Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 71 of 210
Found at i:25109632 original size:23 final size:23
Alignment explanation
Indices: 25109584--25109633 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
25109574 CTGCATATTT
* * *
25109584 ATATGTAGATACTTCTCAATTTC
1 ATATGTAGATACTTATCAAATAC
25109607 ATATGTAGATACTTATCAAATAC
1 ATATGTAGATACTTATCAAATAC
25109630 ATAT
1 ATAT
25109634 ACTGAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATGTAGATACTTATCAAATAC
Found at i:25109951 original size:42 final size:42
Alignment explanation
Indices: 25109862--25110048 Score: 263
Period size: 41 Copynumber: 4.5 Consensus size: 42
25109852 TGATTCAGTA
* * *
25109862 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGTTT
1 CACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
*
25109903 CACCGGCATTAAGCCTGCTAGACGTAAAGTTTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
* * *
25109945 CACCGGCATTAAG-CTGCTAGACGTAAAGTCTAAAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
25109986 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
* *
25110028 CACTGGCAATAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
25110049 GCGCTAAGCC
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.02
41 65 0.50
42 63 0.48
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (42 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
Found at i:25109999 original size:83 final size:83
Alignment explanation
Indices: 25109862--25110048 Score: 279
Period size: 83 Copynumber: 2.3 Consensus size: 83
25109852 TGATTCAGTA
* * *
25109862 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTTTCACCGGCATTAAGCCTGCTAGAC
1 CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTAAAATATTTCACCGGCATTAAGCCTGCTAGAC
*
25109926 GTAAAGTTTGATATTGTTT
65 GTAAAGTCTGATATTGTTT
*
25109945 CACCGGCATTAAG-CTGCTAGACGTAAAGTCTAAAATTATTTCACCGGCATTAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTAAAA-TATTTCACCGGCATTAAGCCTGCTAGAC
25110009 GTAAAGTCTGATATTGTTT
65 GTAAAGTCTGATATTGTTT
* *
25110028 CACTGGCAATAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
25110049 GCGCTAAGCC
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
82 21 0.22
83 66 0.70
84 7 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (83 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTAAAATATTTCACCGGCATTAAGCCTGCTAGACG
TAAAGTCTGATATTGTTT
Found at i:25110851 original size:4 final size:4
Alignment explanation
Indices: 25110842--25110895 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
25110832 AATACAATAG
25110842 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
25110890 ACAT AC
1 ACAT AC
25110896 TAATTTAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:25111983 original size:4 final size:4
Alignment explanation
Indices: 25111967--25111996 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
25111957 GGTTGTTACA
*
25111967 TAAC TAGC TAAC TAAC TAAC TAAC TAAC TA
1 TAAC TAAC TAAC TAAC TAAC TAAC TAAC TA
25111997 TTAGTTACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (4 bp):
TAAC
Found at i:25113165 original size:32 final size:32
Alignment explanation
Indices: 25113124--25113192 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
25113114 ATTGCAACTT
* * * *
25113124 TTCTATTCTCATTTTCATCAATTGGTTGTTTC
1 TTCTCTTCTCATCTTCATCAATTGATTGCTTC
* *
25113156 TTCTCTTCTCGTCTTCATCAGTTGATTGCTTC
1 TTCTCTTCTCATCTTCATCAATTGATTGCTTC
25113188 TTCTC
1 TTCTC
25113193 CATCTGTTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.12, C:0.25, G:0.10, T:0.54
Consensus pattern (32 bp):
TTCTCTTCTCATCTTCATCAATTGATTGCTTC
Found at i:25118332 original size:31 final size:29
Alignment explanation
Indices: 25118292--25118359 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
25118282 GATTGAATTA
* *
25118292 AAATTAAAGTTTCATGGATACATTTGAACC
1 AAATCAAAGTTT-ATGGATACAATTGAACC
* * *
25118322 ACAATCAAAGTTTATGTATATAATTGCACC
1 A-AATCAAAGTTTATGGATACAATTGAACC
25118352 AAATCAAA
1 AAATCAAA
25118360 ATTCATGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 7 0.22
30 15 0.47
31 10 0.31
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (29 bp):
AAATCAAAGTTTATGGATACAATTGAACC
Found at i:25119452 original size:16 final size:16
Alignment explanation
Indices: 25119421--25119450 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25119411 TTTAAAATAT
25119421 ATATTTATATTATTTA
1 ATATTTATATTATTTA
25119437 ATATTTA-ATTATTT
1 ATATTTATATTATTT
25119451 TATTTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATATTTATATTATTTA
Found at i:25120659 original size:12 final size:13
Alignment explanation
Indices: 25120631--25120663 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
25120621 ACCACATACC
25120631 CCCTCTTCCCTTGT
1 CCCT-TTCCCTTGT
25120645 CCCTTTCCC-TGT
1 CCCTTTCCCTTGT
25120657 CCCTTTC
1 CCCTTTC
25120664 ATCACCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 5 0.26
14 4 0.21
ACGTcount: A:0.00, C:0.52, G:0.06, T:0.42
Consensus pattern (13 bp):
CCCTTTCCCTTGT
Found at i:25122862 original size:9 final size:9
Alignment explanation
Indices: 25122848--25122896 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
25122838 GTAGTGATTC
25122848 AATTCGGTT
1 AATTCGGTT
25122857 AATTCGGTT
1 AATTCGGTT
25122866 AATTCAGG-T
1 AATTC-GGTT
*
25122875 AATTAGGTT
1 AATTCGGTT
25122884 AATTCGGTT
1 AATTCGGTT
25122893 AATT
1 AATT
25122897 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 2 0.06
9 32 0.89
10 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:25124806 original size:39 final size:39
Alignment explanation
Indices: 25124763--25124843 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
25124753 ATATAGTTTG
25124763 GTTTTGGTATAGTACTCACCTTATTGATTTTTGTGACAT
1 GTTTTGGTATAGTACTCACCTTATTGATTTTTGTGACAT
*
25124802 GTTTTGGTGTAGTACTCACCTTATTGATTTTTGTGACAT
1 GTTTTGGTATAGTACTCACCTTATTGATTTTTGTGACAT
25124841 GTT
1 GTT
25124844 ATGTTAGCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.19, C:0.12, G:0.20, T:0.49
Consensus pattern (39 bp):
GTTTTGGTATAGTACTCACCTTATTGATTTTTGTGACAT
Found at i:25125838 original size:31 final size:32
Alignment explanation
Indices: 25125781--25125840 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
25125771 CGACGGATCA
* *
25125781 ATATTTTGAAACTTTTGCAATTAAAGCATATC
1 ATATTTTGAAACGTTAGCAATTAAAGCATATC
25125813 ATATTTTGAAACGTTAGC-ATTAAAGCAT
1 ATATTTTGAAACGTTAGCAATTAAAGCAT
25125841 TTGTAAGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (32 bp):
ATATTTTGAAACGTTAGCAATTAAAGCATATC
Found at i:25127571 original size:29 final size:27
Alignment explanation
Indices: 25127539--25127606 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
25127529 ATTGGATTTG
25127539 AAATTTAAAAATTGAAAAGTAGAGAAACT-
1 AAATTTAAAAA-T-AAAAGTAGAG-AACTA
*
25127568 AAATTCCTAAAAATAAAAGTATAGAACTA
1 AAATT--TAAAAATAAAAGTAGAGAACTA
25127597 AAATTTAAAA
1 AAATTTAAAA
25127607 TTAAGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 5 0.14
28 4 0.11
29 19 0.54
30 1 0.03
31 6 0.17
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.25
Consensus pattern (27 bp):
AAATTTAAAAATAAAAGTAGAGAACTA
Found at i:25129619 original size:17 final size:18
Alignment explanation
Indices: 25129590--25129626 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
25129580 CTTTTTTATT
25129590 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
25129608 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
25129625 TT
1 TT
25129627 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:25133859 original size:32 final size:31
Alignment explanation
Indices: 25133798--25133859 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
25133788 CTTTATTTTT
*
25133798 TTTTATACACTTATATCATTTTTAGGCTTTG
1 TTTTATACACATATATCATTTTTAGGCTTTG
*
25133829 TTTTATACACATACCTAT-ATTTTTATGCTTT
1 TTTTATACACATA--TATCATTTTTAGGCTTT
25133860 ATCATTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 12 0.44
32 12 0.44
33 3 0.11
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (31 bp):
TTTTATACACATATATCATTTTTAGGCTTTG
Found at i:25134319 original size:108 final size:109
Alignment explanation
Indices: 25134166--25134472 Score: 480
Period size: 108 Copynumber: 2.9 Consensus size: 109
25134156 AAAAAAACAA
25134166 AAAAATTTATAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTATAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
25134231 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * *
25134275 AAAAATTT-TAAATAAGGTAATGTTTTGAGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTATAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
25134339 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * * * *
25134383 AAAAATTTCA-AAATATGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTTCCCTAATGTGCT
1 AAAAATTT-ATAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
25134446 GGGTTTCGA--TTTCTCGTTTAACCAAAT
65 GGGTGTCGATTTTTCTCGTTCAACCAAAT
25134473 TGCCAAATAT
Statistics
Matches: 183, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
106 17 0.09
108 128 0.70
109 38 0.21
