Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 247 of 295
Found at i:84969050 original size:16 final size:18
Alignment explanation
Indices: 84969019--84969051 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
84969009 AACTCGTCAC
84969019 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
84969037 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
84969052 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:84970090 original size:18 final size:18
Alignment explanation
Indices: 84970060--84970096 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
84970050 AGCAGTTTAA
84970060 AATTAGAAATTAAAACCC
1 AATTAGAAATTAAAACCC
84970078 AATTA-AAACTTAAAACCC
1 AATTAGAAA-TTAAAACCC
84970096 A
1 A
84970097 CAAACGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.57, C:0.19, G:0.03, T:0.22
Consensus pattern (18 bp):
AATTAGAAATTAAAACCC
Found at i:84970375 original size:33 final size:34
Alignment explanation
Indices: 84970310--84970380 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
84970300 ATCGTGCATG
* * *
84970310 CAGTAACAGTCTGGGCCTGAGATCTATTTAGTAT
1 CAGTAACAGTCTGGGCCTGAGACCTATATAGTAA
* *
84970344 CAGTAA-AGTCTGGGCCTTAGCCCTATATAGTAA
1 CAGTAACAGTCTGGGCCTGAGACCTATATAGTAA
84970377 CAGT
1 CAGT
84970381 GTGGGTCTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCTGAGACCTATATAGTAA
Found at i:84970402 original size:28 final size:27
Alignment explanation
Indices: 84970345--84970402 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
84970335 ATTTAGTATC
* *
84970345 AGTAAAGTCTGGGCCTTAGCCCTATAT
1 AGTAAAGTCTGGGCCTAAGCCCAATAT
* * *
84970372 AGTAACAGTGTGGGTCTAAGCCCAATTT
1 AGTAA-AGTCTGGGCCTAAGCCCAATAT
84970400 AGT
1 AGT
84970403 GTGAGAATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (27 bp):
AGTAAAGTCTGGGCCTAAGCCCAATAT
Found at i:84970472 original size:21 final size:22
Alignment explanation
Indices: 84970436--84970479 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
84970426 CCCACCCCAC
84970436 CCACCCTAATCCAACCAACACA
1 CCACCCTAATCCAACCAACACA
*
84970458 CCACCCTTA-CCAACCAACACA
1 CCACCCTAATCCAACCAACACA
84970479 C
1 C
84970480 TATGTGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.39, C:0.52, G:0.00, T:0.09
Consensus pattern (22 bp):
CCACCCTAATCCAACCAACACA
Found at i:84970539 original size:20 final size:22
Alignment explanation
Indices: 84970516--84970564 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
84970506 AGCCAACACA
*
84970516 CTAATA-T-CGCAGCGAAGCTG
1 CTAATATTACGCAGCAAAGCTG
84970536 CTAATATTAACGCAGCAAAGCTG
1 CTAATATT-ACGCAGCAAAGCTG
84970559 CTAATA
1 CTAATA
84970565 ACAGTAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 6 0.24
21 1 0.04
23 18 0.72
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (22 bp):
CTAATATTACGCAGCAAAGCTG
Found at i:84972303 original size:13 final size:13
Alignment explanation
Indices: 84972285--84972310 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
84972275 AAAAGAGAAA
84972285 TTCCCCCAAAGTG
1 TTCCCCCAAAGTG
84972298 TTCCCCCAAAGTG
1 TTCCCCCAAAGTG
84972311 CCGACTACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
TTCCCCCAAAGTG
Found at i:84979952 original size:28 final size:28
Alignment explanation
Indices: 84979893--84979981 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 28
84979883 TAGCATGGCT
* * *
84979893 ACCA-AAACAGAT-ATTGTGACAGAGTC
1 ACCAGAAACAGATAATTATGGCAGAGCC
* * *
84979919 ACCAGATACAGATAATTATGGTAGGGCC
1 ACCAGAAACAGATAATTATGGCAGAGCC
* *
84979947 ACCAGAAACAGATATTTGTGGCAGAGCC
1 ACCAGAAACAGATAATTATGGCAGAGCC
84979975 ACCAGAA
1 ACCAGAA
84979982 CGCTTCCTCC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 4 0.08
27 7 0.14
28 39 0.78
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.18
Consensus pattern (28 bp):
ACCAGAAACAGATAATTATGGCAGAGCC
Found at i:84987892 original size:28 final size:28
Alignment explanation
Indices: 84987776--84987892 Score: 121
Period size: 28 Copynumber: 4.2 Consensus size: 28
84987766 TAGCATGGCT
* *
84987776 ACCA-AAACAGATA-TTGTGACAGAGTC
1 ACCAGAAACAGATATTTGTGGCAGAGCC
* * * *
84987802 ACCAGATACAGATAATTGTGGTAGGGCC
1 ACCAGAAACAGATATTTGTGGCAGAGCC
*
84987830 ACCAGGAACAGATATTTGTGGCAGAGCC
1 ACCAGAAACAGATATTTGTGGCAGAGCC
** * *
84987858 ATTAGAAATAGATATTTGTTGCAGAGCC
1 ACCAGAAACAGATATTTGTGGCAGAGCC
84987886 ACCAGAA
1 ACCAGAA
84987893 CGCTTCCTCC
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
26 4 0.06
27 8 0.11
28 60 0.83
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (28 bp):
ACCAGAAACAGATATTTGTGGCAGAGCC
Found at i:84988763 original size:47 final size:47
Alignment explanation
Indices: 84988701--84988790 Score: 180
Period size: 47 Copynumber: 1.9 Consensus size: 47
84988691 ACATCCATAA
84988701 ATGAACTCGGACTCAACTCAAGGAGTTCGGATGCCTAGTTACATCTC
1 ATGAACTCGGACTCAACTCAAGGAGTTCGGATGCCTAGTTACATCTC
84988748 ATGAACTCGGACTCAACTCAAGGAGTTCGGATGCCTAGTTACA
1 ATGAACTCGGACTCAACTCAAGGAGTTCGGATGCCTAGTTACA
84988791 ACTGTGAGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (47 bp):
ATGAACTCGGACTCAACTCAAGGAGTTCGGATGCCTAGTTACATCTC
Found at i:84991609 original size:12 final size:12
Alignment explanation
Indices: 84991592--84991617 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84991582 AAATTGGACT
84991592 AAATTGAGTATG
1 AAATTGAGTATG
84991604 AAATTGAGTATG
1 AAATTGAGTATG
84991616 AA
1 AA
84991618 TTACATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (12 bp):
AAATTGAGTATG
Found at i:84997069 original size:105 final size:103
Alignment explanation
Indices: 84996884--84997071 Score: 227
Period size: 105 Copynumber: 1.8 Consensus size: 103
84996874 ATTGGTCTGG
* * ***
84996884 GTGCTGGGTATCCTGAGTGTGTCGGATACTCTTTAGCTCTTTGAATAGCCCCGTGAATAGCATTT
1 GTGCTAGGTATCCTGAGTGTGTCGGATACTCTTTAGCTCTTTGAATAGCCCCGTGAAGAGCAGGC
* *
84996949 ATGAGCTTATTTGATATGTGATACATGCTAGGGTCCAA
66 ATGAGATTATATGATATGTGATACATGCTAGGGTCCAA
* *
84996987 GTGCTAGGTATTCTGAGTTGTGTTCGGATACTCTTTAGCTCTTTGAGTAGCCCCCGTTG-AGAGC
1 GTGCTAGGTATCCTGAG-TGTG-TCGGATACTCTTTAGCTCTTTGAATAG-CCCCG-TGAAGAGC
* *
84997051 -GGCATGTGATTCTATGATATG
62 AGGCATGAGATTATATGATATG
84997072 AGGCACTTCG
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
103 15 0.21
104 4 0.06
105 40 0.57
106 9 0.13
107 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.36
Consensus pattern (103 bp):
GTGCTAGGTATCCTGAGTGTGTCGGATACTCTTTAGCTCTTTGAATAGCCCCGTGAAGAGCAGGC
ATGAGATTATATGATATGTGATACATGCTAGGGTCCAA
Found at i:84997334 original size:24 final size:24
Alignment explanation
Indices: 84997302--84997355 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
84997292 TGAAAGGTAT
*
84997302 GTATATATGTGTTTATGTGTATAA
1 GTATATATGTGTTCATGTGTATAA
* *
84997326 GTATGTATGTGTTCATGTGTATAT
1 GTATATATGTGTTCATGTGTATAA
84997350 GTATAT
1 GTATAT
84997356 GAAGGTGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.50
Consensus pattern (24 bp):
GTATATATGTGTTCATGTGTATAA
Found at i:85013903 original size:43 final size:43
Alignment explanation
Indices: 85013855--85014068 Score: 306
Period size: 43 Copynumber: 5.0 Consensus size: 43
85013845 ATTACGACTA
* *
85013855 CTAGGCACGAAGGCCAGAATACACATCACCAGCATGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTG
* **
85013898 CTAGGCACGAAGGCCCAAATACACATCACTGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTG
*
85013941 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTG
* **
85013984 CTAGGCACTAAGGCCCGAATACACATCACCAGCACGAAGTTTG
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTG
* * *
85014027 CTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTG
85014068 C
1 C
85014069 AGGATTTATC
Statistics
Matches: 154, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 13 0.08
42 2 0.01
43 139 0.90
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (43 bp):
CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTG
Found at i:85014090 original size:38 final size:38
Alignment explanation
Indices: 85014040--85014163 Score: 131
Period size: 38 Copynumber: 3.2 Consensus size: 38
85014030 GGCACGAAGG
* * * *
85014040 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
* **
85014078 CCCGGATATAATACTAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
** * *
85014116 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGG-ATTTAA
85014155 GCCCGGATA
1 -CCCGGATA
85014164 CACATCAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 59 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:85028329 original size:15 final size:15
Alignment explanation
Indices: 85028309--85028357 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
85028299 GCTAGAAGAA
85028309 AAAGAAAATAGGAAG
1 AAAGAAAATAGGAAG
*
85028324 AAAGAAAAT-GGAGG
1 AAAGAAAATAGGAAG
* *
85028338 AAA-AATAGAGGAAG
1 AAAGAAAATAGGAAG
85028352 -AAGAAA
1 AAAGAAA
85028358 TCGGCACCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
13 5 0.19
14 13 0.48
15 9 0.33
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (15 bp):
AAAGAAAATAGGAAG
Found at i:85047143 original size:29 final size:29
Alignment explanation
Indices: 85047056--85047148 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
85047046 ATCTTTCTGG
* *
85047056 CTATCTCTGCTAAAAGAAAGTCTTTGTG-
1 CTATCTCTGTTAAAAGAAAGACTTTGTGA
* * * *
85047084 GTGATCTTTGTTAAAAGGAA-ACTTTACTGA
1 CT-ATCTCTGTTAAAAGAAAGACTTT-GTGA
* *
85047114 CTATCTCTGTTAAAAGTAAGCCTTTGTGA
1 CTATCTCTGTTAAAAGAAAGACTTTGTGA
*
85047143 CGATCT
1 CTATCT
85047149 TCATTAAAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
28 5 0.10
29 39 0.80
