Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 149 of 313
Found at i:47436459 original size:87 final size:88
Alignment explanation
Indices: 47436286--47436534 Score: 385
Period size: 87 Copynumber: 2.9 Consensus size: 88
47436276 GGACCATTGG
* *
47436286 CTTCGATCTGCTTCACTATCGATGCAGGAAGGCAAGA-CCGCTATCTTCAACCTGCTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
*
47436350 ATCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* * *
47436373 CTTTGATCTGCTTCACTGTTGATGCAGGAAGACAAGATCTGCTATCTTCAACCTGCTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
*
47436438 ACCGAGGGAGGCAATGC-TGTGT
66 ACCGAGGGAGGCAAGGCTTGTGT
* * * *
47436460 CTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATTTGTTATCTTCAACCTACTCCACTACA
1 CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
47436525 ACCGAGGGAG
66 ACCGAGGGAG
47436535 ATAAGATCTG
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 106 0.72
88 41 0.28
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (88 bp):
CTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACA
ACCGAGGGAGGCAAGGCTTGTGT
Found at i:47436602 original size:44 final size:44
Alignment explanation
Indices: 47436566--47436893 Score: 413
Period size: 44 Copynumber: 7.5 Consensus size: 44
47436556 CTACTCTACA
*
47436566 GCTGCTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* * * *
47436610 GCTGGTCAGGGAGCTAAGACTTACAGTCTTCCACATATTCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* * * *
47436654 GCTGGTCAGAGAGATAGGACTAACAATCTTTTACCTATTCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* *
47436698 GCTGGTCAGGGAGCTAGGACTTACAGTCTTCCACCTATTCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* * ** *
47436742 GTTGGTCAGGGAGCTAGGATTTACAATCTTCCGCCTATTCCAAT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
** * * * *
47436786 GCTTTTCAGGGAGTTAGGACTTTCAGTCTTTTACCTATTCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* * *
47436830 GTTGGTCAGGGAGCTAGGACTCACAATCTTCTACCTATCCCACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
* *
47436874 GCTGTTCAGGGAGATAGGAC
1 GCTGGTCAGGGAGCTAGGAC
47436894 ATATAGTTTC
Statistics
Matches: 237, Mismatches: 47, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 237 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (44 bp):
GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACT
Found at i:47436892 original size:132 final size:132
Alignment explanation
Indices: 47436566--47436893 Score: 458
Period size: 132 Copynumber: 2.5 Consensus size: 132
47436556 CTACTCTACA
* *
47436566 GCTGCTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAAGACT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACT
* *
47436631 TACAGTCTTCCACATATTCCACTGCTGGTCAGAGAGATAGGACTAACAATCTTTTACCTATTCCA
66 TACAATCTTCCACATATTCCAATGCTGGTCAGAGAGATAGGACTAACAATCTTTTACCTATTCCA
47436696 CT
131 CT
* * * *
47436698 GCTGGTCAGGGAGCTAGGACTTACAGTCTTCCACCTATTCCACTGTTGGTCAGGGAGCTAGGATT
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACT
* * ** * * ** *
47436763 TACAATCTTCCGCCTATTCCAATGCTTTTCAGGGAGTTAGGACTTTCAGTCTTTTACCTATTCCA
66 TACAATCTTCCACATATTCCAATGCTGGTCAGAGAGATAGGACTAACAATCTTTTACCTATTCCA
47436828 CT
131 CT
* * * * *
47436830 GTTGGTCAGGGAGCTAGGACTCACAATCTTCTACCTATCCCACTGCTGTTCAGGGAGATAGGAC
1 GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGAC
47436894 ATATAGTTTC
Statistics
Matches: 170, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 170 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (132 bp):
GCTGGTCAGGGAGCTAGGACTTACAATCTTCTACCTATTCCACTGCTGGTCAGGGAGCTAGGACT
TACAATCTTCCACATATTCCAATGCTGGTCAGAGAGATAGGACTAACAATCTTTTACCTATTCCA
CT
Found at i:47438260 original size:46 final size:46
Alignment explanation
Indices: 47438193--47438280 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
47438183 TCATTTTTCA
* * * *
47438193 TTTTTTGGACTTAAAGTGCCCTTTGAGGGTTTTCACTTTGATATTT
1 TTTTTTGAACTCAAAGCGCCCTTTGAGGGTTTTCACATTGATATTT
*
47438239 TTTTTTGAACTCAAAGCGCCCTTTGTGGGTTTTCACATTGAT
1 TTTTTTGAACTCAAAGCGCCCTTTGAGGGTTTTCACATTGAT
47438281 CCTTTCTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (46 bp):
TTTTTTGAACTCAAAGCGCCCTTTGAGGGTTTTCACATTGATATTT
Found at i:47442785 original size:13 final size:13
Alignment explanation
Indices: 47442767--47442792 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47442757 CCCGAGAGGG
47442767 AGCTTTTTATTTA
1 AGCTTTTTATTTA
47442780 AGCTTTTTATTTA
1 AGCTTTTTATTTA
47442793 TATGAAGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
AGCTTTTTATTTA
Found at i:47442913 original size:24 final size:25
Alignment explanation
Indices: 47442884--47442952 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
47442874 CAAATAATAA
47442884 AATAATAATACATCATAACTTTTA-
1 AATAATAATACATCATAACTTTTAG
* *
47442908 AGTAATAATACATAATAA-TTTTAG
1 AATAATAATACATCATAACTTTTAG
*
47442932 AATGATAATACA-CGATAACTT
1 AATAATAATACATC-ATAACTT
47442953 CAAAAATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 5 0.14
24 30 0.81
25 2 0.05
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (25 bp):
AATAATAATACATCATAACTTTTAG
Found at i:47446399 original size:125 final size:125
Alignment explanation
Indices: 47446023--47446400 Score: 571
Period size: 125 Copynumber: 3.0 Consensus size: 125
47446013 CCCAAACATG
47446023 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
* * * *
47446088 TAGAAGCGATTTTATACTATTTGCTCAGAAGCATCAACTCAAAATTATTTCTTCTAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * *
47446148 CAACTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * * *
47446212 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATAATTT-TTTCAGGAC
65 GTAGAAGCG-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* *
47446273 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAACATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
*
47446338 TAAAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
47446398 CTA
1 CTA
47446401 AAAACCTTAA
Statistics
Matches: 222, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
124 41 0.18
125 143 0.64
126 38 0.17
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:47454350 original size:2 final size:2
Alignment explanation
Indices: 47454343--47454377 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
47454333 GCACTAAAGT
47454343 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
47454378 TTGGAATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47470712 original size:13 final size:13
Alignment explanation
Indices: 47470694--47470718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47470684 ACTATTTCTA
47470694 AATAAGTATTTTT
1 AATAAGTATTTTT
47470707 AATAAGTATTTT
1 AATAAGTATTTT
47470719 ATTAGTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
AATAAGTATTTTT
Found at i:47479156 original size:27 final size:27
Alignment explanation
Indices: 47479126--47479187 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
47479116 CCTATTTAAT
* *
47479126 AGGCGTGACTAGTTGAGCCTATCTCAG
1 AGGCGCGACTAGTTGAGCCTAACTCAG
* *
47479153 AGGCGCGACTAGTTGTGTCTAACTCAG
1 AGGCGCGACTAGTTGAGCCTAACTCAG
47479180 AGGCGCGA
1 AGGCGCGA
47479188 ATGGTGGGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (27 bp):
AGGCGCGACTAGTTGAGCCTAACTCAG
Found at i:47482634 original size:33 final size:32
Alignment explanation
Indices: 47482585--47482648 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
47482575 ATGAACTTGA
*
47482585 GCCGGAAGGAGTGGAGTAC-GACAGTGGATACGG
1 GCCGGAAGGAGCGGAGTACTGA-AGT-GATACGG
*
47482618 GCCGGACGGAGCGGAGTACTGAAGTGATACG
1 GCCGGAAGGAGCGGAGTACTGAAGTGATACG
47482649 AGCTAGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 6 0.21
33 20 0.71
34 2 0.07
ACGTcount: A:0.27, C:0.17, G:0.44, T:0.12
Consensus pattern (32 bp):
GCCGGAAGGAGCGGAGTACTGAAGTGATACGG
Found at i:47484310 original size:5 final size:5
Alignment explanation
Indices: 47484300--47484326 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47484290 TTTCGGTTCC
47484300 GTTGG GTTGG GTTGG GTTGG GTTGG GT
1 GTTGG GTTGG GTTGG GTTGG GTTGG GT
47484327 GTAGGGTTTT
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:0.00, C:0.00, G:0.59, T:0.41
Consensus pattern (5 bp):
GTTGG
Found at i:47484469 original size:18 final size:17
Alignment explanation
Indices: 47484446--47484515 Score: 72
Period size: 17 Copynumber: 3.9 Consensus size: 17
47484436 GTGCGACTCA
47484446 ATTTTTTATATTAAAAAT
1 ATTTTTTA-ATTAAAAAT
*
47484464 ATTTTTTAAATAAAATATT
1 ATTTTTTAATTAAAA-A-T
47484483 AATTTTTTAA-TAAAAAT
1 -ATTTTTTAATTAAAAAT
47484500 A-TTTTTAATATAAAAA
1 ATTTTTTAAT-TAAAAA
47484516 ATTGAGTCGC
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
15 7 0.15
16 1 0.02
17 13 0.28
18 10 0.22
19 6 0.13
20 9 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTTTTAATTAAAAAT
Found at i:47484478 original size:16 final size:17
Alignment explanation
Indices: 47484459--47484514 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 17
47484449 TTTTATATTA
47484459 AAAATAT-TTTTTAAAT
1 AAAATATATTTTTAAAT
*
47484475 AAAATATTAATTTTTTAAT
1 AAAATA-T-ATTTTTAAAT
47484494 AAAA-ATATTTTTAATAT
1 AAAATATATTTTTAA-AT
47484511 AAAA
1 AAAA
47484515 AATTGAGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 13 0.38
17 8 0.24
18 1 0.03
19 12 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATATATTTTTAAAT
Found at i:47484487 original size:20 final size:20
Alignment explanation
Indices: 47484464--47484502 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
47484454 TATTAAAAAT
47484464 ATTTTTTAA-ATAAAATATTA
1 ATTTTTTAATA-AAAATATTA
47484484 ATTTTTTAATAAAAATATT
1 ATTTTTTAATAAAAATATT
47484503 TTTAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTTTAATAAAAATATTA
Found at i:47484517 original size:18 final size:17
Alignment explanation
Indices: 47484448--47484517 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
47484438 GCGACTCAAT
* *
47484448 TTTTTATATTAAAAATA
1 TTTTTAAATAAAAAATA
*
47484465 TTTTTTAAATAAAATATTAA
1 -TTTTTAAATAAAA-AAT-A
*
47484485 TTTTTTAAT-AAAAATA
1 TTTTTAAATAAAAAATA
47484501 TTTTTAATATAAAAAAT
1 TTTTTAA-ATAAAAAAT
47484518 TGAGTCGCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
16 7 0.17
17 4 0.10
18 20 0.48
19 10 0.24
20 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTTAAATAAAAAATA
Found at i:47484647 original size:5 final size:5
Alignment explanation
