Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 301 of 318
Found at i:95709477 original size:13 final size:13
Alignment explanation
Indices: 95709459--95709484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95709449 GCCTCAATTC
95709459 TACAAGAGTTCGA
1 TACAAGAGTTCGA
95709472 TACAAGAGTTCGA
1 TACAAGAGTTCGA
95709485 ATACCCCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
TACAAGAGTTCGA
Found at i:95711088 original size:23 final size:23
Alignment explanation
Indices: 95711062--95711113 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
95711052 AATTAAAAAG
95711062 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
95711085 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
95711108 ATGAAA
1 ATGAAA
95711114 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:95715538 original size:23 final size:23
Alignment explanation
Indices: 95715512--95715563 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
95715502 AATTAAAAAG
95715512 ATGAAAGCAT-TATAGCTATCATT
1 ATGAAAGCATAT-TAGCTATCATT
*
95715535 ATGAAAGCATATTAGCTATTATT
1 ATGAAAGCATATTAGCTATCATT
95715558 ATGAAA
1 ATGAAA
95715564 CCAAGTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:95726110 original size:22 final size:21
Alignment explanation
Indices: 95726065--95726135 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 21
95726055 TTATGTTTAA
*
95726065 TTATTAAAATTACTAAAAAA-AT
1 TTATTAAAA-TA-AAAAAAATAT
* *
95726087 TTATTAAATTCAAAAATAATA-
1 TTATTAAAAT-AAAAAAAATAT
95726108 TT-TTAAAATAAAAAAAATAT
1 TTATTAAAATAAAAAAAATAT
95726128 TTACTTAA
1 TTA-TTAA
95726136 TAGTCATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
19 9 0.23
20 8 0.21
21 8 0.21
22 14 0.36
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TTATTAAAATAAAAAAAATAT
Found at i:95726113 original size:20 final size:19
Alignment explanation
Indices: 95726079--95726129 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
95726069 TAAAATTACT
*
95726079 AAAAAAAT-TTATTAAATTCA
1 AAAAAAATATT-TTAAAAT-A
*
95726099 AAAATAATATTTTAAAATA
1 AAAAAAATATTTTAAAATA
95726118 AAAAAAATATTT
1 AAAAAAATATTT
95726130 ACTTAATAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 12 0.44
20 13 0.48
21 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAAAATATTTTAAAATA
Found at i:95731121 original size:20 final size:19
Alignment explanation
Indices: 95731098--95731146 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
95731088 AATTATATTG
*
95731098 AATTGAAAAAATATATAATT
1 AATTGAAAAAATAT-GAATT
95731118 AATT-AATTAAAATATGAATT
1 AATTGAA--AAAATATGAATT
95731138 AATTGAAAA
1 AATTGAAAA
95731147 CTGAAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (19 bp):
AATTGAAAAAATATGAATT
Found at i:95731289 original size:12 final size:12
Alignment explanation
Indices: 95731272--95731296 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95731262 GCTGACTACT
95731272 GTTACTGTTACC
1 GTTACTGTTACC
95731284 GTTACTGTTACC
1 GTTACTGTTACC
95731296 G
1 G
95731297 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:95731382 original size:53 final size:52
Alignment explanation
Indices: 95731322--95731437 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 52
95731312 TGTTGGATAT
* *
95731322 TGTTACTGTTACTGTTTCGGATTTGTTCCGATGAGTTACTCTGTGTACTGTAC
1 TGTTACTGTTACTG-TTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAC
*
95731375 TGTTACTGTT-C----CGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAT
1 TGTTACTGTTACTGTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAC
* *
95731422 TGCTACTATTACTGTT
1 TGTTACTGTTACTGTT
95731438 ACTGTTTCGG
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
47 41 0.77
48 1 0.02
52 1 0.02
53 10 0.19
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (52 bp):
TGTTACTGTTACTGTTCGGATTTGTTCCGATGAGGTACTCTGTGTACCGTAC
Found at i:95731383 original size:47 final size:47
Alignment explanation
Indices: 95731325--95731416 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
95731315 TGGATATTGT
* *
95731325 TACTGTTACTGTTTCGGATTTGTTCCGATGAGTTACTCTGTGTACTG
1 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACTG
95731372 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTAC
1 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTAC
95731417 CGTATTGCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.42
Consensus pattern (47 bp):
TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTGTACTG
Found at i:95731642 original size:18 final size:18
Alignment explanation
Indices: 95731559--95731644 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
95731549 AAAGATCGAC
* *
95731559 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-CTGAT
95731578 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
95731596 TATTCCTGAATAATTGAT
1 TGTTACTGAATAACTGAT
* *
95731614 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTGAT
*
95731632 TGTTATTGAATAA
1 TGTTACTGAATAA
95731645 ATAATCGTTC
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
18 42 0.76
19 13 0.24
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:95731642 original size:36 final size:37
Alignment explanation
Indices: 95731556--95731644 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
95731546 TGGAAAGATC
*
95731556 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
* * * *
95731593 GATTATTCCTGAATAA-TTGATTGTTACCGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
*
95731629 GACTGTTATTGAATAA
1 GACTGTTACTGAATAA
95731645 ATAATCGTTC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 30 0.70
37 13 0.30
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (37 bp):
GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
Found at i:95732894 original size:49 final size:49
Alignment explanation
Indices: 95732833--95733015 Score: 251
Period size: 49 Copynumber: 3.7 Consensus size: 49
95732823 AAAGCTATCT
95732833 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
* * * * * *
95732882 GGTACACGTAGTATCCTGCACTTAGTACTACACACGTGATCGAAGTT-GTC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATTC
* *
95732932 AGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCC
1 -GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
*
95732982 GGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACA
95733016 CGTGACCTCA
Statistics
Matches: 114, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
49 69 0.61
50 9 0.08
51 36 0.32
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
Found at i:95732969 original size:100 final size:100
Alignment explanation
Indices: 95732833--95733020 Score: 349
Period size: 100 Copynumber: 1.9 Consensus size: 100
95732823 AAAGCTATCT
* *
95732833 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTATCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
95732898 TGCACTTAGTACTACACACGTGATCGAAGTTGTCA
66 TGCACTTAGTACTACACACGTGATCGAAGTTGTCA
*
95732933 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
95732998 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
95733021 CCTCACAATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCGAAGTTGTCA
Found at i:95734124 original size:13 final size:13
Alignment explanation
Indices: 95734106--95734131 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95734096 GCCCAAACGT
95734106 CGAAATTTTCAAA
1 CGAAATTTTCAAA
95734119 CGAAATTTTCAAA
1 CGAAATTTTCAAA
95734132 AAATCATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:95734419 original size:91 final size:90
Alignment explanation
Indices: 95734263--95734519 Score: 317
Period size: 91 Copynumber: 2.9 Consensus size: 90
95734253 CTGAACTAGG
* * *
95734263 CAATTGTT-TCTACATTGGGGCTTAGAATTTTTTTTATCCAAGTTAGTCCTTGAGCTTGGCAATT
1 CAATTGTTCTCTACATTGGGGCTTAAAATTTTTTTT-TCCAAGTTAGTCCTTGAACTTGACAATT
*
95734327 GTTCCCATATTAGGGCCCGAACTAAA
65 GTTCCCATATTAGGGCACGAACTAAA
*
95734353 CAATTGTTCTC-ACATTGTGGCTTAAACATTTTTTTTGTCCAAGTTAGTCCTTGAACTTGACAAT
1 CAATTGTTCTCTACATTGGGGCTTAAA-ATTTTTTTT-TCCAAGTTAGTCCTTGAACTTGACAAT
* * *
95734417 TGTTCCCACATTAGGGCATGAACTAGA
64 TGTTCCCATATTAGGGCACGAACTAAA
* * * * *
95734444 CAATTATTC-CTACATTGGGGCTTGAAA-TTTTTTTTCTAAGTTAGTCCTCGAACTTGGA-ATTT
1 CAATTGTTCTCTACATTGGGGCTTAAAATTTTTTTTTCCAAGTTAGTCCTTGAACTT-GACAATT
*
95734506 GTTCTCATATTAGG
65 GTTCCCATATTAGG
95734520 TTTAAACTTG
Statistics
