Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 76 of 141
Found at i:24921001 original size:28 final size:29
Alignment explanation
Indices: 24920960--24921015 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
24920950 TACTTCAAAT
* *
24920960 ACCATACGACCTAA-GACACGGGTGTGTC
1 ACCACACGACCTAACCACACGGGTGTGTC
*
24920988 ACCACACGGCCTAACCACACGGGTGTGT
1 ACCACACGACCTAACCACACGGGTGTGT
24921016 GTCCCTTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.27, C:0.32, G:0.25, T:0.16
Consensus pattern (29 bp):
ACCACACGACCTAACCACACGGGTGTGTC
Found at i:24926571 original size:13 final size:12
Alignment explanation
Indices: 24926550--24926597 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
24926540 AAAATTTACA
24926550 AAAATACTTTTT
1 AAAATACTTTTT
*
24926562 AAAATCACTTTTC
1 AAAAT-ACTTTTT
*
24926575 AAAATATTTTTT
1 AAAATACTTTTT
24926587 AAAAATACTTT
1 -AAAATACTTT
24926598 CCAAAAACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 10 0.33
13 20 0.67
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAATACTTTTT
Found at i:24926580 original size:25 final size:25
Alignment explanation
Indices: 24926550--24926603 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
24926540 AAAATTTACA
*
24926550 AAAATACTTTTT-AAAATCACTTTTC
1 AAAATACTTTTTAAAAAT-ACTTTCC
*
24926575 AAAATATTTTTTAAAAATACTTTCC
1 AAAATACTTTTTAAAAATACTTTCC
24926600 AAAA
1 AAAA
24926604 ACAATATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAATACTTTTTAAAAATACTTTCC
Found at i:24926603 original size:13 final size:13
Alignment explanation
Indices: 24926548--24926604 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
24926538 CTAAAATTTA
24926548 CAAAAATACTTTT
1 CAAAAATACTTTT
*
24926561 -TAAAATCACTTTT
1 CAAAAAT-ACTTTT
*
24926574 C-AAAATATTTTT
1 CAAAAATACTTTT
* *
24926586 TAAAAATACTTTC
1 CAAAAATACTTTT
24926599 CAAAAA
1 CAAAAA
24926605 CAATATTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 10 0.29
13 25 0.71
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (13 bp):
CAAAAATACTTTT
Found at i:24930984 original size:22 final size:23
Alignment explanation
Indices: 24930931--24930986 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
24930921 TTTAATTAAA
* * *
24930931 ATTAAAATTAAAATTAGTTTTTT
1 ATTAAAATTAAAACTAGATTGTT
*
24930954 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTAGATTGTT
24930976 ATTAAAATTAA
1 ATTAAAATTAA
24930987 TCGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
ATTAAAATTAAAACTAGATTGTT
Found at i:24930999 original size:16 final size:16
Alignment explanation
Indices: 24930962--24931001 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
24930952 TTAATAAAAT
* * *
24930962 TAAAACTAATTGTTAT
1 TAAAATTAATCGTTAG
24930978 TAAAATTAATCGTTAG
1 TAAAATTAATCGTTAG
24930994 TAAAATTA
1 TAAAATTA
24931002 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (16 bp):
TAAAATTAATCGTTAG
Found at i:24932429 original size:10 final size:9
Alignment explanation
Indices: 24932406--24932484 Score: 72
Period size: 9 Copynumber: 8.7 Consensus size: 9
24932396 TATTCTTTAG
24932406 ATTTTTAAA
1 ATTTTTAAA
24932415 ATTTTTAAA
1 ATTTTTAAA
*
24932424 ATTTTTAAG
1 ATTTTTAAA
24932433 A-TTTTAAA
1 ATTTTTAAA
** *
24932441 AAATGTATAA
1 ATTTTTA-AA
*
24932451 A-TTTTAGA
1 ATTTTTAAA
24932459 ATTTTTAAA
1 ATTTTTAAA
24932468 ATTATATTAAA
1 ATT-T-TTAAA
24932479 ATTTTT
1 ATTTTT
24932485 TTGTAATTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
8 9 0.16
9 35 0.61
10 5 0.09
11 8 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:24932434 original size:27 final size:27
Alignment explanation
Indices: 24932382--24932484 Score: 88
Period size: 26 Copynumber: 3.8 Consensus size: 27
24932372 TTTAAAAAAA
* *
24932382 TTAAATTTTTTATATATTCTTTAGATTT
1 TTAAAATTTTTATAAATT-TTTAGATTT
24932410 TTAAAATTTTTA-AAATTTTTAAGA-TT
1 TTAAAATTTTTATAAATTTTT-AGATTT
** *
24932436 TTAAAAAATGTATAAA-TTTTAGAATTT
1 TTAAAATTTTTATAAATTTTTAG-ATTT
24932463 TTAAAATTATATTA-AAATTTTT
1 TTAAAATT-T-TTATAAATTTTT
24932485 TTGTAATTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
25 2 0.03
26 19 0.32
27 18 0.30
28 15 0.25
29 6 0.10
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (27 bp):
TTAAAATTTTTATAAATTTTTAGATTT
Found at i:24934322 original size:2 final size:2
Alignment explanation
Indices: 24934315--24934342 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
24934305 AGAGAAATAA
24934315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24934343 TCAAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24942763 original size:3 final size:3
Alignment explanation
Indices: 24942750--24942781 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
24942740 GGAATCGACT
*
24942750 TCA TAA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
24942782 TATTGAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:24948590 original size:24 final size:24
Alignment explanation
Indices: 24948563--24948611 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24948553 TATGCTACCA
24948563 AGGAGCCCACTCAAACTACTGTTG
1 AGGAGCCCACTCAAACTACTGTTG
* **
24948587 AGGAGCCTACTCAATTTACTGTTG
1 AGGAGCCCACTCAAACTACTGTTG
24948611 A
1 A
24948612 AGATTCCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (24 bp):
AGGAGCCCACTCAAACTACTGTTG
Found at i:24949095 original size:14 final size:14
Alignment explanation
Indices: 24949078--24949106 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24949068 GTATGTATGA
24949078 TCATTTTAGTATAG
1 TCATTTTAGTATAG
24949092 TCATTTTAGTATAG
1 TCATTTTAGTATAG
24949106 T
1 T
24949107 TAAATCTACT
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:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (14 bp):
TCATTTTAGTATAG
Found at i:24956482 original size:19 final size:22
Alignment explanation
Indices: 24956458--24956497 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24956448 AATCGTGAAA
24956458 AATAC-TAA-AAA-AAAATAAG
1 AATACTTAACAAAGAAAATAAG
24956477 AATACTTAACAAAGAAAATAA
1 AATACTTAACAAAGAAAATAA
24956498 ACAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 3 0.17
22 7 0.39
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.17
Consensus pattern (22 bp):
AATACTTAACAAAGAAAATAAG
Found at i:24960633 original size:25 final size:24
Alignment explanation
Indices: 24960599--24960727 Score: 72
Period size: 25 Copynumber: 5.4 Consensus size: 24
24960589 ATCAAAGTAT
24960599 GCCACAAAGGTAACATATAAAATAC
1 GCCACAAAGG-AACATATAAAATAC
*
24960624 GCCACAAAGG--C-TATCAAAGTAC
1 GCCACAAAGGAACATAT-AAAATAC
* * *
24960646 GCCACAAAGGCAACATACAACATAT
1 GCCACAAAGG-AACATATAAAATAC
* * *
24960671 ACCACAAAGG--C-TATTAGAGTAC
1 GCCACAAAGGAACATA-TAAAATAC
* * *
24960693 GCCACAAAGGCAACAAACAAAATAT
1 GCCACAAAGG-AACATATAAAATAC
*
24960718 GCCATAAAGG
1 GCCACAAAGG
24960728 CCAAATAAAA
Statistics
Matches: 76, Mismatches: 18, Indels: 20
0.67 0.16 0.18
Matches are distributed among these distances:
21 5 0.07
22 30 0.39
25 38 0.50
26 3 0.04
ACGTcount: A:0.47, C:0.24, G:0.16, T:0.13
Consensus pattern (24 bp):
GCCACAAAGGAACATATAAAATAC
Found at i:24960642 original size:47 final size:47
Alignment explanation
Indices: 24960588--24960728 Score: 192
Period size: 47 Copynumber: 3.0 Consensus size: 47
24960578 AACATAGACT
* * * *
24960588 TATCAAAGTATGCCACAAAGGTAACATATAAAATACGCCACAAAGGC
1 TATCAAAGTACGCCACAAAGGCAACATACAAAATATGCCACAAAGGC
* *
24960635 TATCAAAGTACGCCACAAAGGCAACATACAACATATACCACAAAGGC
1 TATCAAAGTACGCCACAAAGGCAACATACAAAATATGCCACAAAGGC
* * * *
24960682 TATTAGAGTACGCCACAAAGGCAACAAACAAAATATGCCATAAAGGC
1 TATCAAAGTACGCCACAAAGGCAACATACAAAATATGCCACAAAGGC
24960729 CAAATAAAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 82 1.00
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.15
Consensus pattern (47 bp):
TATCAAAGTACGCCACAAAGGCAACATACAAAATATGCCACAAAGGC
Found at i:24960649 original size:22 final size:23
Alignment explanation
Indices: 24960588--24960704 Score: 89
Period size: 22 Copynumber: 5.0 Consensus size: 23
24960578 AACATAGACT
*
24960588 TATCAAAGTATGCCACAAAGGTAACA
1 TATCAAAGTACGCCACAAAGG---CA
*
24960614 TAT-AAAATACGCCACAAAGGC-
1 TATCAAAGTACGCCACAAAGGCA
24960635 TATCAAAGTACGCCACAAAGGCAA
1 TATCAAAGTACGCCACAAAGGC-A
* **
24960659 CATACAACA-TATACCACAAAGGC-
1 TAT-CAA-AGTACGCCACAAAGGCA
* *
24960682 TATTAGAGTACGCCACAAAGGCA
1 TATCAAAGTACGCCACAAAGGCA
24960705 ACAAACAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
21 4 0.05
22 31 0.42
23 2 0.03
24 2 0.03
25 30 0.41
26 4 0.05
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.15
Consensus pattern (23 bp):
TATCAAAGTACGCCACAAAGGCA
Found at i:24968529 original size:26 final size:25
Alignment explanation
Indices: 24968499--24968566 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
24968489 GTTTAAGGTT
* *
24968499 TTTTTAACCTTATTTCTTATTTTATA
1 TTTTTAATCTTATTT-TTACTTTATA
** *
24968525 TTTTTTTTGTTATTTTTACTTTATA
1 TTTTTAATCTTATTTTTACTTTATA
24968550 TCTTTTAATCTTATTTT
1 T-TTTTAATCTTATTTT
24968567 ACATTATTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
25 10 0.30
26 23 0.70
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (25 bp):
TTTTTAATCTTATTTTTACTTTATA
Found at i:24973736 original size:23 final size:23
Alignment explanation
Indices: 24973705--24973776 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
24973695 TATGTAATAT
* *
24973705 ACCGTAGTGTCAGAATGAATTGC
1 ACCGAAGTGCCAGAATGAATTGC
*
24973728 ACCGAAGTGCCAGAATGAATCGC
1 ACCGAAGTGCCAGAATGAATTGC
* *
24973751 ATC-ATAGTGCCAGAATGAATTCC
1 ACCGA-AGTGCCAGAATGAATTGC
24973774 ACC
1 ACC
24973777 TTAGTCACAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 1 0.02
23 40 0.98
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (23 bp):
ACCGAAGTGCCAGAATGAATTGC
Found at i:24995003 original size:41 final size:41
Alignment explanation
Indices: 24994933--24995014 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
24994923 ATTAAACTCT
* *
