Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 368 of 438
Found at i:114782048 original size:11 final size:11
Alignment explanation
Indices: 114782032--114782083 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
114782022 TATACTAAAT
114782032 AAATAATAATA
1 AAATAATAATA
*
114782043 AAATAAT-ATT
1 AAATAATAATA
* *
114782053 AAATATCTCATA
1 AAATA-ATAATA
*
114782065 AAATATTAATA
1 AAATAATAATA
114782076 AAATAATA
1 AAATAATA
114782084 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:114784286 original size:26 final size:26
Alignment explanation
Indices: 114784257--114784309 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
114784247 TTTACAGTTT
114784257 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
114784283 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
114784309 T
1 T
114784310 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:114785518 original size:30 final size:29
Alignment explanation
Indices: 114785491--114785549 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
114785481 AACTTTTACA
*
114785491 AGATTAAATCAAAATTTTATTATTTTTAAGG
1 AGATAAAAT-AAAATTTTATTATTTTTAA-G
* *
114785522 AGATAAAATACAATTTTATTATTATTAA
1 AGATAAAATAAAATTTTATTATTTTTAA
114785550 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (29 bp):
AGATAAAATAAAATTTTATTATTTTTAAG
Found at i:114788712 original size:2 final size:2
Alignment explanation
Indices: 114788705--114788734 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
114788695 ACTTTGTTCC
*
114788705 CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
114788735 GACTTTCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:114788728 original size:18 final size:18
Alignment explanation
Indices: 114788705--114788744 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
114788695 ACTTTGTTCC
*
114788705 CTCTCTCTCTCTCTCTTT
1 CTCTCTCTCTCTCACTTT
*
114788723 CTCTCTCTCTCTGACTTT
1 CTCTCTCTCTCTCACTTT
114788741 CTCT
1 CTCT
114788745 TTTTCCTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.03, C:0.42, G:0.03, T:0.53
Consensus pattern (18 bp):
CTCTCTCTCTCTCACTTT
Found at i:114788922 original size:24 final size:23
Alignment explanation
Indices: 114788895--114788941 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
114788885 CTCTTCTGGG
114788895 TTTGCTTTTGTT-TTCTATGTTGTT
1 TTTGCTTTT-TTCTTCT-TGTTGTT
114788919 TTTGCTTTTTTCTTCTTGTTGTT
1 TTTGCTTTTTTCTTCTTGTTGTT
114788942 ATGTTATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.02, C:0.11, G:0.15, T:0.72
Consensus pattern (23 bp):
TTTGCTTTTTTCTTCTTGTTGTT
Found at i:114800587 original size:19 final size:19
Alignment explanation
Indices: 114800563--114800600 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
114800553 AATTCTTCAG
114800563 TTACTTTCATGGATTCAAC
1 TTACTTTCATGGATTCAAC
114800582 TTACTTTCATGGATTCAAC
1 TTACTTTCATGGATTCAAC
114800601 ATTGGAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (19 bp):
TTACTTTCATGGATTCAAC
Found at i:114800802 original size:16 final size:16
Alignment explanation
Indices: 114800762--114800792 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114800752 TTATCACTAA
*
114800762 AAAGAATAAAAAAAGG
1 AAAGAAAAAAAAAAGG
114800778 AAAGAAAAAAAAAAG
1 AAAGAAAAAAAAAAG
114800793 TTAAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (16 bp):
AAAGAAAAAAAAAAGG
Found at i:114800974 original size:2 final size:2
Alignment explanation
Indices: 114800967--114800999 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
114800957 AAATAGTCCT
114800967 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
114801000 TATGAAATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:114802333 original size:38 final size:40
Alignment explanation
Indices: 114802260--114802343 Score: 127
Period size: 38 Copynumber: 2.1 Consensus size: 40
114802250 TATATTTTAG
*
114802260 TAGTAGTTTATTTATGTTAAAAGTTTATTTTGTATTAAGGT
1 TAGTAGTTTATTTATGTT-AAAGTTTATTTAGTATTAAGGT
*
114802301 TAGTA-TTTATTTTTGTT-AAGTTTATTTAGTATTAAGGT
1 TAGTAGTTTATTTATGTTAAAGTTTATTTAGTATTAAGGT
114802339 TAGTA
1 TAGTA
114802344 CTAATTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
38 25 0.61
40 11 0.27
41 5 0.12
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.55
Consensus pattern (40 bp):
TAGTAGTTTATTTATGTTAAAGTTTATTTAGTATTAAGGT
Found at i:114802340 original size:22 final size:22
Alignment explanation
Indices: 114802280--114802340 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 22
114802270 TTTATGTTAA
*
114802280 AAGTTTATTTTGTATTAAGGTT
1 AAGTTTATTTAGTATTAAGGTT
**
114802302 -AG--TATTTA-T-TT-TTGTT
1 AAGTTTATTTAGTATTAAGGTT
114802318 AAGTTTATTTAGTATTAAGGTT
1 AAGTTTATTTAGTATTAAGGTT
114802340 A
1 A
114802341 GTACTAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 12
0.62 0.11 0.27
Matches are distributed among these distances:
16 3 0.11
17 4 0.14
18 1 0.04
19 11 0.39
20 1 0.04
21 4 0.14
22 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (22 bp):
AAGTTTATTTAGTATTAAGGTT
Found at i:114807906 original size:15 final size:15
Alignment explanation
Indices: 114807882--114807913 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
114807872 CAATCATGCA
*
114807882 AAATATAAAAGACAT
1 AAATACAAAAGACAT
114807897 AAATACAAAAGACAT
1 AAATACAAAAGACAT
114807912 AA
1 AA
114807914 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:114809843 original size:94 final size:95
Alignment explanation
Indices: 114809677--114809900 Score: 283
Period size: 94 Copynumber: 2.3 Consensus size: 95
114809667 TTTGTGTACC
* *
114809677 AGTGTAAGACATGTCTAGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAGACCATGTATGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAAACCATGTATGG
* **
114809742 GAGATGGCATCAGCATTGATA-CGAGAGCT
66 GACATGGCATCAGCACAGATAGCGAGAGCT
* * *
114809771 AGTGTAAGACATGTCTGGGACATGCATCGGCACGTA-TA-GAGGTGCCAGTGTAAAACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CATATTATGA-GAGCCAGTGTAAAACCATGTAT
* *
114809834 GGGACATGGCATCGGCACAGATATGTGAGAGCT
64 GGGACATGGCATCAGCACAGATA-GCGAGAGCT
*
114809867 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCC
114809901 TCGATGTCAA
Statistics
Matches: 113, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
93 2 0.02
94 70 0.62
95 3 0.03
96 16 0.14
97 15 0.13
98 7 0.06
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (95 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAAACCATGTATGG
GACATGGCATCAGCACAGATAGCGAGAGCT
Found at i:114809882 original size:50 final size:49
Alignment explanation
Indices: 114809675--114809992 Score: 243
Period size: 47 Copynumber: 6.7 Consensus size: 49
114809665 TATTTGTGTA
* *
114809675 CCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CATAT-TATGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATAT-TGAGAG
* * * ** *
114809721 CCAGTGTAAGACCATGTATGGGAGATGGCATCAGCATTGATA-CGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATTGAGAG
* * *
114809769 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAC-G-TATAGAGGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATTGA-GAG
*
114809815 CCAGTGTAAAACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATAT-TGAGAG
* * * * ** *
114809865 CTAGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTCGATGTCAATAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATTGAGAG
* ** ** *
114809914 TCAGTGTAAGACCATGTCAAGGACATGGCAT---CA-ACTTGATGGATGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAT-ATTGA-GAG
*
114809961 CCAATGTAAGACCATGTCTGGGA-ATGGCATCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
114809993 ACATTGTACC
Statistics
Matches: 212, Mismatches: 43, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
44 2 0.01
45 4 0.02
46 40 0.19
47 58 0.27
48 32 0.15
49 33 0.16
50 41 0.19
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATTGAGAG
Found at i:114811162 original size:21 final size:21
Alignment explanation
Indices: 114811138--114811191 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
114811128 TTAAAGTTCC
* *
114811138 ACACCGGTGTGTTGCCCTTTT
1 ACACGGGTGTGTTGCCCTCTT
*
114811159 ACACGGGCGTGTTGCCCTCTT
1 ACACGGGTGTGTTGCCCTCTT
114811180 ACACGGGTGTGT
1 ACACGGGTGTGT
114811192 GCCTTGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.11, C:0.28, G:0.30, T:0.31
Consensus pattern (21 bp):
ACACGGGTGTGTTGCCCTCTT
Found at i:114811633 original size:46 final size:46
Alignment explanation
Indices: 114811566--114811659 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
114811556 TTCCAAAAGG
114811566 TAAGCCTGAAATTTATGCACCACAACATGCATTTGAACAACATCAT
1 TAAGCCTGAAATTTATGCACCACAACATGCATTTGAACAACATCAT
114811612 TAAGCCTGAAATTTATGCACCACAACATGCATTTGAACAACATCAT
1 TAAGCCTGAAATTTATGCACCACAACATGCATTTGAACAACATCAT
114811658 TA
1 TA
114811660 TTATGAACAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (46 bp):
TAAGCCTGAAATTTATGCACCACAACATGCATTTGAACAACATCAT
Found at i:114812081 original size:45 final size:45
Alignment explanation
Indices: 114812017--114812116 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
114812007 TAGTATAGAA
*
114812017 AAGTCTGTAAGAGTTTGGAATCATCGTGTAACCCGAAGAAACAAG
1 AAGTCTGTAAGAGTCTGGAATCATCGTGTAACCCGAAGAAACAAG
* *
114812062 AAGTCTGTAAGAGTCTGGAATCATTGTGTAACCTGAAGAAACAAG
1 AAGTCTGTAAGAGTCTGGAATCATCGTGTAACCCGAAGAAACAAG
114812107 AAGTCTGTAA
1 AAGTCTGTAA
114812117 CCACTACGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (45 bp):
AAGTCTGTAAGAGTCTGGAATCATCGTGTAACCCGAAGAAACAAG
Found at i:114817615 original size:21 final size:21
Alignment explanation
Indices: 114817589--114817632 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
114817579 GTAGATAATT
114817589 TAACTCCTAATAATCAAAAAC
1 TAACTCCTAATAATCAAAAAC
114817610 TAACTCCTAATAATCAAAAAC
1 TAACTCCTAATAATCAAAAAC
114817631 TA
1 TA
114817633 GTTCATACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (21 bp):
TAACTCCTAATAATCAAAAAC
Found at i:114819481 original size:48 final size:48
Alignment explanation
Indices: 114819376--114819562 Score: 148
Period size: 48 Copynumber: 3.9 Consensus size: 48
114819366 GAGGGTGAAT
* * * * *
114819376 TGCCGATGCCATGTCTCAAACATGGTCTTAAACTGGCTCACATGTCGA
1 TGCCGATGCCATGTCTCAAACATGGTCTTACACTAGCACACATCTCAA
* * * * *
114819424 -GCCCAATGCCGTGTCTTAAACATGGTCTTACGCTAGCACTCATCTCAA
