Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 119 of 207
Found at i:36034632 original size:18 final size:17
Alignment explanation
Indices: 36034611--36034689 Score: 86
Period size: 18 Copynumber: 4.4 Consensus size: 17
36034601 CGAAGAGGAA
36034611 GAAAAAGAAAAAGAAAGT
1 GAAAAAGAAAAAGAAA-T
*
36034629 GAAAAAGAAATAGAAAAT
1 GAAAAAGAAAAAG-AAAT
36034647 GAAAAAGAAAAAGAAATT
1 GAAAAAGAAAAAGAAA-T
* **
36034665 GCAAGCGAAAAAGAAAT
1 GAAAAAGAAAAAGAAAT
36034682 CGAAAAAG
1 -GAAAAAG
36034690 TGAGAGAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.08
18 43 0.86
19 3 0.06
ACGTcount: A:0.68, C:0.04, G:0.20, T:0.08
Consensus pattern (17 bp):
GAAAAAGAAAAAGAAAT
Found at i:36034674 original size:24 final size:24
Alignment explanation
Indices: 36034609--36034680 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
36034599 AACGAAGAGG
* * **
36034609 AAGAAAAAGAAAAAGAAAGTGAAA
1 AAGAAATAGAAAACGAAAAAGAAA
*
36034633 AAGAAATAGAAAATGAAAAAGAAA
1 AAGAAATAGAAAACGAAAAAGAAA
* * *
36034657 AAGAAATTGCAAGCGAAAAAGAAA
1 AAGAAATAGAAAACGAAAAAGAAA
36034681 TCGAAAAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.07
Consensus pattern (24 bp):
AAGAAATAGAAAACGAAAAAGAAA
Found at i:36034680 original size:6 final size:6
Alignment explanation
Indices: 36034609--36034662 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
36034599 AACGAAGAGG
** * *
36034609 AAGAAA AAGAAA AAGAAA GTGAAA AAGAAA TAGAAA ATGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
36034657 AAGAAA
1 AAGAAA
36034663 TTGCAAGCGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.06
Consensus pattern (6 bp):
AAGAAA
Found at i:36036636 original size:34 final size:34
Alignment explanation
Indices: 36036592--36036667 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
36036582 GAGTTAGTTC
*
36036592 ATTAACTTTAGTTCAGCTCAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
*
36036626 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
36036660 ATTAATTT
1 ATTAATTT
36036668 GTTTAAATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (34 bp):
ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:36039699 original size:26 final size:27
Alignment explanation
Indices: 36039670--36039726 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
36039660 TAAAACGGTA
36039670 ATTTTACCCTTAG-GGGTATTTTGGTC
1 ATTTTACCCTTAGAGGGTATTTTGGTC
*
36039696 ATTTTACCCTTTGAGGGTATTTTGGTC
1 ATTTTACCCTTAGAGGGTATTTTGGTC
36039723 ATTT
1 ATTT
36039727 AACAACATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.16, C:0.14, G:0.21, T:0.49
Consensus pattern (27 bp):
ATTTTACCCTTAGAGGGTATTTTGGTC
Found at i:36050955 original size:27 final size:30
Alignment explanation
Indices: 36050884--36050955 Score: 78
Period size: 33 Copynumber: 2.4 Consensus size: 30
36050874 ATCCAGATTT
36050884 TATATTAAATAAATGTTATTAACAATAACAA
1 TATATTAAA-AAATGTTATTAACAATAACAA
*
36050915 TATTTAGTTTAAAAATGTTATTAACAATAA-AA
1 TA--TA-TTAAAAAATGTTATTAACAATAACAA
36050947 -A-ATTAAAAA
1 TATATTAAAAA
36050956 TAAACTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
27 6 0.17
28 1 0.03
31 3 0.08
32 2 0.06
33 20 0.56
34 4 0.11
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (30 bp):
TATATTAAAAAATGTTATTAACAATAACAA
Found at i:36061022 original size:11 final size:11
Alignment explanation
Indices: 36061006--36061030 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36060996 TATTTCAGAT
36061006 TTAATTAATTA
1 TTAATTAATTA
36061017 TTAATTAATTA
1 TTAATTAATTA
36061028 TTA
1 TTA
36061031 CAAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATTAATTA
Found at i:36061917 original size:27 final size:28
Alignment explanation
Indices: 36061887--36061948 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
36061877 ATAATAATAA
*
36061887 TTTTATATTAATG-TGTATGA-TTTAGGG
1 TTTTATATTAATGTTGT-TAATTTTAGGG
36061914 TTTTATATTAATGTTGTTAATTTTAGGG
1 TTTTATATTAATGTTGTTAATTTTAGGG
36061942 TTTTATA
1 TTTTATA
36061949 AATTTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 15 0.47
28 17 0.53
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (28 bp):
TTTTATATTAATGTTGTTAATTTTAGGG
Found at i:36071408 original size:74 final size:74
Alignment explanation
Indices: 36071315--36071462 Score: 233
Period size: 74 Copynumber: 2.0 Consensus size: 74
36071305 ATTAATTAAA
* * *
36071315 CTTAATAAGTTTTGTGTGTTAAAATGTGTTTTAATGTGTTTGTTAATAACTGCTTGCAGGTGACT
1 CTTAATAAGTTTAGTGTGTTAAAATGTGTTTTAATGTGTTTGTTAATAAATGCTTCCAGGTGACT
36071380 ATTTAGTTG
66 ATTTAGTTG
* * *
36071389 CTTATTAAGTTTAGTGTGTTTAAATGTGTTTTAATGTGTTTGTTAATAAATGCTTCCAGGTGATT
1 CTTAATAAGTTTAGTGTGTTAAAATGTGTTTTAATGTGTTTGTTAATAAATGCTTCCAGGTGACT
*
36071454 ATTTGGTTG
66 ATTTAGTTG
36071463 GAATCAGTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.49
Consensus pattern (74 bp):
CTTAATAAGTTTAGTGTGTTAAAATGTGTTTTAATGTGTTTGTTAATAAATGCTTCCAGGTGACT
ATTTAGTTG
Found at i:36071623 original size:24 final size:24
Alignment explanation
Indices: 36071542--36071623 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
36071532 AAGGGGCTGT
* * *
36071542 TACATCAATTAAAGGACAGCATTA
1 TACATCATTTAAAGGAAATCATTA
* **
36071566 TACATCATTTAAAGG-AGTTGTTA
1 TACATCATTTAAAGGAAATCATTA
36071589 T--ATCATTTAAAGGAAATCATTA
1 TACATCATTTAAAGGAAATCATTA
*
36071611 TACATCCTTTAAA
1 TACATCATTTAAA
36071624 ATTCGGCAAC
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
21 12 0.27
22 6 0.13
23 4 0.09
24 23 0.51
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (24 bp):
TACATCATTTAAAGGAAATCATTA
Found at i:36077557 original size:50 final size:50
Alignment explanation
Indices: 36077477--36077661 Score: 163
Period size: 50 Copynumber: 3.6 Consensus size: 50
36077467 CAATGCCATA
* * * ** * *
36077477 TCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCAATG
1 TCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCAATG
* * * *
36077527 TCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCAATG
* * * *
36077577 TCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACAGGGGACCTCTCAT-A--TC---GGTGCCAACGCAATG
* *
36077633 TCCCAGACATGGTCTTACATGGGATCTCT
1 TCCCAGACATGGTCTTACAGGGGACCTCT
36077662 TTACCCAAAT
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
50 68 0.61
53 2 0.02
56 41 0.37
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCAATG
Found at i:36080361 original size:74 final size:74
Alignment explanation
Indices: 36080274--36080416 Score: 250
Period size: 74 Copynumber: 1.9 Consensus size: 74
36080264 ATTAATTAAA
*
36080274 CTTATTAAGTTTAGTGTGTTAAAAAGTGTTTTAATGTGTTTGTTAATACATGCTTGCAGATGACT
1 CTTATTAAGTTTAGTGTGTTAAAAAGTGTTTTAATGTGTTTGTTAATAAATGCTTGCAGATGACT
36080339 ATTTAGTTG
66 ATTTAGTTG
* * *
36080348 CTTATTAAGTTTAGTGTGTTAAAATGTGTTTTAGTGTGTTTGTTAATAAATGCTTGCAGGTGACT
1 CTTATTAAGTTTAGTGTGTTAAAAAGTGTTTTAATGTGTTTGTTAATAAATGCTTGCAGATGACT
36080413 ATTT
66 ATTT
36080417 GGCTGGAATC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (74 bp):
CTTATTAAGTTTAGTGTGTTAAAAAGTGTTTTAATGTGTTTGTTAATAAATGCTTGCAGATGACT
ATTTAGTTG
Found at i:36080582 original size:24 final size:23
Alignment explanation
Indices: 36080520--36080582 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 23
36080510 TAAATGAGAG
*
36080520 CATTATACATCATTTAAAGGAGC
1 CATTATACATCATTTAAAGGAAC
**
36080543 TGTTAT--ATCATTTAAAGGAAAC
1 CATTATACATCATTTAAAGG-AAC
*
36080565 CATTATACATCCTTTAAA
1 CATTATACATCATTTAAA
36080583 ATTCGGCAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 12 0.39
22 6 0.19
23 4 0.13
24 9 0.29
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (23 bp):
CATTATACATCATTTAAAGGAAC
Found at i:36092113 original size:52 final size:51
Alignment explanation
Indices: 36091982--36092113 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
36091972 ATGTGTTCTA
* * *
36091982 CATTTAATAAAGTCATGCATTATGTAACTCTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
* * *
36092033 CA-TAAATTATGACATGCATTATGCAACTCCCATGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTT-AAGTTTGCAT
* *
36092084 CATTAAATTAAGTTATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
36092114 ATTTGTTCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 32 0.47
51 14 0.21
52 22 0.32
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:36092299 original size:53 final size:53
Alignment explanation
Indices: 36092241--36092349 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
36092231 AGTTAAAGTG
*
36092241 TGTTTATTTTCATTTTAAATAAGGTGATTTAAGTTGCATGTTCAATTAATTAA
1 TGTTTATTTTCATTTTAAATAAGGAGATTTAAGTTGCATGTTCAATTAATTAA
36092294 TGTTTATTTTCATTTTAAATAAGGAGATTTAAGTTGCATGTTCAATTAATTAA
1 TGTTTATTTTCATTTTAAATAAGGAGATTTAAGTTGCATGTTCAATTAATTAA
36092347 TGT
1 TGT
36092350 GCATGAGTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.49
Consensus pattern (53 bp):
TGTTTATTTTCATTTTAAATAAGGAGATTTAAGTTGCATGTTCAATTAATTAA
Found at i:36092823 original size:59 final size:59
Alignment explanation
Indices: 36092731--36092887 Score: 305
Period size: 59 Copynumber: 2.7 Consensus size: 59
36092721 TTGGCTTCCC
*
36092731 TACAAGAGTTAAAAAAGAAATTAGTTCTTGTAATAATACTAGTTAATGGCTGAATATGA
1 TACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATAATACTAGTTAATGGCTGAATATGA
36092790 TACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATAATACTAGTTAATGGCTGAATATGA
1 TACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATAATACTAGTTAATGGCTGAATATGA
36092849 TACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATAATAC
1 TACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATAATAC
36092888 AAGAGTTAAC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 97 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (59 bp):
TACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATAATACTAGTTAATGGCTGAATATGA
Found at i:36092895 original size:36 final size:36
