Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 78 of 210
Found at i:27182585 original size:54 final size:54
Alignment explanation
Indices: 27182518--27182622 Score: 124
Period size: 54 Copynumber: 1.9 Consensus size: 54
27182508 ATGGGTGTAC
* *
27182518 GACACGACTGTGTGACCCTA-CACAGAAAGTTACACGG-GTGAGGACACGGGCTGG
1 GACACGACCGTGTGACCCTAGCACA-AAAGTTACACGGCCTGA-GACACGGGCTGG
* * **
27182572 GACACGGCCGTGTGTCCCTAGTTCAAAAGTTACACGGCCTGAGACACGGGC
1 GACACGACCGTGTGACCCTAGCACAAAAGTTACACGGCCTGAGACACGGGC
27182623 ATGTGTCTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
54 38 0.88
55 5 0.12
ACGTcount: A:0.26, C:0.27, G:0.31, T:0.16
Consensus pattern (54 bp):
GACACGACCGTGTGACCCTAGCACAAAAGTTACACGGCCTGAGACACGGGCTGG
Found at i:27210420 original size:54 final size:54
Alignment explanation
Indices: 27210297--27210408 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
27210287 ACACACGACC
* * **
27210297 GTGTCCCAGCTCGTGTCTCTGCCCGTGTAACTCACTGGCTTGAGACACATGGCT
1 GTGTCCCAGCTCGTGTCTCTGCCCGTGTAACTCACTGACCTGAGACACACAGCT
* * * *
27210351 GTGTCCCAGCTCGTGTCTCTGCCTGTGTAACTCTCTGACCTGGGTCACACAGCT
1 GTGTCCCAGCTCGTGTCTCTGCCCGTGTAACTCACTGACCTGAGACACACAGCT
27210405 GTGT
1 GTGT
27210409 GCTAGACCGT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.13, C:0.31, G:0.26, T:0.29
Consensus pattern (54 bp):
GTGTCCCAGCTCGTGTCTCTGCCCGTGTAACTCACTGACCTGAGACACACAGCT
Found at i:27210613 original size:20 final size:21
Alignment explanation
Indices: 27210588--27210628 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27210578 ATTTACCAAC
27210588 CATTTAA-CATACTCAAAACA
1 CATTTAAGCATACTCAAAACA
* *
27210608 CATTTAAGCATGCTTAAAACA
1 CATTTAAGCATACTCAAAACA
27210629 TGTCAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.46, C:0.22, G:0.05, T:0.27
Consensus pattern (21 bp):
CATTTAAGCATACTCAAAACA
Found at i:27213719 original size:24 final size:24
Alignment explanation
Indices: 27213687--27213738 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27213677 TTCGTAGGTC
** *
27213687 AAATAAATTATGTTAATAAATTCT
1 AAATAAATTATACTAATAAATACT
27213711 AAATAAATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
27213735 AAAT
1 AAAT
27213739 CTTCTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:27215034 original size:21 final size:20
Alignment explanation
Indices: 27215004--27215045 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
27214994 AATAGAAATA
* *
27215004 ATAATAATAATAAATATAAC
1 ATAATAATAAAAAATAAAAC
27215024 ATAATTAATAAAAAATAAAAC
1 ATAA-TAATAAAAAATAAAAC
27215045 A
1 A
27215046 ACGAATTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAATAATAAAAAATAAAAC
Found at i:27217280 original size:2 final size:2
Alignment explanation
Indices: 27217275--27217300 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27217265 TTTTTTTTAA
27217275 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27217301 TAGTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27232168 original size:29 final size:29
Alignment explanation
Indices: 27232130--27232265 Score: 123
Period size: 31 Copynumber: 4.6 Consensus size: 29
27232120 AAAATTAACT
**
27232130 AATTACATTTTGGTCTCCAACTTTCCTAA
1 AATTACATTTTGCCCTCCAACTTTCCTAA
* * *
27232159 AATTACATTTTAACCCT-AAATTTTCCTAA
1 AATTACATTTT-GCCCTCCAACTTTCCTAA
*
27232188 AATTACA-TTTGACCCTCTAACTTTTCCTAA
1 AATTACATTTTG-CCCTCCAAC-TTTCCTAA
* * *
27232218 AATTACATTTTAACCCTCTAAATTTTCCTAA
1 AATTACATTTT-GCCCTC-CAACTTTCCTAA
27232249 AATTACATTTTGACCCT
1 AATTACATTTTG-CCCT
27232266 GAAAATTTTG
Statistics
Matches: 87, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
28 7 0.08
29 30 0.34
30 17 0.20
31 31 0.36
32 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
AATTACATTTTGCCCTCCAACTTTCCTAA
Found at i:27232237 original size:31 final size:31
Alignment explanation
Indices: 27232151--27232274 Score: 182
Period size: 31 Copynumber: 4.1 Consensus size: 31
27232141 GGTCTCCAAC
27232151 TTTCCTAAAATTACATTTTAA-CC-CTAAAT
1 TTTCCTAAAATTACATTTTAACCCTCTAAAT
* *
27232180 TTTCCTAAAATTACA-TTTGACCCTCTAACT
1 TTTCCTAAAATTACATTTTAACCCTCTAAAT
27232210 TTTCCTAAAATTACATTTTAACCCTCTAAAT
1 TTTCCTAAAATTACATTTTAACCCTCTAAAT
* **
27232241 TTTCCTAAAATTACATTTTGACCCTGAAAAT
1 TTTCCTAAAATTACATTTTAACCCTCTAAAT
27232272 TTT
1 TTT
27232275 GCATCCTCTA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.05
29 17 0.20
30 20 0.24
31 44 0.52
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.42
Consensus pattern (31 bp):
TTTCCTAAAATTACATTTTAACCCTCTAAAT
Found at i:27232824 original size:11 final size:11
Alignment explanation
Indices: 27232808--27232869 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
27232798 GGGAAGAGAA
27232808 AAAAGAGGAAG
1 AAAAGAGGAAG
*
27232819 AAAAGAGAAGAAA
1 AAAAGAG--GAAG
*
27232832 AAAAGAGAAAG
1 AAAAGAGGAAG
*
27232843 AAGAGA-GAAG
1 AAAAGAGGAAG
27232853 AGAAAGAGG-AG
1 A-AAAGAGGAAG
27232864 AAAAGA
1 AAAAGA
27232870 TATGAGGGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
10 9 0.22
11 21 0.51
12 1 0.02
13 10 0.24
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (11 bp):
AAAAGAGGAAG
Found at i:27232833 original size:24 final size:24
Alignment explanation
Indices: 27232800--27232869 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
27232790 AACAAAACGG
27232800 GAAGAGAAAAAAGAGGAAGAAAAGA
1 GAAGA-AAAAAAGAGGAAGAAAAGA
* *
27232825 GAAGAAAAAAAGAGAAAGAAGAGA
1 GAAGAAAAAAAGAGGAAGAAAAGA
*
27232849 GAAG--AGAAAGAGG-AGAAAAGA
1 GAAGAAAAAAAGAGGAAGAAAAGA
27232870 TATGAGGGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 7 0.17
22 7 0.17
24 21 0.52
25 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
GAAGAAAAAAAGAGGAAGAAAAGA
Found at i:27232848 original size:9 final size:9
Alignment explanation
Indices: 27232800--27232866 Score: 54
Period size: 9 Copynumber: 8.0 Consensus size: 9
27232790 AACAAAACGG
27232800 GAAGAGAAA
1 GAAGAGAAA
* *
27232809 AAAGAGGAA
1 GAAGAGAAA
*
27232818 GAA-A-AGA
1 GAAGAGAAA
27232825 GAAGA-AAA
1 GAAGAGAAA
*
27232833 AAAGAGAAA
1 GAAGAGAAA
27232842 GAAGAG--A
1 GAAGAGAAA
27232849 GAAGAGAAA
1 GAAGAGAAA
*
27232858 GAGGAGAAA
1 GAAGAGAAA
27232867 AGATATGAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
7 11 0.24
8 8 0.18
9 26 0.58
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (9 bp):
GAAGAGAAA
Found at i:27232976 original size:17 final size:16
Alignment explanation
Indices: 27232954--27232989 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
27232944 GGTTTGAGTT
*
27232954 GAAAGAAGAAGGAAAAA
1 GAAAGAA-AAAGAAAAA
27232971 GAAAGAAAAAGAAAAA
1 GAAAGAAAAAGAAAAA
27232987 GAA
1 GAA
27232990 CAGTCGGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAAGAAAAA
Found at i:27236838 original size:23 final size:23
Alignment explanation
Indices: 27236788--27236841 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
27236778 GAATAATAAG
27236788 AATAAAAACAAAAATAAGATAAAC
1 AATAAAAACAAAAAT-AGATAAAC
* *
27236812 AATAAAAGCAAAAAT-GATGAAAT
1 AATAAAAACAAAAATAGAT-AAAC
27236835 AATAAAA
1 AATAAAA
27236842 TAGTAAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 3 0.11
23 10 0.37
24 14 0.52
ACGTcount: A:0.72, C:0.06, G:0.07, T:0.15
Consensus pattern (23 bp):
AATAAAAACAAAAATAGATAAAC
Found at i:27236974 original size:3 final size:3
Alignment explanation
Indices: 27236966--27237114 Score: 68
Period size: 3 Copynumber: 49.0 Consensus size: 3
27236956 ATAACAATGT
* * * * * *
27236966 ATA ATA ATA ACA ATA GTA GTA AAA ATA GA-A ATA ATA ATA TTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * * *
27237011 ATA AAA AAA ATA ATG ATA ATG ATA ATA ATA A-A GTA AGTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
* * ** * * * *
27237056 ATA ATA ACA CGATG ATA ATA ATA GCA ATA TTA AAA ATA ATA GTA ACA
1 ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
27237103 ATA ATG ATA ATA
1 ATA ATA ATA ATA
27237115 CTACCGAAAT
Statistics
Matches: 105, Mismatches: 35, Indels: 12
0.69 0.23 0.08
Matches are distributed among these distances:
2 2 0.02
3 98 0.93
4 4 0.04
5 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:27237459 original size:21 final size:21
Alignment explanation
Indices: 27237435--27237476 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27237425 TTTATAGCCA
27237435 CGACTACATCGCTATATCACT
1 CGACTACATCGCTATATCACT
27237456 CGACTACATCGCTATATCACT
1 CGACTACATCGCTATATCACT
27237477 GTTCTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (21 bp):
CGACTACATCGCTATATCACT
Found at i:27238776 original size:20 final size:20
Alignment explanation
Indices: 27238751--27238798 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
27238741 AAAGTAATAC
*
27238751 ATGAAAGAATTATTTAAAAT
1 ATGAAAGAATTACTTAAAAT
*
27238771 ATGAAAGAGTTACTTAAAAT
1 ATGAAAGAATTACTTAAAAT
27238791 AT-AAAGAA