1 TG-CCGATGCCATGTCTCAAACATGGTCTTACACTAGCACACATCTCAA
* * * * *
114819472 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-AA
1 TGCCGATGCCATGTCTCAAACATGGTCTTACACTAGCACACATCTCAA
* * *
114819517 TGTGGCCGACGCCATGTCGCAGACATGGTCTTACACTAGCACACAT
1 --T-GCCGATGCCATGTCTCAAACATGGTCTTACACTAGCACACAT
114819563 ATTGACGCTG
Statistics
Matches: 110, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 1 0.01
47 2 0.02
48 104 0.95
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
TGCCGATGCCATGTCTCAAACATGGTCTTACACTAGCACACATCTCAA
Found at i:114819543 original size:96 final size:96
Alignment explanation
Indices: 114819376--114819609 Score: 245
Period size: 96 Copynumber: 2.4 Consensus size: 96
114819366 GAGGGTGAAT
* * * * * * * **
114819376 TGCCGATGCCATGTCTCAAACATGGTCTTAAACTGGCTCACATGTCGAGCCCAATGCCGTGTCTT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGCCCAACGCCATGTCGC
* * *
114819441 AAACATGGTCTTACGCTAGCACTCATCTCAA
66 AAACATGGTCTTACACTAGCACACATATCAA
* * *
114819472 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGACGCCATGTCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAGCCCAACGCCATGTCG
* **
114819536 CAGACATGGTCTTACACTAGCACACATATTGA
65 CAAACATGGTCTTACACTAGCACACATATCAA
* * * * *
114819568 CGCTGATGTCATGTCCCAGATATGATCTTACACTGGCTCTCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
114819610 CAACATTGTT
Statistics
Matches: 114, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
96 113 0.99
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (96 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAGCCCAACGCCATGTCGC
AAACATGGTCTTACACTAGCACACATATCAA
Found at i:114819581 original size:48 final size:48
Alignment explanation
Indices: 114819443--114819601 Score: 165
Period size: 48 Copynumber: 3.3 Consensus size: 48
114819433 CGTGTCTTAA
* * ** *
114819443 ACATGGTCTTACGCTAGCACTCATCTCAATGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTAGCACTCATATTGACGCCGATGCCATGTCCCAG
* * * ** * *
114819491 ACATGGTCTTACACTGGCTCTCATAATGTGGCCGACGCCATGTCGCAG
1 ACATGGTCTTACACTAGCACTCATATTGACGCCGATGCCATGTCCCAG
* * *
114819539 ACATGGTCTTACACTAGCACACATATTGACGCTGATGTCATGTCCCAG
1 ACATGGTCTTACACTAGCACTCATATTGACGCCGATGCCATGTCCCAG
* *
114819587 ATATGATCTTACACT
1 ACATGGTCTTACACT
114819602 GGCTCTCACA
Statistics
Matches: 88, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
ACATGGTCTTACACTAGCACTCATATTGACGCCGATGCCATGTCCCAG
Found at i:114819627 original size:96 final size:96
Alignment explanation
Indices: 114819441--114819649 Score: 222
Period size: 96 Copynumber: 2.2 Consensus size: 96
114819431 GCCGTGTCTT
* * * * *
114819441 AAACATGGTCTTACGCTAGCACTCATCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 AAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGACATGATCTTACACT
* **
114819506 GGCTCTCATAATGTGGCCGACGCCA-TGTCGC
66 GGCTCTCACAACATGGCCGACGCCATTGTC-C
* ** * * *
114819537 AGACATGGTCTTACACTAGCACACATATTGACGCTGATGTCATGTCCCAGATATGATCTTACACT
1 AAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGACATGATCTTACACT
* ** * *
114819602 GGCTCTCACAACATTGTTGATGCCATTTTCC
66 GGCTCTCACAACATGGCCGACGCCATTGTCC
*
114819633 AAATATGGTCTTACACT
1 AAACATGGTCTTACACT
114819650 GGCTCTCATA
Statistics
Matches: 91, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
96 88 0.97
97 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (96 bp):
AAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGACATGATCTTACACT
GGCTCTCACAACATGGCCGACGCCATTGTCC
Found at i:114819689 original size:48 final size:48
Alignment explanation
Indices: 114819481--114819697 Score: 150
Period size: 48 Copynumber: 4.5 Consensus size: 48
114819471 ATGCCGATGC
* * * *
114819481 CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGACGC
1 CATGTCTCAGACATGGTCTTACACTGGCTCTCATATTGTAGCCGACGT
* * * * * *
114819529 CATGTCGCAGACATGGTCTTACACTAGCACACATATTG-ACGCTGATGT
1 CATGTCTCAGACATGGTCTTACACTGGCTCTCATATTGTA-GCCGACGT
* * * * *** * ** * *
114819577 CATGTCCCAGATATGATCTTACACTGGCTCTCACAACATTGTTGATGC
1 CATGTCTCAGACATGGTCTTACACTGGCTCTCATATTGTAGCCGACGT
* * * *
114819625 CAT-TTTCCAAATATGGTCTTACACTGGCTCTCATATTGTAGCCGGCGT
1 CATGTCT-CAGACATGGTCTTACACTGGCTCTCATATTGTAGCCGACGT
* *
114819673 CATGTCTTAGACATGGTTTTACACT
1 CATGTCTCAGACATGGTCTTACACT
114819698 AGCGCATATA
Statistics
Matches: 124, Mismatches: 41, Indels: 8
0.72 0.24 0.05
Matches are distributed among these distances:
47 1 0.01
48 121 0.98
49 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (48 bp):
CATGTCTCAGACATGGTCTTACACTGGCTCTCATATTGTAGCCGACGT
Found at i:114827098 original size:48 final size:48
Alignment explanation
Indices: 114827039--114827356 Score: 228
Period size: 48 Copynumber: 6.6 Consensus size: 48
114827029 GTGAATTACC
* *
114827039 GATGCCATGTCCCAGATATGGTCTTACACTGGCTCACATGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCT
* * * * * ***
114827087 GATGCCGTGTCCCAGACATGGTCTTACACTAGCTCTCGTCTC-AATTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCT
* * * ** * *
114827134 CGATACCATGTCCCAAATATGGTCTTACACTGGCTCTTATAAT-GTGGCC
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAGGCT
* * * * *
114827183 GATGCCATGTCTCAAACATGGTCTTACACTAGCACACATATCGACGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCT
* * * * * * * *
114827231 GATGTCATGTCCTAGACATGGTCTTACACTGACTCTCACAAC-ATTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGA-GGCT
* * ** * **
114827279 GATGCCATGTTCCAAACATGGTCTTACACTGGCTTTCATATTGTTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCT
* * *
114827327 GACGCCATGTCTCAGATATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
114827357 AGGTTCAACC
Statistics
Matches: 204, Mismatches: 60, Indels: 12
0.74 0.22 0.04
Matches are distributed among these distances:
47 5 0.02
48 198 0.97
49 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCT
Found at i:114827300 original size:144 final size:144
Alignment explanation
Indices: 114827037--114827358 Score: 400
Period size: 144 Copynumber: 2.2 Consensus size: 144
114827027 GGGTGAATTA
* * * * * *
114827037 CCGATGCCATGTCCCAGATATGGTCTTACACTGGCTCACATGTCGAGGCTGATGCCGTGTCCCAG
1 CCGATGCCATGTCTCAGATATGGTCTTACACTAGCACACATATCGACGCTGATGCCATGTCCCAG
* * * *
114827102 ACATGGTCTTACACTAGCTCTCGTCTCAATTTCGATACCATGTCCCAAATATGGTCTTACACTGG
66 ACATGGTCTTACACTAGCTCTCGACACAATTCCGATACCATGTCCCAAACATGGTCTTACACTGG
114827167 CTCTT-ATAATGTGG
131 CT-TTCATAATGTGG
* * * *
114827181 CCGATGCCATGTCTCAAACATGGTCTTACACTAGCACACATATCGACGCTGATGTCATGTCCTAG
1 CCGATGCCATGTCTCAGATATGGTCTTACACTAGCACACATATCGACGCTGATGCCATGTCCCAG
* *
114827246 ACATGGTCTTACACT-GACTCTC-ACA-ACATTGCCGATGCCATGTTCCAAACATGGTCTTACAC
66 ACATGGTCTTACACTAG-CTCTCGACACA-ATT-CCGATACCATGTCCCAAACATGGTCTTACAC
* *
114827308 TGGCTTTCATATTGTTG
128 TGGCTTTCATAATGTGG
* *
114827325 CTGACGCCATGTCTCAGATATGGTCTTACACTAG
1 CCGATGCCATGTCTCAGATATGGTCTTACACTAG
114827359 GTTCAACCGG
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
142 1 0.01
143 7 0.05
144 144 0.95
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (144 bp):
CCGATGCCATGTCTCAGATATGGTCTTACACTAGCACACATATCGACGCTGATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCTCGACACAATTCCGATACCATGTCCCAAACATGGTCTTACACTGG
CTTTCATAATGTGG
Found at i:114829613 original size:14 final size:15
Alignment explanation
Indices: 114829582--114829614 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
114829572 TATTTTTGTT
114829582 TTAT-TTTATTTAAG
1 TTATATTTATTTAAG
114829596 TTATATTTATTTAA-
1 TTATATTTATTTAAG
114829610 TTATA
1 TTATA
114829615 AAATTTCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (15 bp):
TTATATTTATTTAAG
Found at i:114834111 original size:155 final size:155
Alignment explanation
Indices: 114833829--114834132 Score: 590
Period size: 155 Copynumber: 2.0 Consensus size: 155
114833819 TGGTAAGTTG
114833829 TGACAATCTTATGCTTCACTTCATGTTTGTTGAGCAACCATTTCAACCCAAAAGAAACTCTACTT
1 TGACAATCTTATGCTTCACTTCATGTTTGTTGAGCAACCATTTCAACCCAAAAGAAACTCTACTT
114833894 ACTTGTGAATTACGGATTAAACCATGAAGATATACATATGAAAAAGAAACAATTGCTATGAATTC
66 ACTTGTGAATTACGGATTAAACCATGAAGATATACATATGAAAAAGAAACAATTGCTATGAATTC
114833959 GATTCTCATCATGACCATTACGTTC
131 GATTCTCATCATGACCATTACGTTC
114833984 TGACAATCTTATGCTTCACTTCATGTTTGTTGAGCAACCATTTCAACCCAAAAGAAACTCTACTT
1 TGACAATCTTATGCTTCACTTCATGTTTGTTGAGCAACCATTTCAACCCAAAAGAAACTCTACTT
* *
114834049 ACTTGTGAATTACGGATTAAACCATTAAGATATACATATGAAAATGAAACAATTGCTATGAATTC
66 ACTTGTGAATTACGGATTAAACCATGAAGATATACATATGAAAAAGAAACAATTGCTATGAATTC
114834114 GATTCTCATCATGACCATT
131 GATTCTCATCATGACCATT
114834133 CTTGCAACCC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 147 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (155 bp):
TGACAATCTTATGCTTCACTTCATGTTTGTTGAGCAACCATTTCAACCCAAAAGAAACTCTACTT
ACTTGTGAATTACGGATTAAACCATGAAGATATACATATGAAAAAGAAACAATTGCTATGAATTC
GATTCTCATCATGACCATTACGTTC
Found at i:114836105 original size:25 final size:22
Alignment explanation
Indices: 114836052--114836105 Score: 54
Period size: 26 Copynumber: 2.3 Consensus size: 22
114836042 GATGAGATTG
114836052 ATTTTTTATAAATTTGATATTA
1 ATTTTTTATAAATTTGATATTA
* *
114836074 TTATTTTTAGCTAAATTTTGTTATTA
1 AT-TTTTTA--TAAA-TTTGATATTA
114836100 ATTTTT
1 ATTTTT
114836106 AAAAAAAGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.04
23 6 0.24
25 8 0.32
26 10 0.40
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (22 bp):
ATTTTTTATAAATTTGATATTA
Found at i:114839208 original size:26 final size:27
Alignment explanation
Indices: 114839179--114839247 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
114839169 TTTAATATTC
114839179 AATATTTTTAATATAT-ATTATTAATA
1 AATATTTTTAATATATAATTATTAATA
*** *
114839205 AATATGAAT-ATATATAATTTTTAATA
1 AATATTTTTAATATATAATTATTAATA
114839231 AATTATTCTTTAATATA
1 AA-TATT-TTTAATATA
114839248 AGTATGATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
25 6 0.19
26 17 0.53
27 3 0.09
28 1 0.03
29 5 0.16
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
AATATTTTTAATATATAATTATTAATA
Found at i:114839228 original size:55 final size:57
Alignment explanation
Indices: 114839124--114839230 Score: 130
Period size: 55 Copynumber: 1.9 Consensus size: 57
114839114 ATTCTATTAT
* * * * * *