Alignment explanation
Indices: 36092848--36092923 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
36092838 GCTGAATATG
36092848 ATACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATA
1 ATACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATA
*
36092884 ATACAAGAGTTAACAAAGAAATTAGTGCTTGTAATA
1 ATACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATA
36092920 ATAC
1 ATAC
36092924 TAGTTAATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.28
Consensus pattern (36 bp):
ATACAAGAGTTAAAAAAGAAATTAGTGCTTGTAATA
Found at i:36095717 original size:12 final size:12
Alignment explanation
Indices: 36095692--36095730 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36095682 ACTCGCTTCT
* *
36095692 TTACTTACTCAC
1 TTACTTGCTTAC
*
36095704 TTACTTGTTTAC
1 TTACTTGCTTAC
36095716 TTACTTGCTTAC
1 TTACTTGCTTAC
36095728 TTA
1 TTA
36095731 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:36096053 original size:50 final size:50
Alignment explanation
Indices: 36095978--36096224 Score: 251
Period size: 50 Copynumber: 4.8 Consensus size: 50
36095968 TTTTCTGTAC
* * * * * **
36095978 TGCCAATGCCATATCCCAGATATGGTTTTACCTGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * ** * *
36096028 TGCCCATGCCATGTCTCAGACATGGTCTTACGGGGGACCTTTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
36096078 TGCCAACGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
36096128 TGCCAACGCCATGTCGCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
36096184 AGCCAATGCCATGTCCCAGACATCGTCTTACATGGGACCTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTC
36096225 ATTCCCTTAA
Statistics
Matches: 165, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 125 0.76
53 2 0.01
56 38 0.23
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:36096595 original size:30 final size:30
Alignment explanation
Indices: 36096561--36096619 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
36096551 TCCTTGACTC
36096561 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * *
36096591 AAACTTTTGCATAATTACACTTTTGCCCC
1 AAACTTTGGAAAAATTACAATTTTGCCCC
36096620 AAAGCTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:36102872 original size:15 final size:15
Alignment explanation
Indices: 36102801--36102872 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 15
36102791 TTTCAAAAAT
*
36102801 AAAAGAA-AGTGTGGA
1 AAAAGAAGAGAGT-GA
**
36102816 AAAAGAAGAGAGTTT
1 AAAAGAAGAGAGTGA
* * *
36102831 GAAA-ATGAGATTGA
1 AAAAGAAGAGAGTGA
36102845 AAAAGAA-ACGAGTGA
1 AAAAGAAGA-GAGTGA
36102860 AAAAGAAGAGAGT
1 AAAAGAAGAGAGT
36102873 ATTCAAACAA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
14 10 0.24
15 27 0.64
16 5 0.12
ACGTcount: A:0.56, C:0.01, G:0.29, T:0.14
Consensus pattern (15 bp):
AAAAGAAGAGAGTGA
Found at i:36107334 original size:14 final size:14
Alignment explanation
Indices: 36107315--36107341 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36107305 AATTTCTTTA
36107315 ATATTTTATTTAAG
1 ATATTTTATTTAAG
36107329 ATATTTTATTTAA
1 ATATTTTATTTAA
36107342 ATAAATAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
ATATTTTATTTAAG
Found at i:36116179 original size:40 final size:41
Alignment explanation
Indices: 36116119--36116199 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
36116109 TCGTGTTATA
* * *
36116119 CTTTCTGTTTGGCGTGTTTCGGGTGGACTAGCTCTTATGAG
1 CTTTCTGTTTGGCATATTTCGGGTGGACTAACTCTTATGAG
* *
36116160 CTTT-TGTTTGGCATATTTCGGTTGGATTAACTCTTATGAG
1 CTTTCTGTTTGGCATATTTCGGGTGGACTAACTCTTATGAG
36116200 GTTCTGTCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 31 0.89
41 4 0.11
ACGTcount: A:0.14, C:0.15, G:0.27, T:0.44
Consensus pattern (41 bp):
CTTTCTGTTTGGCATATTTCGGGTGGACTAACTCTTATGAG
Found at i:36120115 original size:22 final size:22
Alignment explanation
Indices: 36120089--36120133 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
36120079 AGATCAACAC
36120089 AAATAT-AATCGCATACATATCA
1 AAATATCAATCGCA-ACATATCA
*
36120111 AAATATCAATCTCAACATATCA
1 AAATATCAATCGCAACATATCA
36120133 A
1 A
36120134 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (22 bp):
AAATATCAATCGCAACATATCA
Found at i:36123753 original size:137 final size:138
Alignment explanation
Indices: 36123501--36123769 Score: 341
Period size: 137 Copynumber: 2.0 Consensus size: 138
36123491 AAAATAGGCC
* * *
36123501 TGCTCACACAACCTGTCGGTCAGAATGTAAGCTACACGATGCTGTTCACACAAGCTGTCAAGTAT
1 TGCTCACACAAACTGTCAGTCAGAATGTAAGCTACACGATGCTGCTCACACAAGCTGTCAAGTAT
* * * *
36123566 CCACAACTAATGTCGGACCTTAGCCATCGGTAGGATAGTCAAGACTAGCAC-CAAAAACATGGTA
66 CCACAACTAATGTCGGAACTCAGCCATCGGTAGGACAGTCAAGACCAGCACTC-AAAACATGGTA
36123630 ACCTGGGTT
130 ACCTGGGTT
* * * *
36123639 TGCTCACACAAACTGTCAGTCGGAATGT-AGCTACACGGTGCTGCTCACATAAGTTGTCAAGTAT
1 TGCTCACACAAACTGTCAGTCAGAATGTAAGCTACACGATGCTGCTCACACAAGCTGTCAAGTAT
* * *
36123703 -CAGCAAC-ACATG-CTGGAACTCAGCTATCGGTAGGACATTTAAGACCAGCACTCAAAACATGG
66 CCA-CAACTA-ATGTC-GGAACTCAGCCATCGGTAGGACAGTCAAGACCAGCACTCAAAACATGG
36123765 TAACC
128 TAACC
36123770 CTAATTACAT
Statistics
Matches: 113, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
136 4 0.04
137 83 0.73
138 26 0.23
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (138 bp):
TGCTCACACAAACTGTCAGTCAGAATGTAAGCTACACGATGCTGCTCACACAAGCTGTCAAGTAT
CCACAACTAATGTCGGAACTCAGCCATCGGTAGGACAGTCAAGACCAGCACTCAAAACATGGTAA
CCTGGGTT
Found at i:36132579 original size:13 final size:13
Alignment explanation
Indices: 36132561--36132586 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36132551 ACGTGTATAC
36132561 TTACACATTCACA
1 TTACACATTCACA
36132574 TTACACATTCACA
1 TTACACATTCACA
36132587 CACGTCAAGT
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:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
TTACACATTCACA
Found at i:36162217 original size:40 final size:40
Alignment explanation
Indices: 36162133--36162357 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
36162123 TTGAATGATG
* * * *
36162133 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
36162173 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36162213 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36162252 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36162292 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36162333 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36162358 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36162379 original size:119 final size:119
Alignment explanation
Indices: 36162133--36162390 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
36162123 TTGAATGATG
* *
36162133 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
36162198 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
36162252 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
36162315 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
36162372 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36162391 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:36171962 original size:25 final size:25
Alignment explanation
Indices: 36171934--36171983 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
36171924 GATTTGTGTG
36171934 ATTAAATTGTTTCAAACCTGACACC
1 ATTAAATTGTTTCAAACCTGACACC
*
36171959 ATTAAATTGTTTCAAGCCTGACACC
1 ATTAAATTGTTTCAAACCTGACACC
36171984 TCCCTATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (25 bp):
ATTAAATTGTTTCAAACCTGACACC
Found at i:36177669 original size:12 final size:12
Alignment explanation
Indices: 36177652--36177681 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36177642 TCAAGCTGTT
36177652 ACACGGCCTAGC
1 ACACGGCCTAGC
*
36177664 ACACGGCCTGGC
1 ACACGGCCTAGC
36177676 ACACGG
1 ACACGG
36177682 GCGTGTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:36193465 original size:100 final size:105
Alignment explanation
Indices: 36193287--36193533 Score: 351
Period size: 100 Copynumber: 2.4 Consensus size: 105
36193277 TGGTAAAAAC
** ** * *
36193287 ATGCCAAAACCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATG
*
36193352 TCCCAGACATGGTCTTACGGGGGACC-TC-TCATCTC-GG
66 TCCCAGACATGGTCTTACAGGGGACCATCATCATCTCAGG
36193389 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATG
* *
36193452 TCCCAGACATGGTCTTATAGGGGACCTATCATGATCTCAAGG
66 TCCCAGACATGGTCTTACAGGGGACC-ATCATCATCTC-AGG
*
36193494 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATC
36193534 TTTTTACCCA
Statistics
Matches: 128, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
100 46 0.36
101 35 0.27
102 2 0.02
103 6 0.05
105 2 0.02
106 36 0.28
107 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (105 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCATCATCATCTCAGG
Found at i:36193504 original size:56 final size:50
Alignment explanation
Indices: 36193296--36193531 Score: 292
Period size: 50 Copynumber: 4.6 Consensus size: 50
36193286 CATGCCAAAA
* ** * * *
36193296 CCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGGTGCCAATG
* *
36193347 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATG
* *
36193397 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATG
* *
36193447 CCATGTCCCAGACATGGTCTTATAGGGGACCTATCATGATCTCAAGGATGCCAATG
1 CCATGTCCCAGACATGGTCTTACAGGGGACC--TC-TCATCTC--GG-TGCCAATG
*
36193503 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACAGGGGA
36193532 TCTTTTTACC
Statistics
Matches: 161, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
50 90 0.56
51 27 0.17
52 2 0.01
53 6 0.04
55 2 0.01
56 34 0.21
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATG
Found at i:36200206 original size:50 final size:50
Alignment explanation
Indices: 36200091--36200328 Score: 251
Period size: 50 Copynumber: 4.6 Consensus size: 50
36200081 GGTAAAAACA
* * * * ** * *
