 final size:133
Alignment explanation
Indices: 15175773--15176108 Score: 377
Period size: 133 Copynumber: 2.5 Consensus size: 133
15175763 AGCCACCAAC
* ** * * * **
15175773 CTTATCTCCCTGAAGTTGCAATGGAGCAGGTTCAAGATACAA-ATCTTATCTCTCTAAAGTTGTA
1 CTTATCTCCATGAAGCGGCAATGGAGCAGATTCAAGATACAAGCT-TTATCTCCCTAAAGTTACA
* *
15175837 GTGAAGCAGACTAAAAATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGC
65 GTGAAGCAGACTAAAAATTGCAGATCTTATCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGC
15175902 AAAT
130 AAAT
* * * * * * *
15175906 CTTCTCTCCATGTAGCGGCAATGGAGTAGATTTAAGCTACCAGCTTTATCTCCCTGAAGTTACAG
1 CTTATCTCCATGAAGCGGCAATGGAGCAGATTCAAGATACAAGCTTTATCTCCCTAAAGTTACAG
* * * *
15175971 TGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGAAGTGGAGCAGATCGAGGACGGCG
66 TGAAGCAGACTAAAAATTGCAGATCTTATCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGCA
15176036 AAT
131 AAT
* * * ** * * * **
15176039 CTTATCTCCATGTAGCGGTAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGTAG
1 CTTATCTCCATGAAGCGGCAATGGAGCAGATTCAAGATACAAGCTTTATCTCCCTAAAGTTACAG
15176104 TGAAG
66 TGAAG
15176109 TAGGTTCAAG
Statistics
Matches: 173, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
133 172 0.99
134 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (133 bp):
CTTATCTCCATGAAGCGGCAATGGAGCAGATTCAAGATACAAGCTTTATCTCCCTAAAGTTACAG
TGAAGCAGACTAAAAATTGCAGATCTTATCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGCA
AAT
Found at i:15175964 original size:310 final size:311
Alignment explanation
Indices: 15175639--15176285 Score: 850
Period size: 310 Copynumber: 2.1 Consensus size: 311
15175629 AAGATACAAG
* * * * * *
15175639 TCTTATTTTCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGTAGATCTTACCTCCCTAAGTAGTA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATTGCAGATCTTACCTCCCTAAGCAGAA
* *
15175704 GT-GATGCAAATCGAAGACTACAAATCTTATCTTCATGTAGAGGCAATGGAGCAGATTTAAGCCA
66 GTGGA-GCAAATCGAAGACGACAAATCTTATCTCCATGTAGAGGCAATGGAGCAGATTTAAGCCA
* * *
15175768 CCAACCTTATCTCCCTGAAGTTGCAATGGAGCAGGTTCAAGATACAAATCTTATCTCTCTAAAGT
130 CCAACCTTATCTCCCTGAAGTTGCAATGAAGCAGGTTCAAGATACAAATCCTATCTCCCTAAAGT
* * * * *
15175833 TGTAGTGAAGCAGACTAAAAAT-TTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
195 TGCAGTGAAGCAAACTAAAAATAGTCA-ATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGAAG
* * * *
15175897 ACGGCAAATCTTCTCTCCATGTAGCGGCAATGGAGTAGATTTAAGCTACCAGC
259 ACGGCAAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACCAGA
*
15175950 T-TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATTGCAGATCTTACCTCCCTAAGCAGAA
* * * * * *
15176014 GTGGAGCAGATCGAGGACGGCGAATCTTATCTCCATGTAGCGGTAATGGAGCAGATTTAAGCCAC
66 GTGGAGCAAATCGAAGACGACAAATCTTATCTCCATGTAGAGGCAATGGAGCAGATTTAAGCCAC
* * * * * * *
15176079 CAGCCTTATCTCCCTGAAGTTGTAGTGAAGTAGGTTCAAGATATAAGTCCTATCTCCCTGAAGTT
131 CAACCTTATCTCCCTGAAGTTGCAATGAAGCAGGTTCAAGATACAAATCCTATCTCCCTAAAGTT
* * * * * * *
15176144 GCAGTGGAGCAAACTGAAGATAGTGAATCTTATCTCCCTAAGCAATAGTGAAGTAGATCGTAGAT
196 GCAGTGAAGCAAACTAAAAATAGTCAATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGAAGAC
* *
15176209 GGCGAATTTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACCAGA
261 GGCAAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACCAGA
* *
15176260 TCTTATTTCTCTGAAGTTACAGTGGA
1 TCTTATCTCCCTGAAGTTACAGTGGA
15176286 ATAGATCAAG
Statistics
Matches: 288, Mismatches: 45, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
310 261 0.91
311 27 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (311 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATTGCAGATCTTACCTCCCTAAGCAGAA
GTGGAGCAAATCGAAGACGACAAATCTTATCTCCATGTAGAGGCAATGGAGCAGATTTAAGCCAC
CAACCTTATCTCCCTGAAGTTGCAATGAAGCAGGTTCAAGATACAAATCCTATCTCCCTAAAGTT
GCAGTGAAGCAAACTAAAAATAGTCAATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGAAGAC
GGCAAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACCAGA
Found at i:15176135 original size:177 final size:178
Alignment explanation
Indices: 15175952--15176277 Score: 482
Period size: 177 Copynumber: 1.8 Consensus size: 178
15175942 CTACCAGCTT
* *
15175952 TATCTCCCTGAAGTTACAGTGGAGCAGACTGAA-A-ATTGCAGATCTTATCTCCCTAAGCAGA-A
1 TATCTCCCTGAAGTTACAGTGGAGCAAACTGAAGATAGTG-A-ATCTTATCTCCCTAAGCA-ATA
* *
15176014 GTGGAGCAGATCG-AGGACGGCGAATCTTATCTCCATGTAGCGGTAATGGAGCAGATTTAAGCCA
63 GTGAAGCAGATCGTA-GACGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCA
15176078 CCAG-CCTTATCTCCCTGAAGTTGTAGTGAAGTAGGTTCAAGATATAAGTCC
127 CCAGACCTTATCTCCCTGAAGTTGTAGTGAAGTAGGTTCAAGATATAAGTCC
*
15176129 TATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGTGAATCTTATCTCCCTAAGCAATAGTG
1 TATCTCCCTGAAGTTACAGTGGAGCAAACTGAAGATAGTGAATCTTATCTCCCTAAGCAATAGTG
* * *
15176194 AAGTAGATCGTAGATGGCGAATTTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACCAG
66 AAGCAGATCGTAGACGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACCAG
* * *
15176259 ATCTTATTTCTCTGAAGTT
131 ACCTTATCTCCCTGAAGTT
15176278 ACAGTGGAAT
Statistics
Matches: 133, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
176 1 0.01
177 111 0.83
178 18 0.14
179 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (178 bp):
TATCTCCCTGAAGTTACAGTGGAGCAAACTGAAGATAGTGAATCTTATCTCCCTAAGCAATAGTG
AAGCAGATCGTAGACGGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACCAG
ACCTTATCTCCCTGAAGTTGTAGTGAAGTAGGTTCAAGATATAAGTCC
Found at i:15176154 original size:133 final size:133
Alignment explanation
Indices: 15175817--15176108 Score: 386
Period size: 133 Copynumber: 2.2 Consensus size: 133
15175807 AGATACAAAT
* * ** * ** * *
15175817 CTTATCTCTCTAAAGTTGTAGTGAAGCAGACTAAAAATTTCAGATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTACAGTGAAGCAGACTCAAAATTGAAGATCCTATCTCCCTAAGCAGAAG
* * *
15175882 TGGAGCAGATCGAAGACGGCAAATCTTCTCTCCATGTAGCGGCAATGGAGTAGATTTAAGCTACC
66 TGGAGCAGATCGAAGACGGCAAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACC
15175947 AGC
131 AGC
* * * * *
15175950 TTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGAAG
1 CTTATCTCCCTGAAGTTACAGTGAAGCAGACTCAAAATTGAAGATCCTATCTCCCTAAGCAGAAG
* * *
15176015 TGGAGCAGATCGAGGACGGCGAATCTTATCTCCATGTAGCGGTAATGGAGCAGATTTAAGCCACC
66 TGGAGCAGATCGAAGACGGCAAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACC
15176080 AGC
131 AGC
**
15176083 CTTATCTCCCTGAAGTTGTAGTGAAG
1 CTTATCTCCCTGAAGTTACAGTGAAG
15176109 TAGGTTCAAG
Statistics
Matches: 140, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
133 140 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTACAGTGAAGCAGACTCAAAATTGAAGATCCTATCTCCCTAAGCAGAAG
TGGAGCAGATCGAAGACGGCAAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACC
AGC
Found at i:15176172 original size:133 final size:133
Alignment explanation
Indices: 15175817--15176180 Score: 365
Period size: 133 Copynumber: 2.7 Consensus size: 133
15175807 AGATACAAAT
* * ** * ** * *
15175817 CTTATCTCTCTAAAGTTGTAGTGAAGCAGACTAAAAATTTCAGATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTACAGTGAAGCAGACTCAAAATTGAAGATCCTATCTCCCTAAGCAGAAG
* * * * * *
15175882 TGGAGCAGATCGAAGACGGCAAATCTTCTCTCCATGTAGCGGCAATGGAGTAGATTTAAGCTACC
66 TGGAGCAAATCGAAGACAGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACC
15175947 AGC
131 AGC
* * * * *
15175950 TTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGAAG
1 CTTATCTCCCTGAAGTTACAGTGAAGCAGACTCAAAATTGAAGATCCTATCTCCCTAAGCAGAAG
* * * *
15176015 TGGAGCAGATCGAGGACGGCGAATCTTATCTCCATGTAGCGGTAATGGAGCAGATTTAAGCCACC
66 TGGAGCAAATCGAAGACAGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACC
15176080 AGC
131 AGC
** * ** * ** *
15176083 CTTATCTCCCTGAAGTTGTAGTGAAGTAGGTTCAAGATAT-AAG-TCCTATCTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTACAGTGAAGCAGACTCAAAAT-TGAAGATCCTATCTCCCT-AAGCAGA
* *
15176146 AGTGGAGCAAA-CTGAAGATAGTGAATCTTATCTCC
64 AGTGGAGCAAATC-GAAGACAGCGAATCTTATCTCC
15176181 CTAAGCAATA
Statistics
Matches: 194, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
132 12 0.06
133 181 0.93
134 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (133 bp):
CTTATCTCCCTGAAGTTACAGTGAAGCAGACTCAAAATTGAAGATCCTATCTCCCTAAGCAGAAG
TGGAGCAAATCGAAGACAGCGAATCTTATCTCCATGTAGCGGCAATGGAGCAGATTTAAGCCACC
AGC
Found at i:15176510 original size:89 final size:89
Alignment explanation
Indices: 15176352--15176724 Score: 251
Period size: 89 Copynumber: 4.2 Consensus size: 89