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (109 bp):
AAAAATTTATAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:25137567 original size:26 final size:26
Alignment explanation
Indices: 25137509--25137568 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
25137499 GTATCGATAT
* *
25137509 ATGGCTCTTTGTGAGCTTCTCGATTA
1 ATGGCTCTTTGTGAGCTTCCCAATTA
**
25137535 AAAGCTCTTTGTGAGCTTCCCAATTA
1 ATGGCTCTTTGTGAGCTTCCCAATTA
25137561 ATGGCTCT
1 ATGGCTCT
25137569 CCGGAGCTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
ATGGCTCTTTGTGAGCTTCCCAATTA
Found at i:25137671 original size:24 final size:24
Alignment explanation
Indices: 25137658--25137711 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
25137648 TACCTGCTAT
25137658 TGGCTCGCATGAGCTCCCTGAATA
1 TGGCTCGCATGAGCTCCCTGAATA
25137682 TGGCTCGCATGAGCTCCCTGAATA
1 TGGCTCGCATGAGCTCCCTGAATA
25137706 TGGCTC
1 TGGCTC
25137712 TTATAAGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.19, C:0.30, G:0.26, T:0.26
Consensus pattern (24 bp):
TGGCTCGCATGAGCTCCCTGAATA
Found at i:25137720 original size:24 final size:24
Alignment explanation
Indices: 25137658--25137720 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
25137648 TACCTGCTAT
*
25137658 TGGCTCGCATGAGCTCCCTGAATA
1 TGGCTCGCATAAGCTCCCTGAATA
*
25137682 TGGCTCGCATGAGCTCCCTGAATA
1 TGGCTCGCATAAGCTCCCTGAATA
**
25137706 TGGCTCTTATAAGCT
1 TGGCTCGCATAAGCT
25137721 TCCTATTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.29
Consensus pattern (24 bp):
TGGCTCGCATAAGCTCCCTGAATA
Found at i:25139856 original size:83 final size:83
Alignment explanation
Indices: 25139717--25139882 Score: 278
Period size: 83 Copynumber: 2.0 Consensus size: 83
25139707 GAAATGTCTA
* *
25139717 TTCGGAGAGTTGATTGATAGAAACGACAAGACTACCGTATATTGTGATAGTCAAAGTGCCATACA
1 TTCGGAGAGCTGATTGATAGAAACGACAAGACTACCATATATTGTGATAGTCAAAGTGCCATACA
* *
25139782 TCTTACTAAAGTACAAAG
66 TCTCACGAAAGTACAAAG
* *
25139800 TTCGGAGAGCTGATTGATAGAAATGACAAGACTACCATATATTGTGATAGTCAAAGTGTCATACA
1 TTCGGAGAGCTGATTGATAGAAACGACAAGACTACCATATATTGTGATAGTCAAAGTGCCATACA
25139865 TCTCACGAAAGTACAAAG
66 TCTCACGAAAGTACAAAG
25139883 CACTCTAGCT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (83 bp):
TTCGGAGAGCTGATTGATAGAAACGACAAGACTACCATATATTGTGATAGTCAAAGTGCCATACA
TCTCACGAAAGTACAAAG
Found at i:25141139 original size:18 final size:18
Alignment explanation
Indices: 25141116--25141156 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
25141106 TCAAGTTGCT
25141116 TGTATGATTTATATTTGA
1 TGTATGATTTATATTTGA
25141134 TGTATGATTTATATTTGA
1 TGTATGATTTATATTTGA
25141152 TGTAT
1 TGTAT
25141157 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (18 bp):
TGTATGATTTATATTTGA
Found at i:25141162 original size:18 final size:18
Alignment explanation
Indices: 25141116--25141162 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
25141106 TCAAGTTGCT
*
25141116 TGTATGATTTATATTTGA
1 TGTATCATTTATATTTGA
*
25141134 TGTATGATTTATATTTGA
1 TGTATCATTTATATTTGA
*
25141152 TGTATCTTTTA
1 TGTATCATTTA
25141163 GAAATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (18 bp):
TGTATCATTTATATTTGA
Found at i:25141386 original size:30 final size:31
Alignment explanation
Indices: 25141339--25141396 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
25141329 ATCTTTATGG
25141339 TTTTTAAAAAGACTAAATTAAAATTTTAATA
1 TTTTTAAAAAGACTAAATTAAAATTTTAATA
* *
25141370 TTTTT-AAAAGATTAAATTATAATTTTA
1 TTTTTAAAAAGACTAAATTAAAATTTTA
25141397 CCATATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (31 bp):
TTTTTAAAAAGACTAAATTAAAATTTTAATA
Found at i:25141561 original size:20 final size:20
Alignment explanation
Indices: 25141536--25141575 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25141526 CGTAAAATCA
*
25141536 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
25141556 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
25141576 GAAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:25141565 original size:34 final size:34
Alignment explanation
Indices: 25141521--25141586 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
25141511 CAGTAAAATA
*
25141521 TTTTCCGTAAAATCATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATCATTTACT-GAAAATATTTTAC
* *
25141555 TTTTCTGTAAAATGATTTACTGAAAATATTTT
1 TTTTCCGTAAAATCATTTACTGAAAATATTTT
25141587 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (34 bp):
TTTTCCGTAAAATCATTTACTGAAAATATTTTAC
Found at i:25141651 original size:32 final size:32
Alignment explanation
Indices: 25141566--25141652 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
25141556 TTTCTGTAAA
* **
25141566 ATGATTTACTGAAAATATTTTCTGGTGTTTGG
1 ATGATTTTCTGAAAATATTTTCTACTGTTTGG
* * *
25141598 ATGAATCTGTGTAAAATATTTTCTACTGTTTGG
1 ATGATTTTCTG-AAAATATTTTCTACTGTTTGG
25141631 CA-GATTTTCTGAAAATATTTTC
1 -ATGATTTTCTGAAAATATTTTC
25141653 CTGAAAAGTT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
32 18 0.41
33 25 0.57
34 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (32 bp):
ATGATTTTCTGAAAATATTTTCTACTGTTTGG
Found at i:25141697 original size:20 final size:18
Alignment explanation
Indices: 25141674--25141717 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
25141664 TTTTTACATA
25141674 TATATATT-AATAAATTTT
1 TATATATTAAAT-AATTTT
*
25141692 TATATATTAAATTATTTT
1 TATATATTAAATAATTTT
25141710 TATATATT
1 TATATATT
25141718 GTTTTTACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATATTAAATAATTTT
Found at i:25141711 original size:42 final size:42
Alignment explanation
Indices: 25141664--25141803 Score: 124
Period size: 42 Copynumber: 3.3 Consensus size: 42
25141654 TGAAAAGTTG
25141664 TTTTTACATATATATATTAATAAATTTTTATATATTAAATTA
1 TTTTTACATATATATATTAATAAATTTTTATATATTAAATTA
* * * * ** *** *
25141706 TTTTTATATAT-TGTTTTTACATATA-TTGCA-ATGATTTTGTTG
1 TTTTTACATATAT-ATATTA-ATAAATTTTTATAT-ATTAAATTA
*
25141748 TTTTTACATAATATATATTAATAAATTTTTATATTTTAAATTA
1 TTTTTACAT-ATATATATTAATAAATTTTTATATATTAAATTA
25141791 TTTTTACATATAT
1 TTTTTACATATAT
25141804 TGCAATGATT
Statistics
Matches: 70, Mismatches: 21, Indels: 14
0.67 0.20 0.13
Matches are distributed among these distances:
41 3 0.04
42 38 0.54
43 26 0.37
44 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (42 bp):
TTTTTACATATATATATTAATAAATTTTTATATATTAAATTA
Found at i:25141936 original size:34 final size:32
Alignment explanation
Indices: 25141888--25141950 Score: 108
Period size: 34 Copynumber: 1.9 Consensus size: 32
25141878 TGAAAACAAC
25141888 TAATATCAATATTTGTAATTGTGTTAAAATAA
1 TAATATCAATATTTGTAATTGTGTTAAAATAA
25141920 TAATACTCAATTATTTGTAATTGTGTTAAAA
1 TAATA-TCAA-TATTTGTAATTGTGTTAAAA
25141951 ACAATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 5 0.17
33 4 0.14
34 20 0.69
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (32 bp):
TAATATCAATATTTGTAATTGTGTTAAAATAA
Found at i:25143528 original size:12 final size:12
Alignment explanation
Indices: 25143511--25143536 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25143501 AAACCAGATC
25143511 AAGGGAGAACGA
1 AAGGGAGAACGA
25143523 AAGGGAGAACGA
1 AAGGGAGAACGA
25143535 AA
1 AA
25143537 CCAGATCGGT
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:0.54, C:0.08, G:0.38, T:0.00
Consensus pattern (12 bp):
AAGGGAGAACGA
Found at i:25144986 original size:7 final size:7
Alignment explanation
Indices: 25144974--25145002 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
25144964 GGGGAGGATG
25144974 ACATGAA
1 ACATGAA
25144981 ACATGAA
1 ACATGAA
25144988 ACATGAA
1 ACATGAA
25144995 ACATGAA
1 ACATGAA
25145002 A
1 A
25145003 ATCAACCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (7 bp):
ACATGAA
Found at i:25149504 original size:16 final size:18
Alignment explanation
Indices: 25149474--25149507 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
25149464 CTTAAAAGTG
25149474 TTTTTTATTCTAAAAATA
1 TTTTTTATTCTAAAAATA
25149492 TTTTTT-TTC-AAAAATA
1 TTTTTTATTCTAAAAATA
25149508 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTTATTCTAAAAATA
Found at i:25154233 original size:19 final size:19
Alignment explanation
Indices: 25154190--25154236 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
25154180 TTATATGAAG
25154190 ATATTTTATATAGTATAGT
1 ATATTTTATATAGTATAGT
*
25154209 ACTATTTTATACA-TATA-T
1 A-TATTTTATATAGTATAGT
*
25154227 ATATATTATA
1 ATATTTTATA
25154237 CTATTGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 8 0.32
18 2 0.08
19 5 0.20
20 10 0.40
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
ATATTTTATATAGTATAGT
Found at i:25157083 original size:30 final size:31
Alignment explanation
Indices: 25157020--25157083 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
25157010 ATGATTGAAT
* *
25157020 GTTTCATGTATATATTTGAATCACAATCAAA
1 GTTTAATGTATATAATTGAATCACAATCAAA
* * *
25157051 GTTTAATGTGTATAATTGATTCA-AATTAAA
1 GTTTAATGTATATAATTGAATCACAATCAAA
25157081 GTT
1 GTT
25157084 CACGTATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (31 bp):
GTTTAATGTATATAATTGAATCACAATCAAA
Found at i:25165841 original size:20 final size:20