114839124 TATTTTTATTATTTATTTTTAACATAAATATGATTTTATTTATTATTTAATATTCAA
1 TATTTTTAATATATATTATTAACATAAATATGAATATATTAATTATTTAATATTCAA
114839181 TATTTTTAATATATATTATT-A-ATAAATATGAATATATATAATT-TTTAATA
1 TATTTTTAATATATATTATTAACATAAATATGAATATAT-TAATTATTTAATA
114839231 AATTATTCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
55 21 0.49
56 5 0.12
57 17 0.40
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (57 bp):
TATTTTTAATATATATTATTAACATAAATATGAATATATTAATTATTTAATATTCAA
Found at i:114842072 original size:59 final size:60
Alignment explanation
Indices: 114841949--114842074 Score: 139
Period size: 60 Copynumber: 2.1 Consensus size: 60
114841939 GTGTCAAGAT
* * * * * * * * *
114841949 TAAAATTTTAAAATTTGATAAATATAAGGACTTAGAATTATCTAATTAGAGAATATGGAC
1 TAAATTTTTAAAATTTGAAAAATATAAGGACTTAAAATTAACTAATTAGAAAAAAAGAAA
*
114842009 TAAATTTTTAAATTTTGAAAAATATAAGGAC-TAAAATTAACTAATTCA-AAAAAAAGAAA
1 TAAATTTTTAAAATTTGAAAAATATAAGGACTTAAAATTAACTAATT-AGAAAAAAAGAAA
114842068 TAAATTT
1 TAAATTT
114842075 AGTCAAATTA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 26 0.47
60 29 0.53
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.34
Consensus pattern (60 bp):
TAAATTTTTAAAATTTGAAAAATATAAGGACTTAAAATTAACTAATTAGAAAAAAAGAAA
Found at i:114842799 original size:2 final size:2
Alignment explanation
Indices: 114842787--114842821 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
114842777 AACTTTTATT
*
114842787 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
114842822 CCTAAGATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:114844480 original size:22 final size:22
Alignment explanation
Indices: 114844455--114844496 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
114844445 AAACAAGGAT
* * *
114844455 TAAATAAATATTATTATTTTAA
1 TAAAAAAATATAAATATTTTAA
114844477 TAAAAAAATATAAATATTTT
1 TAAAAAAATATAAATATTTT
114844497 TTATTGGGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAAAAATATAAATATTTTAA
Found at i:114844641 original size:4 final size:4
Alignment explanation
Indices: 114844632--114844682 Score: 57
Period size: 4 Copynumber: 12.2 Consensus size: 4
114844622 TTCTCAAAAT
* * *
114844632 ATTA ATTA ATTA ATTA ATTA ATTG ATTAA ATTTA ATTA ATTT CTTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT-A A-TTA ATTA ATTA ATTA ATTA
114844682 A
1 A
114844683 ATTATTTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
4 34 0.87
5 3 0.08
6 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (4 bp):
ATTA
Found at i:114846506 original size:30 final size:29
Alignment explanation
Indices: 114846471--114846561 Score: 77
Period size: 30 Copynumber: 3.3 Consensus size: 29
114846461 AGAAGAAAAT
114846471 ATATATACACAAAATAATATAAAATCAATA
1 ATATATACACAAAATAATA-AAAATCAATA
*
114846501 ATATATATAC---ATAATAAAAA--AA-A
1 ATATATACACAAAATAATAAAAATCAATA
* * *
114846524 ATATTTACATAAAATAATAGGAAATCAATA
1 ATATATACACAAAATAATA-AAAATCAATA
*
114846554 ATGTATAC
1 ATATATAC
114846562 TTAGAATAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
23 8 0.17
24 2 0.04
26 10 0.21
27 9 0.19
29 2 0.04
30 16 0.34
ACGTcount: A:0.60, C:0.08, G:0.03, T:0.29
Consensus pattern (29 bp):
ATATATACACAAAATAATAAAAATCAATA
Found at i:114846570 original size:53 final size:53
Alignment explanation
Indices: 114846466--114846573 Score: 128
Period size: 53 Copynumber: 2.0 Consensus size: 53
114846456 TCCTTAGAAG
* * *
114846466 AAAATATATATACACAAAATAATATAAAATCAATAATATATATACATAATAAA
1 AAAAAATATATACACAAAATAATAGAAAATCAATAATATATATACAGAATAAA
* * * * *
114846519 AAAAAATATTTACATAAAATAATAGGAAATCAATAATGTATACT-TAGAATAAA
1 AAAAAATATATACACAAAATAATAGAAAATCAATAATATATA-TACAGAATAAA
114846572 AA
1 AA
114846574 TAATTTAGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 45 0.98
54 1 0.02
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (53 bp):
AAAAAATATATACACAAAATAATAGAAAATCAATAATATATATACAGAATAAA
Found at i:114846831 original size:18 final size:18
Alignment explanation
Indices: 114846810--114846849 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
114846800 AATAAGGAAT
114846810 AAAACATAAATTGAAGTAA
1 AAAAC-TAAATTGAAGTAA
*
114846829 AAAACTCAATTGAAGTAA
1 AAAACTAAATTGAAGTAA
114846847 AAA
1 AAA
114846850 TAAAACCCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.20
Consensus pattern (18 bp):
AAAACTAAATTGAAGTAA
Found at i:114847416 original size:154 final size:151
Alignment explanation
Indices: 114847135--114847481 Score: 451
Period size: 154 Copynumber: 2.3 Consensus size: 151
114847125 AATTGAATAA
* *
114847135 ATTGAGTATTAGCGGCGTTTTTAAGGAAGTGCCGCTATAGGTCGACATATAGCAGCGTTTTTATA
1 ATTGAGTATTAGCGGC-TTTTT-AGAAAGCGCCGCTATAGGTCGACATATAGCAGCGTTTTTATA
* ** *
114847200 AAAACGCCACTAAAAGATTAGGCAAACGACGTCGTTTATTGTGAGCTTCAGTGGCAATAGCGGCG
64 AAAACGCCACTAAAAAATTAACCAAACGACGTCGTTTATTGTGAGCTTCACTGGCAATAGCGGCG
* * *
114847265 CTTTATCAAAAACGTCGCTATAGG
129 CTTGAGCAAAAACGCCGCTATA-G
* * * * *
114847289 TTTGAGTATTAGCGGCATTTTTAGAAAGCGCCGCTATAGGTCGGCCTATAGCGGCGTTTTTATAG
1 ATTGAGTATTAGCGGC-TTTTTAGAAAGCGCCGCTATAGGTCGACATATAGCAGCGTTTTTATAA
* * * *
114847354 AAACGCCGCTAAAAAATTAAACCGAACGGCGTCGTTTATTTTGAGCTTCACTGGCAATAGCGGCG
65 AAACGCCACTAAAAAATT-AACCAAACGACGTCGTTTATTGTGAGCTTCACTGGCAATAGCGGCG
114847419 CTTGAGCAAAAACGCCGCTATAG
129 CTTGAGCAAAAACGCCGCTATAG
* *
114847442 ATTGAGTATTAGCAGCGCTTTTTAGAAAACGCCGCAATAG
1 ATTGAGTATTAGC-G-GCTTTTTAGAAAGCGCCGCTATAG
114847482 ATATGAGTTT
Statistics
Matches: 168, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
153 66 0.39
154 100 0.60
155 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (151 bp):
ATTGAGTATTAGCGGCTTTTTAGAAAGCGCCGCTATAGGTCGACATATAGCAGCGTTTTTATAAA
AACGCCACTAAAAAATTAACCAAACGACGTCGTTTATTGTGAGCTTCACTGGCAATAGCGGCGCT
TGAGCAAAAACGCCGCTATAG
Found at i:114847471 original size:40 final size:42
Alignment explanation
Indices: 114847426--114847525 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 42
114847416 GCGCTTGAGC
114847426 AAAAACGCCGCTATAGAT-TGAGTATT-AGCAGCGCTTTTTAG
1 AAAAACGCCGCTATAGATATGAGT-TTCAGCAGCGCTTTTTAG
* * *
114847467 -AAAACGCCGCAATAGATATGAGTTTCAGCGGCGCTTTTTGG
1 AAAAACGCCGCTATAGATATGAGTTTCAGCAGCGCTTTTTAG
*
114847508 AAAAACGCCGCTAAAGAT
1 AAAAACGCCGCTATAGAT
114847526 CTAAACTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 18 0.35
41 18 0.35
42 15 0.29
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTATAGATATGAGTTTCAGCAGCGCTTTTTAG
Found at i:114848241 original size:23 final size:21
Alignment explanation
Indices: 114848215--114848261 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
114848205 AGGTTTATGC
*
114848215 ATGGTTTAGGGTATATATGGTTT
1 ATGGTTTAGGGT-T-TATGGATT
*
114848238 ATGGTTTATGGTTTATGGATT
1 ATGGTTTAGGGTTTATGGATT
114848259 ATG
1 ATG
114848262 ACAAGTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 1 0.05
23 11 0.50
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (21 bp):
ATGGTTTAGGGTTTATGGATT
Found at i:114848242 original size:7 final size:7
Alignment explanation
Indices: 114848215--114848261 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
114848205 AGGTTTATGC
114848215 ATGGTTT
1 ATGGTTT
*
114848222 AGGGTATAT
1 ATGGT-T-T
114848231 ATGGTTT
1 ATGGTTT
114848238 ATGGTTT
1 ATGGTTT
114848245 ATGGTTT
1 ATGGTTT
*
114848252 ATGGATT
1 ATGGTTT
114848259 ATG
1 ATG
114848262 ACAAGTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 28 0.80
8 2 0.06
9 5 0.14
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (7 bp):
ATGGTTT
Found at i:114848623 original size:22 final size:22
Alignment explanation
Indices: 114848598--114848639 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
114848588 GTGTTTAAAT
114848598 TTTAGGGATTAAGGGTTAATAG
1 TTTAGGGATTAAGGGTTAATAG
* *
114848620 TTTAGGGTTTAGGGGTTAAT
1 TTTAGGGATTAAGGGTTAAT
114848640 GGGATATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (22 bp):
TTTAGGGATTAAGGGTTAATAG
Found at i:114848623 original size:73 final size:72
Alignment explanation
Indices: 114848493--114848629 Score: 170
Period size: 73 Copynumber: 1.9 Consensus size: 72
114848483 TAAGGGGTTG
* * * *
114848493 AGGGGATATAGTTTAGGGTTTAGTGTTCAAAGTCTTTGGATTAAGGGTTTAGGGTTTATGGGTTT
1 AGGGGACATAGTTTAAGGTTTAGTGTTCAAAGTCTTTGGATTAAGGGTTAAGAGTTTA-GGGTTT
114848558 GGAAGTTA
65 GGAAGTTA
* * *
114848566 AGGGGACATTGTTTAAGGTTTAGTGTTTAAA-T-TTTAGGGATTAAGGGTTAATAGTTTAGGGTT
1 AGGGGACATAGTTTAAGGTTTAGTGTTCAAAGTCTTT--GGATTAAGGGTTAAGAGTTTAGGGTT
114848629 T
64 T
114848630 AGGGGTTAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
71 3 0.05
72 7 0.13
73 45 0.82
ACGTcount: A:0.25, C:0.02, G:0.32, T:0.41
Consensus pattern (72 bp):
AGGGGACATAGTTTAAGGTTTAGTGTTCAAAGTCTTTGGATTAAGGGTTAAGAGTTTAGGGTTTG
GAAGTTA
Found at i:114848894 original size:26 final size:24
Alignment explanation
Indices: 114848854--114848913 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
114848844 TTATTTTATT
* * *
114848854 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
114848878 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
114848904 AAATAAATAT
1 AAATAAATAT
114848914 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:114848925 original size:22 final size:22
Alignment explanation
Indices: 114848884--114848942 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
114848874 ATAATAAATC
* *
114848884 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
114848904 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
114848926 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
114848943 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:114849364 original size:16 final size:16
Alignment explanation
Indices: 114849339--114849391 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
114849329 ACATATATTA
114849339 AATAATTTCAAATTTT
1 AATAATTTCAAATTTT
* *
114849355 AATGATTTCAAATTGTC
1 AATAATTTCAAATT-TT
114849372 AATAATTTTCAAGATTTT
1 AATAA-TTTCAA-ATTTT
114849390 AA
1 AA
114849392 ATTTTATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 13 0.43
17 5 0.17
18 9 0.30
19 3 0.10
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (16 bp):
AATAATTTCAAATTTT
Found at i:114851549 original size:15 final size:16
Alignment explanation
Indices: 114851523--114851552 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
114851513 GTAGTTATGA