30 5 0.10
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (29 bp):
CTATCTCTGTTAAAAGAAAGACTTTGTGA
Found at i:85047156 original size:58 final size:57
Alignment explanation
Indices: 85047048--85047157 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 57
85047038 TGTATGATAT
* * ** **
85047048 CTTTCTGGCTATCTCTGCTAAAAGAAAGTCTTTGTGGTGATCTTTGTTAAAAGGAAA
1 CTTTCTGACTATCTCTGCTAAAAGAAAGCCTTTGTGACGATCTTCATTAAAAGGAAA
* *
85047105 CTTTACTGACTATCTCTGTTAAAAGTAAGCCTTTGTGACGATCTTCATTAAAA
1 CTTT-CTGACTATCTCTGCTAAAAGAAAGCCTTTGTGACGATCTTCATTAAAA
85047158 AGAAGCCTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 4 0.09
58 40 0.91
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (57 bp):
CTTTCTGACTATCTCTGCTAAAAGAAAGCCTTTGTGACGATCTTCATTAAAAGGAAA
Found at i:85060312 original size:27 final size:27
Alignment explanation
Indices: 85060273--85060486 Score: 241
Period size: 27 Copynumber: 8.0 Consensus size: 27
85060263 CCCTAATTGA
* *
85060273 TAAAATGATTGTTTTGTCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
85060300 TAAAATAACTGTTTCGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
85060327 TAAAATAACTGTTTTGCCCCTAAGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
**
85060354 TAAAATGGTTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
85060381 TAAAATGATTGTTTTTCCCTTATTTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
85060408 TAAAATGATTATTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
85060435 TAAAATGACTATTTTGCCATTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
85060462 TAAGATAACTGTTTTGCCC-TATGTG
1 TAAAATGACTGTTTTGCCCTTATGTG
85060487 ATGTATATAT
Statistics
Matches: 162, Mismatches: 25, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 5 0.03
27 157 0.97
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:85060822 original size:18 final size:18
Alignment explanation
Indices: 85060799--85060842 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
85060789 AGGACTTGTA
*
85060799 TACTGTTACTGCACTGAT
1 TACTGTTACTGCACTAAT
**
85060817 TACTGTTTTTGCACTAAT
1 TACTGTTACTGCACTAAT
*
85060835 TATTGTTA
1 TACTGTTA
85060843 TTGTAAAGGG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.48
Consensus pattern (18 bp):
TACTGTTACTGCACTAAT
Found at i:85062932 original size:27 final size:27
Alignment explanation
Indices: 85062902--85063114 Score: 268
Period size: 27 Copynumber: 8.0 Consensus size: 27
85062892 CCCTAATTGA
85062902 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
85062929 TAAAATGATTGTTTTGCCC-TAAGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * *
85062955 TAAAATGATTGTTTTACCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * * *
85062982 TAAAATGATTGTTTTTCCCTTATTTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
85063009 TAAAATTACTATTTTACCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
85063036 TAAAATTACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
85063063 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* *
85063090 TAAAATGATTGTTTTGCCC-TATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
85063115 ATGTATATAT
Statistics
Matches: 167, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
26 29 0.17
27 138 0.83
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:85063034 original size:54 final size:54
Alignment explanation
Indices: 85062902--85063114 Score: 304
Period size: 54 Copynumber: 4.0 Consensus size: 54
85062892 CCCTAATTGA
* *
85062902 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGATTGTTTTGCCC-TAAGTGG
1 TAAAATGACTATTTTACCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGG
* * * *
85062955 TAAAATGATTGTTTTACCCTTATGTGGTAAAATGATTGTTTTTCCCTTATTTGG
1 TAAAATGACTATTTTACCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGG
* * * *
85063009 TAAAATTACTATTTTACCCTTATGTGGTAAAATTACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTACCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGG
* *
85063063 TAAAATGACTATTTTGCCCTTATATGGTAAAATGATTGTTTTGCCC-TATGTG
1 TAAAATGACTATTTTACCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTG
85063115 ATGTATATAT
Statistics
Matches: 139, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
53 48 0.35
54 91 0.65
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (54 bp):
TAAAATGACTATTTTACCCTTATGTGGTAAAATGATTGTTTTGCCCTTATGTGG
Found at i:85063429 original size:18 final size:18
Alignment explanation
Indices: 85063406--85063451 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
85063396 AGGACTTGTA
85063406 TACTGTTACTGCACTGAT
1 TACTGTTACTGCACTGAT
*
85063424 TACTGTTTCTGCACTGAT
1 TACTGTTACTGCACTGAT
*
85063442 TATTGTTACT
1 TACTGTTACT
85063452 ATAATGGGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.46
Consensus pattern (18 bp):
TACTGTTACTGCACTGAT
Found at i:85066064 original size:29 final size:29
Alignment explanation
Indices: 85065933--85066064 Score: 120
Period size: 29 Copynumber: 4.6 Consensus size: 29
85065923 GAAGTTTTTA
* * *
85065933 TGGCAATCTTTGTTAAAAGAAAGTCTTTA
1 TGGCAATCTCTGTTAAAAGAAAGCCTTTG
** * *
85065962 TGGTGATGTCTGTTAAAAGGAAGCCTTTG
1 TGGCAATCTCTGTTAAAAGAAAGCCTTTG
* * * * * *
85065991 TGGCTATCTATATCAAAAGGAAGCTTTTG
1 TGGCAATCTCTGTTAAAAGAAAGCCTTTG
* **
85066020 TGGAAATCTCCATTAAAAGAAAGCCTTTG
1 TGGCAATCTCTGTTAAAAGAAAGCCTTTG
85066049 TGGCAATCTCTGTTAA
1 TGGCAATCTCTGTTAA
85066065 CAATATGGCT
Statistics
Matches: 79, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (29 bp):
TGGCAATCTCTGTTAAAAGAAAGCCTTTG
Found at i:85070234 original size:29 final size:29
Alignment explanation
Indices: 85070192--85070248 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
85070182 GCAACACAAA
*
85070192 CATATTACCAACCATGCATTGAAAATAAG
1 CATATTACCAACCATGCATGGAAAATAAG
85070221 CATATTACCAACCATGCATGGAAAATAA
1 CATATTACCAACCATGCATGGAAAATAA
85070249 TCATTAGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.23
Consensus pattern (29 bp):
CATATTACCAACCATGCATGGAAAATAAG
Found at i:85071456 original size:47 final size:45
Alignment explanation
Indices: 85071387--85071720 Score: 317
Period size: 47 Copynumber: 7.6 Consensus size: 45
85071377 ATTACATGTT
* *
85071387 TAACCATGGTATATCCACTTAGCACCACGTTAATAAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAAT--ATCAATATATG
*
85071434 TAACCTTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAAT--ATCAATATATG
** * *
85071481 TAACATTGGCATATCCATTTAGCACCACG-T--TA-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATATCAATATATG
* * *
85071519 TAACCATGGTATATCCACTTAGCACCA--TGAAT-T-AATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATATCAATATATG
*
85071560 TAACCGTGGCATATCCACTTAGCACCACG-T--TA-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATATCAATATATG
*
85071598 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAAT--ATCAATATATG
*
85071645 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGCATATCCACTTAGCACCACGTTA-A--TATCAATATATG
* * *
85071693 TAATCGTGGTATATCCACTTAGCTCCAC
1 TAACCGTGGCATATCCACTTAGCACCAC
85071721 ATTACACGTA
Statistics
Matches: 242, Mismatches: 22, Indels: 45
0.78 0.07 0.15
Matches are distributed among these distances:
38 51 0.21
39 7 0.03
40 8 0.03
41 27 0.11
42 1 0.00
43 1 0.00
44 2 0.01
45 3 0.01
46 2 0.01
47 103 0.43
48 36 0.15
50 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (45 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATATCAATATATG
Found at i:85071523 original size:85 final size:84
Alignment explanation
Indices: 85071434--85071681 Score: 380
Period size: 85 Copynumber: 3.0 Consensus size: 84
85071424 TCAATATATG
* * ** *
85071434 TAACCTTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACATTGGCATATCCAT
1 TAACCATGGTATATCCACTTAGCACCACGTTAAT-AATCAATATATGTAACCGTGGCATATCCAC
85071499 TTAGCACCACGTTACATGTT
65 TTAGCACCACGTTACATGTT
*
85071519 TAACCATGGTATATCCACTTAGCACCA--TGAAT--T-AATATATGTAACCGTGGCATATCCACT
1 TAACCATGGTATATCCACTTAGCACCACGTTAATAATCAATATATGTAACCGTGGCATATCCACT
85071579 TAGCACCACGTTACATGTT
66 TAGCACCACGTTACATGTT
*
85071598 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCAC
1 TAACCATGGTATATCCACTTAGCACCACGTTAAT-AATCAATATATGTAACCGTGGCATATCCAC
85071663 TTAGCACCACGTTACATGT
65 TTAGCACCACGTTACATGT
85071682 ATCAATATGT
Statistics
Matches: 149, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
79 69 0.46
80 1 0.01
81 4 0.03
83 4 0.03
84 1 0.01
85 70 0.47
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (84 bp):
TAACCATGGTATATCCACTTAGCACCACGTTAATAATCAATATATGTAACCGTGGCATATCCACT
TAGCACCACGTTACATGTT
Found at i:85071545 original size:132 final size:126
Alignment explanation
Indices: 85071355--85071591 Score: 384
Period size: 132 Copynumber: 1.8 Consensus size: 126
85071345 TGTATAATCG
*
85071355 TGGCATATCCACTTAGCACCACATTACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAA
1 TGGCATATCCACTTAGCACCACATTACATGTTTAACCATGGTATATCCACTTAGCACCA--TGAA
*
85071420 TAAATCAATATATGTAACCTTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAAC
64 T---T-AATATATGTAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAAC
85071485 AT
125 AT
* *
85071487 TGGCATATCCATTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCATGAATT
1 TGGCATATCCACTTAGCACCACATTACATGTTTAACCATGGTATATCCACTTAGCACCATGAATT
85071552 AATATATGTAACCGTGGCATATCCACTTAGCACCACGTTA
66 AATATATGTAACCGTGGCATATCCACTTAGCACCACGTTA
85071592 CATGTTTAAC
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
126 39 0.39
127 1 0.01
130 4 0.04
132 57 0.56
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (126 bp):