Alignment explanation
Indices: 25165818--25165861 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25165808 AAAAAGCGTG
*
25165818 GAAAGTAAAGAAATGCAAAT
1 GAAAGTAAAGAAATGAAAAT
*
25165838 GAAAATAAAGAAATGAAAAT
1 GAAAGTAAAGAAATGAAAAT
25165858 -AAAG
1 GAAAG
25165862 AAATTATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.66, C:0.02, G:0.18, T:0.14
Consensus pattern (20 bp):
GAAAGTAAAGAAATGAAAAT
Found at i:25165853 original size:14 final size:14
Alignment explanation
Indices: 25165834--25165865 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
25165824 AAAGAAATGC
25165834 AAATGAAAATAAAG
1 AAATGAAAATAAAG
25165848 AAATGAAAATAAAG
1 AAATGAAAATAAAG
25165862 AAAT
1 AAAT
25165866 TATCAAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (14 bp):
AAATGAAAATAAAG
Found at i:25170710 original size:83 final size:84
Alignment explanation
Indices: 25170607--25170774 Score: 329
Period size: 83 Copynumber: 2.0 Consensus size: 84
25170597 CTCAATAATA
25170607 AAATATATTATATTTTAAAGAAAATAATATAGATTTAAATTTTAAAGATAATATTATTGAAAGGA
1 AAATATATTATATTTTAAAGAAAATAATATAGATTTAAATTTTAAAGATAATATTATTGAAAGGA
25170672 ATAACCATAAATGTCAGAT
66 ATAACCATAAATGTCAGAT
25170691 AAATATATTA-ATTTTAAAGAAAATAATATAGATTTAAATTTTAAAGATAATATTATTGAAAGGA
1 AAATATATTATATTTTAAAGAAAATAATATAGATTTAAATTTTAAAGATAATATTATTGAAAGGA
25170755 ATAACCATAAATGTCAGAT
66 ATAACCATAAATGTCAGAT
25170774 A
1 A
25170775 TAAACAATAC
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
83 74 0.88
84 10 0.12
ACGTcount: A:0.52, C:0.04, G:0.10, T:0.35
Consensus pattern (84 bp):
AAATATATTATATTTTAAAGAAAATAATATAGATTTAAATTTTAAAGATAATATTATTGAAAGGA
ATAACCATAAATGTCAGAT
Found at i:25175668 original size:22 final size:23
Alignment explanation
Indices: 25175615--25175670 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
25175605 TTTAATTAAA
* * *
25175615 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
25175638 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
25175660 ATTAAAATTAA
1 ATTAAAATTAA
25175671 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:25175683 original size:16 final size:16
Alignment explanation
Indices: 25175646--25175685 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
25175636 TTAATAAAAT
* *
25175646 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
25175662 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
25175678 TAAAATTA
1 TAAAATTA
25175686 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:25175791 original size:9 final size:9
Alignment explanation
Indices: 25175758--25175785 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25175748 TTTATCAAAT
25175758 TATTAATTG
1 TATTAATTG
25175767 TATTAATTG
1 TATTAATTG
25175776 TATTAATTG
1 TATTAATTG
25175785 T
1 T
25175786 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:25175795 original size:68 final size:68
Alignment explanation
Indices: 25175674--25176175 Score: 981
Period size: 68 Copynumber: 7.4 Consensus size: 68
25175664 AAATTAATTG
*
25175674 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
25175737 TGA
66 TGA
25175740 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
25175805 TGA
66 TGA
25175808 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
25175873 TGA
66 TGA
25175876 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
25175941 TGA
66 TGA
25175944 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
25176009 TGA
66 TGA
25176012 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
25176077 TGA
66 TGA
25176080 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
25176145 TGA
66 TGA
25176148 TTAGTAAATTTATCAAATTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGT
25176176 GCCGGGCCGC
Statistics
Matches: 433, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
66 26 0.06
68 407 0.94
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:25175859 original size:9 final size:9
Alignment explanation
Indices: 25175826--25175853 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25175816 TTTATCAAAT
25175826 TATTAATTG
1 TATTAATTG
25175835 TATTAATTG
1 TATTAATTG
25175844 TATTAATTG
1 TATTAATTG
25175853 T
1 T
25175854 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:25175927 original size:9 final size:9
Alignment explanation
Indices: 25175894--25175921 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25175884 TTTATCAAAT
25175894 TATTAATTG
1 TATTAATTG
25175903 TATTAATTG
1 TATTAATTG
25175912 TATTAATTG
1 TATTAATTG
25175921 T
1 T
25175922 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:25175995 original size:9 final size:9
Alignment explanation
Indices: 25175962--25175989 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25175952 TTTATCAAAT
25175962 TATTAATTG
1 TATTAATTG
25175971 TATTAATTG
1 TATTAATTG
25175980 TATTAATTG
1 TATTAATTG
25175989 T
1 T
25175990 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:25176063 original size:9 final size:9
Alignment explanation
Indices: 25176030--25176057 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25176020 TTTATCAAAT
25176030 TATTAATTG
1 TATTAATTG
25176039 TATTAATTG
1 TATTAATTG
25176048 TATTAATTG
1 TATTAATTG
25176057 T
1 T
25176058 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:25176131 original size:9 final size:9
Alignment explanation
Indices: 25176098--25176125 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
25176088 TTTATCAAAT
25176098 TATTAATTG
1 TATTAATTG
25176107 TATTAATTG
1 TATTAATTG
25176116 TATTAATTG
1 TATTAATTG
25176125 T
1 T
25176126 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:25178505 original size:35 final size:34
Alignment explanation
Indices: 25178426--25178506 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 34
25178416 ATGTGGATAC
*
25178426 ATATATATGTATATGAATTGTAAAATATACGAAAA
1 ATATATATGTATATGAATTATAAAATATAC-AAAA
*
25178461 ATATGTATGTATTTATGAATTATAAAATATA-AAAA
1 ATATATATGTA--TATGAATTATAAAATATACAAAA
*
25178496 CTATATATGTA
1 ATATATATGTA
25178507 AAAGAGGTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
35 23 0.57
37 17 0.43
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.38
Consensus pattern (34 bp):
ATATATATGTATATGAATTATAAAATATACAAAA
Found at i:25180985 original size:23 final size:23
Alignment explanation
Indices: 25180949--25180992 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
25180939 GAAAAATATT
25180949 AAATATATA-TTTTTTATTTTTA
1 AAATATATATTTTTTTATTTTTA
25180971 AAATATAATATTTTTTTATTTT
1 AAATAT-ATATTTTTTTATTTT
25180993 AAGTTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
AAATATATATTTTTTTATTTTTA
Found at i:25181201 original size:16 final size:16
Alignment explanation
Indices: 25181180--25181221 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
25181170 AATAATTTGA
*
25181180 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
25181196 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
25181212 TAGTTTTAAT
1 TAATTTTAAT
25181222 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:25181205 original size:22 final size:22
Alignment explanation
Indices: 25181195--25181256 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
25181185 TTACTAACAA
* * *
25181195 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
25181217 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
25181239 TTAATTTTAATTAAAAAT
1 TTAATTTTAATAAAAAAT
25181257 GGGCCGAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:25186811 original size:14 final size:14
Alignment explanation
Indices: 25186794--25186832 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
25186784 AAAATTTTAA
25186794 TAAATAAAAATTAT
1 TAAATAAAAATTAT
**
25186808 TAAATATTAATTAT
1 TAAATAAAAATTAT
25186822 TAAATTAAAAA
1 TAAA-TAAAAA
25186833 ATATGAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATAAAAATTAT
Found at i:25186924 original size:18 final size:19
Alignment explanation
Indices: 25186878--25186925 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
25186868 AATAGACTTA
25186878 AAATATTCTATA-AAATTG
1 AAATATTCTATATAAATTG
* *
25186896 AGAGATT-TATATAAATT-
1 AAATATTCTATATAAATTG
25186913 AAATATTCTATAT
1 AAATATTCTATAT
25186926 TTTTCGTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (19 bp):
AAATATTCTATATAAATTG
Found at i:25187737 original size:76 final size:77
Alignment explanation
Indices: 25187610--25187762 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 77
25187600 TATAAGTATT
25187610 TATCCAGTCTAATCTAGAGATAAAATTGCGTGGGCTTTTCAACTTCAAACATTAGAAGGAAAAAG
1 TATCCAGTCTAATCTAGAGATAAAATTGCGTGGGCTTTTCAACTTCAAACATTAGAAGGAAAAAG
25187675 AAACATTAAAAA
66 AAACATTAAAAA
25187687 TATCCAGTCT-ATCTAGAGATAAAATTGCGTGGGCTTTTCAACTTCAAACATTAGAAGGAAAAAG
1 TATCCAGTCTAATCTAGAGATAAAATTGCGTGGGCTTTTCAACTTCAAACATTAGAAGGAAAAAG
25187751 AAACATTAAAAA
66 AAACATTAAAAA
25187763 AGCAGAAAGG
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 66 0.87
77 10 0.13
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (77 bp):
TATCCAGTCTAATCTAGAGATAAAATTGCGTGGGCTTTTCAACTTCAAACATTAGAAGGAAAAAG
AAACATTAAAAA
Found at i:25196814 original size:5 final size:5