1 ATGAAAGAA
27238799 AAAGTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (20 bp):
ATGAAAGAATTACTTAAAAT
Found at i:27239781 original size:17 final size:20
Alignment explanation
Indices: 27239759--27239805 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
27239749 AGTTATTGTG
27239759 TATTATTATT-C-T-AAAGT
1 TATTATTATTACTTAAAAGT
27239776 TATTATTATTACTTAAAAGT
1 TATTATTATTACTTAAAAGT
27239796 TA-TATTATTA
1 TATTATTATTA
27239806 TTTTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.37
18 1 0.04
19 9 0.33
20 7 0.26
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (20 bp):
TATTATTATTACTTAAAAGT
Found at i:27239784 original size:20 final size:18
Alignment explanation
Indices: 27239759--27239807 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
27239749 AGTTATTGTG
*
27239759 TATTATTATTCTAAAGTTA
1 TATTATTATT-AAAAGTTA
27239778 TTATTATTACTTAAAAGTTA
1 -TATTATTA-TTAAAAGTTA
27239798 TATTATTATT
1 TATTATTATT
27239808 TTTAATTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 8 0.30
20 15 0.56
21 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (18 bp):
TATTATTATTAAAAGTTA
Found at i:27246658 original size:26 final size:25
Alignment explanation
Indices: 27246610--27246658 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
27246600 ATCAATCATC
* **
27246610 TAGTAAAGATTTAATAATTTATTTT
1 TAGTAAAAATTTAATAACATATTTT
27246635 TAGTAATAAATTTAATAACATATT
1 TAGTAA-AAATTTAATAACATATT
27246659 AATAACTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (25 bp):
TAGTAAAAATTTAATAACATATTTT
Found at i:27250688 original size:11 final size:11
Alignment explanation
Indices: 27250672--27250697 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27250662 AAAAATTATA
27250672 AAAATGTTTCT
1 AAAATGTTTCT
27250683 AAAATGTTTCT
1 AAAATGTTTCT
27250694 AAAA
1 AAAA
27250698 AATTCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAATGTTTCT
Found at i:27250698 original size:12 final size:12
Alignment explanation
Indices: 27250670--27250698 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
27250660 TTAAAAATTA
27250670 TAAAAATGTTTC
1 TAAAAATGTTTC
27250682 T-AAAATGTTTC
1 TAAAAATGTTTC
27250693 TAAAAA
1 TAAAAA
27250699 ATTCTAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (12 bp):
TAAAAATGTTTC
Found at i:27250831 original size:19 final size:20
Alignment explanation
Indices: 27250809--27250853 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
27250799 AAGAATTTCC
*
27250809 AAAATAT-TAAAAATTTCAT
1 AAAATATCTAAAAATTTCAA
*
27250828 AAAA-ATCTAAAAATTTTAA
1 AAAATATCTAAAAATTTCAA
27250847 AAAATAT
1 AAAATAT
27250854 ATGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 18 0.82
20 2 0.09
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATCTAAAAATTTCAA
Found at i:27250988 original size:19 final size:20
Alignment explanation
Indices: 27250959--27251000 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
27250949 TGAAATTTTT
*
27250959 AATATAAAATTTGAGAAAAA
1 AATATAAAATTTGAAAAAAA
27250979 AATA-AAAATTTGAAAAAAA
1 AATATAAAATTTGAAAAAAA
27250998 AAT
1 AAT
27251001 GTTGTTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (20 bp):
AATATAAAATTTGAAAAAAA
Found at i:27255042 original size:107 final size:111
Alignment explanation
Indices: 27254917--27255127 Score: 299
Period size: 111 Copynumber: 1.9 Consensus size: 111
27254907 TTAATAGGGA
*
27254917 TTTTTTATATAAAATAATTAAAATGCTCATT-GTATGTAA-ATTTATTA-TATA-ATATGCATAT
1 TTTTTTATATAAAATAATTAAAATACTCATTCG-ATGTAATATTTATTATTATAGATATGCATAT
*
27254978 GAATTGAT-GAAAATATATTTTATTGTTT-TTATTATATTCATTAGAG
65 GAATTGATAG-AAATATATTTTATTCTTTATTATTATATTCATTAGAG
* * *
27255024 TTTTTTATATAAAATAATTGAAGTACTTATTCGATGTAATATTTATTATTATATGATATGCATAT
1 TTTTTTATATAAAATAATTAAAATACTCATTCGATGTAATATTTATTATTATA-GATATGCATAT
*
27255089 GAATTGATAGAAATATCTTTTATTCTTTATTATTATATT
65 GAATTGATAGAAATATATTTTATTCTTTATTATTATATT
27255128 TTATTGACAT
Statistics
Matches: 91, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
107 33 0.36
108 9 0.10
109 4 0.04
111 34 0.37
112 11 0.12
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (111 bp):
TTTTTTATATAAAATAATTAAAATACTCATTCGATGTAATATTTATTATTATAGATATGCATATG
AATTGATAGAAATATATTTTATTCTTTATTATTATATTCATTAGAG
Found at i:27256915 original size:13 final size:13
Alignment explanation
Indices: 27256899--27256948 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
27256889 TTTAAACTAA
27256899 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
27256912 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
27256925 ATTTTTTCAGAA-C
1 A-CTTTTCAAAAGC
27256938 ACTTTTCAAAA
1 ACTTTTCAAAA
27256949 ACAATGAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
12 8 0.27
13 15 0.50
14 7 0.23
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:27261445 original size:19 final size:19
Alignment explanation
Indices: 27261370--27261445 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
27261360 TTTTGTTTCC
27261370 AACCATTTCTGACAAAAAT
1 AACCATTTCTGACAAAAAT
* * *
27261389 TACCGTTTTTGACAAAAACT
1 AACCATTTCTGACAAAAA-T
* * *
27261409 AATCATTGCTCACAAAAAT
1 AACCATTTCTGACAAAAAT
*
27261428 CACCATTTCTGACGAAAA
1 AACCATTTCTGAC-AAAA
27261446 CTAGTTTGGG
Statistics
Matches: 42, Mismatches: 13, Indels: 3
0.72 0.22 0.05
Matches are distributed among these distances:
19 25 0.60
20 17 0.40
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (19 bp):
AACCATTTCTGACAAAAAT
Found at i:27262106 original size:10 final size:10
Alignment explanation
Indices: 27262091--27262191 Score: 57
Period size: 10 Copynumber: 10.4 Consensus size: 10
27262081 TTTTTCAAAT
*
27262091 AATTATAAAA
1 AATTATTAAA
*
27262101 AATTATTGAA
1 AATTATTAAA
**
27262111 AA-TATGGAA
1 AATTATTAAA
*
27262120 AATTATTTAAG
1 AATTA-TTAAA
*
27262131 AA-TATTAAT
1 AATTATTAAA
*
27262140 AATTATAAAA
1 AATTATTAAA
* *
27262150 AATTACT-GA
1 AATTATTAAA
27262159 AATTATTAAA
1 AATTATTAAA
* *
27262169 AGTTAATAAA
1 AATTATTAAA
*
27262179 AA-TATTTAA
1 AATTATTAAA
27262188 AATT
1 AATT
27262192 TAATTAATTA
Statistics
Matches: 67, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
9 28 0.42
10 35 0.52
11 4 0.06
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (10 bp):
AATTATTAAA
Found at i:27262646 original size:30 final size:30
Alignment explanation
Indices: 27262610--27262674 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
27262600 TTTTAATACT
27262610 TTTTTAAAAAATTAT-TATA-ATTCTTGATAA
1 TTTTTAAAAAATTATCTATATATT-TT-ATAA
* *
27262640 TTTTTAAATAATTTTCTATATATTTTATAA
1 TTTTTAAAAAATTATCTATATATTTTATAA
27262670 TTTTT
1 TTTTT
27262675 TTTAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 22 0.71
31 6 0.19
32 3 0.10
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (30 bp):
TTTTTAAAAAATTATCTATATATTTTATAA
Found at i:27268611 original size:15 final size:15
Alignment explanation
Indices: 27268585--27268627 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
27268575 AAAATTAGGT
27268585 TAAAATATTTTAAACA
1 TAAAA-ATTTTAAACA
*
27268601 TAAAAATTTTAAATA
1 TAAAAATTTTAAACA
*
27268616 -AAAAATTCTAAA
1 TAAAAATTTTAAA
27268628 AATTCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAAATTTTAAACA
Found at i:27268881 original size:20 final size:20
Alignment explanation
Indices: 27268866--27268938 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 20
27268856 TTTTAACGTA
27268866 ATTTTTAATTTTTTAAATAT
1 ATTTTTAATTTTTTAAATAT
*
27268886 ATTTTTAATAATTTT-AATA-
1 ATTTTTAAT-TTTTTAAATAT
* * *
27268905 ATTTGTATTTATTTTTAAGATTT
1 ATTTTTA-AT-TTTTTAA-ATAT
27268928 ATTTTTAATTT
1 ATTTTTAATTT
27268939 CTTTTTTAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
19 6 0.15
20 19 0.46
21 7 0.17
22 3 0.07
23 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTTAATTTTTTAAATAT
Found at i:27268929 original size:13 final size:13
Alignment explanation
Indices: 27268911--27268961 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
27268901 AATAATTTGT
27268911 ATTTATTTTTAAG
1 ATTTATTTTTAAG
27268924 ATTTATTTTT-A-
1 ATTTATTTTTAAG
* *
27268935 ATTTCTTTTTTAG
1 ATTTATTTTTAAG
* *
27268948 AATTATTGTTAAG
1 ATTTATTTTTAAG
27268961 A
1 A
27268962 AAACTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 9 0.29
12 2 0.06
13 20 0.65
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (13 bp):
ATTTATTTTTAAG
Found at i:27268943 original size:24 final size:24
Alignment explanation
Indices: 27268911--27268959 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
27268901 AATAATTTGT
* *
27268911 ATTTATTTTTAAGATTTATTTTTA
1 ATTTATTTTTAAGAATTATTGTTA
* *
27268935 ATTTCTTTTTTAGAATTATTGTTA
1 ATTTATTTTTAAGAATTATTGTTA
27268959 A
1 A
27268960 GAAAACTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTTATTTTTAAGAATTATTGTTA
Found at i:27279386 original size:3 final size:3