TGGCATATCCACTTAGCACCACATTACATGTTTAACCATGGTATATCCACTTAGCACCATGAATT
AATATATGTAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTAACAT
Found at i:85071707 original size:48 final size:48
Alignment explanation
Indices: 85071593--85071731 Score: 199
Period size: 48 Copynumber: 2.9 Consensus size: 48
85071583 ACCACGTTAC
* *
85071593 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
85071640 ATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * *
85071688 ATGTGTAATCGTGGTATATCCACTTAGCTCCACATTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
85071732 AACTGTGGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 34 0.42
48 47 0.58
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:85071754 original size:211 final size:211
Alignment explanation
Indices: 85071353--85071756 Score: 632
Period size: 211 Copynumber: 1.9 Consensus size: 211
85071343 CATGTATAAT
85071353 CGTGGCATATCCACTTAGCACCACATTACATGTTTAACCATGGTATATCCACTTAGCACCACGTT
1 CGTGGCATATCCACTTAGCACCACATTACATGTTTAACCATGGTATATCCACTTAGCACCACGTT
*
85071418 AATAAATCAATATATGTAACCTTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTA
66 AATAAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTA
* * * * *
85071483 ACATTGGCATATCCATTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCATG
131 ACAGTGGCATATCCACTTAGCACCACATTACACGTATAACCATGGTATATCCACTTAGCACCATG
85071548 AATTAATATATGTAAC
196 AATTAATATATGTAAC
* *
85071564 CGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 CGTGGCATATCCACTTAGCACCACATTACATGTTTAACCATGGTATATCCACTTAGCACCACGTT
* ** *
85071629 AATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGT
66 AATAAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTA-ATAAATCAATATATGT
* * **
85071694 AATC-GTGGTATATCCACTTAGCTCCACATTACACGTATAACTGTGGTATATCCA-TTAGCACCA
130 AA-CAGTGGCATATCCACTTAGCACCACATTACACGTATAACCATGGTATATCCACTTAGCACCA
85071757 CGTTTTTTCA
Statistics
Matches: 175, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
211 118 0.67
212 56 0.32
213 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (211 bp):
CGTGGCATATCCACTTAGCACCACATTACATGTTTAACCATGGTATATCCACTTAGCACCACGTT
AATAAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTAATAAATCAATATATGTA
ACAGTGGCATATCCACTTAGCACCACATTACACGTATAACCATGGTATATCCACTTAGCACCATG
AATTAATATATGTAAC
Found at i:85074947 original size:22 final size:22
Alignment explanation
Indices: 85074922--85074991 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
85074912 TTGTTTTGAT
85074922 CTCACACTGAGCCCTTTTCAAG
1 CTCACACTGAGCCCTTTTCAAG
* *** * *
85074944 CTCACCCATG-GTTGTTTT-GAT
1 CTCACAC-TGAGCCCTTTTCAAG
85074965 CTCACACTGAGCCCTTTTCAAG
1 CTCACACTGAGCCCTTTTCAAG
85074987 CTCAC
1 CTCAC
85074992 CCATGGTATT
Statistics
Matches: 33, Mismatches: 12, Indels: 6
0.65 0.24 0.12
Matches are distributed among these distances:
20 2 0.06
21 12 0.36
22 17 0.52
23 2 0.06
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.31
Consensus pattern (22 bp):
CTCACACTGAGCCCTTTTCAAG
Found at i:85074960 original size:43 final size:43
Alignment explanation
Indices: 85074912--85074998 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
85074902 AATTAAGTGT
85074912 TTGTTTTGATCTCACACTGAGCCCTTTTCAAGCTCACCCATGG
1 TTGTTTTGATCTCACACTGAGCCCTTTTCAAGCTCACCCATGG
85074955 TTGTTTTGATCTCACACTGAGCCCTTTTCAAGCTCACCCATGG
1 TTGTTTTGATCTCACACTGAGCCCTTTTCAAGCTCACCCATGG
85074998 T
1 T
85074999 ATTCGTGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (43 bp):
TTGTTTTGATCTCACACTGAGCCCTTTTCAAGCTCACCCATGG
Found at i:85074982 original size:21 final size:21
Alignment explanation
Indices: 85074915--85074982 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
85074905 TAAGTGTTTG
85074915 TTTTGATCTCACACTGAGCCC
1 TTTTGATCTCACACTGAGCCC
* * * ***
85074936 TTTTCAAGCTCACCCATG-GTTG
1 TTTT-GATCTCACAC-TGAGCCC
85074958 TTTTGATCTCACACTGAGCCC
1 TTTTGATCTCACACTGAGCCC
85074979 TTTT
1 TTTT
85074983 CAAGCTCACC
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
20 2 0.06
21 16 0.50
22 12 0.38
23 2 0.06
ACGTcount: A:0.18, C:0.29, G:0.15, T:0.38
Consensus pattern (21 bp):
TTTTGATCTCACACTGAGCCC
Found at i:85075789 original size:30 final size:30
Alignment explanation
Indices: 85075738--85075798 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
85075728 GATTCATCCA
85075738 TGGAAAATAAAATAAAGAAAAGGATGA-AAT
1 TGGAAAATAAAATAAAGAAAA-GATGATAAT
* *
85075768 TGGAAAGTGAAAA-AAATAAAAGATGATAAT
1 TGGAAAAT-AAAATAAAGAAAAGATGATAAT
85075798 T
1 T
85075799 AATTAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.19
30 18 0.67
31 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.20, T:0.20
Consensus pattern (30 bp):
TGGAAAATAAAATAAAGAAAAGATGATAAT
Found at i:85078331 original size:13 final size:13
Alignment explanation
Indices: 85078313--85078337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85078303 ACCCTACTGT
85078313 CTTTTGTTTTCTA
1 CTTTTGTTTTCTA
85078326 CTTTTGTTTTCT
1 CTTTTGTTTTCT
85078338 GTGCTTACTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.16, G:0.08, T:0.72
Consensus pattern (13 bp):
CTTTTGTTTTCTA
Found at i:85079580 original size:27 final size:27
Alignment explanation
Indices: 85079549--85079796 Score: 277
Period size: 27 Copynumber: 9.3 Consensus size: 27
85079539 CCTAGACCCT
*
85079549 TTATGTGGTAAAATGACTATTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* *
85079576 TTATGTGGTAAAATGATTGTTTTTCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
*
85079603 TTAAT-TGGTAAAATGATTGTTTTGCCC
1 TT-ATGTGGTAAAATGACTGTTTTGCCC
**
85079630 TTATGTGGTAAAATGACTGTTTTGCTT
1 TTATGTGGTAAAATGACTGTTTTGCCC
* *
85079657 TTACGTGGTAAAATGACTATTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* * *
85079684 TTACGTGGTGAAATGACTATTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* * * *
85079711 TTATGAGGTGAAATGAGTATTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* *
85079738 TTAT-AGGTAAGATGACTGTTTTGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
* * * *
85079764 TTATATGGTAAGATGATTGTTTTTCCC
1 TTATGTGGTAAAATGACTGTTTTGCCC
85079791 -TATGTG
1 TTATGTG
85079797 ATGTATATAT
Statistics
Matches: 195, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
26 29 0.15
27 164 0.84
28 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (27 bp):
TTATGTGGTAAAATGACTGTTTTGCCC
Found at i:85080016 original size:23 final size:23
Alignment explanation
Indices: 85079947--85080017 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
85079937 GGAAGTGTTT
*
85079947 TATACTGGCAGCTCTGCTGCAAA
1 TATACTGGCAGCTCTACTGCAAA
* *** * *
85079970 T-CACTGATGGCTCTA-AGCCTAA
1 TATACTGGCAGCTCTACTG-CAAA
85079992 TATACTGGCAGCTCTACTGCAAA
1 TATACTGGCAGCTCTACTGCAAA
85080015 TAT
1 TAT
85080018 TGTTTAGTGC
Statistics
Matches: 32, Mismatches: 13, Indels: 6
0.63 0.25 0.12
Matches are distributed among these distances:
21 1 0.03
22 13 0.41
23 17 0.53
24 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (23 bp):
TATACTGGCAGCTCTACTGCAAA
Found at i:85084134 original size:28 final size:28
Alignment explanation
Indices: 85084094--85084168 Score: 132
Period size: 28 Copynumber: 2.7 Consensus size: 28
85084084 GAATCATTCG
*
85084094 ATATTTCGTACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
85084122 ATATCTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
85084150 ATATTTCGCACACTAAGTG
1 ATATTTCGCACACTAAGTG
85084169 CCATATTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:85086859 original size:43 final size:42
Alignment explanation
Indices: 85086785--85086907 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
85086775 CGAAAAGCAC
* * *
85086785 ATACAATGCCAACGTCCCAAACATGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATGTAATCAA
* * *
85086827 ATATCGATGTCACTGTCCCGGACA-GAGTCTTACAT-TAAATCAA
1 ATA-CGATGCCAATGTCCCAGACATG-GTCTTACATGT-AATCAA
*
85086870 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACATGTAA
85086908 ATCATAAGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACATGTAATCAA
Found at i:85091059 original size:37 final size:37
Alignment explanation
Indices: 85091009--85091082 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
85090999 AGAAGTTCTT
85091009 CAGGAAACACATCAAGGAATTCACAGACAACAGGCAC
1 CAGGAAACACATCAAGGAATTCACAGACAACAGGCAC
* *
85091046 CAGGAAACACATCAGGGAATTCACAGGCAACAGGCAC
1 CAGGAAACACATCAAGGAATTCACAGACAACAGGCAC
85091083 TGATTCAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.43, C:0.27, G:0.22, T:0.08
Consensus pattern (37 bp):
CAGGAAACACATCAAGGAATTCACAGACAACAGGCAC
Found at i:85094799 original size:43 final size:43
Alignment explanation
Indices: 85094749--85094840 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
85094739 GCTAGGCTTG
* *
85094749 AAGCCCGATATCATTTCACTGGCATTATAGCCTGCTAGGCCCA
1 AAGCCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCA
* *
85094792 AAGCCCGATATTATCTCACCGGCATTATAGCCTGCTAGGCCTA
1 AAGCCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCA
85094835 AAGCCC
1 AAGCCC
85094841 AATAATATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (43 bp):
AAGCCCGATATCATCTCACCGGCATTATAGCCTGCTAGGCCCA
Found at i:85096796 original size:14 final size:15
Alignment explanation
Indices: 85096767--85096796 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85096757 CAAAATTTAG
85096767 ACATGATACTTTCAC
1 ACATGATACTTTCAC
85096782 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
85096796 A
1 A
85096797 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:85097453 original size:20 final size:18
