Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 151 of 204
Found at i:45979655 original size:56 final size:56
Alignment explanation
Indices: 45979594--45979699 Score: 194
Period size: 56 Copynumber: 1.9 Consensus size: 56
45979584 ACAACTATTA
*
45979594 ATAAAACTAGATTACACATACATAAGTAGAAAATAAATTCAATATCCAAACCATTG
1 ATAAAACTAGATTACACATAAATAAGTAGAAAATAAATTCAATATCCAAACCATTG
*
45979650 ATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAAACTAGATTACACATAAATAAGTAGAAAATAAATTCAATATCCAAA
45979700 AAACACACAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.25
Consensus pattern (56 bp):
ATAAAACTAGATTACACATAAATAAGTAGAAAATAAATTCAATATCCAAACCATTG
Found at i:45980181 original size:18 final size:18
Alignment explanation
Indices: 45980160--45980207 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
45980150 TCCATCAATT
* *
45980160 TGAACACCATTTGAAATG
1 TGAACATCATTTAAAATG
45980178 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
45980196 TGAACATCATTT
1 TGAACATCATTT
45980208 CTCACATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:45983614 original size:24 final size:24
Alignment explanation
Indices: 45983587--45983638 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
45983577 TTAGTAAGTC
*
45983587 AAATA-ATCTATACTAATAAATGCT
1 AAATATAT-TATACTAATAAATACT
45983611 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
45983635 AAAT
1 AAAT
45983639 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:45993040 original size:24 final size:22
Alignment explanation
Indices: 45992994--45993084 Score: 76
Period size: 24 Copynumber: 4.0 Consensus size: 22
45992984 TCCAAATAAA
* *
45992994 TTATTTAAATTATTTTATAATT
1 TTATATAAATAATTTTATAATT
*
45993016 TTATATAAATTTAATTTTATGATT
1 TTATATAAA--TAATTTTATAATT
* *
45993040 TATATTATAAATAAATTTATTATT
1 T-TA-TATAAATAATTTTATAATT
* *
45993064 TTATTTATAT-ATTTTATAATT
1 TTATATAAATAATTTTATAATT
45993085 CAATATTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.16
22 13 0.23
23 2 0.04
24 24 0.43
25 2 0.04
26 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TTATATAAATAATTTTATAATT
Found at i:45994890 original size:21 final size:21
Alignment explanation
Indices: 45994866--45994906 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45994856 AGTAAATTTA
*
45994866 AATCAATTTAATACAATTCAT
1 AATCAATTCAATACAATTCAT
*
45994887 AATCAATTCAATTCAATTCA
1 AATCAATTCAATACAATTCA
45994907 CATCCTAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (21 bp):
AATCAATTCAATACAATTCAT
Found at i:46002169 original size:25 final size:25
Alignment explanation
Indices: 46002141--46002211 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
46002131 GAGCTATATT
*
46002141 AGGAAGCTCCGGAGAGCCATTAATC
1 AGGAAGCTCCGAAGAGCCATTAATC
* * *
46002166 AGGAAGCTCACAAAGAGACTTTAATC
1 AGGAAGCTC-CGAAGAGCCATTAATC
* *
46002192 GGGAAGCTTCGAAGAGCCAT
1 AGGAAGCTCCGAAGAGCCAT
46002212 ATATCGGAAC
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
25 17 0.47
26 19 0.53
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (25 bp):
AGGAAGCTCCGAAGAGCCATTAATC
Found at i:46002655 original size:10 final size:10
Alignment explanation
Indices: 46002640--46002694 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
46002630 TATACGACTA
*
46002640 AATTTAACTC
1 AATTTAATTC
*
46002650 AATTTAATAC
1 AATTTAATTC
*
46002660 AATTTATAATC
1 AATTTA-ATTC
*
46002671 AATTCAATTC
1 AATTTAATTC
*
46002681 AATTCAATTC
1 AATTTAATTC
46002691 AATT
1 AATT
46002695 CTAGGAAACA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
10 31 0.82
11 7 0.18
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (10 bp):
AATTTAATTC
Found at i:46002674 original size:21 final size:20
Alignment explanation
Indices: 46002640--46002695 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
46002630 TATACGACTA
* *
46002640 AATTTAACTCAATTTAATAC
1 AATTTAAATCAATTCAATAC
*
46002660 AATTTATAATCAATTCAATTC
1 AATTTA-AATCAATTCAATAC
* *
46002681 AATTCAATTCAATTC
1 AATTTAAATCAATTC
46002696 TAGGAAACAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTAAATCAATTCAATAC
Found at i:46002679 original size:5 final size:5
Alignment explanation
Indices: 46002669--46002695 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46002659 CAATTTATAA
46002669 TCAAT TCAAT TCAAT TCAAT TCAAT TC
1 TCAAT TCAAT TCAAT TCAAT TCAAT TC
46002696 TAGGAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:46003232 original size:16 final size:13
Alignment explanation
Indices: 46003198--46003225 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46003188 CTTTATTTTA
46003198 TTATTTATCATCT
1 TTATTTATCATCT
46003211 TTATTTATCATCT
1 TTATTTATCATCT
46003224 TT
1 TT
46003226 CCAATTTTAT
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:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:46007947 original size:5 final size:5
Alignment explanation
Indices: 46007939--46007965 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46007929 AATTTAAACT
46007939 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
46007966 CAAAAAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:46010501 original size:5 final size:5
Alignment explanation
Indices: 46010491--46010517 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
46010481 CTTTCTTGCC
46010491 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
46010518 AACAAGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:46010558 original size:28 final size:28
Alignment explanation
Indices: 46010526--46010586 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
46010516 AAAACAAGAA
*
46010526 TCAAATTAGTTCAA-CTCCAAGTTCTTAG
1 TCAAATCAGTTCAACCT-CAAGTTCTTAG
*
46010554 TCAAATCAGTTCAACCTCAAGTTCTTTG
1 TCAAATCAGTTCAACCTCAAGTTCTTAG
46010582 TCAAA
1 TCAAA
46010587 AGAAAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (28 bp):
TCAAATCAGTTCAACCTCAAGTTCTTAG
Found at i:46016212 original size:21 final size:22
Alignment explanation
Indices: 46016186--46016232 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
46016176 CTCTGCTCAA
*
46016186 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
46016207 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
46016229 ACTC
1 ACTC
46016233 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:46020509 original size:24 final size:24
Alignment explanation
Indices: 46020446--46020510 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 24
46020436 TACTAAATTG
* *
46020446 ACATTTAAAAATATTTATAA-TAT
1 ACATTTAAAAATAATTATAATTAC
* *
46020469 A-A-TAAAAAAT-ATGATAATTAC
1 ACATTTAAAAATAATTATAATTAC
46020490 ACATTTAAAAATAATTATAAT
1 ACATTTAAAAATAATTATAAT
46020511 GTAATAAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
20 5 0.16
21 10 0.31
22 2 0.06
23 8 0.25
24 7 0.22
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ACATTTAAAAATAATTATAATTAC
Found at i:46028863 original size:46 final size:45
Alignment explanation
Indices: 46028806--46028898 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 45
46028796 TAAAACTATC
* *
46028806 ACCCACCAAACACAACC-AATCATAGCCTCCAGGCACAACCAAACAT
1 ACCCACCAAACACAACCAAAT-ATACCCTCCA-ACACAACCAAACAT
* *
46028852 ACCCTCCAAACACAACCAAATATACCCTCCAACACAACCAAATAT
1 ACCCACCAAACACAACCAAATATACCCTCCAACACAACCAAACAT
46028897 AC
1 AC
46028899 AACCAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
45 14 0.33
46 25 0.60
47 3 0.07
ACGTcount: A:0.45, C:0.41, G:0.03, T:0.11
Consensus pattern (45 bp):
ACCCACCAAACACAACCAAATATACCCTCCAACACAACCAAACAT
Found at i:46028888 original size:22 final size:22
Alignment explanation
Indices: 46028814--46028898 Score: 109
Period size: 23 Copynumber: 3.8 Consensus size: 22
46028804 TCACCCACCA
*
46028814 AACACAACC-AATCATAGCCTCC
1 AACACAACCAAAT-ATACCCTCC
* *
46028836 AGGCACAACCAAACATACCCTCC
1 A-ACACAACCAAATATACCCTCC
46028859 AAACACAACCAAATATACCCTCC
1 -AACACAACCAAATATACCCTCC
46028882 AACACAACCAAATATAC
1 AACACAACCAAATATAC
46028899 AACCAAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
22 18 0.33
23 34 0.62
24 3 0.05
ACGTcount: A:0.46, C:0.39, G:0.04, T:0.12
Consensus pattern (22 bp):
AACACAACCAAATATACCCTCC
Found at i:46028901 original size:34 final size:35
Alignment explanation
Indices: 46028863--46028932 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 35
46028853 CCCTCCAAAC
* *
46028863 ACAACCAAATATACCCTCCAA-CACAACCAAATAT
1 ACAACCAAATATACCCTCCAAGAAAAACCAAATAT
46028897 ACAACCAAATATACCCTCCAAGAAAAACCAAATAT
1 ACAACCAAATATACCCTCCAAGAAAAACCAAATAT
46028932 A
1 A
46028933 GCCTCCCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 21 0.64
35 12 0.36
ACGTcount: A:0.53, C:0.31, G:0.01, T:0.14
Consensus pattern (35 bp):
ACAACCAAATATACCCTCCAAGAAAAACCAAATAT
Found at i:46028902 original size:12 final size:12
Alignment explanation
Indices: 46028885--46028910 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46028875 ACCCTCCAAC
46028885 ACAACCAAATAT
1 ACAACCAAATAT
46028897 ACAACCAAATAT
1 ACAACCAAATAT
46028909 AC
1 AC
46028911 CCTCCAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (12 bp):
ACAACCAAATAT
Found at i:46028911 original size:57 final size:58
Alignment explanation
Indices: 46028840--46028956 Score: 166
Period size: 57 Copynumber: 2.0 Consensus size: 58
46028830 GCCTCCAGGC
*
46028840 ACAACCAAACATACCCTCCAA-ACACAACCAAATATACCCT-CCAACACAACCAAATAT
1 ACAACCAAACATACCCTCCAAGA-AAAACCAAATATACCCTCCCAACACAACCAAATAT
