Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 208 of 230
Found at i:61979459 original size:5 final size:5
Alignment explanation
Indices: 61979408--61979498 Score: 78
Period size: 5 Copynumber: 17.4 Consensus size: 5
61979398 TTAGTTTTAT
* * * *
61979408 TTTTC CTTTC TTTT- TTTATC GTTTC TCTTTC GTTCC TTTTTC TTTTTC
1 TTTTC TTTTC TTTTC TTT-TC TTTTC T-TTTC TTTTC -TTTTC -TTTTC
61979456 TTTTC TTTTC TTCATT- TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TT--TTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
61979499 CCTTGGATTG
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
4 5 0.07
5 47 0.66
6 17 0.24
7 2 0.03
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:61979495 original size:21 final size:21
Alignment explanation
Indices: 61979408--61979498 Score: 80
Period size: 21 Copynumber: 4.3 Consensus size: 21
61979398 TTAGTTTTAT
* *
61979408 TTTTCCTTTCTTTT-TTTATC
1 TTTTCTTTTCTTTTCTTTTTC
* * *
61979428 GTTTCTCTTTCGTTCCTTTTTC
1 TTTTCT-TTTCTTTTCTTTTTC
*
61979450 TTTTTCTTTTCTTTTCTTCATT-
1 -TTTTCTTTTCTTTTCTT-TTTC
61979472 TTTTCTTTTCTTTTC-TTTTC
1 TTTTCTTTTCTTTTCTTTTTC
61979492 TTTTCTT
1 TTTTCTT
61979499 CCTTGGATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
19 2 0.04
20 12 0.21
21 21 0.38
22 14 0.25
23 7 0.12
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTCTTTTCTTTTCTTTTTC
Found at i:61981361 original size:27 final size:28
Alignment explanation
Indices: 61981312--61981376 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
61981302 TTTTTTATTT
*
61981312 CTTTTT-TTTATCGTTTCTCTTTCGTTC-
1 CTTTTTCTTTTTCGTTTCTCTTTC-TTCA
*
61981339 CTTTTTCTTTTTCTTTTCT-TTTCTTCA
1 CTTTTTCTTTTTCGTTTCTCTTTCTTCA
*
61981366 TTTTTTCTTTT
1 CTTTTTCTTTT
61981377 CTTCCTTGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 20 0.61
28 10 0.30
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.74
Consensus pattern (28 bp):
CTTTTTCTTTTTCGTTTCTCTTTCTTCA
Found at i:61981362 original size:16 final size:15
Alignment explanation
Indices: 61981309--61981379 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 15
61981299 TTATTTTTTA
*
61981309 TTTCTTTTTTTTATCG
1 TTTCTTTTTTTT-TCT
** *
61981325 TTTCTCTTTCGTTCCTT
1 TTTCT-TTTTTTTTC-T
61981342 TTTCTTTTTCTTTTCT
1 TTTCTTTTT-TTTTCT
*
61981358 TTTCTTCATTTTTTCT
1 TTTCTT-TTTTTTTCT
61981374 TTTCTT
1 TTTCTT
61981380 CCTTGGATTG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
16 28 0.65
17 15 0.35
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTCTTTTTTTTTCT
Found at i:61990699 original size:11 final size:11
Alignment explanation
Indices: 61990685--61990736 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
61990675 TTTCGTTCCT
61990685 TTTTCTTTTTC
1 TTTTCTTTTTC
61990696 TTTT-TTTTTC
1 TTTTCTTTTTC
*
61990706 TTCAT-TTTTTC
1 TT-TTCTTTTTC
*
61990717 TTTTCTTTTTT
1 TTTTCTTTTTC
61990728 TTTTCTTTT
1 TTTTCTTTT
61990737 CTTCCTTGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 9 0.25
11 27 0.75
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:61990705 original size:16 final size:15
Alignment explanation
Indices: 61990684--61990739 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 15
61990674 CTTTCGTTCC
61990684 TTTTTCTTTTTCTTTT
1 TTTTTCTTTTT-TTTT
*
61990700 TTTTTCTTCATTTTTT
1 TTTTTCTT-TTTTTTT
*
61990716 CTTTTCTTTTTTTTT
1 TTTTTCTTTTTTTTT
61990731 TCTTTTCTT
1 T-TTTTCTT
61990740 CCTTGGATTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 6 0.18
16 26 0.76
17 2 0.06
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTCTTTTTTTTT
Found at i:61990713 original size:26 final size:27
Alignment explanation
Indices: 61990675--61990730 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
61990665 ATCGTTTCTC
*
61990675 TTTCGTTC-CTTTTTCTTTTTCTTTTTT
1 TTTCGTTCATTTTTTC-TTTTCTTTTTT
61990702 TTTC-TTCATTTTTTCTTTTCTTTTTT
1 TTTCGTTCATTTTTTCTTTTCTTTTTT
61990728 TTT
1 TTT
61990731 TCTTTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (27 bp):
TTTCGTTCATTTTTTCTTTTCTTTTTT
Found at i:61990736 original size:21 final size:21
Alignment explanation
Indices: 61990648--61990739 Score: 64
Period size: 21 Copynumber: 4.3 Consensus size: 21
61990638 TTAGTTTTAT
* *
61990648 TTTTCCTTTC-TTTTTTTATC
1 TTTTCTTTTCTTTTTTTTTTC
* * **
61990668 GTTTCTCTTTCGTTCCTTTTTC
1 TTTTCT-TTTCTTTTTTTTTTC
*
61990690 TTTTTCTTTT-TTTTTCTTCATT-
1 -TTTTCTTTTCTTTTT-TT-TTTC
61990712 TTTTCTTTTCTTTTTTTTTTC
1 TTTTCTTTTCTTTTTTTTTTC
61990733 TTTTCTT
1 TTTTCTT
61990740 CCTTGGATTG
Statistics
Matches: 54, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
20 6 0.11
21 24 0.44
22 17 0.31
23 7 0.13
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTCTTTTCTTTTTTTTTTC
Found at i:61994465 original size:27 final size:26
Alignment explanation
Indices: 61994424--61994619 Score: 119
Period size: 27 Copynumber: 7.3 Consensus size: 26
61994414 GAGAGGTCAA
* * *
61994424 TAAAATGATCAAATTACCTCCATAGTG
1 TAAAATGACCAAATTACC-CCACAGGG
*
61994451 TAAAATGACCGAATTACACCCACAGGG
1 TAAAATGACCAAATTAC-CCCACAGGG
* **
61994478 TAAAATGACTAAATTACCCTCAC-GACA
1 TAAAATGACCAAATTACCC-CACAG-GG
* *
61994505 TAAAATGATCAAATTACTCCTACAGGG
1 TAAAATGACCAAATTAC-CCCACAGGG
* *
61994532 TAAAATGATCGAAA-TACCCCTGA-AGGA
1 TAAAATGA-CCAAATTACCCC--ACAGGG
* * * *
61994559 TAAACTAACCAAAATACCCCCAAAGGG
1 TAAAATGACCAAATTA-CCCCACAGGG
* * *
61994586 TAAAATGACTAAAATACCCCCATAGGG
1 TAAAATGACCAAATTA-CCCCACAGGG
61994613 TAAAATG
1 TAAAATG
61994620 GTTGTTATAC
Statistics
Matches: 133, Mismatches: 25, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
26 10 0.08
27 111 0.83
28 12 0.09
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.20
Consensus pattern (26 bp):
TAAAATGACCAAATTACCCCACAGGG
Found at i:61994492 original size:54 final size:53
Alignment explanation
Indices: 61994424--61994619 Score: 143
Period size: 54 Copynumber: 3.6 Consensus size: 53
61994414 GAGAGGTCAA
*
61994424 TAAAATGA-TCAAATTACCTCCATAGTGTAAAATGACCGAATTACACCCACAGGG
1 TAAAATGACT-AAATTACCTCCATAG-GTAAAATGACCAAATTACACCCACAGGG
* * * *
61994478 TAAAATGACTAAATTACCCTCACGACA--TAAAATGATCAAATTACTCCTACAGGG
1 TAAAATGACTAAATTA-CCTC-C-ATAGGTAAAATGACCAAATTACACCCACAGGG
* * * * * *
61994532 TAAAATGATCGAAA-TACC-CC-TGAAGGATAAACTAACCAAAATACCCCCAAAGGG
1 TAAAATGA-CTAAATTACCTCCAT--AGG-TAAAATGACCAAATTACACCCACAGGG
* *
61994586 TAAAATGACTAAAATACCCCCATAGGGTAAAATG
1 TAAAATGACTAAATTACCTCCATA-GGTAAAATG
61994620 GTTGTTATAC
Statistics
Matches: 111, Mismatches: 17, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
51 2 0.02
52 1 0.01
53 6 0.05
54 85 0.77
55 13 0.12
56 2 0.02
57 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.20
Consensus pattern (53 bp):
TAAAATGACTAAATTACCTCCATAGGTAAAATGACCAAATTACACCCACAGGG
Found at i:61994577 original size:81 final size:81
Alignment explanation
Indices: 61994423--61994577 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 81
61994413 TGAGAGGTCA
* * * * * *
61994423 ATAAAATGATCAAATTACCTCCATAGTGTAAAATGACCGAATTACACCCACAGGGTAAAATGACT
1 ATAAAATGATCAAATTACCTCCACAGGGTAAAATGACCGAAATACACCCACAGGATAAAATAACC
*
61994488 AAATTACCCTCACGAC
66 AAAATACCCTCACGAC
* *
61994504 ATAAAATGATCAAATTA-CTCCTACAGGGTAAAATGATCGAAATAC-CCCTGA-AGGATAAACTA
1 ATAAAATGATCAAATTACCTCC-ACAGGGTAAAATGACCGAAATACACCC--ACAGGATAAAATA
61994566 ACCAAAATACCC
63 ACCAAAATACCC
61994578 CCAAAGGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
80 7 0.11
81 54 0.87
82 1 0.02
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (81 bp):
ATAAAATGATCAAATTACCTCCACAGGGTAAAATGACCGAAATACACCCACAGGATAAAATAACC
AAAATACCCTCACGAC
Found at i:61995066 original size:28 final size:28
Alignment explanation
Indices: 61995026--61995133 Score: 171
Period size: 28 Copynumber: 3.9 Consensus size: 28
61995016 ACTGTACTGA
*
61995026 TACTGTATTGGGCTAATGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
61995054 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
61995082 TACTATTTTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
61995110 TACTGTATTTGGCTAAAGCCCACA
1 TACTGTATTGGGCTAAGGCCCACA
61995134 CTATACGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:61997954 original size:8 final size:8
Alignment explanation
Indices: 61997943--61997971 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
61997933 TATATATATA
61997943 TATTCACC
1 TATTCACC
61997951 TATTCACC
1 TATTCACC
61997959 TATTCACC
1 TATTCACC
61997967 T-TTCA
1 TATTCA
61997972 AATTTTCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (8 bp):
TATTCACC
Found at i:61998059 original size:33 final size:33
Alignment explanation
Indices: 61998008--61998317 Score: 166
Period size: 33 Copynumber: 8.7 Consensus size: 33
61997998 TTATCCGTTA
* *
61998008 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
*
61998042 TCGGGGGATCAGCACTTAGCAACCCCTTTCACATTCAATGAT
1 TCGGGGAATCAGCACTTAGCAA---C---CAC---CAATGAT
* *
61998084 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
61998118 TCGGGGAATCAGCACTTAGCAACC-CTTTCACATTTAAGAT
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* * * * *
61998158 ACGGTGGGATCAACATTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
61998192 TCGGGGAATCAGCACTTAGCAACC-CC-----T
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAT
* * *
61998219 TGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAAT
1 TCGGGGAATCAGCACTTAGCAA-CCAC--CA-A--T--GAT
* * *
61998260 ACGGTGGAATCAACACTTAGCAACCACCAATGAA
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAT
61998294 TCGGGGAATCAGCACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
61998318 CCTTGGCCGA
Statistics
Matches: 214, Mismatches: 27, Indels: 71
0.69 0.09 0.23
Matches are distributed among these distances:
27 21 0.10
28 2 0.01
29 1 0.00
31 1 0.00
32 3 0.01
33 72 0.34
34 22 0.10
35 2 0.01
36 4 0.02
37 3 0.01
38 3 0.01
39 7 0.03
40 6 0.03
41 23 0.11
42 27 0.13
43 17 0.08
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:61998135 original size:76 final size:75
Alignment explanation
Indices: 61998009--61998219 Score: 334
Period size: 74 Copynumber: 2.8 Consensus size: 75
61997999 TATCCGTTAT
* * * *
61998009 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGGATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
61998074 ATTCAATGATA
66 ATTCAA-GATA
61998085 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAA-CCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
61998149 ATTTAAGATA
66 ATTCAAGATA
* * *
61998159 CGGTGGGATCAACATTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
61998220 GGGGGAATCA
Statistics
Matches: 126, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
74 56 0.44
75 19 0.15
76 51 0.40
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:61998272 original size:102 final size:102
Alignment explanation
Indices: 61998120--61998363 Score: 427
Period size: 102 Copynumber: 2.4 Consensus size: 102
61998110 CCAATGAATC
* * * *
61998120 GGGGAATCAGCACTTAGCAA-CCCTTTCACATTTAAGATACGGTGGGATCAACATTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCA
61998184 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
61998221 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCA
61998286 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
**
61998323 GCCGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATAC
61998364 TCCGGCCTAT
Statistics
Matches: 136, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 20 0.15
102 116 0.85
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAACACTTAGCAACCA
CCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:62002026 original size:6 final size:6
Alignment explanation
Indices: 62002011--62002039 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
62002001 AGAAATTTTG
62002011 TTAA-T TTAATT TTAATT TTAATT TTAATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT
62002040 CTGTGTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTAATT
Found at i:62002264 original size:8 final size:8
Alignment explanation
Indices: 62002247--62002298 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
62002237 CTTTCGTTCC
62002247 TTTTTC-T
1 TTTTTCTT
62002254 TTTTTCTT
1 TTTTTCTT
62002262 TTTTTCTT
1 TTTTTCTT
62002270 CATTTTT-TT
1 --TTTTTCTT
*
62002279 CTTTTCTT
1 TTTTTCTT
*
62002287 TTCTTCTT
1 TTTTTCTT
62002295 TTTT
1 TTTT
62002299 CTTCCTTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
7 10 0.27
8 20 0.54
9 2 0.05
10 5 0.14
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:62002275 original size:25 final size:25
Alignment explanation
Indices: 62002238--62002294 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
62002228 ATCGTTTCTC
*
62002238 TTTCGTTCCTTTTTCTT-TTTTCTTTT
1 TTTC-TTCATTTTT-TTCTTTTCTTTT
62002264 TTTCTTCATTTTTTTCTTTTCTTTT
1 TTTCTTCATTTTTTTCTTTTCTTTT
*
62002289 CTTCTT
1 TTTCTT
62002295 TTTTCTTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 22 0.79
26 4 0.14
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTCTTCATTTTTTTCTTTTCTTTT
Found at i:62002278 original size:22 final size:21
Alignment explanation
Indices: 62002253--62002298 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
62002243 TTCCTTTTTC
62002253 TTTTTTC-TTT-TTTTCTTCAT
1 TTTTTTCTTTTCTTTTCTTC-T
62002273 TTTTTTCTTTTCTTTTCTTCT
1 TTTTTTCTTTTCTTTTCTTCT
62002294 TTTTT
1 TTTTT
62002299 CTTCCTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 9 0.38
22 8 0.33
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTCTTTTCTTTTCTTCT
Found at i:62002299 original size:20 final size:19
Alignment explanation
Indices: 62002250--62002301 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 19
62002240 TCGTTCCTTT
62002250 TTCTTTTTTC-TTTTTTTC
1 TTCTTTTTTCTTTTTTTTC
62002268 TTCATTTTTTTCTTTTCTTTTC
1 TTC--TTTTTTCTTTT-TTTTC
62002290 TTCTTTTTTCTT
1 TTCTTTTTTCTT
62002302 CCTTGGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.10
20 16 0.53
21 3 0.10
22 8 0.27
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (19 bp):
TTCTTTTTTCTTTTTTTTC
Found at i:62006659 original size:16 final size:17
Alignment explanation
Indices: 62006638--62006671 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
62006628 ACAAAATTAT
*
62006638 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
62006654 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
62006671 T
1 T
62006672 TAACTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:62007598 original size:42 final size:42
Alignment explanation
Indices: 62007544--62007643 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
62007534 CTATATGAAC
* *
62007544 GGCACTACGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
* *
62007586 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGTATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
62007628 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
62007644 TACCGAGAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
Found at i:62014982 original size:22 final size:21
Alignment explanation
Indices: 62014952--62015018 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
62014942 TTTTTATTTT
62014952 AAAA-ATTTTAAAAAATTAAA
1 AAAATATTTTAAAAAATTAAA
***
62014972 AAAAGTATTTTAAAAATATTTTT
1 AAAA-TATTTTAAAAA-ATTAAA
62014995 AAAATATTTT--AAAATTAAA
1 AAAATATTTTAAAAAATTAAA
62015014 AAAAT
1 AAAAT
62015019 TAAAAAAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
19 8 0.21
20 7 0.18
22 16 0.42
23 7 0.18
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (21 bp):
AAAATATTTTAAAAAATTAAA
Found at i:62015023 original size:8 final size:9
Alignment explanation
Indices: 62015005--62015096 Score: 51
Period size: 9 Copynumber: 9.4 Consensus size: 9
62014995 AAAATATTTT
62015005 AAAATTAAA
1 AAAATTAAA
62015014 AAAATTAAAA
1 AAAATT-AAA
***
62015024 AAAAGTATTTT
1 AAAA-T-TAAA
62015035 AAAATTAAA
1 AAAATTAAA
62015044 AAAATTAAAA
1 AAAATT-AAA
62015054 AAAGTATTTTAAA
1 AAA--A--TTAAA
* **
62015067 AATATT-TT
1 AAAATTAAA
62015075 AAAATTAAA
1 AAAATTAAA
62015084 AAAATTAAA
1 AAAATTAAA
62015093 AAAA
1 AAAA
62015097 AGTATTTTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
8 5 0.08
9 28 0.45
10 14 0.23
11 6 0.10
12 2 0.03
13 5 0.08
14 2 0.03
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAATTAAA
Found at i:62015027 original size:29 final size:29
Alignment explanation
Indices: 62014995--62015067 Score: 128
Period size: 30 Copynumber: 2.5 Consensus size: 29
62014985 AAATATTTTT
62014995 AAAATATTTTAAAATTAAAAAAATTAAAA
1 AAAATATTTTAAAATTAAAAAAATTAAAA
62015024 AAAAGTATTTTAAAATTAAAAAAATTAAAA
1 AAAA-TATTTTAAAATTAAAAAAATTAAAA
*
62015054 AAAGTATTTTAAAA
1 AAAATATTTTAAAA
62015068 ATATTTTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
29 14 0.33
30 28 0.67
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAATATTTTAAAATTAAAAAAATTAAAA
Found at i:62015027 original size:40 final size:40
Alignment explanation
Indices: 62014947--62015173 Score: 271
Period size: 40 Copynumber: 5.6 Consensus size: 40
62014937 GCCCATTTTT
*
62014947 ATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAAT
1 ATTTT-AAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAAT
*** ***
62014989 ATTTTTAAAATATTTTAAAATTAAAAAAA-T-TAAAAAAAAGT
1 A-TTTTAAAAT-TAAAAAAATTAAAAAAAGTATTTTAAAAA-T
62015030 ATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAAT
1 ATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAAT
62015070 ATTTTAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAAT
1 ATTTTAAAATTAAAAAAATT-AAAAAAAGTATTTTAAAAAT
* * *
62015111 ATTTTAAAATTTAAAAAAATT-TAAAAAGTATGTAAAAAAT
1 ATTTTAAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAAT
*
62015151 ATTTTAAAATTAAAAAAAATAAA
1 ATTTTAAAATTAAAAAAATTAAA
62015174 TATATTTATT
Statistics
Matches: 161, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
39 24 0.15
40 63 0.39
41 39 0.24
42 31 0.19
43 4 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (40 bp):
ATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAAT
Found at i:62015052 original size:81 final size:82
Alignment explanation
Indices: 62014946--62015173 Score: 286
Period size: 81 Copynumber: 2.8 Consensus size: 82
62014936 GGCCCATTTT
* ***
62014946 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTTAAAATATTTTAAAATT
1 TATTTT-AAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAATA-TTTTAAAAT-TAAAAAAATT
62015011 -AAAAAAA-T-TAAAAAAAA
63 AAAAAAAAGTATAAAAAAAA
62015028 GTATTTTAAAA-TTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAA
1 -TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAA
***
62015092 AAAAAAGTATTTTAAAAA
65 AAAAAAGTATAAAAAAAA
* * * *
62015110 TATTTTAAAATTTAAAAAAATT-TAAAAAGTATGTAAAAAATATTTTAAAATTAAAAAAAATAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
62015174 TATATTTATT
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
79 7 0.05
80 16 0.12
81 80 0.62
82 21 0.16
83 6 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (82 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
AAAAAGTATAAAAAAAA
Found at i:62015067 original size:12 final size:11
Alignment explanation
Indices: 62015052--62015159 Score: 56
Period size: 12 Copynumber: 10.4 Consensus size: 11
62015042 AAAAAATTAA
62015052 AAAAAGTATTTT
1 AAAAA-TATTTT
62015064 AAAAATATTTT
1 AAAAATATTTT
62015075 --AAA-A--TT
1 AAAAATATTTT
* **
62015081 AAAAAAATTAAA
1 AAAAATATT-TT
62015093 AAAAAGTATTTT
1 AAAAA-TATTTT
62015105 AAAAATATTTT
1 AAAAATATTTT
62015116 --AAA-A-TTT
1 AAAAATATTTT
*
62015123 AAAAA-AATTT
1 AAAAATATTTT
* *
62015133 AAAAAGTATGTA
1 AAAAA-TATTTT
62015145 AAAAATATTTT
1 AAAAATATTTT
62015156 AAAA
1 AAAA
62015160 TTAAAAAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 25
0.68 0.09 0.23
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 5 0.07
9 11 0.15
10 8 0.11
11 20 0.27
12 22 0.30
13 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:62015069 original size:30 final size:29
Alignment explanation
Indices: 62014995--62015067 Score: 130
Period size: 29 Copynumber: 2.5 Consensus size: 29
62014985 AAATATTTTT
62014995 AAAA-TATTTTAAAATTAAAAAAATTAAAA
1 AAAAGTATTTTAAAATTAAAAAAATT-AAA
62015024 AAAAGTATTTTAAAATTAAAAAAATTAAA
1 AAAAGTATTTTAAAATTAAAAAAATTAAA
62015053 AAAAGTATTTTAAAA
1 AAAAGTATTTTAAAA
62015068 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 22 0.51
30 21 0.49
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAAGTATTTTAAAATTAAAAAAATTAAA
Found at i:62019400 original size:18 final size:18
Alignment explanation
Indices: 62019362--62019397 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
62019352 TTATTATTTT
*
62019362 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
62019380 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
62019398 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:62021602 original size:18 final size:19
Alignment explanation
Indices: 62021579--62021630 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
62021569 AGCCCGAATA
*
62021579 TATTATGTT-ATTAAAATT
1 TATTATATTAATTAAAATT
*
62021597 TATTATATTAATTAATATT
1 TATTATATTAATTAAAATT
62021616 TA-TAT-TTATATTAAA
1 TATTATATTA-ATTAAA
62021631 TTACTAACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 3 0.10
18 16 0.55
19 10 0.34
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TATTATATTAATTAAAATT
Found at i:62021616 original size:19 final size:18
Alignment explanation
Indices: 62021579--62021618 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
62021569 AGCCCGAATA
*
62021579 TATTATGTTATTAAAATT
1 TATTATATTATTAAAATT
*
62021597 TATTATATTAATTAATATT
1 TATTATATT-ATTAAAATT
62021616 TAT
1 TAT
62021619 ATTTATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TATTATATTATTAAAATT
Found at i:62028596 original size:23 final size:22
Alignment explanation
Indices: 62028565--62028610 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
62028555 TGTATGATTT
*
62028565 ATGTGAAAAATATATGAAATATA
1 ATGTGAAAAATAAAT-AAATATA
* *
62028588 ATGTTAAAATTAAATAAATATA
1 ATGTGAAAAATAAATAAATATA
62028610 A
1 A
62028611 GGGAGTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (22 bp):
ATGTGAAAAATAAATAAATATA
Found at i:62033123 original size:18 final size:17
Alignment explanation
Indices: 62033090--62033123 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
62033080 AAAAATTCTA
*
62033090 TTAAATTATGATTATTT
1 TTAAATTATAATTATTT
62033107 TTAAATGTATAATTATT
1 TTAAAT-TATAATTATT
62033124 AAAACTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:62033703 original size:36 final size:36
Alignment explanation
Indices: 62033651--62033777 Score: 114