Alignment explanation
Indices: 85097425--85097464 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
85097415 CAAAATCTTA
85097425 CATCATTCATATCATATATT
1 CATCATTCAT-TCAT-TATT
*
85097445 CATCTTTCATTCATTATT
1 CATCATTCATTCATTATT
85097463 CA
1 CA
85097465 CTAATCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 4 0.21
20 9 0.47
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (18 bp):
CATCATTCATTCATTATT
Found at i:85098340 original size:42 final size:42
Alignment explanation
Indices: 85098235--85098397 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 42
85098225 TGGAAAGCTC
* * * *
85098235 ATACAATGTCAATATCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGTCAATGTCCCAGACGTGGTCTTACACGAAATCAA
* *
85098277 ATATCGATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGTCAATGTCCCAGAC-GTGGTCTTACACGAAATCAA
* *
85098320 ATACGATGTCGATGTCCCAGACATGGTCTTACACGTAAATCATA
1 ATACGATGTCAATGTCCCAGACGTGGTCTTACACG-AAATCA-A
* *
85098364 AGT-CGATGCCAACGTCCCAGACGTGGTCTTACAC
1 A-TACGATGTCAATGTCCCAGACGTGGTCTTACAC
85098398 AGGAACACAT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.30
43 40 0.40
44 30 0.30
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATACGATGTCAATGTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:85098385 original size:86 final size:85
Alignment explanation
Indices: 85098235--85098397 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
85098225 TGGAAAGCTC
* *
85098235 ATACAATGTCAATATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAC
1 ATACAATGTCAATATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGAC
85098300 AG-GGTCTTACACGAAATCAA
66 -GTGGTCTTACACGAAATCAA
* * * *
85098320 ATACGATGTCGATGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCA
1 ATACAATGTCAATATCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCA
85098383 GACGTGGTCTTACAC
63 GACGTGGTCTTACAC
85098398 AGGAACACAT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 32 0.47
86 32 0.47
87 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
ATACAATGTCAATATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGAC
GTGGTCTTACACGAAATCAA
Found at i:85102463 original size:11 final size:12
Alignment explanation
Indices: 85102439--85102468 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
85102429 TCTTTCAATT
85102439 AAGAAAACATAA
1 AAGAAAACATAA
85102451 AAGAAAA-ATAA
1 AAGAAAACATAA
85102462 AAGAAAA
1 AAGAAAA
85102469 TTGAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.80, C:0.03, G:0.10, T:0.07
Consensus pattern (12 bp):
AAGAAAACATAA
Found at i:85103835 original size:10 final size:9
Alignment explanation
Indices: 85103820--85103867 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
85103810 TATTTATTAT
*
85103820 TTTTTAACA
1 TTTTTAAAA
*
85103829 TTATTTAATA
1 TT-TTTAAAA
85103839 TTTTTAAAA
1 TTTTTAAAA
85103848 TTTTTAATAA
1 TTTTTAA-AA
85103858 TATTTTAAAA
1 T-TTTTAAAA
85103868 AATTATAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 15 0.44
10 13 0.38
11 6 0.18
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:85105596 original size:41 final size:41
Alignment explanation
Indices: 85105530--85105627 Score: 164
Period size: 41 Copynumber: 2.4 Consensus size: 41
85105520 AAAACCGAAT
* *
85105530 AGAT-TGAGTATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCACCGCTAA
85105570 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCACCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCACCGCTAA
85105611 AGATC-GAGCATTAGCGG
1 AGATCTGAGCATTAGCGG
85105628 TGCTTTTTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
40 16 0.29
41 39 0.71
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (41 bp):
AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCACCGCTAA
Found at i:85107156 original size:40 final size:40
Alignment explanation
Indices: 85107078--85107341 Score: 365
Period size: 40 Copynumber: 6.5 Consensus size: 40
85107068 ACCCAAGTAT
*
85107078 CTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* **
85107117 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
85107157 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
85107197 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
85107240 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
85107280 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
85107320 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
85107342 CATCCGAATA
Statistics
Matches: 206, Mismatches: 11, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
39 13 0.06
40 156 0.76
41 1 0.00
43 36 0.17
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:85107327 original size:123 final size:120
Alignment explanation
Indices: 85107078--85107341 Score: 404
Period size: 123 Copynumber: 2.2 Consensus size: 120
85107068 ACCCAAGTAT
* *
85107078 CTTCGGGATTTAG-CCGGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* ** *
85107142 CACTAGCATGAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* *
85107197 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGC-A--ACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
* *
85107262 AGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
85107320 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
85107342 CATCCGAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
119 12 0.09
120 10 0.08
121 1 0.01
123 107 0.82
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
Found at i:85115417 original size:40 final size:40
Alignment explanation
Indices: 85115339--85115562 Score: 294
Period size: 40 Copynumber: 5.5 Consensus size: 40
85115329 ACCCAAGTAT
* *
85115339 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
85115378 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
85115418 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
85115458 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
85115501 CTTCGGGACTTAG-CCGGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGG-ATATAGTCACTAGCACAAATGC
85115541 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
85115563 CATCCGAATA
Statistics
Matches: 164, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 12 0.07
40 112 0.68
41 5 0.03
42 4 0.02
43 31 0.19
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:85115535 original size:83 final size:79
Alignment explanation
Indices: 85115339--85115562 Score: 306
Period size: 83 Copynumber: 2.8 Consensus size: 79
85115329 ACCCAAGTAT
* * * *
85115339 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
**
85115404 ACTAGCATGAATGC
66 ACTAGCACAAATGC
* *
85115418 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
85115482 CAACTACTCGCACAAATGC
65 C-ACTA---GCACAAATGC
*
85115501 CTTCGGGACTTAGCCGGAATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCGG-ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
85115563 CATCCGAATA
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
82 4 0.03
83 62 0.48
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:85118162 original size:21 final size:21
Alignment explanation
Indices: 85118124--85118173 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
85118114 ACTAAAAATG
*
85118124 ATAAA-CCTTAATCCCAAACC
1 ATAAACCCTAAATCCCAAACC
* * *
85118144 CTAAACCCTAAATCTCAAATC
1 ATAAACCCTAAATCCCAAACC
85118165 ATAAACCCT
1 ATAAACCCT
85118174 TAAAACTCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (21 bp):
ATAAACCCTAAATCCCAAACC
Found at i:85118467 original size:9 final size:8
Alignment explanation
Indices: 85118449--85118520 Score: 83
Period size: 8 Copynumber: 8.5 Consensus size: 8
85118439 TTTATATGTT
*
85118449 AATTTAAA
1 AATTAAAA
85118457 AATTATAAA
1 AATTA-AAA
85118466 AATCTTTAAAAA
1 AA--T-TAAA-A
85118478 AATTAAAA
1 AATTAAAA
85118486 AATTAAAA
1 AATTAAAA
85118494 AATTAAAA
1 AATTAAAA
85118502 AATT-AAA
1 AATTAAAA
85118509 AATTAAAA
1 AATTAAAA
85118517 AATT
1 AATT
85118521 GAAGTTTTGG
Statistics
Matches: 57, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
7 7 0.12
8 32 0.56
9 9 0.16
10 1 0.02
11 3 0.05
12 5 0.09
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (8 bp):
AATTAAAA
Found at i:85118493 original size:7 final size:8
Alignment explanation
Indices: 85118474--85118520 Score: 87
Period size: 8 Copynumber: 6.0 Consensus size: 8
85118464 AAAATCTTTA
85118474 AAAAAATT
1 AAAAAATT
85118482 AAAAAATT
1 AAAAAATT
85118490 AAAAAATT
1 AAAAAATT
85118498 AAAAAATT
1 AAAAAATT
85118506 -AAAAATT
1 AAAAAATT
85118513 AAAAAATT
1 AAAAAATT
85118521 GAAGTTTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.18
8 31 0.82
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAAATT
Found at i:85119831 original size:43 final size:42
Alignment explanation
Indices: 85119763--85119907 Score: 236
Period size: 43 Copynumber: 3.4 Consensus size: 42
85119753 AAATTTTATA
*
85119763 ACCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGCCATG
1 ACCTTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGCCATG
*
85119806 ACCTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAAGCCATG
1 ACCTTTAGCGGCGTTTGTGG-AAAAGCGCCGCTAAAGGCCATG
*
85119849 ACCTTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGCCATG
1 ACCTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGCCATG
85119892 ACCTTTAGCGGCGTTT
1 ACCTTTAGCGGCGTTT
85119908 TTTAAAATAA
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
42 2 0.02
43 93 0.97
44 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (42 bp):
ACCTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGCCATG
Found at i:85121145 original size:16 final size:16
Alignment explanation
Indices: 85121124--85121155 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
85121114 AAATATGAAC
85121124 TAACTAATAGTTTAGT
1 TAACTAATAGTTTAGT
85121140 TAACTAATAGTTTAGT
1 TAACTAATAGTTTAGT
85121156 GGCATTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TAACTAATAGTTTAGT
Found at i:85124681 original size:7 final size:7
Alignment explanation
Indices: 85124671--85124697 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
85124661 ATCTTTTATC
85124671 TTTTAAA
1 TTTTAAA
85124678 TTTTAAA
1 TTTTAAA
85124685 TTTTAAA
1 TTTTAAA
85124692 TTTTAA
1 TTTTAA
85124698 CTGTTGACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Found at i:85124681 original size:29 final size:29
Alignment explanation
Indices: 85124617--85124681 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
85124607 TGTAAAATTG
* *
85124617 AAATTTAGTTATTATATTTTTATTTTTAT
1 AAATTTTGTTATTATATTTTTATCTTTAT
* *
85124646 AAATTTTGTTTTTTTATCTTTTATCTTT-T
1 AAATTTTGTTATTATAT-TTTTATCTTTAT
85124675 AAATTTT
1 AAATTTT
85124682 AAATTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (29 bp):
AAATTTTGTTATTATATTTTTATCTTTAT
Found at i:85124880 original size:28 final size:28
Alignment explanation
Indices: 85124849--85124928 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 28
85124839 ACTATTAAAT
85124849 TTAAATTTTAAAGCATAAAAATAA-AG-AA
1 TTAAATTTTAAA-CATAAAAA-AATAGAAA
*
85124877 TTAATTTTTTAAA-ATAAAAAAATAGAAA
1 TTAA-ATTTTAAACATAAAAAAATAGAAA
*
85124905 TTAAATTTCAAAACTATAAAAAAA
1 TTAAATTT-TAAAC-ATAAAAAAA
85124929 CACAAAAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
26 2 0.05
27 12 0.28
28 13 0.30
29 7 0.16
30 9 0.21
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (28 bp):
TTAAATTTTAAACATAAAAAAATAGAAA
Found at i:85125925 original size:13 final size:15
Alignment explanation
Indices: 85125909--85125944 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
85125899 AATTGAAAAA
85125909 TAAAAATG-AAAT-T
1 TAAAAATGAAAATGT
85125922 TAAAAATGAAAATGT
1 TAAAAATGAAAATGT
85125937 TAAAAATG
1 TAAAAATG
85125945 CATAATCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 4 0.19
15 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (15 bp):
TAAAAATGAAAATGT
Found at i:85125926 original size:19 final size:19
Alignment explanation
Indices: 85125899--85125935 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
85125889 TTTCAGTTAG
85125899 AATTGAAAAATAAAAATGA
1 AATTGAAAAATAAAAATGA
* *
85125918 AATTTAAAAATGAAAATG
1 AATTGAAAAATAAAAATG
85125936 TTAAAAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (19 bp):
AATTGAAAAATAAAAATGA
Found at i:85126370 original size:5 final size:5
Alignment explanation
Indices: 85126360--85126386 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
85126350 TATTTGATTC
85126360 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
85126387 AGTTATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:85130264 original size:20 final size:21
Alignment explanation
Indices: 85130225--85130264 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
85130215 GTTGAGTTGG
85130225 TCACACGAGCGTGTTGCCCTT
1 TCACACGAGCGTGTTGCCCTT
*
85130246 TCACACGGGCGTG-TGCCCT
1 TCACACGAGCGTGTTGCCCT
85130265 ATTTTAAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.35, G:0.28, T:0.25
Consensus pattern (21 bp):
TCACACGAGCGTGTTGCCCTT
Found at i:85130968 original size:18 final size:18
Alignment explanation
Indices: 85130945--85130983 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
85130935 ACGTAAGCAA
85130945 TAATGCTTAGTAAGTTGG
1 TAATGCTTAGTAAGTTGG
85130963 TAATGCTTAGTAAGTTGG
1 TAATGCTTAGTAAGTTGG
85130981 TAA
1 TAA
85130984 AAAGACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (18 bp):
TAATGCTTAGTAAGTTGG
Found at i:85134359 original size:30 final size:30
Alignment explanation
Indices: 85134325--85134385 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
85134315 TCCTTAACTC
85134325 AAACTTTGGAAAAATTACAATTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
* * * * *
85134355 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
85134385 A
1 A
85134386 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTTCCCCT
Found at i:85135237 original size:20 final size:20
Alignment explanation
Indices: 85135212--85135290 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
85135202 GATGCATAAA
*
85135212 AGGGGCACCGAAGTGCAGAC
1 AGGGGCACCGAAGTGCAAAC
* * *
85135232 AGGGGCA-CAAACATGCAAAA
1 AGGGGCACCGAA-GTGCAAAC
*
85135252 AGGGGCACCGAAGTACAAAC
1 AGGGGCACCGAAGTGCAAAC
**
85135272 AGGGGCATTGAAGTGCAAA
1 AGGGGCACCGAAGTGCAAA
85135291 TCCCGTACAA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 3 0.07
20 40 0.87
21 3 0.07
ACGTcount: A:0.39, C:0.20, G:0.33, T:0.08
Consensus pattern (20 bp):
AGGGGCACCGAAGTGCAAAC
Found at i:85135459 original size:19 final size:18
Alignment explanation
Indices: 85135435--85135470 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
85135425 GCTATAACAA
85135435 TTCATAATCATTCCAATAT
1 TTCATAATCATT-CAATAT
*
85135454 TTCATAATTATTCAATA
1 TTCATAATCATTCAATA
85135471 GTTTTCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (18 bp):
TTCATAATCATTCAATAT
Found at i:85138120 original size:26 final size:26
Alignment explanation
Indices: 85138085--85138136 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
85138075 AATGTGAAAG
*
85138085 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
85138111 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
85138137 TTTCATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:85138193 original size:103 final size:103
Alignment explanation
Indices: 85138019--85138375 Score: 592
Period size: 103 Copynumber: 3.5 Consensus size: 103
85138009 GGGTTGTTGT
* * * *
85138019 GTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCTTTGAAATGTGAA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATG-AAA
85138083 AGGGGGTTGCTATGTGCTGATT-CCCCGAGGGGTTGCTAA
64 AGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
85138122 GTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGAAAA
1 GTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGAAAA
85138187 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
65 GGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
* *
85138226 GTGTTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATAAAAAG
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGAAAAG
85138291 GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
* **
85138329 GTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
85138376 ATAACGGCTA
Statistics
Matches: 241, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
103 169 0.70
104 71 0.29
105 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (103 bp):
GTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGAAATGAAAAG
GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:85139629 original size:24 final size:24
Alignment explanation
Indices: 85139602--85139716 Score: 151
Period size: 24 Copynumber: 4.8 Consensus size: 24
85139592 CTATCTGGAG
*
85139602 CTTCTCGATATGGTTTTTTGTGAA
1 CTTCTCGATATGGTTCTTTGTGAA
*
85139626 CTTCCCGATATGGTTCTTTGTGAA
1 CTTCTCGATATGGTTCTTTGTGAA
85139650 CTTC-CTGATATGGTTCTTTGTGAA
1 CTTCTC-GATATGGTTCTTTGTGAA
**
85139674 CTTCTCGATAAAGTTCTTTGTGAA
1 CTTCTCGATATGGTTCTTTGTGAA
* *
85139698 CTTCACGATTATGGCTCTT
1 CTTCTCGA-TATGGTTCTT
85139717 ATGAGCTTCC
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
23 1 0.01
24 71 0.89
25 8 0.10
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.44
Consensus pattern (24 bp):
CTTCTCGATATGGTTCTTTGTGAA
Found at i:85149322 original size:33 final size:33
Alignment explanation
Indices: 85149280--85149348 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
85149270 ATCCAGGCTA
85149280 AATCCTTTATATAATGTATGCTCAAAAGAGTTC
1 AATCCTTTATATAATGTATGCTCAAAAGAGTTC
85149313 AATCCTTTATATAATGTATGCTCAAAAGAGTTC
1 AATCCTTTATATAATGTATGCTCAAAAGAGTTC
85149346 AAT
1 AAT
85149349 TAGGATTACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (33 bp):
AATCCTTTATATAATGTATGCTCAAAAGAGTTC
Found at i:85154694 original size:43 final size:43
Alignment explanation
Indices: 85154646--85154733 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
85154636 ATCCAGTCTT
85154646 ACACGATGCTTTACCAACCAGTCCATACCTAGAATTAAATCAA
1 ACACGATGCTTTACCAACCAGTCCATACCTAGAATTAAATCAA
*
85154689 ACACGATGCTTTACCAACCATTCCATACCTAGAATTAAATCAA
1 ACACGATGCTTTACCAACCAGTCCATACCTAGAATTAAATCAA
85154732 AC
1 AC
85154734 TCCCCAAACG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (43 bp):
ACACGATGCTTTACCAACCAGTCCATACCTAGAATTAAATCAA
Found at i:85156593 original size:26 final size:26
Alignment explanation
Indices: 85156558--85156608 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
85156548 ATGTGAAAAG
*
85156558 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
85156584 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
85156609 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:85156723 original size:103 final size:104
Alignment explanation
Indices: 85156479--85156744 Score: 430
Period size: 103 Copynumber: 2.6 Consensus size: 104
85156469 TTGTATATAA
** *
85156479 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
85156543 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
85156583 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
