Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 142 of 163
Found at i:46627385 original size:18 final size:17
Alignment explanation
Indices: 46627359--46627397 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
46627349 ATTTTCCTTC
46627359 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
46627376 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
46627394 CACA
1 CACA
46627398 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:46627901 original size:99 final size:98
Alignment explanation
Indices: 46627783--46627971 Score: 360
Period size: 99 Copynumber: 1.9 Consensus size: 98
46627773 GTTTTACTCG
*
46627783 TTTTCACTCAAAATGGCTTAGCAAAAGTTGCTTAACATAATTCTAAGCTTCATATTCTATCATGA
1 TTTTCACTCAAAATCGCTTAGCAAAAGTTGCTTAACATAATTCTAAGCTTCATATTCTATCATGA
46627848 AACATCAAAATTCACACTTTTCATCTATGGTAAT
66 AACATCAAAATTCAC-CTTTTCATCTATGGTAAT
46627882 TTTTCACTCAAAATCGCTTAGCAAAAGTTGCTTAACATAATTCTAAGCTTCATATTCTATCATGA
1 TTTTCACTCAAAATCGCTTAGCAAAAGTTGCTTAACATAATTCTAAGCTTCATATTCTATCATGA
46627947 AACATCAAAATTCACCTTTTCATCT
66 AACATCAAAATTCACCTTTTCATCT
46627972 NNNNNNNNNN
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
98 10 0.11
99 79 0.89
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.37
Consensus pattern (98 bp):
TTTTCACTCAAAATCGCTTAGCAAAAGTTGCTTAACATAATTCTAAGCTTCATATTCTATCATGA
AACATCAAAATTCACCTTTTCATCTATGGTAAT
Found at i:46630183 original size:54 final size:54
Alignment explanation
Indices: 46630123--46630246 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 54
46630113 TCGAAATTTG
* **
46630123 GGTCACACGGCCTTGTCAAAGACCGTGTGCC-TGTCTGTGTGTA-AATCGAAATAA
1 GGTCACACGGCCGTGTCAAAGACCGTGTGCCAACTC-GTGTG-AGAATCGAAATAA
* * * * *
46630177 GGTCACATGACCGTGTCACAGATCGTGTGCCAACTCGTGTGAGATTCGAAATAA
1 GGTCACACGGCCGTGTCAAAGACCGTGTGCCAACTCGTGTGAGAATCGAAATAA
*
46630231 GGTTACACGGCCGTGT
1 GGTCACACGGCCGTGT
46630247 TACTAGGCTA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
53 1 0.02
54 54 0.95
55 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (54 bp):
GGTCACACGGCCGTGTCAAAGACCGTGTGCCAACTCGTGTGAGAATCGAAATAA
Found at i:46635436 original size:61 final size:58
Alignment explanation
Indices: 46635327--46635440 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 58
46635317 CACTTTGATG
* *
46635327 TTAAATTAATATAATACTTATCAAGATAAATATTATATTAAATTTAATATTAAATCTA
1 TTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCTA
*
46635385 TTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATT-AATTCTAATATTAA
1 TTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATT-TAATATTAA
46635441 GATAATCACT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
58 18 0.37
60 5 0.10
61 26 0.53
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (58 bp):
TTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCTA
Found at i:46635505 original size:18 final size:17
Alignment explanation
Indices: 46635482--46635525 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
46635472 GCTATCTAGA
46635482 TAAGTATTAAATTAAATT
1 TAAGTATTAAATT-AATT
**
46635500 TAAGTATTTTATTAATT
1 TAAGTATTAAATTAATT
46635517 TAA-TATTAA
1 TAAGTATTAA
46635526 GTCTTATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 4 0.18
17 7 0.32
18 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
TAAGTATTAAATTAATT
Found at i:46636890 original size:109 final size:107
Alignment explanation
Indices: 46636710--46636964 Score: 331
Period size: 108 Copynumber: 2.4 Consensus size: 107
46636700 ATATTTAACA
* * *
46636710 ATTTGGTTAAACGAGAAATCGGA-ACCCAACACCTTAGGGCACGTTCCTCGAATTTCCAAACGCA
1 ATTTGGTTGAACGAGAAATC-GACACCCAGCACCTTAGGGCACGTTCCTCGAATCTCCAAACGCA
*
46636774 AAACATTGCC-TCATTTT-ATAATTTTTG-AAAGGATATTTAGCC
65 AAACATTGCCAT-ATTTTGA-AATTTTTGAAAAGGATATTAAGCC
* * *
46636816 GTTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTATCTCGAATCTCCAAACG
1 ATTTGGTTGAACGAG--AAATCGACACCCAGCACCTTAGGGCACGTT-CCTCGAATCTCCAAACG
*
46636881 CAAAACATTGCCATATTTTGAGATTTTTGAAAAGGATATTAAGCC
63 CAAAACATTGCCATATTTTGAAATTTTTGAAAAGGATATTAAGCC
*
46636926 ATTTGGTTGAACGAGAAATCG-CAACCTAGCACCTTAGGG
1 ATTTGGTTGAACGAGAAATCGAC-ACCCAGCACCTTAGGG
46636965 TATTCACGTG
Statistics
Matches: 131, Mismatches: 10, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
106 13 0.10
107 3 0.02
108 46 0.35
109 39 0.30
110 30 0.23
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (107 bp):
ATTTGGTTGAACGAGAAATCGACACCCAGCACCTTAGGGCACGTTCCTCGAATCTCCAAACGCAA
AACATTGCCATATTTTGAAATTTTTGAAAAGGATATTAAGCC
Found at i:46637562 original size:23 final size:22
Alignment explanation
Indices: 46637526--46637590 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
46637516 TATATAAGGT
*
46637526 AAATGAAAATATAAACAAAACAGA
1 AAAT-AAAAAATAAA-AAAACAGA
* * *
46637550 AATTAATAAATAAAGAAAA-ATA
1 AAATAAAAAATAAA-AAAACAGA
46637572 AAATAAAAAATAAAAAAAC
1 AAATAAAAAATAAAAAAAC
46637591 GGAGGGGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 4 0.12
22 14 0.42
23 12 0.36
24 3 0.09
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (22 bp):
AAATAAAAAATAAAAAAACAGA
Found at i:46639727 original size:4 final size:4
Alignment explanation
Indices: 46639718--46639747 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
46639708 TGAAATTAAC
*
46639718 TTTA TTTA TTTA TTTA TTTA TTTA TCTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
46639748 CATCATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:46644230 original size:22 final size:20
Alignment explanation
Indices: 46644205--46644263 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
46644195 ATATTTTGTT
46644205 TTAATAGTTAACTATAAGTTAA
1 TTAATAGTTAA-TATAA-TTAA
*
46644227 TTAATAGTATATTAT-ATTAA
1 TTAATAGT-TAATATAATTAA
*
46644247 TTAATTGTTAATATAAT
1 TTAATAGTTAATATAAT
46644264 ATTTTTAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 5 0.16
20 13 0.41
21 1 0.03
22 11 0.34
23 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (20 bp):
TTAATAGTTAATATAATTAA
Found at i:46644265 original size:22 final size:22
Alignment explanation
Indices: 46644205--46644266 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
46644195 ATATTTTGTT
*
46644205 TTAATAGTTAACTATAA-GTTAA
1 TTAATAGTTAA-TATAATATTAA
*
46644227 TTAATAG-T-ATATTATATTAA
1 TTAATAGTTAATATAATATTAA
*
46644247 TTAATTGTTAATATAATATT
1 TTAATAGTTAATATAATATT
46644267 TTTAAGCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 4 0.12
20 11 0.33
21 2 0.06
22 16 0.48
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (22 bp):
TTAATAGTTAATATAATATTAA
Found at i:46651902 original size:27 final size:27
Alignment explanation
Indices: 46651867--46651958 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
46651857 GTAGTGATTC
* *
46651867 AATTGGGTTAATTTGGGTAATTCGGTT
1 AATTCGGTTAATTCGGGTAATTCGGTT
* *
46651894 AATTCGGTTAATTCGAGTAATCCGGTT
1 AATTCGGTTAATTCGGGTAATTCGGTT
46651921 AATTCGGTTAATTCGGGTAATTCGGTT
1 AATTCGGTTAATTCGGGTAATTCGGTT
46651948 AATTCGGTTAA
1 AATTCGGTTAA
46651959 CCGACCGAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (27 bp):
AATTCGGTTAATTCGGGTAATTCGGTT
Found at i:46651907 original size:9 final size:9
Alignment explanation
Indices: 46651867--46651958 Score: 123
Period size: 9 Copynumber: 10.2 Consensus size: 9
46651857 GTAGTGATTC
*
46651867 AATTGGGTT
1 AATTCGGTT
* *
46651876 AATTTGGGT
1 AATTCGGTT
46651885 AATTCGGTT
1 AATTCGGTT
46651894 AATTCGGTT
1 AATTCGGTT
46651903 AATTCGAG-T
1 AATTCG-GTT
*
46651912 AATCCGGTT
1 AATTCGGTT
46651921 AATTCGGTT
1 AATTCGGTT
*
46651930 AATTCGGGT
1 AATTCGGTT
46651939 AATTCGGTT
1 AATTCGGTT
46651948 AATTCGGTT
1 AATTCGGTT
46651957 AA
1 AA
46651959 CCGACCGAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
8 1 0.01
9 71 0.97
10 1 0.01
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:46673507 original size:32 final size:33
Alignment explanation
Indices: 46673471--46673535 Score: 123
Period size: 32 Copynumber: 2.0 Consensus size: 33
46673461 ATTATTTTAT
46673471 TGGTTTTTTTCACTATTTCGCT-CCATTTCACA
1 TGGTTTTTTTCACTATTTCGCTACCATTTCACA
46673503 TGGTTTTTTTCACTATTTCGCTACCATTTCACA
1 TGGTTTTTTTCACTATTTCGCTACCATTTCACA
46673536 ATTATGTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.17, C:0.25, G:0.09, T:0.49
Consensus pattern (33 bp):
TGGTTTTTTTCACTATTTCGCTACCATTTCACA
Found at i:46673775 original size:12 final size:12
Alignment explanation
Indices: 46673748--46673779 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
46673738 TAATATTTTA
46673748 AAAAAATTATAT
1 AAAAAATTATAT
46673760 -AAAAATTATAT
1 AAAAAATTATAT
46673771 AAAAAATTA
1 AAAAAATTA
46673780 AGACAGTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAAATTATAT
Found at i:46676441 original size:23 final size:23
Alignment explanation
Indices: 46676411--46676459 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
46676401 AGAATGAATG
46676411 ATAAAATGTGTCCTATTATAGAC
1 ATAAAATGTGTCCTATTATAGAC
46676434 ATAAAATGTGTCCTATTATAGAC
1 ATAAAATGTGTCCTATTATAGAC
46676457 ATA
1 ATA
46676460 CCTCCCATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (23 bp):
ATAAAATGTGTCCTATTATAGAC
Found at i:46679941 original size:19 final size:21
Alignment explanation
Indices: 46679903--46679943 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
46679893 ATTGGGTGGA
*
46679903 TCAGCTTTTACGAGCTTCTGT
1 TCAGCTTTTACGACCTTCTGT
46679924 TCAGC-TTT-CGACCTTCTGT
1 TCAGCTTTTACGACCTTCTGT
46679943 T
1 T
46679944 GGCGTATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 3 0.16
21 5 0.26
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.44
Consensus pattern (21 bp):
TCAGCTTTTACGACCTTCTGT
Found at i:46681043 original size:123 final size:121
Alignment explanation
Indices: 46680825--46681046 Score: 302
Period size: 123 Copynumber: 1.8 Consensus size: 121
46680815 GTGGGCTCTT
* * * * *
46680825 CTCTTGAATAAAAAATGGAGACATTAAAGAGAAATGAACATGTTAAAAGTATTTGTAAATCCATG
1 CTCTTGAATAAAAAATGAAGACATTAAAGAGAAATGAACATGTTAAAAATATTTGCAAAGCCAGG
** ** *
46680890 AGAGGCTTCATTGGTGTAATATGAACATGATCCATTAACTATATAGGTTGCCTCCC
66 AGACACTTCATTGGTCCAATATGAAAATGATCCATTAACTATATAGGTTGCCTCCC
*
46680946 CTCTTGAATAAAAAATGAAGACATTAAAGAGAGAAATGGAA-ATGTTAAAAATATTTGCAAAGCT
1 CTCTTGAATAAAAAATGAAGACATT-AA-AGAGAAAT-GAACATGTTAAAAATATTTGCAAAGCC
*
46681010 AGGAGACACTTTATTGGTCCAATATGAAAATGATCCA
63 AGGAGACACTTCATTGGTCCAATATGAAAATGATCCA
46681047 CTAATTGTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 24 0.28
122 2 0.02
123 57 0.66
124 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (121 bp):
CTCTTGAATAAAAAATGAAGACATTAAAGAGAAATGAACATGTTAAAAATATTTGCAAAGCCAGG
AGACACTTCATTGGTCCAATATGAAAATGATCCATTAACTATATAGGTTGCCTCCC
Found at i:46683310 original size:126 final size:126
Alignment explanation
Indices: 46682956--46683318 Score: 541
Period size: 126 Copynumber: 2.9 Consensus size: 126
46682946 ACTTTTATTT
* * *
46682956 TTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGACGGTTCT-AA-AAGATAATGTAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTCTGAACAA-ATAGTGTAAAA
* * * *