15176342 TACAGGTGTC
* * * * *
15176352 ATCTCTCTGAAGTTACAGTGGAGGAGATTGAAATAGC-AGATCTTATCTCCCTGAAGTTGTAGCG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAATTAGCAAG-TCTTATCTCCCTGAAGTTGCAGCG
* * *
15176416 AAGCAGA-TCAAAGA-TAGTAAACTTT
65 AAGCAGACT-AAAGACCA-CAAACCTT
* * * *
15176441 ATCTATCTGAAGTTGCAGTAGAGCAGGTTGAATTAGCAAGTCTTATCTCCCTGAAGTTGCAGTGG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAATTAGCAAGTCTTATCTCCCTGAAGTTGCAGCGA
*
15176506 AGCAGACTGAAGACCACAAACCTT
66 AGCAGACTAAAGACCACAAACCTT
* * * * * * * *
15176530 ATCTCCCTGAAGTTGCAGTGGAGCACGTTGAAATTACCAACTCTTACCTCCTTGAAGTTCCAACG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGGTTG-AATTAGCAAGTCTTATCTCCCTGAAGTTGCAGCG
* * * *
15176595 AAGTAGA-TCGAAG-CTACAAATCTCT
65 AAGCAGACT-AAAGACCACAAACCT-T
* * * * * * * **
15176620 -TCTCCCTAAAATTACATTGGAGCTGATTGAAGCCA-CAAGTCTTATCTCCCTGAAGTTGCAGCG
1 ATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAA-TTAGCAAGTCTTATCTCCCTGAAGTTGCAGCG
* * * *
15176683 GAGTAGACTGAAGA-CATCTAATCC-T
65 AAGCAGACTAAAGACCA-C-AAACCTT
*
15176708 ATCTCCCTGAAGTTGCA
1 ATCTCTCTGAAGTTGCA
15176725 TTAGAGTGGA
Statistics
Matches: 223, Mismatches: 49, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
88 37 0.17
89 142 0.64
90 44 0.20
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (89 bp):
ATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAATTAGCAAGTCTTATCTCCCTGAAGTTGCAGCGA
AGCAGACTAAAGACCACAAACCTT
Found at i:15176546 original size:45 final size:45
Alignment explanation
Indices: 15176482--15176724 Score: 160
Period size: 45 Copynumber: 5.4 Consensus size: 45
15176472 ATTAGCAAGT
15176482 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACCACAAAC
* ** *
15176527 CTTATCTCCCTGAAGTTGCAGTGGAGCACG-TTGAA-ATTACCAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTGAAGACCACAAAC
* * * ** * * * *
15176571 TCTTACCTCCTTGAAGTTCCAACGAAGTAGA-TCGAAG-CTACAAAT
1 -CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGACCACAAAC
* * * * * * **
15176616 CTCT-TCTCCCTAAAATTACATTGGAGCTGATTGAAG-CCACAAGT
1 CT-TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACCACAAAC
* * *
15176660 CTTATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGA-CATCTAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACCA-C-AAAC
15176706 C-TATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCA
15176725 TTAGAGTGGA
Statistics
Matches: 151, Mismatches: 36, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
43 1 0.01
44 64 0.42
45 82 0.54
46 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACCACAAAC
Found at i:15177049 original size:22 final size:23
Alignment explanation
Indices: 15177024--15177075 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
15177014 AGTCCAATTA
15177024 ACACTCCACTAAACCA-ACCACT
1 ACACTCCACTAAACCACACCACT
* *
15177046 ACACCCCACTAAACCACCCCACT
1 ACACTCCACTAAACCACACCACT
15177069 A-ACTCCA
1 ACACTCCA
15177076 TCATCCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (23 bp):
ACACTCCACTAAACCACACCACT
Found at i:15177371 original size:3 final size:3
Alignment explanation
Indices: 15177363--15177838 Score: 106
Period size: 3 Copynumber: 155.3 Consensus size: 3
15177353 GGGGAGAGTG
* * * * * *
15177363 TTA TTA TTA TTA TTA TTA TTA CTA TTA CTA CTA CTA CTA TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
15177411 TTA TTA CTT- TTA CTA TTA TTC TATA TGCTA TTA TTG TT- TTC TT- TT-
1 TTA TTA -TTA TTA TTA TTA TTA T-TA T--TA TTA TTA TTA TTA TTA TTA
* * * * * *
15177456 TTA TTA TTA TTA GTA GTA CGTA ATA GTG TT- TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
15177500 TTA TTT TTA CCTT- TTCA TTA CTA TTA TTA TTAA CCTA CTA TAA TTA
1 TTA TTA TTA --TTA TT-A TTA TTA TTA TTA TT-A -TTA TTA TTA TTA
* * * ** * *
15177546 TTT TTA TTA ATA -TA GTA TTA TT- TCC TT- TTT TTA -TA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * * *
15177590 TTG TTA GCA CGTA -TA TTA TTA TTA TTAA TGTA TCA TTA TTA TTT TCTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA T-TA
* *
15177638 TT- TTA TTA TTA CTT- TTA TTA CTA TTG TT- TCTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * **
15177682 TT- TTCA TTA CTTCCA TTA TTA TTA TCA TCA TTT TCTA TTA CCA TTA
1 TTA TT-A TTA -TT--A TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* ** * *
15177728 ATA TGTCA TTTA TTCA TTA TTA TTA TTA TTA TTA ACA CTA TTA TCA TTA
1 TTA T-T-A -TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * **
15177777 TTA TATA TTTA CTT- TTT TTA ATA TTA TTA CCA TTA -TA TTA TTA TTA
1 TTA T-TA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
15177823 CTA TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA T
15177839 CCATCCTATT
Statistics
Matches: 355, Mismatches: 75, Indels: 86
0.69 0.15 0.17
Matches are distributed among these distances:
2 34 0.10
3 268 0.75
4 39 0.11
5 12 0.03
6 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:15179983 original size:21 final size:20
Alignment explanation
Indices: 15179950--15179993 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
15179940 TTAAAATTTA
*
15179950 TTTTTAAAGATATTCAAATT
1 TTTTTAAAGATATTCAAAAT
* *
15179970 TTTTTAAATTATATTTAAAAT
1 TTTTTAAA-GATATTCAAAAT
15179991 TTT
1 TTT
15179994 AAAAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTTAAAGATATTCAAAAT
Found at i:15179990 original size:22 final size:21
Alignment explanation
Indices: 15179939--15179993 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
15179929 AATACTATTT
15179939 TTTAAAATTTATTTTTAAAGATA
1 TTTAAAA-TT-TTTTTAAAGATA
* *
15179962 -TTCAAATTTTTTTAAATTATA
1 TTTAAAATTTTTTTAAA-GATA
15179983 TTTAAAATTTT
1 TTTAAAATTTT
15179994 AAAAAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 8 0.30
21 5 0.19
22 14 0.52
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTAAAATTTTTTTAAAGATA
Found at i:15180164 original size:22 final size:21
Alignment explanation
Indices: 15180130--15180185 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
15180120 TCGTATCTTT
*
15180130 AAAAATAATATATTTTAAATATTA
1 AAAAAT-A-ATATTTAAAAT-TTA
15180154 AAAAATAATATTTAAAATTTA
1 AAAAATAATATTTAAAATTTA
15180175 AAGAAATAATA
1 AA-AAATAATA
15180186 ATTTGGTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 5 0.17
22 18 0.60
23 1 0.03
24 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAATAATATTTAAAATTTA
Found at i:15180167 original size:21 final size:22
Alignment explanation
Indices: 15180139--15180185 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
15180129 TAAAAATAAT
*
15180139 ATATTTTAAATATTAAA-AAATA
1 ATATTTAAAAT-TTAAAGAAATA
15180161 ATATTTAAAATTTAAAGAAATA
1 ATATTTAAAATTTAAAGAAATA
15180183 ATA
1 ATA
15180186 ATTTGGTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATTTAAAATTTAAAGAAATA
Found at i:15181109 original size:29 final size:28
Alignment explanation
Indices: 15181040--15181134 Score: 106
Period size: 27 Copynumber: 3.4 Consensus size: 28
15181030 CTATCTAGTA
* *
15181040 GGCGTGACTGGTTGTGCCTATCTGACA-
1 GGCGCGACTGGTTGAGCCTATCTGACAG
* *
15181067 AGCGCAACTGGTTGAGCCTATCTGACAGG
1 GGCGCGACTGGTTGAGCCTATCTGACA-G
15181096 GGCGCGACTGGTTGAGCCTATCT-A-AG
1 GGCGCGACTGGTTGAGCCTATCTGACAG
*
15181122 AGGCGTGACTGGT
1 -GGCGCGACTGGT
15181135 GGGGCCCATA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 35 0.60
28 1 0.02
29 21 0.36
ACGTcount: A:0.19, C:0.22, G:0.35, T:0.24
Consensus pattern (28 bp):
GGCGCGACTGGTTGAGCCTATCTGACAG
Found at i:15190099 original size:94 final size:94
Alignment explanation
Indices: 15189966--15190152 Score: 338
Period size: 94 Copynumber: 2.0 Consensus size: 94
15189956 CATTCGAGCC
*
15189966 GTAATAAGATCGTGTCTACAGCTCAATTATAGTCCCCGACACGTACTCTCTCATAGCGGCTATCT
1 GTAATAAGATCGTGTCTACAACTCAATTATAGTCCCCGACACGTACTCTCTCATAGCGGCTATCT
*
15190031 ATTCCTGTAACTCATTGTACGATGTATCT
66 ATCCCTGTAACTCATTGTACGATGTATCT
* *
15190060 GTAATAAGATCGTGTCTGCAACTCAATTATAGTCCCCGACACGTACTCTCTCATAGTGGCTATCT
1 GTAATAAGATCGTGTCTACAACTCAATTATAGTCCCCGACACGTACTCTCTCATAGCGGCTATCT
15190125 ATCCCTGTAACTCATTGTACGATGTATC
66 ATCCCTGTAACTCATTGTACGATGTATC
15190153 GGAATCTCCG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (94 bp):
GTAATAAGATCGTGTCTACAACTCAATTATAGTCCCCGACACGTACTCTCTCATAGCGGCTATCT
ATCCCTGTAACTCATTGTACGATGTATCT
Found at i:15190893 original size:27 final size:27
Alignment explanation