Matches: 146, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
88 34 0.23
89 9 0.06
90 23 0.16
91 80 0.55
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (90 bp):
CAATTGTTCTCTACATTGGGGCTTAAAATTTTTTTTTCCAAGTTAGTCCTTGAACTTGACAATTG
TTCCCATATTAGGGCACGAACTAAA
Found at i:95734439 original size:31 final size:31
Alignment explanation
Indices: 95734404--95734469 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
95734394 AGTTAGTCCT
* *
95734404 TGAACTTGACAATTGTTCCCACATTAGGGCA
1 TGAACTAGACAATTATTCCCACATTAGGGCA
* * *
95734435 TGAACTAGACAATTATTCCTACATTGGGGCT
1 TGAACTAGACAATTATTCCCACATTAGGGCA
95734466 TGAA
1 TGAA
95734470 ATTTTTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (31 bp):
TGAACTAGACAATTATTCCCACATTAGGGCA
Found at i:95737853 original size:46 final size:45
Alignment explanation
Indices: 95737828--95737991 Score: 145
Period size: 46 Copynumber: 3.4 Consensus size: 45
95737818 GATCAAGTGA
* * *
95737828 CAAGTGGA-AAGTGATAAGTAATAGCT-TCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
*
95737873 CAAGTGACAAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGAT
*
95737919 CAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTATAGCTACACTTATCTGAT
*
95737971 CAAGAGACAAAGTGATAAGTG
1 CAAGTGAC-AAGTGATAAGTG
95737992 GCTACACTTA
Statistics
Matches: 106, Mismatches: 4, Indels: 17
0.83 0.03 0.13
Matches are distributed among these distances:
44 2 0.02
45 5 0.05
46 56 0.53
52 42 0.40
53 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
CAAGTGACAAGTGATAAGTGATAGCTATAGCTACACTTATCTGAT
Found at i:95737854 original size:52 final size:51
Alignment explanation
Indices: 95737783--95737991 Score: 275
Period size: 52 Copynumber: 4.1 Consensus size: 51
95737773 ATCAAGTGAC
* *
95737783 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
95737835 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
95737881 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
95737932 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
95737985 ATAAGTG
1 A-AAGTG
95737992 GCTACACTTA
Statistics
Matches: 139, Mismatches: 10, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
46 44 0.32
52 85 0.61
53 10 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:95737889 original size:98 final size:98
Alignment explanation
Indices: 95737769--95737992 Score: 367
Period size: 98 Copynumber: 2.3 Consensus size: 98
95737759 TTTGAGTACT
*
95737769 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
95737834 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
* *
95737867 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
95737932 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
*
95737965 TCTGATCAAGAGACAAAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
95737993 CTACACTTAT
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 116 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCAGCTACACTTA
Found at i:95737999 original size:37 final size:37
Alignment explanation
Indices: 95737955--95738063 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
95737945 GATAGCTTTA
95737955 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
95737992 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
95738029 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
95738064 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:95744706 original size:25 final size:24
Alignment explanation
Indices: 95744671--95744752 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 24
95744661 ATACATAAAT
*
95744671 ATAATACAAAAGCATGCAAATCACA
1 ATAATAAAAAAGCAT-CAAATCACA
95744696 ATAATAAAAAA--AT-AATATCACA
1 ATAATAAAAAAGCATCAA-ATCACA
*
95744718 ATAATATATACAAATGCATACAAAACACA
1 ATAATA-A-A-AAA-GCAT-CAAATCACA
95744747 ATAATA
1 ATAATA
95744753 TCACTTAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
21 2 0.04
22 12 0.26
23 3 0.07
24 1 0.02
25 13 0.28
28 2 0.04
29 11 0.24
30 2 0.04
ACGTcount: A:0.61, C:0.15, G:0.04, T:0.21
Consensus pattern (24 bp):
ATAATAAAAAAGCATCAAATCACA
Found at i:95744865 original size:14 final size:16
Alignment explanation
Indices: 95744846--95744882 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
95744836 CAGTTTAGTA
*
95744846 TTTTTAATG-TTAT-T
1 TTTTTAATGATAATAT
95744860 TTTTTAATGATAATAT
1 TTTTTAATGATAATAT
95744876 TTTTTAA
1 TTTTTAA
95744883 CAATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 3 0.15
16 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
TTTTTAATGATAATAT
Found at i:95747749 original size:14 final size:13
Alignment explanation
Indices: 95747715--95747764 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
95747705 GTACAAATTG
95747715 TATATATATTATTT
1 TATATATATTA-TT
*
95747729 TTTATATATTATT
1 TATATATATTATT
*
95747742 TAT-CATATTATT
1 TATATATATTATT
95747754 TATAT-TATTAT
1 TATATATATTAT
95747765 ACATTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 17 0.55
13 4 0.13
14 10 0.32
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TATATATATTATT
Found at i:95747759 original size:21 final size:21
Alignment explanation
Indices: 95747733--95747778 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
95747723 TTATTTTTTA
95747733 TATATTATT-TATCATATTATT
1 TATATTATTATA-CATATTATT
*
95747754 TATATTATTATACATTTTATT
1 TATATTATTATACATATTATT
95747775 TATA
1 TATA
95747779 AATTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATTATACATATTATT
Found at i:95748427 original size:71 final size:69
Alignment explanation
Indices: 95748313--95748468 Score: 194
Period size: 71 Copynumber: 2.3 Consensus size: 69
95748303 GTTATTTTAA
* * *
95748313 GTTATATTTGCAT-AAA-ATATTGTTATATATTATGTAATTTATATTGTTAT-ATTCATTGTTTT
1 GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATCGTTATGA-TCATTGTTTT
*
95748375 CT-AT
65 CTAAG
*
95748379 GTTATATTTTGCATGAAATATTATTATGTATGTATTATGTAATCTATATCGTTATGATCATTGTT
1 GTTATA-TTTGCATGAAATA-TATTAT-TATATATTATGTAATCTATATCGTTATGATCATTGTT
95748444 TTCTAAG
63 TTCTAAG
*
95748451 GTTATATCTGCATGAAAT
1 GTTATATTTGCATGAAAT
95748469 GATGATGCAT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
66 6 0.08
67 7 0.09
68 3 0.04
69 1 0.01
70 5 0.06
71 47 0.61
72 8 0.10
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.51
Consensus pattern (69 bp):
GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATCGTTATGATCATTGTTTTC
TAAG
Found at i:95756929 original size:24 final size:24
Alignment explanation
Indices: 95756896--95756941 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
95756886 TAATAAATAT
95756896 ATATTATTAA-AATATTAATATTGA
1 ATATTATTAATAATA-TAATATTGA
*
95756920 ATATTTTTAATAATATAATATT
1 ATATTATTAATAATATAATATT
95756942 ATTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATATTATTAATAATATAATATTGA
Found at i:95756931 original size:16 final size:15
Alignment explanation
Indices: 95756910--95756959 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
95756900 TATTAAAATA
95756910 TTAATATTGAATATTT
1 TTAATATT-AATATTT
95756926 TTAATAATATAATATTAT
1 TTAAT-AT-TAATATT-T
*
95756944 TTAAAATTAATATTT
1 TTAATATTAATATTT
95756959 T
1 T
95756960 AAAAATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 2 0.07
16 12 0.40
17 10 0.33
18 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TTAATATTAATATTT
Found at i:95756962 original size:14 final size:16
Alignment explanation
Indices: 95756919--95756965 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
95756909 ATTAATATTG
95756919 AATATTTTTAATAATAT
1 AATATTTTTAA-AATAT
95756936 AATATTATTTAAAAT-T
1 AATATT-TTTAAAATAT
*
95756952 AATATTTTAAAAAT
1 AATATTTTTAAAAT
95756966 TTATTATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 7 0.25
16 7 0.25
17 9 0.32
18 5 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATTTTTAAAATAT
Found at i:95757887 original size:26 final size:24
Alignment explanation
Indices: 95757842--95757894 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
95757832 CTACATTGAA
*
95757842 TTTTTTTTTTTAAAAATTTATATT
1 TTTTTTTTTTTAAAAATTTAGATT
**
95757866 TTTTTTATTTTTAATAGTTTTAGATT
1 TTTTTT-TTTTTAA-AAATTTAGATT
95757892 TTT
1 TTT
95757895 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.25
25 7 0.29
26 11 0.46
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTTTTTTTTAAAAATTTAGATT
Found at i:95769022 original size:9 final size:9