24994933 ATTTTTTAGTTTCCCACTTAAAATTTGATTAGGGTAGGTTA
1 ATTTATTAGTTTCCCACTTAAAATCTGATTAGGGTAGGTTA
* * *
24994974 ATTTATTATTTTCCCACTTAAACTCTGATTAGTGTAGGTTA
1 ATTTATTAGTTTCCCACTTAAAATCTGATTAGGGTAGGTTA
24995015 TTGTAATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (41 bp):
ATTTATTAGTTTCCCACTTAAAATCTGATTAGGGTAGGTTA
Found at i:24995095 original size:20 final size:20
Alignment explanation
Indices: 24995070--24995115 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 20
24995060 TTTTTCCACC
24995070 TAAAAAAAATTTAACCTTAT
1 TAAAAAAAATTTAACCTTAT
24995090 T---AAAAATTTAACCTTAT
1 TAAAAAAAATTTAACCTTAT
24995107 TGAAAAAAA
1 T-AAAAAAA
24995116 GTTTTCCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
17 17 0.77
20 1 0.05
21 4 0.18
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAAAAATTTAACCTTAT
Found at i:24995096 original size:17 final size:18
Alignment explanation
Indices: 24995074--24995113 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
24995064 TCCACCTAAA
24995074 AAAAATTTAACCTTATT-
1 AAAAATTTAACCTTATTG
24995091 AAAAATTTAACCTTATTG
1 AAAAATTTAACCTTATTG
24995109 AAAAA
1 AAAAA
24995114 AAGTTTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAAATTTAACCTTATTG
Found at i:25012360 original size:27 final size:26
Alignment explanation
Indices: 25012304--25012361 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
25012294 TATATATTAT
* *
25012304 AAAAATAATAATATACTTTTTTTGACA
1 AAAAATAATAATATAATTTTTATGA-A
*
25012331 AAAACTAATAATATAATTATTTAT-AA
1 AAAAATAATAATATAATT-TTTATGAA
25012357 AAAAA
1 AAAAA
25012362 GTTATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.19
27 17 0.65
28 4 0.15
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (26 bp):
AAAAATAATAATATAATTTTTATGAA
Found at i:25013254 original size:21 final size:20
Alignment explanation
Indices: 25013208--25013256 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
25013198 CTCGTTTAGA
* *
25013208 ATTTTTTTTATTGTACTGAT
1 ATTTTTTTTATAGTACTAAT
* *
25013228 AGTTTTTTTATAGTAATTAAT
1 ATTTTTTTTATAGT-ACTAAT
25013249 ATTTTTTT
1 ATTTTTTT
25013257 AAAAAGATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.65
Consensus pattern (20 bp):
ATTTTTTTTATAGTACTAAT
Found at i:25015065 original size:9 final size:9
Alignment explanation
Indices: 25015051--25015119 Score: 93
Period size: 9 Copynumber: 7.7 Consensus size: 9
25015041 TTTGGTTAAA
25015051 AATTAACCG
1 AATTAACCG
25015060 AATTAACCG
1 AATTAACCG
*
25015069 AATTACCCG
1 AATTAACCG
*
25015078 AATTACCCG
1 AATTAACCG
25015087 AATTAACCG
1 AATTAACCG
*
25015096 AATTACCCG
1 AATTAACCG
* *
25015105 AATTGACCA
1 AATTAACCG
25015114 AATTAA
1 AATTAA
25015120 AAAAATTGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:25015089 original size:27 final size:27
Alignment explanation
Indices: 25015051--25015119 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
25015041 TTTGGTTAAA
25015051 AATTAACCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
*
25015078 AATTACCCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
25015105 AATTGACCAAATTAA
1 AATTAACCGAATTAA
25015120 AAAAATTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:25015126 original size:27 final size:27
Alignment explanation
Indices: 25015069--25015126 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
25015059 GAATTAACCG
* ***
25015069 AATTACCCGAATTACCCGAATTAACCG
1 AATTACCCGAATTACCCAAATTAAAAA
25015096 AATTACCCGAATTGA-CCAAATTAAAAA
1 AATTACCCGAATT-ACCCAAATTAAAAA
25015123 AATT
1 AATT
25015127 GAATCACTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.24
Consensus pattern (27 bp):
AATTACCCGAATTACCCAAATTAAAAA
Found at i:25015272 original size:18 final size:18
Alignment explanation
Indices: 25015229--25015272 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
25015219 TAATTTTATG
**
25015229 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
*
25015247 ATTAGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
25015265 CTTGGGTT
1 ATTGGGTT
25015273 TAGATTGGGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:25024594 original size:21 final size:21
Alignment explanation
Indices: 25024564--25024630 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 21
25024554 AGGAGAAAAC
*
25024564 TGAAAATGCCCTGAATTTGGA
1 TGAAATTGCCCTGAATTTGGA
* *
25024585 TGAAATTG-CCAGAA-CT-GA
1 TGAAATTGCCCTGAATTTGGA
25024603 --AAA-TGCCCTGAATTTGGA
1 TGAAATTGCCCTGAATTTGGA
*
25024621 TCAAATTGCC
1 TGAAATTGCC
25024631 AGAATAGTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
15 2 0.06
16 8 0.23
17 1 0.03
18 4 0.11
19 1 0.03
20 8 0.23
21 11 0.31
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (21 bp):
TGAAATTGCCCTGAATTTGGA
Found at i:25024608 original size:36 final size:36
Alignment explanation
Indices: 25024561--25024634 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
25024551 AGAAGGAGAA
*
25024561 AACTGAAAATGCCCTGAATTTGGATGAAATTGCCAG
1 AACTGAAAATGCCCTGAATTTGGATCAAATTGCCAG
25024597 AACTGAAAATGCCCTGAATTTGGATCAAATTGCCAG
1 AACTGAAAATGCCCTGAATTTGGATCAAATTGCCAG
25024633 AA
1 AA
25024635 TAGTGAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (36 bp):
AACTGAAAATGCCCTGAATTTGGATCAAATTGCCAG
Found at i:25024707 original size:12 final size:12
Alignment explanation
Indices: 25024692--25024727 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
25024682 TTAGAAAACT
25024692 AATAAGAAGATA
1 AATAAGAAGATA
25024704 AATAA-AA-ATA
1 AATAAGAAGATA
25024714 AATAAGAAGATA
1 AATAAGAAGATA
25024726 AA
1 AA
25024728 GTGATTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.36
11 4 0.18
12 10 0.45
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (12 bp):
AATAAGAAGATA
Found at i:25024777 original size:17 final size:17
Alignment explanation
Indices: 25024743--25024780 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
25024733 TACAAACTCG
25024743 AATAAAAAAACAATCAA
1 AATAAAAAAACAATCAA
*
25024760 AATAATAAAAATAA-CAA
1 AATAA-AAAAACAATCAA
25024777 AATA
1 AATA
25024781 GTTCAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (17 bp):
AATAAAAAAACAATCAA
Found at i:25024800 original size:29 final size:28
Alignment explanation
Indices: 25024763--25024827 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
25024753 CAATCAAAAT
* *
25024763 AATAAAAAT--AACAAAATAGT-TCA-A
1 AATAAAAATAAAATAAAAAAGTCTCACA
*
25024787 AATAAAAATAAAATAAAGAAGTCTCACA
1 AATAAAAATAAAATAAAAAAGTCTCACA
25024815 AATAAAAATAAAA
1 AATAAAAATAAAA
25024828 GTATAAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.26
26 8 0.24
27 3 0.09
28 14 0.41
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.18
Consensus pattern (28 bp):
AATAAAAATAAAATAAAAAAGTCTCACA
Found at i:25024825 original size:6 final size:6
Alignment explanation
Indices: 25024814--25024868 Score: 83
Period size: 6 Copynumber: 9.2 Consensus size: 6
25024804 GAAGTCTCAC
* * *
25024814 AAATAA AAATAA AAGTAT AAATGA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
25024862 AAATAA A
1 AAATAA A
25024869 TAAAGCAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:25024826 original size:28 final size:24
Alignment explanation
Indices: 25024763--25024857 Score: 77
Period size: 24 Copynumber: 3.8 Consensus size: 24
25024753 CAATCAAAAT
* *
25024763 AATAAAAATAACAAAATAGTTCAA
1 AATAAAAATAAAAAAAAAGTTCAA
25024787 AATAAAAATAAAATAAAGAAGTCTCACA
1 AATAAAAATAAAA-AAA-AAGT-TCA-A
* *
25024815 AATAAAAATAAAAGTATAAA--TGAA
1 AATAAAAATAAAA--AAAAAGTTCAA
25024839 AATAAAAATAAAAATAAAA
1 AATAAAAATAAAAA-AAAA
25024858 ATAAAAATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.02
23 3 0.05
24 26 0.43
25 5 0.08
26 3 0.05
27 3 0.05
28 16 0.27
29 3 0.05
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (24 bp):
AATAAAAATAAAAAAAAAGTTCAA
Found at i:25025074 original size:105 final size:104
Alignment explanation
Indices: 25024941--25025147 Score: 378
Period size: 105 Copynumber: 2.0 Consensus size: 104
25024931 ATGCATAATT
*
25024941 AGAATGGGAGATATGAAAGTACTGGCGTATCTGATGCAAAGCTGTGTCGATGCTATCAAACCACT
1 AGAATGGGAGATATGAAAGTACTAGCGTATCTGATGCAAAGCTGTGTCGATGCTATCAAACCACT
* *
25025006 CAAAGCACTGCTGCTTAAAACGGTCAAACCACTCAGAATC
66 CAAACCACCGCTGCTTAAAACGGTCAAA-CACTCAGAATC
25025046 AGAATGGGAGATATGAAAGTACTAGCGTATCTGATGCAAAGCTGTGTCGATGCTATCAAACCACT
1 AGAATGGGAGATATGAAAGTACTAGCGTATCTGATGCAAAGCTGTGTCGATGCTATCAAACCACT
25025111 CAAACCACCGCTGCTTAAAACGGTCAAACACTCAGAA
66 CAAACCACCGCTGCTTAAAACGGTCAAACACTCAGAA
25025148 AGATCCTCGA
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
104 9 0.09
105 90 0.91
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (104 bp):
AGAATGGGAGATATGAAAGTACTAGCGTATCTGATGCAAAGCTGTGTCGATGCTATCAAACCACT
CAAACCACCGCTGCTTAAAACGGTCAAACACTCAGAATC
Found at i:25026568 original size:16 final size:16
Alignment explanation
Indices: 25026547--25026609 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
25026537 ATCGAAAACA
*
25026547 AATAAAAAATAAGATT
1 AATAAAAAATAAAATT
25026563 AATAAATAAATAAAATAAT
1 AATAAA-AAATAAAAT--T
* *
25026582 AATAAGAAATAAAATA
1 AATAAAAAATAAAATT
*
25026598 AATAATAAATAA
1 AATAAAAAATAA
25026610 TAAAAATAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 17 0.43
17 8 0.20
18 9 0.22
19 6 0.15
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AATAAAAAATAAAATT
Found at i:25026580 original size:22 final size:20
Alignment explanation
Indices: 25026552--25026614 Score: 78
Period size: 19 Copynumber: 3.2 Consensus size: 20
25026542 AAACAAATAA
25026552 AAAATAAGATTAATAAATAAAT
1 AAAATAA-A-TAATAAATAAAT
*
25026574 AAAAT-AATAAT-AAGAAAT
1 AAAATAAATAATAAATAAAT
25026592 AAAATAAATAATAAAT-AAT
1 AAAATAAATAATAAATAAAT
25026611 AAAA
1 AAAA
25026615 ATAAGAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 11 0.30
19 17 0.46
20 3 0.08
21 1 0.03
22 5 0.14
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (20 bp):
AAAATAAATAATAAATAAAT
Found at i:25026586 original size:19 final size:19
