Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 302 of 311
Found at i:98332669 original size:4 final size:4
Alignment explanation
Indices: 98332652--98332682 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
98332642 TCTCTGTTAG
*
98332652 TCTT TCTA TCTT TCTT TCTT TCTT TCTT TCT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
98332683 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (4 bp):
TCTT
Found at i:98332714 original size:50 final size:50
Alignment explanation
Indices: 98332612--98332714 Score: 163
Period size: 50 Copynumber: 2.1 Consensus size: 50
98332602 TATTTATTTA
* *
98332612 TTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAGTCTTTCTATC
1 TTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTCTTTCTATC
*
98332662 TTTCTTTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAACT-TTTCTATTC
1 TTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTCTTTCTA-TC
98332712 TTT
1 TTT
98332715 ACTCATTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
49 6 0.12
50 43 0.88
ACGTcount: A:0.07, C:0.26, G:0.07, T:0.60
Consensus pattern (50 bp):
TTTCTTTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTAACTCTTTCTATC
Found at i:98332726 original size:14 final size:14
Alignment explanation
Indices: 98332707--98332737 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
98332697 GTAACTTTTC
98332707 TATTCTTTACTCAT
1 TATTCTTTACTCAT
*
98332721 TATTCTTTATTCAT
1 TATTCTTTACTCAT
98332735 TAT
1 TAT
98332738 ACTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTCTTTACTCAT
Found at i:98333927 original size:46 final size:46
Alignment explanation
Indices: 98333875--98334095 Score: 316
Period size: 46 Copynumber: 4.8 Consensus size: 46
98333865 AGTGTGCTCT
*
98333875 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
98333921 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
98333967 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
98334013 CTGACATGAAAAGAGTAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * *
98334059 ATGACAAAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATAC
98334096 TATGACATCA
Statistics
Matches: 160, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 160 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:98335107 original size:116 final size:116
Alignment explanation
Indices: 98334902--98335461 Score: 987
Period size: 116 Copynumber: 4.8 Consensus size: 116
98334892 GGGGTGTTAC
98334902 ATAAAGTAATTGTAATTTACTTTTATATTTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
1 ATAAAGTAATTGTAATTTACTTTTATA-TTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
*
98334967 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAA
65 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAA
* *
98335019 ATAAAGTAATTATAATTTACTTTTATATTTTTAGTAAAATGGAAATTATTTTAAATAAGGCAACA
1 ATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACA
* *
98335084 TTTTAAATATTTTTAAATTATTTCATGTAATTAGATAAAAGGTTGTTTTAA
66 TTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAA
98335135 ATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACA
1 ATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACA
98335200 TTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAA
66 TTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAA
*
98335251 ATAAAGTAATTGTAATTTACTATTATATTTTTAATAAAATGGAAATTATTTTAAAT-AGGCAACA
1 ATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACA
* * *
98335315 TTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAA
66 TTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAA
* * * *
98335366 ATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAATA
1 ATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACA
98335431 TTTTGAATATTTTTATATTATTTCATGTAAT
66 TTTTGAATATTTTTATATTATTTCATGTAAT
98335462 AAAATATAAA
Statistics
Matches: 423, Mismatches: 19, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
115 109 0.26
116 288 0.68
117 26 0.06
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (116 bp):
ATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACA
TTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAA
Found at i:98335304 original size:54 final size:54
Alignment explanation
Indices: 98335245--98335425 Score: 152
Period size: 54 Copynumber: 3.2 Consensus size: 54
98335235 TAAAAGGTTG
* *
98335245 TTTTAAATAAAGTAATTGTAATTTACTATTATATTTTTAATAAAATGGAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTATTATATTTTTAATAAAATGAAAATTA
* * * ** * * *
98335299 TTTTAAAT-AGGCAACATTTTGAATATTTTTA-TATTATTTCATGTGATAATAT-AAAAGGTTG
1 TTTTAAATAAAG-TA-ATTAT-AAT-TTACTATTA-TATTT--T-TAATAAAATGAAAA--TTA
*
98335360 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTATTATATTTTTAATAAAATGAAAATTA
98335414 TTTTAAATAAAG
1 TTTTAAATAAAG
98335426 CAATATTTTG
Statistics
Matches: 96, Mismatches: 18, Indels: 26
0.69 0.13 0.19
Matches are distributed among these distances:
53 2 0.02
54 23 0.24
55 11 0.11
56 10 0.10
57 9 0.09
58 8 0.08
59 9 0.09
60 11 0.11
61 11 0.11
62 2 0.02
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (54 bp):
TTTTAAATAAAGTAATTATAATTTACTATTATATTTTTAATAAAATGAAAATTA
Found at i:98337136 original size:23 final size:25
Alignment explanation
Indices: 98337110--98337156 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
98337100 TATCATTCAT
*
98337110 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
98337133 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
98337157 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:98337317 original size:13 final size:13
Alignment explanation
Indices: 98337299--98337328 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
98337289 TTCTTGTAAA
98337299 CATTTCATACAAC
1 CATTTCATACAAC
*
98337312 CATTTCATATAAC
1 CATTTCATACAAC
98337325 CATT
1 CATT
98337329 CGTCATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCATACAAC
Found at i:98337477 original size:46 final size:46
Alignment explanation
Indices: 98337417--98337720 Score: 354
Period size: 46 Copynumber: 7.0 Consensus size: 46
98337407 TTTAACGTGG
* * * * * * *
98337417 TGCCATAGTGTCTTTCAACTATTGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
98337463 TGCCATGGTATCTTTCAACCATGGTCTCATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
98337509 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
98337555 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
98337601 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
98337639 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
98337677 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
98337721 AGAGCATACT
Statistics
Matches: 232, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
38 70 0.30
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 6 0.03
46 147 0.63
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:98337710 original size:38 final size:38
Alignment explanation
Indices: 98337597--98337710 Score: 219
Period size: 38 Copynumber: 3.0 Consensus size: 38
98337587 ATTTCATATC
*
98337597 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAC
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
98337635 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
98337673 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
98337711 TTCATATCAG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:98342343 original size:126 final size:126
Alignment explanation
Indices: 98342111--98342648 Score: 801
Period size: 126 Copynumber: 4.3 Consensus size: 126
98342101 GCCCAAGTTA
* * *
98342111 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGTTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
** *
98342176 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATACAGACACGCCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
* * * * * * *
98342237 TTTCAAAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGTTAAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
**
98342302 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGTAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCACAGACACGTCTTCTCAAAATTATTT
* * *
98342363 TTTCAGAGACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
98342428 TGCATCCTGTTTGAAGCGTTTTTTATACTATTTGCACAGACACGTCTTCTCAAAATTA-TT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
* *
98342488 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
98342553 TGCATCCTGCTTGAACCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
* *
98342614 TTTCAGATACTATTGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
98342649 AGAAGCTTTT
Statistics
Matches: 374, Mismatches: 35, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
125 117 0.31
126 256 0.68
127 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
Found at i:98342635 original size:251 final size:252
Alignment explanation
Indices: 98342111--98342656 Score: 826
Period size: 251 Copynumber: 2.2 Consensus size: 252
98342101 GCCCAAGTTA
* * * *
98342111 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGTTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
*
98342176 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATACAGACACGCCTTCTCAAAATTATTTTTTC
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACACAGACACGCCTTCTCAAAATTATTTTTTC
*
98342241 AAAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGTTAAAAATGCA
131 AAAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTAAAAATGCA
* *
98342306 TCCTGCTTGAAGCGTTTTTACCACTATTTGCGTAGACACGTCTTCTCAAAATTATTT
196 TCCTGCTTGAACCGTTTTTACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
98342363 TTTCAGAGACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * * *
98342428 TGCATCCTGTTTGAAGCGTTTTTTATACTATTTGCACAGACACGTCTTCTCAAAATTA-TTTTTC