Indices: 15190833--15190895 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
15190823 CTGTGGACCT
* *
15190833 ACCAGTCGCGCCTGTCAGATAGGCTCA
1 ACCAGTCGCGCCTGTCAGATAAGCACA
*
15190860 ACAAGTCGCGCCTGTCAGATAAGCACA
1 ACCAGTCGCGCCTGTCAGATAAGCACA
*
15190887 GCCAGTCGC
1 ACCAGTCGC
15190896 TTCTATTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.16
Consensus pattern (27 bp):
ACCAGTCGCGCCTGTCAGATAAGCACA
Found at i:15191224 original size:21 final size:22
Alignment explanation
Indices: 15191199--15191279 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 22
15191189 AGTATTTTCT
15191199 AAAT-TTAAAAAATAATATTTA
1 AAATATTAAAAAATAATATTTA
* *
15191220 AAAT-TTTAAAAATAATGTTATA
1 AAATATTAAAAAATAATATT-TA
*
15191242 AAATATT-TAAAATATATATTTA
1 AAATATTAAAAAATA-ATATTTA
*
15191264 AAATATTATAAAATAA
1 AAATATTAAAAAATAA
15191280 ATAATAAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
21 17 0.33
22 22 0.42
23 13 0.25
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (22 bp):
AAATATTAAAAAATAATATTTA
Found at i:15191229 original size:22 final size:22
Alignment explanation
Indices: 15191202--15191279 Score: 88
Period size: 21 Copynumber: 3.5 Consensus size: 22
15191192 ATTTTCTAAA
15191202 TTTAAAAAATAATATTTAAAAT
1 TTTAAAAAATAATATTTAAAAT
*
15191224 TTT-AAAAATAATGTTATAAAAT
1 TTTAAAAAATAATATT-TAAAAT
*
15191246 ATTTAAAATAT-ATATTTAAAAT
1 -TTTAAAAAATAATATTTAAAAT
* *
15191268 ATTATAAAATAA
1 TTTAAAAAATAA
15191280 ATAATAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 18 0.39
22 16 0.35
23 7 0.15
24 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (22 bp):
TTTAAAAAATAATATTTAAAAT
Found at i:15191260 original size:13 final size:13
Alignment explanation
Indices: 15191244--15191269 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15191234 ATGTTATAAA
15191244 ATATTTAAAATAT
1 ATATTTAAAATAT
15191257 ATATTTAAAATAT
1 ATATTTAAAATAT
15191270 TATAAAATAA
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):
ATATTTAAAATAT
Found at i:15191287 original size:22 final size:22
Alignment explanation
Indices: 15191239--15191305 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
15191229 AAATAATGTT
*
15191239 ATAAAATATT-TAAAATATATA
1 ATAAAATATTATAAAATAAATA
*
15191260 TTTAAAATATTATAAAATAAATA
1 -ATAAAATATTATAAAATAAATA
* *
15191283 AT-AAATAATTAAAAAACAAATA
1 ATAAAAT-ATTATAAAATAAATA
15191305 A
1 A
15191306 AAGACAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 4 0.11
22 24 0.63
23 10 0.26
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAAAATATTATAAAATAAATA
Found at i:15191287 original size:44 final size:44
Alignment explanation
Indices: 15191201--15191298 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
15191191 TATTTTCTAA
* * *
15191201 ATTTAAAAAATAATATTTAAAATTTTAAAAATAATGTTATAAAAT
1 ATTTAAAAAATAATATTTAAAATATTAAAAATAATATAAT-AAAT
*
15191246 ATTTAAAATAT-ATATTTAAAATATTATAAAATAA-ATAATAAAT
1 ATTTAAAAAATAATATTTAAAATATTA-AAAATAATATAATAAAT
*
15191289 AATTAAAAAA
1 ATTTAAAAAA
15191299 CAAATAAAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 12 0.26
44 17 0.37
45 17 0.37
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (44 bp):
ATTTAAAAAATAATATTTAAAATATTAAAAATAATATAATAAAT
Found at i:15191288 original size:11 final size:11
Alignment explanation
Indices: 15191273--15191343 Score: 61
Period size: 11 Copynumber: 6.1 Consensus size: 11
15191263 AAAATATTAT
15191273 AAAATAAATAA
1 AAAATAAATAA
* *
15191284 TAAATAATTAA
1 AAAATAAATAA
*
15191295 AAAACAAATAA
1 AAAATAAATAA
* *
15191306 AAGACAAATAAA
1 AAAATAAAT-AA
15191318 AAAATAAAAGTGAA
1 AAAAT-AAA-T-AA
15191332 AAAATAAATAA
1 AAAATAAATAA
15191343 A
1 A
15191344 GAAAAAGGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
11 28 0.58
12 6 0.12
13 6 0.12
14 8 0.17
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:15191342 original size:18 final size:18
Alignment explanation
Indices: 15191293--15191343 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
15191283 ATAAATAATT
*
15191293 AAAAAACAAATAAAAGAC
1 AAAAAAAAAATAAAAGAC
**
15191311 AAATAAAAAAATAAAAGTG
1 AAA-AAAAAAATAAAAGAC
*
15191330 AAAAAATAAATAAA
1 AAAAAAAAAATAAA
15191344 GAAAAAGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAAAAAAAATAAAAGAC
Found at i:15191364 original size:23 final size:24
Alignment explanation
Indices: 15191309--15191367 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
15191299 CAAATAAAAG
15191309 ACAAATAA-AAAAATAAAAGTGAA
1 ACAAATAATAAAAATAAAAGTGAA
*
15191332 A-AAATAAATAAAGA-AAAAG-GAAA
1 ACAAAT-AATAAAAATAAAAGTG-AA
15191355 ACAAATAATAAAA
1 ACAAATAATAAAA
15191368 TCAAAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
22 5 0.17
23 17 0.57
24 8 0.27
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.12
Consensus pattern (24 bp):
ACAAATAATAAAAATAAAAGTGAA
Found at i:15191392 original size:28 final size:28
Alignment explanation
Indices: 15191330--15191393 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
15191320 AATAAAAGTG
*
15191330 AAAAAAT-AAATAAAGAAAAAGGAAAAC
1 AAAAAATAAAATAAAGAAAAAGGAAAAA
* *
15191357 AAATAATAAAATCAA-AAAAAGGAAAAA
1 AAAAAATAAAATAAAGAAAAAGGAAAAA
15191384 ATAAAAATAA
1 A-AAAAATAA
15191394 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (28 bp):
AAAAAATAAAATAAAGAAAAAGGAAAAA
Found at i:15191401 original size:28 final size:26
Alignment explanation
Indices: 15191330--15191403 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
15191320 AATAAAAGTG
*
15191330 AAAAAATAAATAAAGAAAAAGGAAAAC
1 AAAAAATAAATAAA-AAAAAGGAAAAA
* *
15191357 AAATAATAAAATCAAAAAAAGGAAAAA
1 AAAAAAT-AAATAAAAAAAAGGAAAAA
* *
15191384 ATAAAAATAATTTAAAAAAA
1 A-AAAAATAAATAAAAAAAA
15191404 TCAAGAATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 28 0.72
28 11 0.28
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.14
Consensus pattern (26 bp):
AAAAAATAAATAAAAAAAAGGAAAAA
Found at i:15193291 original size:18 final size:18
Alignment explanation
Indices: 15193257--15193534 Score: 159
Period size: 18 Copynumber: 15.1 Consensus size: 18
15193247 TCATTAACAC
* *
15193257 TCAG-AATAATTATTTAT
1 TCAGTAATAATCAGTTAT
*
15193274 TCAGTAATAGTCAGTTAT
1 TCAGTAATAATCAGTTAT
* *
15193292 TCAGTAACAATCAATTAT
1 TCAGTAATAATCAGTTAT
* *
15193310 TCAATAATAACCAGTTAT
1 TCAGTAATAATCAGTTAT
15193328 TCAGTATCGATCAATTGATCAGTTAT
1 TCAGTA---AT--A---ATCAGTTAT
* * * *
15193354 CCAGTAACAGTCAATTAT
1 TCAGTAATAATCAGTTAT
*
15193372 TCAGTAA-AATCAGATAT
1 TCAGTAATAATCAGTTAT
* *
15193389 TCAGTAACTATTAAGTTAT
1 TCAGTAA-TAATCAGTTAT
** *
15193408 TCAGTAGCAGTCA-TTCAT
1 TCAGTAATAATCAGTT-AT
* *
15193426 TCAGTGACAATCAGTTAT
1 TCAGTAATAATCAGTTAT
*
15193444 TCAGTAATAATCAATTAT
1 TCAGTAATAATCAGTTAT
* *
15193462 TCAATAATATTCAGTTAT
1 TCAGTAATAATCAGTTAT
* * * *
15193480 TTAGTAACAGTCAATTA-
1 TCAGTAATAATCAGTTAT
* * * *
15193497 TCTGGTAACAGTCAATTAT
1 TC-AGTAATAATCAGTTAT
15193516 TCAGTAATAATCAGTTAT
1 TCAGTAATAATCAGTTAT
15193534 T
1 T
15193535 TTATACCTTT
Statistics
Matches: 199, Mismatches: 47, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
17 21 0.11
18 143 0.72
19 17 0.09
21 3 0.02
23 2 0.01
26 13 0.07
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TCAGTAATAATCAGTTAT
Found at i:15193312 original size:36 final size:36
Alignment explanation
Indices: 15193270--15193534 Score: 178
Period size: 36 Copynumber: 7.1 Consensus size: 36
15193260 GAATAATTAT
15193270 TTATTCAGTAATAGTCAGTTATTCAGTAACAATCAA
1 TTATTCAGTAATAGTCAGTTATTCAGTAACAATCAA
* ** *
15193306 TTATTCAATAATAACCAGTTATTCAGTATCGATCAATTGATCAG
1 TTATTCAGTAATAGTCAGTTATTCAGTA---A-C-A---ATCAA
* * *
15193350 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TTATTCAGTAATAGTCAGTTATTCAGTAACAATCA-A
* * * *
15193386 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAA-TAGTCAGTTATTCAGTAACAATCAA
* * * *
15193421 TTCATTCAGTGACAATCAGTTATTCAGTAATAATCAA
1 TT-ATTCAGTAATAGTCAGTTATTCAGTAACAATCAA
* * * *
15193458 TTATTCAATAATATTCAGTTATTTAGTAACAGTCAA
1 TTATTCAGTAATAGTCAGTTATTCAGTAACAATCAA
* * * * *
15193494 TTA-TCTGGTAACAGTCAATTATTCAGTAATAATCAG
1 TTATTC-AGTAATAGTCAGTTATTCAGTAACAATCAA
15193530 TTATT
1 TTATT
15193535 TTATACCTTT
Statistics
Matches: 172, Mismatches: 41, Indels: 31
0.70 0.17 0.13
Matches are distributed among these distances:
35 16 0.09
36 110 0.64
37 15 0.09
38 1 0.01
39 1 0.01
40 1 0.01
41 2 0.01
44 26 0.15