Alignment explanation
Indices: 25026562--25026626 Score: 75
Period size: 18 Copynumber: 3.6 Consensus size: 19
25026552 AAAATAAGAT
25026562 TAATAAATAAATAAAATAA
1 TAATAAATAAATAAAATAA
*
25026581 TAAT-AAGAAATAAAATAAA
1 TAATAAATAAATAAAAT-AA
25026600 TAATAAAT-AAT-AAA-AA
1 TAATAAATAAATAAAATAA
*
25026616 TAAGAAATAAA
1 TAATAAATAAA
25026627 CCAAACAGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 9 0.22
17 2 0.05
18 14 0.35
19 13 0.32
20 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
TAATAAATAAATAAAATAA
Found at i:25026592 original size:35 final size:32
Alignment explanation
Indices: 25026546--25026626 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 32
25026536 AATCGAAAAC
* * *
25026546 AAATAAAAAATAAGATTAATAAATAAATAAAATAA
1 AAATAAGAAATAAAATAAAT-AATAAAT--AATAA
*
25026581 TAATAAGAAATAAAATAAATAATAAATAATAA
1 AAATAAGAAATAAAATAAATAATAAATAATAA
25026613 AAATAAGAAATAAA
1 AAATAAGAAATAAA
25026627 CCAAACAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 18 0.44
34 7 0.17
35 16 0.39
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (32 bp):
AAATAAGAAATAAAATAAATAATAAATAATAA
Found at i:25026616 original size:16 final size:16
Alignment explanation
Indices: 25026576--25026625 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
25026566 AAATAAATAA
*
25026576 AATAATAATAAGAAAT
1 AATAAAAATAAGAAAT
*
25026592 AA-AATAAATAATAAAT
1 AATAA-AAATAAGAAAT
25026608 AATAAAAATAAGAAAT
1 AATAAAAATAAGAAAT
25026624 AA
1 AA
25026626 ACCAAACAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 2 0.07
16 25 0.86
17 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (16 bp):
AATAAAAATAAGAAAT
Found at i:25033212 original size:22 final size:22
Alignment explanation
Indices: 25033184--25033239 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
25033174 TATATTTAAG
25033184 GAGAAAATACAAT-GATTAAAGA
1 GAGAAAATACAATAG-TTAAAGA
*
25033206 GAGAAAATAAAATAGTTAAAGA
1 GAGAAAATACAATAGTTAAAGA
*
25033228 AAGAAAATACAA
1 GAGAAAATACAA
25033240 GACTATAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (22 bp):
GAGAAAATACAATAGTTAAAGA
Found at i:25033249 original size:22 final size:22
Alignment explanation
Indices: 25033185--25033251 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
25033175 ATATTTAAGG
* *
25033185 AGAAAATACAATGATTA-AAGAG
1 AGAAAATACAA-GACTATAAGAA
* * *
25033207 AGAAAATAAAATAGT-TAAAGAA
1 AGAAAATACAAGACTAT-AAGAA
25033229 AGAAAATACAAGACTATAAGAA
1 AGAAAATACAAGACTATAAGAA
25033251 A
1 A
25033252 TCTAAATCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
21 2 0.06
22 32 0.91
23 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.15, T:0.16
Consensus pattern (22 bp):
AGAAAATACAAGACTATAAGAA
Found at i:25039059 original size:20 final size:20
Alignment explanation
Indices: 25039022--25039094 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
25039012 GTTGCAGTTT
*
25039022 GAATCAAGTT-AAATAATAAA
1 GAATCAA-TTCAAACAATAAA
* *
25039042 GAATCGATTCAAACAATAAT
1 GAATCAATTCAAACAATAAA
*
25039062 GAATCAATTTAAAACAA-AAA
1 GAATCAA-TTCAAACAATAAA
*
25039082 AAATCAATTCAAA
1 GAATCAATTCAAA
25039095 GAAGCAAAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.16
20 28 0.65
21 8 0.19
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.23
Consensus pattern (20 bp):
GAATCAATTCAAACAATAAA
Found at i:25039092 original size:40 final size:41
Alignment explanation
Indices: 25039021--25039250 Score: 128
Period size: 44 Copynumber: 5.4 Consensus size: 41
25039011 TGTTGCAGTT
* * * * *
25039021 TGAATCAAGTTAAATA-ATAAAGAATCGATTCAAACAA-TAA
1 TGAATCAATTTAAA-ACAAAAAAAATCAATTCAAACAAGCAA
*
25039061 TGAATCAATTTAAAACAAAAAAAATCAATTCAAAGAAGCAA
1 TGAATCAATTTAAAACAAAAAAAATCAATTCAAACAAGCAA
* * ** * *
25039102 AGAATCGATTTAAAACAGCAATCATGAATCGATTCAAAGAAGCAAA
1 TGAATCAATTTAAAACA--AA--AAAAATCAATTCAAACAAGC-AA
* * *
25039148 T-AAT-GATTTAAAACAACAATAATGAATCAATTTAAAGAAGCAAA
1 TGAATCAATTTAAAACAA-AA-AA--AATCAATTCAAACAAGC-AA
* * * *
25039192 T-AATCAATTTAAAACAACAAACAATCGATTCAAAGAAGAAA
1 TGAATCAATTTAAAACAA-AAAAAATCAATTCAAACAAGCAA
**
25039233 AAAATCAATTTAAAACAA
1 TGAATCAATTTAAAACAA
25039251 CAAATTTAGT
Statistics
Matches: 155, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.01
40 30 0.19
41 20 0.13
42 31 0.20
43 3 0.02
44 34 0.22
45 34 0.22
46 2 0.01
ACGTcount: A:0.57, C:0.12, G:0.09, T:0.22
Consensus pattern (41 bp):
TGAATCAATTTAAAACAAAAAAAATCAATTCAAACAAGCAA
Found at i:25039121 original size:21 final size:21
Alignment explanation
Indices: 25039062--25039254 Score: 101
Period size: 21 Copynumber: 9.0 Consensus size: 21
25039052 AAACAATAAT
*
25039062 GAATCAATTTAAAACA-AAAA
1 GAATCAATTTAAAACAGCAAA
* *
25039082 AAATCAATTCAAAGA-AGCAAA
1 GAATCAATTTAAA-ACAGCAAA
*
25039103 GAATCGATTTAAAACAGCAATCA
1 GAATCAATTTAAAACAGCAA--A
* *
25039126 TGAATCGATTCAAAGA-AGCAAA
1 -GAATCAATTTAAA-ACAGCAAA
* * *
25039148 TAAT-GATTTAAAACAACAATAA
1 GAATCAATTTAAAACAGC-A-AA
25039170 TGAATCAATTTAAAGA-AGCAAA
1 -GAATCAATTTAAA-ACAGCAAA
* *
25039192 TAATCAATTTAAAACAACAAA
1 GAATCAATTTAAAACAGCAAA
* * * *
25039213 CAATCGATTCAAAGA-AGAAAA
1 GAATCAATTTAAA-ACAGCAAA
* *
25039234 AAATCAATTTAAAACAACAAA
1 GAATCAATTTAAAACAGCAAA
25039255 TTTAGTAACA
Statistics
Matches: 132, Mismatches: 25, Indels: 31
0.70 0.13 0.16
Matches are distributed among these distances:
19 1 0.01
20 24 0.18
21 68 0.52
22 6 0.05
23 5 0.04
24 26 0.20
25 2 0.02
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.20
Consensus pattern (21 bp):
GAATCAATTTAAAACAGCAAA
Found at i:25039147 original size:45 final size:44
Alignment explanation
Indices: 25039063--25039253 Score: 223
Period size: 44 Copynumber: 4.4 Consensus size: 44
25039053 AACAATAATG
* *
25039063 AATCAATTTAAAACAA-AA-A-AAATCAATTCAAAGAAGCAAAG
1 AATCAATTTAAAACAACAATATGAATCAATTCAAAGAAGCAAAT
* * *
25039104 AATCGATTTAAAACAGCAATCATGAATCGATTCAAAGAAGCAAAT
1 AATCAATTTAAAACAACAAT-ATGAATCAATTCAAAGAAGCAAAT
* *
25039149 AAT-GATTTAAAACAACAATAATGAATCAATTTAAAGAAGCAAAT
1 AATCAATTTAAAACAACAAT-ATGAATCAATTCAAAGAAGCAAAT
* * * *
25039193 AATCAATTTAAAACAACAA-A-CAATCGATTCAAAGAAGAAAAA
1 AATCAATTTAAAACAACAATATGAATCAATTCAAAGAAGCAAAT
25039235 AATCAATTTAAAACAACAA
1 AATCAATTTAAAACAACAA
25039254 ATTTAGTAAC
Statistics
Matches: 130, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
41 14 0.11
42 38 0.29
43 1 0.01
44 41 0.32
45 36 0.28
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.20
Consensus pattern (44 bp):
AATCAATTTAAAACAACAATATGAATCAATTCAAAGAAGCAAAT
Found at i:25039202 original size:89 final size:84
Alignment explanation
Indices: 25039063--25039254 Score: 244
Period size: 89 Copynumber: 2.2 Consensus size: 84
25039053 AACAATAATG
* *
25039063 AATCAATTTAAAACAA-AAAAAATCAATTCAAAGAAGCAAAGAATCGATTTAAAACAGCAATCAT
1 AATCAATTTAAAACAACAAAAAATCAATTCAAAGAAGCAAAGAATCAATTTAAAACAACAA--A-
* * *
25039127 GAATCGATTCAAAGAAGCAAAT
63 CAATCGATTCAAAGAAGAAAAA
* * *
25039149 AAT-GATTTAAAACAACAATAATGAATCAATTTAAAGAAGCAAATAATCAATTTAAAACAACAAA
1 AATCAATTTAAAACAACAA-AA--AATCAATTCAAAGAAGCAAAGAATCAATTTAAAACAACAAA
25039213 CAATCGATTCAAAGAAGAAAAA
63 CAATCGATTCAAAGAAGAAAAA
25039235 AATCAATTTAAAACAACAAA
1 AATCAATTTAAAACAACAAA
25039255 TTTAGTAACA
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
85 11 0.12
86 28 0.30
87 17 0.18
89 36 0.39
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.20
Consensus pattern (84 bp):
AATCAATTTAAAACAACAAAAAATCAATTCAAAGAAGCAAAGAATCAATTTAAAACAACAAACAA
TCGATTCAAAGAAGAAAAA
Found at i:25042925 original size:18 final size:19
Alignment explanation
Indices: 25042898--25042946 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
25042888 TGTTTTTATC
*
25042898 TTCTTCTTTTTTTG-CTTT
1 TTCTTTTTTTTTTGTCTTT
*
25042916 TTC-TTTTTTTTTGTTTTT
1 TTCTTTTTTTTTTGTCTTT
25042934 TTCTTTATTTTTT
1 TTCTTT-TTTTTT
25042947 ATTTTTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 9 0.35
18 9 0.35
19 2 0.08
20 6 0.23
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.84
Consensus pattern (19 bp):
TTCTTTTTTTTTTGTCTTT
Found at i:25042932 original size:25 final size:25
Alignment explanation
Indices: 25042890--25042954 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 25
25042880 TATTTTTTTG
*
25042890 TTTTTATCTTCTTCTTTTTTTGCTTT-T
1 TTTTTAT-TT-TTGTTTTTTT-CTTTAT
25042917 TCTTTT-TTTTTGTTTTTTTCTTTAT
1 T-TTTTATTTTTGTTTTTTTCTTTAT
25042942 TTTTTATTTTTGT
1 TTTTTATTTTTGT
25042955 GTGTGTGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
24 8 0.24
25 18 0.53
26 2 0.06
27 2 0.06
28 4 0.12
ACGTcount: A:0.05, C:0.09, G:0.05, T:0.82
Consensus pattern (25 bp):
TTTTTATTTTTGTTTTTTTCTTTAT
Found at i:25042951 original size:18 final size:18
Alignment explanation
Indices: 25042898--25042952 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
25042888 TGTTTTTATC
*
25042898 TTCTTCTTTTTTTG-CTTT
1 TTCTT-TTTTTTTGATTTT
*
25042916 TTCTTTTTTTTTGTTTTT
1 TTCTTTTTTTTTGATTTT
25042934 TTCTTTATTTTTT-ATTTT
1 TTCTTT-TTTTTTGATTTT
25042952 T
1 T
25042953 GTGTGTGTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.24
18 19 0.58
19 6 0.18
ACGTcount: A:0.04, C:0.09, G:0.04, T:0.84
Consensus pattern (18 bp):
TTCTTTTTTTTTGATTTT
Found at i:25043019 original size:2 final size:2
Alignment explanation
Indices: 25043012--25043039 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25043002 TATTCATTAT
25043012 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25043040 ACTCACAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:25056894 original size:7 final size:7
Alignment explanation
Indices: 25056881--25056910 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
25056871 TAAACAAAAC
25056881 AAATTTT
1 AAATTTT
*
25056888 GAATTTT
1 AAATTTT
25056895 AAATTTT
1 AAATTTT
25056902 AAATTTT
1 AAATTTT
25056909 AA
1 AA
25056911 CATGTTTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (7 bp):
AAATTTT
Found at i:25061516 original size:16 final size:16
Alignment explanation