Indices: 47484637--47484663 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47484627 AAAACCCTAC
47484637 ACCCA ACCCA ACCCA ACCCA ACCCA AC
1 ACCCA ACCCA ACCCA ACCCA ACCCA AC
47484664 GGAACCGAAA
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:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:47487253 original size:14 final size:13
Alignment explanation
Indices: 47487231--47487266 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
47487221 TAAATTTAGC
47487231 TTAAATTTTTTCAA
1 TTAAATTTTTT-AA
*
47487245 TTTAATTTTTTAA
1 TTAAATTTTTTAA
47487258 TTAAATTTT
1 TTAAATTTT
47487267 AATTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAAATTTTTTAA
Found at i:47491431 original size:23 final size:23
Alignment explanation
Indices: 47491384--47491431 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
47491374 AAAATTTATT
**
47491384 TATTTATTCAATAAGTTTTTTAA
1 TATTTATTCAATAAGTTTTAAAA
*
47491407 TATTTATTTAATAAGTTTTAAAA
1 TATTTATTCAATAAGTTTTAAAA
47491430 TA
1 TA
47491432 ATTCAAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (23 bp):
TATTTATTCAATAAGTTTTAAAA
Found at i:47495704 original size:19 final size:21
Alignment explanation
Indices: 47495680--47495723 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
47495670 CATCGTTTTT
*
47495680 AGAAGCCCG-AAG-GCTAAAC
1 AGAAGCACGTAAGCGCTAAAC
47495699 AGAAGCACGTAAGCGCTAAAC
1 AGAAGCACGTAAGCGCTAAAC
47495720 AGAA
1 AGAA
47495724 ACCCATAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 3 0.14
21 11 0.50
ACGTcount: A:0.45, C:0.23, G:0.25, T:0.07
Consensus pattern (21 bp):
AGAAGCACGTAAGCGCTAAAC
Found at i:47495732 original size:21 final size:21
Alignment explanation
Indices: 47495692--47495732 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47495682 AAGCCCGAAG
* *
47495692 GCTAAACAGAAGCACGTAAGC
1 GCTAAACAGAAACACATAAGC
*
47495713 GCTAAACAGAAACCCATAAG
1 GCTAAACAGAAACACATAAG
47495733 GGTTGAACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (21 bp):
GCTAAACAGAAACACATAAGC
Found at i:47495741 original size:21 final size:21
Alignment explanation
Indices: 47495717--47495835 Score: 73
Period size: 21 Copynumber: 5.7 Consensus size: 21
47495707 GTAAGCGCTA
47495717 AACAGAAACCCATAAGGGTTG
1 AACAGAAACCCATAAGGGTTG
* * * *
47495738 AACA-AAAGCTCATTAGAGCTG
1 AACAGAAA-CCCATAAGGGTTG
* *
47495759 AACAGAAACCTATAAGGGTTA
1 AACAGAAACCCATAAGGGTTG
* * *
47495780 AACA-AAAGCTCA-ATAGAGCTG
1 AACAGAAA-CCCATA-AGGGTTG
** *
47495801 AATGGAAACCCATTAGGGTTG
1 AACAGAAACCCATAAGGGTTG
*
47495822 AACAGAAACTCATA
1 AACAGAAACCCATA
47495836 TGAGTTAAAT
Statistics
Matches: 67, Mismatches: 25, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
20 7 0.10
21 54 0.81
22 6 0.09
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.18
Consensus pattern (21 bp):
AACAGAAACCCATAAGGGTTG
Found at i:47495776 original size:42 final size:42
Alignment explanation
Indices: 47495717--47495834 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
47495707 GTAAGCGCTA
47495717 AACAGAAACCCATAAGGGTTGAACAAAAGCTCATTAGAGCTG
1 AACAGAAACCCATAAGGGTTGAACAAAAGCTCATTAGAGCTG
* * *
47495759 AACAGAAACCTATAAGGGTTAAACAAAAGCTCAATAGAGCTG
1 AACAGAAACCCATAAGGGTTGAACAAAAGCTCATTAGAGCTG
** *
47495801 AATGGAAACCCATTAGGGTTGAACAGAAA-CTCAT
1 AACAGAAACCCATAAGGGTTGAACA-AAAGCTCAT
47495835 ATGAGTTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 63 0.95
43 3 0.05
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (42 bp):
AACAGAAACCCATAAGGGTTGAACAAAAGCTCATTAGAGCTG
Found at i:47503064 original size:18 final size:20
Alignment explanation
Indices: 47503027--47503065 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
47503017 TTTCCCTCTA
*
47503027 TTCTCTATATATTTTGCTTT
1 TTCTCTATATATTTTCCTTT
47503047 TTCTCT-TAT-TTTTCCTTT
1 TTCTCTATATATTTTCCTTT
47503065 T
1 T
47503066 CTTTTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.10, C:0.18, G:0.03, T:0.69
Consensus pattern (20 bp):
TTCTCTATATATTTTCCTTT
Found at i:47503995 original size:24 final size:25
Alignment explanation
Indices: 47503962--47504011 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
47503952 TGTAAATCAG
47503962 AAAAATATCTC-TAGA-AATTTTCT
1 AAAAATATCTCTTAGATAATTTTCT
47503985 AAAAATAATCTCTTTAGATAATTTTCT
1 AAAAAT-ATCTC-TTAGATAATTTTCT
47504012 CTCTACAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 6 0.26
24 5 0.22
26 4 0.17
27 8 0.35
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (25 bp):
AAAAATATCTCTTAGATAATTTTCT
Found at i:47506131 original size:28 final size:28
Alignment explanation
Indices: 47506092--47506250 Score: 124
Period size: 28 Copynumber: 5.7 Consensus size: 28
47506082 GTGTCCACTG
* *
47506092 TTTTCAAATTTTATAGTTTTGCCCTTAT
1 TTTTCAGATTTTACAGTTTTGCCCTTAT
* *
47506120 TTTTCAGATTTTATAGTTTT-ACCTCTAT
1 TTTTCAGATTTTACAGTTTTGCCCT-TAT
* * * * *
47506148 TTTTTAAATTTTACAATTTTACCCCTAAT
1 TTTTCAGATTTTACAGTTTT-GCCCTTAT
** *
47506177 TTTT-AGATTTTACAAATTTGCCTTTAT
1 TTTTCAGATTTTACAGTTTTGCCCTTAT
* * *
47506204 TTTCCAGATTTTACAGTTTTTCCCTTGT
1 TTTTCAGATTTTACAGTTTTGCCCTTAT
* * *
47506232 TATTCATATTTTATAGTTT
1 TTTTCAGATTTTACAGTTT
47506251 GGACCTAGAA
Statistics
Matches: 104, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
27 11 0.11
28 84 0.81
29 6 0.06
30 3 0.03
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.56
Consensus pattern (28 bp):
TTTTCAGATTTTACAGTTTTGCCCTTAT
Found at i:47507535 original size:24 final size:21
Alignment explanation
Indices: 47507507--47507556 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 21
47507497 ATTTAGCATT
47507507 CATGACATTTAACTTAATTTAAG
1 CATGACATTTAA-TTAA-TTAAG
**
47507530 ACATGATTTTTAATTAATTAAG
1 -CATGACATTTAATTAATTAAG
47507552 CATGA
1 CATGA
47507557 AATATAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.21
22 5 0.21
23 4 0.17
24 10 0.42
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (21 bp):
CATGACATTTAATTAATTAAG
Found at i:47507550 original size:22 final size:23
Alignment explanation
Indices: 47507514--47507556 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
47507504 ATTCATGACA
47507514 TTTAACTTAATTTAAGACATGATT
1 TTTAACTTAATTTAAG-CATGATT
47507538 TTTAA-TTAA-TTAAGCATGA
1 TTTAACTTAATTTAAGCATGA
47507557 AATATAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 4 0.21
24 5 0.26
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTAACTTAATTTAAGCATGATT
Found at i:47517868 original size:23 final size:26
Alignment explanation
Indices: 47517814--47517870 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 26
47517804 TACAAGGACT
47517814 TATGACATATTTTAACCTAGTATAAAA
1 TATGA-ATATTTTAACCTAGTATAAAA
*
47517841 TATGAATATTTTAA-TTA-TAT-AAA
1 TATGAATATTTTAACCTAGTATAAAA
47517864 TATGAAT
1 TATGAAT
47517871 GTTTAGCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 10 0.34
24 3 0.10
25 2 0.07
26 9 0.31
27 5 0.17
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (26 bp):
TATGAATATTTTAACCTAGTATAAAA
Found at i:47529671 original size:13 final size:13
Alignment explanation
Indices: 47529653--47529703 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
47529643 AGTTCTTCAT
*
47529653 TGCTTTTGAGAAG
1 TGCTTTTCAGAAG
47529666 TGCTTTTCAGAAG
1 TGCTTTTCAGAAG
47529679 TGCTTTTCAGAAG
1 TGCTTTTCAGAAG
*
47529692 TGCTTTTGAGAA
1 TGCTTTTCAGAA
47529704 ATTTGAGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (13 bp):
TGCTTTTCAGAAG
Found at i:47529955 original size:20 final size:19
Alignment explanation
Indices: 47529930--47529976 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
47529920 ATTAATTATT
47529930 TATAAAATTTAATTAGAATA
1 TATAAAATTTAATTA-AATA
* * *
47529950 TATAAACTATATTTAAATA
1 TATAAAATTTAATTAAATA
47529969 TA-AAAATT
1 TATAAAATT
47529977 AAATAATTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAAAATTTAATTAAATA
Found at i:47532863 original size:18 final size:17
Alignment explanation
Indices: 47532823--47532864 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
47532813 AAATAAAGAT
47532823 AAATTAAATAAAATCTTA
1 AAATTAAAT-AAATCTTA
47532841 AAATTAAAT-AATCCTTA
1 AAATTAAATAAAT-CTTA
47532858 ATAATTA
1 A-AATTA
47532865 TCTTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 5 0.23
18 14 0.64
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAAATAAATCTTA
Found at i:47532882 original size:15 final size:15
Alignment explanation
Indices: 47532859--47532888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47532849 TAATCCTTAA
*
47532859 TAATTATCTTAATAT
1 TAATCATCTTAATAT
47532874 TAATCATCTTAATAT
1 TAATCATCTTAATAT
47532889 AATTAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATCATCTTAATAT
Found at i:47533464 original size:9 final size:10
Alignment explanation
Indices: 47533450--47533522 Score: 62
Period size: 10 Copynumber: 7.3 Consensus size: 10
47533440 TTATATATTC
47533450 TTTTTCTTT-
1 TTTTTCTTTA
*
47533459 TTTTTCTTTT
1 TTTTTCTTTA
*
47533469 TTTTTCTTTC
1 TTTTTCTTTA
47533479 TTTTT-TTTA
1 TTTTTCTTTA
*
47533488 TTTTTATTTA
1 TTTTTCTTTA
*
47533498 TTTATTTATTTA
1 -TT-TTTCTTTA
47533510 TTTATT-TTTA
1 TTT-TTCTTTA
47533520 TTT
1 TTT
47533523 ATTTATTATT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
9 17 0.30
10 26 0.46
11 6 0.11
12 8 0.14
ACGTcount: A:0.11, C:0.05, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:47533491 original size:22 final size:22
Alignment explanation
Indices: 47533452--47533545 Score: 82
Period size: 22 Copynumber: 4.0 Consensus size: 22
47533442 ATATATTCTT
* *
47533452 TTTCTTTTTTTTCTTTTTTTTTC
1 TTTCTTTTTTTT-ATTTTTTTTA
47533475 TTTCTTTTTTTTATTTTTATTTA
1 TTTCTTTTTTTTATTTTT-TTTA
* *
47533498 TTT-ATTTATTTATTTATTTTTA
1 TTTCTTTTTTTTATTT-TTTTTA
*
47533520 TTTATTTATTATTTATATTTTTTTA
1 TTTCTTT-TT-TTTAT-TTTTTTTA
47533545 T
1 T
47533546 ACTTTAGGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
22 22 0.37
23 22 0.37
24 1 0.02
25 12 0.20
26 2 0.03
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTCTTTTTTTTATTTTTTTTA
Found at i:47533497 original size:4 final size:4
Alignment explanation
Indices: 47533490--47533535 Score: 71
Period size: 4 Copynumber: 12.2 Consensus size: 4
47533480 TTTTTTTATT
47533490 TTTA TTTA TTTA TTTA TTTA TTTA -TT- TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
47533535 T
1 T
47533536 ATTTTTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 7 0.18
4 32 0.82