Period size: 36 Copynumber: 3.5 Consensus size: 36
62033641 TTTAGAGTTC
*
62033651 TAATAATTCTATTTTAAAATTAGCATAATTTTTAAT
1 TAATAATTCTAATTTAAAATTAGCATAATTTTTAAT
* * * * *
62033687 TAATAATTGTAATTTAAATTCTA--ATTATTTTGAGTT
1 TAATAATTCTAATTTAAAAT-TAGCATAATTTTTA-AT
* * **
62033723 CTAAAAATTCTATTTTAAAATTAGCATAACATTTAAT
1 -TAATAATTCTAATTTAAAATTAGCATAATTTTTAAT
*
62033760 TAATAATTGTAATTTAAA
1 TAATAATTCTAATTTAAA
62033778 TTCTTATATT
Statistics
Matches: 68, Mismatches: 18, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
35 8 0.12
36 35 0.51
37 19 0.28
38 6 0.09
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.47
Consensus pattern (36 bp):
TAATAATTCTAATTTAAAATTAGCATAATTTTTAAT
Found at i:62033732 original size:73 final size:75
Alignment explanation
Indices: 62033636--62033781 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 75
62033626 TCCCTATATT
* **
62033636 TTATGTTTAGAGTTCTAATAATTCTATTTTAAAATTAGCATAATTTTTAATTAATAATTGTAATT
1 TTATGTTTAGAGTTCTAAAAATTCTATTTTAAAATTAGCATAACATTTAATTAATAATTGTAATT
62033701 TAAATTCTAA
66 TAAATTCTAA
62033711 TTAT-TTT-GAGTTCTAAAAATTCTATTTTAAAATTAGCATAACATTTAATTAATAATTGTAATT
1 TTATGTTTAGAGTTCTAAAAATTCTATTTTAAAATTAGCATAACATTTAATTAATAATTGTAATT
62033774 TAAATTCT
66 TAAATTCT
62033782 TATATTGGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 61 0.90
74 3 0.04
75 4 0.06
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (75 bp):
TTATGTTTAGAGTTCTAAAAATTCTATTTTAAAATTAGCATAACATTTAATTAATAATTGTAATT
TAAATTCTAA
Found at i:62034685 original size:21 final size:21
Alignment explanation
Indices: 62034652--62034691 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
62034642 TGTCTCTTTA
*
62034652 TTTAAATTTATTAAAATATGT
1 TTTAAATTAATTAAAATATGT
* *
62034673 TTTAAGTTAATTAATATAT
1 TTTAAATTAATTAAAATAT
62034692 TACTTATGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTAAATTAATTAAAATATGT
Found at i:62044885 original size:142 final size:141
Alignment explanation
Indices: 62044629--62044913 Score: 489
Period size: 142 Copynumber: 2.0 Consensus size: 141
62044619 CCGTGCTGCC
*
62044629 TGACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCGTA
1 TGACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCATA
62044694 GGAATCCGAAAGGTCATCCGCAATCATCCAGAATTCGTAATGAAATGGACATTAGGGAGAAATCT
66 GGAATCCGAAAGGTCATCCGCAATCATCCAGAATTCGTAATGAAATGGACATTAGGGAGAAATCT
62044759 GACAGTAAGCGT
131 GA-AGTAAGCGT
* * * *
62044771 TGACCTGTCTACGTGGGAGGTGCCTCCGACAACTTTTGAGCTTGTTCCAGACAAAGGGTTGCATA
1 TGACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCATA
* *
62044836 GGAATCCGAAAGGTTATCCGCAATCATCCAGAATTCGTAATGAAATGGACATTAGGGAGAAATTT
66 GGAATCCGAAAGGTCATCCGCAATCATCCAGAATTCGTAATGAAATGGACATTAGGGAGAAATCT
*
62044901 GAGGTAAGCGT
131 GAAGTAAGCGT
62044912 TG
1 TG
62044914 TGGATTATAC
Statistics
Matches: 135, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
141 10 0.07
142 125 0.93
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (141 bp):
TGACCTGTCTACGTGAGAGGTGCCTCCGACAACTTTCGAGCTTGTCCCAAACAAAGGGTTGCATA
GGAATCCGAAAGGTCATCCGCAATCATCCAGAATTCGTAATGAAATGGACATTAGGGAGAAATCT
GAAGTAAGCGT
Found at i:62045094 original size:14 final size:14
Alignment explanation
Indices: 62045075--62045103 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
62045065 TAATGTATTT
62045075 AATTTATATTACAA
1 AATTTATATTACAA
62045089 AATTTATATTACAA
1 AATTTATATTACAA
62045103 A
1 A
62045104 GTTTGTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:62045124 original size:62 final size:62
Alignment explanation
Indices: 62045027--62045180 Score: 265
Period size: 62 Copynumber: 2.5 Consensus size: 62
62045017 CAAAGTACCT
62045027 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
*
62045089 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTGTATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
* *
62045151 AATTTATAGTACAAAGCTTT-TTCTAATTTT
1 AATTTATATTACAAAG-TTTGTTCCAATTTT
62045181 AGTGTTTTAA
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
62 85 0.97
63 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.50
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATTACAA
Found at i:62058063 original size:14 final size:14
Alignment explanation
Indices: 62058044--62058074 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
62058034 TTACATGTTT
*
62058044 GAATAGTATCGTTA
1 GAATAGTATCATTA
62058058 GAATAGTATCATTA
1 GAATAGTATCATTA
62058072 GAA
1 GAA
62058075 AAAAATGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.32
Consensus pattern (14 bp):
GAATAGTATCATTA
Found at i:62059322 original size:26 final size:26
Alignment explanation
Indices: 62059268--62059323 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
62059258 AAGTTCATAT
**
62059268 TAAAAAAATAAAAAATAACATGCCAA
1 TAAAAAAATAAAAAATAACATAACAA
62059294 TAAAAAAATATAACAAA-AACATAAC-A
1 TAAAAAAATA-AA-AAATAACATAACAA
62059320 TAAA
1 TAAA
62059324 CGATACATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 15 0.58
27 8 0.31
28 3 0.12
ACGTcount: A:0.71, C:0.11, G:0.02, T:0.16
Consensus pattern (26 bp):
TAAAAAAATAAAAAATAACATAACAA
Found at i:62060025 original size:26 final size:25
Alignment explanation
Indices: 62059996--62060044 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
62059986 TTCTATTTAT
62059996 TTTTTGTCCTTCTCTTTCTCCTTCTC
1 TTTTTGTCCTTCTCTTTC-CCTTCTC
* * *
62060022 TTTTTTTCTTTCTTTTTCCCTTC
1 TTTTTGTCCTTCTCTTTCCCTTC
62060045 CCTTCCCTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTGTCCTTCTCTTTCCCTTCTC
Found at i:62060659 original size:31 final size:31
Alignment explanation
Indices: 62060624--62060705 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
62060614 ACATATGGGT
* **
62060624 AAGTTTTCGTTTTGGTCACTGAACTATTCAA
1 AAGTTTTCATTTAAGTCACTGAACTATTCAA
62060655 AAGTTTTCATTTAAGTCACTGAACTATTCAA
1 AAGTTTTCATTTAAGTCACTGAACTATTCAA
** *
62060686 ATTTTTTAATTTAAGTCACT
1 AAGTTTTCATTTAAGTCACT
62060706 ATTCAAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (31 bp):
AAGTTTTCATTTAAGTCACTGAACTATTCAA
Found at i:62066132 original size:23 final size:23
Alignment explanation
Indices: 62066041--62066135 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
62066031 TGTGTATCCT
* * *
62066041 TTCATATTCAAGCCTCTTAACTT
1 TTCATATTCAAGTCTCTTCACTC
* *
62066064 TTCATCTTCAAGTCTCTTCACTA
1 TTCATATTCAAGTCTCTTCACTC
*
62066087 TTCATATTCAAGTCTTTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
62066110 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
62066133 TTC
1 TTC
62066136 TAACTTTTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.22, C:0.28, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:62068128 original size:13 final size:13
Alignment explanation
Indices: 62068110--62068141 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
62068100 CATACGACCA
*
62068110 TGTGGCCAGGCTG
1 TGTGGCCAGGCCG
62068123 TGTGGCCAGGCCG
1 TGTGGCCAGGCCG
62068136 TGTGGC
1 TGTGGC
62068142 ACCAAACCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.25, G:0.47, T:0.22
Consensus pattern (13 bp):
TGTGGCCAGGCCG
Found at i:62071841 original size:29 final size:31
Alignment explanation
Indices: 62071808--62071873 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
62071798 TTTCATAATA
*
62071808 TAATAAATTA-TTAATA-TA-GTTTATTATTT
1 TAATAAATTATTTAATATTACATTTA-TATTT
62071837 TAATAAATTATTTAATATTACATTTATATTT
1 TAATAAATTATTTAATATTACATTTATATTT
62071868 TAATAA
1 TAATAA
62071874 TAAAATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 10 0.30
30 6 0.18
31 13 0.39
32 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (31 bp):
TAATAAATTATTTAATATTACATTTATATTT
Found at i:62071904 original size:22 final size:23
Alignment explanation
Indices: 62071874--62071916 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
62071864 ATTTTAATAA
62071874 TAAAATTTAAA-AATAATATTTT
1 TAAAATTTAAATAATAATATTTT
* *
62071896 TAAATTTTAAATAATATTATT
1 TAAAATTTAAATAATAATATT
62071917 CATATGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAATTTAAATAATAATATTTT
Found at i:62071961 original size:27 final size:27
Alignment explanation
Indices: 62071862--62071963 Score: 66
Period size: 27 Copynumber: 3.7 Consensus size: 27
62071852 TATTACATTT
* *
62071862 ATATTTTAATAATAAA-ATTTAAAAATA
1 ATATTTTAATAATAAATATTT-ATATTA
** * *
62071889 ATATTTTTAAATTTTAAATA-ATATTATTC
1 ATA-TTTT-AATAATAAATATTTA-TATTA
* *
62071918 ATATGTTATTGAA-AAATATTTATATTA
1 ATATTTTAAT-AATAAATATTTATATTA
62071945 ATATTTTAATAATAAATAT
1 ATATTTTAATAATAAATAT
62071964 ACATATATTA
Statistics
Matches: 54, Mismatches: 14, Indels: 14
0.66 0.17 0.17
Matches are distributed among these distances:
26 2 0.04
27 28 0.52
28 10 0.19
29 13 0.24
30 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (27 bp):
ATATTTTAATAATAAATATTTATATTA
Found at i:62071964 original size:23 final size:23
Alignment explanation
Indices: 62071938--62071991 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
62071928 GAAAAATATT
**
62071938 TATATTAATATTTTAATAATAAA
1 TATATTAATATTACAATAATAAA
* *
62071961 TATA-CATATATTACAATTATAAA
1 TATATTA-ATATTACAATAATAAA
62071984 TATATTAA
1 TATATTAA
62071992 CAATAAATGT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
22 1 0.04
23 22 0.92
24 1 0.04
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TATATTAATATTACAATAATAAA
Found at i:62071986 original size:17 final size:18
Alignment explanation
Indices: 62071961--62071995 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
62071951 TAATAATAAA
*
62071961 TATACATATATT-ACAAT
1 TATAAATATATTAACAAT
62071978 TATAAATATATTAACAAT
1 TATAAATATATTAACAAT
62071996 AAATGTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
TATAAATATATTAACAAT
Found at i:62074057 original size:12 final size:12
Alignment explanation
Indices: 62074040--62074079 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
62074030 TATTTTTTAA
62074040 TTTTAAAATACT
1 TTTTAAAATACT
62074052 TTTTAAAATACT
1 TTTTAAAATACT
*
62074064 TTTTAAAATAAT
1 TTTTAAAATACT
62074076 TTTT
1 TTTT
62074080 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:62074115 original size:26 final size:27
Alignment explanation
Indices: 62074063--62074117 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
62074053 TTTAAAATAC
* *
62074063 TTTTTAAAATAATTTTTTATTTTTTTA
1 TTTTTAAAATAATTTTTTATGTGTTTA
62074090 TTTTTAAAATAATTTTTTA-GTGTTTA
1 TTTTTAAAATAATTTTTTATGTGTTTA
62074116 TT
1 TT
62074118 AAAAAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTTAAAATAATTTTTTATGTGTTTA
Found at i:62074124 original size:26 final size:27
Alignment explanation
Indices: 62074068--62074125 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
62074058 AATACTTTTT
* * ***
62074068 AAAATAATTTTTTATTTTTTTATTTTT
1 AAAATAATTTTTTATGTGTTTATTAAA
62074095 AAAATAATTTTTTA-GTGTTTATTAAA
1 AAAATAATTTTTTATGTGTTTATTAAA
62074121 AAAAT
1 AAAAT
62074126 TGACCGGGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
AAAATAATTTTTTATGTGTTTATTAAA
Found at i:62074613 original size:17 final size:18
Alignment explanation
Indices: 62074581--62074614 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62074571 CCTGACACAT
*
62074581 TTTTGTCTTGTTTTTATC
1 TTTTATCTTGTTTTTATC
62074599 TTTTATCTT-TTTTTAT
1 TTTTATCTTGTTTTTAT