114851523 ATGAGTTTTTCAGTGC
1 ATGAGTTTTTCAGTGC
114851539 ATGAG-TTTTCAGTG
1 ATGAGTTTTTCAGTG
114851553 TATAACCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (16 bp):
ATGAGTTTTTCAGTGC
Found at i:114853284 original size:14 final size:13
Alignment explanation
Indices: 114853261--114853290 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
114853251 ATTACTATAA
114853261 TAATTATATGAAG
1 TAATTATATGAAG
114853274 TAATATATATGAAG
1 TAAT-TATATGAAG
114853288 TAA
1 TAA
114853291 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:114853767 original size:15 final size:15
Alignment explanation
Indices: 114853747--114853775 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
114853737 GGAGTAGACC
114853747 AGGTACGTTTTATTA
1 AGGTACGTTTTATTA
114853762 AGGTACGTTTTATT
1 AGGTACGTTTTATT
114853776 TCAAAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
AGGTACGTTTTATTA
Found at i:114854654 original size:357 final size:358
Alignment explanation
Indices: 114853999--114854679 Score: 1274
Period size: 357 Copynumber: 1.9 Consensus size: 358
114853989 CTTGTCCATT
*
114853999 AAAATTACAACAATGGATGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGGAT
1 AAAATTACAACAATGGATGACCTTCTCTCCAACCTTATTCTAAATATTTTAAAGATTCAAAGGAT
*
114854064 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCATTCCTAAGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCATCCCTAAGT
114854129 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
114854194 TCATTTACTATTGAATATTTATTTCCAATTTACTTATAAAAATTAAACTACAATTCTTTTTTTAT
196 TCATTTACTATTGAATATTTATTTCCAATTTACTTATAAAAATTAAACTACAATTCTTTTTTTAT
*
114854259 ATTATTATATTCAAATTACTATTTTTTGCATTAATAATGTTTGATTTTAATATTT-AATATTTTT
261 ATTATTATATTCAAATTACTATTTTTTACATTAATAATGTTTGATTTTAATATTTAAATATTTTT
114854323 AAATGTCTTTAAAAGTTATAACTAATTTTTATC
326 AAATGTCTTTAAAAGTTATAACTAATTTTTATC
* *
114854356 AAAATTACAACAATGGCTGACCTTCTCTCCAACCTTATTCTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATGGATGACCTTCTCTCCAACCTTATTCTAAATATTTTAAAGATTCAAAGGAT
* *
114854421 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCATCCCTAAGT
114854486 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
*
114854551 TCATTTACTATTGAATATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTTAT
196 TCATTTACTATTGAATATTTATTTCCAATTTACTTATAAAAATTAAACTACAATTCTTTTTTTAT
*
114854616 ATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTT
261 ATTATTATATTCAAATTACTATTTTTTACATTAATAATGTTTGATTTTAATATTTAAATATTTT
114854680 AAAGATTCAA
Statistics
Matches: 314, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
357 306 0.97
358 8 0.03
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (358 bp):
AAAATTACAACAATGGATGACCTTCTCTCCAACCTTATTCTAAATATTTTAAAGATTCAAAGGAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCATCCCTAAGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
TCATTTACTATTGAATATTTATTTCCAATTTACTTATAAAAATTAAACTACAATTCTTTTTTTAT
ATTATTATATTCAAATTACTATTTTTTACATTAATAATGTTTGATTTTAATATTTAAATATTTTT
AAATGTCTTTAAAAGTTATAACTAATTTTTATC
Found at i:114856582 original size:13 final size:14
Alignment explanation
Indices: 114856566--114856594 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
114856556 TTCTAAATAT
114856566 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
114856579 TTATAATTGTTTAA
1 TTATAATTGTTTAA
114856593 TT
1 TT
114856595 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:114857031 original size:21 final size:21
Alignment explanation
Indices: 114857006--114857045 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
114856996 TTAGAGCGGA
114857006 GGCAGCAGAGAGGGAGGCAAC
1 GGCAGCAGAGAGGGAGGCAAC
*
114857027 GGCAGCAGCGAGGGAGGCA
1 GGCAGCAGAGAGGGAGGCA
114857046 GAGCATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.50, T:0.00
Consensus pattern (21 bp):
GGCAGCAGAGAGGGAGGCAAC
Found at i:114857435 original size:43 final size:43
Alignment explanation
Indices: 114857374--114857602 Score: 397
Period size: 43 Copynumber: 5.3 Consensus size: 43
114857364 TCTGCCAAAA
*
114857374 TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCATGACTT
1 TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTT
114857417 TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTT
1 TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTT
* *
114857460 TTAGCGGCGCTTTTTTTTCAAACGCCGCTAAAGGCTA-GACTT
1 TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTT
*
114857502 TTAGCAGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTT
1 TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTT
* *
114857545 TTAGCGGCGTTTTTTCTTCAAACGCCGCTAAAGGCCATGACTT
1 TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTT
114857588 TTAGCGGCGCTTTTT
1 TTAGCGGCGCTTTTT
114857603 TTAATAAACG
Statistics
Matches: 175, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
42 39 0.22
43 136 0.78
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTT
Found at i:114857531 original size:85 final size:86
Alignment explanation
Indices: 114857374--114857602 Score: 408
Period size: 85 Copynumber: 2.7 Consensus size: 86
114857364 TCTGCCAAAA
*
114857374 TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTCTTCAAA
1 TTAGCGGCGCTTTTTTTTCAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTCTTCAAA
114857439 CGCCGCTAAAGGCCACGACTT
66 CGCCGCTAAAGGCCACGACTT
* *
114857460 TTAGCGGCGCTTTTTTTTCAAACGCCGCTAAAGGCTA-GACTTTTAGCAGCGCTTTTTCTTCAAA
1 TTAGCGGCGCTTTTTTTTCAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTCTTCAAA
114857524 CGCCGCTAAAGGCCACGACTT
66 CGCCGCTAAAGGCCACGACTT
114857545 TTAGCGGCG-TTTTTTCTTCAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTT
1 TTAGCGGCGCTTTTTT-TTCAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTT
114857603 TTAATAAACG
Statistics
Matches: 136, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
84 6 0.04
85 76 0.56
86 54 0.40
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (86 bp):
TTAGCGGCGCTTTTTTTTCAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTCTTCAAA
CGCCGCTAAAGGCCACGACTT
Found at i:114857602 original size:128 final size:128
Alignment explanation
Indices: 114857374--114857604 Score: 426
Period size: 128 Copynumber: 1.8 Consensus size: 128
114857364 TCTGCCAAAA
* *
114857374 TTAGCGGCGCTTTTTCTTCAAACGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTCTTCAAA
1 TTAGCAGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTCTTCAAA
114857439 CGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTTTCAAACGCCGCTAAAGGCTAGACTT
66 CGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTTTCAAACGCCGCTAAAGGCTAGACTT
*
114857502 TTAGCAGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTTTTAGCGGCGTTTTTTCTTCAAA
1 TTAGCAGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTCTTCAAA
*
114857567 CGCCGCTAAAGGCCATGACTTTTAGCGGCGCTTTTTTT
66 CGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTT
114857605 AATAAACGCC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 99 1.00
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (128 bp):
TTAGCAGCGCTTTTTCTTCAAACGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTCTTCAAA
CGCCGCTAAAGGCCACGACTTTTAGCGGCGCTTTTTTTTCAAACGCCGCTAAAGGCTAGACTT
Found at i:114858504 original size:19 final size:19
Alignment explanation
Indices: 114858480--114858516 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
114858470 TTTTATGTAA
* *
114858480 TTGGGCTGTAATTGGGTAT
1 TTGGGCTGGAATTAGGTAT
114858499 TTGGGCTGGAATTAGGTA
1 TTGGGCTGGAATTAGGTA
114858517 GCCCGGGCAA
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:0.19, C:0.05, G:0.38, T:0.38
Consensus pattern (19 bp):
TTGGGCTGGAATTAGGTAT
Found at i:114858916 original size:88 final size:88
Alignment explanation
Indices: 114858752--114859177 Score: 457
Period size: 88 Copynumber: 4.8 Consensus size: 88
114858742 CGTTTCAATT
* * * * * *
114858752 TGCTCCACTACTGTTTAGGGAGATATGATTTGTAATCTT-CAGCC-ATCT-CCACTGCTGGTCAG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTAT-TACC-CTACTGCTTAG
* *
114858814 -GGAGATAAGGCTCACTGTCTTCGATC
63 AGG-GTTAAGGCTCACCGTCTTCGATC
* * * * *
114858840 TGCTCCGCTATTGCTTAGGGAGATAAGATTTGTAGTTTCCAGCCTGTTACCCTACTGCTTAGAGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTACCCTACTGCTTAGAGG
* *
114858905 GTTAAGACTCACCGTCCTCGATC
66 GTTAAGGCTCACCGTCTTCGATC
* * * * *
114858928 TGTTCCACTACTGCTTTGAGAGATAAGATCTGTAATTTTCAGCCTATTACTCTACTGCTTAG-GA
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTACCCTACTGCTTAGAG-
* * *
114858992 GGTTAAGCCTCACCGCCTTCAATC
65 GGTTAAGGCTCACCGTCTTCGATC
* * ** *
114859016 TACTCCACTACTACTTAGGGAGATAAGATCCATAATTTCCAGCCTATTACCCTAATGCTTAGAGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTACCCTACTGCTTAGAGG
* **
114859081 GTTAAGGCTCACCGTTTTTTATC
66 GTTAAGGCTCACCGTCTTCGATC
* * * *
114859104 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGGG
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTACCCTACTGCTTAGAGG
114859169 GTTAAGGCT
66 GTTAAGGCT
114859178 GGTCGAGATT
Statistics
Matches: 281, Mismatches: 51, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
87 3 0.01
88 272 0.97
89 6 0.02
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (88 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTACCCTACTGCTTAGAGG
GTTAAGGCTCACCGTCTTCGATC
Found at i:114861462 original size:93 final size:93
Alignment explanation
Indices: 114861350--114861520 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
114861340 GCCCATAAGT
* *
114861350 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
114861415 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
114861443 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
114861508 CGAGTTCGGATGC
66 CGAGTTCGGATGC
114861521 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:114861536 original size:46 final size:46
Alignment explanation
Indices: 114861342--114861522 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
114861332 TGTAACCCGC
* * *
114861342 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
114861388 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
114861438 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
114861481 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