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (36 bp):
TTATTCAGTAATAGTCAGTTATTCAGTAACAATCAA
Found at i:15193319 original size:54 final size:54
Alignment explanation
Indices: 15193257--15193522 Score: 180
Period size: 54 Copynumber: 4.8 Consensus size: 54
15193247 TCATTAACAC
* * *
15193257 TCAG-AATAATTATTTATTCAGTAATAGTCAGTTATTCAGTAACAATCAATTAT
1 TCAGTAATAATCAGTTATTCAGTAATAGTCAGTTATTCAGTAACAGTCAATTAT
* * *
15193310 TCAATAATAACCAGTTATTCAGTATCGATCAATTGATCAGTTATCCAGTAACAGTCAATTAT
1 TCAGTAATAATCAGTTATTCAGTA---AT--A--G-TCAGTTATTCAGTAACAGTCAATTAT
* * * *
15193372 TCAGTAA-AATCAGATATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-ATTCAT
1 TCAGTAATAATCAGTTATTCAGTAA-TAGTCAGTTATTCAGTAACAGTCAATT-AT
* * * * * * * *
15193426 TCAGTGACAATCAGTTATTCAGTAATAATCAATTATTCAATAATATTCAGTTAT
1 TCAGTAATAATCAGTTATTCAGTAATAGTCAGTTATTCAGTAACAGTCAATTAT
* * * * * * *
15193480 TTAGTAACAGTCAATTA-TCTGGTAACAGTCAATTATTCAGTAA
1 TCAGTAATAATCAGTTATTC-AGTAATAGTCAGTTATTCAGTAA
15193523 TAATCAGTTA
Statistics
Matches: 168, Mismatches: 31, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
53 8 0.05
54 91 0.54
55 18 0.11
57 3 0.02
58 1 0.01
59 2 0.01
61 15 0.09
62 30 0.18
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.36
Consensus pattern (54 bp):
TCAGTAATAATCAGTTATTCAGTAATAGTCAGTTATTCAGTAACAGTCAATTAT
Found at i:15193491 original size:72 final size:73
Alignment explanation
Indices: 15193350--15193534 Score: 209
Period size: 72 Copynumber: 2.6 Consensus size: 73
15193340 AATTGATCAG
* * *
15193350 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA-TATTCAGTAACTATTAAGTTATTCAGT
1 TTATCTAGTAACAATCAATTATTCAGTAATAATCA-ATTATTCAATAACTATTAAGTTATTCAGT
*
15193413 AGCAGTC-A
65 AACAGTCAA
* * * *
15193421 TTCAT-TCAGTGACAATCAGTTATTCAGTAATAATCAATTATTCAATAA-TATTCAGTTATTTAG
1 TT-ATCT-AGTAACAATCAATTATTCAGTAATAATCAATTATTCAATAACTATTAAGTTATTCAG
15193484 TAACAGTCAA
64 TAACAGTCAA
* * *
15193494 TTATCTGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TTATCTAGTAACAATCAATTATTCAGTAATAATCAATTATT
15193535 TTATACCTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
71 2 0.02
72 75 0.79
73 18 0.19
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (73 bp):
TTATCTAGTAACAATCAATTATTCAGTAATAATCAATTATTCAATAACTATTAAGTTATTCAGTA
ACAGTCAA
Found at i:15193766 original size:45 final size:45
Alignment explanation
Indices: 15193715--15193857 Score: 196
Period size: 45 Copynumber: 3.2 Consensus size: 45
15193705 ATAGTAACAA
** * **
15193715 TAACAGTAACAGCATTCAACACACAAAGTGCCGAATCAGTAGTGG
1 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCAGTAACGG
* *
15193760 TAACAGTAACAATATTCGACACACACAGTGCCGAATCGGTAACGG
1 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCAGTAACGG
* *
15193805 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACAG
1 TAACAGTAACAATATTCGACACACAAAGTGCCGAATCAGTAACGG
*
15193850 TAGCAGTA
1 TAACAGTA
15193858 GCGATAACAG
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 88 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (45 bp):
TAACAGTAACAATATTCGACACACAAAGTGCCGAATCAGTAACGG
Found at i:15195578 original size:9 final size:9
Alignment explanation
Indices: 15195560--15195594 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
15195550 TTCCTTTTTC
*
15195560 ATTTCTTTT
1 ATTTCATTT
15195569 ATTTCATTT
1 ATTTCATTT
15195578 ATTTC-TTT
1 ATTTCATTT
15195586 ATTTCATTT
1 ATTTCATTT
15195595 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:15195586 original size:17 final size:18
Alignment explanation
Indices: 15195560--15195606 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
15195550 TTCCTTTTTC
15195560 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
15195578 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
15195595 CTTTATTTTATT
1 ATTTCTTTTATT
15195607 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:15195596 original size:13 final size:13
Alignment explanation
Indices: 15195560--15195602 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
15195550 TTCCTTTTTC
* *
15195560 ATTTCTTTTATTT
1 ATTTCATTTCTTT
15195573 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
15195586 ATTTCATTTCTTT
1 ATTTCATTTCTTT
15195599 ATTT
1 ATTT
15195603 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:15197128 original size:53 final size:54
Alignment explanation
Indices: 15197060--15197170 Score: 134
Period size: 53 Copynumber: 2.1 Consensus size: 54
15197050 CAAGGCAAAC
* * * * *
15197060 TTTTTTTACTTTGGGACACTGATGATCGGCACCACCTTTTTTAGGTCCCAAAAT
1 TTTTTTTACTCTGGGACACTAATGACCGACACCACCTTTTTCAGGTCCCAAAAT
* * * *
15197114 TTTTTTTA-TCTGGGACATTAATGGCCGACACCACCTTTTTCGGGTCCTAAAAT
1 TTTTTTTACTCTGGGACACTAATGACCGACACCACCTTTTTCAGGTCCCAAAAT
15197167 TTTT
1 TTTT
15197171 GTTTTGGGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
53 40 0.83
54 8 0.17
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (54 bp):
TTTTTTTACTCTGGGACACTAATGACCGACACCACCTTTTTCAGGTCCCAAAAT
Found at i:15199498 original size:21 final size:21
Alignment explanation
Indices: 15199451--15199512 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
15199441 AATAGATGGA
* *
15199451 TCAGCTCTTATGAGTTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
* *
15199472 TAAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTAT
15199493 TCAGCT-TT-CGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTAT
15199512 T
1 T
15199513 GGTGTATTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 11 0.31
20 2 0.06
21 22 0.63
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTAT
Found at i:15202804 original size:22 final size:22
Alignment explanation
Indices: 15202779--15202851 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
15202769 ACATACTATT
15202779 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACATTAAATTA
** * * *
15202801 TAATACAATATACATATATATT-
1 TAATTTAAAACACAT-TAAATTA
15202823 TAATTTAAAACACATTAAATATA
1 TAATTTAAAACACATTAAAT-TA
15202846 TTAATT
1 -TAATT
15202852 CAACTAAAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
21 4 0.11
22 23 0.62
23 5 0.14
24 5 0.14
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTTAAAACACATTAAATTA
Found at i:15202813 original size:43 final size:44
Alignment explanation
Indices: 15202752--15202842 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
15202742 AATGATATAC
*
15202752 AAATTATAATACAATATACATA-CTATTTAATTTAAAACACATT
1 AAATTATAATACAATATACATATATATTTAATTTAAAACACATT
15202795 AAATTATAATACAATATACATATATATTTAATTTAAAACACATT
1 AAATTATAATACAATATACATATATATTTAATTTAAAACACATT
15202839 AAAT
1 AAAT
15202843 ATATTAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 22 0.48
44 24 0.52
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (44 bp):
AAATTATAATACAATATACATATATATTTAATTTAAAACACATT
Found at i:15203135 original size:37 final size:37
Alignment explanation
Indices: 15203094--15203166 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
15203084 TTGAAGTGAC
*
15203094 AGGCCTGCCAAAAATGGCCTTTGAATGGCCCGCAGCA
1 AGGCCTGCCAAAAATGGCCTTAGAATGGCCCGCAGCA
* * * * *
15203131 AGGCCTTCCACATATGGCCTTAGATTGGCCGGCAGC
1 AGGCCTGCCAAAAATGGCCTTAGAATGGCCCGCAGC
15203167 CGGCACCAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.19
Consensus pattern (37 bp):
AGGCCTGCCAAAAATGGCCTTAGAATGGCCCGCAGCA
Found at i:15203282 original size:17 final size:18
Alignment explanation
Indices: 15203260--15203302 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
15203250 AAAAAGTGAA
*
15203260 TAAAATAT-GAATGAATT
1 TAAAATATGGAATGAAAT
*
15203277 TAAAATATGGGATGAAAT
1 TAAAATATGGAATGAAAT
15203295 TAAAATAT
1 TAAAATAT
15203303 AAACTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (18 bp):
TAAAATATGGAATGAAAT
Found at i:15203342 original size:22 final size:21
Alignment explanation
Indices: 15203314--15203543 Score: 153
Period size: 22 Copynumber: 10.4 Consensus size: 21
15203304 AACTAAAAAG
15203314 AAAAAAATAAATTGAAATGAGA
1 AAAAAAATAAATTGAAATGA-A
*
15203336 AAAAAAATGAATT----TGAA
1 AAAAAAATAAATTGAAATGAA
* *
15203353 AAAAGAATAAATTGAAATGAG
1 AAAAAAATAAATTGAAATGAA
* *
15203374 AAAAAAATAAATTGAGATGAT
1 AAAAAAATAAATTGAAATGAA
*
15203395 AAAAAAATGAATATGAAATGAA
1 AAAAAAATAAAT-TGAAATGAA
*
15203417 ACGAAGTATTAAATGAATATGAAATGAA
1 A--AA--A--AAATAAAT-TGAAATGAA
*
15203445 AATAAATTATAAATTGAAATGAA
1 AA-AAA-AATAAATTGAAATGAA
* *