62074615 TTATCTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (18 bp):
TTTTATCTTGTTTTTATC
Found at i:62074619 original size:21 final size:19
Alignment explanation
Indices: 62074591--62074643 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
62074581 TTTTGTCTTG
62074591 TTTTTATCTTTTATCTTTTT
1 TTTTTATCTTTTA-CTTTTT
* *
62074611 TTATTTATCTTATAGTTTTT
1 TT-TTTATCTTTTACTTTTT
*
62074631 TTTTTATTTTTTA
1 TTTTTATCTTTTA
62074644 ACTCTTAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 9 0.32
20 9 0.32
21 10 0.36
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTATCTTTTACTTTTT
Found at i:62081528 original size:23 final size:23
Alignment explanation
Indices: 62081502--62081596 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
62081492 TGAAAAGTTA
*
62081502 GAAGAGTGAAGAGGCTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
*
62081525 GAAGAGTGAAAAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
* *
62081548 GAATAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * *
62081571 GAAAAGTTAAGAGGCTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
62081594 GAA
1 GAA
62081597 AGGATACACA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.44, C:0.04, G:0.29, T:0.22
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:62087060 original size:27 final size:25
Alignment explanation
Indices: 62087021--62087093 Score: 62
Period size: 27 Copynumber: 2.8 Consensus size: 25
62087011 AAATTTAAAC
62087021 TAATTA-AAGAATAATTTTATCTAAATA
1 TAATTATAA-AATAATTTTAT-T-AATA
*
62087048 TAATTATAAAATATATTAATATTAATA
1 TAATTATAAAATA-ATT-TTATTAATA
62087075 TAAATT-TAAAAT-ATTTTAT
1 T-AATTATAAAATAATTTTAT
62087094 AATTTGAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
24 3 0.08
25 3 0.08
27 21 0.52
28 10 0.25
29 3 0.08
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (25 bp):
TAATTATAAAATAATTTTATTAATA
Found at i:62089723 original size:21 final size:21
Alignment explanation
Indices: 62089697--62089740 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
62089687 TTGAGGTGTT
*
62089697 ACAACCGTGTAACCTTTCCAC
1 ACAACCGTGTAACCCTTCCAC
62089718 ACAACCGTGTAACCCTTCCAC
1 ACAACCGTGTAACCCTTCCAC
62089739 AC
1 AC
62089741 GACCTGAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.41, G:0.09, T:0.20
Consensus pattern (21 bp):
ACAACCGTGTAACCCTTCCAC
Found at i:62090510 original size:81 final size:83
Alignment explanation
Indices: 62090321--62090564 Score: 298
Period size: 83 Copynumber: 2.9 Consensus size: 83
62090311 GTGGTGGTTT
* *
62090321 GTCCACAAACCCAGTGGCAGTTTGTTTAATCTGCGAA-TATGTTATGCACTCACAACAAGTGGTA
1 GTCCACAAACCCAGTGGCAGTTTGTTTAATCTGC-AACCATGTTATGCACTCACAACAAGTGGCA
*
62090385 GTTACTGCAAATATGTGGCTA
65 GTAACTGC-AA-ATGTGGCTA
* * * *
62090406 GTCCACAAACCCAGTGGCGGTTTGTTTGATCTGCAACCATG-T-TGCATTCACAACAAGTCGCAG
1 GTCCACAAACCCAGTGGCAGTTTGTTTAATCTGCAACCATGTTATGCACTCACAACAAGTGGCAG
*
62090469 TGACTGCAAATGTGGCTCA
66 TAACTGCAAATGTGGCT-A
** * * * *
62090488 -TCCACAAACCTGGTGGTAGTTTGTTTAATTTGCAACCATGTTGTGCACTCACAACCAGTGGCAG
1 GTCCACAAACCCAGTGGCAGTTTGTTTAATCTGCAACCATGTTATGCACTCACAACAAGTGGCAG
62090552 TAACTGCAAATGT
66 TAACTGCAAATGT
62090565 TTTTATCTAA
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
81 42 0.30
82 4 0.03
83 54 0.39
84 3 0.02
85 35 0.25
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (83 bp):
GTCCACAAACCCAGTGGCAGTTTGTTTAATCTGCAACCATGTTATGCACTCACAACAAGTGGCAG
TAACTGCAAATGTGGCTA
Found at i:62093789 original size:15 final size:15
Alignment explanation
Indices: 62093756--62093826 Score: 65
Period size: 15 Copynumber: 4.7 Consensus size: 15
62093746 TTATTTACTA
* *
62093756 TATTATTACTACTAC
1 TATTATTATTATTAC
*
62093771 TATTATTATTATTAG
1 TATTATTATTATTAC
62093786 TATTA-TATTTATTAC
1 TATTATTA-TTATTAC
*
62093801 TATTACTTACT-TTAC
1 TATTA-TTATTATTAC
62093816 TATTAATTATT
1 TATT-ATTATT
62093827 TACTCATGGC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
14 2 0.04
15 40 0.87
16 2 0.04
17 2 0.04
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.56
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:62099542 original size:7 final size:7
Alignment explanation
Indices: 62099525--62099574 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
62099515 GAGTAAAAAA
62099525 AAAAGATG
1 AAAA-ATG
62099533 AAAAATG
1 AAAAATG
62099540 -AAAATG
1 AAAAATG
62099546 AAAAATG
1 AAAAATG
62099553 -AAAATG
1 AAAAATG
*
62099559 AAATA-G
1 AAAAATG
62099565 TAAAAATG
1 -AAAAATG
62099573 AA
1 AA
62099575 GAGGCTAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 13 0.36
7 18 0.50
8 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
AAAAATG
Found at i:62099546 original size:13 final size:13
Alignment explanation
Indices: 62099530--62099561 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
62099520 AAAAAAAAAG
62099530 ATGAAAAATGAAA
1 ATGAAAAATGAAA
62099543 ATGAAAAATGAAA
1 ATGAAAAATGAAA
62099556 ATGAAA
1 ATGAAA
62099562 TAGTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:62099553 original size:20 final size:21
Alignment explanation
Indices: 62099525--62099574 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
62099515 GAGTAAAAAA
62099525 AAAAGATGAAAAATGAAA-A-T
1 AAAA-ATGAAAAATGAAATAGT
62099545 GAAAAATG-AAAATGAAATAGT
1 -AAAAATGAAAAATGAAATAGT
62099566 AAAAATGAA
1 AAAAATGAA
62099575 GAGGCTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.35
20 11 0.42
21 6 0.23
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
AAAAATGAAAAATGAAATAGT
Found at i:62099569 original size:13 final size:13
Alignment explanation
Indices: 62099519--62099574 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
62099509 CACTTTGAGT
*
62099519 AAAAAAAAAAGATG
1 AAAAATAAAA-ATG
*
62099533 AAAAATGAAAATG
1 AAAAATAAAAATG
*
62099546 AAAAATGAAAATG
1 AAAAATAAAAATG
*
62099559 AAATAGTAAAAATG
1 AAA-AATAAAAATG
62099573 AA
1 AA
62099575 GAGGCTAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
13 19 0.51
14 18 0.49
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAATG
Found at i:62101134 original size:174 final size:174
Alignment explanation
Indices: 62100819--62102711 Score: 3187
Period size: 174 Copynumber: 10.9 Consensus size: 174
62100809 AAGAAGCCAG
* * *
62100819 AGATCTTATCTCCCTGAG-ATTATAGTGGAGCAGATCGAAGACAGCGAATC---TCTTCCTAAGC
1 AGATCTTATCTCCCTAAGCA--GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGC
* *
62100880 AGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGAT
64 AGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT
*
62100945 GGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTAAAGATGGT
129 GGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* *
62100991 AGATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
62101056 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
62101121 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* *
62101165 AGATCTTATCTCTCTAAGCAGTAGTGGAACAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
*
62101230 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
*
62101295 TAGTCCTATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* * * * * *
62101339 AGATTTTATCTCCCTAAGCAGTAGCGTAGCAGATTGAAGACGGTGAATATTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
* *
62101404 TAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
*
62101469 TAGTCCTATCTTCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* *
62101513 AGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
62101578 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGAT-G
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
* *
62101642 -AGTCCTATCTCCCTAAGCAGTAGTGGAACAGGTTAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* *
62101685 AGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
* *
62101750 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTTCCTAAGCAGTAGTGGAGCAAGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
62101815 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* * *
62101859 AGATCTTATCTCCCTAAGCAGTAGCGTAGCAGATCGAAGACGGCGAATATTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
* * *
62101924 TAGTGAAGTAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTGGTGGAGCAGGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
*
62101989 TAGTCCTATCTTCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* *
62102033 AGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
62102098 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
62102163 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
62102207 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
* *
62102272 TAGTGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
*
62102337 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* *
62102381 AGATCTTATCTCTCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
* *
62102446 TAGTGAAACAGATTTAAGCCACTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
*
62102511 -A-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTAAAGATGGT
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
* *
62102553 AGATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
* * * * * *
62102618 TAGTGAAGTAGATCTAAGCCACCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG--CAT-C
66 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
* *
62102680 AAGTCTTATCTCCCTAAGCAGTAGTGGAGCAG
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAG
62102712 ACAGAAGAAA
Statistics
Matches: 1625, Mismatches: 88, Indels: 17
0.94 0.05 0.01
Matches are distributed among these distances:
170 3 0.00
171 55 0.03
172 335 0.21
173 4 0.00
174 1228 0.76
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (174 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGT
Found at i:62102544 original size:868 final size:868
Alignment explanation
Indices: 62100819--62102711 Score: 3291
Period size: 868 Copynumber: 2.2 Consensus size: 868
62100809 AAGAAGCCAG
* *
62100819 AGATCTTATCTCCCTGAG-ATTATAGTGGAGCAGATCGAAGACAGCGAATC---TCTTCCTAAGC
1 AGATCTTATCTCCCTAAGCA--ATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGC
62100880 AGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGAT
64 AGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGAT
*
62100945 GGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTAAAGATGGTAGATCTTATCTCCCTAAGC
129 GGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGC
* *
62101010 AATAGTGAAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
194 AATAGCGAAGCAGATCGAAGACGGCGAATATTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGC
*
62101075 CACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGTCCTATCTCCCTAAGC
259 CACCAATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGTCCTATCTCCCTAAGC
62101140 AGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGCAGTAGTGGAACAGATCGAAGA
324 AGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGCAGTAGTGGAACAGATCGAAGA
*
62101205 CGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAG
389 CGGCGAATCTTATCTTCCTAAGCAATAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAG
*
62101270 CAGTAGTGGAGCAAGTCGAAGATGGTAGTCCTATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGA
454 CAGTAGTGGAGCAAGTCGAAGATGGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGA
* * * *
