Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 63 of 328
Found at i:17428050 original size:11 final size:11
Alignment explanation
Indices: 17428036--17428063 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
17428026 ATTCTAAATG
17428036 GAATTGGATCA
1 GAATTGGATCA
17428047 GAATTGGATCA
1 GAATTGGATCA
17428058 GAATTG
1 GAATTG
17428064 ACACATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (11 bp):
GAATTGGATCA
Found at i:17431978 original size:19 final size:19
Alignment explanation
Indices: 17431953--17432043 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
17431943 ATAATCTTCA
17431953 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
17431972 GTGATATGCAACCTTAGAT
1 ATGATATGCAATCTTAGAT
*
17431991 GTGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
17432008 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
17432026 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
17432044 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 14 0.22
18 16 0.25
19 35 0.54
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:17432024 original size:35 final size:37
Alignment explanation
Indices: 17431953--17432050 Score: 123
Period size: 35 Copynumber: 2.7 Consensus size: 37
17431943 ATAATCTTCA
*
17431953 ATGATATGCAATCTTAGATGTGATATGCAACCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAACCTTAGAT
* *
17431991 GTGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAACCTTAGAT
17432026 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
17432051 ATTTTGTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
35 20 0.38
36 18 0.34
37 10 0.19
38 5 0.09
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAACCTTAGAT
Found at i:17432069 original size:22 final size:22
Alignment explanation
Indices: 17432004--17432066 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
17431994 ATACAATCTT
17432004 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
17432022 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
17432044 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
17432067 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:17432573 original size:25 final size:25
Alignment explanation
Indices: 17432544--17432592 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
17432534 TGTGCATAGT
17432544 TTATTT-TTTTATATGCTATGTTTAA
1 TTATTTCTTTTATATGCTAT-TTTAA
*
17432569 TTATTTCTTTTATGTGCTATTTTA
1 TTATTTCTTTTATATGCTATTTTA
17432593 TGATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.65
Consensus pattern (25 bp):
TTATTTCTTTTATATGCTATTTTAA
Found at i:17437695 original size:7 final size:7
Alignment explanation
Indices: 17437685--17437749 Score: 87
Period size: 7 Copynumber: 8.9 Consensus size: 7
17437675 AAAAAAAGGA
17437685 AAAAAAG
1 AAAAAAG
17437692 AAAAAAG
1 AAAAAAG
17437699 AAAAAGAG
1 AAAAA-AG
17437707 AAAAAA-
1 AAAAAAG
17437713 AGAAAAAG
1 A-AAAAAG
17437721 AAAAAAGAG
1 -AAAAA-AG
17437730 AAAAAAG
1 AAAAAAG
17437737 AAAAAAG
1 AAAAAAG
17437744 AAAAAA
1 AAAAAA
17437750 TGGAGAGGTC
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
6 1 0.02
7 33 0.62
8 16 0.30
9 3 0.06
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:17437697 original size:16 final size:15
Alignment explanation
Indices: 17437676--17437749 Score: 105
Period size: 15 Copynumber: 4.9 Consensus size: 15
17437666 CTATTTCAAA
17437676 AAAAAAGGAAAAAAAG
1 AAAAAA-GAAAAAAAG
*
17437692 AAAAAAGAAAAAGAG
1 AAAAAAGAAAAAAAG
*
17437707 AAAAAA-AGAAAAAG
1 AAAAAAGAAAAAAAG
17437721 AAAAAAGAGAAAAAAG
1 AAAAAAGA-AAAAAAG
17437737 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
17437750 TGGAGAGGTC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
14 12 0.23
15 20 0.38
16 20 0.38
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:17437709 original size:23 final size:23
Alignment explanation
Indices: 17437673--17437748 Score: 115
Period size: 22 Copynumber: 3.4 Consensus size: 23
17437663 CTTCTATTTC
17437673 AAAA-AAAAAG-GAAAAAAAGAA
1 AAAAGAAAAAGAGAAAAAAAGAA
17437694 AAAAGAAAAAGAGAAAAAAAG-A
1 AAAAGAAAAAGAGAAAAAAAGAA
17437716 AAAAGAAAAA-AGAGAAAAAAGAA
1 AAAAGAAAAAGAGA-AAAAAAGAA
17437739 AAAAGAAAAA
1 AAAAGAAAAA
17437749 ATGGAGAGGT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.14
22 24 0.47
23 20 0.39
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAAGAGAAAAAAAGAA
Found at i:17437749 original size:23 final size:23
Alignment explanation
Indices: 17437676--17437749 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
17437666 CTATTTCAAA
17437676 AAAAAAG-GAAAAAAAGAAAAAAG
1 AAAAAAGAG-AAAAAAGAAAAAAG
17437699 -AAAAAGAGAAAAAA-AGAAAAAG
1 AAAAAAGAGAAAAAAGA-AAAAAG
17437721 AAAAAAGAGAAAAAAGAAAAAAG
1 AAAAAAGAGAAAAAAGAAAAAAG
17437744 AAAAAA
1 AAAAAA
17437750 TGGAGAGGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
21 1 0.02
22 18 0.38
23 27 0.57
24 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAAAGAGAAAAAAGAAAAAAG
Found at i:17438721 original size:44 final size:44
Alignment explanation
Indices: 17438657--17438989 Score: 454
Period size: 44 Copynumber: 7.5 Consensus size: 44
17438647 CAGTAGGGGA
17438657 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* *
17438701 GCAGATCGAAAATAGTAGATTTGGCGTCTCTGTATTGTCAG-GG
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* *
17438744 AGCAGGTCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAGAGG
1 -GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* *
17438789 GCAGATCGAAGATAGTAGATTTGGCGTCTCTATATTGTCAG-GG
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* * *
17438832 AGCAGATCGAAAATAGCAGATTTGGCGTCTTTATATTGTCAGAGG
1 -GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* * * *
17438877 GCAGATTGAAGATAACAGATTTGGCGTCTCTGTATTGCCAGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* * *
17438921 GCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGA
1 GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
* *
17438965 GCAAATTGAAGATATAGCAGATTTG
1 GCAGATCGAAG--ATAGCAGATTTG
17438990 ACTTTCACGT
Statistics
Matches: 259, Mismatches: 24, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
43 4 0.02
44 239 0.92
45 4 0.02
46 12 0.05
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (44 bp):
GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGG
Found at i:17439197 original size:78 final size:78
Alignment explanation
Indices: 17439094--17439722 Score: 1035
Period size: 78 Copynumber: 8.1 Consensus size: 78
17439084 ATTCGACGAA
* * * *
17439094 GAGCAGATCGAAGACATAGCAGATCTAACCTTCATTGAAGCAGATCCAAGATGATTTAGCATCTT
1 GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
17439159 TGTATTAGACGGG
66 TGTATTAGACGGG
17439172 GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
1 GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
* *
17439237 TATATTAGACAGG
66 TGTATTAGACGGG
* * *
17439250 GAGCAGATCGAAGACATAACAGATCTGACCTTTATTGAAGCAGATCCAAGATGATTTGGCATCTC
1 GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
17439315 TGTATTAGACGGG
66 TGTATTAGACGGG
* * ** *
17439328 GAGCAGATCAAAGACATAATAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATATC
1 GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
17439393 TGTATTAGACGGG
66 TGTATTAGACGGG
*
17439406 GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTC
1 GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
17439471 TGTATTAGACGGG
66 TGTATTAGACGGG
* * *
17439484 GAGCAAATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGACCCAAGATGATTTGGCATTTC
1 GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
*
17439549 TGTATTAGACAGG
66 TGTATTAGACGGG
17439562 GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
1 GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
17439627 TGTATTAGACGGG
66 TGTATTAGACGGG
* * * *
17439640 GAGCAGATCGAAGACATAACAGGT-TGGACCTTCATTGAAGCAGATCCAAGATGATTTAGCATCT
1 GAGCAGATCGAAGACACAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCT
17439704 CTGTATTAGACGGG
65 CTGTATTAGACGGG
17439718 GAGCA
1 GAGCA
17439723 TAGCAGATCT
Statistics
Matches: 516, Mismatches: 34, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
77 1 0.00
78 515 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (78 bp):
GAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTC
TGTATTAGACGGG
Found at i:17439835 original size:45 final size:45
Alignment explanation
Indices: 17439755--17439954 Score: 215
Period size: 45 Copynumber: 4.5 Consensus size: 45
17439745 TTTACATCGA
* * *
17439755 AGCAGATCCAAGATGACAGATTTGGCATCTTTGTATTAGACAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
* * * * *
17439800 AGAAAATCGGAGATAACAGATTTGACATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
* * * *
17439845 AGCAGATTGAAGA-AGCAAATTTGGCGTCTCTGTATTAGACTA-GG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGAC-AGGG
* * * *
17439889 AGCAGGTCGAAGATAACAGATTTGGCGTCCCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
* *
17439934 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
17439955 ATCGCCTTCC
Statistics
Matches: 126, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
44 36 0.29
45 90 0.71
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACAGGG
Found at i:17439903 original size:89 final size:89
Alignment explanation
Indices: 17439774--17439940 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 89
17439764 AAGATGACAG
* * *
17439774 ATTTGGCATCTTTGTATTAGACAGGGAGAAAATCGGAGATAACAGATTTGACATCTCTGTATTAG
1 ATTTGGCATCTCTGTATTAGACAGGGAGAAAATCGAAGATAACAGATTTGACATCCCTGTATTAG