36200091 TGCCAAAGCTATGTCCCACACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
*
36200142 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
36200192 TGCCAACGCCATGTCTCAGTCATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
36200242 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTATCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACC--TC-TCATCTC--GG
* *
36200297 ATGTCAATGCCATGTCCAAGACATGGTCTTAC
1 -TGCCAATGCCATGTCCCAGACATGGTCTTAC
36200329 GTGGGATCTC
Statistics
Matches: 156, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
50 87 0.56
51 32 0.21
52 2 0.01
53 6 0.04
55 2 0.01
56 27 0.17
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:36207225 original size:40 final size:39
Alignment explanation
Indices: 36207176--36207458 Score: 289
Period size: 40 Copynumber: 7.1 Consensus size: 39
36207166 ATCATCAGAT
* * * *
36207176 CAACCAAACACACCAAATAGAAGCTCATAAGAGTTCATC
1 CAACGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
* * *
36207215 CAATCGAAACACGCCAAACAAAAGCTCATAAGAGCTAATC
1 CAA-CGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
* * *
36207255 CAACCGAAAAACACCAAACAAAAGCTCATAAGAGCTAATC
1 CAA-CGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
* * * * * *
36207295 AAATTGAAACACACCAAATAAAATCTCATAATAGCTGATC
1 CAA-CGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
* *
36207335 CAACTAAA-ACACGACAAACAGAAGCTCATAAGAGTTGATC
1 CAACGAAACACAC--CAAACAGAAGCTCATAAGAGCTGATC
* *
36207375 CAACTGAAACACGCCAAACAGAAGCTCATAAGAGCTTATC
1 CAAC-GAAACACACCAAACAGAAGCTCATAAGAGCTGATC
** *
36207415 CAACTGAAACATGCCAAGCAGAAGCTCATAAGAGCTGATC
1 CAAC-GAAACACACCAAACAGAAGCTCATAAGAGCTGATC
36207455 CAAC
1 CAAC
36207459 CAAAACGCGT
Statistics
Matches: 207, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
38 4 0.02
39 6 0.03
40 191 0.92
41 3 0.01
42 3 0.01
ACGTcount: A:0.47, C:0.26, G:0.13, T:0.15
Consensus pattern (39 bp):
CAACGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
Found at i:36207394 original size:120 final size:120
Alignment explanation
Indices: 36207181--36207464 Score: 354
Period size: 120 Copynumber: 2.4 Consensus size: 120
36207171 CAGATCAACC
* * * *
36207181 AAACACACCAAATAGAAGCTCATAAGAGTTCATCCAA-TCGAAACACGCCAAACAAAAGCTCATA
1 AAACACACCAAATAGAAGCTCATAAGAGCTGATCCAACT-AAAACACGACAAACAAAAGCTCATA
*
36207245 AGAGCTAATCCAACCGAAAAACACCAAACAAAAGCTCATAAGAGCTAATCAAATTG
65 AGAGCTAATCCAACCGAAAAACACCAAACAAAAGCTCATAAGAGCTAATCAAACTG
* * * *
36207301 AAACACACCAAATAAAATCTCATAATAGCTGATCCAACTAAAACACGACAAACAGAAGCTCATAA
1 AAACACACCAAATAGAAGCTCATAAGAGCTGATCCAACTAAAACACGACAAACAAAAGCTCATAA
* * * * * * * *
36207366 GAGTTGATCCAACTGAAACACGCCAAACAGAAGCTCATAAGAGCTTATCCAACTG
66 GAGCTAATCCAACCGAAAAACACCAAACAAAAGCTCATAAGAGCTAATCAAACTG
** ** *
36207421 AAACATGCCAAGCAGAAGCTCATAAGAGCTGATCCAACCAAAAC
1 AAACACACCAAATAGAAGCTCATAAGAGCTGATCCAACTAAAAC
36207465 GCGTCGAATA
Statistics
Matches: 138, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
120 137 0.99
121 1 0.01
ACGTcount: A:0.47, C:0.25, G:0.13, T:0.15
Consensus pattern (120 bp):
AAACACACCAAATAGAAGCTCATAAGAGCTGATCCAACTAAAACACGACAAACAAAAGCTCATAA
GAGCTAATCCAACCGAAAAACACCAAACAAAAGCTCATAAGAGCTAATCAAACTG
Found at i:36207458 original size:80 final size:80
Alignment explanation
Indices: 36207181--36207458 Score: 333
Period size: 80 Copynumber: 3.5 Consensus size: 80
36207171 CAGATCAACC
* * * *
36207181 AAACACACCAAATAGAAGCTCATAAGAGTTCATCCAA-TCGAAACACGCCAAACAAAAGCTCATA
1 AAACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACT-GAAACACGCCAAACAAAAGCTCATA
*
36207245 AGAGCTAATCCAACCG
65 AGAGCTAATCCAACTG
* * * * * * * * *
36207261 AAAAACACCAAACAAAAGCTCATAAGAGCTAATCAAATTGAAACACACCAAATAAAATCTCATAA
1 AAACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACTGAAACACGCCAAACAAAAGCTCATAA
* * *
36207326 TAGCTGATCCAACTA
66 GAGCTAATCCAACTG
* * *
36207341 AAACACGACAAACAGAAGCTCATAAGAGTTGATCCAACTGAAACACGCCAAACAGAAGCTCATAA
1 AAACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACTGAAACACGCCAAACAAAAGCTCATAA
*
36207406 GAGCTTATCCAACTG
66 GAGCTAATCCAACTG
* *
36207421 AAACATGCCAAGCAGAAGCTCATAAGAGCTGATCCAAC
1 AAACACGCCAAACAGAAGCTCATAAGAGCTGATCCAAC
36207459 CAAAACGCGT
Statistics
Matches: 165, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
80 164 0.99
81 1 0.01
ACGTcount: A:0.47, C:0.25, G:0.13, T:0.15
Consensus pattern (80 bp):
AAACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACTGAAACACGCCAAACAAAAGCTCATAA
GAGCTAATCCAACTG
Found at i:36208419 original size:21 final size:21
Alignment explanation
Indices: 36208395--36208437 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
36208385 GAAGTTAAAA
**
36208395 TGTTTTAATTTCACTTTAATT
1 TGTTTTAATTTCAAATTAATT
36208416 TGTTTTAATTTCAAATTAATT
1 TGTTTTAATTTCAAATTAATT
36208437 T
1 T
36208438 CAAAATTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (21 bp):
TGTTTTAATTTCAAATTAATT
Found at i:36210624 original size:16 final size:16
Alignment explanation
Indices: 36210603--36210664 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
36210593 CATATTTTTT
36210603 ACTTTTTGGCTTTTCA
1 ACTTTTTGGCTTTTCA
* * *
36210619 ATTTTTTGACTTTTTA
1 ACTTTTTGGCTTTTCA
36210635 ACTTTTTGGCTTTTCA
1 ACTTTTTGGCTTTTCA
* *
36210651 GCTTTTCGGCTTTT
1 ACTTTTTGGCTTTT
36210665 TTCGATTCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.60
Consensus pattern (16 bp):
ACTTTTTGGCTTTTCA
Found at i:36210639 original size:24 final size:23
Alignment explanation
Indices: 36210596--36210640 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
36210586 TAATTTCCAT
**
36210596 ATTTTTTACTTTTTGGCTTTTCA
1 ATTTTTTACTTTTTAACTTTTCA
36210619 ATTTTTTGACTTTTTAACTTTT
1 ATTTTTT-ACTTTTTAACTTTT
36210641 TGGCTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.16, C:0.11, G:0.07, T:0.67
Consensus pattern (23 bp):
ATTTTTTACTTTTTAACTTTTCA
Found at i:36210664 original size:32 final size:32
Alignment explanation
Indices: 36210597--36210665 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
36210587 AATTTCCATA
* * *
36210597 TTTTTTACTTTTTGGCTTTTCAATTTTTTGAC
1 TTTTTAACTTTTTGGCTTTTCAACTTTTCGAC
* *
36210629 TTTTTAACTTTTTGGCTTTTCAGCTTTTCGGC
1 TTTTTAACTTTTTGGCTTTTCAACTTTTCGAC
36210661 TTTTT
1 TTTTT
36210666 TCGATTCACA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.10, C:0.14, G:0.12, T:0.64
Consensus pattern (32 bp):
TTTTTAACTTTTTGGCTTTTCAACTTTTCGAC
Found at i:36214323 original size:8 final size:8
Alignment explanation
Indices: 36214309--36214347 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
36214299 CGTATTTCTT
36214309 GCTTTTTG
1 GCTTTTTG
*
36214317 ACTTTTTG
1 GCTTTTTG
36214325 GCTTTTTG
1 GCTTTTTG
*
36214333 GCTTTTCG
1 GCTTTTTG
36214341 GCTTTTT
1 GCTTTTT
36214348 CCGATTCACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.03, C:0.15, G:0.21, T:0.62
Consensus pattern (8 bp):
GCTTTTTG
Found at i:36219155 original size:20 final size:20
Alignment explanation
Indices: 36219095--36219191 Score: 65
Period size: 21 Copynumber: 4.8 Consensus size: 20
36219085 CATACCCTTA
*
36219095 CTTGTACTTCGGTACCCCTG
1 CTTGTACTTCAGTACCCCTG
* * *
36219115 CATTGAACAT-ACGTGCCCCTG
1 C-TTGTACTTCA-GTACCCCTG
36219136 CTTGTACTTCAGTACCCCTG
1 CTTGTACTTCAGTACCCCTG
* * *
36219156 AATT-TCACAT-ATGTGCCCCTG
1 -CTTGT-ACTTCA-GTACCCCTG
36219177 CTTGTACTTCAGTAC
1 CTTGTACTTCAGTAC
36219192 TGCTGAATTT
Statistics
Matches: 56, Mismatches: 13, Indels: 16
0.66 0.15 0.19
Matches are distributed among these distances:
20 25 0.45
21 31 0.55
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.33
Consensus pattern (20 bp):
CTTGTACTTCAGTACCCCTG
Found at i:36219313 original size:41 final size:41
Alignment explanation
Indices: 36219096--36219302 Score: 261
Period size: 41 Copynumber: 5.0 Consensus size: 41
36219086 ATACCCTTAC
* * * *
36219096 TTGTACTTCGGTACCCCTGCATTGAACATACGTGCCCCTGC
1 TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
* * *
36219137 TTGTACTTCAGTACCCCTGAATTTCACATATGTGCCCCTGC
1 TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
** *
36219178 TTGTACTTCAGTACTGCTGAATTTCACATACGTGCCCCTGT
1 TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
* * * * *
36219219 TTGTACTTCAGTAGCCTTGAAATGCACATGCGTTCCCCTGT
1 TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
* *
36219260 TTGTACTTCAGTACCCCTAAATTGCACATACGTGCCCTTGT
1 TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
36219301 TT
1 TT
36219303 ACACTCCAGT
Statistics
Matches: 142, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 142 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.34
Consensus pattern (41 bp):
TTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTGT
Found at i:36225795 original size:30 final size:30
Alignment explanation
Indices: 36225753--36225868 Score: 160
Period size: 30 Copynumber: 3.9 Consensus size: 30
36225743 AAAATCAGTC
* * * *
36225753 TGGGCCTAAGCCCTATACAGTAGCAGTGTG
1 TGGGCCTTAGCCCAATACAGTAACAGAGTG
* *
36225783 TAGGCCATAGCCCAATACAGTAACAGAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGAGTG
* *
36225813 TGGGCCTTAGCCCAATATAGTAACAAAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGAGTG
36225843 TGGGCCTTAGCCCAATACAGTAACAG
1 TGGGCCTTAGCCCAATACAGTAACAG
36225869 TGCAAATGTA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 74 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (30 bp):
TGGGCCTTAGCCCAATACAGTAACAGAGTG
Found at i:36226017 original size:26 final size:26
Alignment explanation
Indices: 36225988--36226103 Score: 115
Period size: 26 Copynumber: 4.5 Consensus size: 26
36225978 CAGCAATATG
*
36225988 CCAGTAACAGTAATGCAGCAGAGCTG
1 CCAGTAACAGTAATGCAGCAGAGCTA
* ** * *
36226014 CCAGTAATAGTAACACAACAAAGCTA
1 CCAGTAACAGTAATGCAGCAGAGCTA
*
36226040 CCAGTAAAAGTAATGCAGCAGAGCTA
1 CCAGTAACAGTAATGCAGCAGAGCTA
* *** * *
36226066 CCAGTATCAGTAACATAACAAAGCTA