Indices: 25061495--25061541 Score: 94
Period size: 16 Copynumber: 2.9 Consensus size: 16
25061485 GTTATTATGA
25061495 TTGATTAAAAAACAAC
1 TTGATTAAAAAACAAC
25061511 TTGATTAAAAAACAAC
1 TTGATTAAAAAACAAC
25061527 TTGATTAAAAAACAA
1 TTGATTAAAAAACAA
25061542 TTATTTGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (16 bp):
TTGATTAAAAAACAAC
Found at i:25063446 original size:16 final size:16
Alignment explanation
Indices: 25063425--25063466 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25063415 TTATTAAATT
*
25063425 ATATATTTTAATTATA
1 ATATATTTTAATAATA
25063441 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
25063456 AT-TATGTTTAA
1 ATATAT-TTTAA
25063467 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:25063451 original size:15 final size:15
Alignment explanation
Indices: 25063416--25063457 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25063406 TTAAGAATTT
*
25063416 TATTAAATTAT-ATA
1 TATTTAATTATAATA
25063430 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
25063444 TATTTAATAATAAT
1 TATTTAATTATAAT
25063458 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:25063660 original size:44 final size:45
Alignment explanation
Indices: 25063611--25063700 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
25063601 ACCTCTATTC
25063611 CATTCAACCAAACACA-AGA-ATACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACA-ATAGATATACTATTACGCCTCTATTCCATTA
* * * *
25063655 CATTCAACCAAACAATTGATTTGCTATTACGCCTCTATTCTATTA
1 CATTCAACCAAACAATAGATATACTATTACGCCTCTATTCCATTA
25063700 C
1 C
25063701 GCCTCTATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.03
44 16 0.40
45 23 0.57
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (45 bp):
CATTCAACCAAACAATAGATATACTATTACGCCTCTATTCCATTA
Found at i:25063699 original size:16 final size:16
Alignment explanation
Indices: 25063678--25063710 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25063668 AATTGATTTG
25063678 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
25063694 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
25063710 C
1 C
25063711 CAATACAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.33, G:0.06, T:0.42
Consensus pattern (16 bp):
CTATTACGCCTCTATT
Found at i:25067707 original size:34 final size:28
Alignment explanation
Indices: 25067638--25067694 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
25067628 AAATGTGTCC
25067638 TTATGTTGTAACTGTATATTATTAGCAT
1 TTATGTTGTAACTGTATATTATTAGCAT
25067666 TTATGTTGTAACTGTATATTATTAGCAT
1 TTATGTTGTAACTGTATATTATTAGCAT
25067694 T
1 T
25067695 CTTGAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (28 bp):
TTATGTTGTAACTGTATATTATTAGCAT
Found at i:25071351 original size:22 final size:23
Alignment explanation
Indices: 25071323--25071365 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
25071313 TGTGGCATAA
25071323 TTTTACA-ATGTCAAATTTAAAC
1 TTTTACATATGTCAAATTTAAAC
* *
25071345 TTTTACATTTGTCAAGTTTAA
1 TTTTACATATGTCAAATTTAA
25071366 TGATCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (23 bp):
TTTTACATATGTCAAATTTAAAC
Found at i:25072331 original size:112 final size:112
Alignment explanation
Indices: 25072110--25072333 Score: 405
Period size: 113 Copynumber: 2.0 Consensus size: 112
25072100 CGTAAATTTC
*
25072110 TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGGGAAACTAGTTGA
1 TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGAGAAACTAGTTGA
*
25072175 TAATGTGTCACTATGATTGCATATTTCAAGTTAAAAAAAACCCCAGA
66 TAATGTGTCACAATGATTGCATATTTCAAGTTAAAAAAAACCCCAGA
*
25072222 TCTAAACTCAAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTCGAGAAACTAGTTG
1 TCTAAACTC-AAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGAGAAACTAGTTG
25072287 ATAATGTGTC-CAATGATTGCATATTTCAAGTTAAAAAAAACCCCAGA
65 ATAATGTGTCACAATGATTGCATATTTCAAGTTAAAAAAAACCCCAGA
25072334 AACAGCAGTG
Statistics
Matches: 108, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
112 45 0.42
113 63 0.58
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (112 bp):
TCTAAACTCAAACTTGGAAAGTGATAAGGTTTTGTTTCCAAAACAACATTAGAGAAACTAGTTGA
TAATGTGTCACAATGATTGCATATTTCAAGTTAAAAAAAACCCCAGA
Found at i:25073097 original size:81 final size:81
Alignment explanation
Indices: 25072993--25073154 Score: 306
Period size: 81 Copynumber: 2.0 Consensus size: 81
25072983 TGGCAGGGTC
*
25072993 GGATCACATTATCAAGTAGGTTCCTATCCTTGTATATACATACATCATCTAATTATATAGTTTTA
1 GGATCACATTATCAAGTAGGTTCCTATCCTTCTATATACATACATCATCTAATTATATAGTTTTA
25073058 TCCATTTCAGCATGTT
66 TCCATTTCAGCATGTT
*
25073074 GGATCACATTATCAAGTAGGTTCCTCTCCTTCTATATACATACATCATCTAATTATATAGTTTTA
1 GGATCACATTATCAAGTAGGTTCCTATCCTTCTATATACATACATCATCTAATTATATAGTTTTA
25073139 TCCATTTCAGCATGTT
66 TCCATTTCAGCATGTT
25073155 ATTGCATGAG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (81 bp):
GGATCACATTATCAAGTAGGTTCCTATCCTTCTATATACATACATCATCTAATTATATAGTTTTA
TCCATTTCAGCATGTT
Found at i:25088513 original size:25 final size:25
Alignment explanation
Indices: 25088485--25088551 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
25088475 TATTTTTATA
25088485 AAAAAATAAAAATAATAAAGAAAGG
1 AAAAAATAAAAATAATAAAGAAAGG
* *
25088510 AAAAAATATAAAAT-ATAAATAAAGT
1 AAAAAATA-AAAATAATAAAGAAAGG
25088535 AAAAAGATAACAAATAA
1 AAAAA-ATAA-AAATAA
25088552 GTAGCTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 23 0.64
26 12 0.33
27 1 0.03
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.16
Consensus pattern (25 bp):
AAAAAATAAAAATAATAAAGAAAGG
Found at i:25093167 original size:12 final size:12
Alignment explanation
Indices: 25093150--25093179 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25093140 CCTTTTTATC
*
25093150 ATTTATATAAAT
1 ATTTATAAAAAT
25093162 ATTTATAAAAAT
1 ATTTATAAAAAT
25093174 ATTTAT
1 ATTTAT
25093180 GACTCAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTATAAAAAT
Found at i:25098984 original size:22 final size:23
Alignment explanation
Indices: 25098947--25098998 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
25098937 TAATGAAAGT
*
25098947 TATATATGTATAAAA-TATATATG
1 TATATATGTATAAAATTAAATA-G
*
25098970 TATATA-GTTTAAAATTAAATAG
1 TATATATGTATAAAATTAAATAG
25098992 TATATAT
1 TATATAT
25098999 TACATATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (23 bp):
TATATATGTATAAAATTAAATAG
Found at i:25099093 original size:3 final size:3
Alignment explanation
Indices: 25099085--25099135 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
25099075 ATAATCAAAT
* *
25099085 ATA ATA ATA ATA ACA ATA ATAA ATA GTA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
25099130 ATA ATA
1 ATA ATA
25099136 GCAAATAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.88
4 3 0.07
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:25099104 original size:12 final size:12
Alignment explanation
Indices: 25099087--25099156 Score: 68
Period size: 12 Copynumber: 5.5 Consensus size: 12
25099077 AATCAAATAT
*
25099087 AATAATAATAAC
1 AATAATAATAAA
25099099 AATAATAAATAGTAA
1 AATAAT-AATA--AA
*
25099114 AATAATAATAAT
1 AATAATAATAAA
*
25099126 AATAATAATAGCA
1 AATAATAATA-AA
*
25099139 AATAAAAATAAA
1 AATAATAATAAA
25099151 AATAAT
1 AATAAT
25099157 TAAATAATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
12 23 0.49
13 13 0.28
14 4 0.09
15 7 0.15
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:25099108 original size:24 final size:24
Alignment explanation
Indices: 25099075--25099130 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
25099065 ATAGGTAAAT
25099075 ATAATCAAATA-TAATAATAATAACA
1 ATAAT-AAATAGTAA-AATAATAACA
*
25099100 ATAATAAATAGTAAAATAATAATA
1 ATAATAAATAGTAAAATAATAACA
25099124 ATAATAA
1 ATAATAA
25099131 TAATAGCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
ATAATAAATAGTAAAATAATAACA
Found at i:25099114 original size:7 final size:7
Alignment explanation
Indices: 25099085--25099164 Score: 55
Period size: 6 Copynumber: 11.7 Consensus size: 7
25099075 ATAATCAAAT
25099085 ATAAT-A
1 ATAATAA
25099091 ATAATAACA
1 ATAAT-A-A
25099100 ATAATAA
1 ATAATAA
*
25099107 ATAGTAAA
1 ATAAT-AA
25099115 ATAAT-A
1 ATAATAA
25099121 ATAAT-A
1 ATAATAA
25099127 ATAAT-A
1 ATAATAA
**
25099133 ATAGCAA
1 ATAATAA
25099140 ATAA-AA
1 ATAATAA
25099146 ATAA-AA
1 ATAATAA
25099152 ATAATTAA
1 ATAA-TAA
25099160 ATAAT
1 ATAAT
25099165 TAGAAAACGC
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
6 33 0.53
7 10 0.16
8 13 0.21
9 6 0.10
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (7 bp):
ATAATAA
Found at i:25099145 original size:30 final size:30
Alignment explanation
Indices: 25099085--25099164 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 30
25099075 ATAATCAAAT
25099085 ATAATAATAATAACAATAATAAATAGT-AAA
1 ATAATAATAATAA-AATAATAAATAGTAAAA
25099115 ATAATAATAATAATAATAATAGCAA-A-TAAAA
1 ATAATAATAATAA-AATAATA--AATAGTAAAA
* *
25099146 ATAAAAATAATTAAATAAT
1 ATAATAATAATAAAATAAT
25099165 TAGAAAACGC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
30 27 0.61
31 15 0.34
32 2 0.05
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (30 bp):
ATAATAATAATAAAATAATAAATAGTAAAA
Found at i:25100785 original size:44 final size:44
Alignment explanation
Indices: 25100710--25100956 Score: 318
Period size: 44 Copynumber: 5.6 Consensus size: 44
25100700 TTCGATTTGC
* **
25100710 TCCACTGCTGCTT-AGGGAGACAGGA-TCTACAATCTTTAACCTAT
1 TCCACTGCTG-TTCAGGGAGATAGGACT-TACAATCTTCCACCTAT
* * *
25100754 TCCATTGCTGTTCAGGGAGATAGGACATACAATCTTTCACCTAT
1 TCCACTGCTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
* *
25100798 TCCATTGCTGTTCAGGGAGCTAGGACTTACAATCTTCCACCTAT
1 TCCACTGCTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
* * *
25100842 TCCACTACTGTTCAGGGAGCTAGGACTTACAATATTCCACCTAT
1 TCCACTGCTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
* * * *
25100886 TCCACTGCTGGTCAAGGAGATAGGACTTGCAATCTTCAACCTAT
1 TCCACTGCTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