Alignment explanation
Indices: 95768999--95769038 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
95768989 TCCATTTTCC
95768999 TTTTTTCTTT
1 TTTTTTC-TT
*
95769009 CTTTTTTATT
1 -TTTTTTCTT
95769019 TTTTTTCTT
1 TTTTTTCTT
95769028 TTTTTTCTT
1 TTTTTTCTT
95769037 TT
1 TT
95769039 CGAATCTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 19 0.70
10 2 0.07
11 6 0.22
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:95769025 original size:16 final size:17
Alignment explanation
Indices: 95769000--95769031 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
95768990 CCATTTTCCT
95769000 TTTTTCTTTCTTTTTTA
1 TTTTTCTTTCTTTTTTA
95769017 TTTTT-TTTCTTTTTT
1 TTTTTCTTTCTTTTTT
95769032 TTCTTTTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTTA
Found at i:95771112 original size:15 final size:15
Alignment explanation
Indices: 95771084--95771135 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
95771074 ATATTTTATT
95771084 TTATTTTATTATATATA
1 TTATTTTA--ATATATA
95771101 TTATTTTAATATATA
1 TTATTTTAATATATA
*
95771116 TTATTTTGAAT-TATT
1 TTATTTT-AATATATA
95771131 TTATT
1 TTATT
95771136 AATTTTGCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 22 0.67
16 3 0.09
17 8 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTTTAATATATA
Found at i:95771395 original size:32 final size:30
Alignment explanation
Indices: 95771347--95771405 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
95771337 GTAAATACTG
95771347 TTCTTTTAAATGTATTTATATGTATATATATC
1 TTCTTTTAAATGTA-TT-TATGTATATATATC
* *
95771379 TTCTTTTGAATTTATTTATGTATATAT
1 TTCTTTTAAATGTATTTATGTATATAT
95771406 TATTGTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 2 0.08
32 12 0.48
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (30 bp):
TTCTTTTAAATGTATTTATGTATATATATC
Found at i:95772847 original size:3 final size:3
Alignment explanation
Indices: 95772839--95773007 Score: 144
Period size: 3 Copynumber: 54.3 Consensus size: 3
95772829 ATTTTTATCG
* * * *
95772839 TAT TAT TAT TAT TAT CAC TAT TAT TAT TAT T-T TAC TAT TAT AACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
95772884 TAACG TAT TAT TAT TACT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 T-A-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * *
95772932 TAT CCT CAT TAT TAC TAT TAT TAT TAT T-T TATT TAT TAGT CTAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T -TAT TAT
* *
95772979 TTT TGCT TAT TAT TAT TAT TAT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT T
95773008 TTTTCCTTTT
Statistics
Matches: 138, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
2 4 0.03
3 117 0.85
4 12 0.09
5 5 0.04
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:95773771 original size:22 final size:22
Alignment explanation
Indices: 95773726--95773771 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
95773716 GTTTTTATGT
**
95773726 ATTATTTATTTGAAATTGTCTC
1 ATTATTTATTTGAAAGGGTCTC
* *
95773748 ATTATTTATTTTAAAGGGTTTC
1 ATTATTTATTTGAAAGGGTCTC
95773770 AT
1 AT
95773772 GTTGTTTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (22 bp):
ATTATTTATTTGAAAGGGTCTC
Found at i:95775946 original size:17 final size:18
Alignment explanation
Indices: 95775925--95775964 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
95775915 TGCTTATCCT
*
95775925 AAATTTT-TTAATTAAAA
1 AAATTTTATTAACTAAAA
*
95775942 TAATTTTATTAACTAAAA
1 AAATTTTATTAACTAAAA
95775960 AAATT
1 AAATT
95775965 AAAATTTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTTTATTAACTAAAA
Found at i:95776121 original size:22 final size:24
Alignment explanation
Indices: 95776093--95776147 Score: 87
Period size: 22 Copynumber: 2.4 Consensus size: 24
95776083 ATATATTATG
*
95776093 AATTTATTAATCTAAA-TTATTAT
1 AATTTATTAATCTAAATTTATAAT
95776116 -ATTTATTAATCTAAATTTATAAT
1 AATTTATTAATCTAAATTTATAAT
95776139 AATTTATTA
1 AATTTATTA
95776148 TATTTATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 15 0.52
23 6 0.21
24 8 0.28
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTTATTAATCTAAATTTATAAT
Found at i:95778023 original size:23 final size:23
Alignment explanation
Indices: 95777941--95778027 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
95777931 CCTGATCAGT
*
95777941 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
95777963 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
95777983 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
95778006 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
95778028 TCGATAAAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:95778423 original size:15 final size:15
Alignment explanation
Indices: 95778398--95778455 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
95778388 TCATATATAT
95778398 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
*
95778414 TATAAATTCAATTAA
1 TATAAATTCAATCAA
* *
95778429 AATAATTTCAATCAA
1 TATAAATTCAATCAA
95778444 TATAAATTCAAT
1 TATAAATTCAAT
95778456 AAATTCATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:95779563 original size:9 final size:9
Alignment explanation
Indices: 95779549--95779574 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
95779539 CAAAACTTTG
95779549 TTCTAAAAC
1 TTCTAAAAC
95779558 TTCTAAAAC
1 TTCTAAAAC
95779567 TTCTAAAA
1 TTCTAAAA
95779575 TATCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (9 bp):
TTCTAAAAC
Found at i:95779659 original size:22 final size:22
Alignment explanation
Indices: 95779634--95779677 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
95779624 AAGCTTCAAA
95779634 CCTTCAATT-TTCCCTTTTCTCC
1 CCTTC-ATTCTTCCCTTTTCTCC
* *
95779656 CCTTCTTTCTTCCTTTTTCTCC
1 CCTTCATTCTTCCCTTTTCTCC
95779678 TCTGCTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.05, C:0.41, G:0.00, T:0.55
Consensus pattern (22 bp):
CCTTCATTCTTCCCTTTTCTCC
Found at i:95779747 original size:5 final size:5
Alignment explanation
Indices: 95779734--95779765 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
95779724 TTCTTTAGTT
95779734 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
95779766 TAAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:95792427 original size:15 final size:16
Alignment explanation
Indices: 95792407--95792437 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
95792397 TTATTGTAAT
95792407 ATTTTTAATA-AAAAA
1 ATTTTTAATACAAAAA
95792422 ATTTTTAATACAAAAA
1 ATTTTTAATACAAAAA
95792438 CCTTCGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTTTTAATACAAAAA
Found at i:95795448 original size:10 final size:10
Alignment explanation
Indices: 95795432--95795470 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
95795422 AATTTTAGCT
95795432 TTTATCTTTA
1 TTTATCTTTA
*
95795442 ATTATCTTTA
1 TTTATCTTTA
95795452 TTTAT-TTGTA
1 TTTATCTT-TA
95795462 TTTATCTTT
1 TTTATCTTT
95795471 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:95797871 original size:33 final size:33
Alignment explanation
Indices: 95797807--95797871 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
95797797 GCTAATATGT
* **
95797807 TTGATTTCCAACAGCAGATACAACGGTAAACAG
1 TTGATTTCCAACAGCAAATACAACGACAAACAG
* *
95797840 TTGATTTCCAACAGCAAATTCTACGACAAACA
1 TTGATTTCCAACAGCAAATACAACGACAAACA
95797872 CTTTATTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (33 bp):
TTGATTTCCAACAGCAAATACAACGACAAACAG
Found at i:95799279 original size:8 final size:8
Alignment explanation
Indices: 95799266--95799326 Score: 63
Period size: 8 Copynumber: 7.8 Consensus size: 8
95799256 GGCAACCCAA
95799266 TTTTTATT
1 TTTTTATT
95799274 TTTTTATT
1 TTTTTATT
* *
95799282 ATTCTT-TC
1 -TTTTTATT
95799290 TTTTTATT
1 TTTTTATT
95799298 TTTTTA-T
1 TTTTTATT
*
95799305 TATTTATT
1 TTTTTATT
*
95799313 ATTTTATT
1 TTTTTATT
95799321 TTTTTA
1 TTTTTA
95799327 AATATTAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
7 10 0.24
8 28 0.67
9 4 0.10
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTATT
Found at i:95799298 original size:24 final size:23
Alignment explanation
Indices: 95799266--95799326 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
95799256 GGCAACCCAA
95799266 TTTTTATTTTTTTATTATTCT-TT
1 TTTTTATTTTTTTATTATT-TATT
95799289 CTTTTTATTTTTTTATTATTTATT
1 -TTTTTATTTTTTTATTATTTATT
*
95799313 ATTTTATTTTTTTA
1 TTTTTATTTTTTTA