1 CCAGTAACAGTAATGCAGCAGAGCTA
36226092 CCAGTAACAGTA
1 CCAGTAACAGTA
36226104 TTTGTGGCAA
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.16
Consensus pattern (26 bp):
CCAGTAACAGTAATGCAGCAGAGCTA
Found at i:36226070 original size:52 final size:52
Alignment explanation
Indices: 36225988--36226103 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
36225978 CAGCAATATG
*
36225988 CCAGTAACAGTAATGCAGCAGAGCTGCCAGTAAT-AGTAACACAACAAAGCTA
1 CCAGTAACAGTAATGCAGCAGAGCTACCAGT-ATCAGTAACACAACAAAGCTA
* *
36226040 CCAGTAAAAGTAATGCAGCAGAGCTACCAGTATCAGTAACATAACAAAGCTA
1 CCAGTAACAGTAATGCAGCAGAGCTACCAGTATCAGTAACACAACAAAGCTA
36226092 CCAGTAACAGTA
1 CCAGTAACAGTA
36226104 TTTGTGGCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 2 0.03
52 57 0.97
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.16
Consensus pattern (52 bp):
CCAGTAACAGTAATGCAGCAGAGCTACCAGTATCAGTAACACAACAAAGCTA
Found at i:36226360 original size:27 final size:27
Alignment explanation
Indices: 36226330--36226408 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
36226320 GGTAATTTTC
*
36226330 TGTTTCAGTAATTTTACCCATCGAGGG
1 TGTTTTAGTAATTTTACCCATCGAGGG
* *
36226357 TGTTTTAGTAATATTACCCAT-TAGGG
1 TGTTTTAGTAATTTTACCCATCGAGGG
* * *
36226383 TATTTTGGTAATTTTACCTATCGAGG
1 TGTTTTAGTAATTTTACCCATCGAGG
36226409 TGCATTCGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (27 bp):
TGTTTTAGTAATTTTACCCATCGAGGG
Found at i:36226393 original size:26 final size:27
Alignment explanation
Indices: 36226336--36226408 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 27
36226326 TTTCTGTTTC
*
36226336 AGTAATTTTACCCATCGAGGGTGTTTT
1 AGTAATTTTACCCATCGAGGGTATTTT
* *
36226363 AGTAATATTACCCAT-TAGGGTATTTT
1 AGTAATTTTACCCATCGAGGGTATTTT
* *
36226389 GGTAATTTTACCTATCGAGG
1 AGTAATTTTACCCATCGAGG
36226409 TGCATTCGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 21 0.55
27 17 0.45
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (27 bp):
AGTAATTTTACCCATCGAGGGTATTTT
Found at i:36227659 original size:21 final size:21
Alignment explanation
Indices: 36227633--36227675 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
36227623 CTTATAGTTA
36227633 ATTAACCACTAAATTGCACAT
1 ATTAACCACTAAATTGCACAT
36227654 ATTAACCACTAAATTGCACAT
1 ATTAACCACTAAATTGCACAT
36227675 A
1 A
36227676 CGTGTGCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (21 bp):
ATTAACCACTAAATTGCACAT
Found at i:36227738 original size:41 final size:41
Alignment explanation
Indices: 36227662--36227931 Score: 299
Period size: 41 Copynumber: 6.6 Consensus size: 41
36227652 ATATTAACCA
*
36227662 CTAAATTGCACATACGTGTGCCCCTGTTTGTACTTCGGTACCC
1 CTAAATTGCACATAC--GTGCCCCTATTTGTACTTCGGTACCC
* * **
36227705 CTGAATTGCACACACGTGCCCCTATTTACACTTCGGTACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * * * ** *
36227746 CTGAATTACACATACATGCCCCTGTTTGTACTTTAGTATCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * *
36227787 CTAAATTGAACATACGTGCCACTATTTGTACTTTGGTACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * *
36227828 CTAAATTGCACATATGTG-CCCTTTTTGTACTTTGGTACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * * *
36227868 CTAAATTCCACATATGTGCCACTATTTGTACTTCGATACCC
1 CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* *
36227909 CTGAATAGCACATACGTGCCCCT
1 CTAAATTGCACATACGTGCCCCT
36227932 GTTTACACTC
Statistics
Matches: 190, Mismatches: 36, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
40 37 0.19
41 140 0.74
43 13 0.07
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (41 bp):
CTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
Found at i:36227755 original size:21 final size:21
Alignment explanation
Indices: 36227693--36227756 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
36227683 CCCTGTTTGT
36227693 ACTTCGGTACCCCTGAATTGCAC
1 ACTTCGGTACCCCTGAATT--AC
* * *
36227716 AC-AC-GTGCCCCT-ATTTAC
1 ACTTCGGTACCCCTGAATTAC
36227734 ACTTCGGTACCCCTGAATTAC
1 ACTTCGGTACCCCTGAATTAC
36227755 AC
1 AC
36227757 ATACATGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 10 0.31
21 14 0.44
22 1 0.03
23 2 0.06
ACGTcount: A:0.23, C:0.36, G:0.14, T:0.27
Consensus pattern (21 bp):
ACTTCGGTACCCCTGAATTAC
Found at i:36227888 original size:81 final size:82
Alignment explanation
Indices: 36227662--36227935 Score: 343
Period size: 82 Copynumber: 3.3 Consensus size: 82
36227652 ATATTAACCA
* * * *
36227662 CTAAATTGCACATACGTGTGCCCCTGTTTGTACTTCGGTACCCCTGAATTGCACACACGTGCCCC
1 CTAAATTGCACATAC--GTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCAC
**
36227727 TATTTACACTTCGGTACCC
64 TATTTGTACTTCGGTACCC
* * * * * *
36227746 CTGAATTACACATACATGCCCCTGTTTGTACTTTAGTATCCCTAAATTGAACATACGTGCCACTA
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCACTA
*
36227811 TTTGTACTTTGGTACCC
66 TTTGTACTTCGGTACCC
* * * *
36227828 CTAAATTGCACATATGTG-CCCTTTTTGTACTTTGGTACCCCTAAATTCCACATATGTGCCACTA
1 CTAAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCACTA
*
36227892 TTTGTACTTCGATACCC
66 TTTGTACTTCGGTACCC
* *
36227909 CTGAATAGCACATACGTGCCCCTGTTT
1 CTAAATTGCACATACGTGCCCCTGTTT
36227936 ACACTCTAGT
Statistics
Matches: 160, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
81 70 0.44
82 77 0.48
84 13 0.08
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (82 bp):
CTAAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTAAATTGCACATACGTGCCACTA
TTTGTACTTCGGTACCC
Found at i:36230990 original size:45 final size:45
Alignment explanation
Indices: 36230926--36231014 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
36230916 AACATATACT
* *
36230926 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
36230971 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
36231015 TTGGTTCACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:36231090 original size:51 final size:50
Alignment explanation
Indices: 36231028--36231214 Score: 198
Period size: 51 Copynumber: 3.7 Consensus size: 50
36231018 GTTCACATAA
*
36231028 TAGCCTGCACATAGTACTACACATGTGACCATCACCATCCGATACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCATCA-CATCCGATACACGTAG
* * * * * *
36231079 TAGCCTACACATAGTACCACACACGTGATCGTAACTATCC-AGTACGCGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCATCAC-ATCCGA-TACACGTAG
* * * * * *
36231130 TAGCCTGCACATAGTACTACAGATGCGACCTATCA-TTCTGGTACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACC-ATCACATCCGATACACGTAG
*
36231180 TAGCCTGCACAAAGTACTACACACGTGACCATCAC
1 TAGCCTGCACATAGTACTACACACGTGACCATCAC
36231215 TTTCACTTTT
Statistics
Matches: 108, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
49 4 0.04
50 38 0.35
51 64 0.59
52 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (50 bp):
TAGCCTGCACATAGTACTACACACGTGACCATCACATCCGATACACGTAG
Found at i:36245962 original size:40 final size:40
Alignment explanation
Indices: 36245918--36246056 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 40
36245908 TCCCTATAAA
* *
36245918 CACTTTGGTGTCCCTATTTGCACATTCATGCCCCTGAATG
1 CACTTTGGTGCCCCTATTTGCACATTCGTGCCCCTGAATG
* * *
36245958 CACTTTGATGCCCCTGA-TAGCACATTCGTGCCCCTGAATA
1 CACTTTGGTGCCCCT-ATTTGCACATTCGTGCCCCTGAATG
* * * * *
36245998 CACTCTGGTACCCCTGTTTGCACACTCGTGCCCCTGATTG
1 CACTTTGGTGCCCCTATTTGCACATTCGTGCCCCTGAATG
* *
36246038 CACTTTAGTGCCCTTATTT
1 CACTTTGGTGCCCCTATTT
36246057 TCCATCTATG
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
40 78 0.99
41 1 0.01
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.33
Consensus pattern (40 bp):
CACTTTGGTGCCCCTATTTGCACATTCGTGCCCCTGAATG
Found at i:36246048 original size:20 final size:20
Alignment explanation
Indices: 36245935--36246050 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
36245925 GTGTCCCTAT
* *
36245935 TTGCACATTCATGCCCCTGA
1 TTGCACTTTCGTGCCCCTGA
*
36245955 ATGCACTTT-GATGCCCCTGA
1 TTGCACTTTCG-TGCCCCTGA
* *
36245975 TAGCACATTCGTGCCCCTGA
1 TTGCACTTTCGTGCCCCTGA
* * * * * *
36245995 ATACACTCTGGTACCCCTGT
1 TTGCACTTTCGTGCCCCTGA
**
36246015 TTGCACACTCGTGCCCCTGA
1 TTGCACTTTCGTGCCCCTGA
*
36246035 TTGCACTTTAGTGCCC
1 TTGCACTTTCGTGCCC
36246051 TTATTTTCCA
Statistics
Matches: 71, Mismatches: 23, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
20 70 0.99
21 1 0.01
ACGTcount: A:0.18, C:0.34, G:0.18, T:0.29
Consensus pattern (20 bp):
TTGCACTTTCGTGCCCCTGA
Found at i:36248405 original size:15 final size:16
Alignment explanation
Indices: 36248377--36248409 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
36248367 CTCCATTTAC
36248377 TTACTTATCATTCCAT
1 TTACTTATCATTCCAT
*
36248393 TTACTTA-CTTTCCAT
1 TTACTTATCATTCCAT
36248408 TT
1 TT
36248410 TATTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (16 bp):
TTACTTATCATTCCAT
Found at i:36251625 original size:5 final size:5
Alignment explanation
Indices: 36251611--36251641 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
36251601 TTTTAAAAGG
36251611 AAAT- AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
36251642 CAAAGGTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:36252552 original size:23 final size:23
Alignment explanation
Indices: 36252525--36252588 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
36252515 ACTCGTTTGT
*
36252525 ACACCCCAATTTGCAACACTTAA
1 ACACCCCAATTTACAACACTTAA
* ** *
36252548 ACACCTCAACATACAACACTTTA
1 ACACCCCAATTTACAACACTTAA
* *
36252571 ACATCCCAATTAACAACA
1 ACACCCCAATTTACAACA
36252589 TTTATATACC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.20
Consensus pattern (23 bp):
ACACCCCAATTTACAACACTTAA
Found at i:36252691 original size:23 final size:23
Alignment explanation
Indices: 36252661--36252838 Score: 177
Period size: 23 Copynumber: 7.8 Consensus size: 23
36252651 CTAGTTCTTA
*
36252661 AAACACTTCAATATACAACATTT
1 AAACACTTCAATTTACAACATTT
* * *
36252684 AAACACTTTAATTTATAGCACTTT