62101335 TGGTAGATTTTATCTCCCTAAGCAGTAGCGTAGCAGATTGAAGACGGTGAATATTATCTTCCTAA
519 TGGTAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATATTATCTTCCTAA
* * *
62101400 GCAGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCGAAG
584 GCAGTAGTGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGAAGCAAGTCGAAG
*
62101465 ATGGTAGTCCTATCTTCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAA
649 ATGGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAA
* * *
62101530 GCAGTAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAA
714 GCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAACAGATTTAA
62101595 GCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGAGTCCTATCTCCCTAAGC
779 GCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGAGTCCTATCTCCCTAAGC
62101660 AGTAGTGGAACAGGTTAAAGATGGT
844 AGTAGTGGAACAGGTTAAAGATGGT
*
62101685 AGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
* *
62101750 TAGTGAAGCAGATTTAAGCCACCAGTCCTATCTTCCTAAGCAGTAGTGGAGCAAGTCGAAGATGG
66 TAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGG
*
62101815 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAG
131 TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAA
* *
62101880 TAGCGTAGCAGATCGAAGACGGCGAATATTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCA
196 TAGCGAAGCAGATCGAAGACGGCGAATATTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCA
* *
62101945 CCAATCCTATCTCCCTAAGCAGTGGTGGAGCAGGTCGAAGATGGTAGTCCTATCTTCCTAAGCAG
261 CCAATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGTCCTATCTCCCTAAGCAG
*
62102010 TAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACG
326 TAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGCAGTAGTGGAACAGATCGAAGACG
62102075 GCGAATCTTATCTTCCTAAGCAATAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCA
391 GCGAATCTTATCTTCCTAAGCAATAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCA
*
62102140 GTAGTGGAGCAGGTCGAAGATGGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATG
456 GTAGTGGAGCAAGTCGAAGATGGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATG
* *
62102205 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGC
521 GTAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATATTATCTTCCTAAGC
*
62102270 AGTAGTGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGAT
586 AGTAGTGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGAAGCAAGTCGAAGAT
*
62102335 GGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTAAAGATGGTAGATCTTATCTCTCTAAGC
651 GGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGC
62102400 AATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAACAGATTTAAGC
716 AATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAACAGATTTAAGC
*
62102465 CACTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATG-GATCCTATCTCCCTAAGCA
781 CACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGAG-TCCTATCTCCCTAAGCA
*
62102529 GTAGTGGAGCAGGTTAAAGATGGT
845 GTAGTGGAACAGGTTAAAGATGGT
* * *
62102553 AGATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCTAAGCAG
1 AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
* * *
62102618 TAGTGAAGTAGATCTAAGCCACCAGTCTTATCTCCCTAAGCAGTAGTGGAGC-AGATCG--CAT-
66 TAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAG-TCGAAGATG
** *
62102679 CAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAG
130 GTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAG
62102712 ACAGAAGAAA
Statistics
Matches: 974, Mismatches: 47, Indels: 13
0.94 0.05 0.01
Matches are distributed among these distances:
865 57 0.06
866 19 0.02
867 4 0.00
868 894 0.92
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (868 bp):
AGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAG
TAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGG
TAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAA
TAGCGAAGCAGATCGAAGACGGCGAATATTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCA
CCAATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGTCCTATCTCCCTAAGCAG
TAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGCAGTAGTGGAACAGATCGAAGACG
GCGAATCTTATCTTCCTAAGCAATAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCA
GTAGTGGAGCAAGTCGAAGATGGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATG
GTAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATATTATCTTCCTAAGC
AGTAGTGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAGTAGTGAAGCAAGTCGAAGAT
GGTAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCTCTAAGC
AATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAACAGATTTAAGC
CACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGAGTCCTATCTCCCTAAGCAG
TAGTGGAACAGGTTAAAGATGGT
Found at i:62102777 original size:44 final size:43
Alignment explanation
Indices: 62102729--62102927 Score: 146
Period size: 43 Copynumber: 4.7 Consensus size: 43
62102719 AAACCAATTC
*
62102729 TATCTCCTTAAAGTTACAGTGGAGCAGATTAAAACCACAGATCT
1 TATCTCCCTAAAG-TACAGTGGAGCAGATTAAAACCACAGATCT
* * *** *
62102773 TATCTCCCT-ATGTAGTAGTGGAGCAGA-TCGCATCA-AG-TCT
1 TATCTCCCTAAAGTA-CAGTGGAGCAGATTAAAACCACAGATCT
** * *
62102813 TATCTCCCTAAGCAGT--AGTGGAGCAGACAGAAGAAAC-CA-ATCA
1 TATCTCCCTAA--AGTACAGTGGAGCAGA-TTAA-AACCACAGATCT
*
62102856 TATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTAAAG-TACAGTGGAGCAGATTAAAACCACAGATCT
*
62102900 TATCTCCCT-AAGTATTAGTGGAGCAGAT
1 TATCTCCCTAAAGTA-CAGTGGAGCAGAT
62102928 CGCATCTAGT
Statistics
Matches: 119, Mismatches: 21, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
40 23 0.19
41 5 0.04
42 12 0.10
43 49 0.41
44 30 0.25
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (43 bp):
TATCTCCCTAAAGTACAGTGGAGCAGATTAAAACCACAGATCT
Found at i:62102967 original size:127 final size:127
Alignment explanation
Indices: 62102643--62102976 Score: 589
Period size: 127 Copynumber: 2.6 Consensus size: 127
62102633 AAGCCACCAG
*
62102643 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
*
62102708 GCAGACAGAAGAAACCAATTCTATCTCCTTAAAGTTACAGTGGAGCAGATTAAAACCACAGA
66 GCAGACAGAAGAAACCAATTCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACCACAGA
*
62102770 TCTTATCTCCCTATGTAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
*
62102835 GCAGACAGAAGAAACCAA-TCATATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACCACAGA
66 GCAGACAGAAGAAACCAATTC-TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACCACAGA
* *
62102897 TCTTATCTCCCTAAGTATTAGTGGAGCAGATCGCATCTAGTCTTATCTCCCTAAGCAGTAGTGGA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
*
62102962 GCAGACAGAAAAAAC
66 GCAGACAGAAGAAAC
62102977 ACAAACATTG
Statistics
Matches: 198, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
126 2 0.01
127 196 0.99
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (127 bp):
TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGA
GCAGACAGAAGAAACCAATTCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAACCACAGA
Found at i:62104526 original size:15 final size:14
Alignment explanation
Indices: 62104482--62104541 Score: 54
Period size: 15 Copynumber: 4.3 Consensus size: 14
62104472 TTACTACTAC
62104482 TACTATT-ATTA-T
1 TACTATTAATTATT
*
62104494 TAGTATTATATT-TAT
1 TACTATTA-ATTAT-T
*
62104509 TACTATTACTTACTT
1 TACTATTAATTA-TT
62104524 TACTATTAATTATT
1 TACTATTAATTATT
62104538 TACT
1 TACT
62104542 CATGGCGCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
12 6 0.16
14 11 0.29
15 20 0.53
16 1 0.03
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.57
Consensus pattern (14 bp):
TACTATTAATTATT
Found at i:62107588 original size:18 final size:18
Alignment explanation
Indices: 62107553--62107591 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
62107543 TTTTTTAGAG
* * *
62107553 TAAAAGTTTTATACATTT
1 TAAAAGTTGTAGAAATTT
62107571 TAAAAGTTGTAGAAATTT
1 TAAAAGTTGTAGAAATTT
62107589 TAA
1 TAA
62107592 TTACTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (18 bp):
TAAAAGTTGTAGAAATTT
Found at i:62113877 original size:42 final size:43
Alignment explanation
Indices: 62113830--62114034 Score: 143
Period size: 42 Copynumber: 4.6 Consensus size: 43
62113820 CAAACAAAAA
* *
62113830 CGCCGCTAAAGATA-ATGTTCTTTAGCGGCGTTTTTTTC-TAAG
1 CGCCGCTAAAGAAACATGATCTTTAGCGGCG-TTTTTTCATAAG
*
62113872 CGCCGCTAAA-AAACATGATCTTTAGTGGCGTTTTTTCATAAG
1 CGCCGCTAAAGAAACATGATCTTTAGCGGCGTTTTTTCATAAG
*
62113914 CGCCGCTAAAGAACGCTACTAAAGAACATGATCTTTAGCGGCATTTTTTTC-TAAG
1 CGCCGCT--A-AA-G-------A-AACATGATCTTTAGCGGC-GTTTTTTCATAAG
* * * ** *
62113969 CGCCGCTAAAG-GACATGATCTTTAGCGGCATTTGTGAATATG
1 CGCCGCTAAAGAAACATGATCTTTAGCGGCGTTTTTTCATAAG
*
62114011 CGCCGCTAAAG-AACATGTTCTTTA
1 CGCCGCTAAAGAAACATGATCTTTA
62114035 ACGACACTTT
Statistics
Matches: 133, Mismatches: 13, Indels: 34
0.74 0.07 0.19
Matches are distributed among these distances:
41 13 0.10
42 77 0.58
44 1 0.01
45 2 0.02
51 1 0.01
52 2 0.02
53 1 0.01
54 1 0.01
55 28 0.21
56 7 0.05
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (43 bp):
CGCCGCTAAAGAAACATGATCTTTAGCGGCGTTTTTTCATAAG
Found at i:62113949 original size:97 final size:97
Alignment explanation
Indices: 62113835--62114024 Score: 274
Period size: 97 Copynumber: 2.0 Consensus size: 97
62113825 AAAAACGCCG
* * *
62113835 CTAAAGATAATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAAAACATGATCTTTAGTGG
1 CTAAAGATAATGATCTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAAAACATGATCTTTAGCGG
* * **
62113900 CGTTTTTTCATAAGCGCCGCTAAAGAACGCTA
66 CATTTGTGAATAAGCGCCGCTAAAGAACGCTA
**
62113932 CTAAAGA-ACATGATCTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAGGACATGATCTTTAGCG
1 CTAAAGATA-ATGATCTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAAAACATGATCTTTAGCG
*
62113996 GCATTTGTGAATATGCGCCGCTAAAGAAC
65 GCATTTGTGAATAAGCGCCGCTAAAGAAC
62114025 ATGTTCTTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 1 0.01
97 81 0.99
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (97 bp):
CTAAAGATAATGATCTTTAGCGGCATTTTTTTCTAAGCGCCGCTAAAAAACATGATCTTTAGCGG
CATTTGTGAATAAGCGCCGCTAAAGAACGCTA
Found at i:62114468 original size:21 final size:21
Alignment explanation
Indices: 62114442--62114512 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
62114432 TTTTGCTCTG
*
62114442 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
*
62114463 CTCTGCTTCCCTCGATGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
* *
62114484 CGCTGCTTCCCTCGCTGTCGC
1 CTCTGCTTCCCTCGCTGTAGC
62114505 CTCTGCTT
1 CTCTGCTT
62114513 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.04, C:0.41, G:0.20, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:62119798 original size:28 final size:28
Alignment explanation
Indices: 62119732--62119786 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
62119722 AATATATAGT
* *
62119732 ACTAATAATTATAAATTTTAGTGTTTTC
1 ACTAATATTTTTAAATTTTAGTGTTTTC
62119760 ACTAATATTTTTAAATTTTAGTGTTTT
1 ACTAATATTTTTAAATTTTAGTGTTTT
62119787 TATTTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (28 bp):
ACTAATATTTTTAAATTTTAGTGTTTTC
Found at i:62121298 original size:23 final size:23
Alignment explanation
Indices: 62121255--62121298 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
62121245 CCTAAATTAT
* *
62121255 ACATATTTTACAATTACATAAGA
1 ACATATTTTAAAATTAAATAAGA
62121278 ACATA-TTTAAAATATAAATAA