95799327 AATATTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 14 0.40
24 21 0.60
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTATTTTTTTATTATTTATT
Found at i:95800583 original size:95 final size:96
Alignment explanation
Indices: 95800418--95800614 Score: 288
Period size: 95 Copynumber: 2.1 Consensus size: 96
95800408 AATTATTTTT
* *
95800418 AAAAAATTAGGATTGTATTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCCCTCTTCGC
1 AAAAAATTAGGAGTATATTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCCCTCTTCGC
* *
95800483 ATCAAAATGTTCAATATGTTCTTAAG-AAAA
66 ATCAAAAGGTTCAATATATTCTTAAGTAAAA
* * * * * *
95800513 TAAAAATTAGGAGTATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCTC
1 AAAAAATTAGGAGTATATTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCCCTCTTCGC
*
95800578 GTCAAAAGGTTCAATATATTCTTAAGTAAAA
66 ATCAAAAGGTTCAATATATTCTTAAGTAAAA
95800609 AAAAAA
1 AAAAAA
95800615 GATGTATTAA
Statistics
Matches: 89, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 80 0.90
96 9 0.10
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (96 bp):
AAAAAATTAGGAGTATATTGGGCTAAGTAACCGGGGTGAGGTGCTTGGCTGTCATCCCTCTTCGC
ATCAAAAGGTTCAATATATTCTTAAGTAAAA
Found at i:95801249 original size:10 final size:10
Alignment explanation
Indices: 95801233--95801271 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
95801223 AATTTTAGCT
95801233 TTTATCTTTA
1 TTTATCTTTA
*
95801243 ATTATCTTTA
1 TTTATCTTTA
95801253 TTTAT-TTATA
1 TTTATCTT-TA
95801263 TTTATCTTT
1 TTTATCTTT
95801272 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:95802047 original size:40 final size:36
Alignment explanation
Indices: 95801999--95802078 Score: 106
Period size: 40 Copynumber: 2.1 Consensus size: 36
95801989 ATTTTCGAAA
*
95801999 TTTCAATCAAAACTTTTAATTTTAATTTTATTTTATTTT
1 TTTCAATCAAAACTTTTAATTCT-A-TTT-TTTTATTTT
*
95802038 TTTCAAATCATAACTTTTAATTCTATTTTTTTATTTT
1 TTTC-AATCAAAACTTTTAATTCTATTTTTTTATTTT
95802075 TTTC
1 TTTC
95802079 CCAGGTAGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
37 13 0.34
38 3 0.08
39 5 0.13
40 17 0.45
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (36 bp):
TTTCAATCAAAACTTTTAATTCTATTTTTTTATTTT
Found at i:95802616 original size:25 final size:25
Alignment explanation
Indices: 95802582--95802632 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
95802572 TAAGATGTTC
95802582 AAAAGTAATTTTTGAAATAAATTCG
1 AAAAGTAATTTTTGAAATAAATTCG
95802607 AAAAGTAATTTTTGAAATAAATTCG
1 AAAAGTAATTTTTGAAATAAATTCG
95802632 A
1 A
95802633 GAGCATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (25 bp):
AAAAGTAATTTTTGAAATAAATTCG
Found at i:95803817 original size:3 final size:3
Alignment explanation
Indices: 95803809--95803837 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
95803799 TATAACCCAT
95803809 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
95803838 TTGTTTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:95804243 original size:77 final size:78
Alignment explanation
Indices: 95804116--95804272 Score: 262
Period size: 77 Copynumber: 2.0 Consensus size: 78
95804106 GTAGGTATTG
* * *
95804116 ATACTAAATCAATATCTTTCTGAAAATTGATACCAAAGTTTAATTA-TTTTTTTATAAAATAATG
1 ATACTAAATCAATACCTTTCTGAAAATCGATACCAAAATTTAATTATTTTTTTTATAAAATAATG
95804180 GTATCGATAATTA
66 GTATCGATAATTA
* *
95804193 ATACTAAATCAATACCTTTCTGAAAATCGATACTAAAATTTAATTATTTTTTTTGTAAAATAATG
1 ATACTAAATCAATACCTTTCTGAAAATCGATACCAAAATTTAATTATTTTTTTTATAAAATAATG
95804258 GTATCGATAATTA
66 GTATCGATAATTA
95804271 AT
1 AT
95804273 TTATGGTATC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
77 42 0.57
78 32 0.43
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (78 bp):
ATACTAAATCAATACCTTTCTGAAAATCGATACCAAAATTTAATTATTTTTTTTATAAAATAATG
GTATCGATAATTA
Found at i:95806546 original size:15 final size:15
Alignment explanation
Indices: 95806526--95806556 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
95806516 TTAAGTTTTG
95806526 ATCACTAAATTTTAA
1 ATCACTAAATTTTAA
95806541 ATCACTAAATTTTAA
1 ATCACTAAATTTTAA
95806556 A
1 A
95806557 AAAGTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
ATCACTAAATTTTAA
Found at i:95810070 original size:31 final size:31
Alignment explanation
Indices: 95810035--95810104 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
95810025 TAAAAAAAAA
* *
95810035 TTCATTTTAGGTATTGTCATTAAAAA-CTATT
1 TTCATTTTAGGCATTGCCATTAAAAATC-ATT
95810066 TTCATTTTAGGCATTGCCATTAAAAATCATT
1 TTCATTTTAGGCATTGCCATTAAAAATCATT
95810097 TTCATTTT
1 TTCATTTT
95810105 GGTCACCCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.49
Consensus pattern (31 bp):
TTCATTTTAGGCATTGCCATTAAAAATCATT
Found at i:95810182 original size:6 final size:6
Alignment explanation
Indices: 95810171--95810198 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
95810161 TTTTTTAAAA
95810171 AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA
95810199 AAATAAAATA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:95811044 original size:10 final size:10
Alignment explanation
Indices: 95811029--95811057 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
95811019 ATATGAAATG
95811029 AATCATATTC
1 AATCATATTC
95811039 AATCATATTC
1 AATCATATTC
95811049 AATCATATT
1 AATCATATT
95811058 GTCCCTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (10 bp):
AATCATATTC
Found at i:95812508 original size:24 final size:24
Alignment explanation
Indices: 95812481--95812534 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
95812471 CCATTAGCGG
95812481 GAAGCTCATA-CAAGCCAATATCGA
1 GAAGCTCA-AGCAAGCCAATATCGA
* *
95812505 GAAGTTCAAGCGAGCCAATATCGA
1 GAAGCTCAAGCAAGCCAATATCGA
95812529 GAAGCT
1 GAAGCT
95812535 TCAGAGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (24 bp):
GAAGCTCAAGCAAGCCAATATCGA
Found at i:95812617 original size:25 final size:24
Alignment explanation
Indices: 95812554--95812693 Score: 104
Period size: 25 Copynumber: 5.7 Consensus size: 24
95812544 TATTAAGTTA
*
95812554 GGAAGCTCATAAGAGTCAGTTATCG
1 GGAAGCTCATAAGAGCCA-TTATCG
* *
95812579 AGAAGCGCCA-AAGAGCCAATTATCG
1 GGAAGC-TCATAAGAGCC-ATTATCG
* *
95812604 GGAAGCTCATAAGAGCCATAAACG
1 GGAAGCTCATAAGAGCCATTATCG
** * * *
95812628 GGAAGCTCGCAATAACCATGTAACG
1 GGAAGCTCATAAGAGCCAT-TATCG
95812653 GGAAGCT-ATAGAGAGCCATATATCG
1 GGAAGCTCATA-AGAGCCAT-TATCG
* *
95812678 GGATGTTCATAAGAGC
1 GGAAGCTCATAAGAGC
95812694 TGCGGTGTGT
Statistics
Matches: 89, Mismatches: 20, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
24 23 0.26
25 60 0.67
26 6 0.07
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.18
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATTATCG
Found at i:95816525 original size:10 final size:9
Alignment explanation
Indices: 95816482--95816533 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
95816472 CATTTAGTTA
95816482 AATTTTTAT
1 AATTTTTAT
* *
95816491 AATTTTAAA
1 AATTTTTAT
*
95816500 AATAATTTAT
1 AAT-TTTTAT
95816510 AATTTTTAT
1 AATTTTTAT
*
95816519 GAATTTTTAA
1 -AATTTTTAT
95816529 AATTT
1 AATTT
95816534 AAAAAATTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (9 bp):
AATTTTTAT
Found at i:95816527 original size:19 final size:19
Alignment explanation
Indices: 95816481--95816533 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
95816471 ACATTTAGTT
95816481 AAATTTTTATAA-TTTTAA
1 AAATTTTTATAATTTTTAA
* *
95816499 AAATAATTTATAATTTTTAT
1 AAAT-TTTTATAATTTTTAA
* *
95816519 GAATTTTTAAAATTT
1 AAATTTTTATAATTT
95816534 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 4 0.14
19 16 0.57
20 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AAATTTTTATAATTTTTAA
Found at i:95819004 original size:16 final size:17
Alignment explanation
Indices: 95818985--95819017 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95818975 AAAACCCACT
*
95818985 AAACCC-ACTAAGCCTA
1 AAACCCAACAAAGCCTA
95819001 AAACCCAACAAAGCCTA
1 AAACCCAACAAAGCCTA
95819018 CCCACATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.36, G:0.06, T:0.09
Consensus pattern (17 bp):
AAACCCAACAAAGCCTA
Found at i:95823323 original size:8 final size:8
Alignment explanation
Indices: 95823310--95823339 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
95823300 GAATTTAGAA
95823310 GAATTGGT
1 GAATTGGT
95823318 GAATTGGT
1 GAATTGGT
95823326 GAATTTGGT
1 GAA-TTGGT