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACACAGACACGCCTTCTCAAAATTATTTTTTC
* * * * * * * *
98342492 AGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGCA
131 AAAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTAAAAATGCA
*
98342557 TCCTGCTTGAACCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
196 TCCTGCTTGAACCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
98342614 TTTCAGATACTATTGTAGCAAAAGAGCGTCCACGTAGAAGCTT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTT
98342657 TTTTAGATTA
Statistics
Matches: 265, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
251 153 0.58
252 112 0.42
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (252 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACACAGACACGCCTTCTCAAAATTATTTTTTC
AAAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTAAAAATGCA
TCCTGCTTGAACCGTTTTTACCACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:98342905 original size:96 final size:98
Alignment explanation
Indices: 98342759--98342934 Score: 252
Period size: 96 Copynumber: 1.8 Consensus size: 98
98342749 CCTAAAATTC
* ** *
98342759 TAATCTAATTTTTTTAAAATTTATAATTAATTTACTAAAGTAACCATAAACCCTAATTTATTTGA
1 TAATCTAATTTTTTTAAAATTTATAATTAATTTAATAAACAAACCATAAACCCTAATTTATTTAA
98342824 -TTTTTTCCTTAAAAACCATAAACACTAAACCA
66 TTTTTTTCCTTAAAAACCATAAACACTAAACCA
* *
98342856 TAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAACAAA-CACTAAACCTTAATTTATTT
1 TAATCTAATTTTTTTAAAATTTA-TAATTAATTTAATAAACAAACCA-TAAACCCTAATTTATTT
98342918 AATTTTTTTCCTTAAAA
64 AATTTTTTTCCTTAAAA
98342935 CCCTAAAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
95 5 0.07
96 43 0.61
97 22 0.31
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.43
Consensus pattern (98 bp):
TAATCTAATTTTTTTAAAATTTATAATTAATTTAATAAACAAACCATAAACCCTAATTTATTTAA
TTTTTTTCCTTAAAAACCATAAACACTAAACCA
Found at i:98342950 original size:16 final size:17
Alignment explanation
Indices: 98342928--98342972 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
98342918 AATTTTTTTC
98342928 CTTAAAACCCTAAAATT
1 CTTAAAACCCTAAAATT
98342945 -TTAAAA-CCTAAAATT
1 CTTAAAACCCTAAAATT
*
98342960 CTCAAAACCCTAA
1 CTTAAAACCCTAA
98342973 TCCTAATTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 9 0.36
16 11 0.44
17 5 0.20
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (17 bp):
CTTAAAACCCTAAAATT
Found at i:98360691 original size:13 final size:13
Alignment explanation
Indices: 98360673--98360697 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98360663 ATTAGCTTGA
98360673 ATGAAACATGTTC
1 ATGAAACATGTTC
98360686 ATGAAACATGTT
1 ATGAAACATGTT
98360698 TCTGGTTGCA
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:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGAAACATGTTC
Found at i:98361071 original size:17 final size:17
Alignment explanation
Indices: 98361051--98361084 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98361041 AGATTTAGGT
98361051 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
98361068 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
98361085 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:98365916 original size:23 final size:25
Alignment explanation
Indices: 98365884--98365935 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
98365874 ATAATTTTAA
**
98365884 AAAATAATATTTTTATAAAATTC-T
1 AAAATAATATAATTATAAAATTCTT
98365908 AAAAT-ATATAATTATAAAATTCTT
1 AAAATAATATAATTATAAAATTCTT
98365932 AAAA
1 AAAA
98365936 GACATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAATAATATAATTATAAAATTCTT
Found at i:98372464 original size:18 final size:18
Alignment explanation
Indices: 98372426--98372465 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
98372416 AACCGAAATT
* *
98372426 TATTTCATAATAAGATGA
1 TATTTCATAATAAAATAA
*
98372444 TATTTTATAATAAAATAA
1 TATTTCATAATAAAATAA
98372462 TATT
1 TATT
98372466 ACTTAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (18 bp):
TATTTCATAATAAAATAA
Found at i:98375783 original size:22 final size:22
Alignment explanation
Indices: 98375758--98375801 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
98375748 ACTTTGAAGA
98375758 TTCATTCAGGAAAAAGAAAGGG
1 TTCATTCAGGAAAAAGAAAGGG
98375780 TTCATTCAGGAAAAAGAAAGGG
1 TTCATTCAGGAAAAAGAAAGGG
98375802 GCTTCAGAGA
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:0.45, C:0.09, G:0.27, T:0.18
Consensus pattern (22 bp):
TTCATTCAGGAAAAAGAAAGGG
Found at i:98376464 original size:22 final size:21
Alignment explanation
Indices: 98376429--98376479 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
98376419 ATAGTGAAAA
*
98376429 CAATTACTCTCAATT-TGAAATT
1 CAATTAGT-TCAATTCTG-AATT
98376451 CAAATTAGTTCAATTCTGAATT
1 C-AATTAGTTCAATTCTGAATT
98376473 CAATTAG
1 CAATTAG
98376480 ATCTCAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.23
22 12 0.46
23 8 0.31
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (21 bp):
CAATTAGTTCAATTCTGAATT
Found at i:98380234 original size:216 final size:216
Alignment explanation
Indices: 98379860--98380292 Score: 857
Period size: 216 Copynumber: 2.0 Consensus size: 216
98379850 CGACTAAGGT
98379860 TGAAAATAAAATAAATTAACTGGAAATATGATAAATTAAAACATGTTTATTAGGAGAGACGGAAA
1 TGAAAATAAAATAAATTAACTGGAAATATGATAAATTAAAACATGTTTATTAGGAGAGACGGAAA
98379925 GAAAATTAAATTTAAAAATTAGAAGGAAAGAAAATAAAATATTTAAAAAATATATTATTTTTAAT
66 GAAAATTAAATTTAAAAATTAGAAGGAAAGAAAATAAAATATTTAAAAAATATATTATTTTTAAT
98379990 TAATATATATGGCTCTTATCTTTTTTCTCTTATTTTTTTTCAATTTGAAAAGATTAGTTTTTTTG
131 TAATATATATGGCTCTTATCTTTTTTCTCTTATTTTTTTTCAATTTGAAAAGATTAGTTTTTTTG
98380055 CTATAGGAAGGAAATTTGTCA
196 CTATAGGAAGGAAATTTGTCA
98380076 TGAAAATAAAATAAATTAACTGGAAATATGATAAATTAAAACATGTTTATTAGGAGAGACGGAAA
1 TGAAAATAAAATAAATTAACTGGAAATATGATAAATTAAAACATGTTTATTAGGAGAGACGGAAA
98380141 GAAAATTAAATTTAAAAATTAGAAGGAAAGAAAATAAAATATTTAAAAAATATATTATTTTTAAT
66 GAAAATTAAATTTAAAAATTAGAAGGAAAGAAAATAAAATATTTAAAAAATATATTATTTTTAAT
98380206 TAATATATATGGCTCTTATCTTTTTTCTCTTATTTTTTTTCAATTTGAAAAGATTAGTTTTTTTG
131 TAATATATATGGCTCTTATCTTTTTTCTCTTATTTTTTTTCAATTTGAAAAGATTAGTTTTTTTG
*
98380271 CTTTAGGAAGGAAATTTGTCA
196 CTATAGGAAGGAAATTTGTCA
98380292 T
1 T
98380293 ACTTAGATTT
Statistics
Matches: 216, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 216 1.00
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (216 bp):
TGAAAATAAAATAAATTAACTGGAAATATGATAAATTAAAACATGTTTATTAGGAGAGACGGAAA
GAAAATTAAATTTAAAAATTAGAAGGAAAGAAAATAAAATATTTAAAAAATATATTATTTTTAAT
TAATATATATGGCTCTTATCTTTTTTCTCTTATTTTTTTTCAATTTGAAAAGATTAGTTTTTTTG
CTATAGGAAGGAAATTTGTCA
Found at i:98381920 original size:20 final size:20
Alignment explanation
Indices: 98381890--98381928 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
98381880 TAAAAAAATT
98381890 ATAATTTTTATACTTATTTTA
1 ATAATTTTTATACTT-TTTTA
98381911 ATAA-TTTTATACTTTTTT
1 ATAATTTTTATACTTTTTT
98381929 GATGTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
ATAATTTTTATACTTTTTTA
Found at i:98396374 original size:14 final size:14
Alignment explanation
Indices: 98396355--98396382 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
98396345 CATTTGTCTC
98396355 TTTTGACACAAAAT
1 TTTTGACACAAAAT
98396369 TTTTGACACAAAAT
1 TTTTGACACAAAAT
98396383 CAGATATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TTTTGACACAAAAT
Found at i:98400988 original size:47 final size:47
Alignment explanation
Indices: 98400879--98400989 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
98400869 CCGGGATAAG
*
98400879 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
98400926 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
98400973 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
98400990 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:98412639 original size:23 final size:24
Alignment explanation
Indices: 98412613--98412659 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
98412603 TGTTTAATTT
*
98412613 TCAATATT-TTAAAAAAGTAATGA
1 TCAATATTATTAAAAAAATAATGA
*
98412636 TCAATTTTAGTTAAAAAAATAATG
1 TCAATATTA-TTAAAAAAATAATG
98412660 GTTAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
25 13 0.65
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (24 bp):
TCAATATTATTAAAAAAATAATGA
Found at i:98418307 original size:142 final size:142
Alignment explanation
Indices: 98418046--98418327 Score: 555
Period size: 142 Copynumber: 2.0 Consensus size: 142
98418036 TATATTTAAA
98418046 ATAGGAATTTTTGCTTTACTCTTTAATTTAACATAATTTAATTATATTATTTTTATAATTTCATT
1 ATAGGAATTTTTGCTTTACTCTTTAATTTAACATAATTTAATTATATTATTTTTATAATTTCATT
98418111 TATTAATTCAAATAATTAATGTCAATAACTATTTCAGTAAGAATGTTAAAAGTGAATTTCACTTA
66 TATTAATTCAAATAATTAATGTCAATAACTATTTCAGTAAGAATGTTAAAAGTGAATTTCACTTA
98418176 AAATACTATTAT
131 AAATACTATTAT
*
98418188 ATAGTAATTTTTGCTTTACTCTTTAATTTAACATAATTTAATTATATTATTTTTATAATTTCATT
1 ATAGGAATTTTTGCTTTACTCTTTAATTTAACATAATTTAATTATATTATTTTTATAATTTCATT
98418253 TATTAATTCAAATAATTAATGTCAATAACTATTTCAGTAAGAATGTTAAAAGTGAATTTCACTTA
66 TATTAATTCAAATAATTAATGTCAATAACTATTTCAGTAAGAATGTTAAAAGTGAATTTCACTTA
98418318 AAATACTATT
131 AAATACTATT
98418328 TTAACATAAA
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 139 1.00
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.47
Consensus pattern (142 bp):
ATAGGAATTTTTGCTTTACTCTTTAATTTAACATAATTTAATTATATTATTTTTATAATTTCATT
TATTAATTCAAATAATTAATGTCAATAACTATTTCAGTAAGAATGTTAAAAGTGAATTTCACTTA
AAATACTATTAT
Found at i:98422094 original size:17 final size:18
Alignment explanation
Indices: 98422059--98422096 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
98422049 TTTTTTTAGA
**
98422059 TTTACTTTTTTTTTGTTC
1 TTTACTTTTTGATTGTTC
98422077 TTTACTTTTTGATT-TTC
1 TTTACTTTTTGATTGTTC