114861523 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:114866182 original size:19 final size:19
Alignment explanation
Indices: 114866158--114866203 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
114866148 TGTGAAGTTT
*
114866158 AATGCACATG-ATGCAATG
1 AATGCAAATGCATGCAATG
*
114866176 CAATGCAAATGCATGGAATG
1 -AATGCAAATGCATGCAATG
114866196 AATGCAAA
1 AATGCAAA
114866204 AGAAAGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (19 bp):
AATGCAAATGCATGCAATG
Found at i:114868272 original size:15 final size:14
Alignment explanation
Indices: 114868238--114868282 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 14
114868228 AAATAAATCA
*
114868238 AAATAATAAGA-AT
1 AAATAATAATATAT
114868251 AAA-AATAATATAT
1 AAATAATAATATAT
114868264 GAAATAATAATATAT
1 -AAATAATAATATAT
114868279 AAAT
1 AAAT
114868283 GAAATTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 7 0.25
15 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (14 bp):
AAATAATAATATAT
Found at i:114868286 original size:19 final size:18
Alignment explanation
Indices: 114868228--114868287 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 18
114868218 TGAAAGTTCG
*
114868228 AAAT-AAATCAAAATAAT
1 AAATGAAATAAAAATAAT
114868245 -AA-G-AATAAAAATAAT
1 AAATGAAATAAAAATAAT
* *
114868260 ATATGAAATAATAATATAT
1 AAATGAAATAAAAATA-AT
114868279 AAATGAAAT
1 AAATGAAAT
114868288 TTCAAAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 11 0.32
16 3 0.09
17 1 0.03
18 9 0.26
19 10 0.29
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (18 bp):
AAATGAAATAAAAATAAT
Found at i:114868517 original size:22 final size:21
Alignment explanation
Indices: 114868485--114868539 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
114868475 ACAAAATAAT
*
114868485 ATAAAATTAATAATATATATAC
1 ATAAAA-TAATAAAATATATAC
*
114868507 ATAATAATAATAAAATATTTAC
1 ATAA-AATAATAAAATATATAC
114868529 ATAAAATAATA
1 ATAAAATAATA
114868540 GGAAATCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 7 0.23
22 21 0.70
23 2 0.07
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAATAATAAAATATATAC
Found at i:114868704 original size:18 final size:18
Alignment explanation
Indices: 114868683--114868722 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
114868673 AATAAGGAAT
114868683 AAAACATAAATTGAAGTAA
1 AAAAC-TAAATTGAAGTAA
*
114868702 AAAACTCAATTGAAGTAA
1 AAAACTAAATTGAAGTAA
114868720 AAA
1 AAA
114868723 TAAAACCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.20
Consensus pattern (18 bp):
AAAACTAAATTGAAGTAA
Found at i:114869690 original size:19 final size:19
Alignment explanation
Indices: 114869666--114869702 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
114869656 TTTTATGTAA
* *
114869666 TTGGGCTGTAATTGGGTAT
1 TTGGGCTGGAATTAGGTAT
114869685 TTGGGCTGGAATTAGGTA
1 TTGGGCTGGAATTAGGTA
114869703 GCCCGGGAAA
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:0.19, C:0.05, G:0.38, T:0.38
Consensus pattern (19 bp):
TTGGGCTGGAATTAGGTAT
Found at i:114873843 original size:25 final size:25
Alignment explanation
Indices: 114873776--114873846 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
114873766 AATACAAACA
* *
114873776 CAACCCAATTACAAAACCCAAAACCTAT
1 CAACCCAATTAC--AACCC-AAACCAAG
* *
114873804 CAACCTAATTA-AACCCAAATCAAG
1 CAACCCAATTACAACCCAAACCAAG
114873828 CAACCCAATTACAACCCAA
1 CAACCCAATTACAACCCAA
114873847 CCTACCCCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 15 0.41
25 12 0.32
28 10 0.27
ACGTcount: A:0.49, C:0.35, G:0.01, T:0.14
Consensus pattern (25 bp):
CAACCCAATTACAACCCAAACCAAG
Found at i:114874866 original size:3 final size:3
Alignment explanation
Indices: 114874858--114875197 Score: 218
Period size: 3 Copynumber: 115.7 Consensus size: 3
114874848 TTTAACTACT
* * *
114874858 TTA TTA TTA -AA TTA GTTAA TT- TTA TTA TTA TTA CTA TTA TT- TTT
1 TTA TTA TTA TTA TTA -TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * ** *
114874902 TTCA CTA TTA TTA TTCA TTA TCA TTA CTA CCA TTA TTA TTA CTA TTA
1 TT-A TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * *
114874949 TTT TTA TTT TTA TCA CTA TTA CTC TCA CTA TTA TTA TT- TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
114874996 TTA CTA TTA TCA TTA TTA TTA TTA CTA TTA CTA TTA TTA TT- TTC TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
114875042 TTG CTA TT- TT- TTA TTA TTA TTA TTA CTA TTA TCA TTA TTC TTA TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** *
114875088 TTA TTA TTA GTA TTA TTA TTA TCA TGC TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
114875136 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTG TT- TTA TTTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
*
114875180 TTT TTA TT- TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TT
114875198 TATATTTATA
Statistics
Matches: 256, Mismatches: 65, Indels: 32
0.73 0.18 0.09
Matches are distributed among these distances:
2 23 0.09
3 221 0.86
4 11 0.04
5 1 0.00
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:114874996 original size:11 final size:11
Alignment explanation
Indices: 114874977--114875224 Score: 121
Period size: 12 Copynumber: 21.2 Consensus size: 11
114874967 TTACTCTCAC
114874977 TATTATTATTT
1 TATTATTATTT
* *
114874988 TATTTTTATTAC
1 TATTATTATT-T
*
114875000 TATTATCATTAT
1 TATTATTATT-T
114875012 TATTATTACTATT
1 TATTATTA-T-TT
114875025 ACTATTATTATTT
1 --TATTATTATTT
* *
114875038 TCTTTTGCTATTT
1 TATTAT--TATTT
114875051 T-TTATTA--T
1 TATTATTATTT
*
114875059 TATTATTACTAT
1 TATTATTA-TTT
*
114875071 TATCATTATTCT
1 TATTATTATT-T
*
114875083 TATTCTTATTAT
1 TATTATTATT-T
*
114875095 TAGTATTATTAT
1 TATTATTATT-T
* **
114875107 TATCATGCTTAT
1 TATTATTATT-T
*
114875119 TATTACTATTAT
1 TATTATTATT-T
114875131 TATTATTATTAT
1 TATTATTATT-T
114875143 TATTATTATTAT
1 TATTATTATT-T
114875155 TATTATTATTT
1 TATTATTATTT
*
114875166 TGTT-TTATTT
1 TATTATTATTT
*
114875176 AATATTTTTATTT
1 --TATTATTATTT
114875189 TATT-TTATTT
1 TATTATTATTT
114875199 ATATT-TATATTTT
1 -TATTAT-TA-TTT
*
114875212 TATTTTTATTT
1 TATTATTATTT
114875223 TA
1 TA
114875225 CAATTAGCTT
Statistics
Matches: 191, Mismatches: 27, Indels: 38
0.75 0.11 0.15
Matches are distributed among these distances:
8 2 0.01
9 6 0.03
10 14 0.07
11 32 0.17
12 107 0.56
13 20 0.10
14 2 0.01
15 8 0.04
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (11 bp):
TATTATTATTT
Found at i:114875216 original size:23 final size:23
Alignment explanation
Indices: 114875161--114875222 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
114875151 TTATTATTAT
* *
114875161 TATTTTGTTTTATTTAATATTTT
1 TATTTTATTTTATTTAATATTTA
114875184 TATTTTATTTTATTT-ATATTTA
1 TATTTTATTTTATTTAATATTTA
114875206 TATTTTTATTTTTATTT
1 TA-TTTTA-TTTTATTT
114875223 TACAATTAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
22 8 0.23
23 19 0.54
24 8 0.23
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.76
Consensus pattern (23 bp):
TATTTTATTTTATTTAATATTTA
Found at i:114875223 original size:6 final size:6
Alignment explanation
Indices: 114875127--114875223 Score: 74
Period size: 6 Copynumber: 16.2 Consensus size: 6
114875117 ATTATTACTA
* * * * *
114875127 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTAT TT-TGTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATT-T TTAT-TT TTATTT
* * *
114875176 AATATTT TTA-TT TTA-TT TTATTT ATATTT ATATTT TTATTT TTATTT
1 -TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
114875223 T
1 T
114875224 ACAATTAGCT
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
5 10 0.12
6 62 0.77
7 9 0.11
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.73
Consensus pattern (6 bp):
TTATTT
Found at i:114878875 original size:50 final size:50
Alignment explanation
Indices: 114878800--114879076 Score: 473
Period size: 50 Copynumber: 5.5 Consensus size: 50
114878790 CCATGGTAAC
114878800 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
114878850 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
114878900 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
114878950 AAGTGATAAGTAATAGCTTCGACTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
114879000 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
114879050 CAAGTGAAAAGTGGTAGCTTTGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
114879077 CTGATCAGTG
Statistics
Matches: 216, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
50 193 0.89
51 23 0.11
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:114879090 original size:31 final size:31
Alignment explanation
Indices: 114879052--114879200 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
114879042 ACAAATGACA
*
114879052 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
114879083 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
114879114 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
114879145 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
114879176 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
114879201 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:114879336 original size:46 final size:43
Alignment explanation
Indices: 114879269--114879428 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 43
114879259 TGCTACTGTA
* *
114879269 TAAGACCATA-TCTGGGATATGGCATCAGTGAGATATGTGAT-TCGTG
1 TAAGACCATAGT-TGGGCTATGGCATCA--GAGATATG-AATAT-GTG
*
114879315 TAAGACCATAGTTGGGCTATGGCATC-GATATATGAATATGTG
1 TAAGACCATAGTTGGGCTATGGCATCAGAGATATGAATATGTG
* ** * *
114879357 TAAGACCATAGCTGGGCTATGGCATCA-TTATGTGAAGATGTG
1 TAAGACCATAGTTGGGCTATGGCATCAGAGATATGAATATGTG
* **
114879399 GAAGACCATAGTTGAACTATGGCATC-GAGA
1 TAAGACCATAGTTGGGCTATGGCATCAGAGA
114879429 AAACGAAGTA
Statistics
Matches: 97, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
42 65 0.67
43 8 0.08
46 23 0.24
47 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (43 bp):
TAAGACCATAGTTGGGCTATGGCATCAGAGATATGAATATGTG
Found at i:114879373 original size:42 final size:43
Alignment explanation
Indices: 114879312--114879426 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
114879302 TATGTGATTC
*
114879312 GTGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
* *
114879354 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
* **