1 ACATATTTTAAAAT-TAAATAA
62121299 AAAATTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (23 bp):
ACATATTTTAAAATTAAATAAGA
Found at i:62121465 original size:388 final size:382
Alignment explanation
Indices: 62120607--62121489 Score: 1365
Period size: 388 Copynumber: 2.3 Consensus size: 382
62120597 CTAACCCCTA
* * *
62120607 AACCCCTAACCCCTAAATCATAAATCTCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAA
1 AACCCCTAACCCCTAAACCTTAAATCCCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAA
*
62120672 TCCCTAAATCCATATATATATAGTACTCCCTAAACATTAAAAAGAATTAATTATTTGTATAAAAT
66 TCCCTAAATCCATATATATATAGTACTCCCTAAACATTAAAAAGAATTAATTAATTGTATAAAAT
62120737 TCAAAATCTCAGTTAAACCTTAATCTTACTAAACCCGCCTAAATTAACCATTGAAGGGATATAAA
131 TCAAAATCTCAGTTAAACCTTAATCTTACTAAACCCGCCTAAATTAACCATTGAAGGGATATAAA
** *
62120802 TATTTAAGTGTTCTATCTATTATATATATCTCTCTCAAGGCATAATTTAAACCCTAATTTATACA
196 TATTTAAGTACTCTATCTATTATATATATCTCTCTCAAGGCATAATTTAAACCCTAAATTATACA
* *
62120867 TCTTTTACAATTACATAAGAACATATTTAAAATATAAATAAAAAATTAATCTAAACCCAAAATTG
261 TATTTTACAATTACATAAGAACATATTTAAAATATAAATAAAAAATTAATCTAAACCCAAAACTG
* * *
62120932 TAACCAGACCCCTGAAACCCTAAACCTTAAATCCCTAAGTCTTAATAACTAACATCT
326 TAACCAGACCCCTAAAACCCTAAACCTAAAATCCCTAAGTCTTAACAACTAACATCT
* *
62120989 AACCCATAAACCCCTCCCTTAAACCTTAAATCCCGGCCAACCCTTAGTTAAGCATAATCCATAAT
1 AACCCCT-AA---C-CCC-TAAACCTTAAATCCCGGCCAACCCTTAATTAAGCATAATCCATAAT
* *
62121054 CTATAACCCCTAAATCCATATATATATAGTACTCCCTAAACATTAAAAAGCATTAATTAATTGTA
60 CTATAATCCCTAAATCCATATATATATAGTACTCCCTAAACATTAAAAAGAATTAATTAATTGTA
* *
62121119 TAAAATTCAAAATCTCAGTTAAGCCTTAATCTTATTAAACCCGCCTAAATTAACCATTGAAGGGA
125 TAAAATTCAAAATCTCAGTTAAACCTTAATCTTACTAAACCCGCCTAAATTAACCATTGAAGGGA
*
62121184 TATAAATATTTAAGTACTCTATCTATTATATATCTCTCTCTCAAGGCATAATTAATTAAACCCTA
190 TATAAATATTTAAGTACTCTATCTATTATATATATCTCTCTCAAGGCATAA-T--TTAAACCCTA
62121249 AATTATACATATTTTACAATTACATAAGAACATATTTAAAATATAAATAAAAAATTAATCTAAA-
252 AATTATACATATTTTACAATTACATAAGAACATATTTAAAATATAAATAAAAAATTAATCTAAAC
* *
62121313 CCAAAACTGTAACCCGACCCCTAAAACCCTAAACAC-AAAATCCCTAAGTCTTAACCACTAACAT
317 CCAAAACTGTAACCAGACCCCTAAAACCCTAAAC-CTAAAATCCCTAAGTCTTAACAACTAACAT
62121377 CT
381 CT
* * * *
62121379 AACCCCTAACCCCTAAACCTTAAATCCCAGCCAACCCTTAATTAAGCAAAACCCCTAATCTATAA
1 AACCCCTAACCCCTAAACCTTAAATCCCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAA
* * * *
62121444 TCCATATATAAATCAATATATATATAGTACTCCTTAAACCTTAAAA
66 TCC----CTAAATCCATATATATATAGTACTCCCTAAACATTAAAA
62121490 TTATATGAAC
Statistics
Matches: 455, Mismatches: 32, Indels: 22
0.89 0.06 0.04
Matches are distributed among these distances:
382 6 0.01
383 2 0.00
384 49 0.11
385 3 0.01
386 2 0.00
387 3 0.01
388 250 0.55
389 3 0.01
390 64 0.14
391 73 0.16
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (382 bp):
AACCCCTAACCCCTAAACCTTAAATCCCGGCCAACCCTTAATTAAGCATAATCCATAATCTATAA
TCCCTAAATCCATATATATATAGTACTCCCTAAACATTAAAAAGAATTAATTAATTGTATAAAAT
TCAAAATCTCAGTTAAACCTTAATCTTACTAAACCCGCCTAAATTAACCATTGAAGGGATATAAA
TATTTAAGTACTCTATCTATTATATATATCTCTCTCAAGGCATAATTTAAACCCTAAATTATACA
TATTTTACAATTACATAAGAACATATTTAAAATATAAATAAAAAATTAATCTAAACCCAAAACTG
TAACCAGACCCCTAAAACCCTAAACCTAAAATCCCTAAGTCTTAACAACTAACATCT
Found at i:62122454 original size:117 final size:114
Alignment explanation
Indices: 62122001--62122498 Score: 718
Period size: 113 Copynumber: 4.3 Consensus size: 114
62121991 ATTAAGGTAA
*
62122001 AAGGCCACCAAAGGCCACTAAACGACGCCGTTGTATTTTATTTTTTGCGGCATTTTTCC-AGAAA
1 AAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTATTTTTTGCGGCATTTTTCCTA-AAA
* * *
62122065 ACGCCGCTAAAAA-AAAGATCATTAGCGGCGCTATACCAAAAACGCCACT
65 ACGCCGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACT
* * *
62122114 AGGGCCACCGAAGGCCACTAAACGACGCCGTTTTATTTTATTTTTTTTGCGGCATTTATCCTAAA
1 AAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTA--TTTTTTGCGGCATTTTTCCTAAA
* *
62122179 AATGCCGCTAAAAACACAGACCATTAGCGGCGCCAGACCAAAAACGCCACT
64 AACGCCGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACT
* * *
62122230 AAGGCCACCGTA-GCCACTAAACGACGCCGTTGTATTTTATTTTTTGCGGCGTTCTTCCTAAAAA
1 AAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTATTTTTTGCGGCATTTTTCCTAAAAA
62122294 CGCCGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACT
66 CGCCGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACT
* * * **
62122343 AAGACCACCGAAGGCCACTAAACGACGCCATTGTATTTTATTTTTTGCGGCGTTTTTTTTTTTGA
1 AAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTATTTTTTGCGGC---ATTTTTCCT-A
62122408 AAAA-GCCGCTAAAAACACAGACCATTAGCGGC-CTAAGACCAAAAACGCCACT
62 AAAACGCCGCTAAAAACACAGACCATTAGCGGCGCT-AGACCAAAAACGCCACT
* *
62122460 AGGGCCACCGAATGCCACTAAACGACGCCGTTGTATTTT
1 AAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATTTT
62122499 GCTAAAAACA
Statistics
Matches: 347, Mismatches: 28, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
113 116 0.33
114 37 0.11
115 59 0.17
116 45 0.13
117 85 0.24
118 5 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (114 bp):
AAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATTTTATTTTTTGCGGCATTTTTCCTAAAAA
CGCCGCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACT
Found at i:62122506 original size:84 final size:84
Alignment explanation
Indices: 62122415--62122582 Score: 284
Period size: 84 Copynumber: 2.0 Consensus size: 84
62122405 TGAAAAAGCC
* *
62122415 GCTAAAAACACAGACCATTAGCGGC-CTAAGACCAAAAACGCCACTAGGGCCACCGAATGCCACT
1 GCTAAAAACACAGACCATTAGCGGCGCT-AGACCAAAAACGCCACTAAGGCCACCGAAGGCCACT
* *
62122479 AAACGACGCCGTTGTATTTT
65 AAACAACACCGTTGTATTTT
62122499 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
62122564 AACAACACCGTTGTATTTT
66 AACAACACCGTTGTATTTT
62122583 ATTTTTTGCG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 77 0.97
85 2 0.03
ACGTcount: A:0.36, C:0.30, G:0.18, T:0.16
Consensus pattern (84 bp):
GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
AACAACACCGTTGTATTTT
Found at i:62122715 original size:197 final size:196
Alignment explanation
Indices: 62122298--62122974 Score: 1099
Period size: 197 Copynumber: 3.4 Consensus size: 196
62122288 TAAAAACGCC
*
62122298 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGACCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
* *
62122363 AACGACGCCATTGTATTTTATTTTTTGCGGCGTTTTTTTTTTTGAAAAAGCCGCTAAAAACACAG
66 AACGACGCCATTGTATTTTATTTTTTGCGGC----ATTTTTTTGAAAACGCCGCTAAAAACACAG
* * *
62122428 ACCATTAGCGGC-CTAAGACCAAAAACGCCACTAGGGCCACCGAATGCCACTAAACGACGCCGTT
127 ACCATTAGCGGCGC-AAGA-CAAAAAAGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTT
62122492 GTATTTT
190 GTATTTT
62122499 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
* * *
62122564 AACAACACCGTTGTATTTTATTTTTTGCGGCATTTTTTTGAAAACGCCGCTAAAAACACAGACCA
66 AACGACGCCATTGTATTTTATTTTTTGCGGCATTTTTTTGAAAACGCCGCTAAAAACACAGACCA
* * *
62122629 TTAGCGGCGCAATACAGAAAAAGCGACTAAGGCCACCGAAGGCCACTAAACGATGCCGTTGTATT
131 TTAGCGGCGCAAGACA-AAAAAGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATT
62122694 TT
195 TT
62122696 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
* * ** *
62122761 AATGACGCCGTTGTATTTTATTTTTTAAGGCA-TTTTTT-AAAACGTCGCTAAAAACACAGACCA
66 AACGACGCCATTGTATTTTATTTTTTGCGGCATTTTTTTGAAAACGCCGCTAAAAACACAGACCA
*
62122824 TTAGCGGCGCAAGACAAAAAATGCCACTAAGGCCACCAAAGGCCACTAAACGACGCCGTTGTATT
131 TTAGCGGCGCAAGACAAAAAA-GCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATT
62122889 TT
195 TT
62122891 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
62122956 AACGACGCCATTGTATTTT
66 AACGACGCCATTGTATTTT
62122975 GCTAAAAACA
Statistics
Matches: 449, Mismatches: 24, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
194 5 0.01
195 163 0.36
196 8 0.02
197 180 0.40
198 1 0.00
201 92 0.20
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (196 bp):
GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
AACGACGCCATTGTATTTTATTTTTTGCGGCATTTTTTTGAAAACGCCGCTAAAAACACAGACCA
TTAGCGGCGCAAGACAAAAAAGCCACTAAGGCCACCGAAGGCCACTAAACGACGCCGTTGTATTT
T
Found at i:62122753 original size:84 final size:84
Alignment explanation
Indices: 62122612--62122779 Score: 266
Period size: 84 Copynumber: 2.0 Consensus size: 84
62122602 TGAAAACGCC
* *
62122612 GCTAAAAACACAGACCATTAGCGGCGCAATACAGAAAAAGCGACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCAAGACAGAAAAAGCCACTAAGGCCACCGAAGGCCACTA
*
62122677 AACGATGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
* *
62122696 GCTAAAAACACAGACCATTAGCGGCGCTAGACCA-AAAACGCCACTAAGGCCACCGAAGGCCACT
1 GCTAAAAACACAGACCATTAGCGGCGCAAGA-CAGAAAAAGCCACTAAGGCCACCGAAGGCCACT
*
62122760 AAATGACGCCGTTGTATTTT
65 AAACGACGCCGTTGTATTTT
62122780 ATTTTTTAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 75 0.97
85 2 0.03
ACGTcount: A:0.36, C:0.27, G:0.21, T:0.17
Consensus pattern (84 bp):
GCTAAAAACACAGACCATTAGCGGCGCAAGACAGAAAAAGCCACTAAGGCCACCGAAGGCCACTA
AACGACGCCGTTGTATTTT
Found at i:62122950 original size:84 final size:84
Alignment explanation
Indices: 62122807--62123058 Score: 441
Period size: 84 Copynumber: 3.0 Consensus size: 84
62122797 TTAAAACGTC
* * * *
62122807 GCTAAAAACACAGACCATTAGCGGCGCAAGACAAAAAATGCCACTAAGGCCACCAAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
62122872 AACGACGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
62122891 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
*
62122956 AACGACGCCATTGTATTTT
66 AACGACGCCGTTGTATTTT
*
62122975 GCTAAAAACACAGACCATTAACGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
1 GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
*
62123040 AACGATGCCGTTGTATTTT
66 AACGACGCCGTTGTATTTT
62123059 TTTTGCGGCA
Statistics
Matches: 160, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 160 1.00
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.16
Consensus pattern (84 bp):
GCTAAAAACACAGACCATTAGCGGCGCTAGACCAAAAACGCCACTAAGGCCACCGAAGGCCACTA
AACGACGCCGTTGTATTTT
Found at i:62125872 original size:29 final size:31
Alignment explanation
Indices: 62125803--62125879 Score: 106
Period size: 29 Copynumber: 2.5 Consensus size: 31
62125793 AATTATTAGT
62125803 AAGTTAGATTATCTCTCTTTTATCAAAAAAAAA
1 AAGTTAGATTATCTCTCTTTTATC--AAAAAAA
62125836 AAGTTAGATTATCTCT-TTCTT-TC-AAAAAA
1 AAGTTAGATTATCTCTCTT-TTATCAAAAAAA
62125865 AAGTTAGATTATCTC
1 AAGTTAGATTATCTC
62125880 ATTTTATTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
29 21 0.49
32 4 0.09
33 18 0.42
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (31 bp):
AAGTTAGATTATCTCTCTTTTATCAAAAAAA
Found at i:62127741 original size:24 final size:23
Alignment explanation
Indices: 62127695--62127764 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
62127685 ATGAGAAACC
* *
62127695 AAAATTTTATTTTATTTTAATTT
1 AAAATTTTATTATATTTTTATTT
62127718 AAAATTTTATTATATTTTTTATTT
1 AAAATTTTATTATA-TTTTTATTT
** *
62127742 ATGATTTT-TAATAATTTTTATTT
1 AAAATTTTATTAT-ATTTTTATTT
62127765 TGATAATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 25 0.62
24 15 0.38
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (23 bp):
AAAATTTTATTATATTTTTATTT
Found at i:62127758 original size:17 final size:16
Alignment explanation
Indices: 62127738--62127795 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 16
62127728 TATATTTTTT