46683019 AACGCTTCAAGCAGGATGCACTGTTAGCAAAATTACTAAAAAATAGCTCCCATGTGGATGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAA-AGCTCCCACGTGGACGCTC
* *
46683082 TTTTTCTACAGTAGTTTCTAAAAAAAATAATTTTGAGAAGACGATTCGGAACAAATAGTGTAAAA
1 TTTTTCTACAGTAGTTTCT-GAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGT-AAA
*
46683147 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTGCCACGTGGACGCTC
64 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
46683210 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGATTCTGAACAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTAAAAA
* *
46683275 ACTCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAG
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAG
46683319 TTACATAAGT
Statistics
Matches: 216, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
126 64 0.30
127 63 0.29
128 42 0.19
129 47 0.22
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:46686346 original size:23 final size:23
Alignment explanation
Indices: 46686320--46686373 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
46686310 TACTAAATAA
* *
46686320 ATTAATAACAAT-AAAATAATAT
1 ATTAATAAAAATCAAAATAAAAT
*
46686342 CATTAA-AAAAATCAAATTAAAAT
1 -ATTAATAAAAATCAAAATAAAAT
46686365 ATTAATAAA
1 ATTAATAAA
46686374 CTAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.30
Consensus pattern (23 bp):
ATTAATAAAAATCAAAATAAAAT
Found at i:46690004 original size:638 final size:638
Alignment explanation
Indices: 46688787--46690054 Score: 2536
Period size: 638 Copynumber: 2.0 Consensus size: 638
46688777 ATGCATTCTG
46688787 ACTTGGCATAGGACTGAGAAAAGGAAACATATAAGGTTAGGATACATATAAGGGCTAGAATACTC
1 ACTTGGCATAGGACTGAGAAAAGGAAACATATAAGGTTAGGATACATATAAGGGCTAGAATACTC
46688852 ACCTGACATAATCTGAAGAGGCTGTGATGTGGGTGTAGTCGGTTAAGGCGTTGAGCCCGATGATT
66 ACCTGACATAATCTGAAGAGGCTGTGATGTGGGTGTAGTCGGTTAAGGCGTTGAGCCCGATGATT
46688917 GTGTGGGCGTTGTTGATGGGCCCGTGTTGTTATCCCTTCTCCTTGGATTTAAAGGTCCCTGTCGT
131 GTGTGGGCGTTGTTGATGGGCCCGTGTTGTTATCCCTTCTCCTTGGATTTAAAGGTCCCTGTCGT
46688982 TCCTTTTCGACATGAATTTGCCGACGCCTCTGCTCTTCTGATAGTAAATATGGCTTACCATGGAT
196 TCCTTTTCGACATGAATTTGCCGACGCCTCTGCTCTTCTGATAGTAAATATGGCTTACCATGGAT
46689047 CCTAAACCATAGCATGTAATCCGGCGCGTACGCTAACTCTGGAACAATGATTGGTTCCCAATTAG
261 CCTAAACCATAGCATGTAATCCGGCGCGTACGCTAACTCTGGAACAATGATTGGTTCCCAATTAG
46689112 GTATATGATCAAATTAATTTTCCCATATTTCGATATATTTCGATCAGAATATCGACCAATTTGTA
326 GTATATGATCAAATTAATTTTCCCATATTTCGATATATTTCGATCAGAATATCGACCAATTTGTA
46689177 TTCGATTATCGTAAGTCAATTTTGTGCTCATCATTGAGCTCCTCTAGTGCCATAGGAATCGGTTG
391 TTCGATTATCGTAAGTCAATTTTGTGCTCATCATTGAGCTCCTCTAGTGCCATAGGAATCGGTTG
46689242 TCGAAATCTAAATTGTCGTAACACTCTATCCGTCTGGTGCATCTCCACGGTAACATAGTTGACCA
456 TCGAAATCTAAATTGTCGTAACACTCTATCCGTCTGGTGCATCTCCACGGTAACATAGTTGACCA
46689307 ATGGGACCTTCACATGAAAATGTTCAGATTTTGAAAGAATTCATCTGAAATTACCGCCTGAATTT
521 ATGGGACCTTCACATGAAAATGTTCAGATTTTGAAAGAATTCATCTGAAATTACCGCCTGAATTT
46689372 TCAGATCCTCGTATAATGTCCATTGAAACTACAAGAACATGATAATTAGTTAT
586 TCAGATCCTCGTATAATGTCCATTGAAACTACAAGAACATGATAATTAGTTAT
46689425 ACTTGGCATAGGACTGAGAAAAGGAAACATATAAGGTTAGGATACATATAAGGGCTAGAATACTC
1 ACTTGGCATAGGACTGAGAAAAGGAAACATATAAGGTTAGGATACATATAAGGGCTAGAATACTC
46689490 ACCTGACATAATCTGAAGAGGCTGTGATGTGGGTGTAGTCGGTTAAGGCGTTGAGCCCGATGATT
66 ACCTGACATAATCTGAAGAGGCTGTGATGTGGGTGTAGTCGGTTAAGGCGTTGAGCCCGATGATT
46689555 GTGTGGGCGTTGTTGATGGGCCCGTGTTGTTATCCCTTCTCCTTGGATTTAAAGGTCCCTGTCGT
131 GTGTGGGCGTTGTTGATGGGCCCGTGTTGTTATCCCTTCTCCTTGGATTTAAAGGTCCCTGTCGT
46689620 TCCTTTTCGACATGAATTTGCCGACGCCTCTGCTCTTCTGATAGTAAATATGGCTTACCATGGAT
196 TCCTTTTCGACATGAATTTGCCGACGCCTCTGCTCTTCTGATAGTAAATATGGCTTACCATGGAT
46689685 CCTAAACCATAGCATGTAATCCGGCGCGTACGCTAACTCTGGAACAATGATTGGTTCCCAATTAG
261 CCTAAACCATAGCATGTAATCCGGCGCGTACGCTAACTCTGGAACAATGATTGGTTCCCAATTAG
46689750 GTATATGATCAAATTAATTTTCCCATATTTCGATATATTTCGATCAGAATATCGACCAATTTGTA
326 GTATATGATCAAATTAATTTTCCCATATTTCGATATATTTCGATCAGAATATCGACCAATTTGTA
46689815 TTCGATTATCGTAAGTCAATTTTGTGCTCATCATTGAGCTCCTCTAGTGCCATAGGAATCGGTTG
391 TTCGATTATCGTAAGTCAATTTTGTGCTCATCATTGAGCTCCTCTAGTGCCATAGGAATCGGTTG
46689880 TCGAAATCTAAATTGTCGTAACACTCTATCCGTCTGGTGCATCTCCACGGTAACATAGTTGACCA
456 TCGAAATCTAAATTGTCGTAACACTCTATCCGTCTGGTGCATCTCCACGGTAACATAGTTGACCA
46689945 ATGGGACCTTCACATGAAAATGTTCAGATTTTGAAAGAATTCATCTGAAATTACCGCCTGAATTT
521 ATGGGACCTTCACATGAAAATGTTCAGATTTTGAAAGAATTCATCTGAAATTACCGCCTGAATTT
46690010 TCAGATCCTCGTATAATGTCCATTGAAACTACAAGAACATGATAA
586 TCAGATCCTCGTATAATGTCCATTGAAACTACAAGAACATGATAA
46690055 AAATATTAGT
Statistics
Matches: 630, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
638 630 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (638 bp):
ACTTGGCATAGGACTGAGAAAAGGAAACATATAAGGTTAGGATACATATAAGGGCTAGAATACTC
ACCTGACATAATCTGAAGAGGCTGTGATGTGGGTGTAGTCGGTTAAGGCGTTGAGCCCGATGATT
GTGTGGGCGTTGTTGATGGGCCCGTGTTGTTATCCCTTCTCCTTGGATTTAAAGGTCCCTGTCGT
TCCTTTTCGACATGAATTTGCCGACGCCTCTGCTCTTCTGATAGTAAATATGGCTTACCATGGAT
CCTAAACCATAGCATGTAATCCGGCGCGTACGCTAACTCTGGAACAATGATTGGTTCCCAATTAG
GTATATGATCAAATTAATTTTCCCATATTTCGATATATTTCGATCAGAATATCGACCAATTTGTA
TTCGATTATCGTAAGTCAATTTTGTGCTCATCATTGAGCTCCTCTAGTGCCATAGGAATCGGTTG
TCGAAATCTAAATTGTCGTAACACTCTATCCGTCTGGTGCATCTCCACGGTAACATAGTTGACCA
ATGGGACCTTCACATGAAAATGTTCAGATTTTGAAAGAATTCATCTGAAATTACCGCCTGAATTT
TCAGATCCTCGTATAATGTCCATTGAAACTACAAGAACATGATAATTAGTTAT
Found at i:46691065 original size:24 final size:24
Alignment explanation
Indices: 46691015--46691065 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
46691005 ACTGTTATAA
* * *
46691015 AAAATTATAAAATGAAAATTAATT
1 AAAATTACAAAATGAAAATAAACT
46691039 AAAATTACATAAATGAAAA-AAACT
1 AAAATTACA-AAATGAAAATAAACT
46691063 AAA
1 AAA
46691066 TAATATTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAATTACAAAATGAAAATAAACT
Found at i:46691253 original size:11 final size:11
Alignment explanation
Indices: 46691227--46691266 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
46691217 AGAGAGCTTT
46691227 GAGAAATTTAGA
1 GAGAAATTT-GA
46691239 GAGAAATTTGA
1 GAGAAATTTGA
*
46691250 GAGAAAATTGA
1 GAGAAATTTGA
46691261 -AGAAAT
1 GAGAAAT
46691267 AATGTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 5 0.19
11 12 0.46
12 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.23
Consensus pattern (11 bp):
GAGAAATTTGA
Found at i:46696731 original size:5 final size:5
Alignment explanation
Indices: 46696721--46696749 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
46696711 CATTAACACC
46696721 AGTGG AGTGG AGTGG AGTGG AGT-G AGTGG
1 AGTGG AGTGG AGTGG AGTGG AGTGG AGTGG
46696750 GAAAGGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.59, T:0.21
Consensus pattern (5 bp):
AGTGG
Found at i:46699547 original size:8 final size:9
Alignment explanation
Indices: 46699532--46699556 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
46699522 ATGTCAGAAC
46699532 TAAAAAAAA
1 TAAAAAAAA
46699541 TAAAAAAAA
1 TAAAAAAAA
46699550 TAAAAAA
1 TAAAAAA
46699557 TGCTACAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:46699745 original size:5 final size:5
Alignment explanation
Indices: 46699700--46699730 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
46699690 GCAAATCAGT
46699700 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
46699731 TCGGATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:46701482 original size:3 final size:3
Alignment explanation
Indices: 46701474--46701508 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
46701464 TTATTTGCAA
46701474 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46701509 ATTATGGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46705904 original size:18 final size:18
Alignment explanation
Indices: 46705843--46705904 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
46705833 AAAGGGTGAG
46705843 AAGTAAAAGTTTATGGGGA
1 AAGTAAAAGTTT-TGGGGA
* *
46705862 AAATAAAAAGTTTTGGGGG
1 AAGT-AAAAGTTTTGGGGA
46705881 AA-TAAAA-TTTTGAGGGA
1 AAGTAAAAGTTTTG-GGGA
46705898 AAGTAAA
1 AAGTAAA
46705905 TAGGTAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 5 0.14
17 9 0.24
18 5 0.14
19 10 0.27
20 8 0.22
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.26
Consensus pattern (18 bp):
AAGTAAAAGTTTTGGGGA
Found at i:46706880 original size:21 final size:21
Alignment explanation
Indices: 46706856--46706918 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
46706846 ATAATAGAAT
46706856 ATTTAATTAGGGAACTTAACA
1 ATTTAATTAGGGAACTTAACA
* * *
46706877 ATTT--TT--TGAATTTATA-T
1 ATTTAATTAGGGAACTTA-ACA
46706894 ATTTAATTAGGGAACTTAACA
1 ATTTAATTAGGGAACTTAACA
46706915 ATTT
1 ATTT
46706919 TTTGAATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
17 10 0.33
18 1 0.03
19 4 0.13
20 1 0.03
21 14 0.47
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.44
Consensus pattern (21 bp):
ATTTAATTAGGGAACTTAACA
Found at i:46706896 original size:38 final size:38
Alignment explanation
Indices: 46706854--46706937 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
46706844 TCATAATAGA
46706854 ATATTTAATTAGGGAACTTAACAATTTTTTGAATTTAT
1 ATATTTAATTAGGGAACTTAACAATTTTTTGAATTTAT
46706892 ATATTTAATTAGGGAACTTAACAATTTTTTGAATTTAT
1 ATATTTAATTAGGGAACTTAACAATTTTTTGAATTTAT
*
46706930 ATCTTTAA
1 ATATTTAA
46706938 CTCCACTCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (38 bp):
ATATTTAATTAGGGAACTTAACAATTTTTTGAATTTAT
Found at i:46709739 original size:16 final size:16
Alignment explanation
Indices: 46709718--46709785 Score: 91
Period size: 16 Copynumber: 4.2 Consensus size: 16
46709708 TGGTTCGCTA
*
46709718 TAATGGAATAGAGGTG
1 TAATGGAATAGAGGCG
***
46709734 TAATGGAATAGAGATA
1 TAATGGAATAGAGGCG
*
46709750 TAATGGAATAGATGCG
1 TAATGGAATAGAGGCG
46709766 TAATGGAATAGAGGCG
1 TAATGGAATAGAGGCG
46709782 TAAT
1 TAAT
46709786 AGGTAATTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.41, C:0.03, G:0.31, T:0.25
Consensus pattern (16 bp):
TAATGGAATAGAGGCG
Found at i:46709757 original size:32 final size:32
Alignment explanation
Indices: 46709716--46709778 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
46709706 TTTGGTTCGC
*
46709716 TATAATGGAATAGAGGTGTAATGGAATAGAGA
1 TATAATGGAATAGAGGCGTAATGGAATAGAGA
*
46709748 TATAATGGAATAGATGCGTAATGGAATAGAG
1 TATAATGGAATAGAGGCGTAATGGAATAGAG
46709779 GCGTAATAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.43, C:0.02, G:0.30, T:0.25
Consensus pattern (32 bp):
TATAATGGAATAGAGGCGTAATGGAATAGAGA
Found at i:46709854 original size:44 final size:46
Alignment explanation
Indices: 46709767--46709859 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
46709757 ATAGATGCGT
* *
46709767 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGATGAATGG
46709813 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGATGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGATGAATGG
46709857 AAT
1 AAT
46709860 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 3 0.07
46 19 0.42
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGATGAATGG
Found at i:46709916 original size:15 final size:15
Alignment explanation
Indices: 46709896--46709931 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
46709886 GCTAAAATGA
46709896 CTAGAATACCCTTAG
1 CTAGAATACCCTTAG
46709911 CTAGAATACCCTTAG
1 CTAGAATACCCTTAG
46709926 C-AGAAT
1 CTAGAAT
46709932 TTTTTTAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (15 bp):
CTAGAATACCCTTAG
Found at i:46710202 original size:49 final size:49
Alignment explanation
Indices: 46710131--46710228 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
46710121 AAACATTATT
* * *
46710131 AAATATAATTTAATATCATGAATCAAAAGGTGAACCCTTTATAAAATTA
1 AAATATAATTTAATATCATGAATCAAAAGCTGAACACTGTATAAAATTA
*
46710180 AAAT-TAATTTCAATATCATGAATCAAAAGCTTAACACTGTATAAAATTA
1 AAATATAATTT-AATATCATGAATCAAAAGCTGAACACTGTATAAAATTA
46710229 TAACACATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 6 0.14
49 38 0.86
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (49 bp):
AAATATAATTTAATATCATGAATCAAAAGCTGAACACTGTATAAAATTA
Found at i:46713845 original size:28 final size:28
Alignment explanation
Indices: 46713813--46713868 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
46713803 CGTCGTATCA
46713813 GAGTGGTGAGTGTAAACTTAAGGTGTTG
1 GAGTGGTGAGTGTAAACTTAAGGTGTTG
*
46713841 GAGTGGTGAGTGTAAACTTGAGGTGTTG
1 GAGTGGTGAGTGTAAACTTAAGGTGTTG
46713869 TTGGACTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.04, G:0.41, T:0.32
Consensus pattern (28 bp):
GAGTGGTGAGTGTAAACTTAAGGTGTTG
Found at i:46720707 original size:16 final size:16
Alignment explanation
Indices: 46720686--46720718 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46720676 TTCGCTGTAT
46720686 TGGAATAGAGACGTAA
1 TGGAATAGAGACGTAA
*
46720702 TGGAATAGAGGCGTAA
1 TGGAATAGAGACGTAA
46720718 T
1 T
46720719 AGCAAATCAA
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:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGACGTAA
Found at i:46720969 original size:16 final size:16
Alignment explanation
Indices: 46720932--46720973 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46720922 TTAATCATAT
*
46720932 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
46720948 TT-AAATATATTATAA
1 TTAAAATATATTATAA
46720963 TTAAAATATAT
1 TTAAAATATAT
46720974 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:46720980 original size:14 final size:15
Alignment explanation
Indices: 46720941--46720982 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46720931 TTTAAACATA
*
46720941 ATTATTATTAAATAT
1 ATTATAATTAAATAT
46720956 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
46720970 A-TATAATTTAATA
1 ATTATAATTAAATA
46720983 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:46721194 original size:24 final size:25
Alignment explanation
Indices: 46721148--46721195 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
46721138 TATGAATTTG
46721148 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
46721174 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
46721196 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:46721199 original size:92 final size:92
Alignment explanation
Indices: 46721103--46721331 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
46721093 TGATTTAATA
* * *
46721103 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
46721165 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
46721195 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
46721260 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
46721285 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
46721332 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:46724102 original size:30 final size:30
Alignment explanation
Indices: 46724066--46724132 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
46724056 CGATTAACTC
46724066 AAACAAATAATGCAATACAGGCAAGAACCG
1 AAACAAATAATGCAATACAGGCAAGAACCG
46724096 AAACAAATAATGCAATACAGGCAAGAACCG
1 AAACAAATAATGCAATACAGGCAAGAACCG
46724126 AAACAAA
1 AAACAAA
46724133 CTATTTAGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.57, C:0.19, G:0.15, T:0.09
Consensus pattern (30 bp):
AAACAAATAATGCAATACAGGCAAGAACCG
Found at i:46728343 original size:3 final size:3
Alignment explanation
Indices: 46728335--46728389 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
46728325 AGACGGCAAT
* *
46728335 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
46728383 GAA GAA G
1 GAA GAA G
46728390 GACCTGAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:46741159 original size:19 final size:19
Alignment explanation
Indices: 46741135--46741397 Score: 328
Period size: 19 Copynumber: 13.8 Consensus size: 19
46741125 AATCTTCAGG
46741135 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46741154 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
46741173 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46741192 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* * **
46741211 AACATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46741230 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* * **
46741249 AACATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46741268 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* * **
46741287 AACATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46741306 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* * **
46741325 AACATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46741344 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
46741363 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46741382 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46741398 NNNNNNNNNN
Statistics
Matches: 200, Mismatches: 44, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 200 1.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46741185 original size:38 final size:38
Alignment explanation
Indices: 46741142--46741397 Score: 494
Period size: 38 Copynumber: 6.7 Consensus size: 38
46741132 AGGGATATGC
*
46741142 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAACATAT
46741180 AATCTTAGATATGATATGCAATCTTAGATATAACATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAACATAT
46741218 AATCTTAGATATGATATGCAATCTTAGATATAACATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAACATAT
46741256 AATCTTAGATATGATATGCAATCTTAGATATAACATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAACATAT
46741294 AATCTTAGATATGATATGCAATCTTAGATATAACATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAACATAT
*
46741332 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAACATAT
46741370 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
46741398 NNNNNNNNNN
Statistics
Matches: 216, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 216 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAACATAT
Found at i:46744106 original size:20 final size:20
Alignment explanation
Indices: 46744081--46744120 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
46744071 TTTCAAATTA
*
46744081 ATTTTACCAAATATAATATT
1 ATTTTAACAAATATAATATT
**
46744101 ATTTTAATGAATATAATATT
1 ATTTTAACAAATATAATATT
46744121 TATCTAGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTTTAACAAATATAATATT
Found at i:46748619 original size:54 final size:54
Alignment explanation
Indices: 46748514--46748657 Score: 173
Period size: 54 Copynumber: 2.7 Consensus size: 54
46748504 AACAGGTCAC
* * * * * * *
46748514 GCCATACAGGCAAT-CATATAGAGTCTGCCACCAAGTCGATCCATTCAGAGTAT
1 GCCATAAAGGCAATCCATTTAGAGTATGCCACAAAGGCGAGCCAGTCAGAGTAT
* *
46748567 GCCATAAAGGCAATCCATTTAAAGTGTGCCACAAAGGCGAGCCAGTCAGAGTAT
1 GCCATAAAGGCAATCCATTTAGAGTATGCCACAAAGGCGAGCCAGTCAGAGTAT
* * *
46748621 GCCACAAAGGCAATCCAATTAGAGTACGCCACAAAGG
1 GCCATAAAGGCAATCCATTTAGAGTATGCCACAAAGG
46748658 TAATCCAGTT
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 13 0.17
54 64 0.83
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (54 bp):
GCCATAAAGGCAATCCATTTAGAGTATGCCACAAAGGCGAGCCAGTCAGAGTAT
Found at i:46748662 original size:27 final size:27
Alignment explanation
Indices: 46748532--46748678 Score: 134
Period size: 27 Copynumber: 5.4 Consensus size: 27
46748522 GGCAATCATA
* * * *
46748532 TAGAGTCTGCCACCAAGTCGATCC-AT
1 TAGAGTATGCCACAAAGGCAATCCAAT
* *
46748558 TCAGAGTATGCCATAAAGGCAATCCATT
1 T-AGAGTATGCCACAAAGGCAATCCAAT
* * * * *
46748586 TAAAGTGTGCCACAAAGGCGAGCCAGT
1 TAGAGTATGCCACAAAGGCAATCCAAT
*
46748613 CAGAGTATGCCACAAAGGCAATCCAAT
1 TAGAGTATGCCACAAAGGCAATCCAAT
* * *
46748640 TAGAGTACGCCACAAAGGTAATCCAGT
1 TAGAGTATGCCACAAAGGCAATCCAAT
*
46748667 TAGAGTTTGCCA
1 TAGAGTATGCCA
46748679 TGGCTATGGG
Statistics
Matches: 95, Mismatches: 24, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
26 1 0.01
27 92 0.97
28 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (27 bp):
TAGAGTATGCCACAAAGGCAATCCAAT
Found at i:46748666 original size:54 final size:54
Alignment explanation
Indices: 46748552--46748678 Score: 155
Period size: 54 Copynumber: 2.4 Consensus size: 54
46748542 CACCAAGTCG
* * * ** *
46748552 ATCCATTCAGAGTATGCCATAAAGGCAATCCATTTAAAGTGTGCCACAAAGGCG
1 ATCCAGTCAGAGTATGCCACAAAGGCAATCCAATTAAAGTACGCCACAAAGGCA
* * *
46748606 AGCCAGTCAGAGTATGCCACAAAGGCAATCCAATTAGAGTACGCCACAAAGGTA
1 ATCCAGTCAGAGTATGCCACAAAGGCAATCCAATTAAAGTACGCCACAAAGGCA
* *
46748660 ATCCAGTTAGAGTTTGCCA
1 ATCCAGTCAGAGTATGCCA
46748679 TGGCTATGGG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (54 bp):
ATCCAGTCAGAGTATGCCACAAAGGCAATCCAATTAAAGTACGCCACAAAGGCA
Found at i:46752858 original size:26 final size:26
Alignment explanation
Indices: 46752811--46752860 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
46752801 ATGGAAAAGG
*
46752811 GGTTGCTAAGTACAGATTCCCCGAGA
1 GGTTGCTAAGTACAGATGCCCCGAGA
* *
46752837 GGTTGCTAAGTGCTGATGCCCCGA
1 GGTTGCTAAGTACAGATGCCCCGA
46752861 ATTATTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (26 bp):
GGTTGCTAAGTACAGATGCCCCGAGA
Found at i:46756227 original size:43 final size:44
Alignment explanation
Indices: 46756166--46756254 Score: 171
Period size: 43 Copynumber: 2.0 Consensus size: 44
46756156 TTTCATTTTA
46756166 TTTTACCTAAAATAACAAAAAAAAAGAAAGGAAAA-ACTTACCT
1 TTTTACCTAAAATAACAAAAAAAAAGAAAGGAAAAGACTTACCT
46756209 TTTTACCTAAAATAACAAAAAAAAAGAAAGGAAAAGACTTACCT
1 TTTTACCTAAAATAACAAAAAAAAAGAAAGGAAAAGACTTACCT
46756253 TT
1 TT
46756255 AGCCGGAACC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 35 0.78
44 10 0.22
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.22
Consensus pattern (44 bp):
TTTTACCTAAAATAACAAAAAAAAAGAAAGGAAAAGACTTACCT
Found at i:46758971 original size:114 final size:113
Alignment explanation
Indices: 46758763--46759067 Score: 393
Period size: 114 Copynumber: 2.7 Consensus size: 113
46758753 AAAATAAGCA
* * * *
46758763 TTAGCGGCGTTTTTGAGAAAGCGCCAC-AAAAAACCTAAGCCCAACGACGTCGTTTCCCGAGCTT
1 TTAGCGGCGTTTTT-AGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
46758827 TCGGGGATTTAGCGGTGTTTCTAAGAAAGCGCCGCTAATGCTCCAGGCT
65 TCGGGGATTTAGCGCTGTTTATAAGAAAGCGCCGCTAATGCTCAAGGCT
* * *
46758876 TTAGCGGTGTTTTTACAAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTT
1 TTAGCGGCGTTTTTA-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
46758941 TCGGGGATTTAGCAGCT-TTTATAAGGAAGCGCCGCTAATGCTCAAGGCT
65 TCGGGGATTTAGC-GCTGTTTATAAGAAAGCGCCGCTAATGCTCAAGGCT
* * * *
46758990 TTAGCGACGTTTTTGGGAAAGAGCCGCAAAAAAACCTAAGGCCC-ACGACACCGTTTTCTGAGCT
1 TTAGCGGCGTTTTT-AGAAAGCGCCGCAAAAAAACCTAA-GCCCAACGACGCCGTTTTCTGAGCT
*
46759054 TT-AGGGATTTAGCG
64 TTCGGGGATTTAGCG
46759068 GCGTTTTTGG
Statistics
Matches: 168, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
112 2 0.01
113 32 0.19
114 128 0.76
115 6 0.04
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (113 bp):
TTAGCGGCGTTTTTAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
CGGGGATTTAGCGCTGTTTATAAGAAAGCGCCGCTAATGCTCAAGGCT
Found at i:46760844 original size:146 final size:146
Alignment explanation
Indices: 46760522--46760957 Score: 755
Period size: 146 Copynumber: 3.0 Consensus size: 146
46760512 NNNNNNNNNN
46760522 CGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAGA
1 CGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAGA
*
46760587 ATAAATCAATTTATTAAAAAAATAAAAAAAATTTAGAATAGCAAAACAGCGTCGTTTTGTTCAAA
66 ATAAATCAATTTATT-AAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
*
46760652 ATGAAAAAATTTTGCGA
130 ATGAAAAATTTTTGCGA
*
46760669 CGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGTAAAGA
1 CGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAGA
46760734 ATAAATCAATTTATTAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAA
66 ATAAATCAATTTATTAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAA
*
46760799 TGAAAAATTTTTGCGG
131 TGAAAAATTTTTGCGA
* * *
46760815 CGTTTTTTAAGAAGCGCCGCTAAAGGTAAGTAATAGCGGCGTTTTCTATAAAAATGCCGCAAAGA
1 CGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAGA
* * *
46760880 ATAAATCAATTTATAAAAAAAATAAAAAAAATTTAGAATCGAAAAACGGCGTCGTTTTGTTCAAA
66 ATAAATCAATTTAT-TAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
46760945 ATGAAATAATTTT
130 ATGAAA-AATTTT
46760958 GTGGTGTTTT
Statistics
Matches: 276, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
146 138 0.50
147 132 0.48
148 6 0.02
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (146 bp):
CGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCTATAAAAACGCCGCAAAGA
ATAAATCAATTTATTAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAA
TGAAAAATTTTTGCGA
Found at i:46764382 original size:23 final size:23
Alignment explanation
Indices: 46764352--46764483 Score: 103
Period size: 23 Copynumber: 5.8 Consensus size: 23
46764342 GAAATTTGAT
46764352 AGTGCTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
*
46764375 AGTGCTGCAAATTGAAGTATTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
46764397 AGTTGCTGGAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
46764421 A-TCGCTG-TAATTGACGTGTATA
1 AGT-GCTGCAAATTGAAGTGTTTA
* * **
46764443 AATGTTGTTAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
46764466 AGTGCTGCAAATTGAAGT
1 AGTGCTGCAAATTGAAGT
46764484 NNNNNNNNNN
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
22 19 0.22
23 66 0.77
24 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.39
Consensus pattern (23 bp):
AGTGCTGCAAATTGAAGTGTTTA
Found at i:46765698 original size:42 final size:43
Alignment explanation
Indices: 46765557--46765743 Score: 252
Period size: 43 Copynumber: 4.4 Consensus size: 43
46765547 GTTTTTGGAG
* * * * * *
46765557 AAAGCGTCGCTAAAGGTCTTGTTTTTTAGCGGCGCTTCAGGAA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGAGGGA
* * *
46765600 AAAGCACCGCTAAAGGTCTTGGTTTTTAGCAGCGTTTGAGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGAGGGA
*
46765643 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCG-TTGGGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGAGGGA
*
46765685 AAAGCGCCGCTAAAGGTCATT-GTCTTTAGCGGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTC-TTGGTCTTTAGCGGCGTTTGAGGGA
46765728 AAAGCGCCGCTAAAGG
1 AAAGCGCCGCTAAAGG
46765744 CCTTAAAAAG
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 38 0.29
43 92 0.71
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.26
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGAGGGA
Found at i:46765728 original size:85 final size:86
Alignment explanation
Indices: 46765536--46765743 Score: 269
Period size: 85 Copynumber: 2.4 Consensus size: 86
46765526 TTTTTTGTGA
* * * * *
46765536 TCTTTAGTGGCGTTT-TTGGAGAAAGCGTCGCTAAAGGTCTTGTTTTTTAGCGGCGCTTCAGGAA
1 TCTTTAGCGGCGTTTGTGGGA-AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGCTTCAGGAA
46765600 AAAGCACCGCTAAAGGTCTTGG
65 AAAGCACCGCTAAAGGTCTTGG
* * * ** *
46765622 TTTTTAGCAGCGTTTGAGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCG-TTGGGGGAA
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGCTTCAGGAAA
*
46765686 AAGCGCCGCTAAAGGTCATT-G
66 AAGCACCGCTAAAGGTC-TTGG
46765707 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
46765744 CCTTAAAAAG
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
85 57 0.54
86 45 0.43
87 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (86 bp):
TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGCTTCAGGAAA
AAGCACCGCTAAAGGTCTTGG
Found at i:46768255 original size:13 final size:13
Alignment explanation
Indices: 46768221--46768263 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
46768211 GTAGTAGTAA
*
46768221 TTTTTCCTGTTTCC
1 TTTTTCCT-TTTTC
*
46768235 TGTTTCCTTTTTC
1 TTTTTCCTTTTTC
46768248 TTTTTCCTTTTT-
1 TTTTTCCTTTTTC
46768260 TTTT
1 TTTT
46768264 ATTGGTGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 4 0.15
13 15 0.58
14 7 0.27
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTTTCCTTTTTC
Found at i:46768941 original size:3 final size:3
Alignment explanation
Indices: 46768933--46768967 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
46768923 CTACCACAGT
46768933 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
46768968 GGTCTTCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:46768973 original size:12 final size:12
Alignment explanation
Indices: 46768934--46768979 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
46768924 TACCACAGTT
*
46768934 TCTTCTTCTTCT
1 TCTTCTTCTTCG
*
46768946 TCTTCTTCTTCT
1 TCTTCTTCTTCG
*
46768958 TCTTCTTCTTGG
1 TCTTCTTCTTCG
*
46768970 TCTTCCTCTT
1 TCTTCTTCTT
46768980 GGCCGTCCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.00, C:0.33, G:0.04, T:0.63
Consensus pattern (12 bp):
TCTTCTTCTTCG
Found at i:46786094 original size:14 final size:14
Alignment explanation
Indices: 46786075--46786113 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
46786065 TGTGGAATAT
46786075 TTTTATTGATGAAG
1 TTTTATTGATGAAG
46786089 TTTTATTTG-TGAAG
1 TTTTA-TTGATGAAG
46786103 -TTTATTGATGA
1 TTTTATTGATGA
46786114 GTATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.13
13 7 0.30
14 10 0.43
15 3 0.13
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.54
Consensus pattern (14 bp):
TTTTATTGATGAAG
Found at i:46798317 original size:21 final size:24
Alignment explanation
Indices: 46798277--46798319 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
46798267 ATTAAGCGTT
46798277 TTTTTTGTTTGTTTTAGTTAAATG
1 TTTTTTGTTTGTTTTAGTTAAATG
46798301 TTTTTT-TTT-TTTT-GTTAAA
1 TTTTTTGTTTGTTTTAGTTAAA
46798320 ATTGAGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 4 0.21
23 3 0.16
24 6 0.32
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (24 bp):
TTTTTTGTTTGTTTTAGTTAAATG
Found at i:46804654 original size:18 final size:18
Alignment explanation
Indices: 46804601--46804648 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
46804591 GTATTAGAAC
* * *
46804601 TTATAAAAATCATTCAAAG
1 TTATAAAAAACA-TAAAAA
*
46804620 TTATAGAAAACATAAAAA
1 TTATAAAAAACATAAAAA
46804638 TTATAAAAAAC
1 TTATAAAAAAC
46804649 CAAAAATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.27
Consensus pattern (18 bp):
TTATAAAAAACATAAAAA
Found at i:46804851 original size:17 final size:16
Alignment explanation
Indices: 46804829--46804889 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
46804819 ATAATGATTC
*
46804829 TTTAATTTTATATATTT
1 TTTAATTTT-TATAATT
46804846 TTTAATTTTTATAATT
1 TTTAATTTTTATAATT
* * *
46804862 TATAATTTATACTTATT
1 TTTAATTTTTA-TAATT
*
46804879 TTTATTTTTTA
1 TTTAATTTTTA
46804890 ATGGTTATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 15 0.42
17 21 0.58
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAATTTTTATAATT
Found at i:46804867 original size:16 final size:17
Alignment explanation
Indices: 46804831--46804869 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
46804821 AATGATTCTT
* *
46804831 TAATTTTATATATTTTT
1 TAATTTTATATAATTTA
46804848 TAATTTT-TATAATTTA
1 TAATTTTATATAATTTA
46804864 TAATTT
1 TAATTT
46804870 ATACTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTTTATATAATTTA
Found at i:46813877 original size:51 final size:50
Alignment explanation
Indices: 46813802--46813985 Score: 244
Period size: 50 Copynumber: 3.7 Consensus size: 50
46813792 ATGAGATCCC
*
46813802 ATGTAAGACCATGTCTGGGACATGGCATTGGCATC-ATTATGAGAGGTCCT
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-TATGAGAGGTCCT
* *
46813852 ATGTAAGACCATGGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCT
1 ATGTAAGACCAT-GTCTGGGACATGGCATTGGCACCGATATGAGAGGTCCT
** * ** *
46813903 CCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGGTCCT
* *
46813953 ATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
46813986 GTACAGAAAA
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
50 72 0.62
51 43 0.37
52 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGGTCCT
Found at i:46813927 original size:101 final size:100
Alignment explanation
Indices: 46813804--46813985 Score: 267
Period size: 101 Copynumber: 1.8 Consensus size: 100
46813794 GAGATCCCAT
* * ** * *
46813804 GTAAGACCATGTCTGGGACATGGCATTGGCATC-ATTATGAGAGGTCCTATGTAAGACCATGGTC
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGA-TATGAGAACTCCCATGTAAGACCAT-ATC
*
46813868 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCTCC
64 TGGGACATGGCATTGGCACCGAGATGAGAGGTCCTCC
46813905 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
*
46813970 GGATATGGCATTGGCA
66 GGACATGGCATTGGCA
46813986 GTACAGAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 18 0.25
101 53 0.74
102 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (100 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
GGACATGGCATTGGCACCGAGATGAGAGGTCCTCC
Found at i:46814252 original size:12 final size:12
Alignment explanation
Indices: 46814235--46814273 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46814225 ATGAGTTATT
46814235 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
46814247 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
46814259 TAAGTGAGTAAG
1 TAAGTAAGCAAG
46814271 TAA
1 TAA
46814274 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:46815271 original size:104 final size:105