95823335 GAATT
1 GAATT
95823340 AAAAGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (8 bp):
GAATTGGT
Found at i:95825854 original size:39 final size:39
Alignment explanation
Indices: 95825795--95826012 Score: 346
Period size: 39 Copynumber: 5.6 Consensus size: 39
95825785 ATCGTGATCT
* * * *
95825795 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
95825834 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
** * *
95825873 GAAGGTCGAAGGCTAATTGAAGCACACAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
95825912 GAAGCTCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
95825951 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
95825990 GAAGCCCGAAGGCTAATTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
95826013 TCATTAGAGC
Statistics
Matches: 166, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 166 1.00
ACGTcount: A:0.38, C:0.22, G:0.27, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:95828509 original size:15 final size:15
Alignment explanation
Indices: 95828484--95828672 Score: 153
Period size: 15 Copynumber: 13.0 Consensus size: 15
95828474 AAAAGAAAAT
*
95828484 ATAATCATAGTAATA
1 ATAATAATAGTAATA
**
95828499 ATAATTGTAGTAATA
1 ATAATAATAGTAATA
95828514 ATAATAATAGTAATA
1 ATAATAATAGTAATA
*
95828529 ATAATAATAATAAT-
1 ATAATAATAGTAATA
* *
95828543 ATAACAATTA-TAGTA
1 ATAATAA-TAGTAATA
95828558 AT-ATAACTAAGTAATA
1 ATAATAA-T-AGTAATA
95828574 ATAATAAT-G-AA-A
1 ATAATAATAGTAATA
* * ***
95828586 ATAATACTGGCGGTA
1 ATAATAATAGTAATA
*
95828601 ATAATAATAATAATA
1 ATAATAATAGTAATA
*
95828616 ATAATAATAATAATA
1 ATAATAATAGTAATA
*
95828631 ATAATAATAATAATA
1 ATAATAATAGTAATA
95828646 ATAAT-ATAGT--TA
1 ATAATAATAGTAATA
*
95828658 AAAATAATAGTAATA
1 ATAATAATAGTAATA
95828673 GTGATAAAAA
Statistics
Matches: 142, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
12 14 0.10
13 8 0.06
14 18 0.13
15 91 0.64
16 7 0.05
17 4 0.03
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.33
Consensus pattern (15 bp):
ATAATAATAGTAATA
Found at i:95828517 original size:18 final size:18
Alignment explanation
Indices: 95828494--95828672 Score: 136
Period size: 18 Copynumber: 10.1 Consensus size: 18
95828484 ATAATCATAG
**
95828494 TAATAATAATTGTAGTAA
1 TAATAATAATAATAGTAA
* *
95828512 TAATAATAATAGTAATAA
1 TAATAATAATAATAGTAA
95828530 TAATAATAATAATA-TAA
1 TAATAATAATAATAGTAA
* * *
95828547 CAATTATAGTAATA-TAA
1 TAATAATAATAATAGTAA
*
95828564 CTAAGTAATAATAATAATGAA
1 -TAA-TAATAATAATAGT-AA
* ****
95828585 -AATAATACTGGCGGTAA
1 TAATAATAATAATAGTAA
*
95828602 TAATAATAATAATAATAA
1 TAATAATAATAATAGTAA
*
95828620 TAATAATAATAATAATAA
1 TAATAATAATAATAGTAA
*
95828638 TAATAATAATAATA-TAG
1 TAATAATAATAATAGTAA
*
95828655 T--TAAAAATAATAGTAA
1 TAATAATAATAATAGTAA
95828671 TA
1 TA
95828673 GTGATAAAAA
Statistics
Matches: 130, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
15 10 0.08
16 3 0.02
17 22 0.17
18 81 0.62
19 11 0.08
20 1 0.01
21 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (18 bp):
TAATAATAATAATAGTAA
Found at i:95828666 original size:3 final size:3
Alignment explanation
Indices: 95828263--95828651 Score: 175
Period size: 3 Copynumber: 132.7 Consensus size: 3
95828253 GATAATATGT
* * * * *
95828263 TAA TAA GAA TAA TAG TAG TAG TAA TAA TAA -AA -AGA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * *
95828307 TAA -AA TAA AAA TAA AAA TAA AAA TAA TAG TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
95828354 TAG TAA TAA AACA TAGA -AA -AA AAA GAA -CA TAA CAA TAA -AA GTAA
1 TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * * *
95828398 TGA TAA TAA CT-A TTA TAA TGA TAA CAA T-A TAA -AA TTAA TGA T-A
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
* * ** ** * *
95828441 TAA TAA T-G TAA TAA TAA TAG GCA -AA TAA GCA TAA AAA GAA -AA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * *
95828485 TAA TCA TAG TAA TAA TAA TTG TAG TAA TAA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
95828533 TAA TAA TAA T-A TAA CAA TTA TAG TAA T-A TAA CTAA GTAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA -TAA TAA TAA
* ** ***
95828578 TAA TGAA -AA TAA TAC TGG CGG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95828623 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
95828652 TAGTTAAAAA
Statistics
Matches: 292, Mismatches: 71, Indels: 46
0.71 0.17 0.11
Matches are distributed among these distances:
2 30 0.10
3 245 0.84
4 17 0.06
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:95828987 original size:8 final size:7
Alignment explanation
Indices: 95828918--95828990 Score: 69
Period size: 7 Copynumber: 10.3 Consensus size: 7
95828908 GTTAATAAGG
95828918 ATAAT-A
1 ATAATAA
95828924 ATAATAA
1 ATAATAA
95828931 ATAATAA
1 ATAATAA
95828938 ATAATAA
1 ATAATAA
*
95828945 ACAAT-A
1 ATAATAA
* *
95828951 GTACTAA
1 ATAATAA
*
95828958 ATTAATTA
1 A-TAATAA
95828966 ATAATAA
1 ATAATAA
95828973 AGTAATAA
1 A-TAATAA
95828981 ATAAATAA
1 AT-AATAA
95828989 AT
1 AT
95828991 GAAAAAAAAG
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
6 8 0.15
7 27 0.50
8 19 0.35
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (7 bp):
ATAATAA
Found at i:95829089 original size:3 final size:3
Alignment explanation
Indices: 95829083--95829132 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
95829073 AAAATGGTGG
95829083 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
95829131 TA
1 TA
95829133 GTGTTTGAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:95839152 original size:18 final size:18
Alignment explanation
Indices: 95839133--95839201 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
95839123 CCCAACTACT
* * *
95839133 GTATACGTGAACAGTACT
1 GTATACGTAAATAGTACC
*
95839151 GTATATGTAAATAGTACC
1 GTATACGTAAATAGTACC
*
95839169 GTATACATAAATAGTACC
1 GTATACGTAAATAGTACC
*
95839187 GTATACGTGAATAGT
1 GTATACGTAAATAGT
95839202 TCCATAAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (18 bp):
GTATACGTAAATAGTACC
Found at i:95840811 original size:14 final size:14
Alignment explanation
Indices: 95840792--95840821 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
95840782 ATAATACTTG
95840792 CAATGTAAAGAATT
1 CAATGTAAAGAATT
95840806 CAATGTAAAGAATT
1 CAATGTAAAGAATT
95840820 CA
1 CA
95840822 TCAATTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (14 bp):
CAATGTAAAGAATT
Found at i:95841226 original size:20 final size:19
Alignment explanation
Indices: 95841203--95841241 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
95841193 TATATATATA
95841203 TATATAATTTTAATATTTTT
1 TATATAATTTTAAT-TTTTT
**
95841223 TATATTTTTTTAATTTTTT
1 TATATAATTTTAATTTTTT
95841242 ATAATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TATATAATTTTAATTTTTT
Found at i:95841246 original size:10 final size:10
Alignment explanation
Indices: 95841205--95841248 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
95841195 TATATATATA
95841205 TATAA-TTTT
1 TATAATTTTT
*
95841214 AAT-ATTTTT
1 TATAATTTTT
95841223 TAT-ATTTTT
1 TATAATTTTT
95841232 T-TAATTTTT
1 TATAATTTTT
95841241 TATAATTT
1 TATAATTT
95841249 AAAAAATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 2 0.07
9 22 0.73
10 6 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATAATTTTT
Found at i:95842570 original size:25 final size:24
Alignment explanation
Indices: 95842531--95842581 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
95842521 AACAAATAAT
95842531 TTAAAATTTATAAAATATTCAAAAAA
1 TTAAAATTTATAAAATA-T-AAAAAA
95842557 TTAAAA-TTATAAAATATAAAAAA
1 TTAAAATTTATAAAATATAAAAAA
95842580 TT
1 TT
95842582 CATAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 8 0.32
24 1 0.04
25 10 0.40
26 6 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TTAAAATTTATAAAATATAAAAAA
Found at i:95842605 original size:18 final size:17
Alignment explanation
Indices: 95842559--95842597 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
95842549 TCAAAAAATT
95842559 AAAATTATAAAATATAA
1 AAAATTATAAAATATAA
95842576 AAAATTCATAAAATA-AA
1 AAAATT-ATAAAATATAA
95842593 AAAAT
1 AAAAT
95842598 AGTATAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATTATAAAATATAA
Found at i:95842714 original size:31 final size:32
Alignment explanation
Indices: 95842679--95842745 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