Alignment explanation
Indices: 27279375--27279416 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
27279365 TTTTTAAAAA
* * *
27279375 AAT AA- AAT AAT AAT AAC AAC AAC AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27279417 GAAAGCGTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:27286960 original size:11 final size:9
Alignment explanation
Indices: 27286921--27286963 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
27286911 TCATTTTAAC
*
27286921 TAAACAAAA
1 TAAATAAAA
27286930 GTAAATAAAA
1 -TAAATAAAA
27286940 TAAATAAAA
1 TAAATAAAA
27286949 TGAAAGTAAAA
1 T-AAA-TAAAA
27286960 TAAA
1 TAAA
27286964 ATAATGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 10 0.33
10 14 0.47
11 6 0.20
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (9 bp):
TAAATAAAA
Found at i:27286975 original size:20 final size:20
Alignment explanation
Indices: 27286935--27286972 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27286925 CAAAAGTAAA
27286935 TAAAATAAATAAAATGAAAG
1 TAAAATAAATAAAATGAAAG
*
27286955 TAAAATAAA-ATAATGAAA
1 TAAAATAAATAAAATGAAA
27286973 AGTTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
TAAAATAAATAAAATGAAAG
Found at i:27289088 original size:119 final size:119
Alignment explanation
Indices: 27288872--27289110 Score: 460
Period size: 119 Copynumber: 2.0 Consensus size: 119
27288862 GCATGTATAC
*
27288872 AACAAGCATAAAACTTAGACTGAACTTTCAAAAGTTCCCAAAATTCTTGTCAAAGTTTCTTGTGA
1 AACAAGCATAAAACATAGACTGAACTTTCAAAAGTTCCCAAAATTCTTGTCAAAGTTTCTTGTGA
27288937 CTGTTGATACAGCCAAAATTAATAATTAAAAAAGAAAAGGAACCACCACTTTGA
66 CTGTTGATACAGCCAAAATTAATAATTAAAAAAGAAAAGGAACCACCACTTTGA
27288991 AACAAGCATAAAACATAGACTGAACTTTCAAAAGTTCCCAAAATTCTTGTCAAAGTTTCTTGTGA
1 AACAAGCATAAAACATAGACTGAACTTTCAAAAGTTCCCAAAATTCTTGTCAAAGTTTCTTGTGA
27289056 CTGTTGATACAGCCAAAATTTAATAATTAAAAAAGAAAAGGAACCACCACTTTGA
66 CTGTTGATACAGCCAAAA-TTAATAATTAAAAAAGAAAAGGAACCACCACTTTGA
27289111 CTCATAAAAC
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
119 82 0.69
120 36 0.31
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.27
Consensus pattern (119 bp):
AACAAGCATAAAACATAGACTGAACTTTCAAAAGTTCCCAAAATTCTTGTCAAAGTTTCTTGTGA
CTGTTGATACAGCCAAAATTAATAATTAAAAAAGAAAAGGAACCACCACTTTGA
Found at i:27303789 original size:24 final size:24
Alignment explanation
Indices: 27303762--27303807 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
27303752 CTTGAAACCA
27303762 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
*
27303786 TTTCCACAGTTCCTCTCTTCAC
1 TTTCCACAGCTCCTCTCTTCAC
27303808 TCTCTTCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.46, G:0.04, T:0.37
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:27312774 original size:111 final size:111
Alignment explanation
Indices: 27312577--27312799 Score: 360
Period size: 111 Copynumber: 2.0 Consensus size: 111
27312567 GAATGGACCT
* * * *
27312577 AACTGTTGGAAAAATTAGTTTATAAAATAGTGTTTTTAAGCACGGTAAAAGTTTAAAAAGTTTCT
1 AACTGTTGGAAAAATTAGTTTACAAAAAAGTATTTTTAAGCACAGTAAAAGTTTAAAAAGTTTCT
*
27312642 TAAAATCGAGTATTGTGATATTTATAACAATAAACTCTTAACCAAA
66 TAAAATCGAGTATTGTAATATTTATAACAATAAACTCTTAACCAAA
*
27312688 AACTGTTGGAAAAATCT-GTTTACAAAAAAGTATTTTTAAGCACAGTGAAAGTTTAAAAAGTTTC
1 AACTGTTGGAAAAAT-TAGTTTACAAAAAAGTATTTTTAAGCACAGTAAAAGTTTAAAAAGTTTC
27312752 TTAAAATCGAGCT-TTGTAATATTTATAACAATAAACTCTTAACCAAA
65 TTAAAATCGAG-TATTGTAATATTTATAACAATAAACTCTTAACCAAA
27312799 A
1 A
27312800 TTATGCATGT
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
111 102 0.98
112 2 0.02
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (111 bp):
AACTGTTGGAAAAATTAGTTTACAAAAAAGTATTTTTAAGCACAGTAAAAGTTTAAAAAGTTTCT
TAAAATCGAGTATTGTAATATTTATAACAATAAACTCTTAACCAAA
Found at i:27313034 original size:11 final size:11
Alignment explanation
Indices: 27313018--27313045 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27313008 CACTAGTTAT
27313018 CTAATATTTAA
1 CTAATATTTAA
27313029 CTAATATTTAA
1 CTAATATTTAA
27313040 CTAATA
1 CTAATA
27313046 CTAAACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (11 bp):
CTAATATTTAA
Found at i:27314181 original size:16 final size:17
Alignment explanation
Indices: 27314160--27314192 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27314150 TTGAGTTTAG
27314160 AAAATT-ATTTAGTTAA
1 AAAATTAATTTAGTTAA
27314176 AAAATTAATTTAGTTAA
1 AAAATTAATTTAGTTAA
27314193 TTTAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
AAAATTAATTTAGTTAA
Found at i:27316343 original size:87 final size:87
Alignment explanation
Indices: 27316241--27316777 Score: 1074
Period size: 87 Copynumber: 6.2 Consensus size: 87
27316231 TTACAACTTC
27316241 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
1 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
27316306 TTAAAAAATATTTTACATTAAT
66 TTAAAAAATATTTTACATTAAT
27316328 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
1 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
27316393 TTAAAAAATATTTTACATTAAT
66 TTAAAAAATATTTTACATTAAT
27316415 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
1 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
27316480 TTAAAAAATATTTTACATTAAT
66 TTAAAAAATATTTTACATTAAT
27316502 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
1 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
27316567 TTAAAAAATATTTTACATTAAT
66 TTAAAAAATATTTTACATTAAT
27316589 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
1 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
27316654 TTAAAAAATATTTTACATTAAT
66 TTAAAAAATATTTTACATTAAT
27316676 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
1 ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
27316741 TTAAAAAATATTTTACATTAAT
66 TTAAAAAATATTTTACATTAAT
27316763 ATTTTAATAATAAAT
1 ATTTTAATAATAAAT
27316778 GTATATTACA
Statistics
Matches: 450, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 450 1.00
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (87 bp):
ATTTTAATAATAAATCTTAAAATTAGAAATAAATTTAAAATTTAAATATTATTCTTAATATTTTA
TTAAAAAATATTTTACATTAAT
Found at i:27316800 original size:35 final size:37
Alignment explanation
Indices: 27316760--27316849 Score: 105
Period size: 34 Copynumber: 2.5 Consensus size: 37
27316750 ATTTTACATT
**
27316760 AATATTTTAATAATAAATG-TATAT-TACAATTTATA
1 AATATTTTAATAATAAATGTTATATATACAAAATATA
* * *
27316795 AATA-TTTAGTAATAAATGTTATATAGTATAAAATATG
1 AATATTTTAATAATAAATGTTATATA-TACAAAATATA
27316832 AATATTTTAATAATAAAT
1 AATATTTTAATAATAAAT
27316850 ATGCTTATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
34 13 0.29
35 9 0.20
37 11 0.24
38 12 0.27
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (37 bp):
AATATTTTAATAATAAATGTTATATATACAAAATATA
Found at i:27319034 original size:3 final size:3
Alignment explanation
Indices: 27319026--27319060 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
27319016 NNNNNNNNNN
27319026 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
27319061 AAATGAGTGG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:27322170 original size:16 final size:16
Alignment explanation
Indices: 27322149--27322194 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
27322139 ATATTTTTTT
*
27322149 ATAAAAATAAATTTAA
1 ATAAAAATAAATATAA
27322165 ATAAAAAGT-AATATAA
1 ATAAAAA-TAAATATAA
27322181 A-AAAAATCAAATAT
1 ATAAAAAT-AAATAT
27322195 GGACTAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.04
15 5 0.19
16 19 0.73
17 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAAAAATAAATATAA
Found at i:27324608 original size:22 final size:23
Alignment explanation
Indices: 27324583--27324633 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
27324573 AAATTAACAC
27324583 AATTTTTTAAAA-AAATTATAAT
1 AATTTTTTAAAATAAATTATAAT
27324605 AA--TTTTAAAATTAAATTATAAT
1 AATTTTTTAAAA-TAAATTATAAT
*
27324627 TATTTTT
1 AATTTTT
27324634 AACTAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 8 0.33
22 13 0.54
24 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTTTTTAAAATAAATTATAAT
Found at i:27345380 original size:30 final size:30
Alignment explanation
Indices: 27345346--27345408 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
27345336 ACTTAACAAG
27345346 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
27345376 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
27345406 CAA
1 CAA
27345409 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:27346976 original size:15 final size:15
Alignment explanation
Indices: 27346956--27346998 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 15
27346946 ATTACACATA
27346956 TAAAAATTATATTTAT
1 TAAAAATTATATTT-T
27346972 TAAAAAAATTATATTTT
1 T--AAAAATTATATTTT
*
27346989 TAATAATTAT
1 TAAAAATTAT