98422094 TTT
1 TTT
98422097 TTATTTGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTACTTTTTGATTGTTC
Found at i:98422560 original size:21 final size:22
Alignment explanation
Indices: 98422527--98422568 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
98422517 CACGACACCC
*
98422527 CCACCTAGCTGCTGTTGCTGCT
1 CCACCTAGCTGCTATTGCTGCT
98422549 CCACCT-GCTGCTATTGCTGC
1 CCACCTAGCTGCTATTGCTGC
98422569 CTTGCCCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.10, C:0.38, G:0.21, T:0.31
Consensus pattern (22 bp):
CCACCTAGCTGCTATTGCTGCT
Found at i:98423027 original size:91 final size:92
Alignment explanation
Indices: 98422932--98423103 Score: 219
Period size: 96 Copynumber: 1.8 Consensus size: 92
98422922 ATTAGGTTAC
*
98422932 AAATTGTTAGTG-TT-TA-A-TGTATTAGTG-TACTGTGATTTTTTTAGTCATAATATATTTTAA
1 AAATTGTTAGTGTTTATATAGTGTATTAGTGTTACTGTGAATTTTTTAG---TAATATA-TTTAA
98422992 AAAAATAATTTTATAGTTGATTAGGTTATAT
62 AAAAATAATTTTATAGTTGATTAGGTTATAT
*
98423023 AAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTTATTGTGAATTTTTTAGTAATATATTTAA
1 AAATTGTTAGTGTTTA-TA---TAGTGTATTAGTGTTACTGTGAATTTTTTAGTAATATATTTAA
98423088 AAAAATAATTTTATAG
62 AAAAATAATTTTATAG
98423104 CTATTTTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
91 12 0.17
92 2 0.03
94 2 0.03
96 21 0.30
97 7 0.10
98 1 0.01
99 10 0.14
100 15 0.21
ACGTcount: A:0.34, C:0.01, G:0.15, T:0.49
Consensus pattern (92 bp):
AAATTGTTAGTGTTTATATAGTGTATTAGTGTTACTGTGAATTTTTTAGTAATATATTTAAAAAA
ATAATTTTATAGTTGATTAGGTTATAT
Found at i:98423138 original size:114 final size:113
Alignment explanation
Indices: 98423010--98423454 Score: 664
Period size: 114 Copynumber: 3.9 Consensus size: 113
98423000 TTTTATAGTT
*
98423010 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTTATTGTGAATTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG-TATTGTGAATTTTTTA
98423075 GTAATATATTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
65 GTAATATATTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* *
98423124 TATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTGTTAGTGTATTGT-AATTTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGAA-TTTTTTA
* *
98423188 GTAATATATTTAAAAAAAATATTTTTACAGCTATTTTATTAGTAATTTAA
65 GTAATATATTT-AAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * *
98423238 GGTTAGGTTATATAAATTGTTAATGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGAATTTTTTAG
*
98423303 TAATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTAAAAAA-ATAATTTTATAGCTATTTTATTAGTAATTTAA
*
98423352 GATTAGGTTA-AT--ATTGTTAGTGTTTAGTGGTTTAATGTGTATTAGTGTATTGTGATTTTTCT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTT-A-GTGTATTAGTGTATTGTGA---AT-T
* *
98423414 TTTTAGTAATGTATTTAAAAAAATAATTTTATAGTTATTTT
60 TTTTAGTAATATATTTAAAAAAATAATTTTATAGCTATTTT
98423455 GTGTTAGTAT
Statistics
Matches: 305, Mismatches: 16, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
111 20 0.07
112 3 0.01
113 51 0.17
114 189 0.62
115 1 0.00
116 19 0.06
117 22 0.07
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (113 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGAATTTTTTAG
TAATATATTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:98423479 original size:111 final size:106
Alignment explanation
Indices: 98423248--98423499 Score: 296
Period size: 111 Copynumber: 2.3 Consensus size: 106
98423238 GGTTAGGTTA
*
98423248 TATAAATTGTTAATGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTT
1 TATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTT
*
98423313 AAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAAGAT
66 AAAAAATATAATTTTATAGCTATTTTATTAGTAA-TTAAGAT
98423355 TAGGTTAATATTGTTAGTGTTTAGTGGTTTAATGTGTATTAGTGTATTGTGATTTTTCTTTTTAG
1 TA---TAA-ATTGTTAGTGTTTAGTGGTTT-A-GTGTATTAGTGTATTGTGA---TT-TTTTTAG
* * * *
98423420 TAATGTATTTAAAAAA-ATAATTTTATAGTTATTTTGTGTTAGT-A-TATGAT
56 TAATATATTTAAAAAATATAATTTTATAGCTA-TTT-TATTAGTAATTAAGAT
*
98423470 TATAAATTGTTAGTGTTTA-TAGTTTAGTGT
1 TATAAATTGTTAGTGTTTAGTGGTTTAGTGT
98423500 TTTGTGATTT
Statistics
Matches: 126, Mismatches: 7, Indels: 23
0.81 0.04 0.15
Matches are distributed among these distances:
107 2 0.02
108 4 0.03
109 1 0.01
110 8 0.06
111 34 0.27
112 4 0.03
113 19 0.15
115 7 0.06
116 15 0.12
117 26 0.21
118 6 0.05
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.53
Consensus pattern (106 bp):
TATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTT
AAAAAATATAATTTTATAGCTATTTTATTAGTAATTAAGAT
Found at i:98423541 original size:15 final size:16
Alignment explanation
Indices: 98423512--98423543 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
98423502 TGTGATTTTT
98423512 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
98423528 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
98423543 T
1 T
98423544 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:98425692 original size:33 final size:33
Alignment explanation
Indices: 98425631--98425693 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
98425621 ATCCACCCAT
*
98425631 GTACTCAACTCCTCCAGAGCCGTATCCACCACC
1 GTACTCAACTCCTCCAGAGCCATATCCACCACC
* * * *
98425664 GTACTCTACTCCTCCCGGGCCATTTCCACC
1 GTACTCAACTCCTCCAGAGCCATATCCACC
98425694 GCTATATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.19, C:0.46, G:0.13, T:0.22
Consensus pattern (33 bp):
GTACTCAACTCCTCCAGAGCCATATCCACCACC
Found at i:98427560 original size:87 final size:86
Alignment explanation
Indices: 98427361--98427532 Score: 328
Period size: 87 Copynumber: 2.0 Consensus size: 86
98427351 TCAAAACACC
98427361 AAGATCAAAGGATTAAAAGCTTAAAAAACCCTAAGGTGATTTCTTTTTTTTTTTCTTTTTATTTT
1 AAGATCAAAGGATTAAAAGCTTAAAAAACCCTAAGGTGATTTC-TTTTTTTTTTCTTTTTATTTT
98427426 AAATTCGGTTTTAAGTTTTTTT
65 AAATTCGGTTTTAAGTTTTTTT
98427448 AAGATCAAAGGATTAAAAGCTTAAAAAACCCTAAGGTGATTTC-TTTTTTTTTCTTTTTATTTTA
1 AAGATCAAAGGATTAAAAGCTTAAAAAACCCTAAGGTGATTTCTTTTTTTTTTCTTTTTATTTTA
98427512 AATTCGGTTTTAAGTTTTTTT
66 AATTCGGTTTTAAGTTTTTTT
98427533 TAACCTATAC
Statistics
Matches: 85, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
85 42 0.49
87 43 0.51
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (86 bp):
AAGATCAAAGGATTAAAAGCTTAAAAAACCCTAAGGTGATTTCTTTTTTTTTTCTTTTTATTTTA
AATTCGGTTTTAAGTTTTTTT
Found at i:98427584 original size:17 final size:17
Alignment explanation
Indices: 98427562--98427595 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98427552 AACATAAAAG
98427562 AAAATACAAAAAATAAA
1 AAAATACAAAAAATAAA
* *
98427579 AAAATATAAAATATAAA
1 AAAATACAAAAAATAAA
98427596 TTTTTACCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATACAAAAAATAAA
Found at i:98427715 original size:11 final size:11
Alignment explanation
Indices: 98427699--98427733 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
98427689 CCCTTCCCCC
98427699 CTCCCTTCTCT
1 CTCCCTTCTCT
98427710 CTCCCTTCTCT
1 CTCCCTTCTCT
98427721 CTTCCC-TCTCT
1 C-TCCCTTCTCT
98427732 CT
1 CT
98427734 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:98440911 original size:68 final size:69
Alignment explanation
Indices: 98440746--98440919 Score: 217
Period size: 70 Copynumber: 2.5 Consensus size: 69
98440736 CTTTCCAAGG
* ** *
98440746 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTG
98440811 TTTT
66 TTTT
* * * *
98440815 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT-
98440879 TGTTTT
64 TGTTTT
** *
98440885 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
98440920 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
68 31 0.34
69 20 0.22
70 40 0.44
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTG
TTTT
Found at i:98441049 original size:74 final size:72
Alignment explanation
Indices: 98440923--98441266 Score: 419
Period size: 74 Copynumber: 4.7 Consensus size: 72
98440913 TAAGCCTTTT
* ** *
98440923 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
98440988 TAATTTC
66 TAATTTC
**
98440995 AA-TTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTT-TT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
98441059 AGGTAATTTC
63 AGGTAATTTC
* * ** * *
98441069 AATTTCTGTTTTCAAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
98441134 GTATTTTC
65 GTAATTTC
* * *
98441142 AATTTCTGTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTG
1 AATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTG
*
98441206 AGGTATTTTC
63 AGGTAATTTC
*
98441216 AA-TTCTGTTTTTAAAAAA--AACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AATTTCTG-TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
98441267 ATTACACACT
Statistics
Matches: 241, Mismatches: 22, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
71 7 0.03
72 68 0.28
73 73 0.30
74 86 0.36
75 7 0.03
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:98441127 original size:73 final size:72
Alignment explanation
Indices: 98440923--98441266 Score: 428
Period size: 73 Copynumber: 4.7 Consensus size: 72
98440913 TAAGCCTTTT
* *
98440923 AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
98440987 GTAATTTC
65 GTAATTTC
* **
98440995 AA-TTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTT-TT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
98441059 AGGTAATTTC
63 AGGTAATTTC
* ** * *
98441069 AATTTCTGTTTTCAAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
98441134 GTATTTTC
65 GTAATTTC
* *
98441142 AATTTCTGTTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTG
*
98441206 AGGTATTTTC
63 AGGTAATTTC
* * *
98441216 AA-TTCTGTTTTTAAAAA-AAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
98441267 ATTACACACT
Statistics
Matches: 243, Mismatches: 19, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
70 2 0.01
71 7 0.03
72 67 0.28
73 83 0.34
74 77 0.32
75 7 0.03