95842669 TTAAAAAAAT
* *
95842679 AATTCAACT-TTTTTTGAAAAGTTGATA-GTCA
1 AATTCAACTCTTTGTTAAAAAGTTGA-AGGTCA
*
95842710 AATTCTACTCTTTGTTAAAAAGTTGAAGGTCA
1 AATTCAACTCTTTGTTAAAAAGTTGAAGGTCA
95842742 AATT
1 AATT
95842746 TAGTTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (32 bp):
AATTCAACTCTTTGTTAAAAAGTTGAAGGTCA
Found at i:95843352 original size:58 final size:57
Alignment explanation
Indices: 95843283--95843398 Score: 196
Period size: 58 Copynumber: 2.0 Consensus size: 57
95843273 CATGAGGAAA
* * *
95843283 AAAACTCATTTATTTCATATGTATTACAATAGTTAGACATATAATAAAAAAAACAACT
1 AAAACTCATTTATTTCATATGTATCACAATAGATAGACATAAAAT-AAAAAAACAACT
95843341 AAAACTCATTTATTTCATATGTATCACAATAGATAGACATAAAATAAAAAAACAACT
1 AAAACTCATTTATTTCATATGTATCACAATAGATAGACATAAAATAAAAAAACAACT
95843398 A
1 A
95843399 GCACAAATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 13 0.24
58 42 0.76
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (57 bp):
AAAACTCATTTATTTCATATGTATCACAATAGATAGACATAAAATAAAAAAACAACT
Found at i:95852318 original size:23 final size:23
Alignment explanation
Indices: 95852291--95852339 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
95852281 TTTAATTAAA
95852291 TTATT-TAAAGTAACTAAT-TTTTT
1 TTATTATAAA-TAA-TAATCTTTTT
*
95852314 TTATTATAAATAATCATCTTTTT
1 TTATTATAAATAATAATCTTTTT
95852337 TTA
1 TTA
95852340 CAAATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 16 0.70
24 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (23 bp):
TTATTATAAATAATAATCTTTTT
Found at i:95852983 original size:26 final size:28
Alignment explanation
Indices: 95852940--95852993 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
95852930 ATATTGAAAT
*
95852940 CATTTAAAATTAATTTTTTAGTT-TTTA
1 CATTTAAAATTAATTTTTAAGTTATTTA
* *
95852967 CATTTAAATTTTA-TTTTAAGTTATTTA
1 CATTTAAAATTAATTTTTAAGTTATTTA
95852994 TTTAATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
CATTTAAAATTAATTTTTAAGTTATTTA
Found at i:95853092 original size:29 final size:27
Alignment explanation
Indices: 95853042--95853098 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
95853032 AATATTTAAA
* *
95853042 TAAAATATATCAAAATTATAATACTAT
1 TAAAATATATAAAAATTATAATAATAT
*
95853069 TAAAATATATAAAAATAATTTAATAATAT
1 TAAAATATATAAAAAT--TATAATAATAT
95853098 T
1 T
95853099 TATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.60
29 10 0.40
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAAATATATAAAAATTATAATAATAT
Found at i:95859343 original size:13 final size:12
Alignment explanation
Indices: 95859315--95859342 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
95859305 TCTCTAACAC
95859315 AAAATAGTTAAA
1 AAAATAGTTAAA
95859327 AAAATAGTTAAA
1 AAAATAGTTAAA
95859339 AAAA
1 AAAA
95859343 AAGCTGACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (12 bp):
AAAATAGTTAAA
Found at i:95859564 original size:18 final size:19
Alignment explanation
Indices: 95859541--95859578 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
95859531 TCATTTGGGG
*
95859541 AAGAAAGGAGAGAA-AAGA
1 AAGAAAGAAGAGAAGAAGA
95859559 AAGAAAGAAGAGAAGAAGA
1 AAGAAAGAAGAGAAGAAGA
95859578 A
1 A
95859579 GAAGGAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAGAAGAAGA
Found at i:95859644 original size:45 final size:50
Alignment explanation
Indices: 95859558--95859659 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 50
95859548 GAGAGAAAAG
*
95859558 AAAGAAAGAAGAGAAGAAGAAGAAGGAGCAAGACGTGAGGGAAGGGAAGAAA
1 AAAGAAAGAAGAGAAGAAGAAGAAGGAGCAAGAC-AGAGGG-AGGGAAGAAA
*
95859610 AAAGAAA-AAGA-AA-AAG-AGAAGGAG-AAGA-AGAGGGAGGGAAGGAA
1 AAAGAAAGAAGAGAAGAAGAAGAAGGAGCAAGACAGAGGGAGGGAAGAAA
95859654 AAAGAA
1 AAAGAA
95859660 GGAAAAATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
44 15 0.31
45 5 0.10
47 4 0.08
48 8 0.17
49 3 0.06
50 2 0.04
51 4 0.08
52 7 0.15
ACGTcount: A:0.60, C:0.02, G:0.37, T:0.01
Consensus pattern (50 bp):
AAAGAAAGAAGAGAAGAAGAAGAAGGAGCAAGACAGAGGGAGGGAAGAAA
Found at i:95860418 original size:19 final size:19
Alignment explanation
Indices: 95860396--95860434 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
95860386 TTGTTTTATA
*
95860396 ATTTTATTTCTTA-TTTAAT
1 ATTTTAATT-TTATTTTAAT
95860415 ATTTTAATTTTATTTTAAT
1 ATTTTAATTTTATTTTAAT
95860434 A
1 A
95860435 ATGCATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAATTTTATTTTAAT
Found at i:95860581 original size:212 final size:212
Alignment explanation
Indices: 95860211--95860661 Score: 787
Period size: 212 Copynumber: 2.1 Consensus size: 212
95860201 AAACAAACCA
** *
95860211 TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCAAATAAAGTATGTATTAGCAGATTCACTAATATGATTA
* *
95860276 TATATATAGATATTTACGCATGTATCACATTACAAAAATAAAAATTAAAATACTTATACATAATA
66 TATATATAGAGATTTACGCATGTATCACATTACAAAAACAAAAATTAAAATACTTATACATAATA
95860341 AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
131 AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
95860406 TTATTTAATATTTTAAT
196 TTATTTAATATTTTAAT
* * *
95860423 TTTATTTTAATAATGCATACTTTATCCAAATAAAGTATGTATTAGTAGATTCACTTATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCAAATAAAGTATGTATTAGCAGATTCACTAATATGATTA
* * *
95860488 TATATATATAGATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATATC-TAAT
66 TATATATAGAGATTTACGCATGTATCACATTACAAAAACAAAAATTAAAATACTTATA-CATAAT
95860552 AAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTT
130 AAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTT
95860617 CTTATTTAATATTTTAAT
195 CTTATTTAATATTTTAAT
95860635 TTAATTTTAATAATGCATACTTTATCC
1 TTAATTTTAATAATGCATACTTTATCC
95860662 GGTAGCAGTA
Statistics
Matches: 226, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
212 225 1.00
213 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (212 bp):
TTAATTTTAATAATGCATACTTTATCCAAATAAAGTATGTATTAGCAGATTCACTAATATGATTA
TATATATAGAGATTTACGCATGTATCACATTACAAAAACAAAAATTAAAATACTTATACATAATA
AAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
TTATTTAATATTTTAAT
Found at i:95861145 original size:33 final size:31
Alignment explanation
Indices: 95861089--95861158 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
95861079 AAAATAGTAT
* * *
95861089 AAAAAAGAAAATATGAAACAAATATATTAATG
1 AAAAAAGAAAATACGAAACAAATAGAAT-ATG
* *
95861121 AAAAAATAAAATACGAAAAGAAATAGAATATG
1 AAAAAAGAAAATACG-AAACAAATAGAATATG
95861153 AAAAAA
1 AAAAAA
95861159 ATAGAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.70, C:0.03, G:0.10, T:0.17
Consensus pattern (31 bp):
AAAAAAGAAAATACGAAACAAATAGAATATG
Found at i:95861150 original size:17 final size:16
Alignment explanation
Indices: 95861121--95861166 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
95861111 TATATTAATG
*
95861121 AAAAAATAAAATACGA
1 AAAAAATAGAATACGA
*
95861137 AAAGAAATAGAATATGA
1 AAA-AAATAGAATACGA
95861154 AAAAAATAGAATA
1 AAAAAATAGAATA
95861167 AAATACGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (16 bp):
AAAAAATAGAATACGA
Found at i:95861159 original size:33 final size:32
Alignment explanation
Indices: 95861121--95861202 Score: 82
Period size: 33 Copynumber: 2.6 Consensus size: 32
95861111 TATATTAATG
*
95861121 AAAAAATAAAATACGAAAA-GAAATAGAATAT
1 AAAAAATAAAATACGAAAACGAAACAGAATAT
* *
95861152 GAAAAAAATAGAATA--AAATACGAAACATAATAT
1 --AAAAAATAAAATACGAAA-ACGAAACAGAATAT
95861185 -AAAAATAAAATACGAAAA
1 AAAAAATAAAATACGAAAA
95861203 TAGTATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
30 11 0.27
31 4 0.10
32 4 0.10
33 22 0.54
ACGTcount: A:0.71, C:0.05, G:0.09, T:0.16
Consensus pattern (32 bp):
AAAAAATAAAATACGAAAACGAAACAGAATAT
Found at i:95861162 original size:16 final size:16
Alignment explanation
Indices: 95861098--95861166 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
95861088 TAAAAAAGAA
* *
95861098 AATATGAAACAAATAT
1 AATATGAAAAAAATAG
* *
95861114 ATTAATG-AAAAAATAA
1 AAT-ATGAAAAAAATAG
*
95861130 AATACGAAAAGAAATAG
1 AATATGAAAA-AAATAG
95861147 AATATGAAAAAAATAG
1 AATATGAAAAAAATAG
95861163 AATA
1 AATA
95861167 AAATACGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 2 0.05
16 24 0.56
17 17 0.40
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.20
Consensus pattern (16 bp):
AATATGAAAAAAATAG
Found at i:95861192 original size:25 final size:24
Alignment explanation