85156648 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
** *
85156687 A-GGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
85156745 ATAACGGTTA
Statistics
Matches: 152, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
103 77 0.51
104 74 0.49
105 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:85164208 original size:103 final size:105
Alignment explanation
Indices: 85163956--85164222 Score: 441
Period size: 105 Copynumber: 2.6 Consensus size: 105
85163946 TTGTATATAA
** *
85163956 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
85164020 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
85164061 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
85164126 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
85164165 A-GGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
85164223 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
103 53 0.35
104 31 0.20
105 68 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:85177579 original size:84 final size:85
Alignment explanation
Indices: 85177413--85177617 Score: 277
Period size: 84 Copynumber: 2.4 Consensus size: 85
85177403 CTAAGAAAAG
* * * *
85177413 TTGGCATCGTATTTGATTTTGTGTAAGACCGTGTCTGAGACACAGGCCTCTATTGAAATTTACGT
1 TTGGCATCGTATCTGATTTCGTGTAAGACCGTGTCTGAGACACAGGCCGCGATTGAAATTTACGT
*
85177478 ATAAGACCATGTTTGGGACA
66 ATAAGACCATGTCTGGGACA
* * * *
85177498 TTGGCATCGTATCTGATTTCATGTAAGACTGTGTC-GGGACATAGGCCGCGATTGAAATTTACGT
1 TTGGCATCGTATCTGATTTCGTGTAAGACCGTGTCTGAGACACAGGCCGCGATTGAAATTTACGT
*
85177562 ATAAGACTATGTCTGGGACA
66 ATAAGACCATGTCTGGGACA
* * * *
85177582 TCGGCATCATATCTAATTTCGTGTAAGACCCTGTCT
1 TTGGCATCGTATCTGATTTCGTGTAAGACCGTGTCT
85177618 AGGACAGAGG
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 72 0.70
85 31 0.30
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (85 bp):
TTGGCATCGTATCTGATTTCGTGTAAGACCGTGTCTGAGACACAGGCCGCGATTGAAATTTACGT
ATAAGACCATGTCTGGGACA
Found at i:85177582 original size:43 final size:43
Alignment explanation
Indices: 85177444--85177582 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 43
85177434 TGTAAGACCG
* * * *
85177444 TGTCTGAGACACAGGCCTCTATTGAAATTTACGTATAAGACCA
1 TGTCTGGGACATAGGCCTCGATTGAAATTTACGTATAAGACTA
* * * * * *
85177487 TGTTTGGGACATTGGCATCGTATCTG--ATTT-CATGTAAGACTG
1 TGTCTGGGACATAGGCCTCG-AT-TGAAATTTACGTATAAGACTA
*
85177529 TGTC-GGGACATAGGCCGCGATTGAAATTTACGTATAAGACTA
1 TGTCTGGGACATAGGCCTCGATTGAAATTTACGTATAAGACTA
85177571 TGTCTGGGACAT
1 TGTCTGGGACAT
85177583 CGGCATCATA
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
39 2 0.03
40 2 0.03
41 16 0.22
42 24 0.33
43 25 0.34
44 2 0.03
45 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTCTGGGACATAGGCCTCGATTGAAATTTACGTATAAGACTA
Found at i:85177609 original size:42 final size:43
Alignment explanation
Indices: 85177469--85177610 Score: 121
Period size: 42 Copynumber: 3.4 Consensus size: 43
85177459 CCTCTATTGA
* * * *
85177469 AATTTACGTATAAGACCATGTTTGGGACATTGGCATCGTATCT
1 AATTTACGTATAAGACTATGTCTGGGACATAGGCATCATATCT
* * * * ** **
85177512 GATTT-CATGTAAGACTGTGTC-GGGACATAGGCCGCGAT-TGA
1 AATTTACGTATAAGACTATGTCTGGGACATAGGCATC-ATATCT
*
85177553 AATTTACGTATAAGACTATGTCTGGGACATCGGCATCATATCT
1 AATTTACGTATAAGACTATGTCTGGGACATAGGCATCATATCT
*
85177596 AATTT-CGTGTAAGAC
1 AATTTACGTATAAGAC
85177611 CCTGTCTAGG
Statistics
Matches: 73, Mismatches: 22, Indels: 9
0.70 0.21 0.09
Matches are distributed among these distances:
41 16 0.22
42 36 0.49
43 21 0.29
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (43 bp):
AATTTACGTATAAGACTATGTCTGGGACATAGGCATCATATCT
Found at i:85178600 original size:30 final size:30
Alignment explanation
Indices: 85178564--85178630 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
85178554 GTCTGATGGT
85178564 CGTGTGAGGCACACAGCCTGGACGCAAGGG
1 CGTGTGAGGCACACAGCCTGGACGCAAGGG
* *
85178594 CGTGTGAGGCACACGGTCTGGACGCAAGGG
1 CGTGTGAGGCACACAGCCTGGACGCAAGGG
85178624 CGTGTGA
1 CGTGTGA
85178631 CCTCAACAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.24, G:0.42, T:0.13
Consensus pattern (30 bp):
CGTGTGAGGCACACAGCCTGGACGCAAGGG
Found at i:85184868 original size:25 final size:25
Alignment explanation
Indices: 85184840--85184887 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
85184830 TTAATTTTGC
85184840 ATTTTGGTCTATTTTTTTCTGTTAA
1 ATTTTGGTCTATTTTTTTCTGTTAA
** *
85184865 ATTTTTTTCTATTTTTTTGTGTT
1 ATTTTGGTCTATTTTTTTCTGTT
85184888 TATTTCAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.12, C:0.06, G:0.10, T:0.71
Consensus pattern (25 bp):
ATTTTGGTCTATTTTTTTCTGTTAA
Found at i:85189079 original size:10 final size:9
Alignment explanation
Indices: 85189040--85189074 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
85189030 AAATGCTCGT
85189040 GAAAAAAAA
1 GAAAAAAAA
85189049 GAAAAAAAA
1 GAAAAAAAA
85189058 GAAAAAAGAGA
1 GAAAAAA-A-A
85189069 GAAAAA
1 GAAAAA
85189075 GAGAGCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 16 0.67
10 1 0.04
11 7 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:85212726 original size:47 final size:47
Alignment explanation
Indices: 85212648--85212815 Score: 264
Period size: 47 Copynumber: 3.6 Consensus size: 47
85212638 CCCTTCGGGA
* * * * * *
85212648 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85212695 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85212742 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85212789 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
85212816 ACCAACCCTT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 111 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85213077 original size:40 final size:39
Alignment explanation
Indices: 85213040--85213131 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
85213030 GCTACTCGTT
*
85213040 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
85213080 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
85213119 CAAATGCCTTCGG
1 CAAATGCCTTCGG
85213132 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:85213111 original size:39 final size:40
Alignment explanation
Indices: 85213021--85213181 Score: 170
Period size: 40 Copynumber: 4.0 Consensus size: 40
85213011 CGGAATTTAA
** *
85213021 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
85213061 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85213100 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
85213140 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
85213180 CC
1 CC
85213182 AGACATCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 55 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:85216898 original size:40 final size:40
Alignment explanation
Indices: 85216854--85216978 Score: 223
Period size: 40 Copynumber: 3.1 Consensus size: 40
85216844 TCTTCGAGGT
* * *
85216854 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
85216894 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
85216934 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
85216974 TTAGC
1 TTAGC
85216979 TAGCACGAAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:85216989 original size:27 final size:26
Alignment explanation
Indices: 85216951--85217004 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 26
85216941 GGATATATCA
85216951 CTAGCACGAATGCTCCTCGGGACTTAG
1 CTAGCACGAATGCTCCTCGGG-CTTAG
85216978 CTAGCACGAATGCTCCTCGGGCTTAG
1 CTAGCACGAATGCTCCTCGGGCTTAG
85217004 C
1 C
85217005 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.20, C:0.31, G:0.26, T:0.22
Consensus pattern (26 bp):
CTAGCACGAATGCTCCTCGGGCTTAG
Found at i:85217019 original size:66 final size:67
Alignment explanation
Indices: 85216911--85217044 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 67
85216901 GGATATATCA
85216911 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTT
1 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTT
85216976 AG
66 AG
85216978 CTAGCACGAATGCTCCTCGGG-CTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTT
1 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTT
85217042 AG
66 AG
85217044 C
1 C
85217045 CCGGATATAT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 46 0.69
67 21 0.31
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (67 bp):
CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTT
AG
Found at i:85217025 original size:106 final size:107
Alignment explanation
Indices: 85216871--85217084 Score: 412
Period size: 106 Copynumber: 2.0 Consensus size: 107
85216861 GGATATATTA
*
85216871 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTT
1 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTT
85216936 AGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAG
66 AGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAG
85216978 CTAGCACGAATGCTCCTCGGG-CTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTT
1 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTT
85217042 AGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAG
66 AGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAG
85217084 C
1 C
85217085 CCGGATATAT
Statistics
Matches: 106, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
106 86 0.81
107 20 0.19
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (107 bp):
CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTT
AGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAG
Found at i:85217054 original size:40 final size:40
Alignment explanation