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:98441505 original size:69 final size:73
Alignment explanation
Indices: 98441402--98441890 Score: 380
Period size: 69 Copynumber: 6.6 Consensus size: 73
98441392 TTTAATTTAC
* * * * *
98441402 TTTTCAAAATCAGCTCATATTGC-AAAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAA
98441465 TTTTG-TG
66 TTTTGTTG
**
98441472 TTTT-AATTTCAACTCATATTGCGAGAGGT-AGTTGAGCCTCAGGACACGCCGAGGTATTTTCAA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAA
98441535 TTCTTTGATTTCTG
66 -T-TTTG---T-TG
* *
98441549 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACCGAGGTATTTTC
1 TTTT--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTC
*
98441614 CATTTCTGTTTTCATTATTATG
64 AATTT-TG----------T-TG
* * **
98441636 TTTTAAAAATCAACTCATATTGCGAGA-ATGAGTTGAG-CTCAAGACAC-TTGAGGTA-TTTCAA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAA
98441697 TTTCTG-T-
66 TTT-TGTTG
* * ** **
98441704 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-GACACG-TTAGGTATTTTCAA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAA
*
98441767 TTTCTGCT-
66 TTT-TGTTG
* * ** * *
98441775 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAA
98441840 TTTCTGTTG
66 TTT-TGTTG
* * * *
98441849 --TCAAAAATCAACTCATATTACGAAAAGTGAGTTGAGCCTCAG
1 TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
98441891 TTCACATGTT
Statistics
Matches: 360, Mismatches: 30, Indels: 56
0.81 0.07 0.13
Matches are distributed among these distances:
68 25 0.07
69 48 0.13
70 45 0.12
71 45 0.12
72 48 0.13
73 19 0.05
77 6 0.02
79 2 0.01
80 26 0.07
81 42 0.12
82 6 0.02
83 8 0.02
84 9 0.03
85 23 0.06
87 8 0.02
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (73 bp):
TTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAA
TTTTGTTG
Found at i:98441880 original size:72 final size:71
Alignment explanation
Indices: 98441634--98441890 Score: 373
Period size: 71 Copynumber: 3.7 Consensus size: 71
98441624 TTCATTATTA
* *
98441634 TGTTTT-AAAAATCAACTCATATTGCGAG-AATGAGTTGAG-CTCAAGACACTTGAGGT-ATTTC
1 TGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGTGAGGTAATTTC
98441695 AATTTC
66 AATTTC
* * *
98441701 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-GACACGTTAGGTATTTTC
1 TGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGTGAGGTAATTTC
98441765 AATTTC
66 AATTTC
*
98441771 TGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACG-TGAGGTAATT
98441836 TCAATTTC
64 TCAATTTC
* *
98441844 TGTTGTCAAAAATCAACTCATATTACGA-AAAGTGAGTTGAGCCTCAG
1 TGTTTTCAAAAATCAACTCATATTGCGAGAAA-TGAGTTGAGCCTCAG
98441891 TTCACATGTT
Statistics
Matches: 173, Mismatches: 9, Indels: 11
0.90 0.05 0.06
Matches are distributed among these distances:
67 6 0.03
68 21 0.12
69 21 0.12
70 16 0.09
71 47 0.27
72 44 0.25
73 18 0.10
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (71 bp):
TGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGTGAGGTAATTTC
AATTTC
Found at i:98441880 original size:143 final size:138
Alignment explanation
Indices: 98441636--98441890 Score: 395
Period size: 143 Copynumber: 1.8 Consensus size: 138
98441626 CATTATTATG
*
98441636 TTTTAAAAATCAACTCATATTGCGAGAATGAGTTGAGCTCAAGACACTTGAGGTATTTCAATTTC
1 TTTTAAAAATCAACTCATATTGCGAGAATGAGTTGAGCTCAAGACACCTGAGGTATTTCAATTTC
* * *
98441701 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGACACGTTAGGTATTTTCA
66 TGTTGTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGACACGTTAGGTATTTTCA
98441766 ATTTCTGC
131 ATTTCTGC
* *
98441774 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTT-AAAAATCAACTCATATTGCGAG-AATGAGTTGAG-CTCAAGACAC-CTGAGGT-ATTTCA
98441839 ATTTCTGTTGTCAAAAATCAACTCATATTACGA-AAAGTGAGTTGAGCCTCAG
61 ATTTCTGTTGTCAAAAATCAACTCATATTACGAGAAA-TGAGTTGAGCCTCAG
98441891 TTCACATGTT
Statistics
Matches: 105, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
138 4 0.04
139 21 0.20
140 11 0.10
141 9 0.09
142 9 0.09
143 51 0.49
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (138 bp):
TTTTAAAAATCAACTCATATTGCGAGAATGAGTTGAGCTCAAGACACCTGAGGTATTTCAATTTC
TGTTGTCAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGACACGTTAGGTATTTTCA
ATTTCTGC
Found at i:98443010 original size:10 final size:9
Alignment explanation
Indices: 98442983--98443031 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
98442973 TACATATATT
*
98442983 AAAACATAA
1 AAAAAATAA
98442992 AAGAAAATACA
1 AA-AAAATA-A
98443003 AAAAAATAA
1 AAAAAATAA
98443012 AAAAAATATA
1 AAAAAATA-A
*
98443022 AAAATATAA
1 AAAAAATAA
98443031 A
1 A
98443032 TTTTTACCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 13 0.37
10 19 0.54
11 3 0.09
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (9 bp):
AAAAAATAA
Found at i:98443017 original size:19 final size:20
Alignment explanation
Indices: 98442983--98443031 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
98442973 TACATATATT
*
98442983 AAAACATAAAAGAAAATACA
1 AAAAAATAAAAGAAAATACA
*
98443003 AAAAAATAAAA-AAAATATA
1 AAAAAATAAAAGAAAATACA
*
98443022 AAAATATAAA
1 AAAAAATAAA
98443032 TTTTTACCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAAAATAAAAGAAAATACA
Found at i:98449447 original size:42 final size:44
Alignment explanation
Indices: 98449351--98449545 Score: 149
Period size: 42 Copynumber: 4.6 Consensus size: 44
98449341 GGAGAATTTC
* * * *
98449351 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG-CCAG
1 AGATCCTATCTCCCTGAGATTACAG-CGAGCAGATCGAAGACCAG
*
98449395 AGATCTTATCTCCCTGAGATTACAGCG-GCAGATCGAAGACCA-
1 AGATCCTATCTCCCTGAGATTACAGCGAGCAGATCGAAGACCAG
** * * * * **
98449437 CTATCCTATCTCCCTGA-AGTTACAGTGAGCGGAT-TAAAATAAG
1 AGATCCTATCTCCCTGAGA-TTACAGCGAGCAGATCGAAGACCAG
*
98449480 AGATCTTATCTCCCTGAGATTA-AGCGGAGCAGATCGAAGACC--
1 AGATCCTATCTCCCTGAGATTACAGC-GAGCAGATCGAAGACCAG
*
98449522 -TATCCTATCTCCCTG-GAGTTACAG
1 AGATCCTATCTCCCTGAGA-TTACAG
98449546 TGGAGCGGAT
Statistics
Matches: 119, Mismatches: 23, Indels: 20
0.73 0.14 0.12
Matches are distributed among these distances:
40 2 0.02
41 17 0.14
42 39 0.33
43 33 0.28
44 28 0.24
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAGATTACAGCGAGCAGATCGAAGACCAG
Found at i:98449498 original size:85 final size:86
Alignment explanation
Indices: 98449357--98449601 Score: 322
Period size: 85 Copynumber: 2.9 Consensus size: 86
98449347 TTTCAGATCT
* * * ***
98449357 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGC-
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCG
98449421 G-GCAGATCGAAGACCACTATCC
66 GAGCAGATCGAAGA-C-CTATCC
98449443 TATCTCCCTGAAGTTACAGT-GAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTA-AGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCG
98449506 GAGCAGATCGAAGACCTATCC
66 GAGCAGATCGAAGACCTATCC
* *
98449527 TATCTCCCTGGAGTTACAGTGGAGCGGATTAAAATAA-AGGATCTTATCTCTCC-GAGGTTACAG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGA-GATCTTATCTC-CCTGAGATTACAG
* *
98449590 CAGAGTAGATCG
64 CGGAGCAGATCG
98449602 CATTCAAGTC
Statistics
Matches: 143, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
84 29 0.20
85 69 0.48
86 45 0.31
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (86 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCG
GAGCAGATCGAAGACCTATCC
Found at i:98451385 original size:13 final size:13
Alignment explanation
Indices: 98451364--98451398 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
98451354 GCTCATTTAT
*
98451364 TTATTTATTATTA
1 TTATATATTATTA
98451377 TTATATATTATTA
1 TTATATATTATTA
98451390 TTCATATAT
1 TT-ATATAT
98451399 ATATGTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:98454009 original size:22 final size:21
Alignment explanation
Indices: 98453966--98454009 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
98453956 TCTTGATATA
*
98453966 ATTTTTAAAAATTTTATATTT
1 ATTTTTAAAAATTTCATATTT
*
98453987 ATTTTTATAAAATTTCATTTTT
1 ATTTTTA-AAAATTTCATATTT
98454009 A
1 A
98454010 AGTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTAAAAATTTCATATTT
Found at i:98456432 original size:321 final size:321
Alignment explanation
Indices: 98455850--98456494 Score: 1254
Period size: 321 Copynumber: 2.0 Consensus size: 321
98455840 AAAATTGCTT
98455850 AAATTGGTGTGATATTGTTTATTGTTTTTTCTTGAGTTGTTCGATGTTTATATGTCTAAGATTAG
1 AAATTGGTGTGATATTGTTTATTGTTTTTTCTTGAGTTGTTCGATGTTTATATGTCTAAGATTAG
98455915 TATATTAATTGTTTCATATGAAACCACTTGCGCAAATATAAATATAGCATAGTCACTGAAAAGTC
66 TATATTAATTGTTTCATATGAAACCACTTGCGCAAATATAAATATAGCATAGTCACTGAAAAGTC
*
98455980 TAATTTTTTAAATATGAAAAAGATATTATAAAAGTTTTGTAGAAGAACTTGTACTATGCCTCGAA
131 TAATTTTTTAAATATGAAAAAGATATTATAAAAGTTCTGTAGAAGAACTTGTACTATGCCTCGAA
98456045 TTGCATTTTGGTCATTATAGTAAAAATAAGAGCAAATCGATCCATGTACGTTAGATGTGTAATAC
196 TTGCATTTTGGTCATTATAGTAAAAATAAGAGCAAATCGATCCATGTACGTTAGATGTGTAATAC
98456110 CCCGAAAATTTTTACAGGAAAATATTATCCATGATATAGTAAAATAAGGAAATAAAGTGAC
261 CCCGAAAATTTTTACAGGAAAATATTATCCATGATATAGTAAAATAAGGAAATAAAGTGAC
98456171 AAATTGGTGTGATATTGTTTATTGTTTTTTCTTGAGTTGTTCGATGTTTATATGTCTAAGATTAG
1 AAATTGGTGTGATATTGTTTATTGTTTTTTCTTGAGTTGTTCGATGTTTATATGTCTAAGATTAG
* *
98456236 TATATTAATTGTTTCATATGAAACCACTTGTGCAAATATAAATATAGCATAGTCATTGAAAAGTC
66 TATATTAATTGTTTCATATGAAACCACTTGCGCAAATATAAATATAGCATAGTCACTGAAAAGTC
98456301 TAATTTTTTAAATATGAAAAAGATATTATAAAAGTTCTGTAGAAGAACTTGTACTATGCCTCGAA
131 TAATTTTTTAAATATGAAAAAGATATTATAAAAGTTCTGTAGAAGAACTTGTACTATGCCTCGAA
98456366 TTGCATTTTGGTCATTATAGTAAAAATAAGAGCAAATCGATCCATGTACGTTAGATGTGTAATAC
196 TTGCATTTTGGTCATTATAGTAAAAATAAGAGCAAATCGATCCATGTACGTTAGATGTGTAATAC
*
98456431 CCCGAAAATTTTTACAGGAAAATATTATCCATTATATAGTAAAATAAGGAAATAAAGTGAC
261 CCCGAAAATTTTTACAGGAAAATATTATCCATGATATAGTAAAATAAGGAAATAAAGTGAC
98456492 AAA
1 AAA
98456495 AAGGGAAATT
Statistics
Matches: 320, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