17439839 ACGGGGAGCAGATTGAAGAAGCAA
66 ACGGGGAGCAGATTGAAGAAGCAA
* * ** * *
17439863 ATTTGGCGTCTCTGTATTAGACTA-GGAGCAGGTCGAAGATAACAGATTTGGCGTCCCTGTATTA
1 ATTTGGCATCTCTGTATTAGAC-AGGGAGAAAATCGAAGATAACAGATTTGACATCCCTGTATTA
17439927 GACGGGGAGCAGAT
65 GACGGGGAGCAGAT
17439941 CAAAGATAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
89 67 0.99
90 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (89 bp):
ATTTGGCATCTCTGTATTAGACAGGGAGAAAATCGAAGATAACAGATTTGACATCCCTGTATTAG
ACGGGGAGCAGATTGAAGAAGCAA
Found at i:17440347 original size:14 final size:15
Alignment explanation
Indices: 17440328--17440383 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
17440318 TCTTAGATGT
17440328 GATATG-CAATCTTA
1 GATATGACAATCTTA
17440342 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
17440359 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
17440377 GATATGA
1 GATATGA
17440384 TATGCTGTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:17440377 original size:35 final size:36
Alignment explanation
Indices: 17440315--17440385 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
17440305 CAATGATATG
*
17440315 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
17440351 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
17440386 TGCTGTCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:17440397 original size:19 final size:19
Alignment explanation
Indices: 17440307--17440388 Score: 134
Period size: 19 Copynumber: 4.5 Consensus size: 19
17440297 ATAATCTTCA
17440307 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
17440326 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
17440345 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
17440362 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
17440380 ATGATATGC
1 ATGATATGC
17440389 TGTCTTAGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
17 16 0.28
18 16 0.28
19 26 0.45
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:17440430 original size:22 final size:22
Alignment explanation
Indices: 17440391--17440434 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
17440381 TGATATGCTG
*
17440391 TCTTAGAAGATATGATTTTGTAA
1 TCTTAGAAGATAT-AATTTGTAA
*
17440414 TCTTAG-AGATTTAATTTGTAA
1 TCTTAGAAGATATAATTTGTAA
17440435 ATATCCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (22 bp):
TCTTAGAAGATATAATTTGTAA
Found at i:17441023 original size:20 final size:21
Alignment explanation
Indices: 17440996--17441037 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17440986 TTTTGCATGT
*
17440996 ATTTTTTTCATTAAACGTATG
1 ATTTTTTTCATTAAACATATG
17441017 ATTTTTTTCATTAAACATATG
1 ATTTTTTTCATTAAACATATG
17441038 TTCATGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (21 bp):
ATTTTTTTCATTAAACATATG
Found at i:17441981 original size:65 final size:65
Alignment explanation
Indices: 17441886--17442018 Score: 151
Period size: 65 Copynumber: 2.0 Consensus size: 65
17441876 ATCTTACCCA
* * * *
17441886 TATTGAATTTACTATTTTTGATTACTTTATTCGTTTCAATATATGCTTCCAATAAATTTCCTTCT
1 TATTGAATTTACTATCTCTGATTACTTTATTCGTTTCAAGATATGCTCCCAATAAATTTCCTTCT
* * * * * * *
17441951 TATTGTATTTGCTATCTCTGATTAAC-TTATTTGTTTCAAGCTATGCTCCCAATTATTTTCTTTC
1 TATTGAATTTACTATCTCTGATT-ACTTTATTCGTTTCAAGATATGCTCCCAATAAATTTCCTTC
17442015 T
65 T
17442016 TAT
1 TAT
17442019 CCATTGTTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 54 0.96
66 2 0.04
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.53
Consensus pattern (65 bp):
TATTGAATTTACTATCTCTGATTACTTTATTCGTTTCAAGATATGCTCCCAATAAATTTCCTTCT
Found at i:17442489 original size:46 final size:46
Alignment explanation
Indices: 17442402--17442489 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
17442392 TGAAGAAGCC
* * *
17442402 ACAAATCCTATACCTCTGAGTTGCAGTGGGATAGATTGAAGATTGT
1 ACAAATCCTATACCCCTGAGTTGCAGTGGAATAGATAGAAGATTGT
* * *
17442448 ACAAATCTTATCCCCCTGAGTTGTC-GTGGAATGGATAGAAGA
1 ACAAATCCTATACCCCTGAGTTG-CAGTGGAATAGATAGAAGA
17442490 AACCACAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
46 34 0.97
47 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (46 bp):
ACAAATCCTATACCCCTGAGTTGCAGTGGAATAGATAGAAGATTGT
Found at i:17442906 original size:45 final size:44
Alignment explanation
Indices: 17442840--17443394 Score: 344
Period size: 45 Copynumber: 12.5 Consensus size: 44
17442830 GAATCCATAG
* * * *
17442840 ATCTTATCTCACTAAAGTTGCAGCAGAATAGATCGAAGATAGCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCGAAGATAGCA
* * * *
17442884 TACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAG-TAGTA
1 -ATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCGAAGATAGCA
* *
17442928 AGTCTTATCT-TCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAGCA
1 A-TCTTATCTCT-CTGAAGTTGCAGTAGAACAGATC-GAAGATAGCA
* * * *
17442973 GGTCTTATCTCCCTGAAGTTGCAG-AGGAGCAGA-CTGAAGATATCA
1 -ATCTTATCTCTCTGAAGTTGCAGTA-GAACAGATC-GAAGATAGCA
* * ** * *
17443018 GATCTTATCTCCCTGAAGTTGTAGCGGAATAAATCGAAGATAGCAA
1 -ATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCGAAGATAGC-A
* * * * * *
17443064 ACCTTATCTCTCT-AGAGTTGCAATAGAGCAGGTTGAAG-TAGTA
1 ATCTTATCTCTCTGA-AGTTGCAGTAGAACAGATCGAAGATAGCA
* * * *
17443107 AGTCTTATCTCCCTAAAGTTGCAGTGGAACAGA-CTAAAGATAGCA
1 A-TCTTATCTCTCTGAAGTTGCAGTAGAACAGATC-GAAGATAGCA
* * * * * *
17443152 GATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGCAA
1 -ATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCGAAGATAGC-A
* * * *
17443198 ACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAA-ATAGCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCGAAGATAGCA
* * * ** *
17443241 AGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-CTGAAGATAACA
1 A-TCTTATCTCTCTGAAGTTGCAGTAGAACAGATC-GAAGATAGCA
* * * *
17443286 GA-CTTATCTAC-CTGAAGTTACAGCAGAATAGATCGAAGATAGAAA
1 -ATCTTATCT-CTCTGAAGTTGCAGTAGAACAGATCGAAGATAG-CA
* * * * *
17443331 ATATTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAG-TAGCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCGAAGATAGCA
17443374 AGTCTTATCTCTCTGAAGTTG
1 A-TCTTATCTCTCTGAAGTTG
17443395 TAGTGGAGCA
Statistics
Matches: 399, Mismatches: 83, Indels: 57
0.74 0.15 0.11
Matches are distributed among these distances:
43 8 0.02
44 149 0.37
45 237 0.59
46 5 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCGAAGATAGCA
Found at i:17442992 original size:89 final size:89
Alignment explanation
Indices: 17442874--17443456 Score: 443
Period size: 89 Copynumber: 6.5 Consensus size: 89
17442864 AGAATAGATC
* * * *
17442874 GAAGATAGCATACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAGTAGTAAGTCTTATCTT
1 GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGTAAGTCTTATCTT
*
17442939 CCTGAAGTTGCAGTGGAGCAGACT
66 CCTGAAGTTGCAGTGGAACAGACT
** ** *
17442963 GAAGATAGCAGGTCTTATCTCCCTGAAGTTGCAG-AGGAGCAGACTGAAGATA-TCAGATCTTAT
1 GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTA-GAGCAGGTTGAAG-TAGTAAG-TCTTAT
* * * * *
17443026 CTCCCTGAAGTTGTAGCGGAATA-AAT
63 CTTCCTGAAGTTGCAGTGGAACAGACT
* * *
17443052 CGAAGATAGCAAACCTTATCTCTCT-AGAGTTGCAATAGAGCAGGTTGAAGTAGTAAGTCTTATC
1 -GAAGATAGCAAATCTTATCTCCCTGA-AGTTGCAGTAGAGCAGGTTGAAGTAGTAAGTCTTATC
* *
17443116 TCCCTAAAGTTGCAGTGGAACAGACT
64 TTCCTGAAGTTGCAGTGGAACAGACT
* * * * * ** * * **
17443142 AAAGATAGCAGATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGCAAACCTTATC-
1 GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGTAAGTCTTATCT
* * **
17443206 TCTCTGAAGTTGCAGTAGAGCAGGTT
65 TC-CTGAAGTTGCAGTGGAACAGACT
* * * * ** *
17443232 GAA-ATAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAG-A-TAACAGACTTATC
1 GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGT-A-AGTCTTATC
* * ** *
17443294 TACCTGAAGTTACAGCAGAATAGA-T
64 TTCCTGAAGTTGCAGTGGAACAGACT
* * * * *
17443319 CGAAGATAGAAAATATTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAGTAGCAAGTCTTATC-
1 -GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGTAAGTCTTATCT
* * *
17443383 TCTCTGAAGTTGTAGTGGAGCAAACT
65 TC-CTGAAGTTGCAGTGGAACAGACT
* * *
17443409 GAAGACCA-CAAGTCTTATCTCCTTGAAGTTGCAGT-GAAGCAGGTTGAA
1 GAAGA-TAGCAAATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGGTTGAA
17443457 ATTACCAACT
Statistics
Matches: 384, Mismatches: 88, Indels: 44
0.74 0.17 0.09
Matches are distributed among these distances:
87 3 0.01
88 29 0.08
89 246 0.64
90 105 0.27
91 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (89 bp):
GAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGTAAGTCTTATCTT
CCTGAAGTTGCAGTGGAACAGACT
Found at i:17443112 original size:134 final size:133
Alignment explanation
Indices: 17442931--17443438 Score: 646
Period size: 134 Copynumber: 3.8 Consensus size: 133
17442921 AGTAGTAAGT
* ** * *
17442931 CTTATCT-TCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGGTCTTATCTCCCTGAAGTTGC
1 CTTATCTCT-CTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAGTCTTATCTCCCTAAAGTTGC
* ** *
17442995 AGAGGAGCAGACTGAAGATATCAGATCTTATCTCCCTGAAGTTGTAGCGGAATAAATCGAAGATA
64 AGTGGAGCAGACTGAAGATA-CAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATA
17443060 GCAAAC
128 GCAAAC
* *
17443066 CTTATCTCTCT-AGAGTTGCAATAGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTAAAGTTGCA
1 CTTATCTCTCTGA-AGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTAAAGTTGCA
* * * * *
17443130 GTGGAACAGACTAAAGATAGCAGATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAG
65 GTGGAGCAGACTGAAGATA-CAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAG
17443195 CAAAC
129 CAAAC
*