27346999 TTGATTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.33
16 1 0.04
17 2 0.08
18 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TAAAAATTATATTTT
Found at i:27346980 original size:18 final size:17
Alignment explanation
Indices: 27346957--27346991 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
27346947 TTACACATAT
27346957 AAAAATTATATTTATTAA
1 AAAAATTATATTT-TTAA
27346975 AAAAATTATATTTTTAA
1 AAAAATTATATTTTTAA
27346992 TAATTATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAAATTATATTTTTAA
Found at i:27350444 original size:18 final size:18
Alignment explanation
Indices: 27350411--27350445 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27350401 AAAGGAGCTT
*
27350411 GCTGGGTTGGTGGAGTTA
1 GCTGGGTTGGTCGAGTTA
*
27350429 GCTGGGTTTGTCGAGTT
1 GCTGGGTTGGTCGAGTT
27350446 GAGAGGAGCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.46, T:0.37
Consensus pattern (18 bp):
GCTGGGTTGGTCGAGTTA
Found at i:27356501 original size:3 final size:3
Alignment explanation
Indices: 27356488--27356518 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
27356478 TCTGGATCTG
27356488 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27356519 TTTAAACTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:27356617 original size:25 final size:24
Alignment explanation
Indices: 27356571--27356624 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
27356561 TTATTTTATC
*
27356571 ATTAGATTAATTATTTTAATTACT
1 ATTATATTAATTATTTTAATTACT
27356595 ATTATATTACATTATTATT-ATTACT
1 ATTATATTA-ATTATT-TTAATTACT
*
27356620 GTTAT
1 ATTAT
27356625 GACTTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 16 0.62
26 2 0.08
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTATATTAATTATTTTAATTACT
Found at i:27357376 original size:107 final size:108
Alignment explanation
Indices: 27357247--27357463 Score: 391
Period size: 107 Copynumber: 2.0 Consensus size: 108
27357237 CATCAAAAGG
27357247 AAGATTTTTCTAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCT
1 AAGATTTTTCTAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCT
*
27357312 GGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
66 GGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
* *
27357355 AAGA-TTTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCT
1 AAGATTTTTCTAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCT
*
27357419 GGGTTTCGATTTCTCGTTCGACTAAATAGCCAAATATCCTCTT
66 GGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
27357462 AA
1 AA
27357464 ACTTCAAAGT
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 101 0.96
108 4 0.04
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (108 bp):
AAGATTTTTCTAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCT
GGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
Found at i:27357843 original size:109 final size:110
Alignment explanation
Indices: 27357713--27357931 Score: 422
Period size: 109 Copynumber: 2.0 Consensus size: 110
27357703 AATCCTTCCT
27357713 CGTGCGTAACCGACTCCCGAACCCGTTTTCTGAATTTCGCAGACCAAAATCGTTGTTTTAATAAA
1 CGTGCGTAACCGACTCCCGAACCCGTTTTCTGAATTTCGCAGACCAAAATCGTTGTTTTAATAAA
27357778 AATTAAATCGTTTATCAAAAACAACCACTTTTCGAGGTGACCCGA
66 AATTAAATCGTTTATCAAAAACAACCACTTTTCGAGGTGACCCGA
27357823 CGTGCGTAA-CGACTCCCGAACCCGTTTTCTGAATTTCGCAGACCAAAATCGTTGTTTTAATAAA
1 CGTGCGTAACCGACTCCCGAACCCGTTTTCTGAATTTCGCAGACCAAAATCGTTGTTTTAATAAA
*
27357887 AATTAAATCGTTTATCAAAAACAACCCCTTTTCGAGGTGACCCGA
66 AATTAAATCGTTTATCAAAAACAACCACTTTTCGAGGTGACCCGA
27357932 TCACACCTTA
Statistics
Matches: 108, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
109 99 0.92
110 9 0.08
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (110 bp):
CGTGCGTAACCGACTCCCGAACCCGTTTTCTGAATTTCGCAGACCAAAATCGTTGTTTTAATAAA
AATTAAATCGTTTATCAAAAACAACCACTTTTCGAGGTGACCCGA
Found at i:27364153 original size:22 final size:22
Alignment explanation
Indices: 27364125--27364172 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
27364115 TTACTTTTTC
27364125 ATTTATTGTTCTGTTTTCTTTA
1 ATTTATTGTTCTGTTTTCTTTA
27364147 ATTTATTGTTCTGTTTTCTTTA
1 ATTTATTGTTCTGTTTTCTTTA
27364169 ATTT
1 ATTT
27364173 TTTAGGAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (22 bp):
ATTTATTGTTCTGTTTTCTTTA
Found at i:27369762 original size:3 final size:3
Alignment explanation
Indices: 27369719--27369746 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27369709 GCCCTTTAAC
27369719 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
27369747 GGCTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:27374885 original size:3 final size:3
Alignment explanation
Indices: 27374842--27374869 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27374832 GCCCTTTAAC
27374842 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
27374870 GGCTTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:27384188 original size:17 final size:17
Alignment explanation
Indices: 27384166--27384203 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
27384156 CGATAGGTTG
*
27384166 AATTTTTTTAACGGCTA
1 AATTTTTTTAAAGGCTA
*
27384183 AATTTTTTTAAAGGCTT
1 AATTTTTTTAAAGGCTA
27384200 AATT
1 AATT
27384204 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (17 bp):
AATTTTTTTAAAGGCTA
Found at i:27384499 original size:57 final size:58
Alignment explanation
Indices: 27384368--27384501 Score: 162
Period size: 57 Copynumber: 2.3 Consensus size: 58
27384358 AAATTATATT
* * * * *
27384368 AATAGCCACTCAACTATTAGTAGATTTTTTTTTTGTCATCCATCTATGAAAAGTTATAA
1 AATAGTCACTCAACTATTAGTAAATTTCTTTTTTGGCA-CCAACTATGAAAAGTTATAA
* * * *
27384427 AATGGTCCCCCAACTATTAGTAAATTTCTTTTTTGGC-CCAACTCTGAAAAGTTATAA
1 AATAGTCACTCAACTATTAGTAAATTTCTTTTTTGGCACCAACTATGAAAAGTTATAA
*
27384484 AATAGTCACTTAACTATT
1 AATAGTCACTCAACTATT
27384502 CAATTTTATA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
57 32 0.52
59 30 0.48
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (58 bp):
AATAGTCACTCAACTATTAGTAAATTTCTTTTTTGGCACCAACTATGAAAAGTTATAA
Found at i:27385593 original size:19 final size:19
Alignment explanation
Indices: 27385560--27385605 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27385550 CCATTCTTAA
* *
27385560 AAAATATTTTTAAAAAACTT
1 AAAA-ATTTTGAAAAAAATT
27385580 AAAAATTTTGAAAAAAATT
1 AAAAATTTTGAAAAAAATT
*
27385599 TAAAATT
1 AAAAATT
27385606 ATTTTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAATTTTGAAAAAAATT
Found at i:27396692 original size:53 final size:53
Alignment explanation
Indices: 27396629--27396733 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
27396619 ATAGAACACT
*
27396629 TTGGGGTGGTAGATATGAGAATACTTAATTTCAACAGGAAGCTCGGTTGGATG
1 TTGGGGTGGTAGATATGAGAATACTTAATTTCAACAGGAAACTCGGTTGGATG
* *
27396682 TTGGGGTGGTAGATATGAGAATACTTAGTTTCAATAGGAAACTCGGTTGGAT
1 TTGGGGTGGTAGATATGAGAATACTTAATTTCAACAGGAAACTCGGTTGGAT
27396734 TAAGCATAGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (53 bp):
TTGGGGTGGTAGATATGAGAATACTTAATTTCAACAGGAAACTCGGTTGGATG
Found at i:27406569 original size:20 final size:21
Alignment explanation
Indices: 27406540--27406589 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
27406530 ACATACAAAT
* *
27406540 TTATTTAAAAACTATTAAGAA
1 TTATTAAAAAACTATTAAAAA
* *
27406561 TTA-TAAAAAATTGTTAAAAA
1 TTATTAAAAAACTATTAAAAA
27406581 TTATTAAAA
1 TTATTAAAA
27406590 TTAATAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
TTATTAAAAAACTATTAAAAA
Found at i:27406773 original size:52 final size:52
Alignment explanation
Indices: 27406693--27406796 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
27406683 AACTGTTTCT
*
27406693 TAAATAGTTATTAAAAGTTAAACGAAATTATAAAAAATATTAGGAATTATAA
1 TAAATAGTTATTAAAAGTTAAACAAAATTATAAAAAATATTAGGAATTATAA
27406745 TAAATAGTTATTAAAAGTTAAACAAAATTATAAAAAATATTAGGAATTATAA
1 TAAATAGTTATTAAAAGTTAAACAAAATTATAAAAAATATTAGGAATTATAA
27406797 GAATTTGTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (52 bp):
TAAATAGTTATTAAAAGTTAAACAAAATTATAAAAAATATTAGGAATTATAA
Found at i:27406950 original size:64 final size:64
Alignment explanation
Indices: 27406863--27407078 Score: 416
Period size: 64 Copynumber: 3.4 Consensus size: 64
27406853 GAATTCTTTA
*
27406863 ATAA-ATTTTTTTATAATTTCTTATAATTTAAATATATATACATATATAAAATAGTAACTTTTC
1 ATAATATTTGTTTATAATTTCTTATAATTTAAATATATATACATATATAAAATAGTAACTTTTC
27406926 ATAATATTTGTTTATAATTTCTTATAATTTAAATATATATACATATATAAAATAGTAACTTTTC
1 ATAATATTTGTTTATAATTTCTTATAATTTAAATATATATACATATATAAAATAGTAACTTTTC
27406990 ATAATATTTGTTTATAATTTCTTATAATTTAAATATATATACATATATAAAATAGTAACTTTTC
1 ATAATATTTGTTTATAATTTCTTATAATTTAAATATATATACATATATAAAATAGTAACTTTTC
27407054 ATAATATTTGTTTATAATTTCTTAT
1 ATAATATTTGTTTATAATTTCTTAT
27407079 CATTCTTAAT
Statistics
Matches: 151, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
63 4 0.03