321 320 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (321 bp):
AAATTGGTGTGATATTGTTTATTGTTTTTTCTTGAGTTGTTCGATGTTTATATGTCTAAGATTAG
TATATTAATTGTTTCATATGAAACCACTTGCGCAAATATAAATATAGCATAGTCACTGAAAAGTC
TAATTTTTTAAATATGAAAAAGATATTATAAAAGTTCTGTAGAAGAACTTGTACTATGCCTCGAA
TTGCATTTTGGTCATTATAGTAAAAATAAGAGCAAATCGATCCATGTACGTTAGATGTGTAATAC
CCCGAAAATTTTTACAGGAAAATATTATCCATGATATAGTAAAATAAGGAAATAAAGTGAC
Found at i:98458350 original size:22 final size:23
Alignment explanation
Indices: 98458321--98458377 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
98458311 TGCACAAACG
98458321 AACAGAGAGCACTA-AAGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
* * *
98458343 TACAGAGAGCAC-AGATGTGTTA
1 AACAGAGAGCACTAGAAGTGCTA
98458365 AACAGAGAGCACT
1 AACAGAGAGCACT
98458378 TAACATGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.16
Consensus pattern (23 bp):
AACAGAGAGCACTAGAAGTGCTA
Found at i:98459568 original size:7 final size:7
Alignment explanation
Indices: 98459558--98459652 Score: 58
Period size: 7 Copynumber: 14.1 Consensus size: 7
98459548 ACTTTATGTT
98459558 TTATATA
1 TTATATA
98459565 -T-TATA
1 TTATATA
98459570 TTATATA
1 TTATATA
*
98459577 TAATATA
1 TTATATA
*
98459584 ATA-ATA
1 TTATATA
*
98459590 TAATATA
1 TTATATA
98459597 TTATATA
1 TTATATA
98459604 TTA-ATA
1 TTATATA
*
98459610 CTTAAATA
1 -TTATATA
98459618 TTA-AGT-
1 TTATA-TA
*
98459624 TAATATA
1 TTATATA
*
98459631 ATATATA
1 TTATATA
*
98459638 ATATATA
1 TTATATA
*
98459645 TTTTATA
1 TTATATA
98459652 T
1 T
98459653 AAAAAATATC
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.06
6 13 0.19
7 49 0.71
8 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
TTATATA
Found at i:98461477 original size:55 final size:53
Alignment explanation
Indices: 98461369--98461672 Score: 252
Period size: 49 Copynumber: 5.8 Consensus size: 53
98461359 ATTAGGGTTT
*
98461369 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGAC-ATTGGTAA-GTTCT-TAAGGC
* * * * *
98461424 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTT-CT-TAAGGC
* * *
98461479 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTCTTAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTCTTAAGGC
* * * *
98461532 AAGGATACCATGTAAGACCATGTCGAGACATGGCCA-TGGTAAGTT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GACATTGGTAAGTTCTTAAGGC
* * * * * *
98461581 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAGTT-TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTCTTAAGGC
* * * * *
98461630 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAG
98461673 GTACCCGCGT
Statistics
Matches: 216, Mismatches: 27, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
48 3 0.01
49 83 0.38
52 7 0.03
53 39 0.18
54 12 0.06
55 68 0.31
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTCTTAAGGC
Found at i:98461885 original size:16 final size:16
Alignment explanation
Indices: 98461864--98461894 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98461854 ATAAATTTGA
98461864 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
98461880 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
98461895 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:98464267 original size:46 final size:46
Alignment explanation
Indices: 98464215--98464534 Score: 408
Period size: 46 Copynumber: 7.0 Consensus size: 46
98464205 AGTGTGCTCT
* * * *
98464215 CTGATATGATATGTGTAAGACCATGGTTGAAAGATATCATGGCGAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
98464261 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
98464307 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
98464353 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
98464399 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
98464445 GTGACATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
98464491 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
98464535 TCATGTCAAA
Statistics
Matches: 249, Mismatches: 24, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 248 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:98464839 original size:16 final size:17
Alignment explanation
Indices: 98464820--98464852 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98464810 ATGATGGAGC
98464820 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
98464836 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
98464853 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:98475840 original size:20 final size:19
Alignment explanation
Indices: 98475807--98475845 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
98475797 ATGGTAATTA
98475807 TTTAAGTTGTAATTCGATTT
1 TTTAAGTTGTAATTC-ATTT
98475827 TTTAAGTT-TAAATTCATTT
1 TTTAAGTTGT-AATTCATTT
98475846 ATAAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTAAGTTGTAATTCATTT
Found at i:98481265 original size:12 final size:12
Alignment explanation
Indices: 98481248--98481295 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
98481238 AAGCTGCTCA
98481248 TATTAGTTGTTT
1 TATTAGTTGTTT
*
98481260 TATTAGTTATTCT
1 TATTAGTTGTT-T
* *
98481273 TGTTAGCTGTTT
1 TATTAGTTGTTT
98481285 TATTAGTTGTT
1 TATTAGTTGTT
98481296 AATGATGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
12 20 0.69
13 9 0.31
ACGTcount: A:0.17, C:0.04, G:0.17, T:0.62
Consensus pattern (12 bp):
TATTAGTTGTTT
Found at i:98490072 original size:20 final size:20
Alignment explanation
Indices: 98490039--98490077 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
98490029 CTAAAATGAG
98490039 AAAAAAAAAGTATT-AAAGT
1 AAAAAAAAAGTATTCAAAGT
*
98490058 AAAAAAATAGATATTCAAAG
1 AAAAAAAAAG-TATTCAAAG
98490078 ATCAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (20 bp):
AAAAAAAAAGTATTCAAAGT
Found at i:98491072 original size:7 final size:7
Alignment explanation
Indices: 98491054--98491086 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
98491044 TTACATATAA
98491054 TAAAATT
1 TAAAATT
98491061 T-AAATT
1 TAAAATT
98491067 TAAAATAT
1 TAAAAT-T
98491075 TAAAATT
1 TAAAATT
98491082 TAAAA
1 TAAAA
98491087 ATATTAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TAAAATT
Found at i:98491089 original size:16 final size:15
Alignment explanation
Indices: 98491054--98491094 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
98491044 TTACATATAA
98491054 TAAAAT-TT-AAATT
1 TAAAATATTAAAATT
98491067 TAAAATATTAAAATT
1 TAAAATATTAAAATT
98491082 TAAAAATATTAAA
1 T-AAAATATTAAA
98491095 CTTACCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.24
14 2 0.08
15 6 0.24
16 11 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAAATATTAAAATT
Found at i:98492492 original size:13 final size:13
Alignment explanation
Indices: 98492474--98492499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98492464 AATAAAATGA
98492474 CTGCTAGTTTGTT
1 CTGCTAGTTTGTT
98492487 CTGCTAGTTTGTT
1 CTGCTAGTTTGTT
98492500 TTAAAAAAAT
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:0.08, C:0.15, G:0.23, T:0.54
Consensus pattern (13 bp):
CTGCTAGTTTGTT
Found at i:98493630 original size:15 final size:16
Alignment explanation
Indices: 98493599--98493642 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
98493589 TGGTTCATGT
*
98493599 ATTTTAA-TTTAATTA
1 ATTTTAATTTTTATTA
98493614 ATTTTAATTTTTA-TA
1 ATTTTAATTTTTATTA
98493629 ATATTTAATTTTTA
1 AT-TTTAATTTTTA
98493643 AATCCTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTAATTTTTATTA
Found at i:98496250 original size:22 final size:21
Alignment explanation
Indices: 98496208--98496261 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
98496198 TAATAATTGC
98496208 TTTAATA-TTATTTTTATTTT
1 TTTAATATTTATTTTTATTTT
*
98496228 TTTAATATTTATTTTTATGTT
1 TTTAATATTTATTTTTATTTT
*
98496249 TTTAA-ATATATTT
1 TTTAATATTTATTT
98496262 GATTTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTAATATTTATTTTTATTTT
Found at i:98496278 original size:26 final size:24
Alignment explanation
Indices: 98496215--98496280 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 24
98496205 TGCTTTAATA
*
98496215 TTATTTTTAT-TTTTT-TA-ATAT
1 TTATTTTTATATTTTTAAATATAT
*
98496236 TTATTTTTATGTTTTTAAATATAT
1 TTATTTTTATATTTTTAAATATAT
98496260 TTGATTTATTATATTTTTAAA
1 TT-ATTT-TTATATTTTTAAA
98496281 ATTTTTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 10 0.26
22 5 0.13
23 1 0.03
24 6 0.16
25 4 0.11
26 12 0.32
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
TTATTTTTATATTTTTAAATATAT
Found at i:98496291 original size:25 final size:26
Alignment explanation
Indices: 98496235--98496292 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
98496225 TTTTTTAATA
*
98496235 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
98496260 TTGATTTATTATATTTTTAAA-ATTT
1 TTTATTTATTATATTTTTAAATATAT
98496285 TTTATTTA
1 TTTATTTA
98496293 ATAAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:98500705 original size:15 final size:15
Alignment explanation
Indices: 98500679--98500711 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
98500669 TTTGATGATT
98500679 TTGGGCTATTGGGCTG
1 TTGGGCTATTGGG-TG
98500695 TTGGG-TATTGGGTG
1 TTGGGCTATTGGGTG
98500709 TTG
1 TTG
98500712 TAATTGGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.06, C:0.06, G:0.45, T:0.42
Consensus pattern (15 bp):
TTGGGCTATTGGGTG
Found at i:98501293 original size:44 final size:42
Alignment explanation
Indices: 98501158--98501526 Score: 216
Period size: 44 Copynumber: 8.5 Consensus size: 42
98501148 ACCTACTCTG
* * * * * *
98501158 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGAT-CTCT-TCTTGATCTGCTCCA
* * * * *
98501202 CTGTAA-CTTCAGGGAGATAGGATAGT-GTCTTCGATTTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGAT-CTCTTCTT-GATCTGCTCCA
* *