* * **
46028897 ACAACCAAATATACCCTCCAAGAAAAACCAAATATAGCCTCCCAACACAATGAAATAT
1 ACAACCAAACATACCCTCCAAGAAAAACCAAATATACCCTCCCAACACAACCAAATAT
46028955 AC
1 AC
46028957 CCTTCAAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
57 35 0.66
58 18 0.34
ACGTcount: A:0.50, C:0.34, G:0.03, T:0.14
Consensus pattern (58 bp):
ACAACCAAACATACCCTCCAAGAAAAACCAAATATACCCTCCCAACACAACCAAATAT
Found at i:46035467 original size:25 final size:25
Alignment explanation
Indices: 46035422--46035509 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 25
46035412 CAGCTCGTAT
* *
46035422 GAGCTTACCGATTTGCGGCTCATGA
1 GAGCTTACCGATTTACAGCTCATGA
*
46035447 GAGCTTATCGATTCT-CAGCTCGTAT-A
1 GAGCTTACCGATT-TACAGCTC--ATGA
*
46035473 -AGCTTACCAATTTACAGCTCATGA
1 GAGCTTACCGATTTACAGCTCATGA
* *
46035497 GAGCATACTGATT
1 GAGCTTACCGATT
46035510 CATAGCTCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 42 0.84
26 2 0.04
27 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGATTTACAGCTCATGA
Found at i:46040311 original size:37 final size:37
Alignment explanation
Indices: 46040256--46040440 Score: 266
Period size: 37 Copynumber: 5.1 Consensus size: 37
46040246 AATACACAAG
46040256 TAATCCAACCAA-AACACGCCAAATGCTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
* *
46040292 TAATCCATCCGATAACACGCCAAATGCTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
* * * *
46040329 TAATCCAACCGATAACACGCTAAGTGATCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
* * *
46040366 TATTCCAACCAATAACACACCAAATGCTCA-AAGAGA
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
*
46040402 TAATCCAACCAATAACATGCCAAATGCTCATAAGAGC
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
46040439 TA
1 TA
46040441 TACATCTGCC
Statistics
Matches: 130, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
36 42 0.32
37 88 0.68
ACGTcount: A:0.43, C:0.28, G:0.12, T:0.18
Consensus pattern (37 bp):
TAATCCAACCAATAACACGCCAAATGCTCATAAGAGC
Found at i:46040437 original size:73 final size:74
Alignment explanation
Indices: 46040256--46040441 Score: 268
Period size: 73 Copynumber: 2.5 Consensus size: 74
46040246 AATACACAAG
* * * *
46040256 TAATCCAACCAA-AACACGCCAAATGCTCATAAGAGCTAATCCATCCGATAACACGCCAAATGCT
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGCTATTCCAACCAATAACACACCAAATGCT
*
46040320 CATAAGAGC
66 CATAAGAGA
* * * *
46040329 TAATCCAACCGATAACACGCTAAGTGATCATAAGAGCTATTCCAACCAATAACACACCAAATGCT
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGCTATTCCAACCAATAACACACCAAATGCT
46040394 CA-AAGAGA
66 CATAAGAGA
*
46040402 TAATCCAACCAATAACATGCCAAATGCTCATAAGAGCTAT
1 TAATCCAACCAATAACACGCCAAATGCTCATAAGAGCTAT
46040442 ACATCTGCCC
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
73 51 0.52
74 47 0.48
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.18
Consensus pattern (74 bp):
TAATCCAACCAATAACACGCCAAATGCTCATAAGAGCTATTCCAACCAATAACACACCAAATGCT
CATAAGAGA
Found at i:46050865 original size:27 final size:27
Alignment explanation
Indices: 46050816--46050870 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
46050806 CCCCACATGG
*
46050816 TAAAATGACTATTATTTCCCTATGTTA
1 TAAAATGACTATTATCTCCCTATGTTA
*
46050843 TAAAATGACTA-TATGCTCTCTATGTTA
1 TAAAATGACTATTAT-CTCCCTATGTTA
46050870 T
1 T
46050871 GTATGACTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.44
Consensus pattern (27 bp):
TAAAATGACTATTATCTCCCTATGTTA
Found at i:46052363 original size:18 final size:19
Alignment explanation
Indices: 46052342--46052379 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
46052332 ACTTTTATTT
46052342 CAAAAGT-ACTTTTTAAGC
1 CAAAAGTCACTTTTTAAGC
46052360 CAAAAGTGCACTTTTTAAGC
1 CAAAAGT-CACTTTTTAAGC
46052380 AGTACTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (19 bp):
CAAAAGTCACTTTTTAAGC
Found at i:46053537 original size:19 final size:18
Alignment explanation
Indices: 46053501--46053542 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
46053491 AGAGCAAAAA
* *
46053501 AGAAAAAGGGAAATTGAG
1 AGAAAAAGGAAAACTGAG
46053519 AGAATAAAGGAAAACTGAG
1 AGAA-AAAGGAAAACTGAG
46053538 A-AAAA
1 AGAAAA
46053543 GAAGGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 6 0.29
19 13 0.62
ACGTcount: A:0.62, C:0.02, G:0.26, T:0.10
Consensus pattern (18 bp):
AGAAAAAGGAAAACTGAG
Found at i:46059409 original size:16 final size:17
Alignment explanation
Indices: 46059379--46059411 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
46059369 AGTCCTTTGC
46059379 ATCTATGGTTAAAATGG
1 ATCTATGGTTAAAATGG
*
46059396 ATCTA-GGTTGAAATGG
1 ATCTATGGTTAAAATGG
46059412 CTAGATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (17 bp):
ATCTATGGTTAAAATGG
Found at i:46061234 original size:13 final size:13
Alignment explanation
Indices: 46061211--46061250 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
46061201 ACGCCTTAAC
46061211 ACAC-AGCGTGTG
1 ACACGAGCGTGTG
*
46061223 ACACGGGCGTGTG
1 ACACGAGCGTGTG
*
46061236 ACACGACCGTGTG
1 ACACGAGCGTGTG
46061249 AC
1 AC
46061251 CCTATTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.23, C:0.28, G:0.35, T:0.15
Consensus pattern (13 bp):
ACACGAGCGTGTG
Found at i:46069590 original size:29 final size:29
Alignment explanation
Indices: 46069547--46069602 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
46069537 ATAGAGACCT
46069547 GATCAAATTAATCATTCTACTATTAAATG
1 GATCAAATTAATCATTCTACTATTAAATG
* * * *
46069576 GATCAATTTAGTCATTTTACTTTTAAA
1 GATCAAATTAATCATTCTACTATTAAA
46069603 AAGAATCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (29 bp):
GATCAAATTAATCATTCTACTATTAAATG
Found at i:46073605 original size:26 final size:26
Alignment explanation
Indices: 46073576--46073628 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
46073566 CATCCATGAC
46073576 TTAGTGAATAATTTAACCTTAATTTA
1 TTAGTGAATAATTTAACCTTAATTTA
46073602 TTAGTGAATAATTTAACCTTAATTTA
1 TTAGTGAATAATTTAACCTTAATTTA
46073628 T
1 T
46073629 GTAAGTTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.47
Consensus pattern (26 bp):
TTAGTGAATAATTTAACCTTAATTTA
Found at i:46077105 original size:20 final size:20
Alignment explanation
Indices: 46077080--46077125 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
46077070 TTAGATTAGA
* *
46077080 TTAAAAGGGTATTTTTATGT
1 TTAAAAGAGTATTTTTAGGT
*
46077100 TTAAAAATAGTATTTTTAGGT
1 TT-AAAAGAGTATTTTTAGGT
46077121 TTAAA
1 TTAAA
46077126 TCATGGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (20 bp):
TTAAAAGAGTATTTTTAGGT
Found at i:46080515 original size:15 final size:15
Alignment explanation
Indices: 46080495--46080524 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46080485 AGCATGCTAA
46080495 AAATTTAAAGAGATT
1 AAATTTAAAGAGATT
46080510 AAATTTAAAGAGATT
1 AAATTTAAAGAGATT
46080525 TATAAAAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (15 bp):
AAATTTAAAGAGATT
Found at i:46087151 original size:18 final size:18
Alignment explanation
Indices: 46087128--46087165 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
46087118 CAAAAGTGTT
46087128 AATTAACAAGAAATATTG
1 AATTAACAAGAAATATTG
46087146 AATTAACAAGAAATATTG
1 AATTAACAAGAAATATTG
46087164 AA
1 AA
46087166 AGTTGTAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (18 bp):
AATTAACAAGAAATATTG
Found at i:46088468 original size:17 final size:17
Alignment explanation
Indices: 46088448--46088484 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
46088438 CAGATAGGCA
*
46088448 ATAATCAAAAATAGATG
1 ATAATCAAAAACAGATG
*
46088465 ATAATCAGAAACAGATG
1 ATAATCAAAAACAGATG
46088482 ATA
1 ATA
46088485 CTCGATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.22
Consensus pattern (17 bp):
ATAATCAAAAACAGATG
Found at i:46093259 original size:27 final size:27
Alignment explanation
Indices: 46093221--46093280 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
46093211 ATAGGTGGTG
46093221 CCTATCTAGTAGGCACCACTGGCAACT
1 CCTATCTAGTAGGCACCACTGGCAACT
* * **
46093248 CCTATCTGGTAGGCGCCACTGGTGACT
1 CCTATCTAGTAGGCACCACTGGCAACT
46093275 CCTATC
1 CCTATC
46093281 AATAAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.25
Consensus pattern (27 bp):
CCTATCTAGTAGGCACCACTGGCAACT
Found at i:46093495 original size:104 final size:103
Alignment explanation
Indices: 46093317--46093608 Score: 387
Period size: 106 Copynumber: 2.8 Consensus size: 103
46093307 ATTACATTAT
* * *
46093317 AAAAATTTACATTAATGAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
1 AAAAAATTACATTACTAAAAAATCACAAAAC-CTAAACTAAACACTAACAATTTATA-AA-CTAA
46093382 TCATAAATTACTAACAAAATAACTATAAAATCATTTTT-AA
63 TCATAAATTACTAACAAAATAACTATAAAATCATTTTTAAA
46093422 AAAAAATTACATTACTAAAAAAATCACAAAATCCTAAACTAAACACTAACAATTTATAAACTAAT
1 AAAAAATTACATTACT-AAAAAATCACAAAA-CCTAAACTAAACACTAACAATTTATAAACTAAT
* * * **
46093487 AATAAATTACTAACAAAATGACTATAACATTTTTTTTAAA
64 CATAAATTACTAACAAAATAACTATAAAATCATTTTTAAA
* * *
46093527 AAAATAATTTACATTACTAATAAATCACAAAA-C-ATA--AAACTCTAACAATTTATAAACTAAT
1 AAAA-AA-TTACATTACTAAAAAATCACAAAACCTAAACTAAACACTAACAATTTATAAACTAAT
46093588 CATAAATTACTAACAAAATAA
64 CATAAATTACTAACAAAATAA
46093609 TATTACATTA
Statistics
Matches: 169, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
101 43 0.25
103 2 0.01
104 38 0.22
105 22 0.13
106 53 0.31
107 11 0.07
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.29
Consensus pattern (103 bp):