Indices: 85216978--85217098 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
85216968 CGGGACTTAG
85216978 CTAGCACGAATGCTCCTCGGG-CTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCA
85217017 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCA
85217057 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCA
1 CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCA
85217097 CT
1 CT
85217099 CTCAATTCTC
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
39 21 0.26
40 60 0.74
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (40 bp):
CTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCA
Found at i:85219153 original size:47 final size:47
Alignment explanation
Indices: 85219075--85219289 Score: 349
Period size: 47 Copynumber: 4.6 Consensus size: 47
85219065 CCCTTCGGGA
* * * * * *
85219075 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
85219122 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85219169 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85219216 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85219263 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
85219290 ACCAACCCTT
Statistics
Matches: 156, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 156 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85227853 original size:64 final size:64
Alignment explanation
Indices: 85227682--85227853 Score: 186
Period size: 64 Copynumber: 2.7 Consensus size: 64
85227672 TCACTTGTAC
* * * * *
85227682 ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGTAGCTCTCTTGTCT
1 ACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACA-TATATCCCATAGCTCTCTTGTCT
* * * * *
85227745 ACATAGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCATAGCTCTCTTGT
1 ACAT-G-GT-GTACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCATAGCTCTCTTGT
85227810 CT
63 CT
* *
85227812 ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 ACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACAT
85227854 CATAATGTCT
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 4 0.05
64 29 0.33
65 4 0.05
66 24 0.28
67 24 0.28
68 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (64 bp):
ACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATATATCCCATAGCTCTCTTGTCT
Found at i:85246594 original size:19 final size:19
Alignment explanation
Indices: 85246570--85246607 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
85246560 TATAAGATTG
85246570 ATTTGTAGATAAATATGTT
1 ATTTGTAGATAAATATGTT
*
85246589 ATTTGTGGATAAATATGTT
1 ATTTGTAGATAAATATGTT
85246608 TATGTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (19 bp):
ATTTGTAGATAAATATGTT
Found at i:85253732 original size:26 final size:26
Alignment explanation
Indices: 85253696--85253748 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
85253686 TAACTACATA
85253696 TATTTTAAGTAGTTGATCAAATTATG
1 TATTTTAAGTAGTTGATCAAATTATG
85253722 TATTTTAAGTAGTTGATCAAATTATG
1 TATTTTAAGTAGTTGATCAAATTATG
85253748 T
1 T
85253749 CTAACATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (26 bp):
TATTTTAAGTAGTTGATCAAATTATG
Found at i:85253759 original size:26 final size:26
Alignment explanation
Indices: 85253702--85253759 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
85253692 CATATATTTT
***
85253702 AAGTAGTTGATCAAATTATGTATTTT
1 AAGTAGTTGATCAAATTATGTATAAC
*
85253728 AAGTAGTTGATCAAATTATGTCTAAC
1 AAGTAGTTGATCAAATTATGTATAAC
*
85253754 ATGTAG
1 AAGTAG
85253760 ACTTAACTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (26 bp):
AAGTAGTTGATCAAATTATGTATAAC
Found at i:85259988 original size:41 final size:41
Alignment explanation
Indices: 85259943--85260024 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
85259933 AATACAACTT
* * *
85259943 AGTACCGAATATGGTACGTTTTGGTGTGTAGGGCTGGGTGG
1 AGTACCGAATATCGTACATTTTGGTGTGTAGGGCTAGGTGG
85259984 AGTACCGAATATCGTACATTTTGGTGTGTAGGGCTAGGTGG
1 AGTACCGAATATCGTACATTTTGGTGTGTAGGGCTAGGTGG
85260025 GTCGACTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.20, C:0.11, G:0.38, T:0.32
Consensus pattern (41 bp):
AGTACCGAATATCGTACATTTTGGTGTGTAGGGCTAGGTGG
Found at i:85260173 original size:22 final size:22
Alignment explanation
Indices: 85260143--85260185 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
85260133 CAAACTATTT
* *
85260143 TTATCACTGAAATGGGCTAAGA
1 TTATAACTGAAATGGCCTAAGA
85260165 TTATAACTGAAATGGCCTAAG
1 TTATAACTGAAATGGCCTAAG
85260186 GCCCGGACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (22 bp):
TTATAACTGAAATGGCCTAAGA
Found at i:85266587 original size:191 final size:191
Alignment explanation
Indices: 85266257--85266636 Score: 733
Period size: 191 Copynumber: 2.0 Consensus size: 191
85266247 ATAGGAAGAG
85266257 AAGTGCCGAAATTGGTTTTGGGGTTTTCCTCTCATTTCTTCAGTTTTTCTAAGTCTTTCTTTGCA
1 AAGTGCCGAAATTGGTTTTGGGGTTTTCCTCTCATTTCTTCAGTTTTTCTAAGTCTTTCTTTGCA
85266322 TATTGAAGTTTCGACTGAATTGACCTTTGGCATATTTTCTTCTCTTTTTCTTCTTTAAACCCTCA
66 TATTGAAGTTTCGACTGAATTGACCTTTGGCATATTTTCTTCTCTTTTTCTTCTTTAAACCCTCA
* *
85266387 CTGAATCCCTTTCTTTTCTCATACGCCTCTCAGTCGTTCCTCTCCTTGACCGAGCATTCTC
131 CTAAATCCCTTTCTTTTCTCATACGCCTCTCAGTCATTCCTCTCCTTGACCGAGCATTCTC
85266448 AAGTGCCGAAATTGGTTTTGGGGTTTTCCTCTCATTTCTTCAGTTTTTCTAAGTCTTTCTTTGCA
1 AAGTGCCGAAATTGGTTTTGGGGTTTTCCTCTCATTTCTTCAGTTTTTCTAAGTCTTTCTTTGCA
85266513 TATTGAAGTTTCGACTGAATTGACCTTTGGCATATTTTCTTCTCTTTTTCTTCTTTAAACCCTCA
66 TATTGAAGTTTCGACTGAATTGACCTTTGGCATATTTTCTTCTCTTTTTCTTCTTTAAACCCTCA
*
85266578 CTAAATCCCTTTCTTTTCTCATATGCCTCTCAGTCATTCCTCTCCTTGACCGAGCATTC
131 CTAAATCCCTTTCTTTTCTCATACGCCTCTCAGTCATTCCTCTCCTTGACCGAGCATTC
85266637 CCTTGTCTCA
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
191 186 1.00
ACGTcount: A:0.17, C:0.25, G:0.13, T:0.45
Consensus pattern (191 bp):
AAGTGCCGAAATTGGTTTTGGGGTTTTCCTCTCATTTCTTCAGTTTTTCTAAGTCTTTCTTTGCA
TATTGAAGTTTCGACTGAATTGACCTTTGGCATATTTTCTTCTCTTTTTCTTCTTTAAACCCTCA
CTAAATCCCTTTCTTTTCTCATACGCCTCTCAGTCATTCCTCTCCTTGACCGAGCATTCTC
Found at i:85267538 original size:18 final size:18
Alignment explanation
Indices: 85267517--85267551 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
85267507 TGGGCCAAAC
85267517 TGGG-CTGTGTGGCCCCAA
1 TGGGTCTGT-TGGCCCCAA
85267535 TGGGTCTGTTGGCCCCA
1 TGGGTCTGTTGGCCCCA
85267552 CACGGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.09, C:0.29, G:0.37, T:0.26
Consensus pattern (18 bp):
TGGGTCTGTTGGCCCCAA
Found at i:85271494 original size:30 final size:30
Alignment explanation
Indices: 85271460--85271520 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
85271450 TCCTTAACTC
85271460 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
85271490 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
85271520 A
1 A
85271521 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:85273047 original size:42 final size:42
Alignment explanation
Indices: 85272936--85273091 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
85272926 TACCATTCCA
**** * *
85272936 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATAG
* * * * *
85272978 ATGCCAATAGCCCAGCTATAGTCTTACACAAAATCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAAATCTCATATAG
* *
85273021 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATAG
*
85273063 ATGCCATATCCCAAATATGGTCTTACACA
1 ATGCCATATCCCAGATATGGTCTTACACA
85273092 TAGTGTTAGT
Statistics
Matches: 94, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
42 62 0.66
43 32 0.34
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATAG
Found at i:85273066 original size:85 final size:84
Alignment explanation
Indices: 85272936--85273091 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
85272926 TACCATTCCA
* * * * **
85272936 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCGTATTGATGCCAATAGCCCAGCTATAGTC
1 ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATAGATGCC-ATAGCCCAAATATAGTC
85273001 TTACACAAAATCTTATATCG
65 TTACACAAAATCTTATATCG
* *
85273021 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTCATATAGATGCCATATCCCAAATATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGAGA-TCTCATATAGATGCCATAGCCCAAATATAGTC
85273085 TTACACA
65 TTACACA
85273092 TAGTGTTAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 21 0.34
85 41 0.66
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATAGATGCCATAGCCCAAATATAGTCT
TACACAAAATCTTATATCG
Found at i:85273432 original size:145 final size:145
Alignment explanation
Indices: 85273169--85273458 Score: 562
Period size: 145 Copynumber: 2.0 Consensus size: 145
85273159 ACTCTTGTCG
85273169 TAACTTTTTCGAACATACTCAATGGACAATCATAATTCACAATAGTAAAGTATTTAAAACATAAT
1 TAACTTTTTCGAACATACTCAATGGACAATCATAATTCACAATAGTAAAGTATTTAAAACATAAT
85273234 TAAAACAATGTATTATTTATATAAGAACTTACCTCGGTACAAAAATAGTAGAATAGGATCTACTC
66 TAAAACAATGTATTATTTATATAAGAACTTACCTCGGTACAAAAATAGTAGAATAGGATCTACTC
85273299 ATCAAACACCTTGTT
131 ATCAAACACCTTGTT
*
85273314 TAACTTTTTCGAACATGCTCAATGGACAATCATAATTCACAATAGTAAAGTATTTAAAACATAAT
1 TAACTTTTTCGAACATACTCAATGGACAATCATAATTCACAATAGTAAAGTATTTAAAACATAAT
*
85273379 TAAAACAATGTATTATTTATATAAGAACTTACCTCGGTACATAAATAGTAGAATAGGATCTACTC
66 TAAAACAATGTATTATTTATATAAGAACTTACCTCGGTACAAAAATAGTAGAATAGGATCTACTC
85273444 ATCAAACACCTTGTT
131 ATCAAACACCTTGTT
85273459 CTTCCACCGA
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 143 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (145 bp):
TAACTTTTTCGAACATACTCAATGGACAATCATAATTCACAATAGTAAAGTATTTAAAACATAAT
TAAAACAATGTATTATTTATATAAGAACTTACCTCGGTACAAAAATAGTAGAATAGGATCTACTC
ATCAAACACCTTGTT