Alignment explanation
Indices: 25196804--25196860 Score: 73
Period size: 5 Copynumber: 11.2 Consensus size: 5
25196794 GATTATGTTT
25196804 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATTA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTA-TA TTATA
25196854 TATATA T
1 T-TATA T
25196861 GACAAAGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 28 0.60
6 15 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:25196926 original size:40 final size:41
Alignment explanation
Indices: 25196870--25196949 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 41
25196860 TGACAAAGAA
25196870 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
1 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
*
25196911 AGAAAG-AAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
25196950 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 32 0.84
41 6 0.16
ACGTcount: A:0.62, C:0.10, G:0.28, T:0.00
Consensus pattern (41 bp):
AGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGG
Found at i:25200598 original size:29 final size:29
Alignment explanation
Indices: 25200498--25200601 Score: 86
Period size: 29 Copynumber: 3.5 Consensus size: 29
25200488 TTTTCTTTTT
*
25200498 TGGTCACTCAATTATGAAAAGTTACAAAA
1 TGGTCACTCAACTATGAAAAGTTACAAAA
* * * ****
25200527 TGGTCACCCAACTATAATTAAACTT-CTTTTT
1 TGGTCACTCAACTATGA--AAAGTTAC-AAAA
25200558 TGGTCAAC-CAACTATGAAAAGTTACAAAA
1 TGGTC-ACTCAACTATGAAAAGTTACAAAA
25200587 TGGTCACTCAACTAT
1 TGGTCACTCAACTAT
25200602 TCAATTTTGT
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
28 2 0.04
29 31 0.56
30 2 0.04
31 18 0.33
32 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (29 bp):
TGGTCACTCAACTATGAAAAGTTACAAAA
Found at i:25200615 original size:60 final size:57
Alignment explanation
Indices: 25200487--25200619 Score: 169
Period size: 60 Copynumber: 2.2 Consensus size: 57
25200477 CCAATTATTT
*
25200487 TTTTTCTTTTTTGGTCACTCAATTATGAAAAGTTACAAAATGGTCACCCAACTATAA
1 TTTTTCTTTTTTGGTCACTCAACTATGAAAAGTTACAAAATGGTCACCCAACTATAA
* *
25200544 TTAAACTTCTTTTTTGGTCAAC-CAACTATGAAAAGTTACAAAATGGTCACTCAACTATTCAA
1 TT---TTTCTTTTTTGGTC-ACTCAACTATGAAAAGTTACAAAATGGTCACCCAACTA-T-AA
25200606 TTTTGTCTTTTTTG
1 TTTT-TCTTTTTTG
25200620 TAATGTCTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
57 2 0.03
59 1 0.02
60 55 0.85
61 3 0.05
62 4 0.06
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.41
Consensus pattern (57 bp):
TTTTTCTTTTTTGGTCACTCAACTATGAAAAGTTACAAAATGGTCACCCAACTATAA
Found at i:25205088 original size:18 final size:18
Alignment explanation
Indices: 25205061--25205095 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25205051 ATAAATAAAC
*
25205061 ATAATAACTTACAATATT
1 ATAATAACTTAAAATATT
*
25205079 ATAATCACTTAAAATAT
1 ATAATAACTTAAAATAT
25205096 ATCATCTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATAACTTAAAATATT
Found at i:25206918 original size:25 final size:25
Alignment explanation
Indices: 25206840--25207090 Score: 122
Period size: 25 Copynumber: 10.2 Consensus size: 25
25206830 ACACACCATA
* *
25206840 GCTCTTATGAGCGTCCCAATACT-TG
1 GCTCTTATGAGCTTCCCGATA-TATG
* * * * * *
25206865 GCTCTCACGAGCTTTCCGTTATTTA
1 GCTCTTATGAGCTTCCCGATATATG
*
25206890 GCTCTTATGAGCATCCCGATATATG
1 GCTCTTATGAGCTTCCCGATATATG
**
25206915 GCTCACATGAGCTTCCCGAT-TAATG
1 GCTCTTATGAGCTTCCCGATAT-ATG
*
25206940 GCTCTT-CGAAGCTTCCCGATAT-TG
1 GCTCTTATG-AGCTTCCCGATATATG
* ** * * *
25206964 ACTCGCATAAGCTTCTCGA-ATTTG
1 GCTCTTATGAGCTTCCCGATATATG
* * * *
25206988 GTTCCCT-TGAGCTGCCCG-TTTATG
1 GCT-CTTATGAGCTTCCCGATATATG
*
25207012 GCTCGTATGAGCTTCCCGATA-ATTG
1 GCTCTTATGAGCTTCCCGATATA-TG
** * * *
25207037 GCTCGCAAGAGCTTCCCGTTACATG
1 GCTCTTATGAGCTTCCCGATATATG
** *
25207062 GCTCACATGAGCTTCCCGTTATATG
1 GCTCTTATGAGCTTCCCGATATATG
25207087 GCTC
1 GCTC
25207091 GAAAGAGCTT
Statistics
Matches: 169, Mismatches: 45, Indels: 24
0.71 0.19 0.10
Matches are distributed among these distances:
23 4 0.02
24 44 0.26
25 119 0.70
26 2 0.01
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (25 bp):
GCTCTTATGAGCTTCCCGATATATG
Found at i:25206944 original size:50 final size:50
Alignment explanation
Indices: 25206840--25207090 Score: 153
Period size: 50 Copynumber: 5.1 Consensus size: 50
25206830 ACACACCATA
* * * * * * *
25206840 GCTCTTATGAGCGTCCCAATACT-TGGCTCTCACGAGCTTTCCG-TTATTTA
1 GCTCTTATGAGCTTCCCGATA-TATGGCTCACATGAGCTTCCCGATTA-ATG
*
25206890 GCTCTTATGAGCATCCCGATATATGGCTCACATGAGCTTCCCGATTAATG
1 GCTCTTATGAGCTTCCCGATATATGGCTCACATGAGCTTCCCGATTAATG
* * * * *
25206940 GCTCTT-CGAAGCTTCCCGATAT-TGACTCGCATAAGCTTCTCGAATT--TG
1 GCTCTTATG-AGCTTCCCGATATATGGCTCACATGAGCTTCCCG-ATTAATG
* * * * **
25206988 GTTCCCT-TGAGCTGCCCG-TTTATGGCTCGTATGAGCTTCCCGA-TAATTG
1 GCT-CTTATGAGCTTCCCGATATATGGCTCACATGAGCTTCCCGATTAA-TG
** * * *
25207037 GCTCGCAAGAGCTTCCCGTTACATGGCTCACATGAGCTTCCCG-TTATATG
1 GCTCTTATGAGCTTCCCGATATATGGCTCACATGAGCTTCCCGATTA-ATG
25207087 GCTC
1 GCTC
25207091 GAAAGAGCTT
Statistics
Matches: 157, Mismatches: 31, Indels: 26
0.73 0.14 0.12
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 29 0.18
49 34 0.22
50 86 0.55
51 4 0.03
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (50 bp):
GCTCTTATGAGCTTCCCGATATATGGCTCACATGAGCTTCCCGATTAATG
Found at i:25207091 original size:50 final size:50
Alignment explanation
Indices: 25206996--25207112 Score: 139
Period size: 50 Copynumber: 2.3 Consensus size: 50
25206986 TGGTTCCCTT
* * ** *
25206996 GAGCTGCCCGTT-TATGGCTCGTATGAGCTTCCCGATAATTGGCTCGCAA
1 GAGCTTCCCGTTACATGGCTCACATGAGCTTCCCGATAATTGGCTCGAAA
*
25207045 GAGCTTCCCGTTACATGGCTCACATGAGCTTCCCG-TTATATGGCTCGAAA
1 GAGCTTCCCGTTACATGGCTCACATGAGCTTCCCGATAAT-TGGCTCGAAA
*
25207095 GAGCTTCCTGATTACATG
1 GAGCTTCCCG-TTACATG
25207113 CTCGCACGGG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 14 0.24
50 37 0.64
51 7 0.12
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (50 bp):
GAGCTTCCCGTTACATGGCTCACATGAGCTTCCCGATAATTGGCTCGAAA
Found at i:25207098 original size:25 final size:25
Alignment explanation
Indices: 25206996--25207102 Score: 112
Period size: 25 Copynumber: 4.3 Consensus size: 25
25206986 TGGTTCCCTT
* * *
25206996 GAGCTGCCCGTT-TATGGCTCGTAT
1 GAGCTTCCCGTTATATGGCTCGAAA
* *
25207020 GAGCTTCCCGATA-ATTGGCTCGCAA
1 GAGCTTCCCGTTATA-TGGCTCGAAA
* *
25207045 GAGCTTCCCGTTACATGGCTC-ACAT
1 GAGCTTCCCGTTATATGGCTCGA-AA
25207070 GAGCTTCCCGTTATATGGCTCGAAA
1 GAGCTTCCCGTTATATGGCTCGAAA
25207095 GAGCTTCC
1 GAGCTTCC
25207103 TGATTACATG
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
24 11 0.16
25 56 0.81
26 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCGAAA
Found at i:25207115 original size:25 final size:25
Alignment explanation
Indices: 25206996--25207116 Score: 106
Period size: 25 Copynumber: 4.9 Consensus size: 25
25206986 TGGTTCCCTT
* * * *
25206996 GAGCTGCCCGTT-TATGGCTCGTAT
1 GAGCTTCCCGTTACATGGCTCGAAA
* *
25207020 GAGCTTCCCGATA-ATTGGCTCGCAA
1 GAGCTTCCCGTTACA-TGGCTCGAAA
*
25207045 GAGCTTCCCGTTACATGGCTC-ACAT
1 GAGCTTCCCGTTACATGGCTCGA-AA
*
25207070 GAGCTTCCCGTTATATGGCTCGAAA
1 GAGCTTCCCGTTACATGGCTCGAAA
*
25207095 GAGCTTCCTGATTACAT-GCTCG
1 GAGCTTCCCG-TTACATGGCTCG
25207117 CACGGGCATA
Statistics
Matches: 80, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
24 11 0.14
25 62 0.77
26 7 0.09
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCGAAA
Found at i:25208527 original size:105 final size:101
Alignment explanation
Indices: 25208434--25208631 Score: 272
Period size: 105 Copynumber: 1.9 Consensus size: 101
25208424 TACATTTGTA
* * *
25208434 GTGCCATAACCTAGTTATGGTCTTATCATTAGAATGT-CATAGCCCAGCTATGGTCTTACACATG
1 GTGCCATAACCCAGTTATGGTCTTATCATTAAAAT-TCCATAGCCCAGCTATAGTCTT--ACAT-
* *
25208498 TATATATACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
62 T-TAAACACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
* * *
25208539 GTGTCATAACCCAGTTATGGTCTTTTCATTAAAATTCCATAGCTCAGCTATAGTCTTACATTTAA
1 GTGCCATAACCCAGTTATGGTCTTATCATTAAAATTCCATAGCCCAGCTATAGTCTTACATTTAA
25208604 ACACTGCCATGGTCCAACCATGGTCTTA
66 ACACTGCCATGGTCCAACCATGGTCTTA
25208632 TCCGTCAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
101 29 0.35
102 1 0.01
103 4 0.05
104 1 0.01
105 49 0.58
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (101 bp):
GTGCCATAACCCAGTTATGGTCTTATCATTAAAATTCCATAGCCCAGCTATAGTCTTACATTTAA
ACACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
Found at i:25221911 original size:21 final size:21
Alignment explanation
Indices: 25221886--25221941 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
25221876 CACCGATGTT
*
25221886 TCTAACCTCACCGCTACAA-TA
1 TCTAATCTCACCGCTA-AAGTA
*
25221907 TCTAATCTCACCACTAAAGTA
1 TCTAATCTCACCGCTAAAGTA
*
25221928 ACTAATCTCACCGC
1 TCTAATCTCACCGC
25221942 CACTGTTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.34, C:0.36, G:0.05, T:0.25
Consensus pattern (21 bp):
TCTAATCTCACCGCTAAAGTA
Found at i:25224561 original size:13 final size:13
Alignment explanation
Indices: 25224545--25224597 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