1 AAACACTTCAATTTACAACA-TTT
* * *
36252708 -AATACTTTAATTCACAACATTT
1 AAACACTTCAATTTACAACATTT
36252730 AAACACTTCAATTTACAACACTTT
1 AAACACTTCAATTTACAACA-TTT
*
36252754 -AACACTTCAATTTACAATATTT
1 AAACACTTCAATTTACAACATTT
*
36252776 AAACACTTCAATTTGCAACACTTT
1 AAACACTTCAATTTACAACA-TTT
*
36252800 -AACATCTT-AATTAACAACATTT
1 AAACA-CTTCAATTTACAACATTT
* *
36252822 ATACACCTCAA-TTACAA
1 AAACACTTCAATTTACAA
36252839 TGATAAAACA
Statistics
Matches: 128, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
22 16 0.12
23 100 0.78
24 12 0.09
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.35
Consensus pattern (23 bp):
AAACACTTCAATTTACAACATTT
Found at i:36252731 original size:46 final size:46
Alignment explanation
Indices: 36252662--36252838 Score: 207
Period size: 46 Copynumber: 3.9 Consensus size: 46
36252652 TAGTTCTTAA
* * * *
36252662 AACACTTCAA-TATACAACATTTAAACACTTTAATTTATAGCACTTT
1 AACACTTTAATTA-ACAACATTTAAACACTTCAATTTACAACACTTT
* *
36252708 AATACTTTAATTCACAACATTTAAACACTTCAATTTACAACACTTT
1 AACACTTTAATTAACAACATTTAAACACTTCAATTTACAACACTTT
* * * *
36252754 AACACTTCAATTTACAATATTTAAACACTTCAATTTGCAACACTTT
1 AACACTTTAATTAACAACATTTAAACACTTCAATTTACAACACTTT
* *
36252800 AACA-TCTTAATTAACAACATTTATACACCTCAA-TTACAA
1 AACACT-TTAATTAACAACATTTAAACACTTCAATTTACAA
36252839 TGATAAAACA
Statistics
Matches: 112, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
45 6 0.05
46 105 0.94
47 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.36
Consensus pattern (46 bp):
AACACTTTAATTAACAACATTTAAACACTTCAATTTACAACACTTT
Found at i:36252894 original size:23 final size:23
Alignment explanation
Indices: 36252851--36252925 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
36252841 ATAAAACATC
* *
36252851 TCAATTTCCAGCAAC-TAAACACT
1 TCAATTTGCAGC-ACTTTAACACT
* * *
36252874 TCCATTTGTAGTACTTTAACACT
1 TCAATTTGCAGCACTTTAACACT
36252897 TCAATTTGCAGCACTTTAACA-T
1 TCAATTTGCAGCACTTTAACACT
36252919 ATCAATT
1 -TCAATT
36252926 AACAATGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
22 3 0.07
23 39 0.93
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (23 bp):
TCAATTTGCAGCACTTTAACACT
Found at i:36253513 original size:15 final size:15
Alignment explanation
Indices: 36253493--36253525 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36253483 ATGTTTTAAG
36253493 ACAACATAAATACTT
1 ACAACATAAATACTT
*
36253508 ACAACATGAATACTT
1 ACAACATAAATACTT
36253523 ACA
1 ACA
36253526 TTTTCATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.21, G:0.03, T:0.24
Consensus pattern (15 bp):
ACAACATAAATACTT
Found at i:36266217 original size:12 final size:12
Alignment explanation
Indices: 36266200--36266231 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
36266190 ACATATGTGA
36266200 GGACACGGGATG
1 GGACACGGGATG
*
36266212 GGACACAGGATG
1 GGACACGGGATG
36266224 GGACACGG
1 GGACACGG
36266232 CTATGTGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.47, T:0.06
Consensus pattern (12 bp):
GGACACGGGATG
Found at i:36273297 original size:79 final size:79
Alignment explanation
Indices: 36273166--36273324 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
36273156 ATTGATGTCT
*
36273166 CTTTCATATTCATTTTTAGCTTGAATGTAAAGTGTAAAAGATACAATGCAAGAGCAATAAAAGCA
1 CTTTCATATTCATTTTTAGCTTGAATGTAAAGTGTAAAAGATACAATGCAAGACCAATAAAAGCA
36273231 TCATAAAAATAGGA
66 TCATAAAAATAGGA
*
36273245 CTTTCATATTCATTTTTAGCTTGAATGTGAAGTGTAAAAGATACAATGCAAGACCAATAAAAGCA
1 CTTTCATATTCATTTTTAGCTTGAATGTAAAGTGTAAAAGATACAATGCAAGACCAATAAAAGCA
36273310 TCATAAAAATAGGA
66 TCATAAAAATAGGA
36273324 C
1 C
36273325 GATCTTTTCA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (79 bp):
CTTTCATATTCATTTTTAGCTTGAATGTAAAGTGTAAAAGATACAATGCAAGACCAATAAAAGCA
TCATAAAAATAGGA
Found at i:36277435 original size:21 final size:21
Alignment explanation
Indices: 36277411--36277453 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
36277401 ATTTATTGCA
36277411 TGATTTA-TTTAAATTTTAACT
1 TGATTTACTTT-AATTTTAACT
*
36277432 TGATTTACTTTACTTTTAACT
1 TGATTTACTTTAATTTTAACT
36277453 T
1 T
36277454 TTAAGTCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (21 bp):
TGATTTACTTTAATTTTAACT
Found at i:36281237 original size:29 final size:28
Alignment explanation
Indices: 36281178--36281245 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
36281168 TTATAGCATG
**
36281178 TTTATT-TTTATTTTAAAAATAGGAATTT
1 TTTATTATTT-TTTTAAAAATAGGAAACT
* *
36281206 TTTGTATATTTTTTTAAACATAGGAAACT
1 TTTAT-TATTTTTTTAAAAATAGGAAACT
36281235 TTTATTATTTT
1 TTTATTATTTT
36281246 ATTAGTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 10 0.30
29 20 0.61
30 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.07, T:0.57
Consensus pattern (28 bp):
TTTATTATTTTTTTAAAAATAGGAAACT
Found at i:36281247 original size:8 final size:8
Alignment explanation
Indices: 36281234--36281280 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
36281224 CATAGGAAAC
36281234 TTTTATTA
1 TTTTATTA
36281242 TTTTATTA
1 TTTTATTA
36281250 GTTTT-TTA
1 -TTTTATTA
*
36281258 TTTTTTTA
1 TTTTATTA
*
36281266 TTTTTTTA
1 TTTTATTA
*
36281274 ATTTATT
1 TTTTATT
36281281 CTAAATTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 4 0.11
8 27 0.77
9 4 0.11
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTATTA
Found at i:36281260 original size:16 final size:16
Alignment explanation
Indices: 36281234--36281280 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
36281224 CATAGGAAAC
36281234 TTTTATTATTTTATTAG
1 TTTT-TTATTTTATTAG
* *
36281251 TTTTTTATTTTTTTAT
1 TTTTTTATTTTATTAG
*
36281267 TTTTTTAATTTATT
1 TTTTTTATTTTATT
36281281 CTAAATTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 22 0.85
17 4 0.15
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTTATTTTATTAG
Found at i:36283176 original size:23 final size:23
Alignment explanation
Indices: 36283142--36283185 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
36283132 CAAACTTTTC
36283142 AAATCATATCAATAA-ACACATTA
1 AAATCATATCAA-AACACACATTA
36283165 AAATCA-ATTCAAAACACACAT
1 AAATCATA-TCAAAACACACAT
36283186 ATTGTCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATCATATCAAAACACACATTA
Found at i:36284646 original size:30 final size:29
Alignment explanation
Indices: 36284612--36284687 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
36284602 TGAAGCTATC
* *
36284612 CCTTTTCATAATTTGATGGTCGTCACCATT
1 CCTTTTCATAATTCGATGGCCGTCACCA-T
* *
36284642 CCTTTTCATAGTTCGATGGCCTTCACCAT
1 CCTTTTCATAATTCGATGGCCGTCACCAT
*
36284671 CAATTTTCATAA-TCGAT
1 C-CTTTTCATAATTCGAT
36284688 AACCGAAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 7 0.18
30 32 0.82
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (29 bp):
CCTTTTCATAATTCGATGGCCGTCACCAT
Found at i:36284706 original size:29 final size:29
Alignment explanation
Indices: 36284674--36284737 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
36284664 TCACCATCAA
36284674 TTTTCATAATCGATAACCGAAGCTATCCC
1 TTTTCATAATCGATAACCGAAGCTATCCC
* * *
36284703 TTTTCGTATTCGATAGCCGAAGCTATCCC
1 TTTTCATAATCGATAACCGAAGCTATCCC
36284732 TTTTCA
1 TTTTCA
36284738 ATTGTTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (29 bp):
TTTTCATAATCGATAACCGAAGCTATCCC
Found at i:36290014 original size:29 final size:29
Alignment explanation
Indices: 36289972--36290031 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
36289962 TCCCAGTTGG
36289972 ATGTTAAGGGTGCGGCAGACTACCATCTT
1 ATGTTAAGGGTGCGGCAGACTACCATCTT
36290001 ATGTTAAGGGTGCGGCAGACTACCATCTT
1 ATGTTAAGGGTGCGGCAGACTACCATCTT
36290030 AT
1 AT
36290032 TTTTTTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (29 bp):
ATGTTAAGGGTGCGGCAGACTACCATCTT
Found at i:36295699 original size:58 final size:59
Alignment explanation
Indices: 36295618--36295733 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 59
36295608 ATCACTTTAA
* * *
36295618 TATTAAATTAATATAATTCTTATC-AAGA-AAAGTATTAGATTAAATTTAATATTAAATC
1 TATTAAAGTAATAGAATTCTTATCTAAGATAAA-TATTAAATTAAATTTAATATTAAATC
*
36295676 TATTAAAGTAATAGAATAT-TTATCTATAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAAGTAATAGAAT-TCTTATC--TAAGATAAATATTAAATTAAATTTAATATTAA
36295734 GATAATCACT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
58 20 0.41
59 1 0.02
61 25 0.51
62 3 0.06
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (59 bp):
TATTAAAGTAATAGAATTCTTATCTAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:36298107 original size:12 final size:12
Alignment explanation
Indices: 36298090--36298114 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36298080 ACCTTTAACG
36298090 TTTACATTTTTA
1 TTTACATTTTTA
36298102 TTTACATTTTTA
1 TTTACATTTTTA
36298114 T
1 T
36298115 CAGTTTGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTACATTTTTA
Found at i:36301931 original size:24 final size:22
Alignment explanation
Indices: 36301888--36301935 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
36301878 TTTTTTCATG
*
36301888 TAATTAATATATTGTATAAAAA
1 TAATTAATATATTATATAAAAA
* *
36301910 TAATTAATATATAATATTTAAAA
1 TAATTAATATATTATA-TAAAAA
36301933 TAA
1 TAA
36301936 ACAAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TAATTAATATATTATATAAAAA
Found at i:36304849 original size:31 final size:29
Alignment explanation
Indices: 36304813--36304878 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
36304803 ATTAATAAAG
*
36304813 ATAAAATTACACTTTAATTCATTCTAAAATT
1 ATAAAATTACAATTTAA-T-ATTCTAAAATT
* *
36304844 ATAAAATTTCAATTTAATATTTTAAAATT
1 ATAAAATTACAATTTAATATTCTAAAATT
36304873 ATAAAA
1 ATAAAA
36304879 ATATAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 16 0.50
30 1 0.03
31 15 0.47
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (29 bp):
ATAAAATTACAATTTAATATTCTAAAATT
Found at i:36304850 original size:8 final size:8