64 147 0.97
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (64 bp):
ATAATATTTGTTTATAATTTCTTATAATTTAAATATATATACATATATAAAATAGTAACTTTTC
Found at i:27434494 original size:25 final size:25
Alignment explanation
Indices: 27434446--27434494 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
27434436 CGTTAGTTCA
* * *
27434446 ATTTTTTTTCCAAATTTATGTTTTT
1 ATTTTTTTTCCAAACTCATATTTTT
*
27434471 ATTTTTTTTTCAAACTCATATTTT
1 ATTTTTTTTCCAAACTCATATTTT
27434495 GACATATACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTTTTTTCCAAACTCATATTTTT
Found at i:27442394 original size:51 final size:51
Alignment explanation
Indices: 27442338--27442446 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 51
27442328 AAATGGGTTG
* * *
27442338 TTTTTTTTAATGGAGCCTATCTGAGAGGTGCCAATGAATATTTTATATTAA
1 TTTTTTTTAATGGAGCCTATCTGACAGGCGCCAATCAATATTTTATATTAA
*
27442389 TTTTTTTTAATGGCGCCTATCTGACAGGCGCCAATCAATATTTTATATTAA
1 TTTTTTTTAATGGAGCCTATCTGACAGGCGCCAATCAATATTTTATATTAA
*
27442440 ATTTTTT
1 TTTTTTT
27442447 AATAAAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.45
Consensus pattern (51 bp):
TTTTTTTTAATGGAGCCTATCTGACAGGCGCCAATCAATATTTTATATTAA
Found at i:27444817 original size:60 final size:60
Alignment explanation
Indices: 27444724--27444843 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 60
27444714 AATACTAAAC
* *
27444724 TAAACACAATAATTTATAACTAAATCCCAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACTAAATCCCAAATTACTAACAAATTAATTTTAAAATAATTA
*
27444784 TAAACACAAAAATTTATAAC-ATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACTA-AATCCCAAATTACTAACAAATTAATTTTAAAATAATTA
27444844 AAAAAAGCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 1 0.02
60 55 0.98
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (60 bp):
TAAACACAAAAATTTATAACTAAATCCCAAATTACTAACAAATTAATTTTAAAATAATTA
Found at i:27444965 original size:14 final size:13
Alignment explanation
Indices: 27444940--27444995 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
27444930 TTACCTTTTA
27444940 TTTTTCTTTCTTC
1 TTTTTCTTTCTTC
27444953 TTTTTCTTATCTTC
1 TTTTTCTT-TCTTC
* *
27444967 TTCTCCTTTC-TC
1 TTTTTCTTTCTTC
27444979 TCTTTTCTTTCTCTC
1 T-TTTTCTTTCT-TC
27444994 TT
1 TT
27444996 CCGTTCATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
12 3 0.09
13 17 0.49
14 12 0.34
15 3 0.09
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTCTTTCTTC
Found at i:27444984 original size:27 final size:27
Alignment explanation
Indices: 27444945--27444996 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
27444935 TTTTATTTTT
27444945 CTTTCTTCTTTTTCTTATCT-TCTTCTC
1 CTTTCTTCTTTTTCTT-TCTCTCTTCTC
27444972 CTTTC-TCTCTTTTCTTTCTCTCTTC
1 CTTTCTTCT-TTTTCTTTCTCTCTTC
27444997 CGTTCATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (27 bp):
CTTTCTTCTTTTTCTTTCTCTCTTCTC
Found at i:27445997 original size:13 final size:13
Alignment explanation
Indices: 27445979--27446003 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27445969 TCTTCTTCAC
27445979 TAGATTTAAATGG
1 TAGATTTAAATGG
27445992 TAGATTTAAATG
1 TAGATTTAAATG
27446004 TATGGTAAAA
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:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
TAGATTTAAATGG
Found at i:27452390 original size:8 final size:8
Alignment explanation
Indices: 27452374--27452409 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
27452364 CACGACCTAC
*
27452374 AAAATAAT
1 AAAAAAAT
27452382 AAAAAAAT
1 AAAAAAAT
27452390 AAAAAAAT
1 AAAAAAAT
27452398 -AAAAAAT
1 AAAAAAAT
27452405 AAAAA
1 AAAAA
27452410 CAAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAAAAT
Found at i:27452414 original size:12 final size:11
Alignment explanation
Indices: 27452374--27452420 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
27452364 CACGACCTAC
*
27452374 AAAATAATAAA
1 AAAAAAATAAA
27452385 AAAATAAA-AAA
1 AAAA-AAATAAA
27452396 ATAAAAAATAAA
1 A-AAAAAATAAA
27452408 AACAAAAATAAA
1 AA-AAAAATAAA
27452420 A
1 A
27452421 GGTAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 12 0.39
12 19 0.61
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:27452428 original size:19 final size:19
Alignment explanation
Indices: 27452374--27452420 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
27452364 CACGACCTAC
27452374 AAAATAATAAAA-AAATAA-A
1 AAAATAA-AAAATAAA-AACA
27452393 AAAATAAAAAATAAAAACA
1 AAAATAAAAAATAAAAACA
27452412 AAAATAAAA
1 AAAATAAAA
27452421 GGTAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (19 bp):
AAAATAAAAAATAAAAACA
Found at i:27453361 original size:16 final size:16
Alignment explanation
Indices: 27453320--27453365 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
27453310 AGTAAGAGGA
27453320 TTTGGATAAAAAT-A-
1 TTTGGATAAAAATAAG
*
27453334 TAT-GATTAAAAATAAG
1 TTTGGA-TAAAAATAAG
27453350 TTTGGATAAAAATAAG
1 TTTGGATAAAAATAAG
27453366 ACCCGTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.08
14 9 0.35
15 1 0.04
16 12 0.46
17 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (16 bp):
TTTGGATAAAAATAAG
Found at i:27457187 original size:16 final size:18
Alignment explanation
Indices: 27457155--27457188 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
27457145 GGCTATTGAG
27457155 TATACTATTTGTTAAATT
1 TATACTATTTGTTAAATT
27457173 TATACT-TTT-TTAAATT
1 TATACTATTTGTTAAATT
27457189 GTACTATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (18 bp):
TATACTATTTGTTAAATT
Found at i:27471274 original size:13 final size:13
Alignment explanation
Indices: 27471256--27471302 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
27471246 ACGTGAAGAA
27471256 TATTATTTAAAAT
1 TATTATTTAAAAT
*
27471269 TATTATTTTTAAAT
1 TATTA-TTTAAAAT
27471283 T-TTATTATAAAAAT
1 TATTATT-T-AAAAT
27471297 TATTAT
1 TATTAT
27471303 CAATATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 2 0.07
13 9 0.32
14 13 0.46
15 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:27478668 original size:238 final size:238
Alignment explanation
Indices: 27478250--27478698 Score: 686
Period size: 238 Copynumber: 1.9 Consensus size: 238
27478240 TGACATCGTA
*
27478250 ATGAGGAATCTTCCCACGTCACAACAACGCAACGATGGCAGGCCAAAATGGGGTTGACTCCTTGG
1 ATGAGGAATCTTCCCACGTCACAACAACGCAACGATGGCAGGCCAAAATAGGGTTGACTCCTTGG
* * *
27478315 ACAACACTCTTGGGGTATTTCTATATTTAGACCCTGGCAATTTAAAAGTATCTTGTATTAAATAA
66 ACAACACTCTTGGGATATTTCCATATTTAGACCCTAGCAATTTAAAAGTATCTTGTATTAAATAA
* * *
27478380 TATCTTAATGTATCTAGGGTTAAATGGTCAACAAGTAGCCCATAGCCTATATAAGTAATCTTA-A
131 TATCTAAATGTATCTAGGGTTAAATGGTCAACAAGTAACCCATAGCCTATATAAGTAACCTTAGA
27478444 GGTCACCGAAATTGGGGGAAGAGTTTCATGGTGGCAACATCATT
196 -GTCACCGAAATTGGGGGAAGAGTTTCATGGTGGCAACATCATT
* * * *
27478488 ATGAGGAATCTTCCCACGTCACGACGACGCGACGATGGCAGGCCAAAATAGGGTTGATTCCTTGG
1 ATGAGGAATCTTCCCACGTCACAACAACGCAACGATGGCAGGCCAAAATAGGGTTGACTCCTTGG
* * * * * *
27478553 ATGAA-ACTCTTGGGATATTTCCATTTTTAGACCCTAGCAATTTAAGAGTATTTTGTATTAATTG
66 A-CAACACTCTTGGGATATTTCCATATTTAGACCCTAGCAATTTAAAAGTATCTTGTATTAAATA
* *
27478617 ATATCTAAATGTATCTAGGGTTGAATGGTCACCAAGTAACCCATAGCCTATATAAGTAACCTTAG
130 ATATCTAAATGTATCTAGGGTTAAATGGTCAACAAGTAACCCATAGCCTATATAAGTAACCTTAG
*
27478682 AGTCACCGGAATTGGGG
195 AGTCACCGAAATTGGGG
27478699 TGCAAACATA
Statistics
Matches: 189, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
238 186 0.98
239 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (238 bp):
ATGAGGAATCTTCCCACGTCACAACAACGCAACGATGGCAGGCCAAAATAGGGTTGACTCCTTGG
ACAACACTCTTGGGATATTTCCATATTTAGACCCTAGCAATTTAAAAGTATCTTGTATTAAATAA
TATCTAAATGTATCTAGGGTTAAATGGTCAACAAGTAACCCATAGCCTATATAAGTAACCTTAGA
GTCACCGAAATTGGGGGAAGAGTTTCATGGTGGCAACATCATT
Found at i:27479372 original size:13 final size:14
Alignment explanation
Indices: 27479349--27479378 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
27479339 TTTAGGCTAA
27479349 TTAATTTAATAAGT
1 TTAATTTAATAAGT
27479363 TTAA-TTAATAAGT
1 TTAATTTAATAAGT
27479376 TTA
1 TTA
27479379 TTTGGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAATTTAATAAGT
Found at i:27488436 original size:26 final size:26
Alignment explanation
Indices: 27488268--27488426 Score: 120
Period size: 26 Copynumber: 6.4 Consensus size: 26
27488258 TGGTTATCCG
* *
27488268 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* ****
27488293 GAGCTTCTTGATTAAAATTTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* *
27488319 GAACTTCCTGATT-ATGGCTC-TTAT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* *
27488343 GAGCTTCCTG-TTATATAGCTC--GGAT
1 GAGCTTCCTGATTA-ATGGCTCTTTG-T
*
27488368 AAGCTTCCTGA-T-A-GGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
27488391 GAGCTTCCTGATTAATGGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
*
27488417 GAGTTTCCTG
1 GAGCTTCCTG
27488427 CTATATGGCT