114879396 GTGGAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
114879427 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
Found at i:114883038 original size:38 final size:38
Alignment explanation
Indices: 114882991--114883063 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
114882981 TAGAGGGATA
114882991 TCAAAACTTTGAAGATGGTAGAGATTGTAGCCTATATC
1 TCAAAACTTTGAAGATGGTAGAGATTGTAGCCTATATC
114883029 TCAAAACTTTGAAGATGGTAGAGATTGTAGCCTAT
1 TCAAAACTTTGAAGATGGTAGAGATTGTAGCCTAT
114883064 CTCCTGGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (38 bp):
TCAAAACTTTGAAGATGGTAGAGATTGTAGCCTATATC
Found at i:114884721 original size:53 final size:53
Alignment explanation
Indices: 114884648--114884751 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 53
114884638 GCTCCCAATC
* * *
114884648 AATTTCCTTTTTATCGCATTTACTATCTTTGATTAACTTGTTCATTTCGAGTT
1 AATTTCCTTCTTATCACATTTACTATCTTTGATTAACTTATTCATTTCGAGTT
* * *
114884701 AATTTCCTTCTTATTACATTTGCTATCTTTGATTAATTTATTCATTTCGAG
1 AATTTCCTTCTTATCACATTTACTATCTTTGATTAACTTATTCATTTCGAG
114884752 CTATGATCCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (53 bp):
AATTTCCTTCTTATCACATTTACTATCTTTGATTAACTTATTCATTTCGAGTT
Found at i:114885575 original size:92 final size:92
Alignment explanation
Indices: 114885459--114885757 Score: 299
Period size: 92 Copynumber: 3.3 Consensus size: 92
114885449 CTCATTTCCT
* * *
114885459 TGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGACCTTATCTCTCTGAAGTTGTAGTAG
1 TGAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAG
* *
114885524 AGCAGATCAGAGCAAACCTTATCTCCC
66 AGCAGATAAGAACAAACCTTATCTCCC
* * * *
114885551 TGAAGTTGCAGTAGAGCACG-TTGAAG-T-T--A-TA-AG-TCTTATCTCCCTAAAGTTGCAGTG
1 TGAAGTTGCAGTGGAGCA-GATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTA
* * * * *
114885608 GAGCAAACTGAAGATATCGAATCTTATTTCCT
65 GAGCAGA-T-AAGA-A-CAAACCTTATCTCCC
* ** * *
114885640 TGAAGTTACAGTGGAAAAGATTGAAACTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAA
1 TGAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAG
*
114885705 AGCAGATAAAAACAAACCTTATCTCCC
66 AGCAGATAAGAACAAACCTTATCTCCC
* *
114885732 TGAAGTTGTAGTGGAGCAGGTTGAAG
1 TGAAGTTGCAGTGGAGCAGATTGAAG
114885758 TCACTAGTCT
Statistics
Matches: 159, Mismatches: 35, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
85 25 0.16
86 3 0.02
87 5 0.03
88 2 0.01
89 30 0.19
90 2 0.01
91 2 0.01
92 53 0.33
93 3 0.02
94 5 0.03
95 3 0.02
96 26 0.16
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (92 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAG
AGCAGATAAGAACAAACCTTATCTCCC
Found at i:114885620 original size:44 final size:45
Alignment explanation
Indices: 114885315--114886053 Score: 441
Period size: 44 Copynumber: 16.5 Consensus size: 45
114885305 TAATGGCGAA
* *
114885315 TCTTATCTCCCTGTAGTTGCAGTGGAGCAGATTGAAG-TCACTAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACTAAG
* * * *
114885360 CCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTA--AAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAG
** * *
114885403 TCTTATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGATAGTGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT-AAG
* * * * *
114885448 TCTCATTTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--ACTA-AG
* * * * * * *
114885498 ACCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-T-CAGA-GC-AAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAG
* * *
114885540 CCTTATCTCCCTGAAGTTGCAGTAGAGCACG-TTGAAGTTA-TAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATACTAAG
* * * *
114885584 TCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGATATCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTAAG
* * * ** * *
114885629 TCTTATTTCCTTGAAGTTACAGTGGAAAAGATTGAAACTATAAATTACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AA-GAT--ACTA-AG
* ** * *
114885679 ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGA-T-AA-AAAC-AAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAG
* * *
114885721 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAG-TCACT-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACTAAG
* * *
114885765 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAAT-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAG
* ** * *
114885809 ATCTTATCTCCTTGAAGTTATAGTGGAGTAGATTGAAGATAGC-AAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CTAAG
* ** * * * *
114885855 CCTTATCTATCTAAAGTAGCAGTAGAGCAGGTTGAA-ATTAC-AAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACTAAG
* *
114885899 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACCAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAG
* **
114885943 TCTTATCTCCCTGAAGTTACAGCAGAGCAGATTGAA-ACTACTAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACTAAG
* * * * * **
114885987 TCCTATCTCCATTAAGTTGCAGTGGAGCGGATTAAAGCGAC-AAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAG
* *
114886031 TCCTATAC-CTCTGAAGTTGCAGT
1 TCTTAT-CTCCCTGAAGTTGCAGT
114886054 AGGTTGGATT
Statistics
Matches: 525, Mismatches: 127, Indels: 85
0.71 0.17 0.12
Matches are distributed among these distances:
41 52 0.10
42 5 0.01
43 44 0.08
44 196 0.37
45 155 0.30
46 9 0.02
47 5 0.01
48 4 0.01
49 7 0.01
50 2 0.00
51 46 0.09
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACTAAG
Found at i:114885623 original size:181 final size:180
Alignment explanation
Indices: 114885357--114885978 Score: 697
Period size: 181 Copynumber: 3.5 Consensus size: 180
114885347 TGAAGTCACT
*
114885357 AAACCTTATCTCCCTGAAGTAGCAGTGGAGCAGGTTGAAGTTA-AAGTCTTATCTCCCTGAAGTT
1 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTT
** * * * * *
114885421 ATAGTGGAGTAGATTGAAGATAGTGAATCTCATTTCCTTGAAGTTGCAGTGGAACAGATTGAAGC
66 GCAGTGGAGCAGACTGAAGATA-TGAATCTTATTTCCTTGAAGTTACAGTGGAAAAGATTGAAGC
* * * * *
114885486 TATAAATTACAGACCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCAGAGC
130 TATAAATTACAGACCTTATCTCTCTGAAGTTGCAGTAAAGCAGATAAAAAC
* * *
114885537 AAACCTTATCTCCCTGAAGTTGCAGTAGAGCACGTTGAAGTTATAAGTCTTATCTCCCTAAAGTT
1 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTT
* *
114885602 GCAGTGGAGCAAACTGAAGATATCGAATCTTATTTCCTTGAAGTTACAGTGGAAAAGATTGAAAC
66 GCAGTGGAGCAGACTGAAGATAT-GAATCTTATTTCCTTGAAGTTACAGTGGAAAAGATTGAAGC
*
114885667 TATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATAAAAAC
130 TATAAATTACAGACCTTATCTCTCTGAAGTTGCAGTAAAGCAGATAAAAAC
* *
114885718 AAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTCACT-AGTCTTATCTCCCTGAAGT
1 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-TAAGTCTTATCTCCCTGAAGT
* * * **
114885782 TGCAGTGGAGCAGACTGAAGACAAT-AGATCTTATCTCCTTGAAGTTATAGTGGAGTAGATTGAA
65 TGCAGTGGAGCAGACTGAAGA-TATGA-ATCTTATTTCCTTGAAGTTACAGTGGAAAAGATTGAA
* * * * * * * *
114885846 G--AT--A--GCAAACCTTATCTATCTAAAGTAGCAGTAGAGCAGGTTGAAATTAC
128 GCTATAAATTACAGACCTTATCTCTCTGAAGTTGCAGTAAAGCA-GAT-AAA-AAC
** ** * *
114885896 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACCAA-TCTTATCTCCCTGAAGT
1 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-TAAGTCTTATCTCCCTGAAGT
* ** *
114885960 TACAGCAGAGCAGATTGAA
65 TGCAGTGGAGCAGACTGAA
114885979 ACTACTAATC
Statistics
Matches: 381, Mismatches: 52, Indels: 20
0.84 0.11 0.04
Matches are distributed among these distances:
175 27 0.07
176 2 0.01
177 4 0.01
178 71 0.19
179 3 0.01
180 42 0.11
181 229 0.60
182 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (180 bp):
AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTT
GCAGTGGAGCAGACTGAAGATATGAATCTTATTTCCTTGAAGTTACAGTGGAAAAGATTGAAGCT
ATAAATTACAGACCTTATCTCTCTGAAGTTGCAGTAAAGCAGATAAAAAC
Found at i:114885845 original size:89 final size:85
Alignment explanation
Indices: 114885680--114885974 Score: 216
Period size: 89 Copynumber: 3.4 Consensus size: 85
114885670 AAATTACAGA
* *
114885680 TCTTATCTCTCTGAAGTTGCAGTAAAGCAGATAAAAACAAACCTTATCTCCCTGAAGTTGTAGTG
1 TCTTATCTCCCTGAAGTTGCAGTAAAGCAGATAAAAACAAACCTTATCTCCCTGAAGTTATAGTG
*
114885745 GAGCAGGTTGAAGTCACTAG
66 GAGCAGATTGAAGTCACTAG
** * * * *
114885765 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAATAGATCTTATCTCCTTGAAGTTAT
1 TCTTATCTCCCTGAAGTTGCAGTAAAGCAGA-T-AA-A-AACAAACCTTATCTCCCTGAAGTTAT
* * *
114885830 AGTGGAGTAGATTGAAGAT-AGCAAA
62 AGTGGAGCAGATTGAAG-TCA-CTAG
* ** * * * * * ** **
114885855 CCTTATCTATCTAAAGTAGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTAAAGCA-GAT-AAA-AACAAACCTTATCTCCCTGAAGTTATA
* * *
114885920 GTGGAGCAGACTGAAGAT-ACCAA
63 GTGGAGCAGATTGAAG-TCACTAG
* * *
114885943 TCTTATCTCCCTGAAGTTACAGCAGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTAAAGCAGAT
114885975 TGAAACTACT
Statistics
Matches: 165, Mismatches: 38, Indels: 12
0.77 0.18 0.06
Matches are distributed among these distances:
85 28 0.17
86 1 0.01
87 4 0.02
88 26 0.16
89 75 0.45
90 30 0.18
91 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (85 bp):
TCTTATCTCCCTGAAGTTGCAGTAAAGCAGATAAAAACAAACCTTATCTCCCTGAAGTTATAGTG
GAGCAGATTGAAGTCACTAG
Found at i:114885886 original size:134 final size:133
Alignment explanation
Indices: 114885717--114885961 Score: 364
Period size: 134 Copynumber: 1.8 Consensus size: 133
114885707 CAGATAAAAA
* * * * * * *
114885717 CAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTACCTAAAGTAGCAGTAGAGCAGGTTGAAATCACAAGTCTTATCTCCCTGAAGT
* *
114885782 TGCAGTGGAGCAGACTGAAGACAATAGATCTTATCTCCTTGAAGTTATAGTGGAGTAGATTGAAG
66 TGCAGTGGAGCAGACTGAAGACAACA-ATCTTATCTCCCTGAAGTTATAGTGGAGTAGATTGAAG
114885847 ATAG
130 ATAG
* *
114885851 CAAACCTTATCTATCTAAAGTAGCAGTAGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTACCTAAAGTAGCAGTAGAGCAGGTTGAAATCACAAGTCTTATCTCCCTGAAGT
* *
114885916 TGCAGTGGAGCAGACTGAAGATACCAATCTTATCTCCCTGAAGTTA
66 TGCAGTGGAGCAGACTGAAGACAACAATCTTATCTCCCTGAAGTTA
114885962 CAGCAGAGCA
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
133 19 0.19
134 79 0.81
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (133 bp):
CAAACCTTATCTACCTAAAGTAGCAGTAGAGCAGGTTGAAATCACAAGTCTTATCTCCCTGAAGT
TGCAGTGGAGCAGACTGAAGACAACAATCTTATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGA
TAG
Found at i:114887524 original size:3 final size:3
Alignment explanation
Indices: 114887516--114887914 Score: 321
Period size: 3 Copynumber: 134.3 Consensus size: 3