25224535 TTTAAACCAA
25224545 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
25224558 ACTTCTCAAAATC
1 ACTTTTCAAAAGC
* *
25224571 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
25224584 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
25224597 A
1 A
25224598 ATGAAGAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:25225641 original size:12 final size:12
Alignment explanation
Indices: 25225620--25225649 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25225610 TGTGCCTTCT
*
25225620 TGTAATAGTTTA
1 TGTAACAGTTTA
25225632 TGTAACAGTTTA
1 TGTAACAGTTTA
25225644 TGTAAC
1 TGTAAC
25225650 GACCCGATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (12 bp):
TGTAACAGTTTA
Found at i:25233737 original size:20 final size:21
Alignment explanation
Indices: 25233700--25233741 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
25233690 AGAGTTGATT
25233700 TAATGAAAATGTAAAATTAAC
1 TAATGAAAATGTAAAATTAAC
* *
25233721 TAAT-AAAATTTACAATTAAC
1 TAATGAAAATGTAAAATTAAC
25233741 T
1 T
25233742 TTCATCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (21 bp):
TAATGAAAATGTAAAATTAAC
Found at i:25241127 original size:3 final size:3
Alignment explanation
Indices: 25241119--25241147 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25241109 AGAAGGATGA
25241119 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
25241148 GCTTTTGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:25241319 original size:3 final size:3
Alignment explanation
Indices: 25241311--25241335 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25241301 TTTGTTTGTG
25241311 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
25241336 CGTGTACTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:25242436 original size:9 final size:9
Alignment explanation
Indices: 25242422--25242450 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25242412 TTATAAAAAA
25242422 TTTTATTTT
1 TTTTATTTT
25242431 TTTTA-TTT
1 TTTTATTTT
25242439 TTTTATTTT
1 TTTTATTTT
25242448 TTT
1 TTT
25242451 AGCTCTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTATTTT
Found at i:25242439 original size:8 final size:8
Alignment explanation
Indices: 25242422--25242451 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
25242412 TTATAAAAAA
25242422 TTTTATTTT
1 TTTTA-TTT
25242431 TTTTATTT
1 TTTTATTT
25242439 TTTTATTT
1 TTTTATTT
25242447 TTTTA
1 TTTTA
25242452 GCTCTTAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTATTT
Found at i:25242639 original size:12 final size:12
Alignment explanation
Indices: 25242620--25242648 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
25242610 AAATAAATAT
25242620 TATTAAAAATTA
1 TATTAAAAATTA
25242632 T-TTAAAAATTA
1 TATTAAAAATTA
25242643 TATTAA
1 TATTAA
25242649 TTTTAAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TATTAAAAATTA
Found at i:25245712 original size:2 final size:2
Alignment explanation
Indices: 25245675--25245702 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25245665 TGACAAGGCC
25245675 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25245703 CAAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25246470 original size:25 final size:25
Alignment explanation
Indices: 25246366--25246509 Score: 109
Period size: 25 Copynumber: 5.8 Consensus size: 25
25246356 CATGTAACGA
* * *
25246366 GAAGCTCTTGCGAGCCAATTATCGG
1 GAAGCTCATGAGAGCCAAATATCGG
* *
25246391 GAAGCTCAT-ACGAACCATAA-A-CGA
1 GAAGCTCATGA-GAGCCA-AATATCGG
* * *
25246415 GAAGCTCAAGAAAGCCTTAAT-T-GG
1 GAAGCTCATGAGAGCC-AAATATCGG
25246439 GAAGCTCATGAGAGCCAAATATCGG
1 GAAGCTCATGAGAGCCAAATATCGG
* *
25246464 GAAGCTCATGAGAGCCATATAACGG
1 GAAGCTCATGAGAGCCAAATATCGG
* * *
25246489 GATGCTCATAAGAGCTAAATA
1 GAAGCTCATGAGAGCCAAATA
25246510 ACAGAACGCT
Statistics
Matches: 92, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
23 3 0.03
24 31 0.34
25 57 0.62
26 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCAAATATCGG
Found at i:25248087 original size:51 final size:51
Alignment explanation
Indices: 25248011--25248116 Score: 212
Period size: 51 Copynumber: 2.1 Consensus size: 51
25248001 AAAACCTATT
25248011 TTAAAACCTTTTAGCAATCAATACCAAATCGTAATTCAAACATTTATAATC
1 TTAAAACCTTTTAGCAATCAATACCAAATCGTAATTCAAACATTTATAATC
25248062 TTAAAACCTTTTAGCAATCAATACCAAATCGTAATTCAAACATTTATAATC
1 TTAAAACCTTTTAGCAATCAATACCAAATCGTAATTCAAACATTTATAATC
25248113 TTAA
1 TTAA
25248117 CATTATGACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (51 bp):
TTAAAACCTTTTAGCAATCAATACCAAATCGTAATTCAAACATTTATAATC
Found at i:25250104 original size:26 final size:26
Alignment explanation
Indices: 25250075--25250125 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
25250065 CGGAGAGTCA
**
25250075 TTAATCAGGAAGCTCACAAAGAGCCT
1 TTAATCAGGAAAATCACAAAGAGCCT
*
25250101 TTAATCAGGAAAATCACGAAGAGCC
1 TTAATCAGGAAAATCACAAAGAGCC
25250126 ATATATCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (26 bp):
TTAATCAGGAAAATCACAAAGAGCCT
Found at i:25257651 original size:17 final size:17
Alignment explanation
Indices: 25257631--25257663 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25257621 TATATTTTTA
25257631 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
25257648 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
25257664 TATTAAAGAT
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:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:25260256 original size:18 final size:19
Alignment explanation
Indices: 25260215--25260256 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
25260205 CTACGTTCTA
*
25260215 CTCAATTTGAACTTTCTTT
1 CTCAATTTGAACTATCTTT
*
25260234 C-CAATTT-ATCTATCTTT
1 CTCAATTTGAACTATCTTT
25260251 CTCAAT
1 CTCAAT
25260257 AATCATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.45
18 10 0.50
19 1 0.05
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (19 bp):
CTCAATTTGAACTATCTTT
Found at i:25261355 original size:23 final size:23
Alignment explanation
Indices: 25261311--25261431 Score: 124
Period size: 23 Copynumber: 5.3 Consensus size: 23
25261301 ATAAGTGCCA
*
25261311 CACTAATAT-TAGCCG-AAGCTAC
1 CACTGATATGTAGCCGTAA-CTAC
* *
25261333 CCCTGATATGTAGCTGTAACTAC
1 CACTGATATGTAGCCGTAACTAC
*
25261356 CACTGAAATGTAGCCG-AAGCTAC
1 CACTGATATGTAGCCGTAA-CTAC
*
25261379 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGTAACTAC
* *
25261402 CATTGAAATGTAGCCG-AAGCTAC
1 CACTGATATGTAGCCGTAA-CTAC
25261425 CACTGAT
1 CACTGAT
25261432 CAATAACGCT
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
22 10 0.12
23 68 0.84
24 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGTAACTAC
Found at i:25261387 original size:46 final size:46
Alignment explanation
Indices: 25261320--25261431 Score: 188
Period size: 46 Copynumber: 2.4 Consensus size: 46
25261310 ACACTAATAT
* *
25261320 TAGCCGAAGCTACCCCTGATATGTAGCTGTAACTACCACTGAAATG
1 TAGCCGAAGCTACCACTGATATGTAGCCGTAACTACCACTGAAATG
* *
25261366 TAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCATTGAAATG
1 TAGCCGAAGCTACCACTGATATGTAGCCGTAACTACCACTGAAATG
25261412 TAGCCGAAGCTACCACTGAT
1 TAGCCGAAGCTACCACTGAT
25261432 CAATAACGCT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
TAGCCGAAGCTACCACTGATATGTAGCCGTAACTACCACTGAAATG
Found at i:25261675 original size:18 final size:17
Alignment explanation
Indices: 25261649--25261687 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
25261639 ATTTTCCTTC
25261649 CACATTC-AATAGTAATT
1 CACATTCAAATA-TAATT
25261666 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
25261684 CACA
1 CACA
25261688 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:25262830 original size:12 final size:12
Alignment explanation
Indices: 25262813--25262837 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25262803 TCGAATAAGC
25262813 ATGTATATATAT
1 ATGTATATATAT
25262825 ATGTATATATAT
1 ATGTATATATAT
25262837 A
1 A
25262838 ATGCTAGAAT
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:25263710 original size:41 final size:41
Alignment explanation
Indices: 25263648--25263758 Score: 186
Period size: 41 Copynumber: 2.7 Consensus size: 41
25263638 GACTTTAAGT
**
25263648 CTAGCAGGCTAATTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
25263689 CTAGTAGGCTACGTGCTGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
25263730 CTAGCAGGCTACGTGCCGGTGATCTGAAT
1 CTAGCAGGCTACGTGCCGGTGATCTGAAT
25263759 TAACCTATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:25263768 original size:41 final size:41
Alignment explanation
Indices: 25263648--25263797 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
25263638 GACTTTAAGT
*
25263648 CTAGCAGGCTAATTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
25263689 CTAGTAGGCTACGTGCTGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *** **
25263730 CTAGCAGGCTACGTGCCGGTGATCTGAATTAACCTATAAGT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
25263771 CTAGCAGGCTAAGTGCCGTTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
25263798 TTTTAATTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 89 0.95