AAAAAATTACATTACTAAAAAATCACAAAACCTAAACTAAACACTAACAATTTATAAACTAATCA
TAAATTACTAACAAAATAACTATAAAATCATTTTTAAA
Found at i:46094122 original size:16 final size:17
Alignment explanation
Indices: 46094093--46094125 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
46094083 CATTTTAACT
46094093 TTTTATTTAATTTTTAA
1 TTTTATTTAATTTTTAA
*
46094110 TTTT-TTTATTTTTTAA
1 TTTTATTTAATTTTTAA
46094126 ATTTGCATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTAATTTTTAA
Found at i:46105931 original size:20 final size:19
Alignment explanation
Indices: 46105908--46105960 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
46105898 CAATAGTTTC
*
46105908 ATCTCTTGATGAACAGTTGT
1 ATCTCTTG-TGAACAATTGT
*
46105928 ATCT-TT-TGAATAATTGT
1 ATCTCTTGTGAACAATTGT
46105945 ATCTCTTGGTGAACAA
1 ATCTCTT-GTGAACAA
46105961 ATTCGTGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 13 0.48
18 2 0.07
19 2 0.07
20 10 0.37
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (19 bp):
ATCTCTTGTGAACAATTGT
Found at i:46106279 original size:18 final size:17
Alignment explanation
Indices: 46106258--46106296 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
46106248 ATTTTTGAAG
46106258 TTTAGAGAATTTTAATTT
1 TTTA-AGAATTTTAATTT
* *
46106276 TTTAATAATTTTACTTT
1 TTTAAGAATTTTAATTT
46106293 TTTA
1 TTTA
46106297 TTAAAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTAAGAATTTTAATTT
Found at i:46110566 original size:45 final size:45
Alignment explanation
Indices: 46110438--46110567 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 45
46110428 TCATACTAGA
* * * * *
46110438 AATGAGTAAAACCATAGCGAAAAAGACATTATGGCATCACGATTTT
1 AATGAGTAAGACCATAGC-TAAAAGACGTTATGGCATCATGATTCT
* * *
46110484 AATGAATAAGACC--AGCTGAAAGATGTTATGGCATCATGATTCT
1 AATGAGTAAGACCATAGCTAAAAGACGTTATGGCATCATGATTCT
* *
46110527 AATGAGTAAGACCATAGCTAAAAGACGCTATGACATCATGA
1 AATGAGTAAGACCATAGCTAAAAGACGTTATGGCATCATGA
46110568 ATCAGACGAA
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
43 33 0.48
44 3 0.04
45 22 0.32
46 11 0.16
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (45 bp):
AATGAGTAAGACCATAGCTAAAAGACGTTATGGCATCATGATTCT
Found at i:46110669 original size:45 final size:45
Alignment explanation
Indices: 46110592--46110698 Score: 169
Period size: 45 Copynumber: 2.4 Consensus size: 45
46110582 AACATTGTTA
* *
46110592 AAAGACACTATGGCATCAAATCGGGAATGAATAAGACCATGGTTG
1 AAAGACACCATGGCATCAAATCAGGAATGAATAAGACCATGGTTG
* * *
46110637 AAATACACCATGACATCAAGTCAGGAATGAATAAGACCATGGTTG
1 AAAGACACCATGGCATCAAATCAGGAATGAATAAGACCATGGTTG
46110682 AAAGACACCATGGCATC
1 AAAGACACCATGGCATC
46110699 CTTCAACCAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (45 bp):
AAAGACACCATGGCATCAAATCAGGAATGAATAAGACCATGGTTG
Found at i:46112221 original size:20 final size:20
Alignment explanation
Indices: 46112182--46112223 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46112172 GCATAATTGT
*
46112182 TTCTATTTTGATGTTGAATG
1 TTCTATTTTGATGGTGAATG
46112202 TTCTATTTTGTATGGT-AATG
1 TTCTATTTTG-ATGGTGAATG
46112222 TT
1 TT
46112224 TTGTAACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.57
Consensus pattern (20 bp):
TTCTATTTTGATGGTGAATG
Found at i:46112746 original size:59 final size:58
Alignment explanation
Indices: 46112683--46112946 Score: 291
Period size: 59 Copynumber: 4.5 Consensus size: 58
46112673 ATTTTTGAAG
* *
46112683 AATAGTGCCAAAATTGTAAAATCTGAAAAAACCT-GTGGCAAAACTAT-AAATTTCAAAAA
1 AATAGTGGCAAAATTGTAAAATCT-AAAAAA-CTAGTGGCAAAACTATAAAATCT-AAAAA
* * *
46112742 AATAGTGGCAAAACTGTAAAATCTAGAAAAA-TAGTGGCAAAACTGTAAAATCTAGAAA
1 AATAGTGGCAAAATTGTAAAATCTA-AAAAACTAGTGGCAAAACTATAAAATCTAAAAA
* * * * * *
46112800 AATAGTGGCATAATTGTAAAATCTAAAAAACCATTGTCACAATTATAAAATCTAAAAA
1 AATAGTGGCAAAATTGTAAAATCTAAAAAACTAGTGGCAAAACTATAAAATCTAAAAA
* * * * *
46112858 ATATAGTGTCAAAACTATAAAATCTAAAAAACTAGTGGCACAACTGTAAAATCTAGAAAA
1 A-ATAGTGGCAAAATTGTAAAATCTAAAAAACTAGTGGCAAAACTATAAAATCTA-AAAA
* *
46112918 CACAGTGGCAAAATTGTAAAATCTAAAAA
1 AATAGTGGCAAAATTGTAAAATCTAAAAA
46112947 GTGACTGTGT
Statistics
Matches: 171, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
57 6 0.04
58 61 0.36
59 100 0.58
60 4 0.02
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (58 bp):
AATAGTGGCAAAATTGTAAAATCTAAAAAACTAGTGGCAAAACTATAAAATCTAAAAA
Found at i:46112771 original size:29 final size:29
Alignment explanation
Indices: 46112683--46112946 Score: 243
Period size: 29 Copynumber: 9.0 Consensus size: 29
46112673 ATTTTTGAAG
* *
46112683 AATAGTGCCAAAATTGTAAAATCT-GAAA
1 AATAGTGGCAAAACTGTAAAATCTAGAAA
* * *
46112711 AA-ACCTGTGGCAAAACTAT-AAATTTCAAAAA
1 AATA---GTGGCAAAACTGTAAAATCT-AGAAA
46112742 AATAGTGGCAAAACTGTAAAATCTAGAAA
1 AATAGTGGCAAAACTGTAAAATCTAGAAA
46112771 AATAGTGGCAAAACTGTAAAATCTAGAAA
1 AATAGTGGCAAAACTGTAAAATCTAGAAA
* *
46112800 AATAGTGGCATAATTGTAAAATCTA-AAA
1 AATAGTGGCAAAACTGTAAAATCTAGAAA
* * * * * * *
46112828 AACCATTGTCACAATTATAAAATCTAAAAA
1 AA-TAGTGGCAAAACTGTAAAATCTAGAAA
* *
46112858 ATATAGTGTCAAAACTATAAAATCTA-AAA
1 A-ATAGTGGCAAAACTGTAAAATCTAGAAA
*
46112887 AACTAGTGGCACAACTGTAAAATCTAGAAA
1 AA-TAGTGGCAAAACTGTAAAATCTAGAAA
* *
46112917 ACACAGTGGCAAAATTGTAAAATCTA-AAA
1 A-ATAGTGGCAAAACTGTAAAATCTAGAAA
46112946 A
1 A
46112947 GTGACTGTGT
Statistics
Matches: 198, Mismatches: 25, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.01
28 8 0.04
29 119 0.60
30 62 0.31
31 7 0.04
32 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (29 bp):
AATAGTGGCAAAACTGTAAAATCTAGAAA
Found at i:46112858 original size:117 final size:116
Alignment explanation
Indices: 46112683--46112946 Score: 361
Period size: 117 Copynumber: 2.2 Consensus size: 116
46112673 ATTTTTGAAG
* * *
46112683 AATAGTGCCAAAATTGTAAAATCTGAAAAAACCTGTGGCAAAACTATAAATTTCAAAAAAATAGT
1 AATAGTGGCAAAATTGTAAAATCT-AAAAAACCTGTGGCAAAACTATAAATCTAAAAAAAATAGT
*
46112748 GGCAAAACTGTAAAATCTAGAAAAA-TAGTGGCAAAACTGTAAAATCTAGAAA
65 GGCAAAACTATAAAATCTA-AAAAACTAGTGGCAAAACTGTAAAATCTAGAAA
* * * * *
46112800 AATAGTGGCATAATTGTAAAATCTAAAAAACCAT-TGTCACAATTATAAAATCTAAAAAATATAG
1 AATAGTGGCAAAATTGTAAAATCTAAAAAACC-TGTGGCAAAACTAT-AAATCTAAAAAAAATAG
* *
46112864 TGTCAAAACTATAAAATCTAAAAAACTAGTGGCACAACTGTAAAATCTAGAAA
64 TGGCAAAACTATAAAATCTAAAAAACTAGTGGCAAAACTGTAAAATCTAGAAA
*
46112917 ACACAGTGGCAAAATTGTAAAATCTAAAAA
1 A-ATAGTGGCAAAATTGTAAAATCTAAAAA
46112947 GTGACTGTGT
Statistics
Matches: 130, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
116 22 0.17
117 82 0.63
118 26 0.20
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (116 bp):
AATAGTGGCAAAATTGTAAAATCTAAAAAACCTGTGGCAAAACTATAAATCTAAAAAAAATAGTG
GCAAAACTATAAAATCTAAAAAACTAGTGGCAAAACTGTAAAATCTAGAAA
Found at i:46122415 original size:138 final size:137
Alignment explanation
Indices: 46122168--46122421 Score: 357
Period size: 138 Copynumber: 1.8 Consensus size: 137
46122158 AGCCATAAAA
* * * *
46122168 GGGTCTATTCACAAAAGCTGACAGTTGGAATATAGCTACACGATGTCGCTCACACAAGCTGACGA
1 GGGTCTACTCACAAAAGCTGACAGTCGGAATATAGCTACACAATGTCACTCACACAAGCTGACGA
* *
46122233 GTATCCACAACAAATAACAGAACTCAGCCATCGGTAGGACATTTAGGACCAGCACCCGAAACATG
66 GTATCCACAACAAATAACAGAACTCAGCCATCGATAGAACATTTAGGACCAGCACCCGAAACATG
46122298 GTAACCT
131 GTAACCT
* * * *
46122305 GGGTCTACTCACACAAGCTGACGGTCGGAATATAAGCTACACAATG-CTACTTACACAAGCTGAT
1 GGGTCTACTCACAAAAGCTGACAGTCGGAATAT-AGCTACACAATGTC-ACTCACACAAGCTGAC
* ** *
46122369 GAGTATCCATAACAAATGCCAGACCTCAGCCATCGATAGAACATTTAGGACCA
64 GAGTATCCACAACAAATAACAGAACTCAGCCATCGATAGAACATTTAGGACCA
46122422 ACATTTGAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
137 30 0.30
138 71 0.70
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (137 bp):
GGGTCTACTCACAAAAGCTGACAGTCGGAATATAGCTACACAATGTCACTCACACAAGCTGACGA
GTATCCACAACAAATAACAGAACTCAGCCATCGATAGAACATTTAGGACCAGCACCCGAAACATG
GTAACCT
Found at i:46125744 original size:215 final size:215
Alignment explanation
Indices: 46125392--46125900 Score: 822
Period size: 215 Copynumber: 2.3 Consensus size: 215
46125382 AATTTGGCTA
* * *
46125392 AACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAA-CCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
*
46125457 TTATTTTTGAAAAGTTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAG
65 TTA-TTTTGAAAAG-TTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAAACCAG
*
46125522 TACCTTAGGGCACGTTCCTCGAATTTCCAAACGTAAAATATTGCCTTATTTTGAAAAGTTTTGAA
128 TACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAA
*
46125587 AAGGATATTAAGTCATTTGGTGG
193 AAGGATATTAAGTCATTTGGTCG
* * * * *
46125610 AATGAGAAATCAAAATCCAGTACCTTGGGGTACGTTCCTCGAATTTCCAAACGCAAAACATTGCA
1 AACGAGAAATCGAAA-CCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
46125675 TTATTTTGAAAAG-TTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAAACCAGTA
65 TTATTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAAACCAGTA
* *
46125739 CCTTAGGGCTCGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAA
130 CCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAAAA
*
46125804 GGATATTGAGTCATTTGGTCG
195 GGATATTAAGTCATTTGGTCG
* *
46125825 AACGAGAAATCGAAACTCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAACATATTGCC
1 AACGAGAAATCGAAAC-CAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
46125890 TTATTTTGAAA
65 TTATTTTGAAA
46125901 TATTTTCCTT
Statistics
Matches: 268, Mismatches: 22, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
214 1 0.00
215 198 0.74