Found at i:85280764 original size:40 final size:40
Alignment explanation
Indices: 85280709--85280829 Score: 163
Period size: 40 Copynumber: 3.0 Consensus size: 40
85280699 ATTTGATGTG
*
85280709 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTA
1 TATCCGGGCTTAAAGACCCACAGGCTATATGCTAGAATTA
*
85280749 TATCCGGGCTTAAAGACCCAAAGGCTATATGCTAGAATTA
1 TATCCGGGCTTAAAGACCCACAGGCTATATGCTAGAATTA
* * ** * *
85280789 TACCCGGACTT-AAGGTCCACAGGCTATGTGCTGGAATTA
1 TATCCGGGCTTAAAGACCCACAGGCTATATGCTAGAATTA
85280828 TA
1 TA
85280830 ACCGAACTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 25 0.35
40 47 0.65
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCACAGGCTATATGCTAGAATTA
Found at i:85280826 original size:39 final size:39
Alignment explanation
Indices: 85280729--85280845 Score: 144
Period size: 39 Copynumber: 3.0 Consensus size: 39
85280719 TAAAGACCCG
* * **
85280729 CAGGCTATATGCTAGAATTATATCCGGGCTTAAAGACCCA
1 CAGGCTATATGCTAGAATTATAACCGGACTT-AAGGTCCA
* *
85280769 AAGGCTATATGCTAGAATTATACCCGGACTTAAGGTCCA
1 CAGGCTATATGCTAGAATTATAACCGGACTTAAGGTCCA
* * *
85280808 CAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCC
1 CAGGCTATATGCTAGAATTATAACCGGACTTAAGGTCC
85280846 GCAAGCTACG
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 39 0.58
40 28 0.42
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (39 bp):
CAGGCTATATGCTAGAATTATAACCGGACTTAAGGTCCA
Found at i:85280861 original size:39 final size:39
Alignment explanation
Indices: 85280783--85280863 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
85280773 CTATATGCTA
* * * * *
85280783 GAATTATACCCGGACTTAAGGTCCACAGGCTATGTGCTG
1 GAATTATAACCGAACTTAAGGTCCACAAGCTACGCGCTG
*
85280822 GAATTATAACCGAACTTAAGGTCCGCAAGCTACGCGCTG
1 GAATTATAACCGAACTTAAGGTCCACAAGCTACGCGCTG
85280861 GAA
1 GAA
85280864 ATATGTCCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (39 bp):
GAATTATAACCGAACTTAAGGTCCACAAGCTACGCGCTG
Found at i:85295868 original size:16 final size:15
Alignment explanation
Indices: 85295843--85295888 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
85295833 ACAATTTCAC
85295843 CTATCATTTTATCAA
1 CTATCATTTTATCAA
*
85295858 CTATGCATTTT-TC-T
1 CTAT-CATTTTATCAA
85295872 C-ATCATTTTATCAA
1 CTATCATTTTATCAA
85295886 CTA
1 CTA
85295889 ATTCATGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 6 0.24
13 4 0.16
14 2 0.08
15 7 0.28
16 6 0.24
ACGTcount: A:0.28, C:0.22, G:0.02, T:0.48
Consensus pattern (15 bp):
CTATCATTTTATCAA
Found at i:85296817 original size:10 final size:10
Alignment explanation
Indices: 85296802--85296831 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
85296792 ATGGTAACCC
85296802 TAACAATTAA
1 TAACAATTAA
85296812 TAACAATTAA
1 TAACAATTAA
85296822 TAACAATTAA
1 TAACAATTAA
85296832 ACATAGCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (10 bp):
TAACAATTAA
Found at i:85304142 original size:19 final size:19
Alignment explanation
Indices: 85304118--85304156 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
85304108 TAAAACCCCC
85304118 ATAGGAACATCTCCTTACA
1 ATAGGAACATCTCCTTACA
85304137 ATAGGAACATCTCCTTACA
1 ATAGGAACATCTCCTTACA
85304156 A
1 A
85304157 ACTTGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (19 bp):
ATAGGAACATCTCCTTACA
Found at i:85305614 original size:8 final size:8
Alignment explanation
Indices: 85305603--85305631 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
85305593 TATTAGTTTA
85305603 TTTAGGTG
1 TTTAGGTG
85305611 TTTAGGTG
1 TTTAGGTG
85305619 TTTAGGTG
1 TTTAGGTG
85305627 TTTAG
1 TTTAG
85305632 TTTATTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.34, T:0.52
Consensus pattern (8 bp):
TTTAGGTG
Found at i:85307098 original size:6 final size:6
Alignment explanation
Indices: 85307089--85307123 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
85307079 TTGTTTTTCC
85307089 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
85307124 CAAGTTCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:85311087 original size:27 final size:27
Alignment explanation
Indices: 85311053--85311226 Score: 194
Period size: 27 Copynumber: 6.6 Consensus size: 27
85311043 TAAATTGTAC
*
85311053 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
85311080 TGCACTAAGTGTGCGAAATGA-AATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
85311105 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
85311133 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
85311160 AGCACTAAGTGTGCG-A-TGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
85311185 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
85311212 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85311227 GACTCAATAT
Statistics
Matches: 124, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
25 22 0.18
26 22 0.18
27 80 0.65
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:85311113 original size:53 final size:53
Alignment explanation
Indices: 85311053--85311200 Score: 176
Period size: 53 Copynumber: 2.8 Consensus size: 53
85311043 TAAATTGTAC
*
85311053 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGA-AATG-
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAAATGACAATGT
* * ** *
85311105 ATGCACTAAGTGTGCGAATTGACCATGTGGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAAATGACAATGT
* *
85311160 AGCACTAAGTGTGCGA-TGATTACGTAGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGA
85311201 GTTGATTATA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
52 22 0.27
53 42 0.51
54 18 0.22
55 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGACAATGT
Found at i:85311200 original size:52 final size:52
Alignment explanation
Indices: 85311053--85311226 Score: 199
Period size: 52 Copynumber: 3.3 Consensus size: 52
85311043 TAAATTGTAC
* ** *
85311053 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAAATG-
1 AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAGTTGATATGT
* *
85311105 ATGCACTAAGTGTGCGAATTGACCATGTGGCACTAAGTGTGCGAGTTGACTATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAGTTGA-TATGT
* * *
85311160 AGCACTAAGTGTGCGA-TGATTACGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAGTTGA-TATGT
*
85311212 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85311227 GACTCAATAT
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
52 45 0.42
53 42 0.40
54 18 0.17
55 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (52 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAGTTGATATGT
Found at i:85319100 original size:27 final size:27
Alignment explanation
Indices: 85319066--85319218 Score: 148
Period size: 27 Copynumber: 5.6 Consensus size: 27
85319056 TAAATTGTAC
*
85319066 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
85319093 TGCACTAAGTGTGCGAAATGA-AATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
85319118 ATGCACTAAGTGTGCGAATTGACCATTAATGT
1 A-GCACTAAGTGTGCGAATTGA-C--T-ATGT
* * *
85319150 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
85319177 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
85319204 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
85319219 GACTCAATAT
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
26 22 0.21
27 59 0.56
28 1 0.01
31 22 0.21
32 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:85319129 original size:26 final size:27
Alignment explanation
Indices: 85319067--85319140 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
85319057 AAATTGTACA
** * *
85319067 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAAATGACAATGAT
85319094 GCACTAAGTGTGCGAAATGA-AATGAT
1 GCACTAAGTGTGCGAAATGACAATGAT
*
85319120 GCACTAAGTGTGCGAATTGAC
1 GCACTAAGTGTGCGAAATGAC
85319141 CATTAATGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 23 0.56
27 18 0.44
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAAATGACAATGAT
Found at i:85321006 original size:27 final size:27
Alignment explanation
Indices: 85320971--85321027 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
85320961 TACTAGATAC
*
85320971 CCCTATGTATGCAAAATTACCATTATA
1 CCCTATGTATGCAAAATGACCATTATA
*
85320998 CCCTATGTATGCAAAATGACCTTTATA
1 CCCTATGTATGCAAAATGACCATTATA
85321025 CCC
1 CCC
85321028 CTAGGGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (27 bp):
CCCTATGTATGCAAAATGACCATTATA
Found at i:85321193 original size:27 final size:27
Alignment explanation
Indices: 85321135--85321224 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
85321125 AGGAAGCGTC
85321135 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
85321163 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
85321190 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
85321219 CTGGTG
1 CTGGTG
85321225 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:85321243 original size:55 final size:56
Alignment explanation
Indices: 85321135--85321249 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
85321125 AGGAAGCGTC
* *
85321135 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
85321190 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
85321246 CTGG
1 CTGG
85321250 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:85322325 original size:11 final size:10
Alignment explanation
Indices: 85322297--85322330 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
85322287 AGCCTGTAAG
85322297 TATTCTGAAT
1 TATTCTGAAT
*
85322307 TTTTCTGAAT
1 TATTCTGAAT
85322317 ATATTCTGAAT
1 -TATTCTGAAT
85322328 TAT
1 TAT
85322331 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Done.