*
25100930 TCCACTGCTGGTCAGGGAGATAGGACT
1 TCCACTGCTGTTCAGGGAGATAGGACT
25100957 AATGGCTTAA
Statistics
Matches: 183, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
43 2 0.01
44 181 0.99
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
TCCACTGCTGTTCAGGGAGATAGGACTTACAATCTTCCACCTAT
Found at i:25113966 original size:3 final size:3
Alignment explanation
Indices: 25113958--25114004 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
25113948 ATAATCAAAT
* *
25113958 ATA ATA ATA AAA ATA ATAA ATA GTA A-A ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
25114003 AT
1 AT
25114005 TAAGTGATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:25113987 original size:21 final size:21
Alignment explanation
Indices: 25113943--25113997 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
25113933 TATATATAGG
*
25113943 TAAATATAATCAAATATAATAA
1 TAAAAATAAT-AAATATAATAA
25113965 TAAAAATAATAAATAGTAA-AA
1 TAAAAATAATAAATA-TAATAA
*
25113986 TAATAATAATAA
1 TAAAAATAATAA
25113998 TAATAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAATAATAAATATAATAA
Found at i:25117712 original size:20 final size:20
Alignment explanation
Indices: 25117669--25117715 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
25117659 TTACTCTTTT
*
25117669 ATATATACTTTATATTTTAC
1 ATATATACTTTATATTTTAA
*
25117689 ATATATACTTT-TCTTTGTAA
1 ATATATACTTTATATTT-TAA
25117709 ATATATA
1 ATATATA
25117716 GATATGTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (20 bp):
ATATATACTTTATATTTTAA
Found at i:25119435 original size:19 final size:19
Alignment explanation
Indices: 25119395--25119436 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
25119385 GTCTCTTTTC
* *
25119395 GCATTCATTTCATGCATTT
1 GCATTCATTGCATGCATAT
25119414 GCATTACATTGCAT-CATAT
1 GCATT-CATTGCATGCATAT
25119433 GCAT
1 GCAT
25119437 CAAACACCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (19 bp):
GCATTCATTGCATGCATAT
Found at i:25121360 original size:19 final size:19
Alignment explanation
Indices: 25121320--25121360 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25121310 GCAAATGTTC
*
25121320 TTTCATTCTTTACAATTTT
1 TTTCATTCTTTACAATTCT
25121339 TTTCATTCTTT-CAGATTCT
1 TTTCATTCTTTACA-ATTCT
25121358 TTT
1 TTT
25121361 TACCAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.17, C:0.17, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTCATTCTTTACAATTCT
Found at i:25123584 original size:48 final size:48
Alignment explanation
Indices: 25123530--25123685 Score: 230
Period size: 48 Copynumber: 3.3 Consensus size: 48
25123520 GTTGAGAGAT
25123530 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAA
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAA
*** * * *
25123578 AGCAGATCTTGTCTTCATGTACTGGT-GTGAAGTAGATC-AAAG-ATA
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAA
25123623 A-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAA
1 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAA
25123670 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
25123686 ATGTACGACG
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
44 21 0.23
45 14 0.15
46 6 0.07
47 14 0.15
48 37 0.40
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (48 bp):
AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGGAAAA
Found at i:25123862 original size:50 final size:50
Alignment explanation
Indices: 25123708--25123862 Score: 127
Period size: 50 Copynumber: 3.1 Consensus size: 50
25123698 TCTGGTTTCC
* * ** *
25123708 CTGATATTGCAATTAAAAAGATTGAAGCCACAACAACGGATATTACTTCT
1 CTGACATTGCATTTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCT
* * ** * * * * * *
25123758 -TTAGCAGTGCAATGGAATAA-ATTGAAGCTACGACGGCGGATC-AAGTTTT
1 CTGA-CATTGC-ATTTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCT
25123807 CCTGACATTGCATTTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCT
1 -CTGACATTGCATTTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCT
25123858 CTGAC
1 CTGAC
25123863 GGTGCGGTGG
Statistics
Matches: 74, Mismatches: 25, Indels: 12
0.67 0.23 0.11
Matches are distributed among these distances:
49 12 0.16
50 51 0.69
51 11 0.15
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (50 bp):
CTGACATTGCATTTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCT
Found at i:25123915 original size:100 final size:100
Alignment explanation
Indices: 25123690--25123918 Score: 280
Period size: 100 Copynumber: 2.3 Consensus size: 100
25123680 GTCTTCATGT
*
25123690 ACGACGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACAACGGATATTACT
1 ACGACGGATCTGGTTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAACAACGGATATTACT
* *
25123755 TCTTTAGCAGTGCAATGGAATAAATTGAAGCTACG
66 TCTTGAGCAGTGCAATGGAACAAATTGAAGCTACG
* ** * * ** *
25123790 ACGGCGGATCAAGTTTTCCTGACATTGCATTTAAAAAGATTGAAGCCACAACGGCGGATCTTACT
1 ACGACGGATCTGGTTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAACAACGGATATTACT
* ** *
25123855 TCTCTGA-CGGTGCGGTGGAACAGATTGAAGCTACG
66 TCT-TGAGCAGTGCAATGGAACAAATTGAAGCTACG
* **
25123890 ACGACGAATCTGGTTTCCCCAACATTGCA
1 ACGACGGATCTGGTTTCCCTGACATTGCA
25123919 GTTGAACAAA
Statistics
Matches: 106, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
100 104 0.98
101 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
ACGACGGATCTGGTTTCCCTGACATTGCAATTAAAAAGATTGAAGCCACAACAACGGATATTACT
TCTTGAGCAGTGCAATGGAACAAATTGAAGCTACG
Found at i:25124546 original size:387 final size:387
Alignment explanation
Indices: 25123762--25124941 Score: 2000
Period size: 387 Copynumber: 3.0 Consensus size: 387
25123752 ACTTCTTTAG
* * * * *
25123762 CAGTGCAATGGAATAAATTGAAGCTACGACGGCGGATCAAGTTTTCCTGACATTGCATTTAAAAA
1 CAGTGCAGTGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTTCCTGACATTGC-------AA
*
25123827 GATTGAAGCCACAACGGCGGATCTTACTTCTCTGACGGTGCGGTGGAACAGATTGAAGCTACGAC
59 GATTGAAGCCACAACGGCGGATCTTACTTCCCTGACGGTGCGGTGGAACAGATTGAAGCTACGAC
* * * * *
25123892 GACGAATCTGGTTTCCCCAACATTGCAGTTGAACAAATTGAAGAAACTAATCCTATCTCCCTAAG
124 GGCGGATCTGGTTTCCCCGACATTGCAGTTGAACAAATTGAAGAAACTAATCCTATCTCTCTGAG
* *
25123957 GTTGCAGTGGAGAGGATTAAAATCGTAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATCGCA
189 GTTGCAGTGGAGAGGATTAAAATCGCAGATCTCATTTCTCTGAAGTTGCAGTAGAGCAGATCGCA
** *
25124022 TTGGATTTATCTTTAAGTTGTAGCAGAATAAATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGC
254 TCAGATTTATCTTTAAGTTGTAGCAGAACAAATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGC
25124087 AGTGGAGCGGATTAAAGATAGCAAATTTTGTTCTTTTAAAGCTACAACGTATGAACCCTATCTCT
319 AGTGGAGCGGATTAAAGATAGCAAATTTTGTTCTTTTAAAGCTACAACGTATGAACCCTATCTCT
25124152 CTGA
384 CTGA
*
25124156 CAGTGCAGTGGAACAGATTGAGGCTACAACGGCGGATCTAGTTTTCCTGACATTGCAAGATTGAA
1 CAGTGCAGTGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTTCCTGACATTGCAAGATTGAA
* * * *
25124221 GCCACAACGGCGAATTTTACTTCCCTAACGGTGCGGTGGAACAGATTGAAGTTACGACGGCGGAT
66 GCCACAACGGCGGATCTTACTTCCCTGACGGTGCGGTGGAACAGATTGAAGCTACGACGGCGGAT
*
25124286 CTGGTTTCCCCGACATTGCAGTTGAACAAATTGAAGAAAATAATCCTATCTCTCTGAGGTTGCAG
131 CTGGTTTCCCCGACATTGCAGTTGAACAAATTGAAGAAACTAATCCTATCTCTCTGAGGTTGCAG
25124351 TGGAGAGGATTAAAATCGCAGATCTCATTTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAGATT
196 TGGAGAGGATTAAAATCGCAGATCTCATTTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAGATT
*
25124416 TATCTTTAAGTTGTAGCAGAACAAATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGTAGTGGAG
261 TATCTTTAAGTTGTAGCAGAACAAATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
*
25124481 CGGATTAAAGATAGCAAATTTTGTTCTTTTAAAGCTACAACGTATGAACCCTATCTCTTTGA
326 CGGATTAAAGATAGCAAATTTTGTTCTTTTAAAGCTACAACGTATGAACCCTATCTCTCTGA
25124543 CAGTGCAGTGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTTCCTGACATTGCAAGATTGAA
1 CAGTGCAGTGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTTCCTGACATTGCAAGATTGAA
* *
25124608 GCCACAACGGCGGATCTTATTTCCCTGACGGTGCGGTGGAACAGATTGAAGCTACGACAGCGGAT
66 GCCACAACGGCGGATCTTACTTCCCTGACGGTGCGGTGGAACAGATTGAAGCTACGACGGCGGAT
25124673 CTGGTTTCCCCGACATTGCAGTTGAACAAATTGAAGAAACTAATCCTATCTCTCTGAGGTTGCAG
131 CTGGTTTCCCCGACATTGCAGTTGAACAAATTGAAGAAACTAATCCTATCTCTCTGAGGTTGCAG
*
25124738 TGGAGAGGATTAAAATCGCAGATCTCATTTCTCTGAAGTTACAGTAGAGCAGATCGCATCAGATT
196 TGGAGAGGATTAAAATCGCAGATCTCATTTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAGATT
25124803 TATCTTTAAGTTGTAGCAGAACAAATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
261 TATCTTTAAGTTGTAGCAGAACAAATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * * *
25124868 CAGATTAAAGATAGCAAATTTTGTTCTTTTAAAGCTACAACATATGAACCTTATCTCTCTAA
326 CGGATTAAAGATAGCAAATTTTGTTCTTTTAAAGCTACAACGTATGAACCCTATCTCTCTGA
* *
25124930 CATTGCAATGGA
1 CAGTGCAGTGGA
25124942 GTGGATTGAA
Statistics
Matches: 745, Mismatches: 41, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
387 695 0.93
394 50 0.07
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (387 bp):
CAGTGCAGTGGAACAGATTGAAGCTACAACGGCGGATCTAGTTTTCCTGACATTGCAAGATTGAA
GCCACAACGGCGGATCTTACTTCCCTGACGGTGCGGTGGAACAGATTGAAGCTACGACGGCGGAT
CTGGTTTCCCCGACATTGCAGTTGAACAAATTGAAGAAACTAATCCTATCTCTCTGAGGTTGCAG
TGGAGAGGATTAAAATCGCAGATCTCATTTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAGATT
TATCTTTAAGTTGTAGCAGAACAAATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
CGGATTAAAGATAGCAAATTTTGTTCTTTTAAAGCTACAACGTATGAACCCTATCTCTCTGA
Found at i:25124700 original size:50 final size:50
Alignment explanation
Indices: 25124600--25124708 Score: 119
Period size: 50 Copynumber: 2.2 Consensus size: 50
25124590 TGACATTGCA
* * * * *
25124600 AGATTGAAGCCACAACGGCGGATCTTATTTCCCTGACGGTGCGGTGGAAC
1 AGATTGAAGCCACAACAGCGGATCTGATTTCCCCGACAGTGCAGTGGAAC
* * * * *
25124650 AGATTGAAGCTACGACAGCGGATCTGGTTTCCCCGACATTGCAGTTGAAC
1 AGATTGAAGCCACAACAGCGGATCTGATTTCCCCGACAGTGCAGTGGAAC
*
25124700 AAATTGAAG
1 AGATTGAAG
25124709 AAACTAATCC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCACAACAGCGGATCTGATTTCCCCGACAGTGCAGTGGAAC