Alignment explanation
Indices: 46815116--46815327 Score: 417
Period size: 104 Copynumber: 2.0 Consensus size: 105
46815106 GTTTGGGAAA
46815116 AAAAACGAGGCCCGTTTAGAAAACGGTCTGGGCCTCGAGCACCACTTTTTTGGCCCGGCCCCAGC
1 AAAAACGAGGCCCGTTTAGAAAACGGTCTGGGCCTCGAGCACCACTTTTTTGGCCCGGCCCCAGC
46815181 CTGGCTAGAATATATAATAAATATATA-TTTTTTATTTTT
66 CTGGCTAGAATATATAATAAATATATATTTTTTTATTTTT
46815220 AAAAACGAGGCCCGTTTAGAAAACGGTCTGGGCCTCGAGCACCACTTTTTTGGCCCGGCCCCAGC
1 AAAAACGAGGCCCGTTTAGAAAACGGTCTGGGCCTCGAGCACCACTTTTTTGGCCCGGCCCCAGC
46815285 CTGGCTAGAATATATAATAAATATATATTTTTTTATTTTT
66 CTGGCTAGAATATATAATAAATATATATTTTTTTATTTTT
46815325 AAA
1 AAA
46815328 TTTTTAAATA
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 92 0.86
105 15 0.14
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (105 bp):
AAAAACGAGGCCCGTTTAGAAAACGGTCTGGGCCTCGAGCACCACTTTTTTGGCCCGGCCCCAGC
CTGGCTAGAATATATAATAAATATATATTTTTTTATTTTT
Found at i:46815347 original size:19 final size:19
Alignment explanation
Indices: 46815318--46815367 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
46815308 TATATTTTTT
46815318 TATTTTT-AAAT-TTTTAAA
1 TATTTTTAAAATATTTT-AA
**
46815336 TATTTTTAAAATATTTTTT
1 TATTTTTAAAATATTTTAA
46815355 TATTTTTAAAATA
1 TATTTTTAAAATA
46815368 AATTGTTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 7 0.25
19 17 0.61
20 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTTTAAAATATTTTAA
Found at i:46816779 original size:31 final size:31
Alignment explanation
Indices: 46816741--46816803 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
46816731 TTATTCGGGA
*
46816741 TACGCAATGTCACTATTAAGGAAGAAGTTAT
1 TACGCAATGTCACCATTAAGGAAGAAGTTAT
46816772 TACGCAATGTCACCATTAAGGAAGAAGTTAT
1 TACGCAATGTCACCATTAAGGAAGAAGTTAT
46816803 T
1 T
46816804 CACGAGTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (31 bp):
TACGCAATGTCACCATTAAGGAAGAAGTTAT
Found at i:46819248 original size:732 final size:732
Alignment explanation
Indices: 46817845--46819308 Score: 2928
Period size: 732 Copynumber: 2.0 Consensus size: 732
46817835 TTATATTGGT
46817845 TTTCATTCCTTAGGTAATCTCGATTAATGTCAACAAGTTAAAATGGGATGTTATGTGTTGTTTAA
1 TTTCATTCCTTAGGTAATCTCGATTAATGTCAACAAGTTAAAATGGGATGTTATGTGTTGTTTAA
46817910 GTTAATGCAGTTTTTAAGGATCTTTGATTAGTATTCTGAGGGAATTGTGATAGATTGTATGTCTG
66 GTTAATGCAGTTTTTAAGGATCTTTGATTAGTATTCTGAGGGAATTGTGATAGATTGTATGTCTG
46817975 TGTTGTCTTGACAACAAGAAGAAGGGATTATTCTGAAATGTTATTATCTGATATATAAAATTGAC
131 TGTTGTCTTGACAACAAGAAGAAGGGATTATTCTGAAATGTTATTATCTGATATATAAAATTGAC
46818040 TCAGTTGTTTTAATCAAAGTGGGTTATTTATTGAAAAGTTAATTGAGTTATACGCATTTGAGTCT
196 TCAGTTGTTTTAATCAAAGTGGGTTATTTATTGAAAAGTTAATTGAGTTATACGCATTTGAGTCT
46818105 ATCCTTAGGTCCGAGAATATATTGTGTGCATTCATGGGTAAATAGACAAACTGTCAGAATGAGAA
261 ATCCTTAGGTCCGAGAATATATTGTGTGCATTCATGGGTAAATAGACAAACTGTCAGAATGAGAA
46818170 ATTCAGATTCTAGAAGACTTGATACAGAAATATATCTATCAGGTCAGTTCTAATCGGGAAATGTT
326 ATTCAGATTCTAGAAGACTTGATACAGAAATATATCTATCAGGTCAGTTCTAATCGGGAAATGTT
46818235 ATTATGGGTTAAAGTCGTCCCGATTGTGGAAGTTATAGCACTTGTGTAAAATGATATTGCTTGAC
391 ATTATGGGTTAAAGTCGTCCCGATTGTGGAAGTTATAGCACTTGTGTAAAATGATATTGCTTGAC
46818300 GCTTTCATGGAAAAAGGGGAACAAATATCAGTTGAAAGTTACAGATGCAACCACGTCAGAAATAT
456 GCTTTCATGGAAAAAGGGGAACAAATATCAGTTGAAAGTTACAGATGCAACCACGTCAGAAATAT
46818365 CAGTCAGAGTTTGATAATCTGAGTTTTTCTGTTATGTTTCGACAGACGATTACTGGGAATTTCTC
521 CAGTCAGAGTTTGATAATCTGAGTTTTTCTGTTATGTTTCGACAGACGATTACTGGGAATTTCTC
46818430 GGTAGTTATACTACTAATGATAAAGTGATGACAGGAGAACATCAGAGCTACTCAGTTAAGTTCAA
586 GGTAGTTATACTACTAATGATAAAGTGATGACAGGAGAACATCAGAGCTACTCAGTTAAGTTCAA
46818495 GTATAGTATCAAGTTCTCAAATGACTGATATGAGTTCGGAAATGATATGAGTTATGATTGATTTT
651 GTATAGTATCAAGTTCTCAAATGACTGATATGAGTTCGGAAATGATATGAGTTATGATTGATTTT
46818560 TATGGACTTCGATTGAA
716 TATGGACTTCGATTGAA
46818577 TTTCATTCCTTAGGTAATCTCGATTAATGTCAACAAGTTAAAATGGGATGTTATGTGTTGTTTAA
1 TTTCATTCCTTAGGTAATCTCGATTAATGTCAACAAGTTAAAATGGGATGTTATGTGTTGTTTAA
46818642 GTTAATGCAGTTTTTAAGGATCTTTGATTAGTATTCTGAGGGAATTGTGATAGATTGTATGTCTG
66 GTTAATGCAGTTTTTAAGGATCTTTGATTAGTATTCTGAGGGAATTGTGATAGATTGTATGTCTG
46818707 TGTTGTCTTGACAACAAGAAGAAGGGATTATTCTGAAATGTTATTATCTGATATATAAAATTGAC
131 TGTTGTCTTGACAACAAGAAGAAGGGATTATTCTGAAATGTTATTATCTGATATATAAAATTGAC
46818772 TCAGTTGTTTTAATCAAAGTGGGTTATTTATTGAAAAGTTAATTGAGTTATACGCATTTGAGTCT
196 TCAGTTGTTTTAATCAAAGTGGGTTATTTATTGAAAAGTTAATTGAGTTATACGCATTTGAGTCT
46818837 ATCCTTAGGTCCGAGAATATATTGTGTGCATTCATGGGTAAATAGACAAACTGTCAGAATGAGAA
261 ATCCTTAGGTCCGAGAATATATTGTGTGCATTCATGGGTAAATAGACAAACTGTCAGAATGAGAA
46818902 ATTCAGATTCTAGAAGACTTGATACAGAAATATATCTATCAGGTCAGTTCTAATCGGGAAATGTT
326 ATTCAGATTCTAGAAGACTTGATACAGAAATATATCTATCAGGTCAGTTCTAATCGGGAAATGTT
46818967 ATTATGGGTTAAAGTCGTCCCGATTGTGGAAGTTATAGCACTTGTGTAAAATGATATTGCTTGAC
391 ATTATGGGTTAAAGTCGTCCCGATTGTGGAAGTTATAGCACTTGTGTAAAATGATATTGCTTGAC
46819032 GCTTTCATGGAAAAAGGGGAACAAATATCAGTTGAAAGTTACAGATGCAACCACGTCAGAAATAT
456 GCTTTCATGGAAAAAGGGGAACAAATATCAGTTGAAAGTTACAGATGCAACCACGTCAGAAATAT
46819097 CAGTCAGAGTTTGATAATCTGAGTTTTTCTGTTATGTTTCGACAGACGATTACTGGGAATTTCTC
521 CAGTCAGAGTTTGATAATCTGAGTTTTTCTGTTATGTTTCGACAGACGATTACTGGGAATTTCTC
46819162 GGTAGTTATACTACTAATGATAAAGTGATGACAGGAGAACATCAGAGCTACTCAGTTAAGTTCAA
586 GGTAGTTATACTACTAATGATAAAGTGATGACAGGAGAACATCAGAGCTACTCAGTTAAGTTCAA
46819227 GTATAGTATCAAGTTCTCAAATGACTGATATGAGTTCGGAAATGATATGAGTTATGATTGATTTT
651 GTATAGTATCAAGTTCTCAAATGACTGATATGAGTTCGGAAATGATATGAGTTATGATTGATTTT
46819292 TATGGACTTCGATTGAA
716 TATGGACTTCGATTGAA
46819309 AAGGTGCAAG
Statistics
Matches: 732, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
732 732 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.35
Consensus pattern (732 bp):
TTTCATTCCTTAGGTAATCTCGATTAATGTCAACAAGTTAAAATGGGATGTTATGTGTTGTTTAA
GTTAATGCAGTTTTTAAGGATCTTTGATTAGTATTCTGAGGGAATTGTGATAGATTGTATGTCTG
TGTTGTCTTGACAACAAGAAGAAGGGATTATTCTGAAATGTTATTATCTGATATATAAAATTGAC
TCAGTTGTTTTAATCAAAGTGGGTTATTTATTGAAAAGTTAATTGAGTTATACGCATTTGAGTCT
ATCCTTAGGTCCGAGAATATATTGTGTGCATTCATGGGTAAATAGACAAACTGTCAGAATGAGAA
ATTCAGATTCTAGAAGACTTGATACAGAAATATATCTATCAGGTCAGTTCTAATCGGGAAATGTT
ATTATGGGTTAAAGTCGTCCCGATTGTGGAAGTTATAGCACTTGTGTAAAATGATATTGCTTGAC
GCTTTCATGGAAAAAGGGGAACAAATATCAGTTGAAAGTTACAGATGCAACCACGTCAGAAATAT
CAGTCAGAGTTTGATAATCTGAGTTTTTCTGTTATGTTTCGACAGACGATTACTGGGAATTTCTC
GGTAGTTATACTACTAATGATAAAGTGATGACAGGAGAACATCAGAGCTACTCAGTTAAGTTCAA
GTATAGTATCAAGTTCTCAAATGACTGATATGAGTTCGGAAATGATATGAGTTATGATTGATTTT
TATGGACTTCGATTGAA
Found at i:46820005 original size:92 final size:93
Alignment explanation
Indices: 46819847--46820031 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 93
46819837 TAGGCATAAT
46819847 GACTAAATTGCATATAGGGTGAAAGTTGAATTATAGATTAAAGAAAAAGTAAAAGGACTAAAGAA
1 GACTAAATTGCATATAGGGTGAAAGTTGAATTATAGATTAAAGAAAAAGTAAAAGGACTAAAGAA
46819912 GCAATTATGCCATTGCTCATAAATGAGG
66 GCAATTATGCCATTGCTCATAAATGAGG
46819940 GACTAAATTGCATATAGGGTGAAAGTTGAA-TATAGATTAAAGAAAAAGTAAAAGGACTAAAGAA
1 GACTAAATTGCATATAGGGTGAAAGTTGAATTATAGATTAAAGAAAAAGTAAAAGGACTAAAGAA
**
46820004 GCAATTATTTCATTGCTCATAAATGAGG
66 GCAATTATGCCATTGCTCATAAATGAGG
46820032 CGGCATAAGT
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 60 0.67
93 30 0.33
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.25
Consensus pattern (93 bp):
GACTAAATTGCATATAGGGTGAAAGTTGAATTATAGATTAAAGAAAAAGTAAAAGGACTAAAGAA
GCAATTATGCCATTGCTCATAAATGAGG
Found at i:46820173 original size:15 final size:15
Alignment explanation
Indices: 46820153--46820204 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
46820143 ATAATAAAAC
46820153 AAAGAAATAGAAGAA
1 AAAGAAATAGAAGAA
46820168 AAAGAAATA-AAGAA
1 AAAGAAATAGAAGAA
**
46820182 AGAA-AAAGGGAAGCAA
1 A-AAGAAATAGAAG-AA
46820198 AAAGAAA
1 AAAGAAA
46820205 CAAAGAAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 9 0.29
15 16 0.52
16 6 0.19
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (15 bp):
AAAGAAATAGAAGAA
Found at i:46820201 original size:18 final size:17
Alignment explanation
Indices: 46820180--46820243 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
46820170 AGAAATAAAG
*
46820180 AAAGAAAAAGGGAAGCAA
1 AAAGAAAAA-AGAAGCAA
46820198 AAAGAAACAAAGAAGCAA
1 AAAGAAA-AAAGAAGCAA
* * *
46820216 AAACAAAACAGGAG-AA
1 AAAGAAAAAAGAAGCAA
46820232 AAAGTAAAAAAG
1 AAAG-AAAAAAG
46820244 GAGAAAACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 5 0.13
17 11 0.29
18 20 0.53
19 2 0.05
ACGTcount: A:0.70, C:0.08, G:0.20, T:0.02
Consensus pattern (17 bp):
AAAGAAAAAAGAAGCAA
Found at i:46821163 original size:41 final size:39
Alignment explanation
Indices: 46821106--46821241 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 39
46821096 TGACTTCGAG
46821106 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATATAT
1 TCGATGAGACACTGGGTGTCAA-TTATTACTTCGGAT-TAT
* * *
46821147 TCGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTA-
1 TCGATGAGACACTGGGTGTCAATTATTACTTCGGATTAT
* * *
46821183 GCTGATGAGACACTAGGTGTCAAATTATTACTTCGAATTAT
1 TC-GATGAGACACTGGGTGTC-AATTATTACTTCGGATTAT
*
46821224 TCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
46821242 CCAAACTGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
36 1 0.01
37 17 0.22
38 12 0.15
39 2 0.03
40 25 0.32
41 21 0.27
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTATTACTTCGGATTAT
Found at i:46828052 original size:6 final size:6
Alignment explanation
Indices: 46828041--46828065 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46828031 TGTATGTAAT
46828041 ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA A
46828066 ATGGTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:46828156 original size:29 final size:30
Alignment explanation
Indices: 46828113--46828171 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
46828103 TAATTAGATC
46828113 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
*
46828143 AAATCAAAA-TTCATGTATACAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
46828172 TTAAACCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:46828190 original size:31 final size:29
Alignment explanation
Indices: 46828117--46828192 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 29
46828107 TAGATCAAAT
*
46828117 CAAAATTTCATGTATAAAATTACACAAAAT
1 CAAAA-TTCATGTATAAAATTACACAAAAC
*
46828147 CAAAATTCATGTATACAATTACACATTAAAC
1 CAAAATTCATGTATAAAATTACACA--AAAC
* *
46828178 CATAGTTCATGTATA
1 CAAAATTCATGTATA
46828193 GTTTTTGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 19 0.47
30 5 0.12
31 16 0.40
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (29 bp):
CAAAATTCATGTATAAAATTACACAAAAC
Found at i:46829432 original size:10 final size:10
Alignment explanation
Indices: 46829417--46829450 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
46829407 AAAATTATAG
46829417 AATTATTTAA
1 AATTATTTAA
46829427 AATTATTTAAA
1 AATTATTT-AA
46829438 AATTATTTAA
1 AATTATTTAA
46829448 AAT
1 AAT
46829451 AAGGTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTATTTAA
Found at i:46829441 original size:11 final size:11