17443200 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAATAGCAAGTCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTAAAGTTGCAG
* * * *
17443265 TGGAGTAGACTGAAGATAACAGA-CTTATCTACCTGAAGTTACAGCAGAATAGATCGAAGATAGA
66 TGGAGCAGACTGAAGAT-ACAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAGC
*
17443329 AAAT
130 AAAC
* * * * *
17443333 ATTATCTCTCTGAAGTTGTAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCTCTGAAGTTGTAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTAAAGTTGCAG
* * *
17443398 TGGAGCAAACTGAAGACCACA-AGTCTTATCTCCTTGAAGTT
66 TGGAGCAGACTGAAGA-TACAGA-TCTTATCTCCCTGAAGTT
17443439 GCAGTGAAGC
Statistics
Matches: 325, Mismatches: 41, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
132 1 0.00
133 114 0.35
134 179 0.55
135 30 0.09
136 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (133 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTAAAGTTGCAG
TGGAGCAGACTGAAGATACAGATCTTATCTCCCTGAAGTTACAGCGGAATAGATCGAAGATAGCA
AAC
Found at i:17443149 original size:179 final size:179
Alignment explanation
Indices: 17442838--17443220 Score: 543
Period size: 179 Copynumber: 2.1 Consensus size: 179
17442828 GTGAATCCAT
* * *
17442838 AGATCTTATCTCACTAAAGTTGCAGCAGAATAGATCGAAGATAGCATACCTTATCTCTCTGAAGT
1 AGATCTTATCTCACTGAAGTTGCAGCAGAATAAATCGAAGATAGCAAACCTTATCTCTCTGAAGT
* * * * *
17442903 TGCAGTAGAACAGGTTGAAGTAGTAAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGA
66 TGCAATAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGA
* * * * *
17442968 TAGCAGGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGACTGAAGATATC
131 TAGCAGATCTTATCTCCCTAAAGTTACAGAGGAACAGACTGAAGATAGC
* * *
17443017 AGATCTTATCTCCCTGAAGTTGTAGCGGAATAAATCGAAGATAGCAAACCTTATCTCTCT-AGAG
1 AGATCTTATCTCACTGAAGTTGCAGCAGAATAAATCGAAGATAGCAAACCTTATCTCTCTGA-AG
*
17443081 TTGCAATAGAGCAGGTTGAAGTAGTAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAG
65 TTGCAATAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAG
* * *
17443146 ATAGCAGATCTTATCTCCCTAAAGTTACAGTGGAATAGATTGAAGATAGC
130 ATAGCAGATCTTATCTCCCTAAAGTTACAGAGGAACAGACTGAAGATAGC
* * *
17443196 AAACCTTATCTCTCTGAAGTTGCAG
1 AGATCTTATCTCACTGAAGTTGCAG
17443221 TAGAGCAGGT
Statistics
Matches: 179, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
178 1 0.01
179 178 0.99
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (179 bp):
AGATCTTATCTCACTGAAGTTGCAGCAGAATAAATCGAAGATAGCAAACCTTATCTCTCTGAAGT
TGCAATAGAACAGGTTGAAGTAGTAAGTCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGA
TAGCAGATCTTATCTCCCTAAAGTTACAGAGGAACAGACTGAAGATAGC
Found at i:17444700 original size:15 final size:14
Alignment explanation
Indices: 17444644--17444758 Score: 60
Period size: 15 Copynumber: 8.1 Consensus size: 14
17444634 TTATTATGTT
*
17444644 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
17444658 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
17444672 TACTATTATTATTTA
1 T-CTATTTTTATTTA
17444687 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
17444702 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
17444716 TACTATTATTA-TT-
1 T-CTATTTTTATTTA
*
17444729 TCAATTTATTATATT-
1 TCTATTT-TTAT-TTA
*
17444744 TCTATTTCTATTTA
1 TCTATTTTTATTTA
17444758 T
1 T
17444759 ATACTAATAT
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
12 10 0.13
13 8 0.10
14 21 0.27
15 30 0.38
16 2 0.03
17 7 0.09
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:17444713 original size:29 final size:28
Alignment explanation
Indices: 17444644--17444714 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
17444634 TTATTATGTT
17444644 TCTATTTATATTTATTTTGTTATTCTAA
1 TCTATTTATATTTATTTTGTTATTCTAA
*
17444672 TACTA-TTATTATTTATCTAATTTTTATT-T-A
1 T-CTATTTA-TATTTAT-T--TTGTTATTCTAA
17444702 TCTATTTATATTT
1 TCTATTTATATTT
17444715 CTACTATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
28 4 0.11
29 18 0.50
30 6 0.17
31 1 0.03
32 7 0.19
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (28 bp):
TCTATTTATATTTATTTTGTTATTCTAA
Found at i:17444743 original size:21 final size:23
Alignment explanation
Indices: 17444716--17444773 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
17444706 TTTATATTTC
17444716 TACTATTATTATTTCAATTTAT-
1 TACTATTATTATTTCAATTTATA
*
17444738 TA-TATT-TCTATTTCTATTTATA
1 TACTATTAT-TATTTCAATTTATA
*
17444760 TACTAATATTATTT
1 TACTATTATTATTT
17444774 TCATTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.03
21 16 0.53
22 4 0.13
23 8 0.27
24 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (23 bp):
TACTATTATTATTTCAATTTATA
Found at i:17444764 original size:44 final size:42
Alignment explanation
Indices: 17444671--17444786 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 42
17444661 TGTTATTCTA
17444671 ATACTATTATTATTTATCTAATTT-TTATTTATCTATTTATATTT
1 ATACTATTATTATTT-TC-AATTTATTATTT-TCTATTTATATTT
* *
17444715 CTACTATTATTA-TTTCAATTTATTATATTTCTATTTCTATTTAT
1 ATACTATTATTATTTTCAATTTATTAT-TTTCTATTTATA-TT-T
*
17444759 ATACTAATATTATTTTC-A-TTATTATTTT
1 ATACTATTATTATTTTCAATTTATTATTTT
17444787 TCTTATATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
41 5 0.08
42 18 0.29
43 13 0.21
44 23 0.37
45 4 0.06
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (42 bp):
ATACTATTATTATTTTCAATTTATTATTTTCTATTTATATTT
Found at i:17444898 original size:3 final size:3
Alignment explanation
Indices: 17444890--17444942 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
17444880 TTTAAAACTT
17444890 TTA TTA TTA TTA 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
17444938 TTA TT
1 TTA TT
17444943 TATAGTATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17444995 original size:18 final size:18
Alignment explanation
Indices: 17444972--17445009 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17444962 AATTGCTCCC
17444972 TTAATTTTATT-TTATATT
1 TTAA-TTTATTCTTATATT
*
17444990 TTAATTTATTCTTCTATT
1 TTAATTTATTCTTATATT
17445008 TT
1 TT
17445010 TAATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTAATTTATTCTTATATT
Found at i:17448772 original size:32 final size:32
Alignment explanation
Indices: 17448726--17448806 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 32
17448716 AAATTTTAGT
*
17448726 TTGTTGGATTTTGAAATTATTATGTCTTGAAT-
1 TTGTTGGATATTGAAATTATTATGT-TTGAATC
* *
17448758 TTGTTAGG-TATTGAATTTATTATGTTTTAATC
1 TTGTT-GGATATTGAAATTATTATGTTTGAATC
17448790 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
17448807 GATTGACAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
31 7 0.17
32 33 0.79
33 2 0.05
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTTTGAATC
Found at i:17450529 original size:6 final size:6
Alignment explanation
Indices: 17450518--17450552 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
17450508 ACCAACCAGT
* *
17450518 ATTATA ATTATA ATTATA ATCATA ATCATA ATTAT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTAT
17450553 TATATTAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (6 bp):
ATTATA
Found at i:17450991 original size:15 final size:16
Alignment explanation
Indices: 17450971--17451009 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
17450961 TTATGGATAC
17450971 AAAAGAATAAGAT-TT
1 AAAAGAATAAGATGTT
17450986 AAAAGAATAAGATGTT
1 AAAAGAATAAGATGTT
17451002 -AAAGAATA
1 AAAAGAATA
17451010 TATCATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (16 bp):
AAAAGAATAAGATGTT
Found at i:17462621 original size:26 final size:26
Alignment explanation
Indices: 17462591--17462642 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
17462581 TGAAATCCTG
17462591 CAACTCCGATATATACCCTTCTGCCA
1 CAACTCCGATATATACCCTTCTGCCA
17462617 CAACTCCGATATATACCCTTCTGCCA
1 CAACTCCGATATATACCCTTCTGCCA
17462643 AGCTATCCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.38, G:0.08, T:0.27
Consensus pattern (26 bp):
CAACTCCGATATATACCCTTCTGCCA
Found at i:17474257 original size:40 final size:40
Alignment explanation
Indices: 17474130--17474259 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
17474120 ATGCTGGAAA
* *
17474130 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
17474170 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
17474210 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
17474250 TTATATCCGG
1 TTATATCCGG
17474260 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:17474258 original size:80 final size:79
Alignment explanation
Indices: 17474093--17474259 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
17474083 GAATTGAATG
* *
17474093 ATATCCGGGCTAAGTCCCGAAGACATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGACCCGAAGACATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
17474158 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * ** *
17474172 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
17474236 -ATTCGTGC-ACGTGGTT
64 AATT-GTGCTA-GTGGCT
17474252 ATATCCGG
1 ATATCCGG
17474260 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 29 0.39
80 45 0.61
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGACATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:17482301 original size:40 final size:40
Alignment explanation
Indices: 17482174--17482303 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
17482164 ATGCTGGAAA
* *
17482174 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
17482214 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
17482254 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
17482294 TTATATCCGG
1 TTATATCCGG