Found at i:25126416 original size:20 final size:20
Alignment explanation
Indices: 25126373--25126419 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
25126363 TTACTCTTTT
*
25126373 ATATATACTTTATATTTTAC
1 ATATATACTTTATATTTTAA
*
25126393 ATATATACTTT-TCTTTGTAA
1 ATATATACTTTATATTT-TAA
25126413 ATATATA
1 ATATATA
25126420 GATATGTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (20 bp):
ATATATACTTTATATTTTAA
Found at i:25129894 original size:33 final size:35
Alignment explanation
Indices: 25129847--25129915 Score: 99
Period size: 33 Copynumber: 2.0 Consensus size: 35
25129837 TATTTATATC
*
25129847 AAATAATTTCAAAAA-TAAAAAAGTTAAAATTAAAA
1 AAATAATTTCAAAAATTAAAAAAATT-AAATTAAAA
25129882 AAAT-ATTT-AAAAATTAAAAAAATTAAATTAAAA
1 AAATAATTTCAAAAATTAAAAAAATTAAATTAAAA
25129915 A
1 A
25129916 TTTATTAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 15 0.47
34 13 0.41
35 4 0.12
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (35 bp):
AAATAATTTCAAAAATTAAAAAAATTAAATTAAAA
Found at i:25130215 original size:26 final size:28
Alignment explanation
Indices: 25130175--25130231 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
25130165 AAAAATATCT
25130175 AATATATTTTGTATA-A-TTATAAATTTAA
1 AATATATTTTGTATACACTTA-AAA-TTAA
25130203 AATATA-TTT-TATACACTTAAAATTAA
1 AATATATTTTGTATACACTTAAAATTAA
25130229 AAT
1 AAT
25130232 TGCATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
26 11 0.41
27 7 0.26
28 9 0.33
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
AATATATTTTGTATACACTTAAAATTAA
Found at i:25144820 original size:31 final size:31
Alignment explanation
Indices: 25144784--25144843 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
25144774 TGGATTTCTC
25144784 TTTTTGCATCTTCCAAATTTGAAAACCTCAA
1 TTTTTGCATCTTCCAAATTTGAAAACCTCAA
25144815 TTTTTGCATCTTCCAAATTTGAAAACCTC
1 TTTTTGCATCTTCCAAATTTGAAAACCTC
25144844 GTGAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (31 bp):
TTTTTGCATCTTCCAAATTTGAAAACCTCAA
Found at i:25149833 original size:23 final size:20
Alignment explanation
Indices: 25149807--25149851 Score: 54
Period size: 23 Copynumber: 2.1 Consensus size: 20
25149797 TTGCAAAACA
25149807 GTTTACTGAGTGAATTCCATTTT
1 GTTTACTGAG-GAATT--ATTTT
*
25149830 GTTTATTGAGGAATTATTTT
1 GTTTACTGAGGAATTATTTT
25149850 GT
1 GT
25149852 GAGAGAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
22 5 0.24
23 9 0.43
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (20 bp):
GTTTACTGAGGAATTATTTT
Found at i:25152887 original size:20 final size:20
Alignment explanation
Indices: 25152856--25152893 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25152846 GGTTTTTTTA
25152856 AAGGTCAGATTTTATTATTTC
1 AAGGTCAGATTTT-TTATTTC
25152877 AAGGT-AGATTTTTTATT
1 AAGGTCAGATTTTTTATT
25152894 ATTGTAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (20 bp):
AAGGTCAGATTTTTTATTTC
Found at i:25152889 original size:21 final size:22
Alignment explanation
Indices: 25152856--25152896 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25152846 GGTTTTTTTA
25152856 AAGGTCAGA-TTTTATTATTTC
1 AAGGTCAGATTTTTATTATTTC
25152877 AAGGT-AGATTTTTTATTATT
1 AAGGTCAGA-TTTTTATTATT
25152897 GTAAAGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 5 0.28
22 10 0.56
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (22 bp):
AAGGTCAGATTTTTATTATTTC
Found at i:25153069 original size:16 final size:16
Alignment explanation
Indices: 25153048--25153080 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
25153038 TAATGATATT
*
25153048 TTTTATTTTTAAATAA
1 TTTTATTTTAAAATAA
25153064 TTTTATTTTAAAATAA
1 TTTTATTTTAAAATAA
25153080 T
1 T
25153081 AAGATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATTTTAAAATAA
Found at i:25153750 original size:23 final size:23
Alignment explanation
Indices: 25153723--25153768 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
25153713 AAGTTGATAA
25153723 AGGAGGAATAACACAATTTAAAG
1 AGGAGGAATAACACAATTTAAAG
*
25153746 AGGAGGAATAACACGATTTAAAG
1 AGGAGGAATAACACAATTTAAAG
25153769 CGCACATTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.17
Consensus pattern (23 bp):
AGGAGGAATAACACAATTTAAAG
Found at i:25157111 original size:6 final size:6
Alignment explanation
Indices: 25157100--25157127 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
25157090 AAGTGACTTT
25157100 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
25157128 TATGTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:25172440 original size:36 final size:36
Alignment explanation
Indices: 25172383--25172640 Score: 203
Period size: 36 Copynumber: 7.2 Consensus size: 36
25172373 GAAGCACAAA
*
25172383 AATTTTTTG-AAACACTG-AAATTTATGAAACACTGGC
1 AATTTTTTGAAAACAC-GAAAATTTATGAAACAC-GGG
* * * *
25172419 AA-TTTTTGAAAACGCAAAAATTTTTGAAAGACGGG
1 AATTTTTTGAAAACACGAAAATTTATGAAACACGGG
* *
25172454 AATTTTTTGCAAACACGGAAATTTATGAAACACGGG
1 AATTTTTTGAAAACACGAAAATTTATGAAACACGGG
*
25172490 AATTTTTTTTGAAAACACGAAAATTT-TCGAAACAC-GA
1 AA--TTTTTTGAAAACACGAAAATTTAT-GAAACACGGG
* * * *
25172527 AAATTTTTGAAAACACGATAATTTTTGAAAACAC-GA
1 AATTTTTTGAAAACACGAAAATTTATG-AAACACGGG
* * * *
25172563 AAATTGTTGAAAACACGAAAAAATTT-TGAAATACCGG
1 AATTTTTTGAAAACACG--AAAATTTATGAAACACGGG
* * *
25172600 -ATTTTTTGAAAACAAGAAGATTTTTGAAACAC--G
1 AATTTTTTGAAAACACGAAAATTTATGAAACACGGG
25172633 AATTTTTT
1 AATTTTTT
25172641 TATTTTATTT
Statistics
Matches: 184, Mismatches: 25, Indels: 28
0.78 0.11 0.12
Matches are distributed among these distances:
33 1 0.01
34 13 0.07
35 38 0.21
36 92 0.50
37 7 0.04
38 33 0.18
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (36 bp):
AATTTTTTGAAAACACGAAAATTTATGAAACACGGG
Found at i:25172475 original size:72 final size:69
Alignment explanation
Indices: 25172383--25172640 Score: 234
Period size: 72 Copynumber: 3.6 Consensus size: 69
25172373 GAAGCACAAA
* *
25172383 AATTTTTTG-AAACACTGAAATTTATGAAACACTGGCAATTTTTGAAAACGCAAAAATTTTTGAA
1 AATTTTTTGAAAACAC-GAAATTTATGAAACAC-GGAAATTTTTGAAAACACAAAAATTTTTGAA
*
25172447 AGACGGG
64 ACAC-GG
* * * *
25172454 AATTTTTTGCAAACACGGAAATTTATGAAACACGGGAATTTTTTTTGAAAACACGAAAATTTTCG
1 AATTTTTTGAAAACAC-GAAATTTATGAAACAC-GGAA--ATTTTTGAAAACACAAAAATTTTTG
*
25172519 AAACACGA
62 AAACACGG
* * * * *
25172527 AAATTTTTGAAAACACGATAATTTTTGAAAACACGAAAATTGTTGAAAACACGAAAAAATTTTGA
1 AATTTTTTGAAAACACGA-AATTTATG-AAACACGGAAATTTTTGAAAACAC-AAAAATTTTTGA
*
25172592 AATACCGG
63 AACA-CGG
* * *
25172600 -ATTTTTTGAAAACAAGAAGATTTTTGAAACAC-GAATTTTTT
1 AATTTTTTGAAAACACGAA-ATTTATGAAACACGGAAATTTTT
25172641 TATTTTATTT
Statistics
Matches: 154, Mismatches: 25, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
70 6 0.04
71 28 0.18
72 61 0.40
73 27 0.18
74 32 0.21
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (69 bp):
AATTTTTTGAAAACACGAAATTTATGAAACACGGAAATTTTTGAAAACACAAAAATTTTTGAAAC
ACGG
Found at i:25172641 original size:17 final size:18
Alignment explanation
Indices: 25172381--25172634 Score: 175
Period size: 18 Copynumber: 14.1 Consensus size: 18
25172371 TAGAAGCACA
25172381 AAAATTTTTTG-AAACACTG
1 AAAA-TTTTTGAAAACAC-G
*
25172400 -AAATTTATG-AAACACTG
1 AAAATTTTTGAAAACAC-G
** * *
25172417 GCAATTTTTGAAAACGCA
1 AAAATTTTTGAAAACACG
*
25172435 AAAATTTTTGAAAGAC-GG
1 AAAATTTTTGAAA-ACACG
* * *
25172453 GAATTTTTTGCAAACACG
1 AAAATTTTTGAAAACACG
* *
25172471 GAAATTTATG-AAACACGGG
1 AAAATTTTTGAAAACAC--G
**
25172490 AATTTTTTTTGAAAACACG
1 AA-AATTTTTGAAAACACG
*
25172509 AAAATTTTCG-AAACACG
1 AAAATTTTTGAAAACACG
25172526 AAAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
*
25172544 ATAATTTTTGAAAACACG
1 AAAATTTTTGAAAACACG
*
25172562 AAAATTGTTGAAAACACG
1 AAAATTTTTGAAAACACG
*
25172580 AAAAAATTTTGAAATAC-CG
1 -AAAATTTTTGAAA-ACACG
* * *
25172599 -GATTTTTTGAAAACAAG
1 AAAATTTTTGAAAACACG
*
25172616 AAGATTTTTG-AAACACG
1 AAAATTTTTGAAAACACG
25172633 AA
1 AA
25172635 TTTTTTTATT
Statistics
Matches: 186, Mismatches: 36, Indels: 28
0.74 0.14 0.11
Matches are distributed among these distances:
16 2 0.01
17 55 0.30
18 91 0.49
19 25 0.13
20 7 0.04
21 6 0.03
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (18 bp):
AAAATTTTTGAAAACACG
Found at i:25172944 original size:5 final size:5
Alignment explanation
Indices: 25172934--25172958 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
25172924 TAAAATTATT
25172934 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
25172959 ATTGAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:25173158 original size:12 final size:12
Alignment explanation
Indices: 25173141--25173230 Score: 76
Period size: 12 Copynumber: 7.2 Consensus size: 12
25173131 AAATTGAACC
25173141 CTTTTTTTTCTT
1 CTTTTTTTTCTT
25173153 CTTTTTTTTC-T
1 CTTTTTTTTCTT
25173164 CTTTTTTTTCTT
1 CTTTTTTTTCTT
* *
25173176 TTTCTTTTTGTTTT
1 CTT-TTTTT-TCTT
*
25173190 CTTTTTTCTTTTTT
1 C-TTTTT-TTTCTT
*
25173204 CTTCTGTTTTC-T
1 CTT-TTTTTTCTT
25173216 CTTTTTTTTTCTT
1 C-TTTTTTTTCTT
25173229 CT
1 CT
25173231 CTGCTGGGCC
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
11 11 0.17
12 22 0.34
13 14 0.22
14 13 0.20
15 4 0.06
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (12 bp):
CTTTTTTTTCTT
Found at i:25173159 original size:11 final size:11
Alignment explanation
Indices: 25173143--25173230 Score: 69
Period size: 10 Copynumber: 8.1 Consensus size: 11
25173133 ATTGAACCCT
25173143 TTTTTTTCTTC
1 TTTTTTTCTTC
25173154 -TTTTTT-TTC
1 TTTTTTTCTTC
25173163 TCTTTTTT-TTC
1 T-TTTTTTCTTC
* *
25173174 TTTTTCTTTTTG
1 TTTTT-TTCTTC
*
25173186 TTTTCTTTTTTC
1 TTTT-TTTCTTC
25173198 -TTTTTTCTTC
1 TTTTTTTCTTC
*
25173208 TGTTTTCTCTT-
1 T-TTTTTTCTTC
25173219 TTTTTTTCTTC
1 TTTTTTTCTTC
25173230 T
1 T
25173231 CTGCTGGGCC
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
9 3 0.05
10 24 0.38
11 17 0.27
12 19 0.30
13 1 0.02
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:25173179 original size:17 final size:17