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:47533514 original size:26 final size:25
Alignment explanation
Indices: 47533484--47533545 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 25
47533474 CTTTCTTTTT
47533484 TTTATTTTTATTTATTTATTTATTTA
1 TTTATTTTTATTTATTTA-TTATTTA
47533510 TTTATTTTTATTTATTTATTATTTA
1 TTTATTTTTATTTATTTATTATTTA
47533535 TATT-TTTTTAT
1 T-TTATTTTTAT
47533546 ACTTTAGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTATTTTTATTTATTTATTATTTA
Found at i:47533551 original size:17 final size:17
Alignment explanation
Indices: 47533484--47533545 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
47533474 CTTTCTTTTT
47533484 TTTATTT-TTATTTATTTA
1 TTTATTTATTATTTA--TA
*
47533502 TTTATTTATTTATTTTTA
1 TTTATTTA-TTATTTATA
47533520 TTTATTTATTATTTATA
1 TTTATTTATTATTTATA
*
47533537 TTTTTTTAT
1 TTTATTTAT
47533546 ACTTTAGGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
17 16 0.41
18 17 0.44
20 6 0.15
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTATTATTTATA
Found at i:47534609 original size:17 final size:17
Alignment explanation
Indices: 47534587--47534655 Score: 65
Period size: 17 Copynumber: 4.1 Consensus size: 17
47534577 CCAAATAAGT
47534587 AATAAATAATAAAATAA
1 AATAAATAATAAAATAA
47534604 AATAAAGTAAT-AAATAA
1 AATAAA-TAATAAAATAA
* *
47534621 AGTAAAGAA-ATAAAT--
1 AATAAATAATA-AAATAA
47534636 AATAAATAATAAAAATAA
1 AATAAATAAT-AAAATAA
47534654 AA
1 AA
47534656 ATTGGTTTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
15 7 0.17
16 6 0.15
17 22 0.54
18 6 0.15
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (17 bp):
AATAAATAATAAAATAA
Found at i:47534621 original size:4 final size:4
Alignment explanation
Indices: 47534587--47534654 Score: 52
Period size: 4 Copynumber: 16.5 Consensus size: 4
47534577 CCAAATAAGT
*
47534587 AATA AAT- AATAA AATAA AATA AAGT- AATA AATA AAGTA AAGA AATA
1 AATA AATA AAT-A AAT-A AATA AA-TA AATA AATA AA-TA AATA AATA
*
47534633 AAT- AATA AATA ATAAA AATA AA
1 AATA AATA AATA A-ATA AATA AA
47534655 AATTGGTTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
3 7 0.13
4 30 0.57
5 16 0.30
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:47538032 original size:55 final size:55
Alignment explanation
Indices: 47537948--47538058 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
47537938 ATAAAAATCT
* * *
47537948 GTAGGGAAAATAAGCTCGTTAACTTTTACCAGAACATCCTCAAGGACTCCTTCTG
1 GTAGGGAAAATAAGCTCATTAACTTTTACCAAAACATCCTCAAGGACTCATTCTG
47538003 GTAGGGAAAATAAGCTCATTAACTTTTACCAAAACATCCTCAAGGACTCATTCTG
1 GTAGGGAAAATAAGCTCATTAACTTTTACCAAAACATCCTCAAGGACTCATTCTG
47538058 G
1 G
47538059 ATGCACAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (55 bp):
GTAGGGAAAATAAGCTCATTAACTTTTACCAAAACATCCTCAAGGACTCATTCTG
Found at i:47541166 original size:15 final size:14
Alignment explanation
Indices: 47541145--47541180 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
47541135 ATAATCCTTA
*
47541145 ATAATTATCTTAAT
1 ATAATTATCCTAAT
47541159 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
47541174 ATAATTA
1 ATAATTA
47541181 AAATAGAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:47543562 original size:136 final size:136
Alignment explanation
Indices: 47543351--47543634 Score: 408
Period size: 136 Copynumber: 2.1 Consensus size: 136
47543341 CCAGATTGAA
* * *
47543351 CTCATGTTTAATGTCCTGGCGGACTATTTATAATGCCATAGTCAAGCTATGGTCTTACACAATTG
1 CTCATATTTAATGTCCTGGCGGACTATTTATAATGCCATAGCCAAGCTATGATCTTACACAATTG
* * *
47543416 AATGCCCGTGTTTACTATCCCGATGGACTACCTATGTTGCCAGGGTCAAGCCAAGGCCTTACACC
66 AACGCCCGTGTTTACTATCCCGATGAACTACCTATGTTGCCAGGGCCAAGCCAAGGCCTTACACC
47543481 T-AAGAT
131 TGAA-AT
* * *
47543487 CTCATATTTAATGTCTTGGTGGACTCTTTATAATGCCATAGCCAAGCTATGATCTTACACAATTG
1 CTCATATTTAATGTCCTGGCGGACTATTTATAATGCCATAGCCAAGCTATGATCTTACACAATTG
* * * * * * *
47543552 AACGCTCGTGTTTACTGTCCCGATGAACTACTTATGTTGCCATGGCCAAGCCAGGGTCTTACACT
66 AACGCCCGTGTTTACTATCCCGATGAACTACCTATGTTGCCAGGGCCAAGCCAAGGCCTTACACC
47543617 TGAAAT
131 TGAAAT
47543623 CTCATATTTAAT
1 CTCATATTTAAT
47543635 ATCCCAGCGG
Statistics
Matches: 131, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
136 129 0.98
137 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (136 bp):
CTCATATTTAATGTCCTGGCGGACTATTTATAATGCCATAGCCAAGCTATGATCTTACACAATTG
AACGCCCGTGTTTACTATCCCGATGAACTACCTATGTTGCCAGGGCCAAGCCAAGGCCTTACACC
TGAAAT
Found at i:47543612 original size:69 final size:68
Alignment explanation
Indices: 47543333--47543615 Score: 171
Period size: 69 Copynumber: 4.1 Consensus size: 68
47543323 GCCGAGCTAT
* * * * ** * ** * *
47543333 GGTCTTACCCAGATTGAA-CTCATGTTTAATGTCCTGGCGGACTATTTATAATGCCATAGTCAAG
1 GGTCTTACACA-ATTGAAGCTCGTGTTTACTGTCCCGATGGACTACTTATGTTGCCATGGCCAAG
* *
47543397 CTAT
65 CCAA
* * * * *
47543401 GGTCTTACACAATTGAATGCCCGTGTTTACTATCCCGATGGACTACCTATGTTGCCAGGGTCAAG
1 GGTCTTACACAATTGAA-GCTCGTGTTTACTGTCCCGATGGACTACTTATGTTGCCATGGCCAAG
47543466 CCAA
65 CCAA
* * * * * ** * ** *
47543470 GGCCTTACACCTAA--G-ATCTCATATTTAATGTCTTGGTGGACT-CTTTATAATGCCATAGCCA
1 GGTCTTACA-C-AATTGAAGCTCGTGTTTACTGTCCCGATGGACTAC-TTATGTTGCCATGGCCA
* *
47543531 AGCTAT
63 AGCCAA
* *
47543537 GATCTTACACAATTGAACGCTCGTGTTTACTGTCCCGATGAACTACTTATGTTGCCATGGCCAAG
1 GGTCTTACACAATTGAA-GCTCGTGTTTACTGTCCCGATGGACTACTTATGTTGCCATGGCCAAG
*
47543602 CCAG
65 CCAA
47543606 GGTCTTACAC
1 GGTCTTACAC
47543616 TTGAAATCTC
Statistics
Matches: 155, Mismatches: 50, Indels: 19
0.69 0.22 0.08
Matches are distributed among these distances:
65 2 0.01
66 2 0.01
67 46 0.30
68 12 0.08
69 89 0.57
70 2 0.01
71 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (68 bp):
GGTCTTACACAATTGAAGCTCGTGTTTACTGTCCCGATGGACTACTTATGTTGCCATGGCCAAGC
CAA
Found at i:47544840 original size:25 final size:27
Alignment explanation
Indices: 47544811--47544874 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 27
47544801 ATTAAGTTAG
47544811 TTAAATATATTTATAATA-TAT-TATT
1 TTAAATATATTTATAATATTATATATT
* **
47544836 TTAAATATATATATTTTATTATATATT
1 TTAAATATATTTATAATATTATATATT
47544863 TTAAATA-ATTTA
1 TTAAATATATTTA
47544875 GTTAATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 15 0.45
26 7 0.21
27 11 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTAAATATATTTATAATATTATATATT
Found at i:47544842 original size:14 final size:14
Alignment explanation
Indices: 47544820--47544869 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
47544810 GTTAAATATA
47544820 TTTATAATATATTAT
1 TTTA-AATATATTAT
47544835 TTTAAATATATATAT
1 TTTAAATATAT-TAT
*
47544850 TTT-ATTATA-TAT
1 TTTAAATATATTAT
47544862 TTTAAATA
1 TTTAAATA
47544870 ATTTAGTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 6 0.19
13 3 0.10
14 12 0.39
15 10 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAAATATATTAT
Found at i:47544862 original size:27 final size:29
Alignment explanation
Indices: 47544815--47544869 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
47544805 AGTTAGTTAA
47544815 ATATATTTATAATATATTATTTTAAATAT
1 ATATATTTATAATATATTATTTTAAATAT
*
47544844 ATATATTT-TATTATA-TATTTTAAATA
1 ATATATTTATAATATATTATTTTAAATA
47544870 ATTTAGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 11 0.44
28 6 0.24
29 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
ATATATTTATAATATATTATTTTAAATAT
Found at i:47554280 original size:54 final size:54
Alignment explanation
Indices: 47554202--47554312 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
47554192 GAAGTGCTTA
*
47554202 ACTTTTGGTGGTCCTGCCGAACGACTGTTATTGGTGAATGAAATGCTTGGTTCT
1 ACTTTTGGTGGTCCTGCCGAACGACTGTCATTGGTGAATGAAATGCTTGGTTCT
* *
47554256 ACTTTTGGTGGTCCTGCTGTACGACTGTCATTGGTGAATGAAATGCTTGGTTCT
1 ACTTTTGGTGGTCCTGCCGAACGACTGTCATTGGTGAATGAAATGCTTGGTTCT
47554310 ACT
1 ACT
47554313 GATGAGAATG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.38
Consensus pattern (54 bp):
ACTTTTGGTGGTCCTGCCGAACGACTGTCATTGGTGAATGAAATGCTTGGTTCT
Found at i:47561497 original size:41 final size:42
Alignment explanation
Indices: 47561452--47561551 Score: 116
Period size: 41 Copynumber: 2.4 Consensus size: 42
47561442 TGATTCAGAA
* * *
47561452 CACCGACATTAAGCTTGCTAGACATATAGTCTGAAA-ATTTT
1 CACCGACATTAAGCCTGCAAGACATACAGTCTGAAATATTTT
* *
47561493 CACCGGCATTAAGCCTGCAAGACGTACAGTCTGAAATATTTT
1 CACCGACATTAAGCCTGCAAGACATACAGTCTGAAATATTTT
*
47561535 -ACC-AGCGTTAAGCCTGC
1 CACCGA-CATTAAGCCTGC
47561552 TAGGCACAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 45 0.90
42 5 0.10
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
CACCGACATTAAGCCTGCAAGACATACAGTCTGAAATATTTT
Found at i:47563385 original size:41 final size:41
Alignment explanation
Indices: 47563340--47563513 Score: 240
Period size: 41 Copynumber: 4.2 Consensus size: 41
47563330 ACTGGCACTT
* *
47563340 AGCCTGCTGGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* *
47563381 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGTGTCC
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* *
47563422 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGTCGACA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* ** * * *
47563463 AGCCTGCTAGACTTAAGGTCTGAAACATATCACTGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
47563504 AGCCTGCTAG
1 AGCCTGCTAG
47563514 GCACCGAGCC
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 117 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:47563508 original size:82 final size:82
Alignment explanation
Indices: 47563301--47563513 Score: 241
Period size: 82 Copynumber: 2.6 Consensus size: 82
47563291 GGCACAAAAA
* * ** * *
47563301 CCTGCTAGGCTTAAGGCCTGATTCA-ATACACTGGCA-CTTAGCCTGCTGGACATAAAGTCTGAA
1 CCTGCTAGACTTAAGGTCTGAAACATAT-CACTGGCATC-AAGCCTGCTAGACATAAAGTCTGAA
*
47563364 ATGTTTCACCGGCGTCAAG
64 ATGTTTCACCGGCGACAAG
* ** * * ** * *
47563383 CCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGTGTCCAGCCTGCTAGACTTAAAGTCTGAAAT
1 CCTGCTAGACTTAAGGTCTGAAACATATCACTGGCATCAAGCCTGCTAGACATAAAGTCTGAAAT
*
47563448 GTTTCACCGTCGACAAG
66 GTTTCACCGGCGACAAG
47563465 CCTGCTAGACTTAAGGTCTGAAACATATCACTGGCATCAAGCCTGCTAG
1 CCTGCTAGACTTAAGGTCTGAAACATATCACTGGCATCAAGCCTGCTAG
47563514 GCACCGAGCC
Statistics
Matches: 105, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
82 103 0.98
83 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (82 bp):
CCTGCTAGACTTAAGGTCTGAAACATATCACTGGCATCAAGCCTGCTAGACATAAAGTCTGAAAT
GTTTCACCGGCGACAAG