17482304 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:17482302 original size:80 final size:80
Alignment explanation
Indices: 17482136--17482303 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
17482126 AAATTGAATG
* * *
17482136 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
17482201 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
17482216 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
17482280 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
17482296 ATATCCGG
1 ATATCCGG
17482304 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:17499156 original size:6 final size:6
Alignment explanation
Indices: 17499146--17499179 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
17499136 AGAAAAGAAT
*
17499146 AAAATT AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
17499180 GATAAGAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:17510045 original size:16 final size:17
Alignment explanation
Indices: 17510024--17510060 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
17510014 AAAAATCCAG
17510024 AAAAAAAC-GCAA-AAAA
1 AAAAAAACAG-AAGAAAA
17510040 AAAAAAACAGAAGAAAA
1 AAAAAAACAGAAGAAAA
17510057 AAAA
1 AAAA
17510061 TGAAGTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAACAGAAGAAAA
Found at i:17514358 original size:36 final size:37
Alignment explanation
Indices: 17514304--17514377 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 37
17514294 ATCCTACAAA
* *
17514304 CTAGATAAAACCACTAAAATGCGAGT-AAATGCAATG
1 CTAGATAAAACCACTAAAAAGCAAGTAAAATGCAATG
** * *
17514340 CTAGATAAAAGTATTAAAAAGTAAGTAAAATGCAATG
1 CTAGATAAAACCACTAAAAAGCAAGTAAAATGCAATG
17514377 C
1 C
17514378 AGAAACTATC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
36 20 0.65
37 11 0.35
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (37 bp):
CTAGATAAAACCACTAAAAAGCAAGTAAAATGCAATG
Found at i:17522530 original size:23 final size:22
Alignment explanation
Indices: 17522481--17522544 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
17522471 CCTGATCAGT
*
17522481 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
17522503 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
17522525 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
17522545 GATCAGTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:17522545 original size:23 final size:23
Alignment explanation
Indices: 17522481--17522546 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
17522471 CCTGATCAGT
17522481 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
17522503 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
17522525 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
17522547 TCAGTAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:17525768 original size:22 final size:22
Alignment explanation
Indices: 17525742--17525791 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 22
17525732 TCTGAGCTGA
17525742 TAAACGGTAAGCTCCGA-AGAGC
1 TAAACGGTAAGCTCC-ATAGAGC
17525764 TAAACGGTAAGCTCCATAGAGC
1 TAAACGGTAAGCTCCATAGAGC
17525786 TGAAAC
1 T-AAAC
17525792 AGAAACAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.81
23 4 0.15
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (22 bp):
TAAACGGTAAGCTCCATAGAGC
Found at i:17530555 original size:79 final size:79
Alignment explanation
Indices: 17530463--17530621 Score: 264
Period size: 79 Copynumber: 2.0 Consensus size: 79
17530453 CTTTTCTGGC
* * * * *
17530463 TAAAAAATACTAAAGCCTGATCATGTGTCCCCAACAAAAAGATCAACCTTTTAGTTTAAAGCTCT
1 TAAAAAACACTAAAGCCTGATCAAGCGTCCCCAACAAAAAGATCAACCTTGTAGATTAAAGCTCT
*
17530528 ACTCTTCTATCTGT
66 ACACTTCTATCTGT
17530542 TAAAAAACACTAAAGCCTGATCAAGCGTCCCCAACAAAAAGATCAACCTTGTAGATTAAAGCTCT
1 TAAAAAACACTAAAGCCTGATCAAGCGTCCCCAACAAAAAGATCAACCTTGTAGATTAAAGCTCT
17530607 ACACTTCTATCTGT
66 ACACTTCTATCTGT
17530621 T
1 T
17530622 GAGGAACTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (79 bp):
TAAAAAACACTAAAGCCTGATCAAGCGTCCCCAACAAAAAGATCAACCTTGTAGATTAAAGCTCT
ACACTTCTATCTGT
Found at i:17536973 original size:95 final size:95
Alignment explanation
Indices: 17536868--17537058 Score: 373
Period size: 95 Copynumber: 2.0 Consensus size: 95
17536858 ATGCCCTCAA
17536868 AAATTTCATAATATATGACATCTCATAACTAATCTTTTTCACCATAACTTACCAACTACTTGTTT
1 AAATTTCATAATATATGACATCTCATAACTAATCTTTTTCACCATAACTTACCAACTACTTGTTT
17536933 TAACATAATTAAGCCATGATGACTATACAT
66 TAACATAATTAAGCCATGATGACTATACAT
*
17536963 AAATTTCATAATATATGGCATCTCATAACTAATCTTTTTCACCATAACTTACCAACTACTTGTTT
1 AAATTTCATAATATATGACATCTCATAACTAATCTTTTTCACCATAACTTACCAACTACTTGTTT
17537028 TAACATAATTAAGCCATGATGACTATACAT
66 TAACATAATTAAGCCATGATGACTATACAT
17537058 A
1 A
17537059 TTTGTCTCGT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.37
Consensus pattern (95 bp):
AAATTTCATAATATATGACATCTCATAACTAATCTTTTTCACCATAACTTACCAACTACTTGTTT
TAACATAATTAAGCCATGATGACTATACAT
Found at i:17537160 original size:17 final size:17
Alignment explanation
Indices: 17537138--17537170 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17537128 AAAGTAAGGT
17537138 TATCCAATGGTGTTTAC
1 TATCCAATGGTGTTTAC
17537155 TATCCAATGGTGTTTA
1 TATCCAATGGTGTTTA
17537171 TCTCTTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (17 bp):
TATCCAATGGTGTTTAC
Found at i:17541164 original size:20 final size:20
Alignment explanation
Indices: 17541128--17541167 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17541118 TAATTTTCCT
17541128 CATCTAAAAAGCATTTCTAA
1 CATCTAAAAAGCATTTCTAA
17541148 CATCTAAAAAGCATTTCTAA
1 CATCTAAAAAGCATTTCTAA
17541168 TTTCTTGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (20 bp):
CATCTAAAAAGCATTTCTAA
Found at i:17547703 original size:7 final size:7
Alignment explanation
Indices: 17547691--17547726 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
17547681 ATATGTATGC
17547691 TAATAAA
1 TAATAAA
17547698 TAATAAA
1 TAATAAA
17547705 TAATAAAA
1 TAAT-AAA
*
17547713 TAATATA
1 TAATAAA
17547720 TAATAAA
1 TAATAAA
17547727 ATGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:17547785 original size:33 final size:34
Alignment explanation
Indices: 17547700--17547797 Score: 100
Period size: 33 Copynumber: 3.0 Consensus size: 34
17547690 CTAATAAATA
17547700 ATAA-ATAATAAAATAATATATAATAAAATGAAG
1 ATAATATAATAAAATAATATATAATAAAATGAAG
* *
17547733 ATAATATAA-AGAACAATATATAATAAAAT-ATA-
1 ATAATATAATAAAATAATATATAATAAAATGA-AG
*
17547765 CT-ATATAATAAAAT-ATATATAATATACAATGAA
1 ATAATATAATAAAATAATATATAATA-A-AATGAA
17547798 ATATAAGTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
31 16 0.30
32 6 0.11
33 27 0.50
34 5 0.09
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (34 bp):
ATAATATAATAAAATAATATATAATAAAATGAAG
Found at i:17547787 original size:14 final size:15
Alignment explanation
Indices: 17547691--17547788 Score: 94
Period size: 15 Copynumber: 6.3 Consensus size: 15
17547681 ATATGTATGC
*
17547691 TAAT-AAATAATAAA
1 TAATAAAATAATATA
17547705 TAATAAAATAATATA
1 TAATAAAATAATATA
17547720 TAATAAAATGAAGATAATA
1 TAATAAAAT--A-AT-ATA
* *
17547739 TAA-AGAACAATATA
1 TAATAAAATAATATA
17547753 TAATAAAATATACTATA
1 TAATAAAATA-A-TATA
17547770 TAATAAAAT-ATATA
1 TAATAAAATAATATA
17547784 TAATA
1 TAATA
17547789 TACAATGAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
14 19 0.27
15 25 0.35
16 2 0.03
17 14 0.20
18 5 0.07
19 6 0.08
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (15 bp):
TAATAAAATAATATA
Found at i:17547809 original size:21 final size:21
Alignment explanation
Indices: 17547760--17547802 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17547750 ATATAATAAA
* *
17547760 ATATACTATATAATAAAATAT
1 ATATAATATACAATAAAATAT
*
17547781 ATATAATATACAATGAAATAT
1 ATATAATATACAATAAAATAT
17547802 A
1 A
17547803 AGTAATACGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (21 bp):
ATATAATATACAATAAAATAT
Found at i:17553815 original size:14 final size:14
Alignment explanation
Indices: 17553773--17553815 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
17553763 TTTTAAATAT
17553773 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
*
17553786 TCATAATGGTTTAA
1 TTATAATGGTTTAA
17553800 TTATAATGGTTTAA
1 TTATAATGGTTTAA
17553814 TT
1 TT
17553816 CATCGTTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 6 0.22
14 21 0.78
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:17555785 original size:8 final size:8
Alignment explanation
Indices: 17555772--17555796 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17555762 TTCATAAATG
17555772 TCGGCTTT
1 TCGGCTTT
17555780 TCGGCTTT
1 TCGGCTTT
17555788 TCGGCTTT
1 TCGGCTTT
17555796 T
1 T
17555797 GCCGATCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.52
Consensus pattern (8 bp):
TCGGCTTT
Found at i:17558250 original size:43 final size:43
Alignment explanation
Indices: 17558179--17558376 Score: 218
Period size: 43 Copynumber: 4.6 Consensus size: 43
17558169 AATGCGCTGT
* * * * *
17558179 TAAAAGTCAAGTTCTTTAGCGGGGTTTGTATGAAAAGCGCCTC
1 TAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGTGCCGC
* * * * *
17558222 TAAAGGTCCCGTTCTTTGGCGGCATTTGTTTGAGAAGTGCCGC
1 TAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGTGCCGC
*
17558265 TAAAGGTCACGTTCTTTAGCTGCGTTTGTATGAAAAGTGCCGC
1 TAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGTGCCGC
* * * **
17558308 TAAAGGTCACGTTCTTTAGCGACGCTT-TATCAAAAACGCCGC
1 TAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGTGCCGC
* * *
17558350 TAAAAGTCATGTTCTTTAGCAGCGTTT
1 TAAAGGTCACGTTCTTTAGCGGCGTTT
17558377 TTTTACATAA
Statistics