Indices: 95861163--95861209 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
95861153 AAAAAAATAG
95861163 AATAAAATACGAAACATAATATAAA
1 AATAAAATACGAAA-ATAATATAAA
*
95861188 AATAAAATACGAAAATAGTATA
1 AATAAAATACGAAAATAATATA
95861210 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.21
Consensus pattern (24 bp):
AATAAAATACGAAAATAATATAAA
Found at i:95861397 original size:137 final size:136
Alignment explanation
Indices: 95861178--95861514 Score: 532
Period size: 137 Copynumber: 2.5 Consensus size: 136
95861168 AATACGAAAC
* *
95861178 ATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCAAAAATTTTAAAAATA
1 ATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATTTTAAAAATA
* * *
95861243 TAAACAAAGGGACAAAAT-TAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATTATGT
66 CAAACAAAGAGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATTATGT
95861307 ACTAAA
131 ACTAAA
* *
95861313 ATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAATTAAAATCCGAATATTTTAGAAA
1 ATAAGAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAA-TAAAATCCGAAAATTTTAAAAA
*
95861378 TACAAACAAAGAGACAAAATCAAGGTTATTTTAAAAACACTAAAATAATACATTTGAAACATTAT
64 TACAAACAAAGAGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATTAT
95861443 GTACTAAA
129 GTACTAAA
* * * *
95861451 ATAAGATAAAAATAAAATATGAAAATAATATATTTTAAAAAATAGAATCTGAAAATTTTAAAAA
1 ATAAGATAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAATCCGAAAATTTTAAAAA
95861515 AATTAGAAAT
Statistics
Matches: 184, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
135 6 0.03
136 34 0.18
137 82 0.45
138 62 0.34
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (136 bp):
ATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATTTTAAAAATA
CAAACAAAGAGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATTATGT
ACTAAA
Found at i:95862548 original size:44 final size:44
Alignment explanation
Indices: 95862485--95862573 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
95862475 TGCCACTGAA
*
95862485 AAAGAGTTGGTGTGTGCAGCTCAAGCGTACATTATGCATATCAT
1 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
95862529 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
1 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
95862573 A
1 A
95862574 GGGGGTGTAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
Found at i:95864485 original size:41 final size:41
Alignment explanation
Indices: 95864407--95864485 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
95864397 ATGTTTGTGA
* * *
95864407 TGTTCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGACTT
1 TGTTCGGGCTTCGAGCCTAGCAAGCCTTCTGCCGGTGACTT
* *
95864448 TGTTCGGGCTTCGTGCCTAGC-AGGCTTACTGCCGGTGA
1 TGTTCGGGCTTCGAGCCTAGCAAGCCTT-CTGCCGGTGA
95864486 ATGAATTTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (41 bp):
TGTTCGGGCTTCGAGCCTAGCAAGCCTTCTGCCGGTGACTT
Found at i:95867011 original size:63 final size:64
Alignment explanation
Indices: 95866943--95867094 Score: 288
Period size: 63 Copynumber: 2.4 Consensus size: 64
95866933 TAGTATACTA
*
95866943 ATATAAATTAAATACATTACAACATTAATCTAATTGGAACAAACTTTGCAATATAA-TTTTTTT
1 ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTTT
95867006 ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTTT
1 ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTTT
95867070 ATATAAATTAAATACATTACAACAT
1 ATATAAATTAAATACATTACAACAT
95867095 AAGCTCAATT
Statistics
Matches: 87, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
63 55 0.63
64 32 0.37
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (64 bp):
ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTTT
Found at i:95870324 original size:27 final size:27
Alignment explanation
Indices: 95870294--95870349 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
95870284 TCATCAACTG
* * *
95870294 GTGCCGCCTATGGCAGAGGCAAGACCA
1 GTGCCGCCTATGACAAAGGCAAGAACA
*
95870321 GTGCCGCCTCTGACAAAGGCAAGAACA
1 GTGCCGCCTATGACAAAGGCAAGAACA
95870348 GT
1 GT
95870350 ATTTTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.30, T:0.12
Consensus pattern (27 bp):
GTGCCGCCTATGACAAAGGCAAGAACA
Found at i:95874746 original size:5 final size:5
Alignment explanation
Indices: 95874736--95874761 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
95874726 AAATTTTTAC
95874736 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
95874762 TTGTTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:95875393 original size:23 final size:24
Alignment explanation
Indices: 95875357--95875402 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
95875347 TATATACTAA
95875357 ATATATATATTTTTATTTTTAATC
1 ATATATATATTTTTATTTTTAATC
*
95875381 ATATTTATA-TTTTATTTTTAAT
1 ATATATATATTTTTATTTTTAAT
95875403 TTTAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
ATATATATATTTTTATTTTTAATC
Found at i:95876906 original size:21 final size:21
Alignment explanation
Indices: 95876877--95876919 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
95876867 ATGAACAATA
**
95876877 TAATAATTTTGTCTTTTAACT
1 TAATAATTTTGAATTTTAACT
*
95876898 TAATTATTTTGAATTTTAACT
1 TAATAATTTTGAATTTTAACT
95876919 T
1 T
95876920 TTAAAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (21 bp):
TAATAATTTTGAATTTTAACT
Found at i:95883697 original size:40 final size:39
Alignment explanation
Indices: 95883599--95883820 Score: 205
Period size: 40 Copynumber: 5.6 Consensus size: 39
95883589 TCCTCGTTCA
* * * *
95883599 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
95883638 AATACCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
95883677 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
95883717 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
95883757 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
95883798 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAACCCGG
95883821 GCAGCATTCA
Statistics
Matches: 154, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 103 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:95883764 original size:80 final size:79
Alignment explanation
Indices: 95883597--95883768 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 79
95883587 GCTCCTCGTT
* *
95883597 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATACCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAATACCTTCGGGACATAACCCGGA
95883662 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* * * * * *
95883676 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAA-AGGCCTTCGGGGCTTAACCCG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAATA--CCTTCGGGACATAACCCG
* *
95883740 GAATTT-GTATCTCGCA
64 G-ATTTAATAACTCGCA
95883756 CAAATGCCTTCGG
1 CAAATGCCTTCGG
95883769 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 37 0.47
80 37 0.47
81 4 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAATACCTTCGGGACATAACCCGGA
TTTAATAACTCGCA
Found at i:95887082 original size:27 final size:27
Alignment explanation
Indices: 95887052--95887106 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
95887042 GCATCAAACT
* *
95887052 CAGTCGACAAGCCGGTAAGCAAAACCG
1 CAGTCGACAAGCAGGTAAACAAAACCG
*
95887079 CAGTGGACAAGCAGGTAAACAAAACCG
1 CAGTCGACAAGCAGGTAAACAAAACCG
95887106 C
1 C
95887107 CGTCATCTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.27, G:0.25, T:0.07
Consensus pattern (27 bp):
CAGTCGACAAGCAGGTAAACAAAACCG
Found at i:95887416 original size:28 final size:30
Alignment explanation
Indices: 95887375--95887441 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
95887365 TGGCCCAAGA
* * *
95887375 GTAAATACTTAAAATTTGAGGGA-TAA-AGT
1 GTAAATA-TGAAAAGTTGAAGGACTAATAGT
95887404 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATGAAAAGTTGAAGGACTAATAGT
*
95887434 GCAAATAT
1 GTAAATAT
95887442 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 12 0.38
29 10 0.31
30 10 0.31
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATGAAAAGTTGAAGGACTAATAGT
Found at i:95889423 original size:15 final size:15
Alignment explanation
Indices: 95889403--95889433 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
95889393 CAACGAGGTA
95889403 AGTTAGTGTAACTTG
1 AGTTAGTGTAACTTG
95889418 AGTTAGTGTAACTTG
1 AGTTAGTGTAACTTG
95889433 A
1 A
95889434 ATTGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTTAGTGTAACTTG
Found at i:95892145 original size:21 final size:20