62127738 ATTTATGATTTTTAATA
1 ATTT-TGATTTTTAATA
*
62127755 ATTTTTATTTTGATAATA
1 ATTTTGATTTT--TAATA
*
62127773 TTTTTGAATTTTTAATTA
1 ATTTTG-ATTTTTAA-TA
62127791 ATTTT
1 ATTTT
62127796 AAAATTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.18
17 7 0.21
18 15 0.45
19 5 0.15
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTTGATTTTTAATA
Found at i:62127806 original size:35 final size:34
Alignment explanation
Indices: 62127737--62127806 Score: 79
Period size: 35 Copynumber: 2.0 Consensus size: 34
62127727 TTATATTTTT
* **
62127737 TATTTATGATTTTTAATAATTTTTATTTTGATAA
1 TATTTATGATTTTTAATAATTTTAAAATTGATAA
*
62127771 TATTTTTGAATTTTTAATTAATTTTAAAATT-ATAA
1 TATTTATG-ATTTTTAA-TAATTTTAAAATTGATAA
62127806 T
1 T
62127807 TCCATTCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
34 7 0.23
35 13 0.43
36 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (34 bp):
TATTTATGATTTTTAATAATTTTAAAATTGATAA
Found at i:62128236 original size:58 final size:60
Alignment explanation
Indices: 62128080--62128241 Score: 152
Period size: 61 Copynumber: 2.7 Consensus size: 60
62128070 ACTTGGATTT
* * * * *
62128080 AAAA-AAAAGGTTAAAGTCTCAATGTGGGAACATTTGTGAAGTTCAGGGCCTAACTTGGACC
1 AAAAGAAAA-GTTCAAGTCTCAATGTGGGAA-AATTGTCAAGTTCAAGGCCTAACTTAGACC
* * * * * *
62128141 AAAAGAAAAGTTCAGGCCGCAATGTGAGAACAATTGTCAAGTTCAAGGTCTAATTTAGA-C
1 AAAAGAAAAGTTCAAGTCTCAATGTGGGAA-AATTGTCAAGTTCAAGGCCTAACTTAGACC
*
62128201 AGAA-AAAA-TTCAAGTCTCAATGTGGGAAAAGTTGTCAAGTT
1 AAAAGAAAAGTTCAAGTCTCAATGTGGGAAAA-TTGTCAAGTT
62128242 TAAATCCCAA
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
57 2 0.02
58 26 0.31
59 4 0.05
60 4 0.05
61 43 0.52
62 4 0.05
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (60 bp):
AAAAGAAAAGTTCAAGTCTCAATGTGGGAAAATTGTCAAGTTCAAGGCCTAACTTAGACC
Found at i:62131372 original size:3 final size:3
Alignment explanation
Indices: 62131364--62131432 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
62131354 CGTATATATG
62131364 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62131412 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
62131433 AGTCATAGTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:62131515 original size:29 final size:30
Alignment explanation
Indices: 62131465--62131526 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
62131455 TAAAAAATGA
* ** * *
62131465 AAAAAAATAAAAAAGGGTTAAATT-GAACT
1 AAAAAAAGAAAAAAAAGCTAAATTCGAAAT
62131494 AAAAAAAGAAAAAAAAGCTAAATTCGAAAT
1 AAAAAAAGAAAAAAAAGCTAAATTCGAAAT
62131524 AAA
1 AAA
62131527 TCTGAAAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.68, C:0.05, G:0.11, T:0.16
Consensus pattern (30 bp):
AAAAAAAGAAAAAAAAGCTAAATTCGAAAT
Found at i:62133054 original size:43 final size:43
Alignment explanation
Indices: 62133006--62133199 Score: 124
Period size: 44 Copynumber: 4.4 Consensus size: 43
62132996 GATCTGAAAT
*
62133006 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAAAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAAAATTACTGG
* ** * * * ***
62133049 CTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCAT
1 CTTCAATCTACTCCACTGCTGC-CCAGGGAAGTAAAAT-TACTGG
* * ** ** * *
62133094 CTTCGATCTGCTCCACTATTGCTTAGGG-AGATAAGA-T-CTGTAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAG-TAAAATTACTG---G
* *
62133138 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAAAATTACTGG
*
62133181 CTTCAATGTACTCCACTGC
1 CTTCAATCTACTCCACTGC
62133200 AACTTCAGGG
Statistics
Matches: 107, Mismatches: 35, Indels: 18
0.67 0.22 0.11
Matches are distributed among these distances:
41 1 0.01
43 36 0.34
44 47 0.44
45 20 0.19
46 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAAAATTACTGG
Found at i:62133961 original size:44 final size:44
Alignment explanation
Indices: 62133649--62134093 Score: 142
Period size: 44 Copynumber: 10.1 Consensus size: 44
62133639 ACTACTGCTT
* *
62133649 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCCGCCC
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
* * * **
62133693 AGGGAGA-TAGAATTACTG---GCTTCAATGTACTCCACTGCAACCTC
1 AGGGAGACAAG-A-T-CTGAAATCTTCAATCTACTCCACTGCTGCC-C
** * * * ** * * **
62133737 AGGGAGGTAAAATC-CACCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGACAAGATCTGA-AATCTTCAATCTACTCCACTGCTGCCC
* *
62133781 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCC
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
* * * * **
62133825 AGGGAAGTAGAA-TTACTG---GCTTCAATGTACTCCACTGCAACCTC
1 AGGG-AG-ACAAGAT-CTGAAATCTTCAATCTACTCCACTGCTGCC-C
* ** * ** ** * * **
62133869 TGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
* *
62133913 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
** * * * **
62133957 AGGGA-AGTAGAAT-T--ACTCGCTTTAATGTACTCCACTGCAACCAC
1 AGGGAGACAAG-ATCTGAAAT--CTTCAATCTACTCCACTGCTGCC-C
** * ** ** * * **
62134001 AGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
* *
62134045 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCC
1 AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
62134089 AGGGA
1 AGGGA
62134094 AGTAGAATTT
Statistics
Matches: 270, Mismatches: 105, Indels: 52
0.63 0.25 0.12
Matches are distributed among these distances:
41 2 0.01
42 6 0.02
43 64 0.24
44 134 0.50
45 54 0.20
46 9 0.03
47 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (44 bp):
AGGGAGACAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
Found at i:62134225 original size:132 final size:132
Alignment explanation
Indices: 62132925--62134202 Score: 1706
Period size: 132 Copynumber: 9.7 Consensus size: 132
62132915 ACTTTCTACA
* * * * *
62132925 TACTCCACTGTAACTTCAGAGAGGTAAAATTTACCATATTTGATCTGCTCCACTACTGCTT-GAG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAG-G
*
62132989 GAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAAAATTACTGGCTTCA
65 GAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCA
62133054 ATG
130 ATG
* * * *
62133057 TACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTATTGCTTAGGG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGG
* *
62133122 AGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
66 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
62133187 TG
131 TG
* ** ** * *
62133189 TACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCAATCTTCTTCGCTGTCTA-TGC--
1 TACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGC-TC-C--ACTACTGCTT
* ** * * * *
62133251 AGGAAGGGAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCTGGG-AGATAGAATTGCTGGC
62 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGC
*
62133315 TTCAATA
126 TTCAATG
* * * * **
62133322 TACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCGTCTTCGATCTTCTTCGGTGTCTA-TGC--
1 TACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGC-TC---CACTACTGCTT
* * * *
62133384 AGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCCCAGGG-AGATA-AAGTTACTGG
62 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAA-TTACTGG
*
62133447 CTTCAATA
125 CTTCAATG
* *
62133455 TACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCACTACTGCTT-GG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATCT-ACCATCTTTGATCTGCTCCACTACTGCTTAGG
* * *
62133518 GAAGACAAGATCTGAAATCTTTAAATCTATTCTACTGCTGCCTAGGGAAGTAGAATTACTGGCTT
65 G-AGACAAGATCTGAAATC-TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTT
62133583 CAATG
128 CAATG
* * *
62133588 TACTCCACTGTAACCACAGGGGGGTAAAAT-TCACCATCTTTGATCTGAC-CCACTACTGCTTAG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATCT-ACCATCTTTGATCTG-CTCCACTACTGCTTAG
*
62133651 GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCCGCCCAGGG-AGATAGAATTACTGGCTT
64 GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTT
62133715 CAATG
128 CAATG
*
62133720 TACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGG
*
62133785 AGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAA
66 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
62133850 TG
131 TG
* *
62133852 TACTCCACTGCAACCTCTGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGG
* * *
62133917 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTCGCTTTAA
66 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
62133982 TG
131 TG
* *
62133984 TACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGG
* *
62134049 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAA
66 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
62134114 TG
131 TG
* * * *
62134116 TACTCCACTGCAACCACAGGGAGGTAAAATCTGCCGT-TTTCGATCTGCTTCACTACTGCTTAGG
1 TACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTT-GATCTGCTCCACTACTGCTTAGG
*
62134180 GAGGCAAGATCTGAAATCTTCAA
65 GAGACAAGATCTGAAATCTTCAA
62134203 CCTGCTCCAC
Statistics
Matches: 1048, Mismatches: 74, Indels: 48
0.90 0.06 0.04
Matches are distributed among these distances:
129 3 0.00
130 3 0.00
131 8 0.01
132 682 0.65
133 337 0.32
134 9 0.01
135 3 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (132 bp):
TACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGG
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TG
Found at i:62134317 original size:17 final size:17
Alignment explanation
Indices: 62134275--62134319 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
62134265 AGGAAGGCAA
*
62134275 GATCTGTTATCATCACT
1 GATCTGTTCTCATCACT
62134292 GATCTGTTCTCATCACT
1 GATCTGTTCTCATCACT
62134309 GATCTGTTCTC
1 GATCTGTTCTC
62134320 TGGGGAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.18, C:0.27, G:0.13, T:0.42
Consensus pattern (17 bp):
GATCTGTTCTCATCACT
Found at i:62135554 original size:14 final size:15
Alignment explanation
Indices: 62135531--62135571 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
62135521 AGCCTCTCCA
*
62135531 TTTTCTTTTTTCAT-
1 TTTTCATTTTTCATC
62135545 TTTTCA-TTTTCATC
1 TTTTCATTTTTCATC
*
62135559 TTGTCATTTTTCA
1 TTTTCATTTTTCA
62135572 CATCACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTTCATTTTTCATC
Found at i:62150773 original size:21 final size:19
Alignment explanation
Indices: 62150730--62150776 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
62150720 CGAATACGCC
*
62150730 AACAGAAGCTCAAAAGTTG
1 AACAGAAGCTCAAAAGCTG
*
62150749 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTC--AAAAGCTG
62150770 AACAGAA
1 AACAGAA
62150777 AGTAATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
21 13 0.54
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (19 bp):
AACAGAAGCTCAAAAGCTG
Found at i:62153406 original size:27 final size:30
Alignment explanation
Indices: 62153342--62153413 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 30
62153332 TATTTTCATA
* *
62153342 TATATACATTATTTAGTTTAAATTGTCTTT
1 TATATATATTATTTAGTTTAAATTGTATTT
62153372 TAATATATATTATTTAGTTTAAA-T-TATTT
1 T-ATATATATTATTTAGTTTAAATTGTATTT
*
62153401 T-TATATGTTATTT
1 TATATATATTATTT
62153414 CAAAATTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 11 0.29
29 5 0.13
30 2 0.05
31 20 0.53
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.60
Consensus pattern (30 bp):
TATATATATTATTTAGTTTAAATTGTATTT
Found at i:62153683 original size:22 final size:22
Alignment explanation
Indices: 62153635--62153684 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
62153625 TTTTCACGTA