42 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:25267772 original size:12 final size:12
Alignment explanation
Indices: 25267736--25267777 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
25267726 TTTAAAAAAG
25267736 CATTATTATTAT
1 CATTATTATTAT
25267748 -ATTATATATTAT
1 CATTAT-TATTAT
*
25267760 CATTATTACTAT
1 CATTATTATTAT
25267772 CATTAT
1 CATTAT
25267778 CTTTGTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (12 bp):
CATTATTATTAT
Found at i:25268102 original size:16 final size:17
Alignment explanation
Indices: 25268070--25268104 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
25268060 CCACTCTCAT
25268070 ATTTTATAATGCATATAC
1 ATTTTATAA-GCATATAC
25268088 ATTTTATAA-CATATAC
1 ATTTTATAAGCATATAC
25268104 A
1 A
25268105 CCTTCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (17 bp):
ATTTTATAAGCATATAC
Found at i:25271246 original size:58 final size:58
Alignment explanation
Indices: 25271177--25271310 Score: 216
Period size: 58 Copynumber: 2.3 Consensus size: 58
25271167 AAAGATGAAT
* *
25271177 TTGATGCGATCTACTCTATTCTTCAGTCTGCTCCATTGTAAAC-TCAGGGAGATAAGAC
1 TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGT-AACTTCAGGGAGATAAGAC
25271235 TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGAC
1 TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGAC
* *
25271293 TTGATGTGATCTCCTCTA
1 TTGATGCGATCTACTCTA
25271311 CTACAACTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 3 0.04
58 68 0.96
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (58 bp):
TTGATGCGATCTACTCTATTCTTCAGTCTACTCCACTGTAACTTCAGGGAGATAAGAC
Found at i:25271856 original size:45 final size:45
Alignment explanation
Indices: 25271805--25271928 Score: 151
Period size: 45 Copynumber: 2.8 Consensus size: 45
25271795 TTGTTTATTT
* * *
25271805 AGTCTGCCCCACTGCAATTTCAAGGG-GATAAGACTTACTTCCTTG
1 AGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACTCACTTCCTTG
* * * * *
25271850 AGTCTGCTCTACTACAACTTCAGGGAAATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTCCTTG
*
25271895 GGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
25271929 CCGATGTGAT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 4 0.06
45 62 0.94
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCACTTCCTTG
Found at i:25272008 original size:44 final size:41
Alignment explanation
Indices: 25271900--25272013 Score: 104
Period size: 44 Copynumber: 2.7 Consensus size: 41
25271890 TCTTGGGTCT
* * * *
25271900 GCTCCACTGCAACTTCAGGGAGATAAGACCCGATGTGATCT
1 GCTCTACTGCAACTTCAGGGAGATAAGATCCGATGTAATCC
* * * * *
25271941 ACTCTACTGTACCCTCAGAGAGATAAGATCCG-TGGTTTTAATCC
1 GCTCTACTGCAACTTCAGGGAGATAAGATCCGAT-G---TAATCC
25271985 GCTCTACTGCAACTTCAGGGAGATAAGAT
1 GCTCTACTGCAACTTCAGGGAGATAAGAT
25272014 TTGCCATCAT
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
40 1 0.02
41 26 0.47
44 28 0.51
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (41 bp):
GCTCTACTGCAACTTCAGGGAGATAAGATCCGATGTAATCC
Found at i:25272129 original size:82 final size:84
Alignment explanation
Indices: 25272018--25272225 Score: 276
Period size: 82 Copynumber: 2.5 Consensus size: 84
25272008 TAAGATTTGC
* * *
25272018 CATCATTAACCTATTCCACTGCTGTCCAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTG
1 CATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
* *
25272083 CTGAATAGGGAGATAGG-G
66 CTGAACAGGGAGATAGGTA
* * * *
25272101 C-TCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTG
1 CATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
*
25272165 CTGACCAGGGAGATAGGATTCA
66 CTGAACAGGGAGATAGG--T-A
25272187 CAATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG
1 C-ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG
25272226 GCTAGGGTCA
Statistics
Matches: 107, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
82 72 0.67
83 1 0.01
86 1 0.01
88 33 0.31
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (84 bp):
CATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTG
CTGAACAGGGAGATAGGTA
Found at i:25272224 original size:44 final size:44
Alignment explanation
Indices: 25272000--25272225 Score: 284
Period size: 44 Copynumber: 5.3 Consensus size: 44
25271990 ACTGCAACTT
* ** * * *
25272000 CAGGGAGATAAGATTTGCCATCATTAACCTATTCCACTGCTGTC
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
*
25272044 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAA
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
* * * *
25272088 TAGGGAGATAGG----GC--TCTTTAATCTATTCCACTGCTGCC
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
* * *
25272126 CAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGAC
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
25272170 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
1 CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
25272214 CAGGGAGATAGG
1 CAGGGAGATAGG
25272226 GCTAGGGTCA
Statistics
Matches: 155, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
38 31 0.20
40 1 0.01
42 1 0.01
44 122 0.79
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
CAGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGAC
Found at i:25272286 original size:88 final size:88
Alignment explanation
Indices: 25272192--25272477 Score: 364
Period size: 88 Copynumber: 3.3 Consensus size: 88
25272182 ATTCACAATC
** * * ** * * *
25272192 TTTAACCTATTCCACTGCTGACCAGGGAGATAGGGCTAGG-GTCATCGATCTACTTCGCTGTTGG
1 TTTAACCTGCTCCGCTGCTAACCAGGGAGGCAAGGCT-GGTGTCTTCGATCTGCTTCGCTGTTGG
* *
25272256 TGCAGGAAGGCAATATCTATTATT
65 TGCAGGAAGGCAAGATCTACTATT
25272280 TTTAACCTGCTCCGCTG-TAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGG
1 TTTAACCTGCTCCGCTGCTAAC-CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGG
*
25272344 TGCAGGAAGGCAAGATCTGCTATT
65 TGCAGGAAGGCAAGATCTACTATT
* *
25272368 TTTAACCTGCTCTGCTGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGG
1 TTTAACCTGCTCCGCTGCTAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGG
* *
25272432 TGCAAGAAGACAAGATCTACTATT
65 TGCAGGAAGGCAAGATCTACTATT
*
25272456 TTTAGCCTGCTCCGCTGC-AACC
1 TTTAACCTGCTCCGCTGCTAACC
25272478 CAGNNNNNNN
Statistics
Matches: 175, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
87 7 0.04
88 167 0.95
89 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (88 bp):
TTTAACCTGCTCCGCTGCTAACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGGT
GCAGGAAGGCAAGATCTACTATT
Found at i:25272339 original size:43 final size:43
Alignment explanation
Indices: 25272286--25272428 Score: 126
Period size: 43 Copynumber: 3.3 Consensus size: 43
25272276 TATTTTTAAC
*
25272286 CTGCTCCGCTGTAACTCAGGGAGGCAAGGCTGGTGTCTTCGAT
1 CTGCTTCGCTGTAACTCAGGGAGGCAAGGCTGGTGTCTTCGAT
*** * * * * * ** *
25272329 CTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAAC
1 CTGCTTCGCTGTAACT-CAGGGAGGCAAG-GCTGGTGTCTTCGAT
* *
25272374 CTGC-TCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGAT
1 CTGCTTC-GCTGTAACTCAGGGAGGCAAGGCTGGTGTCTTCGAT
25272417 CTGCTTCGCTGT
1 CTGCTTCGCTGT
25272429 CGGTGCAAGA
Statistics
Matches: 70, Mismatches: 26, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
43 28 0.40
44 26 0.37
45 16 0.23
ACGTcount: A:0.16, C:0.25, G:0.30, T:0.29
Consensus pattern (43 bp):
CTGCTTCGCTGTAACTCAGGGAGGCAAGGCTGGTGTCTTCGAT
Found at i:25272355 original size:44 final size:44
Alignment explanation
Indices: 25272302--25272445 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 44
25272292 CGCTGTAACT
* *
25272302 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* * * * ** * ****
25272346 CAGGAAGGCAAGATCTGCTATTTTTAACCTGC-TCTGCTG-CAACC
1 CAGGAAGGCAAG-GCTGGTGTCTTCGATCTGCTTC-GCTGTCGGTG
*
25272390 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
* *
25272434 CAAGAAGACAAG
1 CAGGAAGGCAAG
25272446 ATCTACTATT
Statistics
Matches: 68, Mismatches: 28, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
43 16 0.24
44 36 0.53
45 16 0.24
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
Found at i:25272478 original size:88 final size:88
Alignment explanation
Indices: 25272236--25272480 Score: 391
Period size: 88 Copynumber: 2.8 Consensus size: 88
25272226 GCTAGGGTCA
* * * *
25272236 TCGATCTACTTCGCTGTTGGTGCAGGAAGGCAATATCTATTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTGCAAC
*
25272301 TCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
25272324 TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAAC
1 TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTGCAAC
25272389 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
25272412 TCGATCTGCTTCGCTGTCGGTGCAAGAAGACAAGATCTACTATTTTTAGCCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTGCAAC
25272477 CCAG
66 CCAG
25272481 NNNNNNNNNN
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 144 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.29
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:25280354 original size:29 final size:29
Alignment explanation
Indices: 25280318--25280378 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
25280308 TTCCCTGTGC
25280318 ATTCATTTTCATCATGATATGTTTGCATG