Matches: 128, Mismatches: 27, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 34 0.27
43 94 0.73
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (43 bp):
TAAAGGTCACGTTCTTTAGCGGCGTTTGTATGAAAAGTGCCGC
Found at i:17560866 original size:15 final size:16
Alignment explanation
Indices: 17560846--17560886 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
17560836 CCATTGTTCT
17560846 AAAAAAATTAA-TGAA
1 AAAAAAATTAAGTGAA
**
17560861 AAAAAAAAGAAGTGAA
1 AAAAAAATTAAGTGAA
17560877 AAAAAAATTA
1 AAAAAAATTA
17560887 TGTTGATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.15
Consensus pattern (16 bp):
AAAAAAATTAAGTGAA
Found at i:17563592 original size:14 final size:14
Alignment explanation
Indices: 17563573--17563599 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17563563 TACTTGGTCT
17563573 TGTTCTTAATTATG
1 TGTTCTTAATTATG
17563587 TGTTCTTAATTAT
1 TGTTCTTAATTAT
17563600 TACCTTAATA
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:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:17568662 original size:16 final size:16
Alignment explanation
Indices: 17568641--17568678 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
17568631 CCATTGTTCT
*
17568641 AAAAAAAATGAA-TGA
1 AAAAAAAAAGAAGTGA
17568656 AAAAAAAAAGAAGTGA
1 AAAAAAAAAGAAGTGA
17568672 AAAAAAA
1 AAAAAAA
17568679 CATTTATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (16 bp):
AAAAAAAAAGAAGTGA
Found at i:17572708 original size:5 final size:5
Alignment explanation
Indices: 17572700--17572743 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
17572690 ATAGAATGAA
17572700 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
17572744 AAAAACAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:17580710 original size:13 final size:14
Alignment explanation
Indices: 17580694--17580729 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
17580684 CAATCTCATA
17580694 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
17580707 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
17580720 TCTC-ATTTCA
1 TCTCAATTTCA
17580730 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:17580719 original size:18 final size:19
Alignment explanation
Indices: 17580681--17580721 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
17580671 TGGTTCATGT
17580681 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
17580700 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
17580718 TTTC
1 TTTC
17580722 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:17580911 original size:39 final size:38
Alignment explanation
Indices: 17580844--17580978 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
17580834 ACCAATATGG
* * *
17580844 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
17580883 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
17580921 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
17580962 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
17580979 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:17581244 original size:7 final size:7
Alignment explanation
Indices: 17581234--17581258 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17581224 TAATCAATAT
17581234 ATATTCA
1 ATATTCA
17581241 ATATTCA
1 ATATTCA
17581248 ATATTCA
1 ATATTCA
17581255 ATAT
1 ATAT
17581259 ATATATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATTCA
Found at i:17582581 original size:5 final size:5
Alignment explanation
Indices: 17582571--17582623 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
17582561 TTACTTATTT
* *
17582571 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
17582619 ATATA
1 ATATA
17582624 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:17582587 original size:12 final size:12
Alignment explanation
Indices: 17582570--17582625 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
17582560 TTTACTTATT
17582570 TATATAATATAA
1 TATATAATATAA
17582582 TATATAATATAATA
1 TATATAATAT-A-A
17582596 TACTATAATATAA
1 TA-TATAATATAA
*
17582609 TA-ATAATTTAA
1 TATATAATATAA
17582620 TATATA
1 TATATA
17582626 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:17587088 original size:13 final size:14
Alignment explanation
Indices: 17587072--17587107 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
17587062 CAATCTCATA
17587072 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
17587085 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
17587098 TCTC-ATTTCA
1 TCTCAATTTCA
17587108 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:17587097 original size:18 final size:19
Alignment explanation
Indices: 17587059--17587099 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
17587049 TGGTTCATGT
17587059 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
17587078 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
17587096 TTTC
1 TTTC
17587100 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:17587289 original size:39 final size:38
Alignment explanation
Indices: 17587222--17587356 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
17587212 ACCAATATGG
* * *
17587222 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
17587261 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
17587299 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
17587340 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
17587357 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:17587621 original size:18 final size:19
Alignment explanation
Indices: 17587595--17587633 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
17587585 TTTCAATTCA
17587595 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
17587614 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
17587632 AT
1 AT
17587634 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:17588966 original size:10 final size:10
Alignment explanation
Indices: 17588951--17589008 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
17588941 ACTTATTTAT
17588951 ATAATATATA
1 ATAATATATA
17588961 ATAATATATA
1 ATAATATATA
17588971 AT-ATAATATA
1 ATAAT-ATATA
17588981 CTATAATATATA
1 --ATAATATATA
17588993 ATAAT-T-TA
1 ATAATATATA
17589001 AT-ATATAT
1 ATAATATAT
17589009 TTTAACACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
7 2 0.05
8 5 0.12
9 4 0.10
10 22 0.52
12 7 0.17
13 2 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAATATATA
Found at i:17588970 original size:17 final size:17
Alignment explanation
Indices: 17588948--17589007 Score: 76
Period size: 15 Copynumber: 3.8 Consensus size: 17
17588938 TTTACTTATT
17588948 TATATAATATATAATAA
1 TATATAATATATAATAA
17588965 TATAT-A-ATATAAT-A
1 TATATAATATATAATAA
17588979 TACTATAATATATAATAA
1 TA-TATAATATATAATAA
17588997 T-T-TAATATATA
1 TATATAATATATA
17589008 TTTTAACACA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.08
15 19 0.49
16 3 0.08
17 12 0.31
18 2 0.05
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TATATAATATATAATAA
Found at i:17588974 original size:5 final size:5
Alignment explanation
Indices: 17588956--17589005 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
17588946 TTTATATAAT
* *
17588956 ATATA ATA-A TATATA ATATA ATATA CTATA ATAT- ATAATA ATTTA ATATA
1 ATATA ATATA -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA
17589006 TATTTTAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 3 0.08
5 31 0.84
6 3 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:17588974 original size:22 final size:22
Alignment explanation
Indices: 17588949--17588995 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
17588939 TTACTTATTT
17588949 ATATAATATA-TAATAATATATA
1 ATATAATATACT-ATAATATATA
17588971 ATATAATATACTATAATATATA
1 ATATAATATACTATAATATATA
17588993 ATA
1 ATA
17588996 ATTTAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAATATACTATAATATATA
Found at i:17589007 original size:22 final size:23
Alignment explanation
Indices: 17588952--17589007 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 23
17588942 CTTATTTATA
17588952 TAATATATAATAATATATAATA-
1 TAATATATAATAATATATAATAT
17588974 TAATATACT-ATAATATATAATAATT
1 TAATATA-TAATAATATATAAT-A-T
17588999 TAATATATA
1 TAATATATA
17589008 TTTTAACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 19 0.66
23 2 0.07
24 1 0.03
25 7 0.24
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATATATAATAATATATAATAT
Found at i:17589925 original size:16 final size:16
Alignment explanation
Indices: 17589900--17589945 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
17589890 CCAGAAAAAC
17589900 ACAA-TTGTTCTAAAT
1 ACAAGTTGTTCTAAAT
17589915 ACAAGTTGTTCTAAAT
1 ACAAGTTGTTCTAAAT
*
17589931 A-ATGGTTGTTCTAAA
1 ACA-AGTTGTTCTAAA
17589946 CATAGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 5 0.18
16 23 0.82
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (16 bp):
ACAAGTTGTTCTAAAT
Found at i:17590110 original size:16 final size:16
Alignment explanation
Indices: 17590080--17590125 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
17590070 CTAGACATAG
*
17590080 TTATTCTCAAACAACAG
1 TTATTCT-AAACAACAA
* *
17590097 TTGTTCTGAACAACAA
1 TTATTCTAAACAACAA
17590113 TTATTCTAAACAA
1 TTATTCTAAACAA
17590126 GCATTATTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.33
Consensus pattern (16 bp):
TTATTCTAAACAACAA
Found at i:17590131 original size:16 final size:15
Alignment explanation
Indices: 17590080--17590133 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
17590070 CTAGACATAG
17590080 TTATTCTCAAACAACA
1 TTATTCT-AAACAACA
* *