Alignment explanation
Indices: 36304837--36304903 Score: 54
Period size: 8 Copynumber: 8.9 Consensus size: 8
36304827 TAATTCATTC
36304837 TAAAATTA
1 TAAAATTA
36304845 TAAAATT-
1 TAAAATTA
*
36304852 T-CAATT-
1 TAAAATTA
* *
36304858 TAATATTT
1 TAAAATTA
36304866 TAAAATTA
1 TAAAATTA
*
36304874 TAAAAATA
1 TAAAATTA
36304882 T-AAATTA
1 TAAAATTA
36304889 TAAAAATT-
1 T-AAAATTA
36304897 TAAAATT
1 TAAAATT
36304904 TTATTCGACC
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
6 5 0.10
7 16 0.33
8 22 0.46
9 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (8 bp):
TAAAATTA
Found at i:36304861 original size:53 final size:53
Alignment explanation
Indices: 36304761--36304862 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 53
36304751 CCTAAAATAA
* *
36304761 AAAATTACAATTTACATTCTTTAAATTATTTTAAAATTTTAAATTAATAAAGAT
1 AAAATTACAATTTACATTCTTTAAA-TATTATAAAATTTCAAATTAATAAAGAT
* *
36304815 AAAATTACACTTTA-ATTCATTCTAAA-ATTATAAAATTTCAATTTAATA
1 AAAATTACAATTTACATTC-TT-TAAATATTATAAAATTTCAAATTAATA
36304863 TTTTAAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
53 23 0.55
54 15 0.36
55 4 0.10
ACGTcount: A:0.48, C:0.08, G:0.01, T:0.43
Consensus pattern (53 bp):
AAAATTACAATTTACATTCTTTAAATATTATAAAATTTCAAATTAATAAAGAT
Found at i:36304886 original size:15 final size:15
Alignment explanation
Indices: 36304868--36304900 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36304858 TAATATTTTA
36304868 AAATTATAAAAATAT
1 AAATTATAAAAATAT
*
36304883 AAATTATAAAAATTT
1 AAATTATAAAAATAT
36304898 AAA
1 AAA
36304901 ATTTTATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTATAAAAATAT
Found at i:36313867 original size:29 final size:29
Alignment explanation
Indices: 36313831--36313890 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
36313821 TAAATTTATC
36313831 AAAAATCACTTAACAAAATACTTTTAAAT
1 AAAAATCACTTAACAAAATACTTTTAAAT
36313860 AAAAATCACTTAACAAAATACTTTTAAAT
1 AAAAATCACTTAACAAAATACTTTTAAAT
36313889 AA
1 AA
36313891 CAACTAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAAATCACTTAACAAAATACTTTTAAAT
Found at i:36332933 original size:22 final size:23
Alignment explanation
Indices: 36332907--36332957 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
36332897 CATAAACACA
* * *
36332907 TTCACACCTAACACTTAAGT-TG
1 TTCACACCTAAAACATAAATGTG
36332929 TTCACA-CTAAAACATAAATGTG
1 TTCACACCTAAAACATAAATGTG
36332951 TTCACAC
1 TTCACAC
36332958 TCCATGAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.29
Consensus pattern (23 bp):
TTCACACCTAAAACATAAATGTG
Found at i:36349116 original size:25 final size:25
Alignment explanation
Indices: 36349088--36349166 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
36349078 TCATGTGCAT
* *
36349088 ATATGCTCATAGGAGCTGT-GAATCG
1 ATATGCTCATACGAGCTATAG-ATCG
*
36349113 ATATGCTCATTCGAGCTATAGATCG
1 ATATGCTCATACGAGCTATAGATCG
** * *
36349138 ATATGCTCCCACGAGCTATAAATCA
1 ATATGCTCATACGAGCTATAGATCG
36349163 ATAT
1 ATAT
36349167 CCTCTCATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
25 44 0.98
26 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (25 bp):
ATATGCTCATACGAGCTATAGATCG
Found at i:36349178 original size:25 final size:25
Alignment explanation
Indices: 36349125--36349231 Score: 124
Period size: 25 Copynumber: 4.3 Consensus size: 25
36349115 ATGCTCATTC
* * * *
36349125 GAGCTATAGATCGATATGCTCCCAC
1 GAGCTATAAATCAATATGCTCTCAT
*
36349150 GAGCTATAAATCAATATCCTCTCAT
1 GAGCTATAAATCAATATGCTCTCAT
* ***
36349175 GAGCTATATATTGGTATGCTCTCAT
1 GAGCTATAAATCAATATGCTCTCAT
*
36349200 GAGCTATAAATCAGTATGCTCTCAT
1 GAGCTATAAATCAATATGCTCTCAT
36349225 GAGCTAT
1 GAGCTAT
36349232 GAAGTATTCG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 69 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (25 bp):
GAGCTATAAATCAATATGCTCTCAT
Found at i:36349179 original size:50 final size:50
Alignment explanation
Indices: 36349125--36349231 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 50
36349115 ATGCTCATTC
36349125 GAGCTATAGATCGATATGCTCCCACGAGCTATAAATCAATATCCTCTCAT
1 GAGCTATAGATCGATATGCTCCCACGAGCTATAAATCAATATCCTCTCAT
* * * * * * *
36349175 GAGCTATATATTGGTATGCTCTCATGAGCTATAAATCAGTATGCTCTCAT
1 GAGCTATAGATCGATATGCTCCCACGAGCTATAAATCAATATCCTCTCAT
36349225 GAGCTAT
1 GAGCTAT
36349232 GAAGTATTCG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (50 bp):
GAGCTATAGATCGATATGCTCCCACGAGCTATAAATCAATATCCTCTCAT
Found at i:36360210 original size:17 final size:17
Alignment explanation
Indices: 36360188--36360222 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
36360178 TGACGAATGT
*
36360188 TAATTCCAGTCTCACGA
1 TAATTCCAGCCTCACGA
36360205 TAATTCCAGCCTCACGA
1 TAATTCCAGCCTCACGA
36360222 T
1 T
36360223 TGACTCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (17 bp):
TAATTCCAGCCTCACGA
Found at i:36365274 original size:31 final size:31
Alignment explanation
Indices: 36365236--36365296 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
36365226 GGCAAATTAA
36365236 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTC
36365267 AAGAGTAATTGAATCCTAATAAAACTCTTT
1 AAGAGTAATTGAATCCTAATAAAACTCTTT
36365297 AAAATTATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTC
Found at i:36371443 original size:31 final size:31
Alignment explanation
Indices: 36371405--36371465 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
36371395 GGCAAATTAT
36371405 AAGAGTAATTGAATCCTAATAAAACGCTTTC
1 AAGAGTAATTGAATCCTAATAAAACGCTTTC
*
36371436 AAGAGTAATTGAATCCTAATAAAACTCTTT
1 AAGAGTAATTGAATCCTAATAAAACGCTTT
36371466 AAAATTATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACGCTTTC
Found at i:36374285 original size:40 final size:38
Alignment explanation
Indices: 36374239--36374337 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 38
36374229 AATATAATAG
* *
36374239 TTATAATTACCATAATTATAATAATGTTTGAGCAAAAAA
1 TTATAATTACAATAATTATAATAATATTTGAGC-AAAAA
* * * **
36374278 TTTATAATTATAGTAATTATAATAATATTTGATCCTAAA
1 -TTATAATTACAATAATTATAATAATATTTGAGCAAAAA
36374317 TTATAATTACAATAATTATAA
1 TTATAATTACAATAATTATAA
36374338 CAAGGATTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
38 19 0.38
39 3 0.06
40 28 0.56
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (38 bp):
TTATAATTACAATAATTATAATAATATTTGAGCAAAAA
Found at i:36377329 original size:50 final size:49
Alignment explanation
Indices: 36377204--36377333 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 49
36377194 GATAATAACA
* * *
36377204 TGCCAAAGCCATGTCCCATACATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCTTGTAC
* * **
36377253 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGA-GTTCTCATAT-TGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATGTT-TC-T-TGTAC
* *
36377303 TGCCCATGCCATGTCCTAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
36377334 GGGGGACCTC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
48 3 0.04
49 34 0.51
50 29 0.43
51 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCTTGTAC
Found at i:36377346 original size:50 final size:50
Alignment explanation
Indices: 36377261--36377450 Score: 146
Period size: 50 Copynumber: 3.7 Consensus size: 50
36377251 ACTGCCAATG
* * * * ** * * * **
36377261 CCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATTGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGATGCCAACA
* * *
36377311 CCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGATGCCAACA
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGATGCCAACA
* * **
36377361 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATAATGCCAATG
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-A--TC---GATGCCAACA
* *
36377417 CCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCT
36377451 TTACCCAAAT
Statistics
Matches: 112, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 70 0.62
53 2 0.02
56 40 0.36
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGATGCCAACA
Found at i:36390921 original size:27 final size:27
Alignment explanation
Indices: 36390795--36391044 Score: 250
Period size: 27 Copynumber: 9.3 Consensus size: 27
36390785 AAAGGTTAAT
** * *
36390795 AAATGACCGAATTACCCTTACAGGATA
1 AAATGACCGAATTACCCCCATAGGGTA
* * *
36390822 AAATAACCGAATTACCCCTATAGGATA
1 AAATGACCGAATTACCCCCATAGGGTA
*
36390849 AAATAACCGAATTACCCCCACT-GGGTA
1 AAATGACCGAATTACCCCCA-TAGGGTA
* *
36390876 AAATGATCGAATTGCCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * * *
36390903 AAATAACCAAATTGCCCCCAGAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * * * *
36390930 AAAGGATCGAATTGCCCACATAGTGTA
1 AAATGACCGAATTACCCCCATAGGGTA
*
36390957 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* *
36390984 AAATGATCGAATTACCCTCATAGGGTA
1 AAATGACCGAATTACCCCCATAGGGTA
* * * *
36391011 AAATGATCGAAATACCCTCATAGTGTA
1 AAATGACCGAATTACCCCCATAGGGTA
36391038 AAATGAC
1 AAATGAC
36391045 TGTTATACCC
Statistics
Matches: 190, Mismatches: 31, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 188 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCATAGGGTA
Found at i:36391456 original size:28 final size:28
Alignment explanation
Indices: 36391409--36391615 Score: 292
Period size: 28 Copynumber: 7.4 Consensus size: 28
36391399 ACTATACCGA
36391409 TATTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
* *
36391437 TACTGTTTTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
36391465 TGTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
36391493 TGTTGTATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
36391521 TATTATATTGGGCTAAGGCCCACATTGT
1 TATTGTATTGGGCTAAGGCCCACATTGT
*
36391549 TGA-TGTTTTGGGCTAAGGCCCACATTGT
1 T-ATTGTATTGGGCTAAGGCCCACATTGT
* *
36391577 TGA-TGTTTTGGGCTAAGGCCCATATTGT
1 T-ATTGTATTGGGCTAAGGCCCACATTGT
*
36391605 TACTGATATTG
1 TATTG-TATTG
36391616 TTACTGTATT