98501245 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTCT-TCTT-GATCTGCTCCA
* * * *
98501289 CTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---CTTC-TTGATCTGCTCCA
** * *
98501335 CTGTAATCTCAGGGAGATAAGA-C-CTGATGTGATCTTCTCTA
1 CTGTAATCTCAGGGAGATAAGATCTCTTCT-TGATCTGCTCCA
* * *
98501376 CTGTAA-CTTCAGAGAGATAAGATC-C-T-TTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTCTTCTTGATCTGCTCCA
* * * *
98501415 TTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCT-CT-TC-TTGATCTGCTCCA
* * *
98501459 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---CTTC-TTGATCTGCTCCA
98501505 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
98501527 CCTGTATTAT
Statistics
Matches: 252, Mismatches: 51, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
39 25 0.10
40 5 0.02
41 28 0.11
42 7 0.03
43 28 0.11
44 87 0.35
45 2 0.01
46 65 0.26
47 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
CTGTAATCTCAGGGAGATAAGATCTCTTCTTGATCTGCTCCA
Found at i:98501349 original size:46 final size:45
Alignment explanation
Indices: 98501196--98501526 Score: 232
Period size: 44 Copynumber: 7.6 Consensus size: 45
98501186 ATTTTAATCC
* * * *
98501196 GCTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGTGTCTTCGATTT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT-TCTTTGATCT
* * * **
98501239 GCTCCGCTGTAATCTCAGGGAGATAAGATCT--CTGGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCT
* *
98501283 GCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCT
* * *
98501329 GTTCCACTGTAATCTCAGGGAGATAAGACCTG-A---TGTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCT
* * * * *
98501370 TCTCTACTGTAA-CTTCAGAGAGATAAGATC------CTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATCTGAATTCTTTGATCT
* * * *
98501409 GCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTATCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCT
* *
98501453 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCT
*
98501499 GTTCCACTGTAATCTCAGGGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
98501527 CCTGTATTAT
Statistics
Matches: 228, Mismatches: 42, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
39 26 0.11
40 2 0.01
41 29 0.13
43 24 0.11
44 72 0.32
45 2 0.01
46 70 0.31
47 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (45 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCT
Found at i:98513909 original size:2 final size:2
Alignment explanation
Indices: 98513902--98513926 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
98513892 GCGTAAATAG
98513902 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
98513927 AGAATTGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98515079 original size:15 final size:15
Alignment explanation
Indices: 98515053--98515085 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
98515043 TTTGATGATT
98515053 TTGGGCTATTGGGCTG
1 TTGGGCTATTGGG-TG
98515069 TTGGG-TATTGGGTG
1 TTGGGCTATTGGGTG
98515083 TTG
1 TTG
98515086 TAATTGGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.06, C:0.06, G:0.45, T:0.42
Consensus pattern (15 bp):
TTGGGCTATTGGGTG
Found at i:98516547 original size:3 final size:3
Alignment explanation
Indices: 98516539--98516563 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
98516529 TTTTTATAAA
98516539 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
98516564 ATGACTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:98519854 original size:17 final size:17
Alignment explanation
Indices: 98519821--98519872 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
98519811 TTCAATCACT
*
98519821 TTAAAATTTTATAAAAA
1 TTAAAATTTTAAAAAAA
98519838 TTAAAATTTTAAAAAAAA
1 TTAAAATTTT-AAAAAAA
* *
98519856 TT-ATATTTAAAAAAAA
1 TTAAAATTTTAAAAAAA
98519872 T
1 T
98519873 ATGAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 8 0.26
17 15 0.48
18 8 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAATTTTAAAAAAA
Found at i:98531779 original size:61 final size:64
Alignment explanation
Indices: 98531640--98531789 Score: 189
Period size: 61 Copynumber: 2.3 Consensus size: 64
98531630 TTGAAAACGA
* *
98531640 CTTTTTATTGTTTTGGCAATTTTAGTTAATGTGAAAACCATAACCATAATAATGATGAGTATCTT
1 CTTTTTATTGTTTTGGTAATTTTAGTTAATGTG--AA-CATAACCATAATAATGATGAATATCTT
98531705 CT
63 CT
* * *
98531707 CTTCTAATTGTTTTGGTAATTTTAGTTAATGTG-A-AT-ACCATAATAATGGTGAATATCTTCT
1 CTTTTTATTGTTTTGGTAATTTTAGTTAATGTGAACATAACCATAATAATGATGAATATCTTCT
* *
98531768 CTTTTTCTTGTTTTGGTCATTT
1 CTTTTTATTGTTTTGGTAATTT
98531790 CTTAAGTTAG
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
61 41 0.55
62 2 0.03
64 1 0.01
67 30 0.41
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (64 bp):
CTTTTTATTGTTTTGGTAATTTTAGTTAATGTGAACATAACCATAATAATGATGAATATCTTCT
Found at i:98547797 original size:11 final size:11
Alignment explanation
Indices: 98547781--98547832 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
98547771 ATACATATTT
98547781 TTATTATTGTA
1 TTATTATTGTA
*
98547792 TTATTATT-AA
1 TTATTATTGTA
* *
98547802 ATATTATAAGTA
1 TTATTAT-TGTA
98547814 TTATTATTGTA
1 TTATTATTGTA
*
98547825 TGATTATT
1 TTATTATT
98547833 AAATATTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 7 0.22
11 18 0.56
12 7 0.22
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
TTATTATTGTA
Found at i:98556288 original size:33 final size:35
Alignment explanation
Indices: 98556227--98556292 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
98556217 TAACAGTCTG
*
98556227 TGATTCTCAAAAAGAAAATCACTAACAAATTTCGA
1 TGATTCTCAAAAAGAAAATCACGAACAAATTTCGA
*
98556262 TGATTCTC-AAAAG-AAATCACGGACAAATTTC
1 TGATTCTCAAAAAGAAAATCACGAACAAATTTC
98556293 AGCCACTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 16 0.55
34 5 0.17
35 8 0.28
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (35 bp):
TGATTCTCAAAAAGAAAATCACGAACAAATTTCGA
Found at i:98561987 original size:64 final size:64
Alignment explanation
Indices: 98561908--98562040 Score: 266
Period size: 64 Copynumber: 2.1 Consensus size: 64
98561898 TATCGAACCG
98561908 GCACCGGGATCTCACTAACAGTTCTTTTGTTGATGTACATATGATTGGCATTTCCAATAAATCA
1 GCACCGGGATCTCACTAACAGTTCTTTTGTTGATGTACATATGATTGGCATTTCCAATAAATCA
98561972 GCACCGGGATCTCACTAACAGTTCTTTTGTTGATGTACATATGATTGGCATTTCCAATAAATCA
1 GCACCGGGATCTCACTAACAGTTCTTTTGTTGATGTACATATGATTGGCATTTCCAATAAATCA
98562036 GCACC
1 GCACC
98562041 TTCTTGTATG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (64 bp):
GCACCGGGATCTCACTAACAGTTCTTTTGTTGATGTACATATGATTGGCATTTCCAATAAATCA
Found at i:98564794 original size:12 final size:13
Alignment explanation
Indices: 98564771--98564796 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98564761 TTTATAACAT
98564771 AAAATTGAAAAAA
1 AAAATTGAAAAAA
98564784 AAAATTGAAAAAA
1 AAAATTGAAAAAA
98564797 GCAAATGACC
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAAATTGAAAAAA
Found at i:98573271 original size:20 final size:21
Alignment explanation
Indices: 98573230--98573275 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
98573220 AGTTGGACTT
98573230 AAGAT-TAAAAGAATTTACTA
1 AAGATATAAAAGAATTTACTA
* *
98573250 AAGATATAAAAGAGTTT-TTA
1 AAGATATAAAAGAATTTACTA
98573270 AAGATA
1 AAGATA
98573276 CCAACTGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.54, C:0.02, G:0.13, T:0.30
Consensus pattern (21 bp):
AAGATATAAAAGAATTTACTA
Found at i:98573641 original size:150 final size:151
Alignment explanation
Indices: 98573288--98573664 Score: 747
Period size: 151 Copynumber: 2.5 Consensus size: 151
98573278 AACTGCTGCT
98573288 TGGGGGTGTAGCTCATATGGTAGAGCGCTCGCTTCGCATGCGAGAGGCACGGGGTTCGATTCCCC
1 TGGGGGTGTAGCTCATATGGTAGAGCGCTCGCTTCGCATGCGAGAGGCACGGGGTTCGATTCCCC
98573353 GCACCTCCATTACACCTTTTTTTTTAAATACTGCAGCTTTTTTAGATCAATAGATGAAAATTATA
66 GCACCTCCATTACACCTTTTTTTTTAAATACTGCAGCTTTTTTAGATCAATAGATGAAAATTATA
98573418 ATAAAAATTATGAGATCACAA
131 ATAAAAATTATGAGATCACAA
98573439 TGGGGGTGTAGCTCATATGGTAGAGCGCTCGCTTCGCATGCGAGAGGCACGGGGTTCGATTCCCC
1 TGGGGGTGTAGCTCATATGGTAGAGCGCTCGCTTCGCATGCGAGAGGCACGGGGTTCGATTCCCC
98573504 GCACCTCCATTACACCTTTTTTTTTAAATACTGCAGCTTTTTTAGATCAATAGATGAAAATTATA
66 GCACCTCCATTACACCTTTTTTTTTAAATACTGCAGCTTTTTTAGATCAATAGATGAAAATTATA
98573569 ATAAAAATTATGAGATCACAA
131 ATAAAAATTATGAGATCACAA
98573590 T-GGGGTGTAGCTCATATGGTAGAGCGCTCGCTTCGCATGCGAGAGGCACGGGGTTCGATTCCCC
1 TGGGGGTGTAGCTCATATGGTAGAGCGCTCGCTTCGCATGCGAGAGGCACGGGGTTCGATTCCCC
98573654 GCACCTCCATT
66 GCACCTCCATT
98573665 TTTTAAACGC
Statistics
Matches: 226, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
150 74 0.33
151 152 0.67
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (151 bp):
TGGGGGTGTAGCTCATATGGTAGAGCGCTCGCTTCGCATGCGAGAGGCACGGGGTTCGATTCCCC
GCACCTCCATTACACCTTTTTTTTTAAATACTGCAGCTTTTTTAGATCAATAGATGAAAATTATA
ATAAAAATTATGAGATCACAA
Found at i:98584333 original size:22 final size:22
Alignment explanation
Indices: 98584305--98584346 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
98584295 TTAGCCATTT
98584305 AGCTTTGATGGGTTTACCTTTA
1 AGCTTTGATGGGTTTACCTTTA
98584327 AGCTTTGATGGGTTTACCTT
1 AGCTTTGATGGGTTTACCTT
98584347 ATTTAACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.45
Consensus pattern (22 bp):
AGCTTTGATGGGTTTACCTTTA
Found at i:98589536 original size:15 final size:15
Alignment explanation
Indices: 98589511--98589543 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
98589501 AGCCCAATTA
98589511 CAACACCCAATA-CC
1 CAACACCCAATAGCC
98589525 CAACAGCCCAATAGCC
1 CAACA-CCCAATAGCC
98589541 CAA
1 CAA
98589544 AATCATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.42, C:0.45, G:0.06, T:0.06
Consensus pattern (15 bp):
CAACACCCAATAGCC
Found at i:98590688 original size:3 final size:3
Alignment explanation
Indices: 98590677--98590770 Score: 84