217 10 0.04
218 59 0.22
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (215 bp):
AACGAGAAATCGAAACCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCT
TATTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAAACCAGTAC
CTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAAAAG
GATATTAAGTCATTTGGTCG
Found at i:46125756 original size:107 final size:108
Alignment explanation
Indices: 46125370--46125900 Score: 768
Period size: 108 Copynumber: 4.9 Consensus size: 108
46125360 AAAATTCAAG
* * * * * *
46125370 AGGATATTTAGCAATTTGG-CTAAACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGA
1 AGGATATTTAGCTATTTGGTC-GAACGAGAAATCGAAAACCAGTACCTTAGGGCACGTTCCTCGA
* *
46125434 ATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTTTAAA
65 ATTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAAG-TTTTGAAA
*
46125480 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAAACCAGTACCTTAGGGCACGTTCCTCGAA
*
46125545 TTTCCAAACGTAAAATATTGCCTTATTTTGAAAAGTTTTGAAA
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAAA
* * * * *
46125588 AGGATATTAAG-TCATTTGGTGGAATGAGAAATC-AAAATCCAGTACCTTGGGGTACGTTCCTCG
1 AGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAAA-CCAGTACCTTAGGGCACGTTCCTCG
* *
46125651 AATTTCCAAACGCAAAACATTGCATTATTTTGAAAAGTTTT-AAA
64 AATTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAAA
*
46125695 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAAACCAGTACCTTAGGGCTCGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAAACCAGTACCTTAGGGCACGTTCCTCGAA
*
46125760 TTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAAA
*
46125803 AGGATATTGAG-TCATTTGGTCGAACGAGAAATCG-AAACTCAGTACCTTAGGGCACGTTCCTCG
1 AGGATATTTAGCT-ATTTGGTCGAACGAGAAATCGAAAAC-CAGTACCTTAGGGCACGTTCCTCG
*
46125866 AATTTCCAAACGCAACATATTGCCTTATTTTGAAA
64 AATTTCCAAACGCAAAATATTGCCTTATTTTGAAA
46125901 TATTTTCCTT
Statistics
Matches: 384, Mismatches: 29, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
107 100 0.26
108 192 0.50
109 10 0.03
110 81 0.21
111 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (108 bp):
AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAAACCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTGAAA
Found at i:46126397 original size:3 final size:3
Alignment explanation
Indices: 46126327--46126386 Score: 61
Period size: 3 Copynumber: 19.7 Consensus size: 3
46126317 TTAAAATTAC
* *
46126327 ATA ATA ATTA TTA ATGA A-A AT- ATA ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46126372 ATA ATA ATAA ATA AT
1 ATA ATA AT-A ATA AT
46126387 GCACATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
2 4 0.08
3 37 0.77
4 7 0.15
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:46127136 original size:17 final size:18
Alignment explanation
Indices: 46127099--46127137 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
46127089 AATCGGAAAT
* *
46127099 AAATAAAAAAAACTTGCG
1 AAATAAAAAAAACTAGAG
46127117 AAATAAAAAAAA-TAGAG
1 AAATAAAAAAAACTAGAG
46127134 AAAT
1 AAAT
46127138 CAAGTGGCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (18 bp):
AAATAAAAAAAACTAGAG
Found at i:46135044 original size:5 final size:5
Alignment explanation
Indices: 46135003--46135071 Score: 72
Period size: 5 Copynumber: 13.8 Consensus size: 5
46134993 AAGAATGTTC
*
46135003 AAAA- AAAAG AGAAAG -AAAG AAAAAG AAAGAA AAAAG AAAAG AAAAG
1 AAAAG AAAAG A-AAAG AAAAG -AAAAG AAA-AG AAAAG AAAAG AAAAG
*
46135049 AAAAG AAAAG AAGA- AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAA
46135072 AGGAGAGGCC
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
4 11 0.20
5 32 0.58
6 12 0.22
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:46136378 original size:44 final size:44
Alignment explanation
Indices: 46136330--46136440 Score: 145
Period size: 44 Copynumber: 2.5 Consensus size: 44
46136320 TATCCCCCTA
* * * *
46136330 AAGTTGCAGTGGGGCAGGTTGAAATTAC-AA-GTTAGATCTCTCTG
1 AAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTT-G-TCTCTCTG
*
46136374 AAGTTGCAGTAGAGTAGGTTGAAATAACAAACCTTGTCTCTCTG
1 AAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTGTCTCTCTG
46136418 AAGTTGCAGTAGAGCAGGTTGAA
1 AAGTTGCAGTAGAGCAGGTTGAA
46136441 GTCACTAACC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
44 54 0.92
45 3 0.05
46 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTGTCTCTCTG
Found at i:46136451 original size:44 final size:44
Alignment explanation
Indices: 46136365--46136520 Score: 145
Period size: 44 Copynumber: 3.5 Consensus size: 44
46136355 TACAAGTTAG
* *
46136365 ATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAATAACAAACCTT
1 ATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAACAAACCTT
* * *
46136409 GTCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTCACTAACCTT
1 ATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAACAAACCTT
* * * * * * **
46136453 ATCCCCCTGAAGTTCCAGTGGGGCAAGTTGAAGATATA-AGTCC-T
1 ATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TA-ACAAACCTT
* *
46136497 ATCTCCCTGAAGTTGCAGTGGAGC
1 ATCTCTCTGAAGTTGCAGTAGAGC
46136521 GGGTCAAAAT
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
44 87 0.96
45 3 0.03
46 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTAACAAACCTT
Found at i:46137148 original size:44 final size:44
Alignment explanation
Indices: 46137100--46137249 Score: 155
Period size: 44 Copynumber: 3.4 Consensus size: 44
46137090 CTACAGTCGC
46137100 AGTGGAGCAGGTTAAAGCAATAAGTCTTATCTCCCTGAAATTGT
1 AGTGGAGCAGGTTAAAGCAATAAGTCTTATCTCCCTGAAATTGT
* * *
46137144 AGTGGAGCAGGTTGAAG-ATACAAGTCTTATTTCCCT-AAAGTTGT
1 AGTGGAGCAGGTTAAAGCA-ATAAGTCTTATCTCCCTGAAA-TTGT
** * * * *
46137188 AGTGGAGCAGACTGAAGCTACTAA-TCCTATCTCCCTGAAGTTGT
1 AGTGGAGCAGGTTAAAGC-AATAAGTCTTATCTCCCTGAAATTGT
46137232 AGTGGAGC-GGATTAAAGC
1 AGTGGAGCAGG-TTAAAGC
46137250 GATGAATTCC
Statistics
Matches: 87, Mismatches: 13, Indels: 12
0.78 0.12 0.11
Matches are distributed among these distances:
43 5 0.06
44 77 0.89
45 4 0.05
46 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
AGTGGAGCAGGTTAAAGCAATAAGTCTTATCTCCCTGAAATTGT
Found at i:46139741 original size:33 final size:33
Alignment explanation
Indices: 46139677--46139858 Score: 118
Period size: 27 Copynumber: 5.6 Consensus size: 33
46139667 CATAAAAGGG
*
46139677 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
46139704 GGTTGTTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * * *
46139737 GGTTGCTAAGTTCTGATTCCACTGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
* *
46139779 GGTTGCTAAATGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
46139806 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
46139839 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
46139859 ACCGTATCTT
Statistics
Matches: 120, Mismatches: 14, Indels: 36
0.71 0.08 0.21
Matches are distributed among these distances:
27 42 0.35
28 2 0.02
31 4 0.03
32 4 0.03
33 39 0.32
34 2 0.02
35 1 0.01
37 2 0.02
38 2 0.02
39 1 0.01
41 1 0.01
42 20 0.17
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:46139809 original size:102 final size:103
Alignment explanation
Indices: 46139671--46139899 Score: 388
Period size: 102 Copynumber: 2.2 Consensus size: 103
46139661 ATTGAACATA
* *
46139671 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGTTAAGTGCTGATTCCCCGATTCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
* * *
46139736 TGGTTGCTAAGTTCTGATTCCACTGTATTTTAAATGTG
66 TGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
*
46139774 -AAGGGGGTTGCTAAATGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
46139838 TGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
66 TGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
*
46139876 AAAAGGGGTTGCTAAGTGCTGATT
1 AAAGGGGGTTGCTAAGTGCTGATT
46139900 ACCCGATTCA
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 96 0.82
103 21 0.18
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (103 bp):
AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
TGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
Found at i:46139928 original size:76 final size:76
Alignment explanation
Indices: 46139802--46139971 Score: 252
Period size: 76 Copynumber: 2.2 Consensus size: 76
46139792 TGATTCCCCC
* * *
46139802 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA-T
1 AAGGGGTTGCTAAGTGCTGATTACCCGAATCATTGCTAGTTGCTAAGTGCTGATTCCACCGTATT
46139866 CTTAAATGTGAA
66 CTTAAATGTG-A
* * *
46139878 AAGGGGTTGCTAAGTGCTGATTACCCGATTCATTGCTAGTTTCTTAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTACCCGAATCATTGCTAGTTGCTAAGTGCTGATTCCACCGTATT
* *
46139943 TTTGAATGTGA
66 CTTAAATGTGA
46139954 AAGGGGTTGCTAAGTGCT
1 AAGGGGTTGCTAAGTGCT
46139972 AATTCCCTGA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
76 76 0.89
77 9 0.11
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTACCCGAATCATTGCTAGTTGCTAAGTGCTGATTCCACCGTATT
CTTAAATGTGA
Found at i:46140003 original size:76 final size:74
Alignment explanation
Indices: 46139802--46140014 Score: 232
Period size: 76 Copynumber: 2.8 Consensus size: 74
46139792 TGATTCCCCC
*
46139802 AAGGGGTTGCTAAGTGCTGATTCCCCGAAT-CATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAGGGGTTGCTAAGTGCTGATT-CCCG-ATCCA-TAGTGGTTGCTAAGTGCTGATTCCACCGTAT
46139866 CTTAAATGTGAA
63 CTTAAATGTGAA
* * * * *