Statistics
Matches: 103, Mismatches: 21, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
22 4 0.04
23 14 0.14
24 14 0.14
25 25 0.24
26 46 0.45
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTTGT
Found at i:27493959 original size:26 final size:26
Alignment explanation
Indices: 27493896--27493970 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
27493886 CCATAAACCC
*
27493896 AACCCTAAACCCT-AAA-C-ACTA-A
1 AACCTTAAACCCTAAAACCAACTATA
* * *
27493918 AATCTTGAACCATAAAACCAACTATA
1 AACCTTAAACCCTAAAACCAACTATA
* *
27493944 AACCTTAAACCCTAAACCCAACCATA
1 AACCTTAAACCCTAAAACCAACTATA
27493970 A
1 A
27493971 CAATAAAACC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 9 0.22
23 3 0.08
24 1 0.03
25 4 0.10
26 23 0.57
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.17
Consensus pattern (26 bp):
AACCTTAAACCCTAAAACCAACTATA
Found at i:27494235 original size:14 final size:14
Alignment explanation
Indices: 27494167--27494352 Score: 77
Period size: 14 Copynumber: 13.7 Consensus size: 14
27494157 AACCCCAACA
*
27494167 CTAAACCATAGACC
1 CTAAACCATAAACC
* *
27494181 CTAAAATCTTAAACC
1 CT-AAACCATAAACC
* * *
27494196 ATAAACC--CAACA
1 CTAAACCATAAACC
* *
27494208 CTAGACCTTAAACC
1 CTAAACCATAAACC
27494222 CTAAACCATAAACC
1 CTAAACCATAAACC
* *
27494236 C--AAGCAT-AACA
1 CTAAACCATAAACC
*
27494247 CTAAAACCCT-AACC
1 CT-AAACCATAAACC
*
27494261 CT-AACCTTAAACC
1 CTAAACCATAAACC
* **
27494274 ATAAAAAATAAACC
1 CTAAACCATAAACC
* *
27494288 AT-AACTATAAACC
1 CTAAACCATAAACC
*
27494301 ATAAACCATAAACC
1 CTAAACCATAAACC
* *
27494315 ATAAACCTTAAACTC
1 CTAAACCATAAAC-C
27494330 C-AAACCAT-AACC
1 CTAAACCATAAACC
*
27494342 TTTAAACCATA
1 -CTAAACCATA
27494353 GACCATAACC
Statistics
Matches: 129, Mismatches: 30, Indels: 25
0.70 0.16 0.14
Matches are distributed among these distances:
11 4 0.03
12 19 0.15
13 19 0.15
14 76 0.59
15 11 0.09
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:27494254 original size:33 final size:33
Alignment explanation
Indices: 27494175--27494258 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
27494165 CACTAAACCA
* *
27494175 TAGACCCTAAAATCTTAAACCATAAACCCAACAC
1 TAGA-CCTAAAACCCTAAACCATAAACCCAACAC
*
27494209 TAGACCTTAAACCCTAAACCATAAACCCAAGCA-
1 TAGACCTAAAACCCTAAACCATAAACCCAA-CAC
27494242 TA-ACACTAAAACCCTAA
1 TAGAC-CTAAAACCCTAA
27494259 CCCTAACCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
32 2 0.05
33 36 0.82
34 6 0.14
ACGTcount: A:0.48, C:0.32, G:0.04, T:0.17
Consensus pattern (33 bp):
TAGACCTAAAACCCTAAACCATAAACCCAACAC
Found at i:27494278 original size:7 final size:7
Alignment explanation
Indices: 27494263--27494360 Score: 85
Period size: 7 Copynumber: 14.1 Consensus size: 7
27494253 CCCTAACCCT
*
27494263 AACCTTA
1 AACCATA
27494270 AACCATA
1 AACCATA
**
27494277 AAAAATA
1 AACCATA
27494284 AACCAT-
1 AACCATA
*
27494290 AACTATA
1 AACCATA
27494297 AACCATA
1 AACCATA
27494304 AACCATA
1 AACCATA
27494311 AACCATA
1 AACCATA
*
27494318 AACCTTA
1 AACCATA
*
27494325 AACTC-CA
1 AAC-CATA
27494332 AACCAT-
1 AACCATA
*
27494338 AACCTTTA
1 AACC-ATA
27494346 AACCATA
1 AACCATA
*
27494353 GACCATA
1 AACCATA
27494360 A
1 A
27494361 CCCTAACCTC
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
6 10 0.14
7 57 0.79
8 5 0.07
ACGTcount: A:0.53, C:0.27, G:0.01, T:0.19
Consensus pattern (7 bp):
AACCATA
Found at i:27494287 original size:27 final size:27
Alignment explanation
Indices: 27494257--27494327 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
27494247 CTAAAACCCT
*
27494257 AACCCTAACCTTAAACCATAAAAAATA
1 AACCATAACCTTAAACCATAAAAAATA
**
27494284 AACCATAA-CTATAAACCATAAACCATA
1 AACCATAACCT-TAAACCATAAAAAATA
27494311 AACCATAAACCTTAAAC
1 AACCAT-AACCTTAAAC
27494328 TCCAAACCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 2 0.05
27 27 0.71
28 7 0.18
29 2 0.05
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (27 bp):
AACCATAACCTTAAACCATAAAAAATA
Found at i:27494361 original size:21 final size:19
Alignment explanation
Indices: 27494240--27494362 Score: 78
Period size: 21 Copynumber: 6.4 Consensus size: 19
27494230 TAAACCCAAG
* *
27494240 CATAACACTAAAACCCTAAC
1 CATAAC-CTTAAACCATAAC
*
27494260 CCTAACCTTAAACCATAA-
1 CATAACCTTAAACCATAAC
*
27494278 -A-AA--ATAAACCATAAC
1 CATAACCTTAAACCATAAC
* *
27494293 TATAAACCATAAACCATAAAC
1 CAT-AACCTTAAACCAT-AAC
27494314 CATAAACCTTAAACTCCA-AAC
1 CAT-AACCTTAAA--CCATAAC
27494335 CATAACCTTTAAACCATAGAC
1 CATAACC-TTAAACCATA-AC
27494356 CATAACC
1 CATAACC
27494363 CTAACCTCTA
Statistics
Matches: 84, Mismatches: 7, Indels: 23
0.74 0.06 0.20
Matches are distributed among these distances:
14 10 0.12
16 3 0.04
18 2 0.02
19 13 0.15
20 19 0.23
21 34 0.40
23 3 0.04
ACGTcount: A:0.50, C:0.30, G:0.01, T:0.19
Consensus pattern (19 bp):
CATAACCTTAAACCATAAC
Found at i:27494864 original size:19 final size:20
Alignment explanation
Indices: 27494813--27494855 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
27494803 AAGTATGTGT
27494813 CCCTAAACCCTAACACTAAC
1 CCCTAAACCCTAACACTAAC
27494833 CCC-AAACCCTAACA-TAAC
1 CCCTAAACCCTAACACTAAC
27494851 CCCTA
1 CCCTA
27494856 GACCTTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 12 0.55
20 3 0.14
ACGTcount: A:0.40, C:0.47, G:0.00, T:0.14
Consensus pattern (20 bp):
CCCTAAACCCTAACACTAAC
Found at i:27494907 original size:14 final size:15
Alignment explanation
Indices: 27494888--27494920 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27494878 CCCTGAACAT
*
27494888 AACCTT-AAATCCTA
1 AACCTTAAAATCATA
27494902 AACCTTAAAATCATA
1 AACCTTAAAATCATA
27494917 AACC
1 AACC
27494921 AAAGCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCTTAAAATCATA
Found at i:27500732 original size:3 final size:3
Alignment explanation
Indices: 27500726--27500771 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
27500716 TTTTTTTACT
*
27500726 TTA TTA TTA TTA TTA TTA TCA TTA TTTA TT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
27500771 T
1 T
27500772 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27505694 original size:6 final size:6
Alignment explanation
Indices: 27505683--27505722 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
27505673 TTCAATCAAA
27505683 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
27505723 AAGAAGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:27508060 original size:100 final size:100
Alignment explanation
Indices: 27507930--27508432 Score: 700
Period size: 100 Copynumber: 5.0 Consensus size: 100
27507920 AATACCAATT
* * ** *
27507930 TTACTCCCCAGGCAATGCAGTGGAACAGATTAAAGCCACATCAATGAATCTTGTTTCCCCGACAT
1 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* **
27507995 TGCAGTTAAAAAGATCAAAGCTACAACAATGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* *
27508030 TTACTTCCCAGACGATGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACAT
1 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* *
27508095 TACAGTTAAAAAGATTAAAGCTACAACAGTGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * * *
27508130 TCACTCCCCAGGCGATACAGTGGAACAGATTAAAGCCACATCGATGAATCTTACTTCCCCGACAT
1 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* *
27508195 TGCAGTTAAAAAGATCAAAGCTACAACGGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * **
27508230 TTACTTCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACAACGGCAAATCTTGCTTCCCCGACAT
1 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
*
27508295 TGCAGTTAAAAAGATTAAAGCTACAACGGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
* * * * **
27508330 TTACTTCCCAGGTGGTGCAGTGGAATAGATTAAAGCCACAACGGCAAATCTTGCTTCCCCGACAT
1 TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
* **
27508395 TGCAGTTAAAAAGATTGAAGCTACAATGGCGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
27508430 TTA
1 TTA
27508433 TTTTCCAAAA
Statistics
Matches: 370, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 370 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (100 bp):
TTACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
Found at i:27508430 original size:50 final size:50
Alignment explanation
Indices: 27507975--27508432 Score: 400
Period size: 50 Copynumber: 9.2 Consensus size: 50
27507965 CCACATCAAT
** * ***
27507975 GAATCTTGTTTCCCCGACATTGCAGTTAAAAAGATCAAAGCTACAACAAT
1 GAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGC
* ** * * * * *
27508025 GAATCTTACTTCCCAGACGA-TGCAGTGGAACAGATTAAAGCCACATCAGT
1 GAATCTTACTTCCCCGAC-ATTGCAGTTAAAAAGATTAAAGCTACAACGGC
* * * *
27508075 GAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGT
1 GAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGC
* * * ** * * * **
27508125 GAATCTCAC-TCCCCAGGCGA-TACAGTGGAACAGATTAAAGCCACATCGAT
1 GAATCTTACTTCCCC-GAC-ATTGCAGTTAAAAAGATTAAAGCTACAACGGC
*