Alignment explanation
Indices: 46829417--46829449 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
46829407 AAAATTATAG
46829417 AATTATTT-AA
1 AATTATTTAAA
46829427 AATTATTTAAA
1 AATTATTTAAA
46829438 AATTATTTAAA
1 AATTATTTAAA
46829449 A
1 A
46829450 TAAGGTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AATTATTTAAA
Found at i:46844138 original size:14 final size:14
Alignment explanation
Indices: 46844115--46844154 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
46844105 TGAGTTTGTA
46844115 AATA-TTATTAGTT
1 AATATTTATTAGTT
46844128 AATATTTATTAGTT
1 AATATTTATTAGTT
46844142 AATTATATTATTA
1 AA-TAT-TTATTA
46844155 TATTTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.17
14 11 0.46
15 3 0.12
16 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (14 bp):
AATATTTATTAGTT
Found at i:46849246 original size:306 final size:307
Alignment explanation
Indices: 46848693--46849306 Score: 1221
Period size: 306 Copynumber: 2.0 Consensus size: 307
46848683 GTGACATAAA
46848693 TGGCAGGCATTATCAAGTATAAGAGATGGAGAGCATGAGCATCAAAAATGGTTCGATTCCGCAGT
1 TGGCAGGCATTATCAAGTATAAGAGATGGAGAGCATGAGCATCAAAAATGGTTCGATTCCGCAGT
46848758 AGAAACAAACATTTCTGAAGTAATTAATGTAATATTATATGGTTTGGTTTCTGTCATTACCTTCA
66 AGAAACAAACATTTCTGAAGTAATTAATGTAATATTATATGGTTTGGTTTCTGTCATTACCTTCA
46848823 ACCAAACAAAACCTGCATTATTCTCCTTCTCATGTTTATATATCCAACACTCATTTTCCGCCACC
131 ACCAAACAAAACCTGCATTATTCTCCTTCTCATGTTTATATATCCAACACTCATTTTCCGCCACC
46848888 TGACCCAAGAAAGTATAAAAAAAATAGTTGAGGAAATTGCTATAATAATATAAGTAACGGGTGAC
196 TGACCCAAGAAAGTATAAAAAAAATAGTTGAGGAAATTGCTATAATAATATAAGTAACGGGTGAC
46848953 AGCCCTGAATGAAATTTTAATTTTTTATAGTCTATA-TTTTATAATT
261 AGCCCTGAATGAAATTTTAATTTTTTATAGTCTATATTTTTATAATT
46848999 TGGCAGGCATTATCAAGTATAAGAGATGGAGAGCATGAGCATCAAAAATGGTTCGATTCCGCAGT
1 TGGCAGGCATTATCAAGTATAAGAGATGGAGAGCATGAGCATCAAAAATGGTTCGATTCCGCAGT
46849064 AGAAACAAACATTTCTGAAGTAATTAATGTAATATTATATGGTTTGGTTTCTGTCATTACCTTCA
66 AGAAACAAACATTTCTGAAGTAATTAATGTAATATTATATGGTTTGGTTTCTGTCATTACCTTCA
46849129 ACCAAACAAAACCTGCATTATTCTCCTTCTCATGTTTATATATCCAACACTCATTTTCCGCCACC
131 ACCAAACAAAACCTGCATTATTCTCCTTCTCATGTTTATATATCCAACACTCATTTTCCGCCACC
46849194 TGACCCAAGAAAGTATAAAAAAAATAGTTGAGGAAATTGCTATAATAATATAAGTAACGGGTGAC
196 TGACCCAAGAAAGTATAAAAAAAATAGTTGAGGAAATTGCTATAATAATATAAGTAACGGGTGAC
46849259 AGCCCTGAATGAAATTTTAATTTTTTATAGTCTATATTTTTATAATT
261 AGCCCTGAATGAAATTTTAATTTTTTATAGTCTATATTTTTATAATT
46849306 T
1 T
46849307 TTTAAAAATT
Statistics
Matches: 307, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
306 296 0.96
307 11 0.04
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (307 bp):
TGGCAGGCATTATCAAGTATAAGAGATGGAGAGCATGAGCATCAAAAATGGTTCGATTCCGCAGT
AGAAACAAACATTTCTGAAGTAATTAATGTAATATTATATGGTTTGGTTTCTGTCATTACCTTCA
ACCAAACAAAACCTGCATTATTCTCCTTCTCATGTTTATATATCCAACACTCATTTTCCGCCACC
TGACCCAAGAAAGTATAAAAAAAATAGTTGAGGAAATTGCTATAATAATATAAGTAACGGGTGAC
AGCCCTGAATGAAATTTTAATTTTTTATAGTCTATATTTTTATAATT
Found at i:46850507 original size:21 final size:22
Alignment explanation
Indices: 46850481--46850538 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
46850471 AAGCATATAT
46850481 ATATAAATATAAAATAATCA-A
1 ATATAAATATAAAATAATCATA
* *
46850502 ATATAAATAT-TAATAATTATA
1 ATATAAATATAAAATAATCATA
*
46850523 TTATAAATA-AAAATAA
1 ATATAAATATAAAATAA
46850539 ACATCCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 7 0.23
21 24 0.77
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
ATATAAATATAAAATAATCATA
Found at i:46851402 original size:20 final size:21
Alignment explanation
Indices: 46851358--46851410 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 21
46851348 AAAGACATGG
46851358 ATTATGTTTTACTTGAGATTT
1 ATTATGTTTTACTTGAGATTT
*
46851379 -TTATTTTTTACCTT-AG-TTT
1 ATTATGTTTTA-CTTGAGATTT
*
46851398 ATTAT-ATTTACTT
1 ATTATGTTTTACTT
46851411 TAAAGAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 3 0.11
19 7 0.25
20 15 0.54
21 3 0.11
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (21 bp):
ATTATGTTTTACTTGAGATTT
Found at i:46858188 original size:2 final size:2
Alignment explanation
Indices: 46858173--46858211 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
46858163 AAAAATGTAG
*
46858173 TA TA TA AA TA -A TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46858212 GATTTCAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:46859338 original size:21 final size:22
Alignment explanation
Indices: 46859302--46859353 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
46859292 AAATTAAATG
* *
46859302 AAAATAAAAATCTTAAA-ATTC
1 AAAATAAAAATATTAAATATTA
*
46859323 AAAATAAAATTATTAAATTATTA
1 AAAATAAAAATATTAAA-TATTA
46859346 AAAATAAA
1 AAAATAAA
46859354 TATTCATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 15 0.58
23 11 0.42
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAAAAATATTAAATATTA
Found at i:46863244 original size:30 final size:31
Alignment explanation
Indices: 46863192--46863700 Score: 150
Period size: 30 Copynumber: 15.3 Consensus size: 31
46863182 ATATTTTATG
* *
46863192 TATCATTATATTAAATTATTTAAATATGATT
1 TATCATTATATTAAAATATTTAAATATCATT
46863223 TATCATTATA-TAAAATATTTAAATATCATT
1 TATCATTATATTAAAATATTTAAATATCATT
* * *
46863253 TCTTATTGTATTTAAAAT-TTTAGATTAATTTAT-ATTT
1 TATCATTATA-TTAAAATATTT--A--AA--TATCA-TT
* * * *
46863290 TATGTATCATTATATTAAATTATTTAAATATGATT
1 TAT-CATTA-TAT-TAAAAT-ATTTAAATATCATT
46863325 TATCATTATA-TAAAATATTTAAATATCATT
1 TATCATTATATTAAAATATTTAAATATCATT
* * *
46863355 TCTTATTGTATTTAAAAT-TTTAGATTAATTTAT-ATTT
1 TATCATTATA-TTAAAATATTT--A--AA--TATCA-TT
* * * *
46863392 TATGTATCATTATATTAAATTATTTAAATATGATT
1 TAT-CATTA-TAT-TAAAAT-ATTTAAATATCATT
46863427 TATCATTATA-TAAAATATTTAAATATCATT
1 TATCATTATATTAAAATATTTAAATATCATT
* * *
46863457 TCTTATTGTATTTAAAAT-TTTAGATTAATTTAT-ATTT
1 TATCATTATA-TTAAAATATTT--A--AA--TATCA-TT
* * * *
46863494 TATGTATCATTATATTAAATTATTTAAATATGATT
1 TAT-CATTA-TAT-TAAAAT-ATTTAAATATCATT
46863529 TATCATTATA-TAAAATATTTAAATATCATT
1 TATCATTATATTAAAATATTTAAATATCATT
* * *
46863559 TCTTATTGTATTTAAAAT-TTTAGATTAATTTAT-ATTT
1 TATCATTATA-TTAAAATATTT--A--AA--TATCA-TT
* * * *
46863596 TATGTATCATTATATTAAATTATTTAAATATGATT
1 TAT-CATTA-TAT-TAAAAT-ATTTAAATATCATT
46863631 TATCATTATA-TAAAATATTTAAATATCATT
1 TATCATTATATTAAAATATTTAAATATCATT
* * *
46863661 TCTTATTGTATTTAAAAT-TTTAAA-AT-ATT
1 TATCATTATA-TTAAAATATTTAAATATCATT
46863690 TCATCTATTAT
1 T-ATC-ATTAT
46863701 TAAATTTACA
Statistics
Matches: 362, Mismatches: 52, Indels: 128
0.67 0.10 0.24
Matches are distributed among these distances:
29 4 0.01
30 108 0.30
31 52 0.14
32 30 0.08
33 12 0.03
34 12 0.03
35 40 0.11
36 8 0.02
37 36 0.10
38 16 0.04
39 32 0.09
41 12 0.03
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (31 bp):
TATCATTATATTAAAATATTTAAATATCATT
Found at i:46863296 original size:102 final size:102
Alignment explanation
Indices: 46863157--46863682 Score: 1052
Period size: 102 Copynumber: 5.2 Consensus size: 102
46863147 CCATTTAAAA
46863157 TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
1 TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
46863222 TTATCATTATATAAAATATTTAAATATCATTTCTTAT
66 TTATCATTATATAAAATATTTAAATATCATTTCTTAT
46863259 TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
1 TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
46863324 TTATCATTATATAAAATATTTAAATATCATTTCTTAT
66 TTATCATTATATAAAATATTTAAATATCATTTCTTAT
46863361 TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
1 TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
46863426 TTATCATTATATAAAATATTTAAATATCATTTCTTAT
66 TTATCATTATATAAAATATTTAAATATCATTTCTTAT
46863463 TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
1 TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
46863528 TTATCATTATATAAAATATTTAAATATCATTTCTTAT
66 TTATCATTATATAAAATATTTAAATATCATTTCTTAT
46863565 TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
1 TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
46863630 TTATCATTATATAAAATATTTAAATATCATTTCTTAT
66 TTATCATTATATAAAATATTTAAATATCATTTCTTAT
46863667 TGTATTTAAAATTTTA
1 TGTATTTAAAATTTTA
46863683 AAATATTTCA
Statistics
Matches: 424, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 424 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (102 bp):
TGTATTTAAAATTTTAGATTAATTTATATTTTATGTATCATTATATTAAATTATTTAAATATGAT
TTATCATTATATAAAATATTTAAATATCATTTCTTAT
Found at i:46869768 original size:21 final size:21
Alignment explanation
Indices: 46869744--46869787 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
46869734 TATTGGTTTA
* *
46869744 TTGCGGATCAAGTCAAGTTAC
1 TTGCGGAACAAGTCAAGTCAC
46869765 TTGCGGAACAAGTCAAGTCAC
1 TTGCGGAACAAGTCAAGTCAC
46869786 TT
1 TT
46869788 TCTATAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (21 bp):
TTGCGGAACAAGTCAAGTCAC
Found at i:46876930 original size:24 final size:24
Alignment explanation
Indices: 46876898--46876946 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
46876888 GTCTTTTACC
*
46876898 ACCCTTAAAGGGCTTTCATATACT
1 ACCCGTAAAGGGCTTTCATATACT
*
46876922 ACCCGTAAAGGTCTTTCATATACT
1 ACCCGTAAAGGGCTTTCATATACT
46876946 A
1 A
46876947 GTGTGCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (24 bp):
ACCCGTAAAGGGCTTTCATATACT
Found at i:46889452 original size:22 final size:22
Alignment explanation
Indices: 46889405--46889454 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
46889395 ATCTATATAT
* **
46889405 ATATGTATATTTTTTTATGTAC
1 ATATTTATATTTTTTTAACTAC
46889427 ATATTTATATTTTTTTCAACTA-
1 ATATTTATATTTTTTT-AACTAC
46889449 ATATTT
1 ATATTT
46889455 TTCTCATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (22 bp):
ATATTTATATTTTTTTAACTAC
Found at i:46894446 original size:20 final size:19
Alignment explanation
Indices: 46894423--46894467 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
46894413 AAAATATTTC
46894423 AAAATATAAAAAAAAGAAAG
1 AAAATAT-AAAAAAAGAAAG
*
46894443 AAAAAATAAAAAAAGAAAG
1 AAAATATAAAAAAAGAAAG
46894462 AAAATA
1 AAAATA
46894468 GAGAGGCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAATATAAAAAAAGAAAG
Found at i:46895711 original size:44 final size:44
Alignment explanation
Indices: 46895663--46895885 Score: 159
Period size: 44 Copynumber: 5.1 Consensus size: 44
46895653 GATAACAGAT
46895663 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
* ** * ** * * * *
46895707 CTTGCCTCCCTG-AGTTG-CAGC-AGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCA-CCGACAGCGA-AGCAGATCGAAGACACCAG-C
46895751 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
* * *** * * ** * * * *
46895795 CTTACCTCCCTAG-GTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCT-GCACCGACAGCGAAGCAGATCGAAGACACCAG-C
46895839 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
46895883 CTT
1 CTT
46895886 ACCTCATTGG
Statistics
Matches: 123, Mismatches: 46, Indels: 20
0.65 0.24 0.11
Matches are distributed among these distances:
42 1 0.01
43 37 0.30
44 47 0.38
45 37 0.30