46139878 AAGGGGTTGCTAAGTGCTGATTACCCGATTCATTGCTAGTTTCTTAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATT-CCCGATCCATAG-TGGTTGCTAAGTGCTGATTCCACCGTA-T
* *
46139943 TTTGAATGTG-A
63 CTTAAATGTGAA
* * * *
46139954 AAGGGGTTGCTAAGTGCTAATTCCCTGAGTCCCTAGTGGTTGATAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCC-GA-TCCATAGTGGTTGCTAAGTGCTGATTCCACCG
46140015 ATAACGGATA
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
75 7 0.06
76 96 0.83
77 13 0.11
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (74 bp):
AAGGGGTTGCTAAGTGCTGATTCCCGATCCATAGTGGTTGCTAAGTGCTGATTCCACCGTATCTT
AAATGTGAA
Found at i:46144014 original size:19 final size:19
Alignment explanation
Indices: 46143968--46144023 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 19
46143958 AATTTTAAAG
46143968 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46143987 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
46144008 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46144024 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.46
21 19 0.54
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46144049 original size:22 final size:22
Alignment explanation
Indices: 46144002--46144046 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
46143992 ATGCAATCTT
*
46144002 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCATAGA
* *
46144024 AGATATGATTTTGTAATCATAGA
1 AGATATGA-TATGCAATCATAGA
46144047 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.36
Consensus pattern (22 bp):
AGATATGATATGCAATCATAGA
Found at i:46144289 original size:23 final size:23
Alignment explanation
Indices: 46144245--46144289 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
46144235 TCTTATTTTG
* *
46144245 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
46144268 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
46144290 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:46144463 original size:23 final size:22
Alignment explanation
Indices: 46144416--46144464 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
46144406 CCTATATTTG
* *
46144416 TTATTTTTTATTATTAAATTAA
1 TTATTTTATATTATTAAACTAA
46144438 TTATTTTAATATTATTAATACT-A
1 TTATTTT-ATATTATTAA-ACTAA
46144461 TTAT
1 TTAT
46144465 GTGGCATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 14 0.61
24 2 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATTTTATATTATTAAACTAA
Found at i:46144734 original size:26 final size:26
Alignment explanation
Indices: 46144705--46144759 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
46144695 TTTATTTTTT
*
46144705 TATTTT-TTATAATTCACATACATATA
1 TATTTTCTTATAAGT-ACATACATATA
* *
46144731 TATTTTCTTATACGTACATATATATA
1 TATTTTCTTATAAGTACATACATATA
46144757 TAT
1 TAT
46144760 ATATATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (26 bp):
TATTTTCTTATAAGTACATACATATA
Found at i:46144956 original size:3 final size:3
Alignment explanation
Indices: 46144948--46144977 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
46144938 TTATCTTTTC
46144948 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
46144978 GTTCTTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:46150337 original size:9 final size:9
Alignment explanation
Indices: 46150323--46150359 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
46150313 TTTTTGTTCC
46150323 ATACAATTA
1 ATACAATTA
46150332 ATACAATT-
1 ATACAATTA
46150340 A-ACAATTA
1 ATACAATTA
46150348 ATACAATTA
1 ATACAATTA
46150357 ATA
1 ATA
46150360 ATTTGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 6 0.23
8 2 0.08
9 18 0.69
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ATACAATTA
Found at i:46150346 original size:16 final size:16
Alignment explanation
Indices: 46150325--46150362 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
46150315 TTTGTTCCAT
46150325 ACAATTAATACAATTA
1 ACAATTAATACAATTA
46150341 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
46150357 ATAATT
1 ACAATT
46150363 TGATAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:46150453 original size:16 final size:16
Alignment explanation
Indices: 46150432--46150473 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
46150422 AATAATTTGA
*
46150432 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
46150448 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
46150464 TAGTTTTAAT
1 TAATTTTAAT
46150474 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:46150472 original size:22 final size:23
Alignment explanation
Indices: 46150447--46150502 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
46150437 TTACTAACAA
* *
46150447 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAGTT
* *
46150469 TTAATTTTATTAAAAAAATATTT
1 TTAATTTTAATAAAAAAATAGTT
46150492 TTAATTTTAAT
1 TTAATTTTAAT
46150503 GCAAAACGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAGTT
Found at i:46151742 original size:102 final size:103
Alignment explanation
Indices: 46151604--46151833 Score: 356
Period size: 102 Copynumber: 2.2 Consensus size: 103
46151594 ATTGAATATA
*
46151604 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
* * * *
46151669 TGGTTGCTAAGT-TCTGATTCCACTGTATTTTAAATGTG
66 TGATTGCTAAGTGT-TGATCCCACCGTATCTTAAATGTG
*
46151707 -AAGGGGGTTGCTAAGTGCTGATTCCCCCAATGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
1 AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
46151771 TGATTGCTAAGTGTTGATCCCACCGTATCTTAAATGTG
66 TGATTGCTAAGTGTTGATCCCACCGTATCTTAAATGTG
* * *
46151809 AAAAGGGTTTGCTAAGTGTTGATTC
1 AAAGGGGGTTGCTAAGTGCTGATTC
46151834 TCTGATTCAT
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
102 94 0.81
103 22 0.19
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (103 bp):
AAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
TGATTGCTAAGTGTTGATCCCACCGTATCTTAAATGTG
Found at i:46151945 original size:76 final size:76
Alignment explanation
Indices: 46151738--46151947 Score: 235
Period size: 76 Copynumber: 2.8 Consensus size: 76
46151728 TTCCCCCAAT
* *
46151738 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGATTGCTAAGTGTTG-ATCCCACCGTATCTT
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAAT-CCACCGTATCTT
46151802 AAATGTGAAAAG
65 AAATGTGAAAAG
* * * * * * * * * *
46151814 GGTTTGCTAAGTGTTGATTCTCTGATTCATTGGTGGTTTCTTAGTGCCGATTCCACCGTATTTTT
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAATCCACCGTA-TCTT
*
46151879 GAATGTG-AAAG
65 AAATGTGAAAAG
* * **
46151890 GGGTTGCTAAGTGCTAATTCCCCGAGTCCCTGGTGGTTGCTAAGTGCTGAATCCACCG
1 GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAATCCACCG
46151948 ATAACGGATA
Statistics
Matches: 107, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
76 97 0.91
77 10 0.09
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.34
Consensus pattern (76 bp):
GGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAATCCACCGTATCTTA
AATGTGAAAAG
Found at i:46154081 original size:16 final size:16
Alignment explanation
Indices: 46154062--46154102 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
46154052 ATATATGTAC
*
46154062 ATATATACATACTTTT
1 ATATATACATAATTTT
*
46154078 ATAT-TTCATAATTTT
1 ATATATACATAATTTT
46154093 -TATATACATA
1 ATATATACATA
46154103 TATATATACA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 3 0.14
15 14 0.67
16 4 0.19
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATACATAATTTT
Found at i:46154274 original size:4 final size:4
Alignment explanation
Indices: 46154265--46154289 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
46154255 TTCTCATAAT
46154265 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
46154290 ATTTTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:46155732 original size:13 final size:14
Alignment explanation
Indices: 46155714--46155746 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46155704 TAATTACAAG
46155714 TATAATGT-AAATT
1 TATAATGTCAAATT
*
46155727 TATAATTTCAAATT
1 TATAATGTCAAATT
46155741 TATAAT
1 TATAAT
46155747 TCATCTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (14 bp):
TATAATGTCAAATT
Found at i:46165759 original size:29 final size:32
Alignment explanation
Indices: 46165721--46165805 Score: 104
Period size: 35 Copynumber: 2.7 Consensus size: 32
46165711 TGAAGATCCA
*
46165721 ATTCACATGTTAAGCATGCCATA-TT-TT-TG
1 ATTCGCATGTTAAGCATGCCATATTTATTCTG
*
46165750 ATTCGCATGTTAAGCATGTCATATTTTTTATTCTG
1 ATTCGCATGTTAAGCATGCCATA---TTTATTCTG
46165785 ATTCGCATGTTAAGCATGCCA
1 ATTCGCATGTTAAGCATGCCA
46165806 CTGTGATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 21 0.45
33 2 0.04
34 2 0.04
35 22 0.47
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (32 bp):
ATTCGCATGTTAAGCATGCCATATTTATTCTG
Found at i:46178536 original size:18 final size:17
Alignment explanation
Indices: 46178505--46178541 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
46178495 AAGTTTAGAG
*
46178505 AATTTTAATTTTTTGTT
1 AATTTTAATTTTTTCTT
46178522 AATTTTAATTTTTTTCTT
1 AATTTTAA-TTTTTTCTT
46178540 AA
1 AA
46178542 AAATGTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
AATTTTAATTTTTTCTT
Found at i:46179692 original size:20 final size:20
Alignment explanation
Indices: 46179663--46179705 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46179653 ATTTTATTCG
**
46179663 ATAACATATCTTATCATATC
1 ATAACATATCGGATCATATC
*
46179683 ATAACGTATCGGATCATATC
1 ATAACATATCGGATCATATC
46179703 ATA
1 ATA