27508175 GAATCTTACTTCCCCGACATTGCAGTTAAAAAGATCAAAGCTACAACGGC
1 GAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGC
* * ** ** * *
27508225 GAATCTTACTTCCCAGGCGGTGCAGTGGAATAGATTAAAGCCACAACGGC
1 GAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGC
* *
27508275 AAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGC
1 GAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGC
* **** ** * *
27508325 GAATCTTACTTCCCAGGTGGTGCAGTGGAATAGATTAAAGCCACAACGGC
1 GAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGC
* * * *
27508375 AAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTGAAGCTACAATGGC
1 GAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGC
27508425 GAATCTTA
1 GAATCTTA
27508433 TTTTCCAAAA
Statistics
Matches: 318, Mismatches: 84, Indels: 12
0.77 0.20 0.03
Matches are distributed among these distances:
49 7 0.02
50 304 0.96
51 7 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (50 bp):
GAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACGGC
Found at i:27521001 original size:50 final size:50
Alignment explanation
Indices: 27520926--27521023 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 50
27520916 TTACTAACAT
* * * * *
27520926 TTAAATATATATGATACTAGTTTTCGTGAATATCTCTTTTAATAACGTCA
1 TTAAATATATATAATACTAATTTTCGTGAATACCTCATTAAATAACGTCA
* *
27520976 TTAAATATATATAATATTAATTTTCGTGATTACCTCATTAAATAACGT
1 TTAAATATATATAATACTAATTTTCGTGAATACCTCATTAAATAACGT
27521024 TATATTCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (50 bp):
TTAAATATATATAATACTAATTTTCGTGAATACCTCATTAAATAACGTCA
Found at i:27521218 original size:21 final size:20
Alignment explanation
Indices: 27521179--27521219 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27521169 GAATATATTG
**
27521179 TAATTAAAGTGTGACTTTAT
1 TAATTAAAGTGAAACTTTAT
27521199 TAATTAAAGTGAAAACTTTAT
1 TAATTAAAGTG-AAACTTTAT
27521220 GTTCTCGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (20 bp):
TAATTAAAGTGAAACTTTAT
Found at i:27539570 original size:21 final size:21
Alignment explanation
Indices: 27539544--27539610 Score: 107
Period size: 21 Copynumber: 3.2 Consensus size: 21
27539534 TTTGGTTGAA
* *
27539544 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACAAGCTTCTAT
*
27539565 TCAGCTCTTATAAGCTTCTAT
1 TCAGCTCTTACAAGCTTCTAT
27539586 TCAGCTCTTACAAGCTTCTAT
1 TCAGCTCTTACAAGCTTCTAT
27539607 TCAG
1 TCAG
27539611 ATTTCGAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (21 bp):
TCAGCTCTTACAAGCTTCTAT
Found at i:27539825 original size:21 final size:20
Alignment explanation
Indices: 27539799--27539847 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
27539789 AATAGAAGTT
27539799 GTGAATGACAA-GAAATTGAC
1 GTGAATGACAATG-AATTGAC
*
27539819 GGTGAATTACAATGAATTGAC
1 -GTGAATGACAATGAATTGAC
*
27539840 ATGAATGA
1 GTGAATGA
27539848 TTTTATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.24
Consensus pattern (20 bp):
GTGAATGACAATGAATTGAC
Found at i:27540186 original size:4 final size:4
Alignment explanation
Indices: 27540177--27540246 Score: 140
Period size: 4 Copynumber: 17.5 Consensus size: 4
27540167 AATATGAGTG
27540177 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
27540225 ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT AT
27540247 TTGAATTATA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 66 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:27544723 original size:10 final size:10
Alignment explanation
Indices: 27544708--27544748 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
27544698 TAATAAATAT
27544708 ATTTTTTAAA
1 ATTTTTTAAA
*
27544718 ATTTTTTTAA
1 ATTTTTTAAA
27544728 A--TTTTAAA
1 ATTTTTTAAA
27544736 ATATTTTTAAA
1 AT-TTTTTAAA
27544747 AT
1 AT
27544749 ACTTTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.27
10 10 0.38
11 9 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:27544734 original size:18 final size:18
Alignment explanation
Indices: 27544711--27544827 Score: 65
Period size: 18 Copynumber: 6.0 Consensus size: 18
27544701 TAAATATATT
*
27544711 TTTTAAAATTTTTTTAAA
1 TTTTAAAATATTTTTAAA
27544729 TTTTAAAATATTTTTAAAATA
1 TTTTAAAATATTTTT--AA-A
** *
27544750 CTTTTTTTATTACTTTTT-AA
1 --TTTTAAAATA-TTTTTAAA
27544770 TTTTAAAATATTTTTAAAATA
1 TTTTAAAATATTTTT--AA-A
* * *
27544791 CTTTTTAAATTTTTTTTAA
1 -TTTTAAAATATTTTTAAA
*
27544810 TCTTAAAATATTTTTAAA
1 TTTTAAAATATTTTTAAA
27544828 ATACTTTTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
17 5 0.07
18 35 0.47
19 1 0.01
20 5 0.07
21 3 0.04
22 13 0.18
23 7 0.09
24 5 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTAAAATATTTTTAAA
Found at i:27544749 original size:11 final size:11
Alignment explanation
Indices: 27544710--27544836 Score: 57
Period size: 11 Copynumber: 12.5 Consensus size: 11
27544700 ATAAATATAT
27544710 TTTTTAAAAT-
1 TTTTTAAAATA
*
27544720 TTTTT-TAA-A
1 TTTTTAAAATA
27544729 -TTTTAAAATA
1 TTTTTAAAATA
27544739 TTTTTAAAATA
1 TTTTTAAAATA
** *
27544750 CTTTTTTTATTA
1 -TTTTTAAAATA
27544762 CTTTTT---A-A
1 -TTTTTAAAATA
27544770 -TTTTAAAATA
1 TTTTTAAAATA
27544780 TTTTTAAAATA
1 TTTTTAAAATA
27544791 CTTTTT-AAAT-
1 -TTTTTAAAATA
*
27544801 TTTTT---TTA
1 TTTTTAAAATA
* *
27544809 ATCTTAAAATA
1 TTTTTAAAATA
27544820 TTTTTAAAATA
1 TTTTTAAAATA
27544831 CTTTTT
1 -TTTTT
27544837 TTAATTTTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 30
0.68 0.09 0.23
Matches are distributed among these distances:
6 4 0.04
7 1 0.01
8 8 0.09
9 10 0.11
10 7 0.08
11 35 0.39
12 24 0.27
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:27544772 original size:41 final size:40
Alignment explanation
Indices: 27544721--27544839 Score: 184
Period size: 40 Copynumber: 2.9 Consensus size: 40
27544711 TTTTAAAATT
27544721 TTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTATTAC
1 TTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTTATT-C
** *
27544763 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAATTT
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTATTC
*
27544803 TTTTTAATCTTAAAATATTTTTAAAATACTTTTTTTA
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
27544840 ATTTTTAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
40 34 0.48
41 32 0.45
42 5 0.07
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTATTC
Found at i:27544774 original size:30 final size:30
Alignment explanation
Indices: 27544740--27544803 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
27544730 TTTAAAATAT
** *
27544740 TTTTAAAATACTTTTTTTATTACTTTTT-AA
1 TTTTAAAATA-TTTTTAAAATACTTTTTAAA
27544770 TTTTAAAATATTTTTAAAATACTTTTTAAA
1 TTTTAAAATATTTTTAAAATACTTTTTAAA
27544800 TTTT
1 TTTT
27544804 TTTTAATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTAAAATATTTTTAAAATACTTTTTAAA
Found at i:27544807 original size:40 final size:40
Alignment explanation
Indices: 27544701--27544845 Score: 191
Period size: 41 Copynumber: 3.5 Consensus size: 40
27544691 TCCGATATAA
* *
27544701 TAAATATATTTTTTAAAATTTTTTTAAATTTTAAAATATTTT
1 TAAA-ATACTTTTT-AAATTTTTTTTAATTTTAAAATATTTT
** *
27544743 TAAAATACTTTTTTTATTACTTTTTAATTTTAAAATATTTT
1 TAAAATACTTTTTAAATT-TTTTTTAATTTTAAAATATTTT
*
27544784 TAAAATACTTTTTAAATTTTTTTTAATCTTAAAATATTTT
1 TAAAATACTTTTTAAATTTTTTTTAATTTTAAAATATTTT
*
27544824 TAAAATACTTTTTTTAATTTTT
1 TAAAATAC-TTTTTAAATTTTT
27544846 AAAATAAATT
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
40 31 0.34
41 56 0.62
42 4 0.04
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (40 bp):
TAAAATACTTTTTAAATTTTTTTTAATTTTAAAATATTTT
Found at i:27544857 original size:21 final size:21
Alignment explanation
Indices: 27544819--27544858 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27544809 ATCTTAAAAT
**
27544819 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
27544840 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
27544859 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:27544865 original size:22 final size:21
Alignment explanation
Indices: 27544818--27544876 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
27544808 AATCTTAAAA
* *
27544818 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
27544838 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
27544861 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
27544877 GGGCCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:27550082 original size:18 final size:19
Alignment explanation
Indices: 27550054--27550091 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
27550044 AGCTGGTCAT
27550054 CCCTCCTTTTT-TTCTTTCC
1 CCCTCCTTTTTGTT-TTTCC
27550073 CCCT-CTTTTTGTTTTTCC
1 CCCTCCTTTTTGTTTTTCC
27550091 C
1 C
27550092 TTCTCTCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.00, C:0.39, G:0.03, T:0.58
Consensus pattern (19 bp):
CCCTCCTTTTTGTTTTTCC