Period size: 3 Copynumber: 31.3 Consensus size: 3
98590667 ATTATTTTGT
*
98590677 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA
* * * * * * *
98590722 TTA CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
98590770 T
1 T
98590771 ATTTATACCT
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
2 3 0.04
3 66 0.90
4 4 0.05
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:98593338 original size:20 final size:18
Alignment explanation
Indices: 98593287--98593338 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
98593277 AAAACTATAA
98593287 AAAAATTATAAATATTTT
1 AAAAATTATAAATATTTT
* *
98593305 TAAAATTTTCAAATAATTTAT
1 AAAAATTAT-AAAT-ATTT-T
*
98593326 AAAAATTCTAAAT
1 AAAAATTATAAAT
98593339 TTTATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.26
19 4 0.15
20 8 0.30
21 8 0.30
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATTATAAATATTTT
Found at i:98593403 original size:9 final size:9
Alignment explanation
Indices: 98593391--98593416 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
98593381 ATAAAACAAA
98593391 TTTAAAATT
1 TTTAAAATT
98593400 TTTAAAATT
1 TTTAAAATT
98593409 TTTAAAAT
1 TTTAAAAT
98593417 AACATTTTTT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TTTAAAATT
Found at i:98593405 original size:20 final size:21
Alignment explanation
Indices: 98593367--98593406 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
98593357 TAAATATTGA
98593367 AAATATTAAAAATTATAAAAC
1 AAATATTAAAAATTATAAAAC
* *
98593388 AAAT-TTAAAATTTTTAAAA
1 AAATATTAAAAATTATAAAA
98593407 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATATTAAAAATTATAAAAC
Found at i:98595829 original size:33 final size:35
Alignment explanation
Indices: 98595792--98595888 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
98595782 ATAGTTATAT
98595792 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
98595825 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
98595860 --AAATATTTAAAATTTATATTTTATATATT
1 TTAAATATTTAAAA--TATAATTTATATATT
98595889 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 7 0.14
35 10 0.20
37 5 0.10
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:98596088 original size:13 final size:13
Alignment explanation
Indices: 98596072--98596137 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
98596062 TTTAAACCAA
98596072 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
*
98596085 ACTTCTCAAAAGT
1 ACTTTTCAAAAGT
* * * *
98596098 ATTTTTCCACAGC
1 ACTTTTCAAAAGT
* *
98596111 ACTTTTTAAAAGC
1 ACTTTTCAAAAGT
98596124 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
98596137 A
1 A
98596138 TTGTTAAACT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:98596635 original size:7 final size:7
Alignment explanation
Indices: 98596623--98596648 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
98596613 ATTATTTTAA
98596623 AAAAGTG
1 AAAAGTG
98596630 AAAAGTG
1 AAAAGTG
98596637 AAAAGTG
1 AAAAGTG
98596644 AAAAG
1 AAAAG
98596649 AAAGAGACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.27, T:0.12
Consensus pattern (7 bp):
AAAAGTG
Found at i:98598597 original size:24 final size:24
Alignment explanation
Indices: 98598569--98598621 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
98598559 CACCTTTGAA
*
98598569 ACCCTTTCCACAGCTCCTTTCTTC
1 ACCCTTTCCACAGCTCCTCTCTTC
98598593 ACCCTTTCCACAGCTCCTCTCTTC
1 ACCCTTTCCACAGCTCCTCTCTTC
98598617 ACCCT
1 ACCCT
98598622 ATCGATTGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.49, G:0.04, T:0.34
Consensus pattern (24 bp):
ACCCTTTCCACAGCTCCTCTCTTC
Found at i:98601673 original size:50 final size:50
Alignment explanation
Indices: 98601618--98601718 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
98601608 AAAGATAGTT
98601618 AAAAATGTGATTACTAGGAATACTTATAATTATGGGAAAATGTTGCTAAA
1 AAAAATGTGATTACTAGGAATACTTATAATTATGGGAAAATGTTGCTAAA
98601668 AAAAATGTGATTACTAGGAATACTTATAATTATGGGAAAATGTTGCTAAA
1 AAAAATGTGATTACTAGGAATACTTATAATTATGGGAAAATGTTGCTAAA
98601718 A
1 A
98601719 TATTCAGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.32
Consensus pattern (50 bp):
AAAAATGTGATTACTAGGAATACTTATAATTATGGGAAAATGTTGCTAAA
Found at i:98602007 original size:20 final size:20
Alignment explanation
Indices: 98601982--98602021 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
98601972 AATATTTTTT
*
98601982 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
98602002 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
98602022 TTATTTGACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:98606377 original size:60 final size:59
Alignment explanation
Indices: 98606249--98606394 Score: 154
Period size: 60 Copynumber: 2.4 Consensus size: 59
98606239 AACTATAATT
* * * *
98606249 TTTTTCTTTTTTAGTCATTCAATTATGAAAAGTTACAAAATTGTCATTCAACTGTTAGTA
1 TTTTTCTTTTTTAGTCACTCAACTATGAAAAGTTACAAAATAGTCATTCAACTATTAG-A
** * *
98606309 AATTTCTTTTTTAGTCACCCAACTATGAAATGTTACAAAATAGTCA-TCTAACTATTCA-A
1 TTTTTCTTTTTTAGTCACTCAACTATGAAAAGTTACAAAATAGTCATTC-AACTATT-AGA
98606368 TTTTGTCTTTTTT-GATCACTCAACTAT
1 TTTT-TCTTTTTTAG-TCACTCAACTAT
98606395 TCAGTATTTC
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
59 6 0.08
60 64 0.90
61 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.45
Consensus pattern (59 bp):
TTTTTCTTTTTTAGTCACTCAACTATGAAAAGTTACAAAATAGTCATTCAACTATTAGA
Found at i:98616342 original size:20 final size:23
Alignment explanation
Indices: 98616295--98616342 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
98616285 TTTAATATTT
*
98616295 TTTAGATAGATTTACAAATTTGAA
1 TTTAGATAGATTTACAAAATTG-A
98616319 TTTAGATA-ATTTA-AAAATTG-
1 TTTAGATAGATTTACAAAATTGA
98616339 TTTA
1 TTTA
98616343 TTTCCAACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 4 0.17
22 6 0.26
23 5 0.22
24 8 0.35
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (23 bp):
TTTAGATAGATTTACAAAATTGA
Found at i:98625060 original size:27 final size:28
Alignment explanation
Indices: 98625030--98625096 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
98625020 AGTCGAGAAG
*
98625030 ATAAATATTTATGA-TTTTATATTTTT-T
1 ATAAAT-TTTATGATTTTTATATTTTTAA
* * *
98625057 ATAACTTTTTTTTATTTTTATATTTTTAA
1 ATAA-ATTTTATGATTTTTATATTTTTAA
98625086 ATAAATTTTAT
1 ATAAATTTTAT
98625097 AGAACTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
27 9 0.29
28 18 0.58
29 4 0.13
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (28 bp):
ATAAATTTTATGATTTTTATATTTTTAA
Found at i:98626284 original size:30 final size:30
Alignment explanation
Indices: 98626249--98626307 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
98626239 TATTTTATTA
* *
98626249 TTAATTTTGTTATTGTTATAAAGGTATTTG
1 TTAATTTTATTATTATTATAAAGGTATTTG
* *
98626279 TTAATTTTATTATTATTTTAGAGGTATTT
1 TTAATTTTATTATTATTATAAAGGTATTT
98626308 CCTTGTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (30 bp):
TTAATTTTATTATTATTATAAAGGTATTTG
Found at i:98626406 original size:21 final size:22
Alignment explanation
Indices: 98626351--98626410 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
98626341 AAGTTTACAT
98626351 ATTTTTTAAA-ATTTATTTTCA
1 ATTTTTTAAATATTTATTTTCA
*
98626372 ATTTGTTAGAAAATATTTATTTT-A
1 ATTT-TT--TAAATATTTATTTTCA
98626396 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
98626411 TTGATGTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
21 12 0.36
22 2 0.06
23 2 0.06
24 8 0.24
25 9 0.27
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (22 bp):
ATTTTTTAAATATTTATTTTCA
Found at i:98627896 original size:39 final size:40
Alignment explanation
Indices: 98627841--98627925 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
98627831 TCAAATACAT
98627841 TTAAAACAAATATTAAAACAAAAAACAAA-TAAAAATATA
1 TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
* * * *
98627880 TTAAAACAATTTTTAAAACAATACACAAATTAAAAATATA
1 TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
*
98627920 ATAAAA
1 TTAAAA
98627926 ATTAATTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 25 0.62
40 15 0.38
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAAAAACAAATTAAAAATATA
Found at i:98627927 original size:18 final size:18
Alignment explanation
Indices: 98627906--98627960 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
98627896 AACAATACAC
98627906 AAATTAAAAATATAATAA
1 AAATTAAAAATATAATAA
* *
98627924 AAATT--AATTAT-ATTA
1 AAATTAAAAATATAATAA
* *
98627939 AAATTAAAAATAAAATAT
1 AAATTAAAAATATAATAA
98627957 AAAT
1 AAAT
98627961 ATGATTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
15 8 0.29
16 5 0.18
17 4 0.14
18 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTAAAAATATAATAA
Found at i:98627970 original size:29 final size:27
Alignment explanation
Indices: 98627908--98627985 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 27
98627898 CAATACACAA
* *
98627908 ATTAAAAATATAATAAAAAT-TAATTAT
1 ATTAAAAATA-AAAAAAAATATAAATAT
*
98627935 ATTAAAATTAAAAATAAAATATAAATAT
1 ATTAAAAATAAAAA-AAAATATAAATAT
*
98627963 GATTAAAAATAAAAAAGAATATA
1 -ATTAAAAATAAAAAAAAATATA
98627986 TATTTAGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
26 3 0.07
27 14 0.33
28 13 0.30
29 13 0.30
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (27 bp):
ATTAAAAATAAAAAAAAATATAAATAT
Found at i:98634898 original size:29 final size:29
Alignment explanation
Indices: 98634865--98634924 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 29
98634855 AATTTTGGAT
98634865 TTTAGTTT-TTGTACTTTT-ATTTTCAGAAA
1 TTTAGTTTCTT-TACTTTTAATTTTCA-AAA
98634894 TTTAGTTTCTTTACTTTTCAATTTTCAAAA
1 TTTAGTTTCTTTACTTTT-AATTTTCAAAA
98634924 T
1 T
98634925 GCATGACCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 15 0.54
30 6 0.21
31 7 0.25