46179706 TCGGATCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.35
Consensus pattern (20 bp):
ATAACATATCGGATCATATC
Found at i:46179698 original size:15 final size:15
Alignment explanation
Indices: 46179680--46179730 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
46179670 ATCTTATCAT
*
46179680 ATCATAACGTATCGG
1 ATCATAACATATCGG
*
46179695 ATCATATCATATCGG
1 ATCATAACATATCGG
*
46179710 ATCATACCATATCGG
1 ATCATAACATATCGG
46179725 ATCATA
1 ATCATA
46179731 TCATGTCACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (15 bp):
ATCATAACATATCGG
Found at i:46179702 original size:30 final size:30
Alignment explanation
Indices: 46179667--46179734 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
46179657 TATTCGATAA
* * *
46179667 CATATCTTATCATATCATAACGTATCGGAT
1 CATATCATATCAGATCATAACATATCGGAT
* *
46179697 CATATCATATCGGATCATACCATATCGGAT
1 CATATCATATCAGATCATAACATATCGGAT
46179727 CATATCAT
1 CATATCAT
46179735 GTCACATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (30 bp):
CATATCATATCAGATCATAACATATCGGAT
Found at i:46180410 original size:49 final size:49
Alignment explanation
Indices: 46180357--46180452 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
46180347 CTCACATAGT
* * *
46180357 CGTGTGCTCCAAACCGCCTACCCACAC-AGCCTACATGATTTCACACGCC
1 CGTGTGCCCCAAACAGCCTACCCACACGA-CCTACATGAATTCACACGCC
* * *
46180406 CGTGTGCCCCATATAGCCTACCCACACGACCTGCATGAATTCACACG
1 CGTGTGCCCCAAACAGCCTACCCACACGACCTACATGAATTCACACG
46180453 GCCTACAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
49 39 0.98
50 1 0.03
ACGTcount: A:0.25, C:0.41, G:0.16, T:0.19
Consensus pattern (49 bp):
CGTGTGCCCCAAACAGCCTACCCACACGACCTACATGAATTCACACGCC
Found at i:46184171 original size:48 final size:48
Alignment explanation
Indices: 46184119--46184212 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
46184109 ATTGAAAATA
46184119 AAGAAATGGAAACATTTGGAAATGAATGTGTTTTATCCAAAATGAATG
1 AAGAAATGGAAACATTTGGAAATGAATGTGTTTTATCCAAAATGAATG
* *
46184167 AAGAAATGGAAACATTTGGAAATGAATGTGTTTTCTTCAAAATGAA
1 AAGAAATGGAAACATTTGGAAATGAATGTGTTTTATCCAAAATGAA
46184213 AATGAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (48 bp):
AAGAAATGGAAACATTTGGAAATGAATGTGTTTTATCCAAAATGAATG
Found at i:46186277 original size:21 final size:21
Alignment explanation
Indices: 46186234--46186286 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
46186224 ACAAAGCCCA
46186234 GGCTGTGTGGCTCAGAGACAT
1 GGCTGTGTGGCTCAGAGACAT
* * *
46186255 GG-TCGTGTGGCTTAGGGATAT
1 GGCT-GTGTGGCTCAGAGACAT
46186276 GGCTGTGTGGC
1 GGCTGTGTGGC
46186287 CAAACTCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.43, T:0.28
Consensus pattern (21 bp):
GGCTGTGTGGCTCAGAGACAT
Found at i:46186344 original size:12 final size:12
Alignment explanation
Indices: 46186327--46186351 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46186317 AGTGGCTGTT
46186327 TGCCCGATCATG
1 TGCCCGATCATG
46186339 TGCCCGATCATG
1 TGCCCGATCATG
46186351 T
1 T
46186352 AGAATTCGTG
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:0.16, C:0.32, G:0.24, T:0.28
Consensus pattern (12 bp):
TGCCCGATCATG
Found at i:46188933 original size:35 final size:35
Alignment explanation
Indices: 46188892--46188962 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
46188882 TGTCTAGGAT
* *
46188892 AACATATCTTTGAATATCACCTTCCATATTTGCCA
1 AACATATCTTTGAAGATCACCTTCCATATTTACCA
*
46188927 AACATATCTTTGAAGATCACTTTCCATATTTACCA
1 AACATATCTTTGAAGATCACCTTCCATATTTACCA
46188962 A
1 A
46188963 GCTCCGGCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.37
Consensus pattern (35 bp):
AACATATCTTTGAAGATCACCTTCCATATTTACCA
Found at i:46194055 original size:35 final size:35
Alignment explanation
Indices: 46194016--46194086 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
46194006 TCTAGGATCA
*
46194016 CATATCTTTGAAGATCACCTTCCATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTACCAAG
*
46194051 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTACCAAG
46194086 C
1 C
46194087 TCTGAAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTACCAAG
Found at i:46206065 original size:17 final size:17
Alignment explanation
Indices: 46206043--46206085 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
46206033 AGAGTTCGCA
*
46206043 GGTGAGCTCTCAAG-CTT
1 GGTGAGCTCGC-AGTCTT
46206060 GGTGAGCTCGCAGTCTT
1 GGTGAGCTCGCAGTCTT
46206077 GGTGAGCTC
1 GGTGAGCTC
46206086 ACCATTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.14, C:0.23, G:0.35, T:0.28
Consensus pattern (17 bp):
GGTGAGCTCGCAGTCTT
Found at i:46206130 original size:17 final size:17
Alignment explanation
Indices: 46206110--46206143 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46206100 CTTGCATATT
*
46206110 TGGTGAGCTTGTAGTTC
1 TGGTGAGCTCGTAGTTC
46206127 TGGTGAGCTCGTAGTTC
1 TGGTGAGCTCGTAGTTC
46206144 GTAGTTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.35, T:0.38
Consensus pattern (17 bp):
TGGTGAGCTCGTAGTTC
Found at i:46208174 original size:19 final size:19
Alignment explanation
Indices: 46208150--46208187 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
46208140 TGTTTAGCAG
46208150 GTAAACAACAGTGTTTACT
1 GTAAACAACAGTGTTTACT
46208169 GTAAACAACAGTGTTTACT
1 GTAAACAACAGTGTTTACT
46208188 TCTTCTACCC
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:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
GTAAACAACAGTGTTTACT
Found at i:46215758 original size:9 final size:9
Alignment explanation
Indices: 46215744--46215837 Score: 120
Period size: 9 Copynumber: 10.4 Consensus size: 9
46215734 TTTGGTTAAA
46215744 AATTAACCG
1 AATTAACCG
46215753 AATTAACCG
1 AATTAACCG
*
46215762 AATTACCCG
1 AATTAACCG
*
46215771 AATTAACTG
1 AATTAACCG
46215780 AATTAACC-
1 AATTAACCG
*
46215788 AGATTACCCG
1 A-ATTAACCG
*
46215798 AATTAATCG
1 AATTAACCG
46215807 AATT-ACCTG
1 AATTAACC-G
46215816 AATTAACCG
1 AATTAACCG
46215825 AATTAACCG
1 AATTAACCG
46215834 AATT
1 AATT
46215838 GAATCACTAC
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
8 3 0.04
9 66 0.90
10 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:46216692 original size:17 final size:19
Alignment explanation
Indices: 46216672--46216715 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
46216662 TAAAAAATAT
46216672 TTTTTTATAATTTT-AT-A
1 TTTTTTATAATTTTAATGA
**
46216689 TTTTAAATAATTTTAATGA
1 TTTTTTATAATTTTAATGA
46216708 TTTTTTAT
1 TTTTTTAT
46216716 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 12 0.57
18 2 0.10
19 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTTATAATTTTAATGA
Found at i:46216740 original size:28 final size:28
Alignment explanation
Indices: 46216658--46216742 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
46216648 ATTTAAAAAT
*
46216658 TTTTTAAAAAATATTTTTTT-ATAATTTTA
1 TTTTT-AAAAATATTTTTTTGA-ATTTTTA
* ** *
46216687 TATTTTAAATA-ATTTTAATGATTTTTTA
1 T-TTTTAAAAATATTTTTTTGAATTTTTA
46216715 TTTTTAAAAATATTTTTTTGAATTTTTA
1 TTTTTAAAAATATTTTTTTGAATTTTTA
46216743 AAATTTTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
27 8 0.18
28 26 0.59
29 6 0.14
30 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTTAAAAATATTTTTTTGAATTTTTA
Found at i:46217408 original size:79 final size:79
Alignment explanation
Indices: 46217320--46217525 Score: 254
Period size: 79 Copynumber: 2.6 Consensus size: 79
46217310 ATATACATCA
* * * * *
46217320 AAATTAAAATAAAATATATCTGACATGCGTATCTTGAACCGAAATCTGCTCTATCATAATAAATT
1 AAATCAAAATAAAATACATCTGACATGCGTATCTCGAATCGAAATCTGCTCCATCATAATAAATT
46217385 ATAGATATA-AGGTG
66 ATAGATATAGA-GTG
* * * * * * * *
46217399 AAATCAAAATAAAATACATGTGACATGTGCATCTCGAATTGAAATCCGCTCCGTCATAATCAGTT
1 AAATCAAAATAAAATACATCTGACATGCGTATCTCGAATCGAAATCTGCTCCATCATAATAAATT
46217464 ATAGATATAGAGTG
66 ATAGATATAGAGTG
*
46217478 AAATCAAAATAAAATACA-CGTGACATGCGTTTCTCGAATCGAAATCTG
1 AAATCAAAATAAAATACATC-TGACATGCGTATCTCGAATCGAAATCTG
46217526 TATGATGATT
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 105 0.99
80 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.29
Consensus pattern (79 bp):
AAATCAAAATAAAATACATCTGACATGCGTATCTCGAATCGAAATCTGCTCCATCATAATAAATT
ATAGATATAGAGTG
Found at i:46219885 original size:97 final size:97
Alignment explanation
Indices: 46219719--46219913 Score: 372
Period size: 97 Copynumber: 2.0 Consensus size: 97
46219709 TTATATGTAT
*
46219719 TGTTTAATGTTTCACAGTTGGCTCTCTTTGTTCTCTATACTTTCTTCCATGCTTTATCTTTCTCA
1 TGTTTAATGTTTCACAGTTGGCTCTCTTTGTTCTCTATACTTTCCTCCATGCTTTATCTTTCTCA
46219784 ACATGATGAGTAATTGAATAGCCTTGCACCCA
66 ACATGATGAGTAATTGAATAGCCTTGCACCCA
46219816 TGTTTAATGTTTCACAGTTGGCTCTCTTTGTTCTCTATACTTTCCTCCATGCTTTATCTTTCTCA
1 TGTTTAATGTTTCACAGTTGGCTCTCTTTGTTCTCTATACTTTCCTCCATGCTTTATCTTTCTCA
*
46219881 ACATGATGAGTATTTGAATAGCCTTGCACCCA
66 ACATGATGAGTAATTGAATAGCCTTGCACCCA
46219913 T
1 T
46219914 ATACATGTGT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (97 bp):
TGTTTAATGTTTCACAGTTGGCTCTCTTTGTTCTCTATACTTTCCTCCATGCTTTATCTTTCTCA
ACATGATGAGTAATTGAATAGCCTTGCACCCA
Found at i:46222493 original size:23 final size:23
Alignment explanation
Indices: 46222467--46222510 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
46222457 ATTGTATATT
* *
46222467 ATACAAAGTAAATATAACAATTA
1 ATACAAAGTAAAAACAACAATTA
*
46222490 ATACCAAGTAAAAACAACAAT
1 ATACAAAGTAAAAACAACAAT
46222511 ATATTGTAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.14, G:0.05, T:0.20