17590096 GTTGTTCTGAACAACAA
1 -TTATTCTAAACAAC-A
17590113 TTATTCTAAACAAGCA
1 TTATTCTAAACAA-CA
17590129 TTATT
1 TTATT
17590134 TCTCCAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 23 0.74
17 8 0.26
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (15 bp):
TTATTCTAAACAACA
Found at i:17591631 original size:32 final size:33
Alignment explanation
Indices: 17591601--17591779 Score: 150
Period size: 33 Copynumber: 5.5 Consensus size: 33
17591591 GGTGTACATT
**
17591601 CCTTTCCAAGTGGTACACACAAAGTATACATTT
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* * * *
17591634 CCTTTTCATA-TGGTATACACTAAGTATACCTAA
1 CCTTTCCA-AGTGGTACACACAAAGTATACATAA
* * * **
17591667 CCTTTCCAAGT-GTACACATAAAATATACCTTT
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* * * *
17591699 CCTTTTCATA-TGGTATACACTAAGTATACCTAA
1 CCTTTCCA-AGTGGTACACACAAAGTATACATAA
*
17591732 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* *
17591764 CCTTTTCAAGTTGTAC
1 CCTTTCCAAGTGGTAC
17591780 CATTTGGGTA
Statistics
Matches: 114, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
32 52 0.46
33 61 0.54
34 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (33 bp):
CCTTTCCAAGTGGTACACACAAAGTATACATAA
Found at i:17591682 original size:65 final size:65
Alignment explanation
Indices: 17591601--17591771 Score: 279
Period size: 65 Copynumber: 2.6 Consensus size: 65
17591591 GGTGTACATT
17591601 CCTTTCCAAGTGGTACACACAAAGTATACATTTCCTTTTCATATGGTATACACTAAGTATACCTA
1 CCTTTCCAAGT-GTACACACAAAGTATACATTTCCTTTTCATATGGTATACACTAAGTATACCTA
17591666 A
65 A
* * *
17591667 CCTTTCCAAGTGTACACATAAAATATACCTTTCCTTTTCATATGGTATACACTAAGTATACCTAA
1 CCTTTCCAAGTGTACACACAAAGTATACATTTCCTTTTCATATGGTATACACTAAGTATACCTAA
* **
17591732 CCTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCA
1 CCTTTCCAAGTGTACACACAAAGTATACATTTCCTTTTCA
17591772 AGTTGTACCA
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
65 85 0.89
66 11 0.11
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (65 bp):
CCTTTCCAAGTGTACACACAAAGTATACATTTCCTTTTCATATGGTATACACTAAGTATACCTAA
Found at i:17592958 original size:13 final size:13
Alignment explanation
Indices: 17592940--17592964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17592930 CACATATTTG
17592940 ATAAAAATTTTCT
1 ATAAAAATTTTCT
17592953 ATAAAAATTTTC
1 ATAAAAATTTTC
17592965 ATGCAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAAATTTTCT
Found at i:17614817 original size:84 final size:84
Alignment explanation
Indices: 17614715--17614884 Score: 340
Period size: 84 Copynumber: 2.0 Consensus size: 84
17614705 GCTCAAGATC
17614715 TGATCAATTCGGTTAGTTTGACTAGTTTAATTGGTTTTTAAATAAATTTTTTTTCTAAAATAAAA
1 TGATCAATTCGGTTAGTTTGACTAGTTTAATTGGTTTTTAAATAAATTTTTTTTCTAAAATAAAA
17614780 TAGAATAAATAATAAATGA
66 TAGAATAAATAATAAATGA
17614799 TGATCAATTCGGTTAGTTTGACTAGTTTAATTGGTTTTTAAATAAATTTTTTTTCTAAAATAAAA
1 TGATCAATTCGGTTAGTTTGACTAGTTTAATTGGTTTTTAAATAAATTTTTTTTCTAAAATAAAA
17614864 TAGAATAAATAATAAATGA
66 TAGAATAAATAATAAATGA
17614883 TG
1 TG
17614885 TTATAACTTG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (84 bp):
TGATCAATTCGGTTAGTTTGACTAGTTTAATTGGTTTTTAAATAAATTTTTTTTCTAAAATAAAA
TAGAATAAATAATAAATGA
Found at i:17615624 original size:28 final size:28
Alignment explanation
Indices: 17615592--17615689 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 28
17615582 TAATTTTTTT
17615592 AACCATTTATTTTATGTTAAAAACTTTC
1 AACCATTTATTTTATGTTAAAAACTTTC
* *** *
17615620 AACCATTAAATATTTATTAATGTTGTAATTTTTTT
1 AACCATT---TA-TT-TT-ATGTT-AAAAACTTTC
17615655 AACCATTTATTTTATGTTAAAAACTTTC
1 AACCATTTATTTTATGTTAAAAACTTTC
17615683 AACCATT
1 AACCATT
17615690 AAATATTTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
28 19 0.36
29 5 0.09
30 2 0.04
31 4 0.08
32 4 0.08
33 2 0.04
34 5 0.09
35 12 0.23
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (28 bp):
AACCATTTATTTTATGTTAAAAACTTTC
Found at i:17615657 original size:63 final size:63
Alignment explanation
Indices: 17615581--17615707 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
17615571 CAAGTTTATA
17615581 GTAATTTTTTTAACCATTTATTTTATGTTAAAAACTTTCAACCATTAAATATTTATTAATGTT
1 GTAATTTTTTTAACCATTTATTTTATGTTAAAAACTTTCAACCATTAAATATTTATTAATGTT
17615644 GTAATTTTTTTAACCATTTATTTTATGTTAAAAACTTTCAACCATTAAATATTTATTAATGTT
1 GTAATTTTTTTAACCATTTATTTTATGTTAAAAACTTTCAACCATTAAATATTTATTAATGTT
17615707 G
1 G
17615708 ACATTATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (63 bp):
GTAATTTTTTTAACCATTTATTTTATGTTAAAAACTTTCAACCATTAAATATTTATTAATGTT
Found at i:17621756 original size:2 final size:2
Alignment explanation
Indices: 17621749--17621789 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
17621739 GCCATATACT
17621749 TA TA TA TA 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 TA TA TA TA T
17621790 CAGAATGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17622054 original size:25 final size:25
Alignment explanation
Indices: 17622026--17622077 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
17622016 AAATTAACTT
17622026 ACCATTTATTTCACATTTAAGGTAA
1 ACCATTTATTTCACATTTAAGGTAA
17622051 ACCATTTATTTCACATTTAAGGTAA
1 ACCATTTATTTCACATTTAAGGTAA
17622076 AC
1 AC
17622078 TAACTAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (25 bp):
ACCATTTATTTCACATTTAAGGTAA
Found at i:17630361 original size:32 final size:32
Alignment explanation
Indices: 17630310--17630406 Score: 97
Period size: 33 Copynumber: 3.0 Consensus size: 32
17630300 CCGATGGACC
* * * * *
17630310 TTTCCTTTTCTAATTGTACACTTGAGGTGTACA
1 TTTCCTTTTC-AATGGTACACATAAAGTATACA
17630343 -TTCCTTTTCAACTGGTACACATAAAGTATACA
1 TTTCCTTTTCAA-TGGTACACATAAAGTATACA
* *
17630375 TTTCCTTTTCATATGGTATACATTAAGTATAC
1 TTTCCTTTTCA-ATGGTACACATAAAGTATAC
17630407 CTAACCTTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
31 2 0.04
32 24 0.44
33 27 0.50
34 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (32 bp):
TTTCCTTTTCAATGGTACACATAAAGTATACA
Found at i:17630415 original size:33 final size:33
Alignment explanation
Indices: 17630345--17630451 Score: 101
Period size: 33 Copynumber: 3.3 Consensus size: 33
17630335 GGTGTACATT
**
17630345 CCTTTTCAACTGGTACACATAAAGTATACATTT
1 CCTTTTCAACTGGTACACATAAAGTATACATAA
* * *
17630378 CCTTTTCATA-TGGTATACATTAAGTATACCTAA
1 CCTTTTCA-ACTGGTACACATAAAGTATACATAA
* * * *
17630411 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAACTGGTACACATAAAGTATACATAA
*
17630443 CTTTTTCAA
1 CCTTTTCAA
17630452 GTTGTACCAT
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
32 24 0.41
33 34 0.58
34 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (33 bp):
CCTTTTCAACTGGTACACATAAAGTATACATAA
Found at i:17633532 original size:29 final size:31
Alignment explanation
Indices: 17633484--17633547 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
17633474 TTTATAATTA
*
17633484 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
17633515 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
17633544 TTTA
1 TTTA
17633548 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:17633536 original size:8 final size:8
Alignment explanation
Indices: 17633525--17633549 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17633515 TTTAATAAGA
17633525 TATTTTAT
1 TATTTTAT
17633533 TATTTTAT
1 TATTTTAT
17633541 TATTTTAT
1 TATTTTAT
17633549 T
1 T
17633550 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:17638909 original size:19 final size:20
Alignment explanation
Indices: 17638871--17638909 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
17638861 ATCGACACTC
* *
17638871 ACATGCTCCATTTCCCATTA
1 ACATGCTCCAATTCCAATTA
17638891 ACATGCT-CAATTCCAATTA
1 ACATGCTCCAATTCCAATTA
17638910 GTTTAAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (20 bp):
ACATGCTCCAATTCCAATTA
Found at i:17649286 original size:19 final size:19
Alignment explanation
Indices: 17649262--17649299 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17649252 TTCTAATGAA
*
17649262 TGCAATATTTTAGGTCATC
1 TGCAATATTTTAGATCATC
17649281 TGCAATATTTTAGATCATC
1 TGCAATATTTTAGATCATC
17649300 CAAAATAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (19 bp):
TGCAATATTTTAGATCATC
Found at i:17662496 original size:24 final size:24
Alignment explanation
Indices: 17662469--17662518 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
17662459 TTTAGTCCAC
17662469 TTGAATGTGGCATAGTTGAAAAAG
1 TTGAATGTGGCATAGTTGAAAAAG
17662493 TTGAATGTGGCATAGTTGAAAAAG
1 TTGAATGTGGCATAGTTGAAAAAG
17662517 TT
1 TT
17662519 AGAAGTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (24 bp):
TTGAATGTGGCATAGTTGAAAAAG
Found at i:17663237 original size:17 final size:17
Alignment explanation
Indices: 17663216--17663247 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17663206 GGGTAATTTT
17663216 TTTTTTA-ATTTTTATC
1 TTTTTTAGATTTTTATC
17663232 TTTTTTAGATTTTTAT
1 TTTTTTAGATTTTTAT
17663248 ATAAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTTTAGATTTTTATC
Found at i:17668798 original size:20 final size:19
Alignment explanation
Indices: 17668750--17668799 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
17668740 TGCGTAAATG
*
17668750 AATATATAATATATGTAAAA
1 AATA-ATAATATATATAAAA
*
17668770 ATATGATAATATATATATAAA
1 A-ATAATAATATATATA-AAA
17668791 AATAATAAT
1 AATAATAAT
17668800 TATGAGAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
AATAATAATATATATAAAA
Found at i:17668902 original size:16 final size:17
Alignment explanation
Indices: 17668880--17668923 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