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
27 1 0.01
28 159 0.96
29 5 0.03
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (28 bp):
TATTGTATTGGGCTAAGGCCCACATTGT
Found at i:36407484 original size:150 final size:150
Alignment explanation
Indices: 36407264--36407564 Score: 521
Period size: 150 Copynumber: 2.0 Consensus size: 150
36407254 GATTCTCTAG
36407264 AGCTCTTAAGAAAGCTACCTGGCTCTGAATAATTACATCATTCTTAGCCATATACTCCTTTAAGA
1 AGCTCTTAAGAAAGCTACCTGGCTCTGAATAATTACATCATTCTTAGCCATATACTCCTTTAAGA
* ** *
36407329 GAGCTTCTATAGTTGATGTTGAAGATGACAAACTTTGTTGCACATTTTGCCGCAGCATTGGTTGA
66 GAGCTTCCATAAATGATGTTGAAGATGACAAACTTTGTTACACATTTTGCCGCAGCATTGGTTGA
*
36407394 CTGTATGCAAGTGGTACACC
131 CTGTATCCAAGTGGTACACC
36407414 AGCTCTTAAGAAAGCTACCTGGCTCTGAATAATTACATCATTCTTAGCCATATACTCCTTTAAGA
1 AGCTCTTAAGAAAGCTACCTGGCTCTGAATAATTACATCATTCTTAGCCATATACTCCTTTAAGA
* *
36407479 GAGCTTCCATAAATGATGTTGAAGATGACAAGCTTTGTTACTCATTTTGCCGCAGCATTGGTTGA
66 GAGCTTCCATAAATGATGTTGAAGATGACAAACTTTGTTACACATTTTGCCGCAGCATTGGTTGA
* *
36407544 TTGTATCCAGGTGGTACACC
131 CTGTATCCAAGTGGTACACC
36407564 A
1 A
36407565 ATCACATTCT
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 142 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (150 bp):
AGCTCTTAAGAAAGCTACCTGGCTCTGAATAATTACATCATTCTTAGCCATATACTCCTTTAAGA
GAGCTTCCATAAATGATGTTGAAGATGACAAACTTTGTTACACATTTTGCCGCAGCATTGGTTGA
CTGTATCCAAGTGGTACACC
Found at i:36411930 original size:30 final size:31
Alignment explanation
Indices: 36411896--36412028 Score: 123
Period size: 30 Copynumber: 4.5 Consensus size: 31
36411886 TAATCGAAGT
36411896 TATCCCTTTTCATAATTCGACAGCCG-AACC
1 TATCCCTTTTCATAATTCGACAGCCGTAACC
* ** *
36411926 TATCCCTTTTCATAATTCGACGGTTGTCACC
1 TATCCCTTTTCATAATTCGACAGCCGTAACC
* ** * *
36411957 -ATCCCTTTTCATTATTCGATGGTCGTCACC
1 TATCCCTTTTCATAATTCGACAGCCGTAACC
* * *
36411987 -ATCCC-TTTCATAATTTGATAGCCG-AAGC
1 TATCCCTTTTCATAATTCGACAGCCGTAACC
36412015 TATCCCTTTTCATA
1 TATCCCTTTTCATA
36412029 GATCGATATT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.02
29 20 0.23
30 62 0.71
31 3 0.03
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.37
Consensus pattern (31 bp):
TATCCCTTTTCATAATTCGACAGCCGTAACC
Found at i:36412010 original size:89 final size:89
Alignment explanation
Indices: 36411897--36412081 Score: 241
Period size: 89 Copynumber: 2.1 Consensus size: 89
36411887 AATCGAAGTT
* ***
36411897 ATCCCTTTTCATAATTCGACAGCCGAACCTATCCCTTTTCATA-ATTCGACGGTTGTCA-CCATC
1 ATCCC-TTTCATAATTCGACAGCCGAACCTATCCCTTTTCATAGA-TCGA-GATTCAAAGCCATC
36411960 CCTTTTCATTA-TTCGATGGTCGTCACC
63 CCTTTTCA-TAGTTCGATGGTCGTCACC
* * * *
36411987 ATCCCTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAGATCGATATTCAAAGCCATCCCT
1 ATCCCTTTCATAATTCGACAGCCGAACCTATCCCTTTTCATAGATCGAGATTCAAAGCCATCCCT
36412052 TTTCATAGTTCGATGGTCGTCACC
66 TTTCATAGTTCGATGGTCGTCACC
36412076 ATCCCT
1 ATCCCT
36412082 ATTCTTTGTT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
88 5 0.06
89 73 0.87
90 6 0.07
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.35
Consensus pattern (89 bp):
ATCCCTTTCATAATTCGACAGCCGAACCTATCCCTTTTCATAGATCGAGATTCAAAGCCATCCCT
TTTCATAGTTCGATGGTCGTCACC
Found at i:36412078 original size:30 final size:30
Alignment explanation
Indices: 36411927--36412115 Score: 154
Period size: 30 Copynumber: 6.4 Consensus size: 30
36411917 AGCCGAACCT
* * *
36411927 ATCCCTTTTCATAATTCGACGGTTGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
36411957 ATCCCTTTTCATTA-TTCGATGGTCGTCACC
1 ATCCCTTTTCA-TAGTTCGATGGTCGTCACC
* * * * * *
36411987 ATCCC-TTTCATAATTTGATAGCCG-AAGCT
1 ATCCCTTTTCATAGTTCGATGGTCGTCA-CC
* ** **
36412016 ATCCCTTTTCATAGATCGATATTC-AAAGCC
1 ATCCCTTTTCATAGTTCGATGGTCGTCA-CC
36412046 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
* * * *
36412076 ATCCCTATTCTTTGTT-GATGGTCATCACC
1 ATCCCTTTTCATAGTTCGATGGTCGTCACC
36412105 ATCCCTTTTCA
1 ATCCCTTTTCA
36412116 CAATCAATAG
Statistics
Matches: 129, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
28 3 0.02
29 40 0.31
30 83 0.64
31 3 0.02
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATGGTCGTCACC
Found at i:36412137 original size:29 final size:29
Alignment explanation
Indices: 36412105--36412173 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 29
36412095 GGTCATCACC
* *
36412105 ATCCCTTTTCACAATCAATAGCCGAAGTT
1 ATCCCTTTTCACAATCAATAGCCAAAGCT
* ** * *
36412134 ATCCCTTTCCGTATTCGATAGCCAAAGCT
1 ATCCCTTTTCACAATCAATAGCCAAAGCT
36412163 ATCCCTTTTCA
1 ATCCCTTTTCA
36412174 TCCGTCGATG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.33
Consensus pattern (29 bp):
ATCCCTTTTCACAATCAATAGCCAAAGCT
Found at i:36418550 original size:79 final size:80
Alignment explanation
Indices: 36418431--36418594 Score: 303
Period size: 79 Copynumber: 2.1 Consensus size: 80
36418421 TAAAACATGT
36418431 ACCAATATAAACACAAATTGGTCAATTGTTAAACTAATACTTAACCAAGTTTATACCATATT-TA
1 ACCAATATAAACACAAATTGGTCAATTGTTAAACTAATACTTAACCAAGTTTATACCATATTGTA
36418495 CCATTTGTTTTACCA
66 CCATTTGTTTTACCA
*
36418510 ACCAATATAAACACAAATTGGTCAATTGTTAAACTCATACTTAACCAAGTTTATACCATATTGTA
1 ACCAATATAAACACAAATTGGTCAATTGTTAAACTAATACTTAACCAAGTTTATACCATATTGTA
*
36418575 CCATTTGTTTTACTA
66 CCATTTGTTTTACCA
36418590 ACCAA
1 ACCAA
36418595 AAAAATACCA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
79 61 0.74
80 21 0.26
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.35
Consensus pattern (80 bp):
ACCAATATAAACACAAATTGGTCAATTGTTAAACTAATACTTAACCAAGTTTATACCATATTGTA
CCATTTGTTTTACCA
Found at i:36419320 original size:30 final size:30
Alignment explanation
Indices: 36419280--36419377 Score: 106
Period size: 30 Copynumber: 3.3 Consensus size: 30
36419270 ATGTTGATAC
* * *
36419280 ATCCTTTTTCATAATTTGATAATCGAAGTT
1 ATCCCTTTTCATAATTTGATAACCGAAGCT
* * * *
36419310 ATCCCTTTTCATAGTTCGACAGCCGAAGCT
1 ATCCCTTTTCATAATTTGATAACCGAAGCT
* *
36419340 ATCCCTTTTCATAATTTGATAGCCGGAGCT
1 ATCCCTTTTCATAATTTGATAACCGAAGCT
*
36419370 ATCTCTTT
1 ATCCCTTT
36419378 CCACAGATCG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAACCGAAGCT
Found at i:36419397 original size:60 final size:60
Alignment explanation
Indices: 36419279--36419411 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 60
36419269 GATGTTGATA
* * * * * *
36419279 CATCCTTTTTCATAATTTGATAATCGAAGTTATCCCTTTTCATAGTTCGACAGCCGAAGC
1 CATCCCTTTTCATAATTTGATAACCGAAGCTATCCCTTTCCACAGATCGACAGCCGAAGC
* * * * * *
36419339 TATCCCTTTTCATAATTTGATAGCCGGAGCTATCTCTTTCCACAGATCGATAGTCGAAGC
1 CATCCCTTTTCATAATTTGATAACCGAAGCTATCCCTTTCCACAGATCGACAGCCGAAGC
36419399 CATCCCTTTTCAT
1 CATCCCTTTTCAT
36419412 TGTTCGATGG
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.36
Consensus pattern (60 bp):
CATCCCTTTTCATAATTTGATAACCGAAGCTATCCCTTTCCACAGATCGACAGCCGAAGC
Found at i:36419419 original size:30 final size:30
Alignment explanation
Indices: 36419310--36419528 Score: 112
Period size: 30 Copynumber: 7.4 Consensus size: 30
36419300 AATCGAAGTT
* *
36419310 ATCCCTTTTCATAGTTCGACAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
* * * *
36419340 ATCCCTTTTCATAATTTGATAGCCGGAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
* * * * *
36419370 ATCTCTTTCCACAGATCGATAGTCGAAGCC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
* * *
36419400 ATCCCTTTTCATTGTTCGATGGTC-ATCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCGA--AGCC
* ***
36419430 ATCCCTTTTCATTGTT-GAT-GGTTATCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCGA--AGCC
* * *
36419459 ATCCTTTTTCATCA--TCGATAGCTGAAGCT
1 ATCCCTTTTCAT-AGTTCGATAGCCGAAGCC
* * * *
36419488 ATCCCTTTTCGTA-CTCGATAGCTGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
36419517 ATCCCTTTTCAT
1 ATCCCTTTTCAT
36419529 TTGTCGATGA
Statistics
Matches: 152, Mismatches: 29, Indels: 17
0.77 0.15 0.09
Matches are distributed among these distances:
28 4 0.03
29 61 0.40
30 86 0.57
31 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATAGCCGAAGCC
Found at i:36419459 original size:29 final size:30
Alignment explanation
Indices: 36419398--36419470 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 30
36419388 ATAGTCGAAG
36419398 CCATCCCTTTTCATTGTTCGATGGTCATCA
1 CCATCCCTTTTCATTGTTCGATGGTCATCA
*
36419428 CCATCCCTTTTCATTGTT-GATGGTTATCA
1 CCATCCCTTTTCATTGTTCGATGGTCATCA
*
36419457 CCATCCTTTTTCAT
1 CCATCCCTTTTCAT
36419471 CATCGATAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.16, C:0.29, G:0.11, T:0.44
Consensus pattern (30 bp):
CCATCCCTTTTCATTGTTCGATGGTCATCA
Found at i:36419491 original size:29 final size:29
Alignment explanation
Indices: 36419459--36419528 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
36419449 GGTTATCACC
*
36419459 ATCCTTTTTCAT-CATCGATAGCTGAAGCT
1 ATCCCTTTTCATAC-TCGATAGCTGAAGCT
*
36419488 ATCCCTTTTCGTACTCGATAGCTGAAGCT
1 ATCCCTTTTCATACTCGATAGCTGAAGCT
36419517 ATCCCTTTTCAT
1 ATCCCTTTTCAT
36419529 TTGTCGATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 36 0.97
30 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (29 bp):
ATCCCTTTTCATACTCGATAGCTGAAGCT
Found at i:36430209 original size:25 final size:25
Alignment explanation
Indices: 36430155--36430209 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
36430145 AAGCATTAAA
*
36430155 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
36430180 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
36430204 TATTAA
1 T-TTAA
36430210 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:36430835 original size:17 final size:17
Alignment explanation
Indices: 36430813--36430845 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36430803 TCTGATCAAG
36430813 CTAATTTAATTCCACAC
1 CTAATTTAATTCCACAC
36430830 CTAATTTAATTCCACA
1 CTAATTTAATTCCACA
36430846 TCTCAAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (17 bp):