Consensus pattern (23 bp):
ATACAAAGTAAAAACAACAATTA
Found at i:46223816 original size:3 final size:3
Alignment explanation
Indices: 46223808--46223837 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
46223798 ATATGTATAG
*
46223808 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46223838 ATATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46225657 original size:44 final size:44
Alignment explanation
Indices: 46225609--46225749 Score: 248
Period size: 44 Copynumber: 3.2 Consensus size: 44
46225599 ATATGTTGTG
46225609 TTTGATCTACTTCACGCC-GATACATGAAGACAAGATCTGCTTTC
1 TTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTC
*
46225653 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTC
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTC
46225697 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTC
1 TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTC
*
46225741 TTCGATCTA
1 TTTGATCTA
46225750 TTCCACCACC
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
44 92 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (44 bp):
TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTC
Found at i:46225935 original size:50 final size:50
Alignment explanation
Indices: 46225873--46226035 Score: 155
Period size: 50 Copynumber: 3.3 Consensus size: 50
46225863 GATCTGTTAT
* **
46225873 CTTCAATTTGTTCAACTGCAATGTTGGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* * ** * *** * * *
46225923 CTTCAATCTGTTCCACCGCACCGTCAAGGAAGTAAGATCCGTCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
* * * * *
46225973 CTTCAATCTTTTTAATTGTAATATCAGGGAAACCAGATCCGCCGTCGTAG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
46226023 CTTCAATCTGTTC
1 CTTCAATCTGTTC
46226036 TGCTGCATTG
Statistics
Matches: 81, Mismatches: 32, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAG
Found at i:46226013 original size:100 final size:100
Alignment explanation
Indices: 46225899--46226086 Score: 315
Period size: 100 Copynumber: 1.9 Consensus size: 100
46225889 TGCAATGTTG
46225899 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAAGGAAGTAAGATCC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGCT-AAGGAAGTAAGATCC
46225963 GTCGTTGTGGCTTCAATCTTTTTAATTGTAATATCA
65 GTCGTTGTGGCTTCAATCTTTTTAATTGTAATATCA
** * **
46225999 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCTGCTGCATTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGCTAAGGAAGTAAGATCCG
46226064 TCGTTGTGGCTTCAATCTTTTTA
66 TCGTTGTGGCTTCAATCTTTTTA
46226087 CTTTTCAACC
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 81 0.99
101 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (100 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGCTAAGGAAGTAAGATCCG
TCGTTGTGGCTTCAATCTTTTTAATTGTAATATCA
Found at i:46238176 original size:3 final size:3
Alignment explanation
Indices: 46238168--46238200 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
46238158 ATATGTATAG
*
46238168 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46238201 ATATTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46244020 original size:50 final size:50
Alignment explanation
Indices: 46243952--46244061 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 50
46243942 CTCTATTCAA
* *
46243952 TGGG-ACAAGTGAGAGGAAATAAGGGGAACGTTAACTTTATGCTTCACTG
1 TGGGAACATGTGAGAGGAAATAAGGAGAACGTTAACTTTATGCTTCACTG
* ** *
46244001 TGGGAACATGTGAGGGGAAATAAGGAGAGTGTTAACTTTATGCTTCACTT
1 TGGGAACATGTGAGAGGAAATAAGGAGAACGTTAACTTTATGCTTCACTG
*
46244051 TTGGAACATGT
1 TGGGAACATGT
46244062 TTGACTCTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 4 0.08
50 49 0.92
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (50 bp):
TGGGAACATGTGAGAGGAAATAAGGAGAACGTTAACTTTATGCTTCACTG
Found at i:46244286 original size:39 final size:39
Alignment explanation
Indices: 46244242--46244420 Score: 225
Period size: 39 Copynumber: 4.6 Consensus size: 39
46244232 AATATGTTTT
* *
46244242 TGAGTATTGTGACATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * * *
46244281 TGAGTATTGCGAAAAATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
** *
46244320 TGAGTATTGTGATATATGCTTAAACATTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
46244359 TGA-TATTGTTATATATGCTTAAAGGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
46244397 TGTGTAATGTGATACATGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
46244421 AGTGAATATG
Statistics
Matches: 121, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 33 0.27
39 88 0.73
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.42
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:46244409 original size:77 final size:78
Alignment explanation
Indices: 46244242--46244420 Score: 216
Period size: 77 Copynumber: 2.3 Consensus size: 78
46244232 AATATGTTTT
* * * ** * * *
46244242 TGAGTATTGTGACATATGCTTGAATGTTATGTGATTATATGAGTATTGCGAAAAATGCTTGAATG
1 TGAGTAATGTGATATATGCTTAAACATTATGTAATTATATGAGTATTGCGAAAAATGCTTAAAGG
46244307 TTATGTGATTATA
66 TTATGTGATTATA
* ** * *
46244320 TGAGTATTGTGATATATGCTTAAACATTATGTAATTATATGA-TATTGTTATATATGCTTAAAGG
1 TGAGTAATGTGATATATGCTTAAACATTATGTAATTATATGAGTATTGCGAAAAATGCTTAAAGG
46244384 TTATGTGATTATA
66 TTATGTGATTATA
* *
46244397 TGTGTAATGTGATACATGCTTAAA
1 TGAGTAATGTGATATATGCTTAAA
46244421 AGTGAATATG
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
77 50 0.57
78 37 0.43
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.42
Consensus pattern (78 bp):
TGAGTAATGTGATATATGCTTAAACATTATGTAATTATATGAGTATTGCGAAAAATGCTTAAAGG
TTATGTGATTATA
Found at i:46249195 original size:42 final size:40
Alignment explanation
Indices: 46249148--46249234 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 40
46249138 TATTCTACTT
46249148 TTGGTCCATCTATCTCAACTCATAAAGTATTTTAGGGTCTGC
1 TTGGTCCATCTATCTCAACTCATAAAGTA-TTT-GGGTCTGC
*
46249190 TTGGTCCATCTATCTCAACTCATTAAGTATTTGGGTCTGC
1 TTGGTCCATCTATCTCAACTCATAAAGTATTTGGGTCTGC
46249230 TTGGT
1 TTGGT
46249235 TTGAAGGAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 13 0.30
41 3 0.07
42 28 0.64
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (40 bp):
TTGGTCCATCTATCTCAACTCATAAAGTATTTGGGTCTGC
Found at i:46249823 original size:26 final size:26
Alignment explanation
Indices: 46249780--46249852 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
46249770 ATTTTTTTAA
* *
46249780 TTTTCAAAAAATAGAAAA-TGAAAATTG
1 TTTTCTAAAAAT-GAAAACAGAAAA-TG
**
46249807 TTTTCTAAAAATGAAAACAGTGAATG
1 TTTTCTAAAAATGAAAACAGAAAATG
46249833 TTTTCTAAAAATGAAAACAG
1 TTTTCTAAAAATGAAAACAG
46249853 TGAATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
26 27 0.66
27 14 0.34
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (26 bp):
TTTTCTAAAAATGAAAACAGAAAATG
Found at i:46249853 original size:26 final size:26
Alignment explanation
Indices: 46249805--46249864 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
46249795 AAATGAAAAT
46249805 TGTTTTCTAAAAATGAAAACAGTGAA
1 TGTTTTCTAAAAATGAAAACAGTGAA
46249831 TGTTTTCTAAAAATGAAAACAGTGAA
1 TGTTTTCTAAAAATGAAAACAGTGAA
*
46249857 TATTTTCT
1 TGTTTTCT
46249865 GAAACCAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (26 bp):
TGTTTTCTAAAAATGAAAACAGTGAA
Found at i:46253100 original size:15 final size:15
Alignment explanation
Indices: 46253080--46253109 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46253070 ACTGATATAC
46253080 GAAAAAGGAAAAAAA
1 GAAAAAGGAAAAAAA
46253095 GAAAAAGGAAAAAAA
1 GAAAAAGGAAAAAAA
46253110 AATTTGGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
GAAAAAGGAAAAAAA
Found at i:46253231 original size:105 final size:106
Alignment explanation
Indices: 46253103--46253535 Score: 438
Period size: 89 Copynumber: 4.3 Consensus size: 106
46253093 AAGAAAAAGG
*
46253103 AAAAAAAAATTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTATT
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTATT
* * *
46253168 TTTTCGTGTCAGAATCAAATATCAGTATACGAAAAAAGTAA
66 TTTTCATGTCAGAATCAGATATCAATATACGAAAAAAGTAA
46253209 AAAAAAAAATTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAA---A--
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTATT
*
46253268 --TTCATGTCATAATCAGATATCAATATACGAAAAAAGT--
66 TTTTCATGTCAGAATCAGATATCAATATACGAAAAAAGTAA
* ** * *** *
46253305 AAAAAAAAATTTTGGTGCTGG-CT-TACAAT-----------TTTA-AA--AAAAAATTCTTTTT
1 AAAAAAAAATTTGGGTGCTGGCCTGT-CAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTAT
* * *
46253354 TTTTTCATGTTAGAATCAGATATCAGA-ATATGAAAAAA--AT
65 TTTTTCATGTCAGAATCAGATATCA-ATATACGAAAAAAGTAA
* *
46253394 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAATACAATTTAAAAAAAAATTCTT
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTT-AAAAAAAA-T-TT
* *
46253459 TTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAAAAGTAA
63 ATTTTTTCATGTCAGAATCAGATATCAATATACGAAAAAAGTAA
46253503 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGC
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGC
46253536 TAGCACCACC
Statistics
Matches: 267, Mismatches: 26, Indels: 65
0.75 0.07 0.18
Matches are distributed among these distances:
82 5 0.02
84 2 0.01
85 2 0.01
89 50 0.19
90 7 0.03
91 1 0.00
95 1 0.00
96 18 0.07
97 8 0.03
98 33 0.12
101 2 0.01
102 3 0.01
105 50 0.19
106 14 0.05
107 37 0.14
109 34 0.13
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.29