Found at i:47566531 original size:16 final size:13
Alignment explanation
Indices: 47566518--47566546 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47566508 TCAAACGATT
47566518 AAATTTTCACACG
1 AAATTTTCACACG
47566531 AAATTTTCACAC-
1 AAATTTTCACACG
47566543 AAAT
1 AAAT
47566547 AACTTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:47574493 original size:67 final size:65
Alignment explanation
Indices: 47574420--47574548 Score: 197
Period size: 67 Copynumber: 2.0 Consensus size: 65
47574410 TTTTAAAGTA
* *
47574420 ATAAAATTCCG-AGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTAGTAACTTTTTT
1 ATAAAA-TCCGAAGAAAAAAAAACGAACAAATGGCCGAAG-AAAG-GTGTTTTACTAACTTTTTT
47574484 TTT
63 TTT
*
47574487 ATAAAATGCGAAGAAAAAAAAACGAACAAATGGCCGAAGAAAGGTGTTTTACTAACTTTTTT
1 ATAAAATCCGAAGAAAAAAAAACGAACAAATGGCCGAAGAAAGGTGTTTTACTAACTTTTTT
47574549 AAAAATTCAG
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
65 18 0.31
66 7 0.12
67 33 0.57
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (65 bp):
ATAAAATCCGAAGAAAAAAAAACGAACAAATGGCCGAAGAAAGGTGTTTTACTAACTTTTTTTTT
Found at i:47574711 original size:389 final size:388
Alignment explanation
Indices: 47574147--47574875 Score: 1395
Period size: 389 Copynumber: 1.9 Consensus size: 388
47574137 ATATATTTTN
* *
47574147 TTACTAACTTTTTTAAAAATTCGGAAAAAATTAATAGAAAAATTTCAAAAAAATGTACTGAAATA
1 TTACTAACTTTTTTAAAAATTCAGAAAAAATTAATACAAAAATTTCAAAAAAATGTACTGAAATA
47574212 ATATAAAATAATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAAT
66 ATATAAAATAATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAAT
*
47574277 ACGAGCAAAGGGCAGGAATAAGGGTTGGGTTTTTTTTACACTAAATTAATTTAAAAAACACACTA
131 ACGAGCAAAGGGCAGAAATAAGGGTTGGGTTTTTTTTACACTAAATTAATTTAAAAAACACACTA
47574342 AATTAATAAAGAAATAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATA
196 AATTAATAAAGAAATAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATA
47574407 TTTTTTTAAAGTAATAAAATTCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTT
261 TTTTTTTAAAGTAATAAAATTCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTT
47574472 AGTAACTTTTTTTTTATAAAATGCGAAGAAAAAAAAACGAACAAATGGCCGAAGAAAGGTGTT
326 AGTAACTTTTTTTTTATAAAATGCGAAGAAAAAAAAACGAACAAATGGCCGAAGAAAGGTGTT
* * *
47574535 TTACTAACTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCTAACAAAATGTACTGAAAT
1 TTACTAACTTTTTTAAAAATTCAGAAAAAATTAATACAAAAATTTC-AAAAAAATGTACTGAAAT
47574600 AATATAAAATAATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAA
65 AATATAAAATAATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAA
47574665 TACGAGCAAAGGGCAGAAATAAGGGTTGGGTTTTTTTTACACTAAATTAATTTAAAAAACACACT
130 TACGAGCAAAGGGCAGAAATAAGGGTTGGGTTTTTTTTACACTAAATTAATTTAAAAAACACACT
47574730 AAATTAATAAAGAAATAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGAT
195 AAATTAATAAAGAAATAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGAT
47574795 ATTTTTTTAAAGTAATAAAATTCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTT
260 ATTTTTTTAAAGTAATAAAATTCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTT
47574860 TAGTAACTTTTTTTTT
325 TAGTAACTTTTTTTTT
47574876 CAACTTGCAG
Statistics
Matches: 334, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
388 42 0.13
389 292 0.87
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (388 bp):
TTACTAACTTTTTTAAAAATTCAGAAAAAATTAATACAAAAATTTCAAAAAAATGTACTGAAATA
ATATAAAATAATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAAT
ACGAGCAAAGGGCAGAAATAAGGGTTGGGTTTTTTTTACACTAAATTAATTTAAAAAACACACTA
AATTAATAAAGAAATAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATA
TTTTTTTAAAGTAATAAAATTCCGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTT
AGTAACTTTTTTTTTATAAAATGCGAAGAAAAAAAAACGAACAAATGGCCGAAGAAAGGTGTT
Found at i:47577554 original size:46 final size:46
Alignment explanation
Indices: 47577457--47577608 Score: 238
Period size: 46 Copynumber: 3.4 Consensus size: 46
47577447 TATGTATGAT
* *
47577457 CACTTATCAC-TTGTCTC-TGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
47577500 CACTTATCACTTTGTCACTTCATCTGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
47577546 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
47577592 CACTTATCACTTTGTCA
1 CACTTATCACTTTGTCA
47577609 TTTGTCACTG
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
43 10 0.10
44 6 0.06
45 17 0.17
46 66 0.67
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:47578942 original size:36 final size:37
Alignment explanation
Indices: 47578895--47578967 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
47578885 TACGTATGAT
47578895 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCCCTTGATCAGATAAGTGTAGC
*
47578931 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCCCTTGATCAGATAAGTGTAGC
47578968 TAAAGCTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 10 0.29
37 25 0.71
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCCCTTGATCAGATAAGTGTAGC
Found at i:47578983 original size:46 final size:46
Alignment explanation
Indices: 47578931--47579245 Score: 369
Period size: 46 Copynumber: 6.6 Consensus size: 46
47578921 TAAGTGTAGC
* * *
47578931 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
*
47578977 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* * *
47579023 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* * *
47579069 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
*
47579121 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* * * * *
47579167 TACTTATCACTTTCCACTTGTCACTTGATCAGATAACTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
*
47579219 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
47579246 AGTACTCAAA
Statistics
Matches: 234, Mismatches: 23, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
46 151 0.65
48 2 0.01
50 2 0.01
52 79 0.34
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
Found at i:47579118 original size:52 final size:52
Alignment explanation
Indices: 47579037--47579231 Score: 258
Period size: 52 Copynumber: 3.9 Consensus size: 52
47579027 TATCACTTTA
* *
47579037 TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTG
1 TCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTTG
* *
47579089 TCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TTG
1 TCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTTG
* *
47579135 TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTG
1 TCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTTG
* * * *
47579187 TCACTTGATCAGATAACTGTAGCTAAAGCTACCACTTATCACTTT
1 TCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTT
47579232 ATCACTTGAT
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
46 41 0.33
48 1 0.01
50 1 0.01
52 80 0.65
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (52 bp):
TCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTTG
Found at i:47579127 original size:98 final size:98
Alignment explanation
Indices: 47578931--47579245 Score: 471
Period size: 98 Copynumber: 3.3 Consensus size: 98
47578921 TAAGTGTAGC
* * * ** *
47578931 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
* **
47578990 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
47579023 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
47579088 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
47579121 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
* *
47579186 GTCACTTGATCAGATAACTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
47579219 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
47579246 AGTACTCAAA
Statistics
Matches: 202, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
92 49 0.24
94 1 0.00
98 152 0.75
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:47579237 original size:144 final size:138
Alignment explanation
Indices: 47578930--47579245 Score: 443
Period size: 144 Copynumber: 2.2 Consensus size: 138
47578920 ATAAGTGTAG
* *
47578930 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCAC
1 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCAC
*
47578995 TTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACTTGATCAGATAAGTATAGC
66 TTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACTTGATCAGATAACTATAGC
*
47579060 CGAAGCTA
131 CAAAGCTA
**
47579068 TTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTT
1 CCACTTATCACTTT--A----TCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTT
*
47579133 TGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCA
60 TGTCACTTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTT--A----TCACTTGATCA
* *
47579198 GATAACTGTAGCTAAAGCTA
119 GATAACTATAGCCAAAGCTA
47579218 CCACTTATCACTTTATCACTTGATCAGA
1 CCACTTATCACTTTATCACTTGATCAGA
47579246 AGTACTCAAA
Statistics
Matches: 155, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
138 12 0.08
144 102 0.66
146 1 0.01
148 1 0.01
150 39 0.25
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (138 bp):
CCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCAC
TTGATCAGATAAGTATAGCCGAAGCTATAACTTATCACTTTATCACTTGATCAGATAACTATAGC
CAAAGCTA
Found at i:47581622 original size:37 final size:37
Alignment explanation
Indices: 47581561--47581826 Score: 392
Period size: 37 Copynumber: 7.0 Consensus size: 37
47581551 TACGTATGAT
* *
47581561 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
47581596 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47581633 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47581670 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47581707 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
47581744 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T--AGC
*
47581787 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ---CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47581827 TAAAGCTATC
Statistics
Matches: 215, Mismatches: 5, Indels: 17
0.91 0.02 0.07
Matches are distributed among these distances:
35 9 0.04
36 3 0.01
37 159 0.74
39 2 0.01
40 4 0.02
41 1 0.00
42 1 0.00
43 4 0.02
44 2 0.01
46 30 0.14
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:47581797 original size:46 final size:46
Alignment explanation
Indices: 47581744--47582156 Score: 520
Period size: 46 Copynumber: 8.6 Consensus size: 46
47581734 TAAGTGTAGC
* *
47581744 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
47581790 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * * *
47581836 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
47581882 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
47581934 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
47581980 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
47582032 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
47582078 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
47582130 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
47582157 AGTACTCAAA
Statistics
Matches: 327, Mismatches: 22, Indels: 36
0.85 0.06 0.09
Matches are distributed among these distances:
46 198 0.61
48 2 0.01
49 2 0.01
50 2 0.01
52 123 0.38
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:47581944 original size:98 final size:98
Alignment explanation
Indices: 47581744--47582156 Score: 667
Period size: 98 Copynumber: 4.3 Consensus size: 98
47581734 TAAGTGTAGC
* * **
47581744 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
47581803 GTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
* * *
47581836 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
47581901 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
47581934 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
47581999 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
47582032 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
47582097 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
47582130 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
47582157 AGTACTCAAA
Statistics
Matches: 303, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
92 52 0.17
94 1 0.00
98 250 0.83
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:47585333 original size:49 final size:49
Alignment explanation
Indices: 47585278--47585423 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
47585268 TTCGTTTTCT
* *
47585278 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
47585327 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
47585376 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
47585424 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:47586739 original size:37 final size:37
Alignment explanation
Indices: 47586675--47587561 Score: 1740
Period size: 37 Copynumber: 24.0 Consensus size: 37
47586665 TACATATGAT
**
47586675 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47586711 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47586748 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47586785 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47586822 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47586859 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47586896 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47586933 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47586970 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587007 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587044 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587081 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587118 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587155 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587192 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587229 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587266 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587303 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587340 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587377 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587414 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587451 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587488 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
47587525 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47587562 TAAAGCTATC
Statistics
Matches: 847, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
36 10 0.01
37 837 0.99
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:47587578 original size:46 final size:46
Alignment explanation
Indices: 47587525--47587793 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
47587515 TAAGTGTAGC
* **
47587525 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
47587571 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
47587617 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
47587669 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
47587721 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
47587767 CACTTATCACTTTGTCACCTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
47587794 AGTACTCAAA
Statistics
Matches: 207, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
46 112 0.54
49 1 0.00
50 1 0.00
51 3 0.01
52 90 0.43
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:47587644 original size:52 final size:52
Alignment explanation
Indices: 47587568--47587784 Score: 320
Period size: 52 Copynumber: 4.2 Consensus size: 52
47587558 TAGCTAAAGC
* *
47587568 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
47587621 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
47587673 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
47587725 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
47587771 TATCACTTTGTCAC
1 TATCACTTT-TCAC
47587785 CTGATCAGAA
Statistics
Matches: 149, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
46 43 0.29
50 1 0.01
52 93 0.62
53 12 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:47587736 original size:98 final size:94
Alignment explanation
Indices: 47587525--47587793 Score: 348
Period size: 98 Copynumber: 2.8 Consensus size: 94
47587515 TAAGTGTAGC
* ** *
47587525 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--TTTGTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
47587588 CTTGATCAGATAAGTATAGCCGAAGCTAT
66 CTTGATCAGATAAGTATAGCCGAAGCTAT
47587617 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
* *
47587682 CCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
60 ----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
47587721 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--TTTGTCA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
*
47587784 CCTGATCAGA
66 CTTGATCAGA
47587794 AGTACTCAAA
Statistics
Matches: 157, Mismatches: 8, Indels: 24
0.83 0.04 0.13
Matches are distributed among these distances:
92 25 0.16
95 1 0.01
96 1 0.01
98 86 0.55
100 1 0.01
101 1 0.01
104 42 0.27
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (94 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
CTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:47594233 original size:6 final size:6
Alignment explanation
Indices: 47594224--47594249 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47594214 CCCTCCCTAT
47594224 TTTCAC TTTCAC TTTCAC TTTCAC TT
1 TTTCAC TTTCAC TTTCAC TTTCAC TT
47594250 AACACCCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTCAC
Found at i:47599582 original size:32 final size:33
Alignment explanation
Indices: 47599541--47599605 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
47599531 TATTGTGGTG
47599541 GAAAGTGAACAGCCCTAGATTT-CACACTCTTT
1 GAAAGTGAACAGCCCTAGATTTCCACACTCTTT
*
47599573 GAAAGTGAACAGCCCTAGATTTCCACGCTCTTT
1 GAAAGTGAACAGCCCTAGATTTCCACACTCTTT
47599606 CAAAATTGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 22 0.71
33 9 0.29
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (33 bp):
GAAAGTGAACAGCCCTAGATTTCCACACTCTTT
Found at i:47600224 original size:20 final size:19
Alignment explanation
Indices: 47600198--47600262 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
47600188 AATGTTTTTA
47600198 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
47600217 ACTTATGTAAT-ATTTTTAG
1 A-TTATGTAGTGATTCAAAG
47600236 -TTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
47600254 ATTTATGTA
1 A-TTATGTA
47600263 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Found at i:47600227 original size:37 final size:37
Alignment explanation
Indices: 47600173--47600285 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
47600163 TTATGTGTTA
47600173 ATTC-AAGACTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
* *
47600209 ATTCAAAGACTTATGTAATATTTTTAGTTATGTAGTG
1 ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
*
47600246 ATTCAAAGATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
47600283 ATT
1 ATT
47600286 TTATTCGGGT
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
36 4 0.06
37 67 0.94
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATGTTTTTAATTATGTAGTG
Found at i:47600287 original size:17 final size:17
Alignment explanation
Indices: 47600182--47600288 Score: 54
Period size: 17 Copynumber: 5.9 Consensus size: 17
47600172 AATTCAAGAC
*
47600182 TTATGTAATGTTTTTAA
1 TTATGTAATGATTTTAA
* **
47600199 TTATGTAGTGATTCAAAGA
1 TTATGTAATGATT-TTA-A
*
47600218 CTTATGTAAT-ATTTTTAG
1 -TTATGTAATGA-TTTTAA
* **
47600236 TTATGTAGTGATTCAAAGA
1 TTATGTAATGATT-TTA-A
*
47600255 TTTATGTAATGTTTTTAA
1 -TTATGTAATGATTTTAA
*
47600273 TTATGTAGTGATTTTA
1 TTATGTAATGATTTTA
47600289 TTCGGGTAAT
Statistics
Matches: 64, Mismatches: 18, Indels: 16
0.65 0.18 0.16
Matches are distributed among these distances:
17 35 0.55
18 4 0.06
19 4 0.06
20 21 0.33
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (17 bp):
TTATGTAATGATTTTAA
Found at i:47600306 original size:9 final size:9
Alignment explanation
Indices: 47600292--47600358 Score: 62
Period size: 9 Copynumber: 7.0 Consensus size: 9
47600282 GATTTTATTC
47600292 GGGTAATTT
1 GGGTAATTT
47600301 GGGTAATTTT
1 GGGTAA-TTT
*
47600311 CGGGTAATTC
1 -GGGTAATTT
*
47600321 GAGTAATTT
1 GGGTAATTT
*
47600330 GGATAATTTT
1 GGGTAA-TTT
*
47600340 CGGGTAATTC
1 -GGGTAATTT
47600350 GGGTAATTT
1 GGGTAATTT
47600359 TTAACCAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
9 25 0.54
10 10 0.22
11 11 0.24
ACGTcount: A:0.24, C:0.06, G:0.28, T:0.42
Consensus pattern (9 bp):
GGGTAATTT
Found at i:47600330 original size:29 final size:29
Alignment explanation
Indices: 47600288--47600358 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
47600278 TAGTGATTTT
*
47600288 ATTCGGGTAATTTGGGTAATTTTCGGGTA
1 ATTCGGGTAATTTGGATAATTTTCGGGTA
*
47600317 ATTCGAGTAATTTGGATAATTTTCGGGTA
1 ATTCGGGTAATTTGGATAATTTTCGGGTA
47600346 ATTCGGGTAATTT
1 ATTCGGGTAATTT