17668870 GAAGTAAAAT
17668880 TAAAATAAATCA-AATAA
1 TAAAATAAAT-AGAATAA
*
17668897 -AAAATATATAGAATAA
1 TAAAATAAATAGAATAA
17668913 TAAAATAAATA
1 TAAAATAAATA
17668924 TAGGACTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 9 0.39
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
TAAAATAAATAGAATAA
Found at i:17670433 original size:83 final size:83
Alignment explanation
Indices: 17670294--17670619 Score: 535
Period size: 83 Copynumber: 3.9 Consensus size: 83
17670284 TGATGACTGT
* *
17670294 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATAC
*
17670359 CAAACCATCTTGAGTCCG
66 CAAACCATCTTGAGTCTG
* * *
17670377 TTTGAGAACATTTGAGAGTCATATCTGTAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATAC
*
17670442 CAAACCATCTTGAGTCTA
66 CAAACCATCTTGAGTCTG
17670460 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATAC
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATAC
** *
17670525 CAAATTATCTTGAGTTTG
66 CAAACCATCTTGAGTCTG
* *
17670543 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCTTTGTAAGCACAAGAATAC
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATAC
*
17670608 CAAATCATCTTG
66 CAAACCATCTTG
17670620 GATCTGCTTC
Statistics
Matches: 230, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 230 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (83 bp):
TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATAC
CAAACCATCTTGAGTCTG
Found at i:17670840 original size:120 final size:119
Alignment explanation
Indices: 17670545--17670858 Score: 448
Period size: 119 Copynumber: 2.6 Consensus size: 119
17670535 TGAGTTTGTT
* * * * * * *
17670545 TGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCTTTGTAAGCACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCA
* * *
17670610 AATCATCTTGGATCTGCTTCAGTATAAACGTCTGAAGTCTGGATCTGCTATATC
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCTACTATATC
* * * *
17670664 TGAGAACATCTAAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAGGATGCCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCA
* * *
17670729 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCTACTGTCTTT
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCTACTAT-ATC
**
17670784 TGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCA
1 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCA
17670849 AATCATCTTG
66 AATCATCTTG
17670859 AGTCTGTTTT
Statistics
Matches: 171, Mismatches: 23, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
119 101 0.59
120 70 0.41
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (119 bp):
TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTCTAGATCTACTATATC
Found at i:17670924 original size:84 final size:84
Alignment explanation
Indices: 17670781--17670942 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 84
17670771 ATCTACTGTC
** * * * * * *
17670781 TTTTGAGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
1 TTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATTTATTCCTTGTAAACACAAGAATA
17670846 CCAAATCATCTTGAGTCTG
66 CCAAATCATCTTGAGTCTG
* * *
17670865 TTTTGAGAACATCTGAGAGTCATATCTGCAACGTCTTCGATTTATTTCTTGTAAACACAAGAATA
1 TTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATTTATTCCTTGTAAACACAAGAATA
17670930 CCAAATCATCTTG
66 CCAAATCATCTTG
17670943 GATCTGCTTC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (84 bp):
TTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATTTATTCCTTGTAAACACAAGAATA
CCAAATCATCTTGAGTCTG
Found at i:17675006 original size:14 final size:14
Alignment explanation
Indices: 17674987--17675023 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
17674977 GGAAGACGAT
17674987 GTACTACAATGTCA
1 GTACTACAATGTCA
17675001 GTACTACAATGTCA
1 GTACTACAATGTCA
17675015 GTACT-CAAT
1 GTACTACAAT
17675024 CCGGGCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (14 bp):
GTACTACAATGTCA
Found at i:17683316 original size:699 final size:699
Alignment explanation
Indices: 17682236--17683612 Score: 2754
Period size: 699 Copynumber: 2.0 Consensus size: 699
17682226 GTACTACCTT
17682236 TTCAAAATTTCCAAACACCAAGCATTGCCTTTATATTTTTTTGAAAACTTTTGGGGCCTTATTTT
1 TTCAAAATTTCCAAACACCAAGCATTGCCTTTATATTTTTTTGAAAACTTTTGGGGCCTTATTTT
17682301 TAAAAAAGATGCATGGGGACTTTTATTGTACTATAAATCATACATAGTAACATATTATTGTAGTA
66 TAAAAAAGATGCATGGGGACTTTTATTGTACTATAAATCATACATAGTAACATATTATTGTAGTA
17682366 AATAAATAATACGTGCATTTTAACAAAATGATAGTAATAATATGAAGATCGCATTAGATGCATAA
131 AATAAATAATACGTGCATTTTAACAAAATGATAGTAATAATATGAAGATCGCATTAGATGCATAA
17682431 AAATTATATATACATGGCAAATATTAACACTATGCATACAAAAATATATATATAGCATGTATTGA
196 AAATTATATATACATGGCAAATATTAACACTATGCATACAAAAATATATATATAGCATGTATTGA
17682496 GAATGAATAAATAAAATATACAAATAAACAAGGTAATAATTAAATAATGCATGATATATATAAGA
261 GAATGAATAAATAAAATATACAAATAAACAAGGTAATAATTAAATAATGCATGATATATATAAGA
17682561 AAGCCATGATTTAATAATAGATGACATACAAATAAAAGTATAATATCAATGTACGTGTCTACAAA
326 AAGCCATGATTTAATAATAGATGACATACAAATAAAAGTATAATATCAATGTACGTGTCTACAAA
17682626 ATATAACATATAATAATAATAACATTTAACACATACATGTTACATGCCATATAGAAATCTACCAA
391 ATATAACATATAATAATAATAACATTTAACACATACATGTTACATGCCATATAGAAATCTACCAA
17682691 GGAACTAATAAAAAGAAAATGATTGATTGCTAACAAAATATGCATATAATTAAAAGTGAGATATT
456 GGAACTAATAAAAAGAAAATGATTGATTGCTAACAAAATATGCATATAATTAAAAGTGAGATATT
17682756 TCATAACAATTTTAAAATAGAATTTAATATACAAGAATAATTATAAAAGAATAATAATTATATGG
521 TCATAACAATTTTAAAATAGAATTTAATATACAAGAATAATTATAAAAGAATAATAATTATATGG
17682821 TAATATATTTGGCTTGAAAGTATGTATGAGAATTCATAATATAAATTTAAAATGAAATGATATAT
586 TAATATATTTGGCTTGAAAGTATGTATGAGAATTCATAATATAAATTTAAAATGAAATGATATAT
17682886 ATAATAAATAATTAATTAACTAATAATGTATGAGAATTCATAATATAAA
651 ATAATAAATAATTAATTAACTAATAATGTATGAGAATTCATAATATAAA
17682935 TTCAAAATTTCCAAACACCAAGCATTGCCTTTATATTTTTTTGAAAACTTTTGGGGCCTTATTTT
1 TTCAAAATTTCCAAACACCAAGCATTGCCTTTATATTTTTTTGAAAACTTTTGGGGCCTTATTTT
17683000 TAAAAAAGATGCATGGGGACTTTTATTGTACTATAAATCATACATAGTAACATATTATTGTAGTA
66 TAAAAAAGATGCATGGGGACTTTTATTGTACTATAAATCATACATAGTAACATATTATTGTAGTA
17683065 AATAAATAATACGTGCATTTTAACAAAATGATAGTAATAATATGAAGATCGCATTAGATGCATAA
131 AATAAATAATACGTGCATTTTAACAAAATGATAGTAATAATATGAAGATCGCATTAGATGCATAA
17683130 AAATTATATATACATGGCAAATATTAACACTATGCATACAAAAATATATATATAGCATGTATTGA
196 AAATTATATATACATGGCAAATATTAACACTATGCATACAAAAATATATATATAGCATGTATTGA
17683195 GAATGAATAAATAAAATATACAAATAAACAAGGTAATAATTAAATAATGCATGATATATATAAGA
261 GAATGAATAAATAAAATATACAAATAAACAAGGTAATAATTAAATAATGCATGATATATATAAGA
17683260 AAGCCATGATTTAATAATAGATGACATACAAATAAAAGTATAATATCAATGTACGTGTCTACAAA
326 AAGCCATGATTTAATAATAGATGACATACAAATAAAAGTATAATATCAATGTACGTGTCTACAAA
17683325 ATATAACATATAATAATAATAACATTTAACACATACATGTTACATGCCATATAGAAATCTACCAA
391 ATATAACATATAATAATAATAACATTTAACACATACATGTTACATGCCATATAGAAATCTACCAA
17683390 GGAACTAATAAAAAGAAAATGATTGATTGCTAACAAAATATGCATATAATTAAAAGTGAGATATT
456 GGAACTAATAAAAAGAAAATGATTGATTGCTAACAAAATATGCATATAATTAAAAGTGAGATATT
17683455 TCATAACAATTTTAAAATAGAATTTAATATACAAGAATAATTATAAAAGAATAATAATTATATGG
521 TCATAACAATTTTAAAATAGAATTTAATATACAAGAATAATTATAAAAGAATAATAATTATATGG
17683520 TAATATATTTGGCTTGAAAGTATGTATGAGAATTCATAATATAAATTTAAAATGAAATGATATAT
586 TAATATATTTGGCTTGAAAGTATGTATGAGAATTCATAATATAAATTTAAAATGAAATGATATAT
17683585 ATAATAAATAATTAATTAACTAATAATG
651 ATAATAAATAATTAATTAACTAATAATG
17683613 AAATTATAGT
Statistics
Matches: 678, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
699 678 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.32
Consensus pattern (699 bp):
TTCAAAATTTCCAAACACCAAGCATTGCCTTTATATTTTTTTGAAAACTTTTGGGGCCTTATTTT
TAAAAAAGATGCATGGGGACTTTTATTGTACTATAAATCATACATAGTAACATATTATTGTAGTA
AATAAATAATACGTGCATTTTAACAAAATGATAGTAATAATATGAAGATCGCATTAGATGCATAA
AAATTATATATACATGGCAAATATTAACACTATGCATACAAAAATATATATATAGCATGTATTGA
GAATGAATAAATAAAATATACAAATAAACAAGGTAATAATTAAATAATGCATGATATATATAAGA
AAGCCATGATTTAATAATAGATGACATACAAATAAAAGTATAATATCAATGTACGTGTCTACAAA
ATATAACATATAATAATAATAACATTTAACACATACATGTTACATGCCATATAGAAATCTACCAA
GGAACTAATAAAAAGAAAATGATTGATTGCTAACAAAATATGCATATAATTAAAAGTGAGATATT
TCATAACAATTTTAAAATAGAATTTAATATACAAGAATAATTATAAAAGAATAATAATTATATGG
TAATATATTTGGCTTGAAAGTATGTATGAGAATTCATAATATAAATTTAAAATGAAATGATATAT
ATAATAAATAATTAATTAACTAATAATGTATGAGAATTCATAATATAAA
Found at i:17683903 original size:20 final size:19
Alignment explanation
Indices: 17683855--17683904 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
17683845 TGCGTAAATG
*
17683855 AATATATAATATATGTAAAA
1 AATA-ATAATATATATAAAA
*
17683875 ATATGATAATATATATATAAA
1 A-ATAATAATATATATA-AAA
17683896 AATAATAAT
1 AATAATAAT
17683905 TATGAGAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
AATAATAATATATATAAAA
Found at i:17684008 original size:16 final size:17
Alignment explanation
Indices: 17683986--17684029 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
17683976 GAAGTAAAAT
17683986 TAAAATAAATCA-AATAA
1 TAAAATAAAT-AGAATAA
*
17684003 -AAAATATATAGAATAA
1 TAAAATAAATAGAATAA
17684019 TAAAATAAATA
1 TAAAATAAATA
17684030 TAGGACTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 9 0.39
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
TAAAATAAATAGAATAA
Found at i:17687570 original size:2 final size:2
Alignment explanation
Indices: 17687565--17687598 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17687555 GTAGTAGCTT
17687565 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17687599 AGAATTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17687974 original size:40 final size:40
Alignment explanation
Indices: 17687929--17688025 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 40