Consensus pattern (106 bp):
AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTATT
TTTTCATGTCAGAATCAGATATCAATATACGAAAAAAGTAA
Found at i:46253477 original size:107 final size:110
Alignment explanation
Indices: 46253328--46253535 Score: 334
Period size: 109 Copynumber: 1.9 Consensus size: 110
46253318 GGTGCTGGCT
* *
46253328 TACAATTTTAAAAAAAAATTCTTTTTTTTTTCATGTTAGAATCAGATATCAGA-ATATGAAAAAA
1 TACAATTTTAAAAAAAAATTCTTTTTTTTTTCATGTCAGAATCAGATATCA-ATATACGAAAAAA
*
46253392 -ATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAA
65 GAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAA
*
46253437 TACAA-TTTAAAAAAAAATTC-TTTTTTTTTCGTGTCAGAATCAGATATCAATATACGAAAAAAG
1 TACAATTTTAAAAAAAAATTCTTTTTTTTTTCATGTCAGAATCAGATATCAATATACGAAAAAAG
46253500 TAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGC
66 -AAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGC
46253536 TAGCACCACC
Statistics
Matches: 92, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
106 1 0.01
107 37 0.40
108 15 0.16
109 39 0.42
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (110 bp):
TACAATTTTAAAAAAAAATTCTTTTTTTTTTCATGTCAGAATCAGATATCAATATACGAAAAAAG
AAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAA
Found at i:46253866 original size:109 final size:108
Alignment explanation
Indices: 46253744--46254116 Score: 481
Period size: 109 Copynumber: 3.4 Consensus size: 108
46253734 ATTACAAGGT
* *
46253744 GGTGCCCGCCATTGACAAGCCAGCA-CC-AAATTTTTTTTTTCTTTTTTCGTATACTGATATCTG
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCTTTTTTCGTATACTGATATCTG
46253807 ATTCTGACGCGAAAAAAAAAAGAAAATTTTTTTTAAAATTGTACTG
66 ATTCTGAC-CG--AAAAAAAAGAAAATTTTTTTTAAAATTGTACTG
* * * *
46253853 GATGCTGGCCATTGACAGGCTAGCACCCAAAATTTTTTTTTAT-TTTTTTCGTATACTAATATCT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT-TCTTTTTTCGTATACTGATATCT
* *
46253917 GATTCTGACACGAAAAAAAAG--AATTTTTTTTTAATTTGTACTG
65 GATTCTGAC-CGAAAAAAAAGAAAATTTTTTTTAAAATTGTACTG
*
46253960 GGTGCCAGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTTACTTTTTTCGTATACTGATAT
1 GGTGCCGGCCATTGACAGGCCAGCACCC-AAAA-TTTTTTTTTT-CTTTTTTCGTATACTGATAT
* * * **
46254025 CTGATTTTGA-C-ACAAAAAATAATTTTTTTTTTAAAATTGTACTG
63 CTGATTCTGACCGAAAAAAAAGAAAATTTTTTTTAAAATTGTACTG
* *
46254069 GGTGCCGGCCATTGACAGGCTAGCACCCAAAATTTTTTTTTCCTTTTT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCTTTTT
46254117 CTTTTTTTTC
Statistics
Matches: 231, Mismatches: 24, Indels: 21
0.84 0.09 0.08
Matches are distributed among these distances:
106 6 0.03
107 60 0.26
108 10 0.04
109 82 0.35
110 29 0.13
111 43 0.19
112 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (108 bp):
GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCTTTTTTCGTATACTGATATCTG
ATTCTGACCGAAAAAAAAGAAAATTTTTTTTAAAATTGTACTG
Found at i:46254123 original size:16 final size:16
Alignment explanation
Indices: 46254102--46254133 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
46254092 CACCCAAAAT
46254102 TTTTTTTTCCTTTTTC
1 TTTTTTTTCCTTTTTC
46254118 TTTTTTTTCCTTTTTC
1 TTTTTTTTCCTTTTTC
46254134 GTATATCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTCCTTTTTC
Found at i:46254672 original size:19 final size:17
Alignment explanation
Indices: 46254648--46254699 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
46254638 AAATAATTTA
46254648 AAAATTATAAAAATATTC
1 AAAA-TATAAAAATATTC
46254666 TAAAAT-TAAAAATAATTC
1 -AAAATATAAAAAT-ATTC
46254684 AAAAATATAAAAATAT
1 -AAAATATAAAAATAT
46254700 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 12 0.40
19 11 0.37
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATATAAAAATATTC
Found at i:46254707 original size:36 final size:37
Alignment explanation
Indices: 46254638--46254713 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 37
46254628 TCATGCCAAC
* ***
46254638 AAATAATTTAAAAATTATAAAAATATTCTAAAATTAA
1 AAATAATTCAAAAATTATAAAAATATAAAAAAATTAA
46254675 AAATAATTCAAAAA-TATAAAAATATAAAAAAATTAA
1 AAATAATTCAAAAATTATAAAAATATAAAAAAATTAA
46254711 AAA
1 AAA
46254714 GATAGCATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
36 22 0.63
37 13 0.37
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (37 bp):
AAATAATTCAAAAATTATAAAAATATAAAAAAATTAA
Found at i:46255098 original size:3 final size:3
Alignment explanation
Indices: 46255090--46255122 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
46255080 TAATTTTACT
46255090 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46255123 GTATTTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46256232 original size:106 final size:106
Alignment explanation
Indices: 46256043--46256367 Score: 499
Period size: 106 Copynumber: 3.1 Consensus size: 106
46256033 CATGTATCAA
* *
46256043 ATTGCACATTGAAACAAAGTTTATGTATAAATTTGATATTTATCTCTTTATATTTACTAGAAATT
1 ATTGCACATTGAAACAAAGTTTATGTATAAATTTGATATTTATCCCTTTATATTTATTAGAAATT
*
46256108 CTATCACACGCGTAGGTATGTGAAAATCACATATTTATAAT
66 CTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
* *
46256149 ATTGCACATTGAAACAAAGTTCATGTATGAATTTGATATTTATCCCTTTATATTTATTAGAAATT
1 ATTGCACATTGAAACAAAGTTTATGTATAAATTTGATATTTATCCCTTTATATTTATTAGAAATT
* *
46256214 CTATCACACACGTCGGTATGTGAAAATCACATATTTAGAAT
66 CTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
* * *
46256255 ATTGCACATTGAAACAAAATTTATGTATAAATTTGAGATTTATCCCTTTATATTTGTTAGAAAAT
1 ATTGCACATTGAAACAAAGTTTATGTATAAATTTGATATTTATCCCTTTATATTTATTAG-AAAT
* * * *
46256320 T-TATTACACGCGTATGTATATGAAAATCGCATATTTAGAAT
65 TCTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
46256361 ATGTGCA
1 AT-TGCA
46256368 TGCATTTAAA
Statistics
Matches: 199, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
106 190 0.95
107 9 0.05
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (106 bp):
ATTGCACATTGAAACAAAGTTTATGTATAAATTTGATATTTATCCCTTTATATTTATTAGAAATT
CTATCACACGCGTAGGTATGTGAAAATCACATATTTAGAAT
Found at i:46257658 original size:11 final size:11
Alignment explanation
Indices: 46257617--46257657 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
46257607 GTTTTTTTTC
46257617 ACTATTTTACT
1 ACTATTTTACT
*
46257628 ACCATTTTACT
1 ACTATTTTACT
*
46257639 ACTATTTTGCT
1 ACTATTTTACT
46257650 ACTATTTT
1 ACTATTTT
46257658 GTTGTTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (11 bp):
ACTATTTTACT
Found at i:46260567 original size:62 final size:62
Alignment explanation
Indices: 46260486--46260609 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
46260476 CAATCCCACC
* *
46260486 AATTTAGTCTTGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATAGCATTTCACA
1 AATTTAGTCATGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATACCATTTCACA
*
46260548 AATTTAGTCATGTAAATTAACTACCAAATTTACCATTCAAGTGACATCTATACCATTTCACA
1 AATTTAGTCATGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATACCATTTCACA
46260610 GACTACCACC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (62 bp):
AATTTAGTCATGTAAATTAACTACAAAATTTACCATTCAAGTGACATCTATACCATTTCACA
Found at i:46265152 original size:11 final size:11
Alignment explanation
Indices: 46265136--46265160 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46265126 GATGATTAAC
46265136 AAACAAAACAT
1 AAACAAAACAT
46265147 AAACAAAACAT
1 AAACAAAACAT
46265158 AAA
1 AAA
46265161 AAAGGGGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (11 bp):
AAACAAAACAT
Found at i:46266459 original size:12 final size:12
Alignment explanation
Indices: 46266442--46266466 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46266432 TTCATCATAT
46266442 TCAATTTATCAA
1 TCAATTTATCAA
46266454 TCAATTTATCAA
1 TCAATTTATCAA
46266466 T
1 T
46266467 TCTTCATGAT
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TCAATTTATCAA
Found at i:46268106 original size:71 final size:71
Alignment explanation
Indices: 46268009--46268151 Score: 214
Period size: 71 Copynumber: 2.0 Consensus size: 71
46267999 TGAACAAGGG
* ** * *
46268009 GAAATTGTTATAGCCCTACCTTAAGGATGACACGTGGCAGAACGAATGACAACCTGACAAGAGCC
1 GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCAGAACAAATGACAACCTGACAAGAGCC
*
46268074 TAGGTA
66 CAGGTA
* *
46268080 GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCGGAACAAATGACGACCTGACAAGAGCC
1 GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCAGAACAAATGACAACCTGACAAGAGCC
46268145 CAGGTA
66 CAGGTA
46268151 G
1 G
46268152 GCCCCCTTAG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (71 bp):
GAAATTGTTATACCCCTACCCCAAGGATGACACATGGCAGAACAAATGACAACCTGACAAGAGCC
CAGGTA
Found at i:46270890 original size:18 final size:19
Alignment explanation
Indices: 46270869--46270909 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
46270859 TATGTATCTA
*
46270869 TATTGTTTTAGTT-TTTTT-
1 TATTATTTTA-TTATTTTTC
46270887 TATTATTTTATTATTTTTC
1 TATTATTTTATTATTTTTC
46270906 TATT
1 TATT
46270910 TCGTTTCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 14 0.70
19 4 0.20
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (19 bp):
TATTATTTTATTATTTTTC
Found at i:46272778 original size:16 final size:17
Alignment explanation
Indices: 46272747--46272782 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
46272737 AATAAATGCT
46272747 TTAAAATTATAAAAAAA
1 TTAAAATTATAAAAAAA
46272764 TTAAAATTA-AAAAAAA
1 TTAAAATTATAAAAAAA
46272780 TTA
1 TTA
46272783 GCGTAAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAATTATAAAAAAA
Done.