* *
62153635 CTATTTATTTGTTTTTTATCAC
1 CTATTTAATTGTTTTCTATCAC
*
62153657 TTATTTAAATTGTTTTCTAT-AC
1 CTATTT-AATTGTTTTCTATCAC
62153679 CTATTT
1 CTATTT
62153685 TTAAACCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.22, C:0.12, G:0.04, T:0.62
Consensus pattern (22 bp):
CTATTTAATTGTTTTCTATCAC
Found at i:62162567 original size:13 final size:13
Alignment explanation
Indices: 62162542--62162575 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
62162532 TCTGACTTAG
62162542 GTCACACGACCAA
1 GTCACACGACCAA
* *
62162555 GTTACACGGCCAA
1 GTCACACGACCAA
62162568 GTCACACG
1 GTCACACG
62162576 TTCGTGTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.35, G:0.21, T:0.12
Consensus pattern (13 bp):
GTCACACGACCAA
Found at i:62163551 original size:21 final size:21
Alignment explanation
Indices: 62163503--62163572 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
62163493 CGAATACACC
**
62163503 AACAGAAGCTCGTAAGAATTG
1 AACAGAAGCTCGTAAGAGCTG
* *
62163524 AATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTG
62163545 AACAGAAGCTCAG-AAGAGCTG
1 AACAGAAGCTC-GTAAGAGCTG
62163566 AACAGAA
1 AACAGAA
62163573 AGTAAAACAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:62166858 original size:3 final size:3
Alignment explanation
Indices: 62166842--62166921 Score: 63
Period size: 3 Copynumber: 26.3 Consensus size: 3
62166832 TATGATAAAT
* * *
62166842 ATA ATA ATCT ATA ATA ATA AGA GTA ATA ATA TATA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
** * * *
62166889 A-A AGG CTA ATA ATA ATA ATA ATA TTA TTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
62166922 ACTAATATTA
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.03
3 54 0.89
4 5 0.08
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:62177337 original size:12 final size:13
Alignment explanation
Indices: 62177310--62177340 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
62177300 TCATTTAATC
62177310 ATCAAGTTTTTCA
1 ATCAAGTTTTTCA
62177323 ATCAAGTTTTT-A
1 ATCAAGTTTTTCA
62177335 ATCAAG
1 ATCAAG
62177341 CTTTCATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (13 bp):
ATCAAGTTTTTCA
Found at i:62179335 original size:20 final size:22
Alignment explanation
Indices: 62179284--62179335 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 22
62179274 ATTCAAATTT
*
62179284 TAAAGGTAAAATCTTTAAAAGAA
1 TAAA-GTAAAATATTTAAAAGAA
62179307 TAATA-TAAAATATTT-AAA-AA
1 TAA-AGTAAAATATTTAAAAGAA
62179327 TAAAGTAAA
1 TAAAGTAAA
62179336 CTAAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.04
20 9 0.35
21 3 0.12
22 9 0.35
23 3 0.12
24 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (22 bp):
TAAAGTAAAATATTTAAAAGAA
Found at i:62180030 original size:14 final size:14
Alignment explanation
Indices: 62180009--62180042 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
62179999 TGGTATGGGT
62180009 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
62180022 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
62180036 TTATAGG
1 TTATAGG
62180043 TAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:62180198 original size:24 final size:25
Alignment explanation
Indices: 62180171--62180218 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
62180161 AGAGGAAAGT
62180171 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
62180195 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
62180219 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:62181358 original size:33 final size:33
Alignment explanation
Indices: 62181313--62181383 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
62181303 TATTATGGGT
*
62181313 TTATAACGATTATCTTTCTATAACAATATACTA
1 TTATAACAATTATCTTTCTATAACAATATACTA
* * *
62181346 TTATAACAATTATTTTTCTGTAACAATGTACTA
1 TTATAACAATTATCTTTCTATAACAATATACTA
62181379 TTATA
1 TTATA
62181384 CGAGACTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (33 bp):
TTATAACAATTATCTTTCTATAACAATATACTA
Found at i:62185933 original size:24 final size:24
Alignment explanation
Indices: 62185888--62185935 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
62185878 GAATAGTCGT
* * *
62185888 ATATCGAGAAGTTCAAGTGAGCCA
1 ATATCAAGAAGCTCAAGAGAGCCA
*
62185912 ATATCAAGAAGCTCTAGAGAGCCA
1 ATATCAAGAAGCTCAAGAGAGCCA
62185936 TTAATAAGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.19
Consensus pattern (24 bp):
ATATCAAGAAGCTCAAGAGAGCCA
Found at i:62187747 original size:15 final size:14
Alignment explanation
Indices: 62187727--62187760 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
62187717 TATTTATGTT
*
62187727 TTTTTCTTCTTTTA
1 TTTTTCCTCTTTTA
62187741 CTTTTTCCTCTTTTA
1 -TTTTTCCTCTTTTA
62187756 TTTTT
1 TTTTT
62187761 GTCGATTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCCTCTTTTA
Found at i:62188382 original size:9 final size:9
Alignment explanation
Indices: 62188368--62188395 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
62188358 TATAGTTTGA
62188368 TATTCGAAT
1 TATTCGAAT
62188377 TATTCGAAT
1 TATTCGAAT
62188386 TATTCGAAT
1 TATTCGAAT
62188395 T
1 T
62188396 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:62188465 original size:9 final size:9
Alignment explanation
Indices: 62188448--62188478 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
62188438 TCGAGTTGAT
62188448 TCGAATAAC
1 TCGAATAAC
*
62188457 TCGATTAAC
1 TCGAATAAC
62188466 TCGAATAAC
1 TCGAATAAC
62188475 TCGA
1 TCGA
62188479 TTTGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:62190414 original size:13 final size:13
Alignment explanation
Indices: 62190396--62190423 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62190386 GGCTGAGCCA
62190396 AGACTCCTCAATG
1 AGACTCCTCAATG
62190409 AGACTCCTCAATG
1 AGACTCCTCAATG
62190422 AG
1 AG
62190424 TTTCGAGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (13 bp):
AGACTCCTCAATG
Found at i:62193677 original size:10 final size:10
Alignment explanation
Indices: 62193629--62193706 Score: 60
Period size: 9 Copynumber: 8.2 Consensus size: 10
62193619 CATGTAGCAA
62193629 AAAAATTA-T
1 AAAAATTATT
*
62193638 AAAAA--ATA
1 AAAAATTATT
*
62193646 AAAAATTAAT
1 AAAAATTATT
*
62193656 AAAAGTTA-T
1 AAAAATTATT
62193665 AAAAATTATT
1 AAAAATTATT
*
62193675 -AAATTATATT
1 AAAAAT-TATT
62193685 AAAAA-TATT
1 AAAAATTATT
62193694 AAAAATTAATT
1 AAAAATT-ATT
62193705 AA
1 AA
62193707 TTTTTATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
7 1 0.02
8 5 0.09
9 26 0.48
10 14 0.26
11 8 0.15
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAAATTATT
Found at i:62193719 original size:29 final size:30
Alignment explanation
Indices: 62193664--62193757 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 30
62193654 ATAAAAGTTA
62193664 TAAAAATTATTAAATTATATTAAAAAT-AT
1 TAAAAATTATTAAATTATATTAAAAATCAT
* * *
62193693 TAAAAATTAATTAATTTTTA-TACAAATCAT
1 TAAAAATT-ATTAAATTATATTAAAAATCAT
* * * *
62193723 AAAAAATTGTAAAATTTTA-TAAAAATCAT
1 TAAAAATTATTAAATTATATTAAAAATCAT
*
62193752 AAAAAA
1 TAAAAA
62193758 AGTCATTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
29 37 0.67
30 18 0.33
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (30 bp):
TAAAAATTATTAAATTATATTAAAAATCAT
Found at i:62194046 original size:29 final size:28
Alignment explanation
Indices: 62194014--62194085 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
62194004 TTTTACGATT
*
62194014 TTTTTGTAATTTTAAATAAAATTTAAATA
1 TTTTTATAATTTTAAATAAAATTT-AATA
* * * *
62194043 TTTTTATATTTTTTACTGAAATTTAATA
1 TTTTTATAATTTTAAATAAAATTTAATA
62194071 TTTTTATAACTTTTA
1 TTTTTATAA-TTTTA
62194086 TTAATTTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
28 12 0.34
29 23 0.66
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTTTATAATTTTAAATAAAATTTAATA
Found at i:62194066 original size:41 final size:41
Alignment explanation
Indices: 62193988--62194066 Score: 92
Period size: 41 Copynumber: 1.9 Consensus size: 41
62193978 TTATGACTTT
*
62193988 ATAAAATTTTATAATTTTTTACGATTTTTTTGTAATTTTAA
1 ATAAAATTTTATAATTTTTTACGATTTTTTTGAAATTTTAA
*
62194029 ATAAAA-TTTA-AATATTTTTA-TATTTTTTACTGAAATTT
1 ATAAAATTTTATAAT-TTTTTACGATTTTTT--TGAAATTT
62194067 AATATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
39 10 0.30
40 10 0.30
41 13 0.39
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.57
Consensus pattern (41 bp):
ATAAAATTTTATAATTTTTTACGATTTTTTTGAAATTTTAA
Found at i:62194339 original size:88 final size:88
Alignment explanation
Indices: 62194173--62194428 Score: 273
Period size: 88 Copynumber: 2.9 Consensus size: 88
62194163 TTAAGGACGT
* ** * * * *
62194173 TTCAAGTACCCAATTGAGTGCAAAAAAAGGCAAGGGTTTAATTGCTTTTTTCGAAAAATTTTGAG
1 TTCAAGTGCCCAATTGAGTGCAAAAAAAGAAAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAG
*
62194238 GGCCTTTTTATGCATTTTGAAAG
66 GGCCTTTTTATGCATTGTGAAAG
* * *
62194261 TTCAAGTGTCTAATTGAGTGCAAAAAAA-AAAAGGGCTTAATTGCTTTTTTTGAAAAAGCTTAAG
1 TTCAAGTGCCCAATTGAGTGCAAAAAAAGAAAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAG
**
62194325 GGTTTTTTTGATGCATTGTGAAAG
66 GGCCTTTTT-ATGCATTGTGAAAG
* ** *
62194349 TTCAAGTGCCCAAGTTTGTGTAAAAAAGAAAGAAAGTAGGGGCTTAATTGCTTTCTTTGAAAAAG
1 TTCAAGTGCCCAA--TTGAGTGCAAAA-AAAGAAA--A-GGGCTTAATTGCTTTTTTTGAAAAAG
*
62194414 TTTAAGAG-CTTTTTA
60 TTTAAGGGCCTTTTTA
62194429 CACCCTTAAG
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
87 36 0.26
88 49 0.36
90 9 0.07
91 3 0.02
92 3 0.02
93 1 0.01
94 6 0.04
95 31 0.22
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (88 bp):
TTCAAGTGCCCAATTGAGTGCAAAAAAAGAAAAGGGCTTAATTGCTTTTTTTGAAAAAGTTTAAG
GGCCTTTTTATGCATTGTGAAAG
Found at i:62195200 original size:16 final size:16
Alignment explanation
Indices: 62195171--62195203 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
62195161 TATATATTTC
62195171 AAAGTAAAGAAATGAG
1 AAAGTAAAGAAATGAG
62195187 AAAG-AAAGAGAATGAG
1 AAAGTAAAGA-AATGAG
62195203 A
1 A
62195204 GGGGTAGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (16 bp):
AAAGTAAAGAAATGAG
Found at i:62199321 original size:23 final size:23
Alignment explanation
Indices: 62199295--62199340 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
62199285 ACCACTATAA
62199295 AACACGAAAAAAATAAAACAGAG
1 AACACGAAAAAAATAAAACAGAG
62199318 AACACGAAAAAAATAAAACAGAG
1 AACACGAAAAAAATAAAACAGAG
62199341 TAAGCAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.70, C:0.13, G:0.13, T:0.04
Consensus pattern (23 bp):
AACACGAAAAAAATAAAACAGAG
Found at i:62203233 original size:19 final size:20
Alignment explanation
Indices: 62203189--62203234 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
62203179 AATGTCTCTT
*
62203189 TATGCA-TTCATTTCATGCA
1 TATGCATTTCATTACATGCA
62203208 T-TCGCATTTCATTACAT-CA
1 TAT-GCATTTCATTACATGCA
62203227 TATGCATT
1 TATGCATT
62203235 AAACACCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (20 bp):
TATGCATTTCATTACATGCA
Found at i:62207280 original size:14 final size:14
Alignment explanation
Indices: 62207251--62207289 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
62207241 AATTTACAGC
*
62207251 ATATACGAATAAAT
1 ATATACAAATAAAT
* *
62207265 ATTTACAAATATAT
1 ATATACAAATAAAT
62207279 ATATACAAATA
1 ATATACAAATA
62207290 CAATGTACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (14 bp):
ATATACAAATAAAT
Done.