1 ATTCATTTTCATCATGATATGTTTGCATG
25280347 ATTCATTTTCATCATGATATGTTTGCATG
1 ATTCATTTTCATCATGATATGTTTGCATG
25280376 ATT
1 ATT
25280379 GGACCAAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (29 bp):
ATTCATTTTCATCATGATATGTTTGCATG
Found at i:25280813 original size:17 final size:17
Alignment explanation
Indices: 25280787--25280822 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
25280777 GTGTGTTTTG
*
25280787 TTTTGGCTGCATGACAT
1 TTTTGACTGCATGACAT
*
25280804 TTTTGACTGCATGGCAT
1 TTTTGACTGCATGACAT
25280821 TT
1 TT
25280823 CATCATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (17 bp):
TTTTGACTGCATGACAT
Found at i:25283578 original size:7 final size:7
Alignment explanation
Indices: 25283553--25283594 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
25283543 GTGATGTGAA
25283553 AAAAATG
1 AAAAATG
25283560 AAAAGATG
1 AAAA-ATG
25283568 -AAAATG
1 AAAAATG
25283574 AAAAATG
1 AAAAATG
25283581 AAAAA-G
1 AAAAATG
25283587 TAAAAATG
1 -AAAAATG
25283595 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:25283592 original size:21 final size:21
Alignment explanation
Indices: 25283553--25283594 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25283543 GTGATGTGAA
*
25283553 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
25283574 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
25283595 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:25285012 original size:44 final size:44
Alignment explanation
Indices: 25284871--25285505 Score: 529
Period size: 44 Copynumber: 14.4 Consensus size: 44
25284861 GCTAAAAAGC
* * * *
25284871 AGCAGATCTTGTCTTTATGTATTGGCGTCAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
*** * **
25284915 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC-GAAGAT
1 AGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCAG-AGAT
*** * * *
25284960 AATTGATCTTGTCTTCATATATTGACATGGAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
* * *
25285004 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGAACAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
*** * * *
25285048 AATGGATCTTGTCTTCATGTATTGACATGAAGTAGAACAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
*** * * *
25285092 AATGGATCTTGTCTTCATGTATTGACATGAAGTAGAACAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
*** * *
25285136 AATGGATCTTGTCTTCATGTATTGACATGAAGTAGATC-GAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAG-AGAT
* * *
25285180 AGCATATCTTGTCTTCATGTACTGGCATGAAGTAGATC-GAAGAA
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAG-AGAT
* * * *
25285224 AGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCAGAGAT
* * *
25285269 AACAGATCTTGTCTTC-TCATACTGGTGGCA--AAGTAGATC-GAAGAA
1 AGCAGATCTTGTCTTCAT-GTA-T--TGGCATGAAGTAGATCAG-AGAT
* * *
25285314 AGCAGATCTTGTCTTCATGTTTTAGCGTGAAGTAGATC-GAAGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAG-AGAT
* *
25285358 AGCAGATCTTGTCTTCATGCATTGGCATGAAGTAGATGA-AGAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
* **
25285401 AGCAGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATC-GAAGAT
1 AGCAGATCTTGTCTT--CAT-GTATTGGCATGAAGTAGATCAG-AGAT
* * * *
25285446 AGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAATAT
1 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
25285490 AGCAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
25285506 CCATACTGGT
Statistics
Matches: 497, Mismatches: 71, Indels: 46
0.81 0.12 0.07
Matches are distributed among these distances:
42 8 0.02
43 22 0.04
44 344 0.69
45 113 0.23
46 5 0.01
48 5 0.01
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAGAGAT
Found at i:25285071 original size:88 final size:88
Alignment explanation
Indices: 25284875--25285483 Score: 599
Period size: 88 Copynumber: 6.9 Consensus size: 88
25284865 AAAAGCAGCA
* * * * *** *
25284875 GATCTTGTCTTTATGTATTGGCGTCAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
** *
25284940 TGGTGAAGTAGATCGAAGATAATT
66 -CATGAAGTAGATCGAAGATAATG
* * * *
25284964 GATCTTGTCTTCATATATTGACATGGAGTAGATCAGAGATAGCAGATCTTGTCTTCATGTATTGA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
25285029 CATGAAGTAGAACAAAGATAATG
66 CATGAAGTAGATCGAAGATAATG
* *** *
25285052 GATCTTGTCTTCATGTATTGACATGAAGTAGAACAAAGATAATGGATCTTGTCTTCATGTATTGA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
25285117 CATGAAGTAGAACAAAGATAATG
66 CATGAAGTAGATCGAAGATAATG
* * * *
25285140 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGAAAGCATATCTTGTCTTCATGTACTGG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
*
25285205 CATGAAGTAGATCGAAGA-AAGTA
66 CATGAAGTAGATCGAAGATAA-TG
* * * * *
25285228 GATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAAGATAACAGATCTTGTCTTC-TCATACT
1 GATCTTGTCTTCATGTATTGACA-TGAAGTAGATCAAAGATAGCAGATCTTGTCTTCAT-GTA-T
25285292 GGTGGCA--AAGTAGATCGAAGA-AA-G
63 --TGGCATGAAGTAGATCGAAGATAATG
* * * *
25285316 CAGATCTTGTCTTCATGT-TTTAGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGCAT
1 --GATCTTGTCTTCATGTATTGA-CATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTAT
***
25285380 TGGCATGAAGTAGAT-GAAGATAGCA
63 TGGCATGAAGTAGATCGAAGATAATG
* ** * * *
25285405 GATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATCGAAGATAGCAGATCTTATCTTCATGTAT
1 GATCTTGTCTT--CAT-GTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTAT
*
25285468 TGGCGTGAAGTAGATC
63 TGGCATGAAGTAGATC
25285484 AAATATAGCA
Statistics
Matches: 437, Mismatches: 64, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
86 5 0.01
87 18 0.04
88 253 0.58
89 120 0.27
90 35 0.08
91 1 0.00
92 5 0.01
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (88 bp):
GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
CATGAAGTAGATCGAAGATAATG
Found at i:25285570 original size:89 final size:89
Alignment explanation
Indices: 25285342--25285554 Score: 304
Period size: 88 Copynumber: 2.4 Consensus size: 89
25285332 GTTTTAGCGT
* * * * * * *
25285342 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGCATTGGCATGAAGTAGAT-GAAGATAGCAG
1 GAAGTAGATCGAAGATACCAGATCTTATCTCCATGAATTGGCGTGAAGTAGATCAAATATAGCAG
25285406 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* * *
25285430 GAAGTAGATCGAAGATAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAATATAGCAG
1 GAAGTAGATCGAAGATACCAGATCTTATCTCCATGAATTGGCGTGAAGTAGATCAAATATAGCAG
25285495 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* *
25285519 GAAGTAGATCGAATATACCAG-TCTTATCTCCCTGAA
1 GAAGTAGATCGAAGATACCAGATCTTATCTCCATGAA
25285555 GTTGCAGTGG
Statistics
Matches: 114, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
88 62 0.54
89 52 0.46
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (89 bp):
GAAGTAGATCGAAGATACCAGATCTTATCTCCATGAATTGGCGTGAAGTAGATCAAATATAGCAG
ATCTTGTCTTCCCATACTGGTGGC
Found at i:25287066 original size:31 final size:31
Alignment explanation
Indices: 25287031--25287092 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
25287021 TTTTTTTTGT
*
25287031 CTTTTGTTCAATTTAATCCAT-TTTTTAAAAA
1 CTTTTATTCAATTTAAT-CATATTTTTAAAAA
** *
25287062 CTTTTATTTTATTTAATTATATTTTTAAAAA
1 CTTTTATTCAATTTAATCATATTTTTAAAAA
25287093 AGCATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (31 bp):
CTTTTATTCAATTTAATCATATTTTTAAAAA
Found at i:25287131 original size:12 final size:12
Alignment explanation
Indices: 25287095--25287136 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
25287085 TTTAAAAAAG
25287095 CATTATTATTAT
1 CATTATTATTAT
25287107 -ATTATATATTAT
1 CATTAT-TATTAT
*
25287119 CATTATTACTAT
1 CATTATTATTAT
25287131 CATTAT
1 CATTAT
25287137 CTTTGTATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (12 bp):
CATTATTATTAT
Found at i:25291604 original size:26 final size:26
Alignment explanation
Indices: 25291575--25291626 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
25291565 CCTCCCTTGT
25291575 GATCTCCTGTACATAGCCTTTTCTGA
1 GATCTCCTGTACATAGCCTTTTCTGA
25291601 GATCTCCTGTACATAGCCTTTTCTGA
1 GATCTCCTGTACATAGCCTTTTCTGA
25291627 TTCGTCATAG
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:0.19, C:0.27, G:0.15, T:0.38
Consensus pattern (26 bp):
GATCTCCTGTACATAGCCTTTTCTGA
Found at i:25295872 original size:48 final size:47
Alignment explanation
Indices: 25295773--25295876 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 47
25295763 GTATTTATTT
* * * *
25295773 AATTGAGATTCATTGCAACATTAAAAATATAACAAACTTTGTAATTTA
1 AATT-AGATTAATTGCAACATTAAAAATAGAACAAAATTTGTAATATA
25295821 AATTAGATTAATTGCAACATT-AAAATGAGGAACAAAATTTGTAATATA
1 AATTAGATTAATTGCAACATTAAAAAT-A-GAACAAAATTTGTAATATA
25295869 AATTAGAT
1 AATTAGAT
25295877 ACATTGGAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 5 0.10
47 17 0.34
48 28 0.56
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.34
Consensus pattern (47 bp):
AATTAGATTAATTGCAACATTAAAAATAGAACAAAATTTGTAATATA
Found at i:25307757 original size:21 final size:21
Alignment explanation
Indices: 25307733--25307794 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 21
25307723 AGCTGAACAA
*
25307733 AAGCCCATAAGGGTTAAACTG
1 AAGCCCATAAGGGTTAAACGG