15203468 AAATTAAATAAATTAAAATGAGA
1 AAA-AAAATAAATTGAAATGA-A
*
15203491 TAAAAAAATAAATTTAAATGGAA
1 -AAAAAAATAAATTGAAAT-GAA
** * *
15203514 AATGAAATAAATTTAAATTAA
1 AAAAAAATAAATTGAAATGAA
15203535 AAAATAAAT
1 AAAA-AAAT
15203544 TTAAATGAAA
Statistics
Matches: 168, Mismatches: 22, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
17 12 0.07
18 3 0.02
21 36 0.21
22 54 0.32
23 28 0.17
24 12 0.07
25 1 0.01
26 2 0.01
27 1 0.01
28 19 0.11
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.24
Consensus pattern (21 bp):
AAAAAAATAAATTGAAATGAA
Found at i:15203457 original size:28 final size:27
Alignment explanation
Indices: 15203399--15203533 Score: 93
Period size: 28 Copynumber: 5.0 Consensus size: 27
15203389 GATGATAAAA
* ** *
15203399 AAATGAATATGAAATGAAACGAAGTATT
1 AAATGAATATGAAATAAAATAAATTA-T
15203427 AAATGAATATGAAATGAAAATAAATTAT
1 AAATGAATATGAAAT-AAAATAAATTAT
*
15203455 AAATTGAA-ATGAAAAATTAAATAAATTA-
1 AAA-TGAATATG--AAATAAAATAAATTAT
*
15203483 AAATG-AGAT-AAA-AAAATAAATT-T
1 AAATGAATATGAAATAAAATAAATTAT
* *
15203506 AAATGGAAAATGAAATAAATTTAAATTA
1 AAAT-GAATATGAAATAAA-ATAAATTA
15203534 AAAAATAAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
23 13 0.15
24 4 0.05
25 3 0.03
26 4 0.05
27 7 0.08
28 31 0.36
29 21 0.24
30 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATGAATATGAAATAAAATAAATTAT
Found at i:15203496 original size:27 final size:29
Alignment explanation
Indices: 15203444--15203503 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
15203434 TATGAAATGA
* *
15203444 AAATAAATTATAAATTGAAATGAAAAATT
1 AAATAAATTATAAATTGAAATAAAAAAAT
*
15203473 AAATAAATTA-AAA-TGAGATAAAAAAAT
1 AAATAAATTATAAATTGAAATAAAAAAAT
15203500 AAAT
1 AAAT
15203504 TTAAATGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 15 0.54
28 3 0.11
29 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (29 bp):
AAATAAATTATAAATTGAAATAAAAAAAT
Found at i:15203503 original size:23 final size:22
Alignment explanation
Indices: 15203438--15203558 Score: 94
Period size: 22 Copynumber: 5.6 Consensus size: 22
15203428 AATGAATATG
*
15203438 AAAT-GAAAATAAATTATAAATTG
1 AAATGGAAAATAAA--ATAAATTT
* * *
15203461 AAATGAAAAATTAAATAAATTA
1 AAATGGAAAATAAAATAAATTT
15203483 AAATGAGATAAA-AAAATAAATTT
1 AAATG-GA-AAATAAAATAAATTT
*
15203506 AAATGGAAAATGAAATAAATTT
1 AAATGGAAAATAAAATAAATTT
*
15203528 AAAT---TAA-AAAATAAATTT
1 AAATGGAAAATAAAATAAATTT
*
15203546 AAAT-GAAATTAAA
1 AAATGGAAAATAAA
15203559 TGAGAAATGA
Statistics
Matches: 80, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
18 14 0.17
19 2 0.03
20 1 0.01
21 6 0.08
22 28 0.35
23 19 0.24
24 10 0.12
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.28
Consensus pattern (22 bp):
AAATGGAAAATAAAATAAATTT
Found at i:15203503 original size:45 final size:42
Alignment explanation
Indices: 15203314--15203595 Score: 142
Period size: 45 Copynumber: 6.5 Consensus size: 42
15203304 AACTAAAAAG
* *
15203314 AAAAAAATAAATTGAAATGAGAAAA-AAAATGAATTTG--A-A-
1 AAAAAAATAAATTGAAATGA-AAAATTAAAT-AAATTGAAATAT
* *
15203353 AAAAGAATAAATTGAAATGAGAAAA--AAATAAATTGAGATGAT
1 AAAAAAATAAATTGAAATGA-AAAATTAAATAAATTGAAAT-AT
* *
15203395 AAAAAAATGAATATGAAATGAAACGAAGTATTAAATGAATATGAAATGA-
1 AAAAAAATAAAT-TGAAATG-AA--AA--ATTAAATAAAT-TGAAAT-AT
*
15203444 AAATAAATTATAAATTGAAATGAAAAATTAAATAAATTAAAATGAGAT
1 AAA-AAA--ATAAATTGAAATGAAAAATTAAATAAATTGAAAT---AT
* * * *
15203492 AAAAAAATAAATTTAAATGGAAAATGAAATAAATTTAAAT-T
1 AAAAAAATAAATTGAAATGAAAAATTAAATAAATTGAAATAT
* *
15203533 -AAAAAATAAATTTAAATG--AAATTAAATGAGAAATGAAA-AT
1 AAAAAAATAAATTGAAATGAAAAATTAAAT-A-AATTGAAATAT
* *
15203573 GAAAAAA-AAATGAGAAATGAAAA
1 AAAAAAATAAAT-TGAAATGAAAA
15203596 TTGGAATGAG
Statistics
Matches: 198, Mismatches: 18, Indels: 50
0.74 0.07 0.19
Matches are distributed among these distances:
37 5 0.03
38 12 0.06
39 26 0.13
40 29 0.15
41 13 0.07
42 10 0.05
43 10 0.05
44 1 0.01
45 37 0.19
46 10 0.05
47 6 0.03
48 5 0.03
49 10 0.05
50 12 0.06
51 7 0.04
52 5 0.03
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.23
Consensus pattern (42 bp):
AAAAAAATAAATTGAAATGAAAAATTAAATAAATTGAAATAT
Found at i:15203574 original size:13 final size:13
Alignment explanation
Indices: 15203556--15203596 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
15203546 AAATGAAATT
15203556 AAATGAGAAATGA
1 AAATGAGAAATGA
*
15203569 AAATGA-AAA-AA
1 AAATGAGAAATGA
15203580 AAATGAGAAATGA
1 AAATGAGAAATGA
15203593 AAAT
1 AAAT
15203597 TGGAATGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 7 0.29
12 6 0.25
13 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (13 bp):
AAATGAGAAATGA
Found at i:15203591 original size:74 final size:73
Alignment explanation
Indices: 15203437--15203594 Score: 162
Period size: 74 Copynumber: 2.1 Consensus size: 73
15203427 AAATGAATAT
**
15203437 GAAATGAAAATAAATTATAAATTGAAATGAAAAATTAAATAAATTAAAATGAGATAAAAAAATAA
1 GAAATG-AAATAAATTATAAATTGAAAAAAAAAATTAAATAAATTAAAATGAGATAAAAAAATAA
***
15203502 ATTTAAATG
65 AAAAAAATG
* *
15203511 GAAAATGAAATAAATT-TAAATT-AAAAAATAAATTTAAATGAAATT-AAATGAGA-AATGAAAA
1 G-AAATGAAATAAATTATAAATTGAAAAAA-AAAATTAAAT-AAATTAAAATGAGATAA-AAAAA
15203572 TGAAAAAAAAATG
62 T-AAAAAAAAATG
15203585 AGAAATGAAA
1 -GAAATGAAA
15203595 ATTGGAATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
72 6 0.08
73 28 0.39
74 31 0.44
75 6 0.08
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.25
Consensus pattern (73 bp):
GAAATGAAATAAATTATAAATTGAAAAAAAAAATTAAATAAATTAAAATGAGATAAAAAAATAAA
AAAAAATG
Found at i:15203613 original size:18 final size:19
Alignment explanation
Indices: 15203581--15203616 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15203571 ATGAAAAAAA
*
15203581 AATGAGAAATGAAAATTGG
1 AATGAGAAATAAAAATTGG
15203600 AATGAGAAA-AAAAATTG
1 AATGAGAAATAAAAATTG
15203617 ACAAAACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.00, G:0.22, T:0.19
Consensus pattern (19 bp):
AATGAGAAATAAAAATTGG
Found at i:15203816 original size:25 final size:26
Alignment explanation
Indices: 15203773--15203826 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
15203763 ATTAAATGAG
* *
15203773 AAAATTTTTAAATTTAAATAAAATTT
1 AAAATTTTGAAATTGAAATAAAATTT
*
15203799 AAAATTTTGAAA-TGAAATGAAATTT
1 AAAATTTTGAAATTGAAATAAAATTT
15203824 AAA
1 AAA
15203827 TTGAGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (26 bp):
AAAATTTTGAAATTGAAATAAAATTT
Found at i:15203834 original size:24 final size:25
Alignment explanation
Indices: 15203788--15203834 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
15203778 TTTTAAATTT
**
15203788 AAATAAAATTTAAAATTTTGAAATG
1 AAATAAAATTTAAAATTGAGAAATG
*
15203813 AAATGAAATTT-AAATTGAGAAA
1 AAATAAAATTTAAAATTGAGAAA
15203835 AAATGTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (25 bp):
AAATAAAATTTAAAATTGAGAAATG
Found at i:15203935 original size:51 final size:51
Alignment explanation
Indices: 15203856--15203953 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
15203846 AAATATAAAA
* *
15203856 AATTAAAATAAAATAAAATTGAGACTACTTTTAATTAATATGAAAAATATG
1 AATTAAAAAAAAATAAAATTGAGACTACTTGTAATTAATATGAAAAATATG
*
15203907 AATTGAAAAAAAAATAAAA-TGAGACTACTTGTGATTAATATGAAAAA
1 AATT-AAAAAAAAATAAAATTGAGACTACTTGTAATTAATATGAAAAA
15203954 AAATTTTGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 30 0.70
52 13 0.30
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (51 bp):
AATTAAAAAAAAATAAAATTGAGACTACTTGTAATTAATATGAAAAATATG
Found at i:15203997 original size:15 final size:15
Alignment explanation
Indices: 15203972--15204021 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
15203962 AATACTAGAA
15203972 AAAATAAATTTAAATG
1 AAAA-AAATTTAAATG
*
15203988 AAAAAAATTTTAATG
1 AAAAAAATTTAAATG
*
15204003 AAATGAAATGTTAAATG
1 AAA-AAAAT-TTAAATG
15204020 AA
1 AA
15204022 TATGAAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.45
16 8 0.28
17 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (15 bp):
AAAAAAATTTAAATG
Found at i:15203999 original size:16 final size:17
Alignment explanation
Indices: 15203980--15204021 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
15203970 AAAAAATAAA
15203980 TTTAAATGAAA-AAAAT
1 TTTAAATGAAATAAAAT
*
15203996 TTT-AATGAAATGAAAT
1 TTTAAATGAAATAAAAT
*
15204012 GTTAAATGAA
1 TTTAAATGAA
15204022 TATGAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 9 0.41