CTAATTTAATTCCACAC
Found at i:36436102 original size:15 final size:15
Alignment explanation
Indices: 36436082--36436115 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
36436072 TTTCTCGTTT
36436082 TTTTCATTTATTTAC
1 TTTTCATTTATTTAC
*
36436097 TTTTCATTTATTTCC
1 TTTTCATTTATTTAC
36436112 TTTT
1 TTTT
36436116 TTATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTCATTTATTTAC
Found at i:36445507 original size:58 final size:57
Alignment explanation
Indices: 36445384--36445577 Score: 183
Period size: 58 Copynumber: 3.3 Consensus size: 57
36445374 GCTATCTTTG
* * * *** * * *
36445384 AAAGAAAGCTTTTGTGGGTATCTCTGATTAAAAAGATTTCTTTATGACAATATCTGATTA
1 AAAGGAAGC-TTTGTGGCTATCTCT-ATTAAAAGGAAGCCTTTGTGGCAATCTCT-ATTA
* * * *
36445444 AAAGGACA-CATTTGTGGCTATCTCTATTAAAAGGACGCCTTTGTGGCTATCTTTGTTA
1 AAAGGA-AGC-TTTGTGGCTATCTCTATTAAAAGGAAGCCTTTGTGGCAATCTCTATTA
*
36445502 AAAGGAAGTCTTTGTGGCTATCTTTATTAAAAGGAAGCCTTTGTGGCAATCTCTATTA
1 AAAGGAAG-CTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTGTGGCAATCTCTATTA
*
36445560 AAAGGATGCCTTTGTGGC
1 AAAGGAAG-CTTTGTGGC
36445578 AAGACTCTAG
Statistics
Matches: 111, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
57 1 0.01
58 68 0.61
59 21 0.19
60 20 0.18
61 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (57 bp):
AAAGGAAGCTTTGTGGCTATCTCTATTAAAAGGAAGCCTTTGTGGCAATCTCTATTA
Found at i:36445579 original size:29 final size:29
Alignment explanation
Indices: 36445440--36445577 Score: 188
Period size: 29 Copynumber: 4.8 Consensus size: 29
36445430 ACAATATCTG
*
36445440 ATTAAAAGGACA-CATTTGTGGCTATCTCT
1 ATTAAAAGGA-AGCCTTTGTGGCTATCTCT
* *
36445469 ATTAAAAGGACGCCTTTGTGGCTATCTTT
1 ATTAAAAGGAAGCCTTTGTGGCTATCTCT
* * *
36445498 GTTAAAAGGAAGTCTTTGTGGCTATCTTT
1 ATTAAAAGGAAGCCTTTGTGGCTATCTCT
*
36445527 ATTAAAAGGAAGCCTTTGTGGCAATCTCT
1 ATTAAAAGGAAGCCTTTGTGGCTATCTCT
*
36445556 ATTAAAAGGATGCCTTTGTGGC
1 ATTAAAAGGAAGCCTTTGTGGC
36445578 AAGACTCTAG
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 97 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.36
Consensus pattern (29 bp):
ATTAAAAGGAAGCCTTTGTGGCTATCTCT
Found at i:36446902 original size:25 final size:26
Alignment explanation
Indices: 36446871--36446926 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
36446861 AAGATGGTTT
*
36446871 TTCTTTCT-A-CTCAACGTTCTAGTTC
1 TTCTTTCTAACCTAAACGTTCTA-TTC
*
36446896 TTCTTTCTAACCTAAATGTTCTATTC
1 TTCTTTCTAACCTAAACGTTCTATTC
36446922 TTCTT
1 TTCTT
36446927 CATTAAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 9 0.33
27 10 0.37
ACGTcount: A:0.18, C:0.25, G:0.05, T:0.52
Consensus pattern (26 bp):
TTCTTTCTAACCTAAACGTTCTATTC
Found at i:36447940 original size:50 final size:50
Alignment explanation
Indices: 36447860--36447998 Score: 152
Period size: 50 Copynumber: 2.8 Consensus size: 50
36447850 TTTATGTGGT
* *
36447860 GCCTATGTTGCATATAATTTGGAAAGCCTTTGTGGCGAGATACCTAAAAG
1 GCCTATGTGGTATATAATTTGGAAAGCCTTTGTGGCGAGATACCTAAAAG
* * * * * * ** *
36447910 GCTTATGTGGTATATTATTTGGAAAACCTTTGTGTCTAGTTTTCTGAAAG
1 GCCTATGTGGTATATAATTTGGAAAGCCTTTGTGGCGAGATACCTAAAAG
* **
36447960 GCCTATGTGGTGTATAATTTGGAAAGCCTAAGTGGCGAG
1 GCCTATGTGGTATATAATTTGGAAAGCCTTTGTGGCGAG
36447999 TTATTAGTCT
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.35
Consensus pattern (50 bp):
GCCTATGTGGTATATAATTTGGAAAGCCTTTGTGGCGAGATACCTAAAAG
Found at i:36450623 original size:16 final size:17
Alignment explanation
Indices: 36450602--36450635 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
36450592 ATGAACATAA
*
36450602 TTTTATAT-TAATTTAT
1 TTTTATATATAAATTAT
36450618 TTTTATATATAAATTAT
1 TTTTATATATAAATTAT
36450635 T
1 T
36450636 CATTTCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTATATATAAATTAT
Found at i:36456743 original size:19 final size:19
Alignment explanation
Indices: 36456719--36456810 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
36456709 AATCTTCAAG
36456719 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
36456738 GATATGTAATATTAGATAT
1 GATATGCAATCTTAGATAT
36456757 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
36456776 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
36456795 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
36456811 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:36456761 original size:38 final size:38
Alignment explanation
Indices: 36456719--36456817 Score: 175
Period size: 38 Copynumber: 2.7 Consensus size: 38
36456709 AATCTTCAAG
36456719 GATATGCAATCTTAGATATGATATGTAATATTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATATTAGATAT
*
36456757 GATATGCAATCTTAGATATGATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGTAATATTAGATAT
36456795 GATATGCAATCTTAGA-A-GATATG
1 GATATGCAATCTTAGATATGATATG
36456818 ATTTTGTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
36 6 0.10
37 1 0.02
38 53 0.88
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGTAATATTAGATAT
Found at i:36457495 original size:23 final size:23
Alignment explanation
Indices: 36457442--36457506 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 23
36457432 ACTTTACATG
*
36457442 TCATTGTTTATTTTTTTTCCTTA
1 TCATTGTTTATTTTATTTCCTTA
*
36457465 T-TTATGTTTATTTTATTT-CTATA
1 TCAT-TGTTTATTTTATTTCCT-TA
36457488 TCATTGTTGTATTATTATT
1 TCATTGTT-TATT-TTATT
36457507 GTTATTTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 3 0.09
23 21 0.62
24 5 0.15
25 5 0.15
ACGTcount: A:0.18, C:0.08, G:0.06, T:0.68
Consensus pattern (23 bp):
TCATTGTTTATTTTATTTCCTTA
Found at i:36462054 original size:17 final size:17
Alignment explanation
Indices: 36462042--36462075 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36462032 GGAAAAAAGG
36462042 AAAAGAAAAAAAAAGAA
1 AAAAGAAAAAAAAAGAA
*
36462059 AAAAGAAAAAGAAAGAA
1 AAAAGAAAAAAAAAGAA
36462076 TAAGAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAAGAA
Found at i:36463506 original size:44 final size:44
Alignment explanation
Indices: 36463443--36463650 Score: 249
Period size: 44 Copynumber: 5.0 Consensus size: 44
36463433 CGATGACCCT
* *
36463443 AGTCCTATCTCACTGGTCAGCAATGGAATAGGTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* *
36463487 AGTCCTATCTCCCTGGTCAGTAGTGGAATAGTTTGAAAATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
*
36463531 AATCCTATCTCCCTGGTCAGCAGTGGAATA-G--G-----TG-A
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* *
36463566 A-TCCTATCT-CCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
* * *
36463608 AGTCCTATCTCCCTGGTTAGTAGTGGAATAGGTTGAAGATTGT
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGT
36463651 GAATCTTACT
Statistics
Matches: 143, Mismatches: 10, Indels: 22
0.82 0.06 0.13
Matches are distributed among these distances:
33 19 0.13
34 9 0.06
35 2 0.01
36 3 0.02
41 3 0.02
42 1 0.01
43 8 0.06
44 98 0.69
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTA
Found at i:36463584 original size:33 final size:34
Alignment explanation
Indices: 36463531--36463596 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
36463521 GAAAATTGTA
36463531 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
36463565 AATCCTATCT-CCTGGTCAGCAGTGGAATAGGT
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGT
36463597 TGAAGATTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 22 0.69
34 10 0.31
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (34 bp):
AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
Found at i:36463617 original size:77 final size:78
Alignment explanation
Indices: 36463489--36463640 Score: 234
Period size: 77 Copynumber: 2.0 Consensus size: 78
36463479 AAATTGTAAG
* *
36463489 TCCTATCTCCCTGGTCAGTAGTGGAATAGTTTGAAAATTGTAAATCCTATCTCCCTGGTCAGCAG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTAAATCCTATCTCCCTGGTCAGCAG
36463554 TGGAATAGGTGAA
66 TGGAATAGGTGAA
* * * * *
36463567 TCCTATCT-CCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTTAGTAG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTAAATCCTATCTCCCTGGTCAGCAG
36463631 TGGAATAGGT
66 TGGAATAGGT
36463641 TGAAGATTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
77 59 0.88
78 8 0.12
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (78 bp):
TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTAAATCCTATCTCCCTGGTCAGCAG
TGGAATAGGTGAA
Found at i:36463992 original size:167 final size:166
Alignment explanation
Indices: 36463700--36464040 Score: 387
Period size: 167 Copynumber: 2.0 Consensus size: 166
36463690 GCTGAGGGCA
* *
36463700 GCGAACCTTATCTCCCTGGCATTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGG
1 GCGAATCTTATCTCCCTAGCATTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGG
* * * * * * *** *
36463765 CAGTGAATCCTATCTCTTTGGTATTACAGTGAAATAGATTGAATCCAAAACGGTGAATCTTACTT
66 CAGCGAATCCTATCTCTTTGGCATTACAGTGAAACAAATTAAAGCCAAAACAACGAATCTTACTC
*
36463830 CCCTGACGTTGTAACGGAACAAATTGAAGTCACGACG
131 CCCTGACGGTGTAACGGAACAAATTGAAG-CACGACG
* * * * * * *
36463867 GTGAATCTTATCTCCCTAGCGTTAAGGCTTGGATTAGCTG-ATCTGGAGCGGATTGAAGCTGTGG
1 GCGAATCTTATCTCCCTAGCATTAAGACTTGAAATAGCTGAAGC-GGAGCGGATTAAAGCTGTGG
* * * **
36463931 GCTGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAAATTAAAGCCGCAACAACGAATCTTACT
65 GCAGCGAATCCTATCTCTTTGGCATTACAGTGAAACAAATTAAAGCCAAAACAACGAATCTTACT
* ** * *
36463996 CCCCTGGCGGTGTAGTGGAACAGATTGAAGCTCGACG
130 CCCCTGACGGTGTAACGGAACAAATTGAAGCACGACG
36464033 GCGAATCT
1 GCGAATCT
36464041 AGTTTCCCCA
Statistics
Matches: 142, Mismatches: 31, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
166 15 0.11
167 127 0.89
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (166 bp):
GCGAATCTTATCTCCCTAGCATTAAGACTTGAAATAGCTGAAGCGGAGCGGATTAAAGCTGTGGG
CAGCGAATCCTATCTCTTTGGCATTACAGTGAAACAAATTAAAGCCAAAACAACGAATCTTACTC
CCCTGACGGTGTAACGGAACAAATTGAAGCACGACG
Done.