* * ** *
25307754 AAGCTCAAAATAGCTAAACGG
1 AAGCCCATAAGGGTTAAACGG
* *
25307775 AAACCCATTAGGGTTAAACG
1 AAGCCCATAAGGGTTAAACG
25307795 AAAACTCATA
Statistics
Matches: 28, Mismatches: 13, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (21 bp):
AAGCCCATAAGGGTTAAACGG
Found at i:25307757 original size:42 final size:41
Alignment explanation
Indices: 25307675--25307804 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 41
25307665 CAGAGAAACA
* * * *
25307675 CATAAGTGCTAAACAGAAACCCATAAAGGTTGAAGGGAAGCT
1 CATAAGAGCTAAACA-AAACCCATAAGGGTTAAACGGAAGCT
* *
25307717 CATAAGAGCTGAACAAAAGCCCATAAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAACAAAA-CCCATAAGGGTTAAACGGAAGCT
* * * * * *
25307759 CAAAATAGCTAAACGGAAACCCATTAGGGTTAAACGAAAACT
1 CATAAGAGCTAAAC-AAAACCCATAAGGGTTAAACGGAAGCT
25307801 CATA
1 CATA
25307805 TGAGTTAACT
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 3 0.04
42 65 0.92
43 3 0.04
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (41 bp):
CATAAGAGCTAAACAAAACCCATAAGGGTTAAACGGAAGCT
Found at i:25309237 original size:11 final size:11
Alignment explanation
Indices: 25309221--25309260 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
25309211 GCTGTTACAC
25309221 AAAATTAATTA
1 AAAATTAATTA
25309232 AAAATTAATTA
1 AAAATTAATTA
*
25309243 AAAATTAATAA
1 AAAATTAATTA
25309254 AAAATTA
1 AAAATTA
25309261 CATTCATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:25309316 original size:17 final size:18
Alignment explanation
Indices: 25309290--25309328 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
25309280 CACAATAAAC
25309290 ATTAAACTAAACA-AAAA
1 ATTAAACTAAACACAAAA
* *
25309307 ATTAACCTAATCACAAAA
1 ATTAAACTAAACACAAAA
25309325 ATTA
1 ATTA
25309329 CAAACAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (18 bp):
ATTAAACTAAACACAAAA
Found at i:25309322 original size:19 final size:20
Alignment explanation
Indices: 25309277--25309325 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
25309267 TAACGTAACA
25309277 AATCACAATAAACATTAAACT
1 AATCACAA-AAACATTAAACT
*
25309298 AA--ACAAAAA-ATTAACCT
1 AATCACAAAAACATTAAACT
25309315 AATCACAAAAA
1 AATCACAAAAA
25309326 TTACAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 11 0.44
21 2 0.08
ACGTcount: A:0.63, C:0.18, G:0.00, T:0.18
Consensus pattern (20 bp):
AATCACAAAAACATTAAACT
Found at i:25309360 original size:113 final size:113
Alignment explanation
Indices: 25309219--25309422 Score: 320
Period size: 113 Copynumber: 1.8 Consensus size: 113
25309209 AGGCTGTTAC
* *
25309219 ACAAAATTAATTAAAAATTAATTAAAAATTAATAAAAAATTACATTCATAACGTAACAAATCACA
1 ACAAAATTAATTAAAAATAAATTAAAAATTAATAAAAAATTACATTCATAACCTAACAAATCACA
25309284 ATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
66 ATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
* * * * *
25309332 ACAAAA-TAAGTTTAAAATAAATTGAAAATTAATAAAAATTTATATTTATAACCTAACAAATCAC
1 ACAAAATTAA-TTAAAAATAAATTAAAAATTAATAAAAAATTACATTCATAACCTAACAAATCAC
*
25309396 AATAAACATTAAACTAAACAAATAATT
65 AATAAACATTAAACTAAACAAAAAATT
25309423 TATAATAGTT
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
112 3 0.04
113 79 0.96
ACGTcount: A:0.60, C:0.12, G:0.01, T:0.27
Consensus pattern (113 bp):
ACAAAATTAATTAAAAATAAATTAAAAATTAATAAAAAATTACATTCATAACCTAACAAATCACA
ATAAACATTAAACTAAACAAAAAATTAACCTAATCACAAAAATTACAA
Found at i:25311407 original size:17 final size:17
Alignment explanation
Indices: 25311385--25311417 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
25311375 ATATTTAATA
25311385 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
25311402 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
25311418 TAAAAAATAT
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:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:25312383 original size:2 final size:2
Alignment explanation
Indices: 25312376--25312405 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25312366 GATTTGTTGA
25312376 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25312406 TTCTATAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25315587 original size:34 final size:34
Alignment explanation
Indices: 25315511--25315590 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
25315501 ATCACAATGC
* * **
25315511 CAGTAATCAGTAGGGCCTTTGCCCAATTTCAGTAA
1 CAGT-ATCAGTGGGGCCTTGGCCCAATAACAGTAA
*
25315546 TAGTATCAGTGGGGCCTTGGCCC-ATAACAGTAA
1 CAGTATCAGTGGGGCCTTGGCCCAATAACAGTAA
25315579 CAGATATCAGTG
1 CAG-TATCAGTG
25315591 ATGTAGTGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 10 0.26
34 25 0.66
35 3 0.08
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTGGGGCCTTGGCCCAATAACAGTAA
Found at i:25316270 original size:134 final size:134
Alignment explanation
Indices: 25316132--25316381 Score: 340
Period size: 134 Copynumber: 1.9 Consensus size: 134
25316122 TATTTCGATC
* *
25316132 ATTTTACCTTATGGGGGTATTTCAGTCATTCTACCATATAGGGGTATTTC-AGTCACTCTACCAT
1 ATTTTACCCTATGAGGGTATTTCAGTCATTCTACCATATAGGGGTATTTCGA-TCACTCTACCAT
** *
25316196 ATGGGGGTATTTCGGTCATTTTACCCTATGAGAGTATTTCAATCATTTTACCCTATGAGCTATTT
65 ATAAGGGTATTTCGGTCATTTTACCATATGAGAGTATTTCAATCATTTTACCCTATGAGCTATTT
25316261 CAGTA
130 CAGTA
* * * * * *
25316266 ATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTA
1 ATTTTACCCTATGAGGGTATTTCAGTCATTCTACCATATAGGGGTATTTCGATCACTCTACCATA
* * * * *
25316331 TAAGGGTATTTCGGTTATTTTACTATATGTGGGTATTTCAGTCATTTTACC
66 TAAGGGTATTTCGGTCATTTTACCATATGAGAGTATTTCAATCATTTTACC
25316382 TATTTTGGGG
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
134 98 0.99
135 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (134 bp):
ATTTTACCCTATGAGGGTATTTCAGTCATTCTACCATATAGGGGTATTTCGATCACTCTACCATA
TAAGGGTATTTCGGTCATTTTACCATATGAGAGTATTTCAATCATTTTACCCTATGAGCTATTTC
AGTA
Found at i:25316384 original size:107 final size:105
Alignment explanation
Indices: 25316040--25316381 Score: 409
Period size: 107 Copynumber: 3.2 Consensus size: 105
25316030 ATCTCCTAGA
* * * * *
25316040 GGTATTACAGTCATTTGACCCTATGAGTGTATTTCGATCATTCTACCTTATGGGGGTATTTCGGT
1 GGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCATATGGGGGTATTTCGGT
*
25316105 TATTTTACCC-ATAGGGATATTTCGATCATTTTACCTTATGGG
66 CATTTTACCCTATAGGG-TATTTCGATCATTTTA-CTTAT-GG
* * * *
25316147 GGTATTTCAGTCATTCTACCATAT-AGGGGTATTTCAGTCACTCTACCATATGGGGGTATTTCGG
1 GGTATTTCAGTCATTTTACCCTATGA-GGGTATTTCGGTCATTCTACCATATGGGGGTATTTCGG
* * * *
25316211 TCATTTTACCCTATGAGAGTATTTCAATCATTTTACCCTATGA
65 TCATTTTACCCTAT-AGGGTATTTCGATCATTTTA-CTTATGG
* * * *
25316254 GCTATTTCAGTAATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGAT
1 GGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCATATGGGGGTATTTCGGT
* *
25316319 CATTTTACCCTATAAGGGTATTTCGGTTATTTTACTATATGTG
66 CATTTTACCCTAT-AGGGTATTTCGATCATTTTACT-TATG-G
25316362 GGTATTTCAGTCATTTTACC
1 GGTATTTCAGTCATTTTACC
25316382 TATTTTGGGG
Statistics
Matches: 198, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
106 2 0.01
107 152 0.77
108 41 0.21
109 3 0.02
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (105 bp):
GGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCATATGGGGGTATTTCGGT
CATTTTACCCTATAGGGTATTTCGATCATTTTACTTATGG
Found at i:25316390 original size:27 final size:27
Alignment explanation
Indices: 25316040--25316381 Score: 320
Period size: 27 Copynumber: 12.7 Consensus size: 27
25316030 ATCTCCTAGA
* *
25316040 GGTATTACAGTCATTTGACCCTATGAG
1 GGTATTTCAGTCATTTTACCCTATGAG
* * * *
25316067 TGTATTTC-GATCATTCTACCTTATGGG
1 GGTATTTCAG-TCATTTTACCCTATGAG
* *
25316094 GGTATTTCGGTTATTTTACCC-AT-AG
1 GGTATTTCAGTCATTTTACCCTATGAG
* *
25316119 GGATATTTC-GATCATTTTACCTTATGGG
1 GG-TATTTCAG-TCATTTTACCCTATGAG
* *
25316147 GGTATTTCAGTCATTCTACCATAT-AGG
1 GGTATTTCAGTCATTTTACCCTATGA-G
* * * *
25316174 GGTATTTCAGTCACTCTACCATATGGG
1 GGTATTTCAGTCATTTTACCCTATGAG
*
25316201 GGTATTTCGGTCATTTTACCCTATGAG
1 GGTATTTCAGTCATTTTACCCTATGAG
* *
25316228 AGTATTTCAATCATTTTACCCTATGA-
1 GGTATTTCAGTCATTTTACCCTATGAG
* *
25316254 GCTATTTCAGTAATTTTACCCTATGAG
1 GGTATTTCAGTCATTTTACCCTATGAG
* * *
25316281 GGTATTTCGGTCATTCTACCCTATGGG
1 GGTATTTCAGTCATTTTACCCTATGAG
*
25316308 GGTATTTC-GATCATTTTACCCTATAAG
1 GGTATTTCAG-TCATTTTACCCTATGAG
* * ** *
25316335 GGTATTTCGGTTATTTTACTATATGTG
1 GGTATTTCAGTCATTTTACCCTATGAG
25316362 GGTATTTCAGTCATTTTACC
1 GGTATTTCAGTCATTTTACC
25316382 TATTTTGGGG
Statistics
Matches: 256, Mismatches: 47, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
25 4 0.02
26 41 0.16
27 205 0.80
28 6 0.02
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTATTTCAGTCATTTTACCCTATGAG
Found at i:25317424 original size:33 final size:33
Alignment explanation
Indices: 25317382--25317456 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
25317372 AGAAGAGGTT
*
25317382 TTCGGCAAACGCAATGAATGGAGAGAAGTAAAA
1 TTCGGCAAACGCAATGAACGGAGAGAAGTAAAA
* ** * *
25317415 TTCGACAAACTTAATGAACGGGGAGAAGTAATA
1 TTCGGCAAACGCAATGAACGGAGAGAAGTAAAA
25317448 TTCGGCAAA
1 TTCGGCAAA
25317457 GGGAACAACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (33 bp):
TTCGGCAAACGCAATGAACGGAGAGAAGTAAAA
Done.