46 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.18
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
Found at i:46895812 original size:88 final size:88
Alignment explanation
Indices: 46895658--46896125 Score: 620
Period size: 88 Copynumber: 5.3 Consensus size: 88
46895648 GTGAAGATAA
46895658 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCT-GAGT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAG-GT
*
46895722 TGCAGCAGAGCAGGTTAAAAATAG
65 TGCAGCGGAGCAGGTTAAAAATAG
*
46895746 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
46895811 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* ** *
46895834 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTCATTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
* *
46895899 ACGGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * ** *
46895922 TAGATTTTGCCTTTTTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
* * *
46895987 GCAGCGGAACAGATTGAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * * *
46896010 CAGATATTGCCTTCCTGTACTGACAACGAAGTAGATCGAA-ATCACAAAGCCTTGCCTCCTTAGG
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGA-CAC-CAGCCTTGCCTCCCTAGG
* * *
46896074 TTGCAGTGGAGCAGGTTGAAAA-CG
64 TTGCAGCGGAGCAGGTTAAAAATAG
* *
46896098 CCAG-TCTTGCCTTCCTGTACTGACAGCG
1 -CAGATCTTGCCTTCCTGCACCGACAGCG
46896126 GGGCAGACTT
Statistics
Matches: 340, Mismatches: 36, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
87 1 0.00
88 301 0.89
89 38 0.11
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:46896286 original size:43 final size:43
Alignment explanation
Indices: 46896235--46896485 Score: 191
Period size: 43 Copynumber: 5.8 Consensus size: 43
46896225 AATTACAGAT
* * *
46896235 CTTATCTCCCTAAGCTGTAGTGGAGCAGATCGAAGTCCCCAGC
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGC
* * * * ** *
46896278 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTG-AAGTCCCCAG-C
* * *
46896322 CTTATCTCCCTAAGTAGGAGTGGAACAGATTGAAGTCCCCAGC
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGC
* * * * * * ** *
46896365 CTTATCTCACTGAGCAGCAGTAGAGTAGGTTGAAAAT-TACAGGT
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTG-AAGTCCCCA-GC
* * * *
46896409 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGA
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGC
* * *
46896452 CTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAA
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAA
46896486 AATTACAGAT
Statistics
Matches: 153, Mismatches: 49, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
43 90 0.59
44 63 0.41
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGC
Found at i:46896289 original size:87 final size:88
Alignment explanation
Indices: 46896187--46896530 Score: 518
Period size: 87 Copynumber: 4.0 Consensus size: 88
46896177 ATCAAAGAGA
* * *
46896187 CCAGCC-TATCTCCCTGAGTAGCAGTTGAGTAGGTTGGAAATTACAGATCTTATCTCCCTAAGCT
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCT
46896251 -GTAGTGGAGCAGATCGAAGTCC
66 AGTAGTGGAGCAGATCGAAGTCC
46896273 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAG-T
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCT
* * *
46896337 AGGAGTGGAACAGATTGAAGTCC
66 AGTAGTGGAGCAGATCGAAGTCC
* * *
46896360 CCAGCCTTATCTCACTGAGCAGCAGTAGAGTAGGTTGAAAATTACAGGTCTTATCTCCCTAAGC-
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCT
*
46896424 AGTAGTGGAGCAGATCGAAGACC
66 AGTAGTGGAGCAGATCGAAGTCC
* * * * *
46896447 CCAGACTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTACCTCCCTAA-AT
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCT
46896511 AGTAGTGGAGCAGATCGAAG
66 AGTAGTGGAGCAGATCGAAG
46896531 ATAGCAAATC
Statistics
Matches: 233, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
86 7 0.03
87 226 0.97
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (88 bp):
CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCT
AGTAGTGGAGCAGATCGAAGTCC
Found at i:46896520 original size:44 final size:44
Alignment explanation
Indices: 46896193--46896508 Score: 246
Period size: 44 Copynumber: 7.2 Consensus size: 44
46896183 GAGACCAGCC
* * * *
46896193 TATCTCCCTGAGTAGCAGTTGAGTAGGTTGGAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* * * * * * ** *
46896237 TATCTCCCTAAGCTGTAGTGGAGCAGATCG-AAGTCCCCAG-CCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGATCT
*
46896280 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* * ** * * ** *
46896324 TATCTCCCTAAGTAGGAGTGGAACAGATTG-AAGTCCCCAG-CCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGATCT
* * * *
46896367 TATCTCACTGAGCAGCAGTAGAGTAGGTTGAAAATTACAGGTCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* * * * * ***
46896411 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGA-CT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
*
46896454 TGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
*
46896498 TACCTCCCTAA
1 TATCTCCCTAA
46896509 ATAGTAGTGG
Statistics
Matches: 198, Mismatches: 67, Indels: 14
0.71 0.24 0.05
Matches are distributed among these distances:
43 96 0.48
44 102 0.52
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
Found at i:46897932 original size:43 final size:43
Alignment explanation
Indices: 46897881--46898131 Score: 191
Period size: 43 Copynumber: 5.8 Consensus size: 43
46897871 AATTACAGAT
* * *
46897881 CTTATCTCCCTAAGCAGTAGTGGAGGAGATCGAAGTCCCCAGC
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGC
* * * * ** *
46897924 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTG-AAGTCCCCAG-C
* *
46897968 CTTATCTCCCTAAGCAGGAGTGGAACAGATTGAAGTCCCCAGC
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGC
** * * * * * ** *
46898011 CTTATCTCATTGAGCAGCAGTAGAGTAGGTTGAAAAT-TACAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTG-AAGTCCCCAG-C
* * *
46898055 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCAGA
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGC
* * * *
46898098 CTTGTCTCCCTAAGTAGCAGTGGAGTAGGTTGAA
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAA
46898132 AATTACAGAT
Statistics
Matches: 155, Mismatches: 47, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
43 91 0.59
44 64 0.41
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGCAGTGGAGCAGATTGAAGTCCCCAGC
Found at i:46897943 original size:87 final size:87
Alignment explanation
Indices: 46897833--46898176 Score: 510
Period size: 87 Copynumber: 4.0 Consensus size: 87
46897823 GTCAAAGAGA
* * *
46897833 CCAGCC-TATCTCCCTGAGTAGCAGTTGAGTAGGTTGGAAATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
*
46897897 GTAGTGGAGGAGATCGAAGTCC
66 GTAGTGGAGCAGATCGAAGTCC
46897919 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
* * *
46897984 GGAGTGGAACAGATTGAAGTCC
66 GTAGTGGAGCAGATCGAAGTCC
** *
46898006 CCAGCCTTATCTCATTGAGCAGCAGTAGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
* *
46898071 GTAGTGGAGCAGATTGAAGACC
66 GTAGTGGAGCAGATCGAAGTCC
* * * * * **
46898093 CCAGACTTGTCTCCCTAAGTAGCAGTGGAGTAGGTTGAAAATTACAGATCTTACCTCCCTAAATA
1 CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
46898158 GTAGTGGAGCAGATCGAAG
66 GTAGTGGAGCAGATCGAAG
46898177 ATAGCAAATC
Statistics
Matches: 233, Mismatches: 24, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
86 6 0.03
87 227 0.97
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
CCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGTCC
Found at i:46897984 original size:44 final size:44
Alignment explanation
Indices: 46897839--46898154 Score: 264
Period size: 44 Copynumber: 7.2 Consensus size: 44
46897829 GAGACCAGCC
* * * *
46897839 TATCTCCCTGAGTAGCAGTTGAGTAGGTTGGAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* * * * * ** *
46897883 TATCTCCCTAAGCAGTAGTGGAGGAGATCG-AAGTCCCCAG-CCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGATCT
*
46897926 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* ** * * ** *
46897970 TATCTCCCTAAGCAGGAGTGGAACAGATTG-AAGTCCCCAG-CCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAAT-TACAGATCT
** * *
46898013 TATCTCATTGAGCAGCAGTAGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* * * * ***
46898057 TATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCCCAGA-CT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
* *
46898100 TGTCTCCCTAAGTAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
*
46898144 TACCTCCCTAA
1 TATCTCCCTAA
46898155 ATAGTAGTGG
Statistics
Matches: 202, Mismatches: 63, Indels: 14
0.72 0.23 0.05
Matches are distributed among these distances:
43 97 0.48
44 105 0.52
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
Found at i:46905794 original size:35 final size:37
Alignment explanation
Indices: 46905748--46905820 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 37
46905738 TTCATGGTGT
46905748 TCTAAG-A-AACAAGTGGTATCTCGGTCGACAGCAGA
1 TCTAAGAACAACAAGTGGTATCTCGGTCGACAGCAGA
46905783 TCTAAGAAACAACAAGTGGTATCTCGGTCGACAGCAGA
1 TCTAAG-AACAACAAGTGGTATCTCGGTCGACAGCAGA
46905821 GGCTGAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 6 0.17
37 1 0.03
38 28 0.80
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (37 bp):
TCTAAGAACAACAAGTGGTATCTCGGTCGACAGCAGA
Found at i:46908540 original size:2 final size:2
Alignment explanation
Indices: 46908533--46908561 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46908523 GTAAACAAAT
46908533 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
46908562 GATACTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:46909623 original size:19 final size:19
Alignment explanation
Indices: 46909599--46909640 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
46909589 TTATATCTTT
46909599 ATAATTTTTAAAGGATTAA
1 ATAATTTTTAAAGGATTAA
46909618 ATAATTTTTAAAGGATTAA
1 ATAATTTTTAAAGGATTAA
46909637 ATAA
1 ATAA
46909641 AATTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (19 bp):
ATAATTTTTAAAGGATTAA
Found at i:46909874 original size:68 final size:68
Alignment explanation
Indices: 46909765--46909899 Score: 261
Period size: 68 Copynumber: 2.0 Consensus size: 68
46909755 CACTGCCAGC
*
46909765 TGCCAGATATGCCACTACCTGTGTGTTGAGCTTATAAGTTATATAATATTTTCCGATGCTGAAAT
1 TGCCAGATACGCCACTACCTGTGTGTTGAGCTTATAAGTTATATAATATTTTCCGATGCTGAAAT
46909830 TAT
66 TAT
46909833 TGCCAGATACGCCACTACCTGTGTGTTGAGCTTATAAGTTATATAATATTTTCCGATGCTGAAAT
1 TGCCAGATACGCCACTACCTGTGTGTTGAGCTTATAAGTTATATAATATTTTCCGATGCTGAAAT
46909898 TA
66 TA
46909900 ATAGAGTTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (68 bp):
TGCCAGATACGCCACTACCTGTGTGTTGAGCTTATAAGTTATATAATATTTTCCGATGCTGAAAT
TAT
Found at i:46924792 original size:19 final size:17
Alignment explanation
Indices: 46924758--46924792 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
46924748 AAAAAATAGT
46924758 AACAAAATTAACAATAA
1 AACAAAATTAACAATAA
46924775 AACAAGAATTATACAATA
1 AACAA-AATTA-ACAATA
46924793 TCCAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (17 bp):
AACAAAATTAACAATAA
Found at i:46939879 original size:2 final size:2