17 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTAAATGAAATAAAAT
Found at i:15204009 original size:5 final size:5
Alignment explanation
Indices: 15203999--15204039 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
15203989 AAAAAATTTT
15203999 AATGA AATGA AATGTTA AATGA ATATGA AATGA AATGA AAT
1 AATGA AATGA AATG--A AATGA A-ATGA AATGA AATGA AAT
15204040 TTGTAATGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 23 0.70
6 5 0.15
7 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (5 bp):
AATGA
Found at i:15204031 original size:28 final size:28
Alignment explanation
Indices: 15203999--15204060 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
15203989 AAAAAATTTT
15203999 AATGAAATGAAATGTT-AAATGAATATGA
1 AATGAAATGAAAT-TTGAAATGAATATGA
* *
15204027 AATGAAATGAAATTTGTAATGATTATGA
1 AATGAAATGAAATTTGAAATGAATATGA
15204055 AATGAA
1 AATGAA
15204061 CAGAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.31
Consensus pattern (28 bp):
AATGAAATGAAATTTGAAATGAATATGA
Found at i:15204115 original size:19 final size:17
Alignment explanation
Indices: 15204079--15204122 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
15204069 AATTTATAAT
15204079 TTGAAATG-AAAAAAAA
1 TTGAAATGAAAAAAAAA
15204095 TTGAAATGAAAAAACAAAA
1 TTGAAATG-AAAAA-AAAA
*
15204114 TTCAAATGA
1 TTGAAATGA
15204123 GACGACTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.64, C:0.05, G:0.11, T:0.20
Consensus pattern (17 bp):
TTGAAATGAAAAAAAAA
Found at i:15204185 original size:20 final size:20
Alignment explanation
Indices: 15204145--15204201 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
15204135 TTAATATGAA
*
15204145 AAAATTTGAAATGAGAAAAAAT
1 AAAATTT-AAATGA-AAAAAAG
*
15204167 TAAATTTAAATGAAAAAAAG
1 AAAATTTAAATGAAAAAAAG
15204187 AAAATTTAAATGAAA
1 AAAATTTAAATGAAA
15204202 TGGAATGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 20 0.62
21 6 0.19
22 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.25
Consensus pattern (20 bp):
AAAATTTAAATGAAAAAAAG
Found at i:15204242 original size:12 final size:12
Alignment explanation
Indices: 15204225--15204267 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
15204215 GGAAATGGAA
15204225 TGAAATGAAGTT
1 TGAAATGAAGTT
15204237 TGAAATGAAG-T
1 TGAAATGAAGTT
* *
15204248 T-AAATTAAATT
1 TGAAATGAAGTT
15204259 TGAAATGAA
1 TGAAATGAA
15204268 AAAATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 6 0.23
11 4 0.15
12 16 0.62
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.33
Consensus pattern (12 bp):
TGAAATGAAGTT
Found at i:15208844 original size:47 final size:48
Alignment explanation
Indices: 15208763--15208854 Score: 150
Period size: 47 Copynumber: 1.9 Consensus size: 48
15208753 TTCAATATAA
*
15208763 TTACATACAATATCTTTTACCTGATTCAAACCACCTAATCAAGCTCTG
1 TTACATACAATATCTTCTACCTGATTCAAACCACCTAATCAAGCTCTG
**
15208811 TTACATACAATATC-TCTACCTGATTCAGCCCACCTAATCAAGCT
1 TTACATACAATATCTTCTACCTGATTCAAACCACCTAATCAAGCT
15208855 TTATACATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 27 0.66
48 14 0.34
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.32
Consensus pattern (48 bp):
TTACATACAATATCTTCTACCTGATTCAAACCACCTAATCAAGCTCTG
Found at i:15210658 original size:29 final size:30
Alignment explanation
Indices: 15210626--15210682 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
15210616 AATTAGTTAT
15210626 ATTTAAAAATATAATAAATTA-TTAATACA
1 ATTTAAAAATATAATAAATTATTTAATACA
** * *
15210655 ATTTATTATTTTAATAAATTATTTAATA
1 ATTTAAAAATATAATAAATTATTTAATA
15210683 TTATATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTTAAAAATATAATAAATTATTTAATACA
Found at i:15213920 original size:16 final size:16
Alignment explanation
Indices: 15213899--15213933 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15213889 GTGAAAAATA
15213899 AAAAGTTTTG-GAGAGT
1 AAAAG-TTTGAGAGAGT
15213915 AAAAGTTTGAGAGAGT
1 AAAAGTTTGAGAGAGT
15213931 AAA
1 AAA
15213934 TAGGGAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGAGAGT
Found at i:15213955 original size:15 final size:15
Alignment explanation
Indices: 15213899--15213955 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
15213889 GTGAAAAATA
15213899 AAAAGTTTTGGAGAGT
1 AAAA-TTTTGGAGAGT
*
15213915 AAAAGTTTGAGAGAGT
1 AAAATTTTG-GAGAGT
**
15213931 -AAA-TAGGGAGAGT
1 AAAATTTTGGAGAGT
15213944 AAAATTTTGGAG
1 AAAATTTTGGAG
15213956 GGAAAATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 6 0.18
14 5 0.15
15 12 0.36
16 10 0.30
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (15 bp):
AAAATTTTGGAGAGT
Found at i:15214612 original size:13 final size:13
Alignment explanation
Indices: 15214592--15214624 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
15214582 GATATCAATG
15214592 AAAAATTTATT-A
1 AAAAATTTATTCA
15214604 AATAAATTTATTCA
1 AA-AAATTTATTCA
15214618 AAAAATT
1 AAAAATT
15214625 AGAAGGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 14 0.74
14 3 0.16
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAAATTTATTCA
Found at i:15215970 original size:16 final size:18
Alignment explanation
Indices: 15215932--15215973 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
15215922 AATATTCTTA
*
15215932 ATATATTATTGAAAATAT
1 ATATATTATTGAAAAAAT
*
15215950 TTATATT-TT-AAAAAAT
1 ATATATTATTGAAAAAAT
15215966 ATATATTA
1 ATATATTA
15215974 CAATTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 12 0.60
17 2 0.10
18 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATATATTATTGAAAAAAT
Found at i:15216236 original size:22 final size:22
Alignment explanation
Indices: 15216211--15216277 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
15216201 TTTTACTATA
15216211 ATTTTTTTATCACAAATATATT
1 ATTTTTTTATCACAAATATATT
* * *
15216233 ATTTAATTTAAT-AC-ACTACTATA
1 ATTT--TTTTATCACAAATA-TATT
15216256 ATTTTTTTATCACAAATATATT
1 ATTTTTTTATCACAAATATATT
15216278 TATATTGTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
21 5 0.15
22 12 0.35
23 12 0.35
24 5 0.15
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTTTTATCACAAATATATT
Found at i:15216880 original size:16 final size:17
Alignment explanation
Indices: 15216854--15216889 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
15216844 TTTAATTAAT
*
15216854 AAAATATTATATTTTTA
1 AAAATATTATATATTTA
15216871 AAAATA-TATATATTTA
1 AAAATATTATATATTTA
15216887 AAA
1 AAA
15216890 TTTGAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATATTATATATTTA
Found at i:15218371 original size:24 final size:24
Alignment explanation
Indices: 15218344--15218496 Score: 98
Period size: 24 Copynumber: 6.2 Consensus size: 24
15218334 TGGCACAAGC
15218344 ACAACACCATCCACAGGGACTCCG
1 ACAACACCATCCACAGGGACTCCG
*
15218368 ACAACTCCGAGT--ACAGGGACTCCG
1 ACAACACC-A-TCCACAGGGACTCCG
* * *
15218392 ACAACTCCGA-CTACAGGGACTCCA
1 ACAACACC-ATCCACAGGGACTCCG
* *
15218416 ACAACACC-TACCACGGGGACTCCTACC
1 ACAACACCAT-CCACAGGGACT-C--CG
* *
15218443 ACAACACCAACCACAGGGACTCCT
1 ACAACACCATCCACAGGGACTCCG
* * * * *
15218467 ACCACACCAACAACGGGGACACCG
1 ACAACACCATCCACAGGGACTCCG
15218491 ACAACA
1 ACAACA
15218497 GGGACAAGCA
Statistics
Matches: 104, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
24 81 0.78
25 2 0.02
26 2 0.02
27 19 0.18
ACGTcount: A:0.35, C:0.40, G:0.17, T:0.08
Consensus pattern (24 bp):
ACAACACCATCCACAGGGACTCCG
Found at i:15218450 original size:27 final size:27
Alignment explanation
Indices: 15218404--15218472 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
15218394 AACTCCGACT
*
15218404 ACAGGGACTCC-A--ACAACACCTACC
1 ACAGGGACTCCTACCACAACACCAACC
*
15218428 ACGGGGACTCCTACCACAACACCAACC
1 ACAGGGACTCCTACCACAACACCAACC
15218455 ACAGGGACTCCTACCACA
1 ACAGGGACTCCTACCACA
15218473 CCAACAACGG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 10 0.26
25 1 0.03
27 28 0.72
ACGTcount: A:0.35, C:0.42, G:0.14, T:0.09
Consensus pattern (27 bp):
ACAGGGACTCCTACCACAACACCAACC
Found at i:15218472 original size:15 final size:15
Alignment explanation
Indices: 15218422--15218472 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
15218412 TCCAACAACA
*
15218422 CCTACCACGGGGACT
1 CCTACCACAGGGACT
*
15218437 CCTACCACA---ACA
1 CCTACCACAGGGACT
*
15218449 CCAACCACAGGGACT
1 CCTACCACAGGGACT
15218464 CCTACCACA
1 CCTACCACA
15218473 CCAACAACGG
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
12 10 0.36
15 18 0.64