Found at i:27552825 original size:22 final size:22
Alignment explanation
Indices: 27552794--27552836 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
27552784 TAAATATTTA
*
27552794 CTAAACAGTTAAAATTTTTAAC
1 CTAAACAGTTAAAAATTTTAAC
*
27552816 CTAAATAGTTAAAAATTTTAA
1 CTAAACAGTTAAAAATTTTAA
27552837 ATATACGTTA
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:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (22 bp):
CTAAACAGTTAAAAATTTTAAC
Found at i:27553563 original size:12 final size:12
Alignment explanation
Indices: 27553534--27553563 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
27553524 ATGCTTCTTG
27553534 TTTTTTCTTTTT
1 TTTTTTCTTTTT
*
27553546 CTTTTTCTTTTT
1 TTTTTTCTTTTT
27553558 TTTTTT
1 TTTTTT
27553564 TGCAGATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:27559098 original size:41 final size:39
Alignment explanation
Indices: 27559053--27559129 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 39
27559043 CCTTTATTGA
27559053 AATTCTTTTGA-TTGTAATTTCTATTTTTCATATAAACTCTT
1 AATTCTTTTGACTT-T-ATTT-TATTTTTCATATAAACTCTT
*
27559094 AATTCTTTTTACTTTATTTTATTTTTCATATAAACT
1 AATTCTTTTGACTTTATTTTATTTTTCATATAAACT
27559130 TTGTTTATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 17 0.50
40 4 0.12
41 11 0.32
42 2 0.06
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (39 bp):
AATTCTTTTGACTTTATTTTATTTTTCATATAAACTCTT
Found at i:27568367 original size:15 final size:14
Alignment explanation
Indices: 27568342--27568372 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
27568332 TAGATTTGGC
27568342 ATATATATACATAT
1 ATATATATACATAT
27568356 ATATATTATACATAT
1 ATATA-TATACATAT
27568371 AT
1 AT
27568373 TCTCATGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATATACATAT
Found at i:27581665 original size:334 final size:335
Alignment explanation
Indices: 27581045--27581713 Score: 1331
Period size: 334 Copynumber: 2.0 Consensus size: 335
27581035 ATAAAAATAT
27581045 GTATAAGGTATTTTCACTTTCTTTTCTCAAGGCAGGCAGATCCTTTTATTATAACAAGAGTATAA
1 GTATAAGGTATTTTCACTTTCTTTTCTCAAGGCAGGCAGATCCTTTTATTATAACAAGAGTATAA
27581110 ATTTTTTTTAAATTAAATAATTATTTTTATAAGAAATAGAGGTAGAGGTACTTTAAAAGAAAAAT
66 ATTTTTTTTAAATTAAATAATTATTTTTATAAGAAATAGAGGTAGAGGTACTTTAAAAGAAAAAT
27581175 AATAAAAAGGTGTTGGGGTTCATCCAATTGATCTGTCTTTAGTAATTTAATTATATACTAGTTTT
131 AATAAAAAGGTGTTGGGGTTCATCCAATTGATCTGTCTTTAGTAATTTAATTATATACTAGTTTT
27581240 AGTCCGGGGATATGTTAATTAATATTTAAATCTAAAATACAGAGAAAATCAAATTCAAGTAATAA
196 AGTCCGGGGATATGTTAATTAATATTTAAATCTAAAATACAGAGAAAATCAAATTCAAGTAATAA
27581305 AATACATGTAACAGCAAATATAATATTAATATATATGAACCCATAATTTTTTATTCTGAAAATAA
261 AATACATGTAACAGCAAATATAATATTAATATATATGAACCCATAATTTTTTATTCTGAAAATAA
27581370 AGTTGGAAAA
326 AGTTGGAAAA
27581380 GTATAAGGTA-TTTCACTTTCTTTTCTCAAGGCAGGCAGATCCTTTTATTATAACAAGAGTATAA
1 GTATAAGGTATTTTCACTTTCTTTTCTCAAGGCAGGCAGATCCTTTTATTATAACAAGAGTATAA
27581444 ATTTTTTTTAAATTAAATAATTATTTTTATAAGAAATAGAGGTAGAGGTACTTTAAAAGAAAAAT
66 ATTTTTTTTAAATTAAATAATTATTTTTATAAGAAATAGAGGTAGAGGTACTTTAAAAGAAAAAT
27581509 AATAAAAAGGTGTTGGGGTTCATCCAATTGATCTGTCTTTAGTAATTTAATTATATACTAGTTTT
131 AATAAAAAGGTGTTGGGGTTCATCCAATTGATCTGTCTTTAGTAATTTAATTATATACTAGTTTT
27581574 AGTCCGGGGATATGTTAATTAATATTTAAATCTAAAATACAGAGAAAATCAAATTCAAGTAATAA
196 AGTCCGGGGATATGTTAATTAATATTTAAATCTAAAATACAGAGAAAATCAAATTCAAGTAATAA
27581639 AATACATGTAACAGCAAATATAATATTAATATATATGAACCCATAATTTTTTATTCTGAAAATAA
261 AATACATGTAACAGCAAATATAATATTAATATATATGAACCCATAATTTTTTATTCTGAAAATAA
27581704 AGTTGGAAAA
326 AGTTGGAAAA
27581714 TAGAATCTCA
Statistics
Matches: 334, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
334 324 0.97
335 10 0.03
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (335 bp):
GTATAAGGTATTTTCACTTTCTTTTCTCAAGGCAGGCAGATCCTTTTATTATAACAAGAGTATAA
ATTTTTTTTAAATTAAATAATTATTTTTATAAGAAATAGAGGTAGAGGTACTTTAAAAGAAAAAT
AATAAAAAGGTGTTGGGGTTCATCCAATTGATCTGTCTTTAGTAATTTAATTATATACTAGTTTT
AGTCCGGGGATATGTTAATTAATATTTAAATCTAAAATACAGAGAAAATCAAATTCAAGTAATAA
AATACATGTAACAGCAAATATAATATTAATATATATGAACCCATAATTTTTTATTCTGAAAATAA
AGTTGGAAAA
Found at i:27585995 original size:23 final size:22
Alignment explanation
Indices: 27585943--27586000 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
27585933 TTGTGATTTG
*
27585943 TTTTTAAAAAA--ATAAATAAT
1 TTTTTAAAAAATTAAAAATAAT
*
27585963 TTTTTAAAAATTTAAAAATAAT
1 TTTTTAAAAAATTAAAAATAAT
*
27585985 TTTTTCTAAAAATTAA
1 TTTTT-AAAAAATTAA
27586001 TCAATTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 10 0.32
22 13 0.42
23 8 0.26
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTTAAAAAATTAAAAATAAT
Found at i:27588678 original size:19 final size:19
Alignment explanation
Indices: 27588654--27588693 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
27588644 TTTATAAGAG
27588654 TCCCTAAGAAATTCAGCTA
1 TCCCTAAGAAATTCAGCTA
27588673 TCCCTAAGAAATTCAGCTA
1 TCCCTAAGAAATTCAGCTA
27588692 TC
1 TC
27588694 TTGTATGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.28
Consensus pattern (19 bp):
TCCCTAAGAAATTCAGCTA
Found at i:27592828 original size:5 final size:5
Alignment explanation
Indices: 27592820--27592847 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
27592810 TAAAAACCCC
27592820 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27592848 GAATAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:27593509 original size:30 final size:31
Alignment explanation
Indices: 27593459--27593522 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
27593449 ATTTCTTATG
* *
27593459 CCAATATCTCGATACTCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATATTTGACTTT
*
27593490 CCAATAT-TTGATACCCATATATTTGACTTT
1 CCAATATCTCGATACCCATATATTTGACTTT
27593520 CCA
1 CCA
27593523 TAAATATGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATATTTGACTTT
Found at i:27598120 original size:30 final size:30
Alignment explanation
Indices: 27598074--27598162 Score: 125
Period size: 25 Copynumber: 3.1 Consensus size: 30
27598064 ATTTCTTATG
*
27598074 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
27598105 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
27598134 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
27598160 CCA
1 CCA
27598163 TAAATATGGA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
25 23 0.43
26 2 0.04
29 2 0.04
30 19 0.36
31 7 0.13
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:27598129 original size:15 final size:15
Alignment explanation
Indices: 27598084--27598130 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
27598074 CCAATATCTC
27598084 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
27598099 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
27598114 GATACCCATATCTTT
1 GATACCCATATCTTT
27598129 GA
1 GA
27598131 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:27600658 original size:2 final size:2
Alignment explanation
Indices: 27600651--27600677 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27600641 TGGCATTTCT
27600651 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
27600678 TTTATCTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:27610107 original size:14 final size:15
Alignment explanation
Indices: 27610082--27610111 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
27610072 CTTTCAAACA
27610082 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
27610097 AAATA-TAAAAAAAT
1 AAATATTAAAAAAAT
27610111 A
1 A
27610112 CAGGACAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:27616906 original size:18 final size:18
Alignment explanation
Indices: 27616881--27616917 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27616871 ATGTATTTTA
27616881 AAATTAAAAAATAT-ATT
1 AAATTAAAAAATATGATT
27616898 AAATGTAAAAAATATGATT
1 AAAT-TAAAAAATATGATT
27616917 A
1 A
27616918 TTTTAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
AAATTAAAAAATATGATT
Found at i:27618339 original size:31 final size:31
Alignment explanation
Indices: 27618304--27618365 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
27618294 CTCAAAACTT
27618304 GTAAGGTTTAATGTAACTTTTTATCAACTAA
1 GTAAGGTTTAATGTAACTTTTTATCAACTAA
*
27618335 GTAAGGTTTAATGTAGCTTTTTATCAACTAA
1 GTAAGGTTTAATGTAACTTTTTATCAACTAA
27618366 CTTGTCAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.42
Consensus pattern (31 bp):
GTAAGGTTTAATGTAACTTTTTATCAACTAA
Found at i:27621191 original size:17 final size:17
Alignment explanation
Indices: 27621169--27621209 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
27621159 AGAACACAAG
27621169 TTTCTTTCTGTT-TTTTT
1 TTTCTTTCT-TTCTTTTT
27621186 TTTCTTTCTTTCTTTTT
1 TTTCTTTCTTTCTTTTT
*
27621203 CTTCTTT
1 TTTCTTT
27621210 AAGATACAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTCTTTCTTTCTTTTT
Done.