Alignment explanation
Indices: 46939872--46939903 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
46939862 GCTTTCACTA
46939872 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
46939904 GATGTTTGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:46960249 original size:136 final size:137
Alignment explanation
Indices: 46960084--46960360 Score: 547
Period size: 136 Copynumber: 2.0 Consensus size: 137
46960074 CTCGAGCAAC
46960084 TTATGATTATCAATGTCTCATTTATTGATATAATTTAAATTTATTAATATTTTATAATTTTATTG
1 TTATGATTATCAATGTCTCATTTATTGATATAATTTAAATTTATTAATATTTTATAATTTTATTG
46960149 AATTGCAATAATTATTTAGTATAAAATGGAAATACACAATAAAGTGGAGAAGTTTAGGTTGTTTA
66 AATTGCAATAATTATTTAGTATAAAATGGAAATACACAATAAAGTGGAGAAGTTTAGGTTGTTTA
46960214 AAAAATT
131 AAAAATT
46960221 TTATGATTATCAA-GTCTCATTTATTGATATAATTTAAATTTATTAATATTTTATAATTTTATTG
1 TTATGATTATCAATGTCTCATTTATTGATATAATTTAAATTTATTAATATTTTATAATTTTATTG
46960285 AATTGCAATAATTATTTAGTATAAAATGGAAATACACAATAAAGTGGAGAAGTTTAGGTTGTTTA
66 AATTGCAATAATTATTTAGTATAAAATGGAAATACACAATAAAGTGGAGAAGTTTAGGTTGTTTA
46960350 AAAAATT
131 AAAAATT
46960357 TTAT
1 TTAT
46960361 AAATTTTATA
Statistics
Matches: 140, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
136 127 0.91
137 13 0.09
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (137 bp):
TTATGATTATCAATGTCTCATTTATTGATATAATTTAAATTTATTAATATTTTATAATTTTATTG
AATTGCAATAATTATTTAGTATAAAATGGAAATACACAATAAAGTGGAGAAGTTTAGGTTGTTTA
AAAAATT
Found at i:46972518 original size:19 final size:19
Alignment explanation
Indices: 46972494--46972587 Score: 125
Period size: 19 Copynumber: 4.8 Consensus size: 19
46972484 AATTTTTGAG
*
46972494 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
**
46972513 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
46972532 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
46972553 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
46972572 GATATGCAATATTAGA
1 GATATGCAATCTTAGA
46972588 ATATATGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
19 48 0.74
21 17 0.26
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46972540 original size:21 final size:21
Alignment explanation
Indices: 46972507--46972557 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
46972497 ATGCAATATT
46972507 AGATATG--ATATGCAATCCA
1 AGATATGATATATGCAATCCA
**
46972526 AGATATGATATATGCAATCTT
1 AGATATGATATATGCAATCCA
46972547 AGATATGATAT
1 AGATATGATAT
46972558 GTAATCTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 7 0.25
21 21 0.75
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (21 bp):
AGATATGATATATGCAATCCA
Found at i:46972549 original size:40 final size:40
Alignment explanation
Indices: 46972495--46972594 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
46972485 ATTTTTGAGG
46972495 ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
* * **
46972535 ATATGCAATCTTAGATATGATATGTAATCTTAGATATG--
1 ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
46972573 ATATGCAATATTAGA-AT-ATATG
1 ATATGCAATATTAGATATGATATG
46972595 ATTTAGTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 5 0.09
37 2 0.04
38 14 0.25
40 34 0.62
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (40 bp):
ATATGCAATATTAGATATGATATGCAATCCAAGATATGAT
Found at i:47010198 original size:115 final size:115
Alignment explanation
Indices: 47010009--47010414 Score: 428
Period size: 115 Copynumber: 3.5 Consensus size: 115
47009999 ATATTTGAAC
* * *
47010009 CAAAACGCATCGTTTTGGTATTGATGTATACTAGAATTAGTGGCGTTTACGGTAAAACGCCGCTA
1 CAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAAACGCCGCTA
* ****
47010074 AAGCATAGTATTAGCGGCGATT-CTTTGCTAGCGCCGCAAAATATCCTAA-
66 AAGAATAGTATTAGCGGCGATTAC-TAAAAAGCGCCGCAAAATATCCTAAT
* * *
47010123 CTAAAACGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTGGCGCTTACGGGAAACCGCCGCT
1 C-AAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAAACGCCGCT
* *
47010188 AAAGAATAGTATTAGCGGCGCTTACTAAAAAGCGCCGCAAAATATCTTAAT
65 AAAGAATAGTATTAGCGGCGATTACTAAAAAGCGCCGCAAAATATCCTAAT
* ** ** * *
47010239 CAAAACGCATAGTTTTAATCTTGATGTATACTAGAATTAGTGGCGCTTACTAGAAAACGCAGTTA
1 CAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAAACGCCGCTA
** * ** * *
47010304 AATCATAGTATTAGCGAC-ACTTAGC-AAAAAGCATCGCAACATATCTTAA-
66 AAGAATAGTATTAGCGGCGA-TTA-CTAAAAAGCGCCGCAAAATATCCTAAT
** * ** **
47010353 CAAAACGCAGAG-TTTGGTCTTGAGGTATGTTAGAATTAGTGGCGCTTATAGGAAAACGCCGC
1 CAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAAACGCCGC
47010415 AAATTATCTG
Statistics
Matches: 246, Mismatches: 41, Indels: 11
0.83 0.14 0.04
Matches are distributed among these distances:
113 40 0.16
114 12 0.05
115 191 0.78
116 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (115 bp):
CAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAAACGCCGCTA
AAGAATAGTATTAGCGGCGATTACTAAAAAGCGCCGCAAAATATCCTAAT
Found at i:47011902 original size:16 final size:16
Alignment explanation
Indices: 47011861--47011902 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
47011851 CCCCCAACTT
* *
47011861 CCCCGATTTCATTTCC
1 CCCCAATTTCCTTTCC
*
47011877 CCCCAA-TTCCTTTTC
1 CCCCAATTTCCTTTCC
47011892 CCCCAATTTCC
1 CCCCAATTTCC
47011903 CCGATTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.14, C:0.48, G:0.02, T:0.36
Consensus pattern (16 bp):
CCCCAATTTCCTTTCC
Found at i:47012876 original size:22 final size:21
Alignment explanation
Indices: 47012855--47012906 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
47012845 ATTCGGTTTG
47012855 TGGTTTGTAAACTA-TGAA-TT
1 TGGTTTGTAAACTACT-AATTT
* *
47012875 TGGTTTCTAAACTACTCATTT
1 TGGTTTGTAAACTACTAATTT
47012896 ATGGTTTGTAA
1 -TGGTTTGTAA
47012907 TCTGATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 14 0.54
21 3 0.12
22 9 0.35
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (21 bp):
TGGTTTGTAAACTACTAATTT
Found at i:47013422 original size:15 final size:15
Alignment explanation
Indices: 47013398--47013430 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47013388 AAGGTTTCTA
*
47013398 TATTAGTATTAAATT
1 TATTACTATTAAATT
47013413 TATTACTATTAAATT
1 TATTACTATTAAATT
47013428 TAT
1 TAT
47013431 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:47013599 original size:15 final size:15
Alignment explanation
Indices: 47013575--47013607 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47013565 AAGGTTTCTA
*
47013575 TATTAGTATTAAATT
1 TATTACTATTAAATT
47013590 TATTACTATTAAATT
1 TATTACTATTAAATT
47013605 TAT
1 TAT
47013608 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:47013612 original size:177 final size:177
Alignment explanation
Indices: 47013316--47014277 Score: 1915
Period size: 177 Copynumber: 5.4 Consensus size: 177
47013306 AAACTTATTA
47013316 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
1 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
*
47013381 AATTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
66 AACTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
47013446 TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
131 TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
47013493 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
1 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
47013558 AACTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
66 AACTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
47013623 TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
131 TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
47013670 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
1 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
47013735 AACTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
66 AACTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
47013800 TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
131 TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
47013847 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
1 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
47013912 AACTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
66 AACTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
47013977 TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
131 TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
47014024 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
1 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
47014089 AACTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
66 AACTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
47014154 TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
131 TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
47014201 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
1 CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
47014266 AACTTATAAGGT
66 AACTTATAAGGT
47014278 AAATATCTTG
Statistics
Matches: 784, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 784 1.00
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (177 bp):
CTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTA
AACTTATAAGGTTTCTATATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATA
TTGTTTTAATATCTATATTAGTATTATAAATATTGTTTTAATATAAC
Found at i:47013776 original size:15 final size:15
Alignment explanation
Indices: 47013752--47013784 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47013742 AAGGTTTCTA
*
47013752 TATTAGTATTAAATT
1 TATTACTATTAAATT
47013767 TATTACTATTAAATT
1 TATTACTATTAAATT
47013782 TAT
1 TAT
47013785 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:47013953 original size:15 final size:15
Alignment explanation
Indices: 47013929--47013961 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47013919 AAGGTTTCTA
*
47013929 TATTAGTATTAAATT
1 TATTACTATTAAATT
47013944 TATTACTATTAAATT
1 TATTACTATTAAATT
47013959 TAT
1 TAT
47013962 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:47014130 original size:15 final size:15
Alignment explanation
Indices: 47014106--47014138 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47014096 AAGGTTTCTA
*
47014106 TATTAGTATTAAATT
1 TATTACTATTAAATT
47014121 TATTACTATTAAATT
1 TATTACTATTAAATT
47014136 TAT
1 TAT
47014139 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:47021592 original size:15 final size:15
Alignment explanation
Indices: 47021574--47021605 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47021564 CTCTTCTCCT
47021574 CCGCCACCGCCGTCA
1 CCGCCACCGCCGTCA
*
47021589 CCGCCACCGTCGTCA
1 CCGCCACCGCCGTCA
47021604 CC
1 CC
47021606 ATCTCCATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.59, G:0.19, T:0.09
Consensus pattern (15 bp):
CCGCCACCGCCGTCA
Found at i:47027563 original size:18 final size:18
Alignment explanation
Indices: 47027540--47027575 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
47027530 TCAACCAATA
47027540 ATTT-AAAAATTATAAAAT
1 ATTTAAAAAATTA-AAAAT
47027558 ATTTAAAAAATTAAAAAT
1 ATTTAAAAAATTAAAAAT
47027576 TAAAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTAAAAAATTAAAAAT
Done.