ACGTcount: A:0.31, C:0.45, G:0.14, T:0.10
Consensus pattern (15 bp):
CCTACCACAGGGACT
Found at i:15220819 original size:21 final size:21
Alignment explanation
Indices: 15220795--15220834 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15220785 ATATCATCAC
15220795 TTAAAAAATTAAAAATATTTT
1 TTAAAAAATTAAAAATATTTT
**
15220816 TTAAAATTTTAAAAATATT
1 TTAAAAAATTAAAAATATT
15220835 AAAAATTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAAAATTAAAAATATTTT
Found at i:15221523 original size:27 final size:26
Alignment explanation
Indices: 15221468--15221523 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
15221458 GATAAATAAG
* **
15221468 TTTATTTTTCTAATAAATTAATTTTA
1 TTTATTTTTCTAATAAATAAATTGAA
15221494 TTTATTTTATC-AGATAAATAAATTGAA
1 TTTATTTT-TCTA-ATAAATAAATTGAA
15221521 TTT
1 TTT
15221524 GGAAAGAGCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (26 bp):
TTTATTTTTCTAATAAATAAATTGAA
Found at i:15223731 original size:345 final size:345
Alignment explanation
Indices: 15223100--15224134 Score: 2034
Period size: 345 Copynumber: 3.0 Consensus size: 345
15223090 AAAATGTGAG
*
15223100 GGCTAGTTTGTAAAATTCCCTAAATGTATTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAA
1 GGCTAGTTTGTAAAATTCCCTAAATGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAA
*
15223165 GTTAAATTTAAAAGAATTAAAGAAAACGGAATTAGACCAGAGAAAGTCGAAAGTCGTCGAGTAAC
66 GTTAAATTTAAAAGAATTAAAGAAAACAGAATTAGACCAGAGAAAGTCGAAAGTCGTCGAGTAAC
15223230 CGATTCTGTCTATCCGAATCCGTACGAGGTAAGTCTATATACAAATAAATGTATTTGAGATGGTT
131 CGATTCTGTCTATCCGAATCCGTACGAGGTAAGTCTATATACAAATAAATGTATTTGAGATGGTT
*
15223295 TATTTATGCTTATATGCTATTGAACAATGATGAATGACTATGTGCATTGATTATGAGATATCTGA
196 TATTTATGCTTATATGCTATTGAACAATGATGAATGACTATGTGCATTGATTATGAGATATCCGA
15223360 GAAAGAATCGACAAGTTCCGATGTCTGAAAAGCCCCGTACGAACCTTAAGAATAGTTAGGATACA
261 GAAAGAATCGACAAGTTCCGATGTCTGAAAAGCCCCGTACGAACCTTAAGAATAGTTAGGATACA
15223425 TATGTCCTGACATAGGATTT
326 TATGTCCTGACATAGGATTT
15223445 GGCTAGTTTGTAAAATTCCCTAAATGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAA
1 GGCTAGTTTGTAAAATTCCCTAAATGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAA
15223510 GTTAAATTTAAAAGAATTAAAGAAAACAGAATTAGACCAGAGAAAGTCGAAAGTCGTCGAGTAAC
66 GTTAAATTTAAAAGAATTAAAGAAAACAGAATTAGACCAGAGAAAGTCGAAAGTCGTCGAGTAAC
*
15223575 CGATTCTGTCTATCCGAATCTGTACGAGGTAAGTCTATATACAAATAAATGTATTTGAGATGGTT
131 CGATTCTGTCTATCCGAATCCGTACGAGGTAAGTCTATATACAAATAAATGTATTTGAGATGGTT
15223640 TATTTATGCTTATATGCTATTGAACAATGATGAATGACTATGTGCATTGATTATGAGATATCCGA
196 TATTTATGCTTATATGCTATTGAACAATGATGAATGACTATGTGCATTGATTATGAGATATCCGA
15223705 GAAAGAATCGACAAGTTCCGATGTCTGAAAAGCCCCGTACGAACCTTAAGAATAGTTAGGATACA
261 GAAAGAATCGACAAGTTCCGATGTCTGAAAAGCCCCGTACGAACCTTAAGAATAGTTAGGATACA
15223770 TATGTCCTGACATAGGATTT
326 TATGTCCTGACATAGGATTT
15223790 GGCTAGTTTGTAAAATTCCCTAAATGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAA
1 GGCTAGTTTGTAAAATTCCCTAAATGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAA
15223855 GTTAAATTTAAAAGAATTAAAGAAAACAGAATTAGACCAGAGAAAGTCGAAAGTCGTCGAGTAAC
66 GTTAAATTTAAAAGAATTAAAGAAAACAGAATTAGACCAGAGAAAGTCGAAAGTCGTCGAGTAAC
15223920 CGATTCTGTCTATCCGAATCCGTACGAGGTAAGTCTATATACAAATAAATGTATTTGAGATGGTT
131 CGATTCTGTCTATCCGAATCCGTACGAGGTAAGTCTATATACAAATAAATGTATTTGAGATGGTT
15223985 TATTTATGCTTATATGCTATTGAACAATGATGAATGACTATGTGCATTGATTATGAGATATCCGA
196 TATTTATGCTTATATGCTATTGAACAATGATGAATGACTATGTGCATTGATTATGAGATATCCGA
15224050 GAAAGAATCGACAAGTTCCGATGTCTGAAAAGCCCCGTACGAACCTTAAGAATAGTTAGGATACA
261 GAAAGAATCGACAAGTTCCGATGTCTGAAAAGCCCCGTACGAACCTTAAGAATAGTTAGGATACA
15224115 TATGTCCTGACATAGGATTT
326 TATGTCCTGACATAGGATTT
15224135 TCGATATGTG
Statistics
Matches: 685, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
345 685 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (345 bp):
GGCTAGTTTGTAAAATTCCCTAAATGTGTTTTTGGATTGATTTGAATGAATGTGAGTTTGAATAA
GTTAAATTTAAAAGAATTAAAGAAAACAGAATTAGACCAGAGAAAGTCGAAAGTCGTCGAGTAAC
CGATTCTGTCTATCCGAATCCGTACGAGGTAAGTCTATATACAAATAAATGTATTTGAGATGGTT
TATTTATGCTTATATGCTATTGAACAATGATGAATGACTATGTGCATTGATTATGAGATATCCGA
GAAAGAATCGACAAGTTCCGATGTCTGAAAAGCCCCGTACGAACCTTAAGAATAGTTAGGATACA
TATGTCCTGACATAGGATTT
Found at i:15224199 original size:44 final size:44
Alignment explanation
Indices: 15224135--15224307 Score: 209
Period size: 43 Copynumber: 4.0 Consensus size: 44
15224125 CATAGGATTT
* *
15224135 TCGATATGTGATAT-CGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
15224178 TCGAT-TTGGTATTTACGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATTTG-ATTTACGTGTAAGACCACGTCTGGGACGTTGGCA
15224222 TC-ATATTTGATTT-CGTGTAAGACCTTAC--CTGGGACAG-TGGCA
1 TCGATATTTGATTTACGTGTAAGACC--ACGTCTGGGAC-GTTGGCA
* *
15224264 TCGATATTTGA-TTACATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATTTGATTTACGTGTAAGACCACGTCTGGGACGTTGGCA
15224307 T
1 T
15224308 TGTACGAGCT
Statistics
Matches: 113, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
41 2 0.02
42 30 0.27
43 45 0.40
44 36 0.32
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (44 bp):
TCGATATTTGATTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:15224285 original size:43 final size:42
Alignment explanation
Indices: 15224164--15224288 Score: 123
Period size: 42 Copynumber: 2.9 Consensus size: 42
15224154 AAGACCACGT
* *
15224164 CTGGGACGTTGGCATCGAT-TTGGTATTTACGTGTAAGACC--AC
1 CTGGGACGTTGGCATC-ATATTTG-A-TTACATGTAAGACCTTAC
* *
15224206 GTCTGGGACGTTGGCATCATATTTGATTTCGTGTAAGACCTTAC
1 --CTGGGACGTTGGCATCATATTTGATTACATGTAAGACCTTAC
15224250 CTGGGACAG-TGGCATCGATATTTGATTACATGTAAGACC
1 CTGGGAC-GTTGGCATC-ATATTTGATTACATGTAAGACC
15224289 ACGTCTAGGA
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
42 27 0.38
43 24 0.33
44 21 0.29
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
CTGGGACGTTGGCATCATATTTGATTACATGTAAGACCTTAC
Found at i:15225595 original size:8 final size:8
Alignment explanation
Indices: 15225553--15225577 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15225543 ATATAGACTA
15225553 AATAAAAT
1 AATAAAAT
15225561 AATAAAAT
1 AATAAAAT
15225569 AATAAAAT
1 AATAAAAT
15225577 A
1 A
15225578 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:15225600 original size:29 final size:31
Alignment explanation
Indices: 15225550--15225622 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 31
15225540 TATATATAGA
*
15225550 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* * *
15225579 CTTATTAAAATATTAAATTAATAATAATTAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
15225610 CTAATT-AAATAAT
1 CTAATTAAAATAAT
15225623 TATAAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 20 0.56
30 8 0.22
31 8 0.22
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:15225633 original size:23 final size:23
Alignment explanation
Indices: 15225590--15225633 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
15225580 TTATTAAAAT
*
15225590 ATTAAATTAATAATAATTATCTA
1 ATTAAATTAATAATAAATATCTA
*
15225613 ATTAAA-TAATTATAAAATATC
1 ATTAAATTAATAAT-AAATATC
15225634 ATCAACATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTAAATTAATAATAAATATCTA
Found at i:15228754 original size:20 final size:20
Alignment explanation
Indices: 15228725--15228762 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15228715 TGATAAATTA
* *
15228725 ATACATATGTATTAATAAAT
1 ATACACATGTATAAATAAAT
15228745 ATACACATGTATAAATAA
1 ATACACATGTATAAATAA
15228763 TAAATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
ATACACATGTATAAATAAAT
Found at i:15228806 original size:13 final size:12
Alignment explanation
Indices: 15228788--15228819 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
15228778 TTTAATAATA
15228788 AAATAAAGAAAT
1 AAATAAAGAAAT
15228800 GAAATAAAGAAAT
1 -AAATAAAGAAAT
15228813 AAATAAA
1 AAATAAA
15228820 ATAAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (12 bp):
AAATAAAGAAAT
Found at i:15228884 original size:13 final size:13
Alignment explanation
Indices: 15228862--15228895 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
15228852 CGAAACAGAG
*
15228862 AAGAACAGGGGAGA
1 AAGAA-AGGGAAGA
15228876 AAGAAAGGGAAGA
1 AAGAAAGGGAAGA
15228889 AAGAAAG
1 AAGAAAG
15228896 AAAGGGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.03, G:0.38, T:0.00
Consensus pattern (13 bp):
AAGAAAGGGAAGA
Found at i:15228908 original size:17 final size:17