Alignment explanation
Indices: 95892107--95892153 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
95892097 TAAATATAAG
95892107 ATAATAAATAAAT-AAAAAC
1 ATAATAAATAAATAAAAAAC
95892126 ATGAATAAACTAAA-AGAAAAAC
1 AT-AATAAA-TAAATA-AAAAAC
95892148 ATAATA
1 ATAATA
95892154 CATGCAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 2 0.08
20 6 0.25
21 8 0.33
22 8 0.33
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.19
Consensus pattern (20 bp):
ATAATAAATAAATAAAAAAC
Found at i:95892746 original size:22 final size:21
Alignment explanation
Indices: 95892720--95892766 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
95892710 TACAAATTAA
95892720 ATCTTCAAGATTACAAGATCAT
1 ATCTTCAAGATTAC-AGATCAT
* *
95892742 ATCTTCAAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
95892763 ATCT
1 ATCT
95892767 AAGATTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCTTCAAGATTACAGATCAT
Found at i:95892772 original size:19 final size:19
Alignment explanation
Indices: 95892737--95892796 Score: 88
Period size: 17 Copynumber: 3.2 Consensus size: 19
95892727 AGATTACAAG
95892737 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
95892758 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
95892775 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
95892794 ATC
1 ATC
95892797 CTTAAAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
17 17 0.46
19 11 0.30
20 1 0.03
21 8 0.22
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:95893165 original size:6 final size:7
Alignment explanation
Indices: 95893149--95893177 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
95893139 GCCATATTAT
95893149 AAAAAGA
1 AAAAAGA
95893156 AAAAAGA
1 AAAAAGA
95893163 AAAAAGA
1 AAAAAGA
95893170 AAAAAGA
1 AAAAAGA
95893177 A
1 A
95893178 GAGGCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:95893644 original size:16 final size:16
Alignment explanation
Indices: 95893623--95893653 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
95893613 AACATTGAAT
95893623 AACAGACGAAGGAGGC
1 AACAGACGAAGGAGGC
95893639 AACAGACGAAGGAGG
1 AACAGACGAAGGAGG
95893654 AACCGAGCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.39, T:0.00
Consensus pattern (16 bp):
AACAGACGAAGGAGGC
Found at i:95901385 original size:31 final size:31
Alignment explanation
Indices: 95901350--95901415 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
95901340 TTAAAAAAAC
* *
95901350 AATTCAACTCTTTTTGAAAGATTGATGGTCA
1 AATTCAACTCTTTTTAAAAGATTGAAGGTCA
* *
95901381 AATTCTACTCTTTTTAAAAGGTTGAAGGTCA
1 AATTCAACTCTTTTTAAAAGATTGAAGGTCA
95901412 AATT
1 AATT
95901416 TAGTTCAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (31 bp):
AATTCAACTCTTTTTAAAAGATTGAAGGTCA
Found at i:95908838 original size:40 final size:41
Alignment explanation
Indices: 95908771--95908863 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 41
95908761 CGACTATGCT
* *
95908771 TGGCACTAAGTGTGCGGTTTAATATAGCTTC-AGCTACA-AA
1 TGGCACTAAGTGTACGGTTGAATATAGCTTCGA-CTACATAA
* *
95908811 TGGCACTAAGTGTACGAGTTGGA-ATAGCTTCGACTATATAA
1 TGGCACTAAGTGTACG-GTTGAATATAGCTTCGACTACATAA
95908852 -GGCACTAAGTGT
1 TGGCACTAAGTGT
95908864 GTGATACCGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
40 39 0.85
41 7 0.15
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
TGGCACTAAGTGTACGGTTGAATATAGCTTCGACTACATAA
Found at i:95914503 original size:30 final size:31
Alignment explanation
Indices: 95914469--95914534 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
95914459 TAATTTATAT
* *
95914469 TTTTATAATTTTTA-AAAGATTAAATTAAAA
1 TTTTATAATTTTTAGAAAGACTAAAATAAAA
* *
95914499 TTTTATCATTTTTAGAAAGACTAAAATACAA
1 TTTTATAATTTTTAGAAAGACTAAAATAAAA
95914530 TTTTA
1 TTTTA
95914535 CCTTTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (31 bp):
TTTTATAATTTTTAGAAAGACTAAAATAAAA
Found at i:95919692 original size:21 final size:21
Alignment explanation
Indices: 95919668--95919726 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
95919658 TATTTATGTA
* *
95919668 TATTTAATATTT-TTTTAACTT
1 TATTTAATATTTAATTTAA-AT
95919689 TATTTAA-ATTTAATTTAAAT
1 TATTTAATATTTAATTTAAAT
*
95919709 TATTTAAT-TTAAATTTAA
1 TATTTAATATTTAATTTAA
95919727 TTAAATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTAATATTTAATTTAAAT
Found at i:95919704 original size:11 final size:11
Alignment explanation
Indices: 95919681--95919733 Score: 56
Period size: 10 Copynumber: 4.7 Consensus size: 11
95919671 TTAATATTTT
*
95919681 TTTAACTTT-A
1 TTTAAATTTAA
95919691 TTTAAATTTAA
1 TTTAAATTTAA
95919702 TTTAAATTATTTAA
1 TTT-AA--ATTTAA
95919716 TTTAAATTTAA
1 TTTAAATTTAA
95919727 -TTAAATT
1 TTTAAATT
95919734 ATTTAAAGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 15 0.39
11 10 0.26
12 2 0.05
13 2 0.05
14 9 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:95919711 original size:20 final size:20
Alignment explanation
Indices: 95919688--95919726 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
95919678 TTTTTTAACT
95919688 TTATTTAAATTT-AATTTAAA
1 TTATTT-AATTTAAATTTAAA
95919708 TTATTTAATTTAAATTTAA
1 TTATTTAATTTAAATTTAA
95919727 TTAAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTTAATTTAAATTTAAA
Found at i:95919718 original size:25 final size:24
Alignment explanation
Indices: 95919690--95919739 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 24
95919680 TTTTAACTTT
95919690 ATTTAAATTTAATTTAAATTATTTA
1 ATTTAAATTTAA-TTAAATTATTTA
95919715 ATTTAAATTTAATTAAATTATTTA
1 ATTTAAATTTAATTAAATTATTTA
95919739 A
1 A
95919740 AGTAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTTAAATTTAATTAAATTATTTA
Found at i:95920879 original size:22 final size:22
Alignment explanation
Indices: 95920841--95920886 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
95920831 TATTATTAAT
95920841 ATTTTAATATATGAAAT-ATAA
1 ATTTTAATATATGAAATAATAA
* *
95920862 ATTTTAAATATTTTAAATAATAA
1 ATTTT-AATATATGAAATAATAA
95920885 AT
1 AT
95920887 ATTATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 10 0.48
23 6 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTTAATATATGAAATAATAA
Found at i:95920936 original size:20 final size:20
Alignment explanation
Indices: 95920869--95920943 Score: 54
Period size: 18 Copynumber: 4.0 Consensus size: 20
95920859 TAAATTTTAA
95920869 ATATTTTAAATA-ATAAA-T
1 ATATTTTAAATATATAAATT
**
95920887 AT-TATTTATTTATA-AAATT
1 ATAT-TTTAAATATATAAATT
*
95920906 -TA-ATTAGAATATATAAATT
1 ATATTTTA-AATATATAAATT
*
95920925 ATATTTTAAATATTTAAAT
1 ATATTTTAAATATATAAAT
95920944 ATAACCATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
17 4 0.10
18 16 0.38
19 7 0.17
20 12 0.29
21 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (20 bp):
ATATTTTAAATATATAAATT
Found at i:95923030 original size:18 final size:19
Alignment explanation
Indices: 95922995--95923030 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
95922985 AATTATTTAA
95922995 AAAATATACATATATAATT
1 AAAATATACATATATAATT
*
95923014 AAAATATA-ATATTTAAT
1 AAAATATACATATATAAT
95923031 AATGCATGAT
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 (19 bp):
AAAATATACATATATAATT
Found at i:95923199 original size:21 final size:20
Alignment explanation
Indices: 95923162--95923200 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95923152 AAAATAAATA
*
95923162 ATATAATAAAAATATATAAC
1 ATATAACAAAAATATATAAC
95923182 ATATAACAAAATATATATA
1 ATATAACAAAA-ATATATA
95923201 TAATGTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
ATATAACAAAAATATATAAC
Found at i:95923229 original size:14 final size:14
Alignment explanation
Indices: 95923143--95923245 Score: 55
Period size: 14 Copynumber: 6.9 Consensus size: 14
95923133 TTACATATAA
* *
95923143 AAATATAATAAAAT
1 AAATAAAATAATAT
* *
95923157 AAATAATATAATAA
1 AAATAAAATAATAT
* *
95923171 AAAT-ATATAACAT
1 AAATAAAATAATAT
*
95923184 ATAACAAAATATATAT
1 A-AATAAAATA-ATAT
95923200 ATAATGTTACAAATAATAT
1 A-AA---TA-AAATAATAT
95923219 AAATAAAATAATAT
1 AAATAAAATAATAT
*
95923233 ATATAAAAGTAAT
1 AAATAAAA-TAAT
95923246 GAAACAAAAC
Statistics
Matches: 70, Mismatches: 11, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
13 8 0.11
14 32 0.46
15 10 0.14
16 7 0.10
18 2 0.03
19 6 0.09
20 5 0.07
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (14 bp):
AAATAAAATAATAT
Done.