114887506 TTTAGCTACT
* * * *
114887516 TTA TTA TTA -AA TTA GTTAA TT- TTA TTA TTC TTA CTA TTA TT- TTT
1 TTA TTA TTA TTA TTA -TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * ** *
114887560 TTCA CTA TTA TTA TTCA TTA TCA TTA GTA CCA TTA TTA TTA CTA TTA
1 TT-A TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * * *
114887607 TTT TTA TTT TTA TCA CTA TTA CTC TTA CTA TT- TT- TTT TTA TTT TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
114887653 TTA TTA CTA TTA TCA TTA TTA TTA TTA CTA TTA TTA TT- TTC TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
114887699 CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
114887747 TTA TTA TCA TGC TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
114887795 TTA TTA TTA TTA TTA TTA TTA CTA TTA TCA TTA TTC TTA TTA TTG GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * * *
114887843 TTA TTA TCA TGC TTA TTA TTA CTA TTA TTA TTA -TG TTA TTA TTCT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
114887888 TTA TT- TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
114887915 CATCATCATT
Statistics
Matches: 310, Mismatches: 73, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
2 16 0.05
3 283 0.91
4 10 0.03
5 1 0.00
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:114887956 original size:5 final size:5
Alignment explanation
Indices: 114887927--114887989 Score: 63
Period size: 5 Copynumber: 11.6 Consensus size: 5
114887917 TCATCATTTC
* *
114887927 TTATT TTGTT TTATT TAATATTT TTATT TTGTT TTATTT TTATTT TTATT
1 TTATT TTATT TTATT T--TA-TT TTATT TTATT TTA-TT TTA-TT TTATT
114887977 TTATT TTATT TTA
1 TTATT TTATT TTA
114887990 CAATTAGCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 32 0.64
6 13 0.26
7 2 0.04
8 3 0.06
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:114887966 original size:16 final size:16
Alignment explanation
Indices: 114887930--114887989 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
114887920 TCATTTCTTA
*
114887930 TTTTGTTTTATTTAATAT
1 TTTTATTTTATTT--TAT
*
114887948 TTTTATTTTGTTTTAT
1 TTTTATTTTATTTTAT
114887964 TTTTATTTTTATTTTA-
1 TTTTA-TTTTATTTTAT
114887980 TTTTATTTTA
1 TTTTATTTTA
114887990 CAATTAGCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
15 5 0.13
16 13 0.34
17 9 0.24
18 11 0.29
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:114887973 original size:22 final size:22
Alignment explanation
Indices: 114887922--114887988 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
114887912 TATCATCATC
*
114887922 ATTTCTTATTTTGTTTTATTTAAT
1 ATTT-TTATTTTGTTTTATTT-TT
114887946 ATTTTTATTTTGTTTTATTTTT
1 ATTTTTATTTTGTTTTATTTTT
*
114887968 ATTTTTATTTTATTTTATTTT
1 ATTTTTATTTTGTTTTATTTT
114887989 ACAATTAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 21 0.51
23 16 0.39
24 4 0.10
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (22 bp):
ATTTTTATTTTGTTTTATTTTT
Found at i:114901447 original size:31 final size:31
Alignment explanation
Indices: 114901412--114901470 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
114901402 ATGGGCATTA
*
114901412 TCATTACATACTTTTATTATTTTAGTCAATG
1 TCATTACATACTTTTATCATTTTAGTCAATG
114901443 TCATTACATACTTTTATCATTTTAGTCA
1 TCATTACATACTTTTATCATTTTAGTCA
114901471 CCTATCATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (31 bp):
TCATTACATACTTTTATCATTTTAGTCAATG
Found at i:114901652 original size:14 final size:14
Alignment explanation
Indices: 114901633--114901659 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114901623 TTTCACAGAG
114901633 GAAAATCTGAGTTA
1 GAAAATCTGAGTTA
114901647 GAAAATCTGAGTT
1 GAAAATCTGAGTT
114901660 CTTACACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (14 bp):
GAAAATCTGAGTTA
Found at i:114901853 original size:13 final size:13
Alignment explanation
Indices: 114901821--114901847 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
114901811 AGACATTTCA
114901821 TATTATCTAGTAT
1 TATTATCTAGTAT
114901834 TATTATCTAGTAT
1 TATTATCTAGTAT
114901847 T
1 T
114901848 CATATCAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TATTATCTAGTAT
Found at i:114904724 original size:25 final size:25
Alignment explanation
Indices: 114904694--114904764 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
114904684 ATGCTTATAA
114904694 GAGCTATGAATCAGTATGCTCTCGC
1 GAGCTATGAATCAGTATGCTCTCGC
*
114904719 GTGCTATGAATCAGTATGCTCTCGC
1 GAGCTATGAATCAGTATGCTCTCGC
* * *
114904744 GAGCTGTGAATCGGTAAGCTC
1 GAGCTATGAATCAGTATGCTC
114904765 ATAAGAGCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (25 bp):
GAGCTATGAATCAGTATGCTCTCGC
Found at i:114907591 original size:25 final size:26
Alignment explanation
Indices: 114907531--114907592 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 26
114907521 TTCAGGAATG
*
114907531 CTCATACGAG-CATGTAAACGGGAAC
1 CTCATAAGAGCCATGTAAACGGGAAC
** *
114907556 CTCATGTGAGCCATGT-AACGGGAAG
1 CTCATAAGAGCCATGTAAACGGGAAC
*
114907581 TTCATAAGAGCC
1 CTCATAAGAGCC
114907593 GTAATCAGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (26 bp):
CTCATAAGAGCCATGTAAACGGGAAC
Found at i:114907714 original size:27 final size:25
Alignment explanation
Indices: 114907574--114907715 Score: 96
Period size: 24 Copynumber: 5.7 Consensus size: 25
114907564 AGCCATGTAA
* * *
114907574 CGGGAAGTTCATAAGAGCC-GTAAT
1 CGGGAAGCTCATAAGAGCCAATTAT
* ** *
114907598 CAGGAAGCTCATGCGAGCTAA-TAT
1 CGGGAAGCTCATAAGAGCCAATTAT
* * *
114907622 CGAGAAGCTTA-AAAAGCC-ATTAAT
1 CGGGAAGCTCATAAGAGCCAATT-AT
*
114907646 CAGGAAGCTCATAAGAGCCAATTAT
1 CGGGAAGCTCATAAGAGCCAATTAT
* *
114907671 CGGGAAGCTCGTGAGAGCCATATATAT
1 CGGGAAGCTCATAAGAGCCA-AT-TAT
114907698 CGGGACA-CTCATAAGAGC
1 CGGGA-AGCTCATAAGAGC
114907716 TGTAGTGAGT
Statistics
Matches: 87, Mismatches: 23, Indels: 13
0.71 0.19 0.11
Matches are distributed among these distances:
22 1 0.01
23 4 0.05
24 34 0.39
25 25 0.29
26 5 0.06
27 17 0.20
28 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
CGGGAAGCTCATAAGAGCCAATTAT
Found at i:114908625 original size:32 final size:31
Alignment explanation
Indices: 114908584--114908651 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 31
114908574 GAAAGCTTTA
**
114908584 AATTAAATTTGTTTCATT-TTAATTTTTATTT
1 AATTAAATTT-TGCCATTATTAATTTTTATTT
*
114908615 AATTACAATTTTGCCATTATTTATTTTTATTT
1 AATTA-AATTTTGCCATTATTAATTTTTATTT
*
114908647 TATTA
1 AATTA
114908652 TTTTTTATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (31 bp):
AATTAAATTTTGCCATTATTAATTTTTATTT
Found at i:114913194 original size:25 final size:24
Alignment explanation
Indices: 114913133--114913196 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
114913123 TAATTTTTTA
114913133 ATAT-TTTATTTTATTTGCATCAT
1 ATATATTTATTTTATTTGCATCAT
** * *
114913156 -TATATTTAAGTTATTTTCTATTAT
1 ATATATTTATTTTATTTGC-ATCAT
114913180 ATATATTTATTTTATTT
1 ATATATTTATTTTATTT
114913197 AAAATTTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 3 0.09
23 11 0.34
24 4 0.12
25 14 0.44
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (24 bp):
ATATATTTATTTTATTTGCATCAT
Found at i:114913452 original size:36 final size:34
Alignment explanation
Indices: 114913372--114913452 Score: 85
Period size: 34 Copynumber: 2.3 Consensus size: 34
114913362 TACTAAACAT
*
114913372 TATAAAATATTATATAAAATCAAACAAAGATGGAA
1 TATAAAA-ATTATATAAAATAAAACAAAGATGGAA
* *
114913407 T-CAATAATTATTATAAAATAAAAGCACAAGAT-GAA
1 TATAAAAATTA-TATAAAATAAAA-CA-AAGATGGAA
114913442 TATAAAAATTA
1 TATAAAAATTA
114913453 ATGAACATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
33 4 0.11
34 14 0.38
35 7 0.19
36 12 0.32
ACGTcount: A:0.59, C:0.06, G:0.07, T:0.27
Consensus pattern (34 bp):
TATAAAAATTATATAAAATAAAACAAAGATGGAA
Found at i:114915314 original size:23 final size:23
Alignment explanation
Indices: 114915284--114915337 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
114915274 TGAAACCTGC
*
114915284 TTGTGCATGTGGCAAAGTAATCG
1 TTGTGCATGTGGCAAAGCAATCG
114915307 TTGTGCATGTGGCAAAGCAATCG
1 TTGTGCATGTGGCAAAGCAATCG
*
114915330 TTATGCAT
1 TTGTGCAT
114915338 CGCAACTCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (23 bp):
TTGTGCATGTGGCAAAGCAATCG
Found at i:114916345 original size:50 final size:50
Alignment explanation
Indices: 114916232--114916346 Score: 112
Period size: 50 Copynumber: 2.3 Consensus size: 50
114916222 AATCATCCAT
*
114916232 ATTTCAGAATCAAATACAGATGCAGAAATAAAGAATTTCAGATACAAATAC
1 ATTT-AGATTCAAATACAGATGCAGAAATAAAGAATTTCAGATACAAATAC
* * * *
114916283 A-TAATATATCAAATACAGATGCAGAACATATCAG-A-TTCAGATATAGAATA-
1 ATTTAGAT-TCAAATACAGATGCAGAA-ATA-AAGAATTTCAGATACA-AATAC
114916333 ATTTAGATTCAAAT
1 ATTTAGATTCAAAT
114916347 GTAGGTTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
49 2 0.04
50 35 0.67
51 13 0.25
52 2 0.04
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.27
Consensus pattern (50 bp):
ATTTAGATTCAAATACAGATGCAGAAATAAAGAATTTCAGATACAAATAC
Found at i:114920631 original size:13 final size:13
Alignment explanation
Indices: 114920613--114920640 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
114920603 GAAATGTTTC
114920613 ATTGTAGTATTTT
1 ATTGTAGTATTTT
114920626 ATTGTAGTATTTT
1 ATTGTAGTATTTT
114920639 AT
1 AT
114920641 AAGTTGTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (13 bp):
ATTGTAGTATTTT
Found at i:114921511 original size:21 final size:22
Alignment explanation
Indices: 114921485--114921539 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 22
114921475 TTAAAGAAAT
*
114921485 AAAATTTATAAAATTTTA-ATA
1 AAAATTTATAAAATATTATATA
* *
114921506 AAAA-TTCTAAAATATTATTTA
1 AAAATTTATAAAATATTATATA
*
114921527 AAAATTAATAAAA
1 AAAATTTATAAAA
114921540 AAATGTACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATTTATAAAATATTATATA
Found at i:114921591 original size:32 final size:32
Alignment explanation
Indices: 114921555--114921617 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
114921545 TACATGAATA
* * *
114921555 ATGAATTTAGATAAATCTACATCCAAATTCAC
1 ATGAATCTAGACAAATATACATCCAAATTCAC
**
114921587 ATGAATCTAGACAAATATTTATCCAAATTCA
1 ATGAATCTAGACAAATATACATCCAAATTCA
114921618 TTTTGGATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.32
Consensus pattern (32 bp):
ATGAATCTAGACAAATATACATCCAAATTCAC