Alignment explanation
Indices: 15228873--15228906 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15228863 AGAACAGGGG
15228873 AGAAAGAAAGGGAAGAA
1 AGAAAGAAAGGGAAGAA
15228890 AGAAAGAAAGGG-AGAA
1 AGAAAGAAAGGGAAGAA
15228906 A
1 A
15228907 AGGGAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGGGAAGAA
Found at i:15230212 original size:5 final size:5
Alignment explanation
Indices: 15230197--15230238 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
15230187 AGTGGAAAAG
* *
15230197 TGAATT TGAAT TGAAT TGAAT TGAAT TAAAT TGAAT GGAAT T
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT T
15230239 ATGATTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (5 bp):
TGAAT
Found at i:15230711 original size:45 final size:45
Alignment explanation
Indices: 15230647--15230886 Score: 311
Period size: 45 Copynumber: 5.3 Consensus size: 45
15230637 CTGTTAACGC
* *
15230647 TACTGCTACTGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
* ** *
15230692 TACTGCTATTGTTACCGATTCGACACTTTGTGTGTCGAGTATTGT
1 TACTGTTACCGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
* * * *
15230737 TATTGTTACCGTTATCGATTCGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
** *
15230782 TACTGTTACCGTTACCGATTCGGTACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
* *
15230827 TACTGTTACCGTTACCGATTC-AGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACCGTTACCGATTCGA-CACTTTGTGTGTCGAATATTGT
* *
15230872 TATTGTTACTGTTAC
1 TACTGTTACCGTTAC
15230887 TATTCCAGAT
Statistics
Matches: 174, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 174 1.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGACACTTTGTGTGTCGAATATTGT
Found at i:15231085 original size:18 final size:18
Alignment explanation
Indices: 15231064--15231256 Score: 137
Period size: 18 Copynumber: 10.7 Consensus size: 18
15231054 AATAACTTAT
15231064 TATTACTGAATAATTGAC
1 TATTACTGAATAATTGAC
* *
15231082 TATTACCGGATAATTGAC
1 TATTACTGAATAATTGAC
* *
15231100 TGTTACTGGAT-ATTAGAC
1 TATTACTGAATAATT-GAC
* * *
15231118 TGTTACTGAATAACTGAA
1 TATTACTGAATAATTGAC
15231136 TATTACTGAATAATTGA-
1 TATTACTGAATAATTGAC
*
15231153 TCATTACTGAATAATTGAT
1 T-ATTACTGAATAATTGAC
* *
15231172 TGTCACTGAATGAA-TGAC
1 TATTACTGAAT-AATTGAC
** *
15231190 TGCTACTGAATAACTT-AA
1 TATTACTGAATAA-TTGAC
15231208 TAGTTACTGAAT-ATCTGA-
1 TA-TTACTGAATAAT-TGAC
* *
15231226 TTTTACTGAGTAATTGAC
1 TATTACTGAATAATTGAC
* *
15231244 TGTTACTGGATAA
1 TATTACTGAATAA
15231257 CCGATCAATT
Statistics
Matches: 141, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
17 18 0.13
18 108 0.77
19 15 0.11
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TATTACTGAATAATTGAC
Found at i:15231145 original size:72 final size:70
Alignment explanation
Indices: 15231054--15231256 Score: 230
Period size: 72 Copynumber: 2.8 Consensus size: 70
15231044 AAAGGTATAA
* *
15231054 AATAACTTATTATTACTGAATAATTGACTATTACCGGATAATTGACTGTTACTGGATATTAGACT
1 AATAACTTAATATTACTGAATAATTGA-TATTACCGGATAATTGACTGTTACTGGATAAT-GACT
*
15231119 GTTACTG
64 GCTACTG
* * * * * *
15231126 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTCACTGAATGAATGACT
1 AATAACTTAATATTACTGAATAATTGAT-ATTACCGGATAATTGACTGTTACTGGAT-AATGACT
15231191 GCTACTG
64 GCTACTG
* *
15231198 AATAACTTAATAGTTACTGAAT-ATCTGATTTTA-CTGAGTAATTGACTGTTACTGGATAA
1 AATAACTTAATA-TTACTGAATAAT-TGATATTACCGGA-TAATTGACTGTTACTGGATAA
15231257 CCGATCAATT
Statistics
Matches: 109, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
71 4 0.04
72 90 0.83
73 15 0.14
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (70 bp):
AATAACTTAATATTACTGAATAATTGATATTACCGGATAATTGACTGTTACTGGATAATGACTGC
TACTG
Found at i:15231316 original size:18 final size:18
Alignment explanation
Indices: 15231295--15231336 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15231285 GGTTATTATT
* *
15231295 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
*
15231313 GAATAACTGACTGTTACT
1 GAATAACTGACTGTTACC
15231331 GAATAA
1 GAATAA
15231337 ATAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:15231334 original size:36 final size:36
Alignment explanation
Indices: 15231066--15231336 Score: 154
Period size: 36 Copynumber: 7.3 Consensus size: 36
15231056 TAACTTATTA
* * * * *
15231066 TTACTGAATAATTGACTATTACCGGATAATTGACTG
1 TTACTGAATAATTGATTGTTACTGAATAACTGACTG
* * * *
15231102 TTACTGGAT-ATTAGACTGTTACTGAATAACTGAATA
1 TTACTGAATAATT-GATTGTTACTGAATAACTGACTG
** * *
15231138 TTACTGAATAATTGATCATTACTGAATAATTGATTG
1 TTACTGAATAATTGATTGTTACTGAATAACTGACTG
* * * * *
15231174 TCACTGAATGAA-TGACTGCTACTGAATAACTTAATAG
1 TTACTGAAT-AATTGATTGTTACTGAATAACTGACT-G
* *
15231211 TTACTGAAT-ATCTGATT-TTACTGAGTAATTGACTG
1 TTACTGAATAAT-TGATTGTTACTGAATAACTGACTG
* * * ** *
15231246 TTACTGGATAACCGATCAATTGATCGATATTGAATAACTGGTTA
1 TTACT-G---A---AT-AATTGATTGTTACTGAATAACTGACTG
* *
15231290 TTATTGAATAATTGATTGTTACCGAATAACTGACTG
1 TTACTGAATAATTGATTGTTACTGAATAACTGACTG
15231326 TTACTGAATAA
1 TTACTGAATAA
15231337 ATAATTATTC
Statistics
Matches: 173, Mismatches: 46, Indels: 32
0.69 0.18 0.13
Matches are distributed among these distances:
35 10 0.06
36 117 0.68
37 20 0.12
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 17 0.10
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (36 bp):
TTACTGAATAATTGATTGTTACTGAATAACTGACTG
Found at i:15232883 original size:17 final size:18
Alignment explanation
Indices: 15232838--15232885 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
15232828 TAATTGACAC
* *
15232838 AATATATTAATAATTAATT
1 AATATTTTAA-AATTAATA
*
15232857 AATTTTTTAAAATTAA-A
1 AATATTTTAAAATTAATA
15232874 AATATTTTAAAA
1 AATATTTTAAAA
15232886 AATAATTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 11 0.44
18 6 0.24
19 8 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AATATTTTAAAATTAATA
Found at i:15232932 original size:17 final size:17
Alignment explanation
Indices: 15232896--15232930 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15232886 AATAATTTTG
*
15232896 TTATAGTTGTTATAATT
1 TTATAATTGTTATAATT
15232913 TTATAATTGTT-TAATT
1 TTATAATTGTTATAATT
15232929 TT
1 TT
15232931 TAGAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (17 bp):
TTATAATTGTTATAATT
Found at i:15233583 original size:15 final size:15
Alignment explanation
Indices: 15233563--15233593 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15233553 ATGACTTAAG
15233563 ATAATATTTGAAACA
1 ATAATATTTGAAACA
15233578 ATAATATTTGAAACA
1 ATAATATTTGAAACA
15233593 A
1 A
15233594 GATAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATATTTGAAACA
Found at i:15234494 original size:3 final size:3
Alignment explanation
Indices: 15234486--15234532 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
15234476 AAATACATAT
15234486 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
15234533 CTCAAGCAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:15238166 original size:15 final size:16
Alignment explanation
Indices: 15238146--15238177 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15238136 TCTAAAAATT
15238146 AAAAAAA-TATTTTTA
1 AAAAAAATTATTTTTA
15238161 AAAAAAATTATTTTTA
1 AAAAAAATTATTTTTA
15238177 A
1 A
15238178 CCCTTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAAAAATTATTTTTA
Found at i:15244498 original size:27 final size:29
Alignment explanation
Indices: 15244468--15244532 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
15244458 AAAATCTAAA
*
15244468 CAAAATAATT-ATTTAAT-AAAAAAAT-AT
1 CAAAATAATTCA-ATAATAAAAAAAATCAT
**
15244495 CAAAATTTTTCAATAATAAAAAAAATCAT
1 CAAAATAATTCAATAATAAAAAAAATCAT
15244524 CAAAATAAT
1 CAAAATAAT
15244533 CCCCCTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
27 12 0.40
28 9 0.30
29 9 0.30
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (29 bp):
CAAAATAATTCAATAATAAAAAAAATCAT
Found at i:15244877 original size:37 final size:37
Alignment explanation
Indices: 15244836--15244906 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
15244826 TTCTTTTGAA
*
15244836 CATTTTCGTACACATGTCAAAAAACCATATACTTATT
1 CATTTTCGTACACATATCAAAAAACCATATACTTATT
* *
15244873 CATTTTCGTTCACATATCAAATAACCATATACTT
1 CATTTTCGTACACATATCAAAAAACCATATACTT
15244907 GTAATTTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.37
Consensus pattern (37 bp):
CATTTTCGTACACATATCAAAAAACCATATACTTATT
Done.