47600359 TTAACCAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.42
Consensus pattern (29 bp):
ATTCGGGTAATTTGGATAATTTTCGGGTA
Found at i:47600359 original size:20 final size:19
Alignment explanation
Indices: 47600288--47600358 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
47600278 TAGTGATTTT
47600288 ATTCGGGTAATTT-GGGTA
1 ATTCGGGTAATTTCGGGTA
*
47600306 ATTTTCGGGTAA-TTCGAGTA
1 A--TTCGGGTAATTTCGGGTA
* *
47600326 ATTTGGATAATTTTCGGGTA
1 ATTCGGGTAA-TTTCGGGTA
47600346 ATTCGGGTAATTT
1 ATTCGGGTAATTT
47600359 TTAACCAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
18 8 0.19
19 5 0.12
20 29 0.69
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.42
Consensus pattern (19 bp):
ATTCGGGTAATTTCGGGTA
Found at i:47601484 original size:40 final size:41
Alignment explanation
Indices: 47601401--47601512 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 41
47601391 ACCCAATAAA
* *
47601401 AATAATAA-TA-GTTTTATACTCAAAATAAT-AGTAACTAAC
1 AATAATAATTAGGTTTT-TACTAAAAATAATAACTAACTAAC
* *
47601440 AATAATAATTAGGGTTTTACTAAAAATAATAACTAACT-AT
1 AATAATAATTAGGTTTTTACTAAAAATAATAACTAACTAAC
* *
47601480 AATAATAATACTAGTTTTTTACTAACAATAATA
1 AATAATAAT--TAGGTTTTTACTAAAAATAATA
47601513 CTACGTAACA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
39 8 0.13
40 24 0.39
41 10 0.16
42 19 0.31
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.36
Consensus pattern (41 bp):
AATAATAATTAGGTTTTTACTAAAAATAATAACTAACTAAC
Found at i:47603690 original size:84 final size:84
Alignment explanation
Indices: 47603596--47603763 Score: 318
Period size: 84 Copynumber: 2.0 Consensus size: 84
47603586 TAAAGTAAAT
47603596 GTTTAATATATCAAATTTTTTTTATTTTTTTATTTATAAGAAATTTGTATTTTATAATTTAAGAA
1 GTTTAATATATCAAATTTTTTTTATTTTTTTATTTATAAGAAATTTGTATTTTATAATTTAAGAA
47603661 TTTAGATTTTATGATAGAA
66 TTTAGATTTTATGATAGAA
47603680 GTTTAATATATCAAATTTTTTTTATTTTTTTATTTATAAGAAATTTGTATTTTATAATTTAAGAA
1 GTTTAATATATCAAATTTTTTTTATTTTTTTATTTATAAGAAATTTGTATTTTATAATTTAAGAA
* *
47603745 TTTAGATTTTTTGGTAGAA
66 TTTAGATTTTATGATAGAA
47603764 TACTGTACCC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (84 bp):
GTTTAATATATCAAATTTTTTTTATTTTTTTATTTATAAGAAATTTGTATTTTATAATTTAAGAA
TTTAGATTTTATGATAGAA
Found at i:47607322 original size:2 final size:2
Alignment explanation
Indices: 47607315--47607371 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
47607305 CAAGAACTAT
47607315 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
47607357 CA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA G
47607372 GGAGGGAGGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:47612735 original size:22 final size:22
Alignment explanation
Indices: 47612709--47612782 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
47612699 ATTATACAAG
*
47612709 TAATACCAAAAAAACTATCAAA
1 TAATACCAAAAAAACTGTCAAA
47612731 TAATACC---AAAACTGT-AAA
1 TAATACCAAAAAAACTGTCAAA
*
47612749 -AAAACTGCAAAAAAACTGTCAAA
1 TAATAC--CAAAAAAACTGTCAAA
47612772 TAATACCAAAA
1 TAATACCAAAA
47612783 CTGTCAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
17 4 0.10
18 3 0.07
19 8 0.19
22 20 0.48
23 3 0.07
24 4 0.10
ACGTcount: A:0.61, C:0.18, G:0.04, T:0.18
Consensus pattern (22 bp):
TAATACCAAAAAAACTGTCAAA
Found at i:47612741 original size:19 final size:19
Alignment explanation
Indices: 47612719--47612789 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
47612709 TAATACCAAA
*
47612719 AAAACTATCAAATAATACC
1 AAAACTGTCAAATAATACC
* * **
47612738 AAAACTGTAAAAAAACTGCAAA
1 AAAACTGTCAAATAA-T--ACC
47612760 AAAACTGTCAAATAATACC
1 AAAACTGTCAAATAATACC
47612779 AAAACTGTCAA
1 AAAACTGTCAA
47612790 TTTAAATATT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
19 24 0.60
20 1 0.03
21 1 0.03
22 14 0.35
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.18
Consensus pattern (19 bp):
AAAACTGTCAAATAATACC
Found at i:47612754 original size:11 final size:11
Alignment explanation
Indices: 47612738--47612767 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47612728 AAATAATACC
47612738 AAAACTGTAAA
1 AAAACTGTAAA
*
47612749 AAAACTGCAAA
1 AAAACTGTAAA
47612760 AAAACTGT
1 AAAACTGT
47612768 CAAATAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.10, T:0.17
Consensus pattern (11 bp):
AAAACTGTAAA
Found at i:47613195 original size:9 final size:9
Alignment explanation
Indices: 47613183--47613208 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47613173 ATCATCATCC
47613183 TCATCGTCG
1 TCATCGTCG
47613192 TCATCGTCG
1 TCATCGTCG
47613201 TCATCGTC
1 TCATCGTC
47613209 CTTTTTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.19, T:0.35
Consensus pattern (9 bp):
TCATCGTCG
Found at i:47615683 original size:13 final size:13
Alignment explanation
Indices: 47615665--47615929 Score: 134
Period size: 13 Copynumber: 21.2 Consensus size: 13
47615655 AATTTAAAAT
*
47615665 TTAAAACATTATA
1 TTAAAACAGTATA
*
47615678 TTAAAACAATATAA
1 TTAAAACAGTAT-A
*
47615692 TTATAACAGTATA
1 TTAAAACAGTATA
*
47615705 TT-AAA-TGTATA
1 TTAAAACAGTATA
*
47615716 TTTATAACAGTATA
1 -TTAAAACAGTATA
* * *
47615730 CT-AGA-AGTTAAAA
1 TTAAAACAG-T-ATA
*
47615743 GTTAAAACATTATA
1 -TTAAAACAGTATA
*
47615757 TTAAAACAATATAA
1 TTAAAACAGTAT-A
* *
47615771 TTATAATAGTATA
1 TTAAAACAGTATA
*
47615784 TTAAAACAATATA
1 TTAAAACAGTATA
* *
47615797 TTAAAAAAGTAAA
1 TTAAAACAGTATA
* *
47615810 TTTATAATAGTATA
1 -TTAAAACAGTATA
47615824 TTAAAACAGTATA
1 TTAAAACAGTATA
*
47615837 TTACAA-A-T-T-
1 TTAAAACAGTATA
*
47615846 TTATAACAGTATA
1 TTAAAACAGTATA
47615859 TTAAAAC---ATA
1 TTAAAACAGTATA
*
47615869 -T--AATAGTATA
1 TTAAAACAGTATA
*
47615879 TTAAAACAATATA
1 TTAAAACAGTATA
*
47615892 TTATAA-A-T-T-
1 TTAAAACAGTATA
47615901 TTAAAACAGTATA
1 TTAAAACAGTATA
*
47615914 TTAAAATAGTATA
1 TTAAAACAGTATA
47615927 TTA
1 TTA
47615930 CAGTAAAAAT
Statistics
Matches: 188, Mismatches: 39, Indels: 50
0.68 0.14 0.18
Matches are distributed among these distances:
7 2 0.01
9 11 0.06
10 10 0.05
11 12 0.06
12 10 0.05
13 100 0.53
14 39 0.21
15 3 0.02
16 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (13 bp):
TTAAAACAGTATA
Found at i:47615756 original size:79 final size:79
Alignment explanation
Indices: 47615625--47615788 Score: 283
Period size: 79 Copynumber: 2.1 Consensus size: 79
47615615 TGTGTTACAA
* * *
47615625 ATTAAATGTATATTTATAACAGTATATTAAAATTTAAAATTTAAAACATTATATTAAAACAATAT
1 ATTAAATGTATATTTATAACAGTATACTAAAAGTTAAAAGTTAAAACATTATATTAAAACAATAT
47615690 AATTATAACAGTAT
66 AATTATAACAGTAT
*
47615704 ATTAAATGTATATTTATAACAGTATACTAGAAGTTAAAAGTTAAAACATTATATTAAAACAATAT
1 ATTAAATGTATATTTATAACAGTATACTAAAAGTTAAAAGTTAAAACATTATATTAAAACAATAT
*
47615769 AATTATAATAGTAT
66 AATTATAACAGTAT
47615783 ATTAAA
1 ATTAAA
47615789 ACAATATATT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (79 bp):
ATTAAATGTATATTTATAACAGTATACTAAAAGTTAAAAGTTAAAACATTATATTAAAACAATAT
AATTATAACAGTAT
Found at i:47615791 original size:27 final size:26
Alignment explanation
Indices: 47615633--47615929 Score: 171
Period size: 27 Copynumber: 11.8 Consensus size: 26
47615623 AAATTAAATG
*
47615633 TATATTTATAACAGTATATTAAAATTTAA
1 TATA-TTATAACAGTATATTAAAA--CAA
* * *
47615662 AAT-TTAAAACATTATATTAAAACAA
1 TATATTATAACAGTATATTAAAACAA
***
47615687 TATAATTATAACAGTATATTAAATGTA
1 TAT-ATTATAACAGTATATTAAAACAA
* **
47615714 TAT-TTATAACAGTATACTAGAAGTTAA
1 TATATTATAACAGTATATTA-AA-ACAA
* *
47615741 -A-AGTTAAAACATTATATTAAAACAA
1 TATA-TTATAACAGTATATTAAAACAA
*
47615766 TATAATTATAATAGTATATTAAAACAA
1 TAT-ATTATAACAGTATATTAAAACAA
* * * * * *
47615793 TATATTAAAAAAGTAAATTTATAATAG
1 TATATTATAACAGTATA-TTAAAACAA
*
47615820 TATATTAAAACAGTATATT---ACAA
1 TATATTATAACAGTATATTAAAACAA
*
47615843 -ATTTTATAACAGTATATTAAAAC-A
1 TATATTATAACAGTATATTAAAACAA
47615867 TATA--AT---AGTATATTAAAACAA
1 TATATTATAACAGTATATTAAAACAA
*
47615888 TATATTATAA-A-T-T-TTAAAACAG
1 TATATTATAACAGTATATTAAAACAA
* *
47615910 TATATTAAAATAGTATATTA
1 TATATTATAACAGTATATTA
47615930 CAGTAAAAAT
Statistics
Matches: 209, Mismatches: 36, Indels: 49
0.71 0.12 0.17
Matches are distributed among these distances:
20 13 0.06
21 5 0.02
22 33 0.16
23 8 0.04
24 3 0.01
25 27 0.13
26 22 0.11
27 95 0.45
28 1 0.00
29 2 0.01
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (26 bp):
TATATTATAACAGTATATTAAAACAA
Found at i:47615799 original size:40 final size:40
Alignment explanation
Indices: 47615665--47615870 Score: 157
Period size: 40 Copynumber: 5.3 Consensus size: 40
47615655 AATTTAAAAT
*
47615665 TTAAAACATTATATTAAAACAATATAATTATAACAGTATA
1 TTAAAACAATATATTAAAACAATATAATTATAACAGTATA
*** * * * * *
47615705 TTAAATGTATAT-TTATAACAGTAT-ACTA-GA-AGTTAAAA
1 TTAAAACAATATATTAAAACAATATAATTATAACAG-T-ATA
* *
47615743 GTTAAAACATTATATTAAAACAATATAATTATAATAGTATA
1 -TTAAAACAATATATTAAAACAATATAATTATAACAGTATA
*
47615784 TTAAAACAATATATTAAAA-AAGTA-AATTTATAATAGTATA
1 TTAAAACAATATATTAAAACAA-TATAA-TTATAACAGTATA
* *
47615824 TTAAAACAGTATATT---ACAA-AT-TTTATAACAGTATA
1 TTAAAACAATATATTAAAACAATATAATTATAACAGTATA
47615859 TTAAAAC-ATATA
1 TTAAAACAATATA
47615871 ATAGTATATT
Statistics
Matches: 132, Mismatches: 23, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
34 4 0.03
35 19 0.14
36 3 0.02
37 3 0.02
38 7 0.05
39 22 0.17
40 65 0.49
41 5 0.04
42 2 0.02
43 2 0.02
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (40 bp):
TTAAAACAATATATTAAAACAATATAATTATAACAGTATA
Found at i:47615875 original size:55 final size:55
Alignment explanation
Indices: 47615812--47615919 Score: 189
Period size: 55 Copynumber: 2.0 Consensus size: 55
47615802 AAAGTAAATT
* *
47615812 TATAATAGTATATTAAAACAGTATATTACAAATTTTATAACAGTATATTAAAACA
1 TATAATAGTATATTAAAACAATATATTACAAATTTTAAAACAGTATATTAAAACA
*
47615867 TATAATAGTATATTAAAACAATATATTATAAATTTTAAAACAGTATATTAAAA
1 TATAATAGTATATTAAAACAATATATTACAAATTTTAAAACAGTATATTAAAA
47615920 TAGTATATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.37
Consensus pattern (55 bp):
TATAATAGTATATTAAAACAATATATTACAAATTTTAAAACAGTATATTAAAACA
Found at i:47615876 original size:20 final size:21
Alignment explanation
Indices: 47615828--47615891 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
47615818 AGTATATTAA
***
47615828 AACAGTATATTACAAATTTTAT
1 AACAGTATATTA-AAACAATAT
47615850 AACAGTATATTAAAAC-ATAT
1 AACAGTATATTAAAACAATAT
*
47615870 AATAGTATATTAAAACAATAT
1 AACAGTATATTAAAACAATAT
47615891 A
1 A
47615892 TTATAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.47