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTAGTTTCTTTACTTTTAATTTTCAAAA
Found at i:98638620 original size:21 final size:21
Alignment explanation
Indices: 98638591--98638631 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
98638581 AAGTGATAAG
98638591 ATTTAAATTTAAAA-TATTAAC
1 ATTTAAA-TTAAAATTATTAAC
*
98638612 ATTTTAATTAAAATTATTAA
1 ATTTAAATTAAAATTATTAA
98638632 TTTTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTAAATTAAAATTATTAAC
Found at i:98639489 original size:7 final size:7
Alignment explanation
Indices: 98639477--98639519 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
98639467 TAAATTTCAA
98639477 AAATTTT
1 AAATTTT
98639484 AAATTTT
1 AAATTTT
98639491 AAATTTT
1 AAATTTT
98639498 AAATTTT
1 AAATTTT
98639505 AAATTTT
1 AAATTTT
98639512 AAATTTT
1 AAATTTT
98639519 A
1 A
98639520 TACATGAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:98640979 original size:11 final size:11
Alignment explanation
Indices: 98640951--98640980 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
98640941 ATTGTTATTA
98640951 TAATTAAATTT
1 TAATTAAATTT
98640962 TAA-TAAATTT
1 TAATTAAATTT
98640972 TAATTAAAT
1 TAATTAAAT
98640981 ATAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTAAATTT
Found at i:98642623 original size:114 final size:116
Alignment explanation
Indices: 98642494--98642732 Score: 455
Period size: 114 Copynumber: 2.1 Consensus size: 116
98642484 AATCTTTATA
98642494 TTTTTTCAAAATTTGATATTTAACTTTTATACTTCAAAAGTTAAATTTTTAATTTAAAAGTTTTG
1 TTTTTTCAAAATTTGATATTTAACTTTTATACTTCAAAAGTTAAATTTTTAATTTAAAAGTTTTG
98642559 GTTAAGTCATTATCCACG-TAATAGTTTCATCAAAAAATT-TTAACATATT
66 GTTAAGTCATTATCCACGTTAATAGTTTCATCAAAAAATTATTAACATATT
98642608 TTTTTTCAAAATTTGATATTTAACTTTTATACTTCAAAAGTTAAATTTTTAATTTAAAAGTTTTG
1 TTTTTTCAAAATTTGATATTTAACTTTTATACTTCAAAAGTTAAATTTTTAATTTAAAAGTTTTG
98642673 GTTAAGTCATTATCCACGTTAATAGTTTCATCAAAAAATTATTAACATATT
66 GTTAAGTCATTATCCACGTTAATAGTTTCATCAAAAAATTATTAACATATT
98642724 TATTTTTCA
1 T-TTTTTCA
98642733 TTAATTATGT
Statistics
Matches: 122, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
114 83 0.68
115 21 0.17
116 11 0.09
117 7 0.06
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (116 bp):
TTTTTTCAAAATTTGATATTTAACTTTTATACTTCAAAAGTTAAATTTTTAATTTAAAAGTTTTG
GTTAAGTCATTATCCACGTTAATAGTTTCATCAAAAAATTATTAACATATT
Found at i:98642851 original size:30 final size:31
Alignment explanation
Indices: 98642796--98642853 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
98642786 TTTACTTTTT
*
98642796 AAGTATAAAAACTAAATATTTAATTTTACTA
1 AAGTATAAAAACTAAATAATTAATTTTACTA
**
98642827 AAGTATAAGGACT-AATAATTAATTTTA
1 AAGTATAAAAACTAAATAATTAATTTTA
98642854 ACCTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (31 bp):
AAGTATAAAAACTAAATAATTAATTTTACTA
Found at i:98643286 original size:10 final size:10
Alignment explanation
Indices: 98643271--98643312 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
98643261 TATATTTAGG
98643271 AAAAATACGA
1 AAAAATACGA
98643281 AAAAATACGA
1 AAAAATACGA
98643291 AAAAATAAC-A
1 AAAAAT-ACGA
*
98643301 AAAAATAAGA
1 AAAAATACGA
98643311 AA
1 AA
98643313 TTTAAAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 1 0.03
10 26 0.90
11 2 0.07
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (10 bp):
AAAAATACGA
Found at i:98663674 original size:21 final size:21
Alignment explanation
Indices: 98663648--98663688 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
98663638 AGACGAGCAA
* *
98663648 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
98663669 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
98663689 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:98667531 original size:14 final size:15
Alignment explanation
Indices: 98667512--98667540 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
98667502 ATAAATCATA
98667512 TTTTAACC-CTTTTT
1 TTTTAACCTCTTTTT
98667526 TTTTAACCTCTTTTT
1 TTTTAACCTCTTTTT
98667541 GAGACAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTTAACCTCTTTTT
Found at i:98668050 original size:20 final size:20
Alignment explanation
Indices: 98668010--98668051 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
98668000 TTAATATCAA
* **
98668010 AATAATAACAACATGGTAAT
1 AATAATAAAAACATGAAAAT
98668030 AATAATAAAAACATGAAAAT
1 AATAATAAAAACATGAAAAT
98668050 AA
1 AA
98668052 GAATCCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (20 bp):
AATAATAAAAACATGAAAAT
Found at i:98698085 original size:22 final size:22
Alignment explanation
Indices: 98698059--98698104 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
98698049 TTTTTTTCCA
98698059 ATAACTTGAATATACATCACAC
1 ATAACTTGAATATACATCACAC
98698081 ATAACTTGAATATACATCACAC
1 ATAACTTGAATATACATCACAC
98698103 AT
1 AT
98698105 TCAAAAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (22 bp):
ATAACTTGAATATACATCACAC
Found at i:98701068 original size:5 final size:5
Alignment explanation
Indices: 98701050--98701110 Score: 113
Period size: 5 Copynumber: 12.0 Consensus size: 5
98701040 TTTCTTTTAT
98701050 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
98701101 ATATA ATATA
1 ATATA ATATA
98701111 CTTAATTATT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 50 0.91
6 5 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:98703931 original size:20 final size:18
Alignment explanation
Indices: 98703898--98703946 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
98703888 TATATAATAT
**
98703898 TTTTTTATTTTTTTCCTATA
1 TTTTTTATAATTTT-CTA-A
98703918 TTTTTTATAATTTTCTAA
1 TTTTTTATAATTTTCTAA
*
98703936 ATTTTTATAAT
1 TTTTTTATAAT
98703947 GCTTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 11 0.42
19 3 0.12
20 12 0.46
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTATAATTTTCTAA
Found at i:98703958 original size:18 final size:18
Alignment explanation
Indices: 98703917--98703958 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
98703907 TTTTTCCTAT
*
98703917 ATTTTTTATAATTTTCTA
1 ATTTTTTATAATCTTCTA
*
98703935 AATTTTTATAATGCTT-TA
1 ATTTTTTATAAT-CTTCTA
98703953 ATTTTT
1 ATTTTT
98703959 AACCTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTTTTTATAATCTTCTA
Found at i:98705950 original size:2 final size:2
Alignment explanation
Indices: 98705943--98705981 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
98705933 CTTTTTCTTT
98705943 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
98705982 TTTTGATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:98716040 original size:21 final size:21
Alignment explanation
Indices: 98716014--98716054 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
98716004 TAACAGAACC
98716014 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCAAGTTAACTA
*
98716035 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGGCAAGTTAACT
98716055 TGCCACATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTA
Found at i:98717027 original size:21 final size:21
Alignment explanation
Indices: 98717003--98717043 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
98716993 CAACGTGGCA
*
98717003 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
*
98717024 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
98717044 GGTTCTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:98717145 original size:30 final size:31
Alignment explanation
Indices: 98717074--98717137 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
98717064 GGAAACCGTT
*
98717074 AGTTAGTGACTGTTTTGTCACTTTTTTATAA
1 AGTTAGTGACTGTTTTGTCACTTTTTCATAA
* *
98717105 TGTTAGTGACTGTTTTGTTA-TTTTTCA-AA
1 AGTTAGTGACTGTTTTGTCACTTTTTCATAA
98717134 AGTT
1 AGTT
98717138 GGGTGACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 5 0.17
30 6 0.21
31 18 0.62
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.53
Consensus pattern (31 bp):
AGTTAGTGACTGTTTTGTCACTTTTTCATAA
Found at i:98726136 original size:47 final size:46
Alignment explanation
Indices: 98726021--98726212 Score: 195
Period size: 47 Copynumber: 4.0 Consensus size: 46
98726011 TGCACATAGT
* * * * *
98726021 CACATATCACATACCGAGGCCATAGCCCAGCTATGGTCTTACACGGAT
1 CACATATCAC--ACCGATGCCATAGCCCAGATATGGTCTTATACGAAG
* * *
98726069 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATAC-GAAG
* *
98726116 CACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATAC-GAAG
* *
98726163 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGAA
1 CACATATCACA-----CCGATGCCATAGCCCAGATATGGTCTTATACGAA
98726213 AATCACATTT
Statistics
Matches: 123, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
46 27 0.22
47 56 0.46
48 10 0.08
51 3 0.02
52 27 0.22
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (46 bp):
CACATATCACACCGATGCCATAGCCCAGATATGGTCTTATACGAAG
Found at i:98728876 original size:31 final size:32
Alignment explanation
Indices: 98728840--98728907 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
98728830 TTTTTGAGCT
* *
98728840 AAATTTGACCCTCAACCATTT-AAAAAGAGTC
1 AAATTTGACCATCAACCATTTAAAAAAAAGTC
*
98728871 AAATTTGACCATCAACCTTTTAAAAAAAAGTC
1 AAATTTGACCATCAACCATTTAAAAAAAAGTC
98728903 AAATT
1 AAATT
98728908 GCTATTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 19 0.58
32 14 0.42
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (32 bp):
AAATTTGACCATCAACCATTTAAAAAAAAGTC
Found at i:98736983 original size:28 final size:28
Alignment explanation
Indices: 98736943--98737000 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
98736933 AAAGCACTAA
98736943 TACAAGCAACTATATTAAAATTTACGCT
1 TACAAGCAACTATATTAAAATTTACGCT
98736971 TACAAGCAACTATATTAAAATTTACGCT
1 TACAAGCAACTATATTAAAATTTACGCT
98736999 TA
1 TA
98737001 TACAAGTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (28 bp):
TACAAGCAACTATATTAAAATTTACGCT
Done.