Found at i:114924669 original size:14 final size:14
Alignment explanation
Indices: 114924636--114924681 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
114924626 AGGAATAGGA
*
114924636 AATTTTATTAGATT
1 AATTTAATTAGATT
*
114924650 ATTTTAAGTTA-ATT
1 AATTTAA-TTAGATT
114924664 AATTTAATTAGATT
1 AATTTAATTAGATT
114924678 AATT
1 AATT
114924682 AATATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 3 0.11
14 21 0.78
15 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (14 bp):
AATTTAATTAGATT
Found at i:114926961 original size:17 final size:16
Alignment explanation
Indices: 114926941--114926973 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
114926931 TATTTTATAT
114926941 TAATTAAATAAAGTAAA
1 TAATTAAATAAA-TAAA
114926958 TAATTAAATAAATAAA
1 TAATTAAATAAATAAA
114926974 AGAAAGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
TAATTAAATAAATAAA
Found at i:114927134 original size:5 final size:4
Alignment explanation
Indices: 114927088--114927193 Score: 74
Period size: 4 Copynumber: 24.8 Consensus size: 4
114927078 ATAGTTAAAT
*
114927088 AAAG AAAG AAAAG AAAG AAA- AAAG AATAG AAAG -AAC AAAG AATAG AAAG
1 AAAG AAAG -AAAG AAAG AAAG AAAG AA-AG AAAG AAAG AAAG AA-AG AAAG
* *
114927137 AACAG AAGGTG AAACG AAA- AACAG AGAAGG AAAG AAGG AAAG AAAG AAAG
1 AA-AG AA--AG AAA-G AAAG AA-AG A-AA-G AAAG AAAG AAAG AAAG AAAG
114927187 AAAG AAA
1 AAAG AAA
114927194 AGGGAAAATT
Statistics
Matches: 83, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
3 7 0.08
4 46 0.55
5 24 0.29
6 6 0.07
ACGTcount: A:0.69, C:0.04, G:0.25, T:0.03
Consensus pattern (4 bp):
AAAG
Found at i:114928452 original size:18 final size:17
Alignment explanation
Indices: 114928429--114928493 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
114928419 TACTGTCTGT
114928429 TACTGAATAATTGACTGA
1 TACTGAATAATTGA-TGA
* *
114928447 TACTGAATAACTGATTGC
1 TACTGAATAATTGA-TGA
* * *
114928465 CACTGAACAATTGATCGT
1 TACTGAATAATTGAT-GA
114928483 TACTGAATAAT
1 TACTGAATAAT
114928494 ATTGATAAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 1 0.03
18 36 0.97
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (17 bp):
TACTGAATAATTGATGA
Found at i:114929585 original size:22 final size:20
Alignment explanation
Indices: 114929539--114929594 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
114929529 CATGGTGTGC
*
114929539 CCACACGGGTGTGTTATGGA
1 CCACACGGGTGTGTTATAGA
* *
114929559 ACACACGGGTGTGTCATCTAGA
1 CCACACGGGTGTGT--TATAGA
114929581 CCACACGGGTGTGT
1 CCACACGGGTGTGT
114929595 GAAACTATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.23
Consensus pattern (20 bp):
CCACACGGGTGTGTTATAGA
Found at i:114930962 original size:16 final size:16
Alignment explanation
Indices: 114930943--114930989 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
114930933 TAAAAGATAT
114930943 AAATATTTTTATAATA
1 AAATATTTTTATAATA
114930959 AAATTTATTTTTATAA-A
1 AAA--TATTTTTATAATA
*
114930976 AAACATTTTT-TAAT
1 AAATATTTTTATAAT
114930990 TTTTTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.11
15 6 0.22
16 3 0.11
17 4 0.15
18 11 0.41
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AAATATTTTTATAATA
Found at i:114931337 original size:12 final size:12
Alignment explanation
Indices: 114931320--114931344 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114931310 CACACACACA
114931320 AAAAAAAAAAAG
1 AAAAAAAAAAAG
114931332 AAAAAAAAAAAG
1 AAAAAAAAAAAG
114931344 A
1 A
114931345 GGAAGTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:114931551 original size:2 final size:2
Alignment explanation
Indices: 114931544--114931576 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
114931534 TAGAATATGA
114931544 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114931577 GTCTACCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114932457 original size:10 final size:9
Alignment explanation
Indices: 114932443--114932527 Score: 64
Period size: 10 Copynumber: 8.9 Consensus size: 9
114932433 TATTTAAGCT
114932443 TAAAAATTA
1 TAAAAATTA
114932452 TTAAAATATTA
1 -TAAAA-ATTA
114932463 TAATAAATT-
1 TAA-AAATTA
*
114932472 TAAAATTTA
1 TAAAAATTA
114932481 TAAAAATTA
1 TAAAAATTA
* *
114932490 AAGAAAACTA
1 TA-AAAATTA
*
114932500 TAAAAAATA
1 TAAAAATTA
*
114932509 TTAAAATGTTA
1 -TAAAA-ATTA
114932520 TAAAAATT
1 TAAAAATT
114932528 TACATTATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
8 4 0.07
9 20 0.33
10 28 0.47
11 8 0.13
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:114932476 original size:19 final size:18
Alignment explanation
Indices: 114932452--114932529 Score: 77
Period size: 19 Copynumber: 4.2 Consensus size: 18
114932442 TTAAAAATTA
114932452 TTAAAATATTATAATAAAT
1 TTAAAATATTATAA-AAAT
114932471 TTAAAAT-TTATAAAAAT
1 TTAAAATATTATAAAAAT
* * *
114932488 TAAAGAAAACTATAAAAAAT
1 TTAA-AATATTAT-AAAAAT
*
114932508 ATTAAAATGTTATAAAAAT
1 -TTAAAATATTATAAAAAT
114932527 TTA
1 TTA
114932530 CATTATTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
17 7 0.15
18 11 0.23
19 16 0.33
20 11 0.23
21 3 0.06
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (18 bp):
TTAAAATATTATAAAAAT
Found at i:114932564 original size:21 final size:20
Alignment explanation
Indices: 114932539--114932591 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
114932529 ACATTATTAA
* **
114932539 ATATTATAAAAGATTATCGAT
1 ATATTATAAAA-AATATAAAT
114932560 ATATTATGAAAAAATATAAAT
1 ATATTAT-AAAAAATATAAAT
114932581 ATATTATAAAA
1 ATATTATAAAA
114932592 TTTGTAGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.14
21 20 0.71
22 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.36
Consensus pattern (20 bp):
ATATTATAAAAAATATAAAT
Found at i:114937094 original size:4 final size:4
Alignment explanation
Indices: 114937085--114937110 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
114937075 TGGTAATAAT
114937085 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
114937111 AGATACAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:114937686 original size:4 final size:4
Alignment explanation
Indices: 114937677--114937704 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
114937667 TCCTGAAGTT
114937677 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
114937705 AAGATTACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:114938230 original size:17 final size:17
Alignment explanation
Indices: 114938187--114938237 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
114938177 AAATTGTGAT
* *
114938187 ATATATATATATATATA
1 ATATATATATATAGACA
114938204 TATATATATATATAGACA
1 -ATATATATATATAGACA
*
114938222 ATATGTATATATAGAC
1 ATATATATATATAGAC
114938238 TCATGAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATATATATATAGACA
Found at i:114938234 original size:2 final size:2
Alignment explanation
Indices: 114938185--114938217 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
114938175 TTAAATTGTG
114938185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114938218 GACAATATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114940362 original size:12 final size:12
Alignment explanation
Indices: 114940347--114940375 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
114940337 ACACTATCTG
114940347 GCACACGACCAA
1 GCACACGACCAA
114940359 GCACACGACCAA
1 GCACACGACCAA
114940371 GCACA
1 GCACA
114940376 TGCCTGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.41, G:0.17, T:0.00
Consensus pattern (12 bp):
GCACACGACCAA
Found at i:114940564 original size:63 final size:64
Alignment explanation
Indices: 114940402--114940590 Score: 149
Period size: 63 Copynumber: 3.0 Consensus size: 64
114940392 AACCCTTCAC
* * * * * * *
114940402 ACGGCCTGGACACACATCCGTGTCACTCA-CCCGTGTAACC-CTAAATC-CTAAATAATGAGTTA
1 ACGGCCTGGACACACATCCATGTC-CTTAGCCTGTGT-GCCTCAAAATCACAAAAAAATGAGTTA
114940464 T
64 T
* *
114940465 ACGGCCTGGATACACATCCATGTCCTTGGCCTGTGTGACCT-AAAAT-ACAAAAAAATGAGTTAT
1 ACGGCCTGGACACACATCCATGTCCTTAGCCTGTGTG-CCTCAAAATCACAAAAAAATGAGTTAT
* ** * * *
114940528 ACGGCTTGGACACACACTTGA-GTCCTTAG-CTCGTGTGCCTCTAATTCATAAAAAAATGAGTTA
1 ACGGCCTGGACACACA-TCCATGTCCTTAGCCT-GTGTGCCTCAAAATCACAAAAAAATGAGTTA
114940591 CACAACCTAC
Statistics
Matches: 101, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
62 7 0.07
63 77 0.76
64 17 0.17
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (64 bp):
ACGGCCTGGACACACATCCATGTCCTTAGCCTGTGTGCCTCAAAATCACAAAAAAATGAGTTAT
Found at i:114941171 original size:11 final size:11
Alignment explanation
Indices: 114941155--114941194 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
114941145 AAAAGTAAAG
114941155 AAAATGAAATA
1 AAAATGAAATA
114941166 AAAATGAAATAA
1 AAAATGAAAT-A
*
114941178 AAAATAAAAATA
1 AAAAT-GAAATA
114941190 AAAAT
1 AAAAT
114941195 AAAAAGAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 10 0.38
12 12 0.46
13 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAATGAAATA
Found at i:114941184 original size:7 final size:6
Alignment explanation
Indices: 114941161--114941199 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
114941151 AAAGAAAATG
*
114941161 AAATAA AAAT-G AAATAAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA AAA
114941200 GAAGAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 4 0.14
6 21 0.72
7 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:114941184 original size:18 final size:19
Alignment explanation
Indices: 114941161--114941199 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
114941151 AAAGAAAATG
*
114941161 AAATAAAAAT-GAAATAAA
1 AAATAAAAATAAAAATAAA
114941179 AAATAAAAATAAAAATAAA
1 AAATAAAAATAAAAATAAA
114941198 AA
1 AA
114941200 GAAGAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (19 bp):
AAATAAAAATAAAAATAAA
Found at i:114941198 original size:11 final size:11
Alignment explanation
Indices: 114941155--114941198 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
114941145 AAAAGTAAAG
*
114941155 AAAATGAAATA
1 AAAATAAAATA
*
114941166 AAAATGAAATAA
1 AAAATAAAAT-A
114941178 AAAATAAAAATA
1 AAAAT-AAAATA
114941190 AAAATAAAA
1 AAAATAAAA
114941199 AGAAGAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 14 0.47
12 12 0.40
13 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Done.