21 8 0.21
22 12 0.32
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (21 bp):
AACAGTATATTAAAACAATAT
Found at i:47615906 original size:22 final size:21
Alignment explanation
Indices: 47615879--47615920 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
47615869 TAATAGTATA
47615879 TTAAAACAATATATTATAAATT
1 TTAAAACAATATATTA-AAATT
*
47615901 TTAAAACAGTATATTAAAAT
1 TTAAAACAATATATTAAAAT
47615921 AGTATATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
TTAAAACAATATATTAAAATT
Found at i:47617270 original size:29 final size:30
Alignment explanation
Indices: 47617238--47617305 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
47617228 CACAACCATT
* *
47617238 AACAACATTAACAGC-AAAATCCAAATCAG
1 AACAACATTAACAGCAAAAATCAAAATCAC
*
47617267 AACACCATTAACAGCAAAAATCAAAATCAC
1 AACAACATTAACAGCAAAAATCAAAATCAC
47617297 AACCAACAT
1 AA-CAACAT
47617306 CAAAAAGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 14 0.42
30 14 0.42
31 5 0.15
ACGTcount: A:0.56, C:0.26, G:0.04, T:0.13
Consensus pattern (30 bp):
AACAACATTAACAGCAAAAATCAAAATCAC
Found at i:47617870 original size:75 final size:75
Alignment explanation
Indices: 47617780--47617930 Score: 293
Period size: 75 Copynumber: 2.0 Consensus size: 75
47617770 TTTCGGGCGG
*
47617780 GCCTTCGGGCCGGGCCGGGTCGCCCGGCCCATGAGCACCTCTAGTTCAGAGGTAGCAATAGTTAC
1 GCCTTCGGGCCGGGCCGGGTCCCCCGGCCCATGAGCACCTCTAGTTCAGAGGTAGCAATAGTTAC
47617845 TGATGAGGAT
66 TGATGAGGAT
47617855 GCCTTCGGGCCGGGCCGGGTCCCCCGGCCCATGAGCACCTCTAGTTCAGAGGTAGCAATAGTTAC
1 GCCTTCGGGCCGGGCCGGGTCCCCCGGCCCATGAGCACCTCTAGTTCAGAGGTAGCAATAGTTAC
47617920 TGATGAGGAT
66 TGATGAGGAT
47617930 G
1 G
47617931 TACATGCAGA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (75 bp):
GCCTTCGGGCCGGGCCGGGTCCCCCGGCCCATGAGCACCTCTAGTTCAGAGGTAGCAATAGTTAC
TGATGAGGAT
Found at i:47618254 original size:37 final size:37
Alignment explanation
Indices: 47618193--47618458 Score: 392
Period size: 37 Copynumber: 7.0 Consensus size: 37
47618183 TACGTATGAT
* *
47618193 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
47618228 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47618265 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47618302 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47618339 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
47618376 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T--AGC
*
47618419 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 ---CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
47618459 TAAAGCTATC
Statistics
Matches: 215, Mismatches: 5, Indels: 17
0.91 0.02 0.07
Matches are distributed among these distances:
35 9 0.04
36 3 0.01
37 159 0.74
39 2 0.01
40 4 0.02
41 1 0.00
42 1 0.00
43 4 0.02
44 2 0.01
46 30 0.14
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:47618429 original size:46 final size:46
Alignment explanation
Indices: 47618376--47618788 Score: 520
Period size: 46 Copynumber: 8.6 Consensus size: 46
47618366 TAAGTGTAGC
* *
47618376 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
47618422 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * * *
47618468 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
47618514 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
47618566 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
47618612 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* *
47618664 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
47618710 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
47618762 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
47618789 AGTACTCAAA
Statistics
Matches: 327, Mismatches: 22, Indels: 36
0.85 0.06 0.09
Matches are distributed among these distances:
46 198 0.61
48 2 0.01
49 2 0.01
50 2 0.01
52 123 0.38
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:47618576 original size:98 final size:98
Alignment explanation
Indices: 47618376--47618788 Score: 667
Period size: 98 Copynumber: 4.3 Consensus size: 98
47618366 TAAGTGTAGC
* * **
47618376 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
47618435 GTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
* * *
47618468 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGTAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
47618533 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
47618566 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
47618631 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
47618664 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
*
47618729 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
47618762 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
47618789 AGTACTCAAA
Statistics
Matches: 303, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
92 52 0.17
94 1 0.00
98 250 0.83
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:47621977 original size:49 final size:50
Alignment explanation
Indices: 47621922--47622181 Score: 290
Period size: 58 Copynumber: 4.9 Consensus size: 50
47621912 TTCGTTTTCT
* * *
47621922 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACACAATCACTTAC
* * *
47621971 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACACAATCACTTAC
47622020 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACAC-G--T---A-ATCACACA-ATCACTTAC
47622078 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACAC-G--T---A-ATCACACA-ATCACTTAC
* *
47622136 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACACAATCAC
47622182 ATGTTCACAT
Statistics
Matches: 193, Mismatches: 9, Indels: 17
0.88 0.04 0.08
Matches are distributed among these distances:
49 74 0.38
50 6 0.03
51 7 0.04
52 1 0.01
55 1 0.01
56 6 0.03
57 1 0.01
58 97 0.50
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACACAATCACTTAC
Found at i:47622092 original size:58 final size:58
Alignment explanation
Indices: 47622006--47622182 Score: 345
Period size: 58 Copynumber: 3.0 Consensus size: 58
47621996 TACACGAAAT
47622006 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
47622064 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
47622122 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
47622181 CA
1 CA
47622183 TGTTCACATG
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
58 112 0.95
59 6 0.05
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (58 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCA
Found at i:47627821 original size:19 final size:19
Alignment explanation
Indices: 47627787--47627837 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
47627777 TAATTTTATA
*
47627787 ATTTATTAGATTTTTATAAT
1 ATTTATAAG-TTTTTATAAT
47627807 ATTTATAAGTTTTTATAAT
1 ATTTATAAGTTTTTATAAT
* *
47627826 TTTTTTAAGTTT
1 ATTTATAAGTTT
47627838 ATATCATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (19 bp):
ATTTATAAGTTTTTATAAT
Found at i:47627828 original size:9 final size:9
Alignment explanation
Indices: 47627780--47627908 Score: 68
Period size: 9 Copynumber: 13.9 Consensus size: 9
47627770 GGTTTGTTAA
47627780 TTTTATAAT
1 TTTTATAAT
*
47627789 TTATTA-GAT
1 TT-TTATAAT
47627798 TTTTATAAT
1 TTTTATAAT
*
47627807 ATTTATAAGT
1 TTTTATAA-T
47627817 TTTTATAAT
1 TTTTATAAT
*
47627826 TTTTTTAAGT
1 TTTTATAA-T
* *
47627836 TTATATCAT
1 TTTTATAAT
47627845 TTTTA-ATAT
1 TTTTATA-AT
**
47627854 TAATATTAAT
1 TTTTA-TAAT
47627864 ATTTT-T-AT
1 -TTTTATAAT
47627872 TTTTATAAT
1 TTTTATAAT
* *
47627881 TTTTCTGAT
1 TTTTATAAT
*
47627890 TTTTCTAAT
1 TTTTATAAT
47627899 ACTTTTATAA
1 --TTTTATAA
47627909 GAAAAATATT
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
7 4 0.04
8 6 0.07
9 51 0.57
10 19 0.21
11 10 0.11
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:47627846 original size:19 final size:19
Alignment explanation
Indices: 47627801--47627848 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
47627791 ATTAGATTTT
* * *
47627801 TATAATATTTATAAGTTTT
1 TATAATTTTTTTAAGTTTA
47627820 TATAATTTTTTTAAGTTTA
1 TATAATTTTTTTAAGTTTA
*
47627839 TATCATTTTT
1 TATAATTTTT
47627849 AATATTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (19 bp):
TATAATTTTTTTAAGTTTA
Found at i:47628283 original size:27 final size:27
Alignment explanation
Indices: 47628252--47628307 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
47628242 TTTAATAGAT
*
47628252 AATTTTAATTGTATTAATAATTTTTAA
1 AATTTTAATTGTATTAACAATTTTTAA
47628279 AATTTTAATTGTATTAACAATTTTTAA
1 AATTTTAATTGTATTAACAATTTTTAA
47628306 AA
1 AA
47628308 ATTACATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (27 bp):
AATTTTAATTGTATTAACAATTTTTAA
Found at i:47628322 original size:27 final size:27
Alignment explanation
Indices: 47628256--47628322 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
47628246 ATAGATAATT
* * *
47628256 TTAATTGTATTAATAATTTTTAAAATT
1 TTAATTATATTAACAATTTTTAAAATA
*
47628283 TTAATTGTATTAACAATTTTTAAAA-A
1 TTAATTATATTAACAATTTTTAAAATA
*
47628309 TTACATTATTTTAA
1 TTA-ATTATATTAA
47628323 TCAAAACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (27 bp):
TTAATTATATTAACAATTTTTAAAATA
Found at i:47638869 original size:22 final size:22
Alignment explanation
Indices: 47638844--47638887 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
47638834 TTTTTTTAAA
47638844 CACATTTCTTTTCCCGTCCCCC
1 CACATTTCTTTTCCCGTCCCCC
47638866 CACATTTCTTTTCCCGTCCCCC
1 CACATTTCTTTTCCCGTCCCCC
47638888 TCACTCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.50, G:0.05, T:0.36
Consensus pattern (22 bp):
CACATTTCTTTTCCCGTCCCCC
Found at i:47640255 original size:13 final size:13
Alignment explanation
Indices: 47640239--47640288 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
47640229 ATAGCCATTA
*
47640239 TTTCTTACATTTG
1 TTTCTTACATTTC
47640252 TTTCTGTA-ATTTC
1 TTTCT-TACATTTC
47640265 TTTCTTACA-TTC
1 TTTCTTACATTTC
47640277 TTTCTTACATTT
1 TTTCTTACATTT
47640289 GTATTTATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 14 0.42
13 17 0.52
14 2 0.06
ACGTcount: A:0.16, C:0.18, G:0.04, T:0.62
Consensus pattern (13 bp):
TTTCTTACATTTC
Found at i:47640279 original size:12 final size:12
Alignment explanation
Indices: 47640234--47640287 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
47640224 TATGCATAGC
*
47640234 CATTATTTCTTA
1 CATTCTTTCTTA
*
47640246 CATTTGTTTCTGTA
1 CA-TTCTTTCT-TA
47640260 -ATTTCTTTCTTA