17687919 TTTGAAAATG
*
17687929 ATTTATCCGGATGAAGTATGTATTAACAGAAAACTCTATA
1 ATTTATCCGGATGAAGTATGTATTAACAGAAAACTATATA
*
17687969 ATTTATCC-------G---GTATTAACAGAAACCTATATA
1 ATTTATCCGGATGAAGTATGTATTAACAGAAAACTATATA
17687999 ATTTATCCGGATGAAGTATGTATTAAC
1 ATTTATCCGGATGAAGTATGTATTAAC
17688026 GATATACTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 20
0.67 0.03 0.30
Matches are distributed among these distances:
30 27 0.60
33 1 0.02
37 1 0.02
40 16 0.36
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.34
Consensus pattern (40 bp):
ATTTATCCGGATGAAGTATGTATTAACAGAAAACTATATA
Found at i:17688054 original size:18 final size:18
Alignment explanation
Indices: 17688031--17688065 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17688021 TTAACGATAT
*
17688031 ACTTAAGATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
17688049 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
17688066 ACTGTCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:17688864 original size:46 final size:44
Alignment explanation
Indices: 17688771--17688864 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
17688761 ATTACATCAT
*
17688771 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTC
*
17688815 CATTCCATTCAACCAAACAGT-TGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-TAAGAA-TAC-TATTACAGCTCTATTC
17688861 CATT
1 CATT
17688865 ACAACTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 22 0.49
45 4 0.09
46 19 0.42
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACATAAGAATACTATTACAGCTCTATTC
Found at i:17688867 original size:16 final size:16
Alignment explanation
Indices: 17688846--17688897 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
17688836 TGAATTACTT
*
17688846 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
*
17688862 ATTACAACTCTATTCA
1 ATTACAACTCTATTCC
*
17688878 ATTATAACTCTATTCC
1 ATTACAACTCTATTCC
17688894 ATTA
1 ATTA
17688898 TAAGTGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.40
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:17688898 original size:16 final size:16
Alignment explanation
Indices: 17688853--17688900 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
17688843 CTTATTACAG
*
17688853 CTCTATTCCATTACAA
1 CTCTATTCCATTATAA
*
17688869 CTCTATTCAATTATAA
1 CTCTATTCCATTATAA
17688885 CTCTATTCCATTATAA
1 CTCTATTCCATTATAA
17688901 GTGTTTTTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCTATTCCATTATAA
Found at i:17690268 original size:10 final size:10
Alignment explanation
Indices: 17690154--17690279 Score: 71
Period size: 10 Copynumber: 12.3 Consensus size: 10
17690144 AAAAATCAAT
17690154 AAAAATTAT-
1 AAAAATTATA
*
17690163 TAAAATT-TA
1 AAAAATTATA
*
17690172 ATAAAATATATT
1 A-AAAAT-TATA
*
17690184 AAAAATTAGA
1 AAAAATTATA
*
17690194 AAAAATCAT-
1 AAAAATTATA
*
17690203 AAAAATCATAA
1 AAAAATTAT-A
17690214 AAGAAATTATA
1 AA-AAATTATA
*
17690225 AAAAATTGTA
1 AAAAATTATA
*
17690235 AAAGAATTGTA
1 AAA-AATTATA
***
17690246 AACTTTTAT-
1 AAAAATTATA
17690255 AAAAATTATA
1 AAAAATTATA
17690265 AAAATATATATA
1 AAAA-AT-TATA
17690277 AAA
1 AAA
17690280 TGCATCAAAA
Statistics
Matches: 90, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
8 1 0.01
9 21 0.23
10 31 0.34
11 22 0.24
12 15 0.17
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:17690272 original size:8 final size:9
Alignment explanation
Indices: 17690128--17690280 Score: 60
Period size: 10 Copynumber: 15.7 Consensus size: 9
17690118 GACATGTGGC
*
17690128 AAAAAATAT
1 AAAAATTAT
17690137 AAAAA--AT
1 AAAAATTAT
*
17690144 AAAAATCAAT
1 AAAAAT-TAT
17690154 AAAAATTAT
1 AAAAATTAT
*
17690163 TAAAATT-T
1 AAAAATTAT
17690171 AATAAAATATATT
1 -A-AAAAT-TA-T
*
17690184 AAAAATTAGA
1 AAAAATTA-T
*
17690194 AAAAATCAT
1 AAAAATTAT
*
17690203 AAAAATCATAA
1 AAAAAT--TAT
17690214 AAGAAATTAT
1 AA-AAATTAT
*
17690224 AAAAAATTGT
1 -AAAAATTAT
*
17690234 AAAAGAATTGT
1 -AAA-AATTAT
**
17690245 AAACTTTTAT
1 AAA-AATTAT
17690255 AAAAATTAT
1 AAAAATTAT
17690264 AAAAATATAT
1 AAAAAT-TAT
17690274 ATAAAAT
1 A-AAAAT
17690281 GCATCAAAAA
Statistics
Matches: 112, Mismatches: 17, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
7 7 0.06
8 1 0.01
9 29 0.26
10 47 0.42
11 22 0.20
12 5 0.04
13 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:17690274 original size:19 final size:19
Alignment explanation
Indices: 17690128--17690280 Score: 68
Period size: 21 Copynumber: 7.8 Consensus size: 19
17690118 GACATGTGGC
17690128 AAAAA-ATATAAAAA--AT
1 AAAAATATATAAAAATTAT
17690144 AAAAATCA-ATAAAAATTAT
1 AAAAAT-ATATAAAAATTAT
* *
17690163 TAAAATTTA-ATAAAATATATT
1 AAAAATATATA-AAAAT-TA-T
* *
17690184 AAAAAT-TAGAAAAAATCAT
1 AAAAATATA-TAAAAATTAT
*
17690203 AAAAATCATAAAAGAAATTAT
1 AAAAAT-ATATAA-AAATTAT
* *
17690224 AAAAA-ATTGTAAAAGAATTGT
1 AAAAATA-TAT-AAA-AATTAT
** *
17690245 AAACTTTTATAAAAATTAT
1 AAAAATATATAAAAATTAT
17690264 AAAAATATATATAAAAT
1 AAAAATATATA-AAAAT
17690281 GCATCAAAAA
Statistics
Matches: 103, Mismatches: 16, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
16 5 0.05
17 7 0.07
18 2 0.02
19 34 0.33
20 18 0.17
21 36 0.35
22 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAAATATATAAAAATTAT
Found at i:17690503 original size:19 final size:19
Alignment explanation
Indices: 17690479--17690531 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
17690469 AGAAATTTTT
17690479 TTTACAAATTTTAT-ATTTC
1 TTTAC-AATTTTATAATTTC
* *
17690498 TTTACATTTTTATAATTTT
1 TTTACAATTTTATAATTTC
* *
17690517 TTTACGACTTTATAA
1 TTTACAATTTTATAA
17690532 AATTTTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTACAATTTTATAATTTC
Found at i:17690566 original size:11 final size:11
Alignment explanation
Indices: 17690534--17690568 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
17690524 CTTTATAAAA
17690534 TTTTATAATTT
1 TTTTATAATTT
**
17690545 TTTTACGATTT
1 TTTTATAATTT
17690556 TTTTATAATTT
1 TTTTATAATTT
17690567 TT
1 TT
17690569 AATAAAAGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:17691766 original size:3 final size:3
Alignment explanation
Indices: 17691758--17691785 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17691748 CGATTTTCTC
17691758 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17691786 GCAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17692511 original size:17 final size:17
Alignment explanation
Indices: 17692462--17692513 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
17692452 AGTATGAGAA
*
17692462 GTAATCTTAGAAGATAT
1 GTAATCTTAGAAGATTT
* *
17692479 GCAATTTTAGAAGATTT
1 GTAATCTTAGAAGATTT
17692496 GTAATCTTAGAAGATTT
1 GTAATCTTAGAAGATTT
17692513 G
1 G
17692514 ATTATGTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (17 bp):
GTAATCTTAGAAGATTT
Found at i:17692526 original size:24 final size:22
Alignment explanation
Indices: 17692491--17692543 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
17692481 AATTTTAGAA
17692491 GATTTGT-AATCTTAGAAGATTT
1 GATTTGTAAATCTTAG-AGATTT
17692513 GATTATGTAAATCTTAGAGATTT
1 GATT-TGTAAATCTTAGAGATTT
*
17692536 AATTTGTA
1 GATTTGTA
17692544 GATTGCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 8 0.29
23 12 0.43
24 8 0.29
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (22 bp):
GATTTGTAAATCTTAGAGATTT
Found at i:17694477 original size:26 final size:26
Alignment explanation
Indices: 17694448--17694607 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
17694438 TGGTACAAAT
17694448 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
17694474 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17694500 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
17694526 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17694552 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
17694578 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17694604 TGAT
1 TGAT
17694608 GGGCATTTCA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:17699754 original size:75 final size:75
Alignment explanation
Indices: 17699631--17699773 Score: 259
Period size: 75 Copynumber: 1.9 Consensus size: 75
17699621 TTTACTAACC
*
17699631 TAATATTAAAACCATAAATAGTGAACTAATAATATACTTACCGTTTATCAAATAAAAATGATATA
1 TAATATTAAAACCATAAATAGTGAACTAATAATATACTTACCATTTATCAAATAAAAATGATATA
17699696 CTTTCCCACT
66 CTTTCCCACT
* *
17699706 TAATATTATAACCATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGATATA
1 TAATATTAAAACCATAAATAGTGAACTAATAATATACTTACCATTTATCAAATAAAAATGATATA
17699771 CTT
66 CTT
17699774 GCCAATTTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (75 bp):
TAATATTAAAACCATAAATAGTGAACTAATAATATACTTACCATTTATCAAATAAAAATGATATA
CTTTCCCACT
Found at i:17699891 original size:16 final size:16
Alignment explanation
Indices: 17699872--17699923 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
17699862 TGGTTGGCTA
17699872 TAATGGAATA-AGGCTG
1 TAATGGAATAGA-GCTG
* *
17699888 TAATTGAATAGAGTTG
1 TAATGGAATAGAGCTG
17699904 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
17699920 TAAT
1 TAAT
17699924 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:17699997 original size:44 final size:46
Alignment explanation
Indices: 17699905--17699998 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
17699895 ATAGAGTTGT
*
17699905 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
***
17699951 AATGGAATAGAACTGTAAT-AGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
17699995 AATG
1 AATG
17699999 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
Done.