Alignment explanation
Indices: 25173157--25173224 Score: 95
Period size: 17 Copynumber: 3.9 Consensus size: 17
25173147 TTTCTTCTTT
25173157 TTTTTCTCTTTTTTTTC
1 TTTTTCTCTTTTTTTTC
25173174 TTTTTCT-TTTTGTTTTC
1 TTTTTCTCTTTT-TTTTC
25173191 TTTTT-TCTTTTTTCTTC
1 TTTTTCTCTTTTTT-TTC
25173208 TGTTTTCTCTTTTTTTT
1 T-TTTTCTCTTTTTTTT
25173225 TCTTCTCTGC
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.15
17 25 0.54
18 6 0.13
19 8 0.17
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTCTCTTTTTTTTC
Found at i:25173183 original size:24 final size:24
Alignment explanation
Indices: 25173141--25173224 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 24
25173131 AAATTGAACC
*
25173141 CTTTTTTTTCTTCTT-TTTTTTCT
1 CTTTTTTTTCTTTTTCTTTTTTCT
*
25173164 CTTTTTTTTCTTTTTCTTTTTGTTTT
1 CTTTTTTTTCTTTTTC-TTTT-TTCT
* *
25173190 CTTTTTTCTTTTTTCTTCTGTTTTCT
1 CTTTTTT-TTCTTT-TTCTTTTTTCT
25173216 CTTTTTTTT
1 CTTTTTTTT
25173225 TCTTCTCTGC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
23 14 0.27
25 6 0.12
26 20 0.39
27 8 0.16
28 3 0.06
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.82
Consensus pattern (24 bp):
CTTTTTTTTCTTTTTCTTTTTTCT
Found at i:25173215 original size:7 final size:6
Alignment explanation
Indices: 25173145--25173228 Score: 63
Period size: 6 Copynumber: 14.3 Consensus size: 6
25173135 TGAACCCTTT
* *
25173145 TTTTTC TTCTTT- TTTTTC TCTTT- TTTTTC TTTTTC TTTTT- GTTTTC
1 TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
25173191 TTTTT- TCTTTT- TTCTTC TGTTTTC TCTTTT- TTTTTC TT
1 TTTTTC T-TTTTC TTTTTC T-TTTTC T-TTTTC TTTTTC TT
25173229 CTCTGCTGGG
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
5 19 0.30
6 32 0.51
7 12 0.19
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:25173225 original size:24 final size:23
Alignment explanation
Indices: 25173141--25173228 Score: 56
Period size: 25 Copynumber: 3.7 Consensus size: 23
25173131 AAATTGAACC
* *
25173141 CTTTTTTTTCTTCTTTTTTTTCT
1 CTTTTTTTTTTTCTTTGTTTTCT
25173164 CTTTTTTTTCTTTTTCTTTTTGTTTTCT
1 C--TTTTTT-TTTTTC--TTTGTTTTCT
*
25173192 -TTTTTCTTTTTTC-TTCTGTTT-T
1 CTTTTT-TTTTTTCTTTGT-TTTCT
*
25173214 CTCTTTTTTTTTCTT
1 CTTTTTTTTTTTCTT
25173229 CTCTGCTGGG
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
22 11 0.21
23 9 0.17
25 17 0.33
26 6 0.12
28 9 0.17
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (23 bp):
CTTTTTTTTTTTCTTTGTTTTCT
Found at i:25173341 original size:32 final size:30
Alignment explanation
Indices: 25173251--25173320 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
25173241 GACCTGTTAG
25173251 GCCTGCACACCTACTGGCTGCTGCTGGGCT
1 GCCTGCACACCTACTGGCTGCTGCTGGGCT
25173281 GCCTGCACACCTACTGGCTGCTGCTGGGCT
1 GCCTGCACACCTACTGGCTGCTGCTGGGCT
25173311 GCCTGCACAC
1 GCCTGCACAC
25173321 TAGGCCTGGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.11, C:0.39, G:0.29, T:0.21
Consensus pattern (30 bp):
GCCTGCACACCTACTGGCTGCTGCTGGGCT
Found at i:25173378 original size:26 final size:25
Alignment explanation
Indices: 25173349--25173402 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
25173339 GGCCGCTGGG
* *
25173349 TTTTGGGCTGCTTCTTTCTTTTCTTT
1 TTTTCGGCTGCTTCTTTCTCTT-TTT
*
25173375 TTTTCTGCTGCTTCTTTCTCTTTTT
1 TTTTCGGCTGCTTCTTTCTCTTTTT
25173400 TTT
1 TTT
25173403 GCTTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.00, C:0.20, G:0.11, T:0.69
Consensus pattern (25 bp):
TTTTCGGCTGCTTCTTTCTCTTTTT
Found at i:25173382 original size:23 final size:23
Alignment explanation
Indices: 25173356--25173406 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
25173346 GGGTTTTGGG
25173356 CTGCTTCTTTCTTT-TCTTTTTTT
1 CTGCTTC-TTCTTTCTCTTTTTTT
*
25173379 CTGCTGCTTCTTTCTCTTTTTTT
1 CTGCTTCTTCTTTCTCTTTTTTT
25173402 -TGCTT
1 CTGCTT
25173407 TTTTTTGGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.00, C:0.24, G:0.08, T:0.69
Consensus pattern (23 bp):
CTGCTTCTTCTTTCTCTTTTTTT
Found at i:25173517 original size:19 final size:19
Alignment explanation
Indices: 25173493--25173533 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25173483 TGTTAAAATT
25173493 TTTTTCTATTTT-TTCTTTC
1 TTTTTCT-TTTTCTTCTTTC
*
25173512 TTTTTCTTTTTCTTTTTTC
1 TTTTTCTTTTTCTTCTTTC
25173531 TTT
1 TTT
25173534 CCCCCTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTCTTTTTCTTCTTTC
Found at i:25173528 original size:13 final size:13
Alignment explanation
Indices: 25173493--25173533 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
25173483 TGTTAAAATT
25173493 TTTTTCTATTTTT-
1 TTTTTCT-TTTTTC
*
25173506 TCTTTC-TTTTTC
1 TTTTTCTTTTTTC
25173518 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
25173531 TTT
1 TTT
25173534 CCCCCTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 5 0.21
12 5 0.21
13 14 0.58
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:25173701 original size:12 final size:12
Alignment explanation
Indices: 25173668--25173708 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
25173658 TGGTCTCCCC
25173668 TTTTTTCT-TTT
1 TTTTTTCTCTTT
*
25173679 TTCTTTGCTCTTT
1 TT-TTTTCTCTTT
25173692 TTTTTTCTCTTT
1 TTTTTTCTCTTT
25173704 TTTTT
1 TTTTT
25173709 CTTTTGCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 2 0.08
12 19 0.73
13 5 0.19
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:25173876 original size:22 final size:21
Alignment explanation
Indices: 25173851--25173901 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
25173841 TGCTCAAAAA
25173851 TTTGTTTTTTTTCTTTTTTTGC
1 TTTGTTTTTTTTCTTTTTTT-C
*
25173873 TTTGTTTTTTTTGTTTTTTTC
1 TTTGTTTTTTTTCTTTTTTTC
25173894 TCTTGTTT
1 T-TTGTTT
25173902 CTCTTTGCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.00, C:0.08, G:0.10, T:0.82
Consensus pattern (21 bp):
TTTGTTTTTTTTCTTTTTTTC
Found at i:25173908 original size:23 final size:22
Alignment explanation
Indices: 25173851--25173908 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
25173841 TGCTCAAAAA
* *
25173851 TTTGTTTTTTTTCTTTTTTTGC
1 TTTGTTTTCTTTGTTTTTTTGC
*
25173873 TTTGTTTTTTTTGTTTTTTT-C
1 TTTGTTTTCTTTGTTTTTTTGC
25173894 TCTTGTTTCTCTTTG
1 T-TTGTTT-TCTTTG
25173909 CTGCTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 2 0.06
22 25 0.78
23 5 0.16
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.79
Consensus pattern (22 bp):
TTTGTTTTCTTTGTTTTTTTGC
Found at i:25174157 original size:30 final size:29
Alignment explanation
Indices: 25174109--25174207 Score: 119
Period size: 30 Copynumber: 3.4 Consensus size: 29
25174099 TTTTAGGGTC
*
25174109 AAATGTAA-TTCTAGAAAGTTCAAGGGTTA
1 AAATGTAATTTCAAGAAAGTT-AAGGGTTA
* *
25174138 AAATGTAATTTCAAGAAAGTTTAGAGGTTG
1 AAATGTAATTTCAAGAAAGTTAAG-GGTTA
* * *
25174168 AAATGTAATTTCAAAAAAGTTAGGGGTCA
1 AAATGTAATTTCAAGAAAGTTAAGGGTTA
25174197 AAATGTAATTT
1 AAATGTAATTT
25174208 TTTTTAAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 24 0.40
30 36 0.60
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.32
Consensus pattern (29 bp):
AAATGTAATTTCAAGAAAGTTAAGGGTTA
Found at i:25174687 original size:77 final size:76
Alignment explanation
Indices: 25174490--25175110 Score: 804
Period size: 77 Copynumber: 8.1 Consensus size: 76
25174480 TTTTATTTAA
** * *
25174490 AAAAATACCTCAACATGTGACCCGAGGCTCAACTCACATCTCACAATATGAGTTGATTTTTGAAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* * *
25174555 AACTGAAATTTAA
66 AACAGAAA-CT-G
* * *
25174568 AAGAAATACCTC-GGCATGTG-TCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGCTTTTTTG
1 AA-AAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTG
25174631 AAAAACAGAAACTG
63 AAAAACAGAAACTG
*
25174645 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG-
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
25174709 AAAACAGAAACTG
64 AAAACAGAAACTG
25174722 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
25174787 AACAGAAACTG
66 AACAGAAACTG
25174798 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAA
*
25174863 AAATAGAAACTG
65 AAACAGAAACTG
* * * * * *
25174875 AAAAATACCTCAAGATGTGATCCGAGGCTTAACTCACCTCTTGCAATATAAGTTGATTTTTAAAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
25174940 AACAGAAATTTA
66 AACAGAAA-CTG
* *
25174952 AAAAATACCTC-GGCATGTGACCCGAGGCTCAACTCACCTCTCACAATCTGAGTTGATTTCTTTG
1 AAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT-TTTG
* *
25175016 AAAAAAGAGAAATTG
63 -AAAAACAGAAACTG
* * * * *
25175031 GAAAATACCTC--GATGTGACTCGAAGCTCAACTCACCTCTCGCAATATGAGCTAATTTTTGAAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
25175094 AACATAAATTG
66 AACAGAAACTG
25175105 AAAAAT
1 AAAAAT
25175111 GATTCTTGAA
Statistics
Matches: 485, Mismatches: 44, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
74 17 0.04
75 10 0.02
76 101 0.21
77 258 0.53
78 44 0.09
79 45 0.09
80 10 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (76 bp):
AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
AACAGAAACTG
Found at i:25174811 original size:153 final size:152
Alignment explanation
Indices: 25174490--25175110 Score: 811
Period size: 153 Copynumber: 4.0 Consensus size: 152
25174480 TTTTATTTAA
** *
25174490 AAAAATACCTCAACATGTGACCCGAGGCTCAACTCACATCTCACAATATGAGTTGA-TTTTTGAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAA
* * * * *
25174554 AAACTGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACTTCTCGCAATATG
66 AAACAGAAA-CT-GAA-AAATACCTCGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
*
25174618 AGTTGCTTTTTTGAAAAACAGAAACTG
127 AGTTG-ATTTTTGAAAAACAGAAACTG
* *
25174645 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG-
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTTGA
25174709 AAAACAGAAACTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
65 AAAACAGAAACTGAAAAATACCTC-GGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
25174774 TTGATTTTTGAAAAACAGAAACTG
129 TTGATTTTTGAAAAACAGAAACTG
* *
25174798 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAA
* * * * * *
25174863 AAATAGAAACTGAAAAATACCTCAAGATGTGATCCGAGGCTTAACTCACCTCTTGCAATATAAGT
66 AAACAGAAACTGAAAAATACCTC-GGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
25174928 TGATTTTTAAAAAACAGAAATTTA
130 TGATTTTTGAAAAACAGAAA-CTG
*
25174952 AAAAATACCTC-GGCATGTGACCCGAGGCTCAACTCACCTCTCACAATCTGAGTTGATTTCTTTG
1 AAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT-TTTG
* * * * *
25175016 AAAAAAGAGAAATTGGAAAATACCTC-GATGTGACTCGAAGCTCAACTCACCTCTCGCAATATGA
64 -AAAAACAGAAACTGAAAAATACCTCGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
25175080 GCTAATTTTTGAAAAACATAAATTG
128 GTTGATTTTTGAAAAACAGAAACTG
25175105 AAAAAT
1 AAAAAT
25175111 GATTCTTGAA
Statistics
Matches: 418, Mismatches: 39, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
152 6 0.01
153 178 0.43
154 142 0.34
155 55 0.13
156 31 0.07
157 6 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (152 bp):
AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAA
AAACAGAAACTGAAAAATACCTCGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAAACTG
Found at i:25174894 original size:230 final size:228
Alignment explanation
Indices: 25174398--25175110 Score: 851
Period size: 230 Copynumber: 3.1 Consensus size: 228
25174388 TTTTTTAACT
* * * * * * *
25174398 GAAATTGAAAAATACCTC-GGCGTGTGACCTGAGGTTCAACTCACCTCTCACAATATGAGTTGAT
1 GAAACTGAAAAATACCTCAAG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
* * **
25174462 TTTTAAAAAATAGAAAATTTTTATTTAAAAAAATACCTCAACATGTGACCCGAGGCTCAACTCAC
65 TTTTAAAAAACAG--AA-----ATCT-AAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCAC
* * * *
25174527 ATCTCACAATATGAGTTGATTTTTGAAAAACTGAAATTTAAAAGAAATACCTCGGCATGTG-TCC
122 CTCTCACAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCGG-ATGTGACCC
* *
25174591 GAGGCTCAACTCACTTCTCGCAATATGAGTTGCTTTTTTGAAAAACA
183 GAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTGAAAAACA
* * *
25174638 GAAACTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATT
1 GAAACTGAAAAATACCTCAAGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-T
** * *
25174703 TTTTTGAAAACAGAAA-CTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCA
65 TTTTAAAAAACAGAAATCTAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCACA
*
25174767 ATATGAGTTGATTTTTGAAAAACAGAAACTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACT
130 ATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTC-GGATGTGACCCGAGGCTCAACT
*
25174832 CACCTCTCGCAATATGAGTTGATTTTTGGAAAAATA
194 CACCTCTCGCAATATGAGTTGATTTTT-GAAAAACA
* * *
25174868 GAAACTGAAAAATACCTCAAGATGTGATCCGAGGCTTAACTCACCTCTTGCAATATAAGTTGATT
1 GAAACTGAAAAATACCTCAAGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATT
*
25174933 TTTAAAAAACAGAAATTTAAAAAATACCTC-GGCATGTGACCCGAGGCTCAACTCACCTCTCACA
66 TTTAAAAAACAGAAATCTAAAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCACA
* * * * *
25174997 ATCTGAGTTGATTTCTTTGAAAAAAGAGAAATTGGAAAATACCTC-GATGTGACTCGAAGCTCAA
130 ATATGAGTTGA-TT-TTTG-AAAAACAGAAATTGAAAAATACCTCGGATGTGACCCGAGGCTCAA
* *
25175061 CTCACCTCTCGCAATATGAGCTAATTTTTGAAAAACA
192 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
* *
25175098 TAAATTGAAAAAT
1 GAAACTGAAAAAT
25175111 GATTCTTGAA
Statistics
Matches: 419, Mismatches: 44, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
229 36 0.09
230 171 0.41
231 47 0.11
232 72 0.17
233 23 0.05
234 1 0.00
239 2 0.00
240 54 0.13
241 13 0.03
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (228 bp):
GAAACTGAAAAATACCTCAAGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATT
TTTAAAAAACAGAAATCTAAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAA
TATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCGGATGTGACCCGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTTTGAAAAACA
Found at i:25183412 original size:35 final size:35
Alignment explanation
Indices: 25183366--25183667 Score: 242
Period size: 35 Copynumber: 8.5 Consensus size: 35
25183356 AATACAAATT
* *
25183366 TTTTTTAAAACACGAGAATTTTAGAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTAGAAACACGAAAA
* **
25183401 TTTTTTG-AAACACGGAAA-TTTATGAAACACGGGCAA
1 -TTTTTGAAAACACGAAAATTTTA-GAAACAC-GAAAA
* * * * *
25183437 TTTTTGAAAACACAAAAATTTTTGAAAGACGGGAAT
1 TTTTTGAAAACACGAAAATTTTAGAAACAC-GAAAA
* * *
25183473 TTTTTGCAAACACGGAAA-TTTATGAAACACGAGAATTT
1 TTTTTGAAAACACGAAAATTTTA-GAAACACGA-AA--A
*
25183511 TTTTTGAAAACACGAAAATTTTCGAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTAGAAACACGAAAA
*
25183546 TTTTTGAAAACACGAAAATTTGT-GAAACACGAGAA
1 TTTTTGAAAACACGAAAATTT-TAGAAACACGAAAA
25183581 TTTTTGAAAACACGAAAATTGTT-GAAAACACGAAAAA
1 TTTTTGAAAACACGAAAATT-TTAG-AAACACG-AAAA
* * * * *
25183618 ATTTTG-AAACATCG-GAGTTTTTGAAAACACGAAGA
1 TTTTTGAAAACA-CGAAAATTTTAG-AAACACGAAAA
25183653 TTTTTG-AAACACGAA
1 TTTTTGAAAACACGAA
25183668 TTTTTTATTT
Statistics
Matches: 221, Mismatches: 29, Indels: 33
0.78 0.10 0.12
Matches are distributed among these distances:
34 6 0.03
35 95 0.43
36 76 0.34
37 15 0.07
38 26 0.12
39 3 0.01
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTAGAAACACGAAAA
Found at i:25183667 original size:17 final size:17
Alignment explanation
Indices: 25183367--25183667 Score: 262
Period size: 18 Copynumber: 16.9 Consensus size: 17
25183357 ATACAAATTT
* *
25183367 TTTTTAAAACACGAGAA
1 TTTTTGAAACACGAAAA
*
25183384 TTTTAGAAACACGAAAA
1 TTTTTGAAACACGAAAA
*
25183401 TTTTTTGAAACACGGAAA
1 -TTTTTGAAACACGAAAA
* **
25183419 TTTATGAAACACGGGCAA
1 TTTTTGAAACAC-GAAAA
*
25183437 TTTTTGAAAACACAAAAA
1 TTTTTG-AAACACGAAAA
* * *
25183455 TTTTTGAAAGACGGGAAT
1 TTTTTGAAACAC-GAAAA
*
25183473 TTTTTGCAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* *
25183491 TTTATGAAACACGAGAATTT
1 TTTTTGAAACACGA-AA--A
25183511 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
*
25183529 TTTTCGAAACACGAAAA
1 TTTTTGAAACACGAAAA
25183546 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* *
25183564 TTTGTGAAACACGAGAA
1 TTTTTGAAACACGAAAA
25183581 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
*
25183599 TTGTTGAAAACACGAAAAA
1 TTTTTG-AAACACG-AAAA
* * *
25183618 ATTTTGAAACATCG-GAG
1 TTTTTGAAACA-CGAAAA
*
25183635 TTTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAAAA
25183653 TTTTTGAAACACGAA
1 TTTTTGAAACACGAA
25183668 TTTTTTATTT
Statistics
Matches: 232, Mismatches: 37, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
17 85 0.37
18 111 0.48
19 21 0.09
20 7 0.03
21 8 0.03
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.28
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:25183984 original size:16 final size:16
Alignment explanation
Indices: 25183960--25184006 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
25183950 TTATTTAAAA
*
25183960 TAAAATAAAATTATAT
1 TAAATTAAAATTATAT
25183976 TAAATTAAAATTGA-AT
1 TAAATTAAAATT-ATAT
* *
25183992 TATATTAAAAATATA
1 TAAATTAAAATTATA
25184007 AATACAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
TAAATTAAAATTATAT
Found at i:25183984 original size:21 final size:21
Alignment explanation
Indices: 25183945--25184010 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
25183935 CTTTATTTAT
25183945 TAAAATTAT-TTAAAATAAAA
1 TAAAATTATATTAAAATAAAA
*
25183965 TAAAATTATATTAAATTAAAA
1 TAAAATTATATTAAAATAAAA
**
25183986 TTGAATTATATTAAAAATATAAA
1 TAAAATTATATT-AAAATA-AAA
25184009 TA
1 TA
25184011 CAAAAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
20 9 0.24
21 20 0.53
22 5 0.13
23 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAAATTATATTAAAATAAAA
Found at i:25184171 original size:10 final size:9
Alignment explanation
Indices: 25184157--25184223 Score: 64
Period size: 9 Copynumber: 7.0 Consensus size: 9
25184147 AAATTGAACC
25184157 CTTTTTTTT
1 CTTTTTTTT
*
25184166 CCTTTTTTT
1 CTTTTTTTT
25184175 CTTTTTTCTT
1 CTTTTTT-TT
*
25184185 -TTTGTTTT
1 CTTTTTTTT
25184193 CTTTTTTCTT
1 CTTTTTT-TT
25184203 CTTTTTTCCTCT
1 CTTTTTT--T-T
25184215 CTTTTTTTT
1 CTTTTTTTT
25184224 TTCTCTGCTG
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
8 2 0.04
9 25 0.51
10 12 0.24
11 2 0.04
12 8 0.16
ACGTcount: A:0.00, C:0.18, G:0.01, T:0.81
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:25184180 original size:18 final size:18
Alignment explanation
Indices: 25184157--25184209 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
25184147 AAATTGAACC
25184157 CTTTTTT-TTCCTTTTTTT
1 CTTTTTTCTT-CTTTTTTT
25184175 CTTTTTTCTT-TTTGTTTT
1 CTTTTTTCTTCTTT-TTTT
25184193 CTTTTTTCTTCTTTTTT
1 CTTTTTTCTTCTTTTTT
25184210 CCTCTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.09
18 24 0.75
19 5 0.16
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (18 bp):
CTTTTTTCTTCTTTTTTT
Found at i:25184497 original size:47 final size:46
Alignment explanation
Indices: 25184411--25184501 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 46
25184401 GGCTGTTAAA
25184411 TTTTTTTCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCCTTCTTC
1 TTTTTTTCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCCTTCTTC
*
25184457 TTTTTCTT-TTTTTCTTTATTTCTTCTTCCCCTTT-TTCTTCCTTCT
1 TTTTT-TTCTTTTTCTTT-TTTCTT-TCCCCCTTTCTTCTTCCTTCT
25184502 CCATTCAGCC
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
46 14 0.34
47 19 0.46
48 8 0.20
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (46 bp):
TTTTTTTCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCCTTCTTC
Found at i:25184639 original size:10 final size:12
Alignment explanation
Indices: 25184589--25184639 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
25184579 CCCTTTCCCC
*
25184589 CTTTTTCTTTTT
1 CTTTTTCTTTCT
*
25184601 C-TCTTCTTTCCT
1 CTTTTTCTTT-CT
25184613 CTTTTTCTTTCT
1 CTTTTTCTTTCT
25184625 CTTTTT-TTT-T
1 CTTTTTCTTTCT
25184635 CTTTT
1 CTTTT
25184640 GCTTGCAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 6 0.18
11 10 0.29
12 11 0.32
13 7 0.21
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
CTTTTTCTTTCT
Done.