1 CA-TTCTTTCTTA
47640272 CATTCTTTCTTA
1 CATTCTTTCTTA
47640284 CATT
1 CATT
47640288 TGTATTTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 18 0.49
13 17 0.46
14 2 0.05
ACGTcount: A:0.19, C:0.19, G:0.04, T:0.59
Consensus pattern (12 bp):
CATTCTTTCTTA
Found at i:47642907 original size:67 final size:66
Alignment explanation
Indices: 47642791--47642921 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 66
47642781 TTTCCATTTT
47642791 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTGC
1 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTGC
47642856 A
66 A
* *
47642857 AGAGAGCACACTCCCGTGAACCTCATTCCTTACAGTGGGATTACCAGTCCAGGTTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCA-TCCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTG
47642922 TAATATAAAC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
66 24 0.39
67 38 0.61
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.21
Consensus pattern (66 bp):
AGAGAGCACACTCCCGCGAACCTCATCCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTGC
A
Found at i:47647026 original size:23 final size:23
Alignment explanation
Indices: 47646994--47647037 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
47646984 ACTACCATTT
47646994 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
47647017 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
47647038 ATAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:47647030 original size:13 final size:11
Alignment explanation
Indices: 47646998--47647040 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
47646988 CCATTTTCTA
*
47646998 AATAAAATAAT
1 AATAAAATATT
47647009 AAT-AAATATCT
1 AATAAAATAT-T
47647020 AAGTAAAATATT
1 AA-TAAAATATT
47647032 AATAAAATA
1 AATAAAATA
47647041 AATTTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:47656042 original size:37 final size:37
Alignment explanation
Indices: 47656001--47656156 Score: 95
Period size: 37 Copynumber: 4.2 Consensus size: 37
47655991 CTTATCTTTA
*
47656001 ATGTTTTAAAAATTATTTAATTTTTTAGAATATTTTC
1 ATGTTTTAAAAATTATTTAATTTCTTAGAATATTTTC
* ** * ** * *
47656038 ATGTTTTAAGAACCACTTAATTTCACAGCATCTTTTC
1 ATGTTTTAAAAATTATTTAATTTCTTAGAATATTTTC
* * * **
47656075 ATGTTTT-AAAATTCTTTCATGTTTTTAGTAAT-TATTAA
1 ATGTTTTAAAAATTATTTAAT-TTCTTAG-AATAT-TTTC
* * * *
47656113 ATGTTTTAGAAATTA-TTAATTTCTTAAAAAAATTT-
1 ATGTTTTAAAAATTATTTAATTTCTTAGAATATTTTC
47656148 ATGTTTTAA
1 ATGTTTTAA
47656157 GTAATATGTA
Statistics
Matches: 84, Mismatches: 30, Indels: 12
0.67 0.24 0.10
Matches are distributed among these distances:
35 8 0.10
36 11 0.13
37 45 0.54
38 15 0.18
39 5 0.06
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.51
Consensus pattern (37 bp):
ATGTTTTAAAAATTATTTAATTTCTTAGAATATTTTC
Found at i:47656116 original size:20 final size:19
Alignment explanation
Indices: 47656075--47656131 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
47656065 GCATCTTTTC
* **
47656075 ATGTTTTA-AAATTCTTTC
1 ATGTTTTAGAAATTATTAA
*
47656093 ATGTTTTTAGTAATTATTAA
1 ATG-TTTTAGAAATTATTAA
47656113 ATGTTTTAGAAATTATTAA
1 ATGTTTTAGAAATTATTAA
47656132 TTTCTTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 3 0.09
19 20 0.62
20 9 0.28
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.53
Consensus pattern (19 bp):
ATGTTTTAGAAATTATTAA
Found at i:47659944 original size:17 final size:16
Alignment explanation
Indices: 47659917--47659951 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
47659907 TTGTTTTTGC
47659917 TTTTGCTGCATGACAT
1 TTTTGCTGCATGACAT
*
47659933 TTTTGACTGCATGGCAT
1 TTTTG-CTGCATGACAT
47659950 TT
1 TT
47659952 CATCATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (16 bp):
TTTTGCTGCATGACAT
Found at i:47662344 original size:19 final size:19
Alignment explanation
Indices: 47662320--47662359 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47662310 GCAAATGTTC
47662320 TTTCATT-TTTTACGATTTT
1 TTTCATTCTTTT-CGATTTT
*
47662339 TTTCATTCTTTTGGATTTT
1 TTTCATTCTTTTCGATTTT
47662358 TT
1 TT
47662360 CTGCCAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTCATTCTTTTCGATTTT
Found at i:47663309 original size:14 final size:13
Alignment explanation
Indices: 47663290--47663331 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
47663280 AGTGATGTGA
47663290 AAAATGAAAAGATG
1 AAAATGAAAA-ATG
47663304 AAAATGAAAAATG
1 AAAATGAAAAATG
*
47663317 AAGAA-GTAAAATG
1 AA-AATGAAAAATG
47663330 AA
1 AA
47663332 GAGGCTAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:47663311 original size:21 final size:20
Alignment explanation
Indices: 47663287--47663331 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
47663277 AGTAGTGATG
47663287 TGAAAAATGAA-AAGATGAAAA
1 TGAAAAATGAAGAAG-T-AAAA
47663308 TGAAAAATGAAGAAGTAAAA
1 TGAAAAATGAAGAAGTAAAA
47663328 TGAA
1 TGAA
47663332 GAGGCTAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.35
21 12 0.52
22 3 0.13
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (20 bp):
TGAAAAATGAAGAAGTAAAA
Found at i:47664742 original size:89 final size:90
Alignment explanation
Indices: 47664591--47664931 Score: 564
Period size: 89 Copynumber: 3.8 Consensus size: 90
47664581 GTAGCAGTAA
* ** * * *
47664591 ATCTTGTCTTGCCATACTGGTGGTAAAGTAGATCGAA-AAAAGCAGATCTTATCTTCATGTACTA
1 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAAGCAGATCTTGTCTTCATGTACTG
47664655 GCGTGAAGTAGATCAAAGATAACAG
66 GCGTGAAGTAGATCAAAGATAACAG
* *
47664680 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAA-TAGATATTGTCTTCATGTACTG
1 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAAGCAGATCTTGTCTTCATGTACTG
*
47664744 GCGTGAAGTCGATCAAAGATAACAG
66 GCGTGAAGTAGATCAAAGATAACAG
*
47664769 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAA-TAGATCTTGTCTTCATGTACTG
1 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAAGCAGATCTTGTCTTCATGTACTG
47664833 GCGTGAAGTAGATCAAAGATAACAG
66 GCGTGAAGTAGATCAAAGATAACAG
47664858 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTACTG
1 ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAAGCAGATCTTGTCTTCATGTACTG
47664922 GCGTGAAGTA
66 GCGTGAAGTA
47664932 NNNNNNNNNN
Statistics
Matches: 238, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
88 2 0.01
89 233 0.98
90 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (90 bp):
ATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATAAGCAGATCTTGTCTTCATGTACTG
GCGTGAAGTAGATCAAAGATAACAG
Found at i:47664921 original size:45 final size:45
Alignment explanation
Indices: 47664605--47664931 Score: 351
Period size: 45 Copynumber: 7.4 Consensus size: 45
47664595 TGTCTTGCCA
* * *
47664605 TACTGGTGGTAAAGTAGATCGAA-AAAAGCAGATCTTATCTTCATG
1 TACTGGTGGTGAAGTAGATCGAAGATAA-CAGATCTTGTCTTCATG
* * * ***
47664650 TACTAG-CGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCA
1 TACTGGTGGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATG
* * *
47664694 TACTGGTGGCGAAGTAGATCGAAGATAATAGATATTGTCTTCATG
1 TACTGGTGGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATG
* * * ***
47664739 TACTGG-CGTGAAGTCGATCAAAGATAACAGATCTTGTCTTCCCA
1 TACTGGTGGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATG
* *
47664783 TACTGGTGGCGAAGTAGATCGAAGATAATAGATCTTGTCTTCATG
1 TACTGGTGGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATG
* * ***
47664828 TACTGG-CGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCA
1 TACTGGTGGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATG
*
47664872 TACTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATG
1 TACTGGTGGTGAAGTAGATCGAAGATAA-CAGATCTTGTCTTCATG
*
47664917 TACTGG-CGTGAAGTA
1 TACTGGTGGTGAAGTA
47664932 NNNNNNNNNN
Statistics
Matches: 227, Mismatches: 50, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
44 112 0.49
45 115 0.51
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (45 bp):
TACTGGTGGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCATG
Found at i:47668818 original size:21 final size:21
Alignment explanation
Indices: 47668794--47668883 Score: 110
Period size: 21 Copynumber: 4.3 Consensus size: 21
47668784 GCTTCTATTG
47668794 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
47668815 CTGCTTCTCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
47668836 CTGCTTCTCTCACTGTAGCCGT
1 CTGCTTCTCTCGCTGCAGCC-T
* * *
47668858 -TGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCGCTGCAGCCT
47668878 CTGCTT
1 CTGCTT
47668884 TAAGTTGCTG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
20 1 0.02
21 56 0.97
22 1 0.02
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.34
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:47668862 original size:42 final size:42
Alignment explanation
Indices: 47668794--47668883 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
47668784 GCTTCTATTG
* * *
47668794 CTGCTTCTCTCGCTGCAGCCTCTGCTTCTCTCGCTGCCGCCT
1 CTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCGCTGCCGCAT
*
47668836 CTGCTTCTCTCACTGTAGCCGT-TGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCACTGCAGCC-TCTGCTTCCCTCGCTGCCGCAT
47668878 CTGCTT
1 CTGCTT
47668884 TAAGTTGCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.34
Consensus pattern (42 bp):
CTGCTTCTCTCACTGCAGCCTCTGCTTCCCTCGCTGCCGCAT
Found at i:47670433 original size:9 final size:9
Alignment explanation
Indices: 47670419--47670485 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
47670409 CCCTTATAAT
47670419 TTATGTAAG
1 TTATGTAAG
47670428 TTATGTAAG
1 TTATGTAAG
* * *
47670437 ATATTTAAT
1 TTATGTAAG
*
47670446 TTACT-TAAT
1 TTA-TGTAAG
47670455 TTATGTAAG
1 TTATGTAAG
47670464 TTATGTAA-
1 TTATGTAAG
*
47670472 TTAATGTAAC
1 TT-ATGTAAG
47670482 TTAT
1 TTAT
47670486 TTAATTTGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
8 3 0.06
9 43 0.88
10 3 0.06
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:47670458 original size:27 final size:27
Alignment explanation
Indices: 47670415--47670485 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
47670405 CTTTCCCTTA
*
47670415 TAATTTATGTAAGTTATGTAAGATATT
1 TAATTTATGTAAGTTATGTAAGATATG
* *
47670442 TAATTTACT-TAATTTATGTAAGTTATG
1 TAATTTA-TGTAAGTTATGTAAGATATG
* *
47670469 TAATTAATGTAACTTAT
1 TAATTTATGTAAGTTAT
47670486 TTAATTTGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.03
27 35 0.95
28 1 0.03
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (27 bp):
TAATTTATGTAAGTTATGTAAGATATG
Done.