Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 324 of 352
Found at i:104921905 original size:21 final size:22
Alignment explanation
Indices: 104921875--104921916 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
104921865 CATTAAAGCT
104921875 AAATTAAAAAATA-AATAAAATG
1 AAATTAAAAAATATAA-AAAATG
104921897 AAATT-AAAAATATAAAAAAT
1 AAATTAAAAAATATAAAAAAT
104921917 ACGAGAGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
AAATTAAAAAATATAAAAAATG
Found at i:104925527 original size:30 final size:31
Alignment explanation
Indices: 104925503--104925561 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
104925493 GTAAATACTT
* *
104925503 AAAACTTGAGGGGTTAA-AGTGTAAATATGA
1 AAAACTTGAAGGGTCAATAGTGTAAATATGA
*
104925533 AAAATTTGAAGGGTCAATAGTGTAAATAT
1 AAAACTTGAAGGGTCAATAGTGTAAATAT
104925562 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (31 bp):
AAAACTTGAAGGGTCAATAGTGTAAATATGA
Found at i:104925839 original size:11 final size:10
Alignment explanation
Indices: 104925817--104925850 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
104925807 ATGAGATATT
104925817 TTATTATTTA
1 TTATTATTTA
104925827 TTATTATTTTA
1 TTATTA-TTTA
104925838 TTATTAATTTA
1 TTATT-ATTTA
104925849 TT
1 TT
104925851 TAATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 15 0.68
12 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTATTATTTA
Found at i:104927609 original size:40 final size:40
Alignment explanation
Indices: 104927496--104927633 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
104927486 CTCAAGAATA
** *
104927496 TAAAGTGAATAGGATTTGTTCCTGATTCACTATAATACCT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
104927536 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
*
104927576 TAAAGTGAATAGGATTTTTTCCTGATTCACTATGGTAACT
1 TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
* **
104927616 TAAGGCAAATAGGATTTG
1 TAAAGTGAATAGGATTTG
104927634 ACCTGAAAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (40 bp):
TAAAGTGAATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:104929084 original size:17 final size:17
Alignment explanation
Indices: 104929062--104929124 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
104929052 TATAAATTGA
104929062 TATATATTATTTTTATT
1 TATATATTATTTTTATT
** *
104929079 TATATATTATCCATTACAT
1 TATATATTAT-TTTTA-TT
104929098 TATAT-TTATTATTTATT
1 TATATATTATT-TTTATT
*
104929115 TATAAATTAT
1 TATATATTAT
104929125 ATGTTATTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
17 15 0.43
18 14 0.40
19 6 0.17
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATATTATTTTTATT
Found at i:104929124 original size:18 final size:19
Alignment explanation
Indices: 104929101--104929149 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
104929091 ATTACATTAT
104929101 ATTTATTAT-TTATTTATAA
1 ATTTATTATATTATTTA-AA
*
104929120 A-TTA-TATGTTA-TTAAA
1 ATTTATTATATTATTTAAA
104929136 ATTTATTATATTAT
1 ATTTATTATATTAT
104929150 ATGATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
16 3 0.12
17 9 0.36
18 12 0.48
19 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTATTATATTATTTAAA
Found at i:104929131 original size:25 final size:26
Alignment explanation
Indices: 104929091--104929160 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 26
104929081 TATATTATCC
* **
104929091 ATTACATTATAT-TTATTATTTATTT
1 ATTAAATTATATGTTATTATAAATTT
104929116 A-TAAATTATATGTTATTA-AAATTT
1 ATTAAATTATATGTTATTATAAATTT
* *
104929140 ATTATATTATATGATATTATA
1 ATTAAATTATATGTTATTATA
104929161 TTAGCTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
24 14 0.38
25 22 0.59
26 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (26 bp):
ATTAAATTATATGTTATTATAAATTT
Found at i:104929162 original size:20 final size:23
Alignment explanation
Indices: 104929138--104929190 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 23
104929128 TTATTAAAAT
104929138 TTATTATATTATAT-GATAT-TA
1 TTATTATATTATATGGATATGTA
**
104929159 -TATTAGCTTATATGGATATGTA
1 TTATTATATTATATGGATATGTA
104929181 TTATTATATT
1 TTATTATATT
104929191 TTATTAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 11 0.44
21 5 0.20
22 2 0.08
23 7 0.28
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (23 bp):
TTATTATATTATATGGATATGTA
Found at i:104933466 original size:10 final size:10
Alignment explanation
Indices: 104933451--104933497 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
104933441 AGGTAAGAAA
104933451 ATAAAATTTT
1 ATAAAATTTT
104933461 ATAAAATTTT
1 ATAAAATTTT
104933471 -TCATAAATTTT
1 AT-A-AAATTTT
*
104933482 TTAAAA-TTT
1 ATAAAATTTT
104933491 ATAAAAT
1 ATAAAAT
104933498 AAATCTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 9 0.28
10 14 0.44
11 8 0.25
12 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:104935111 original size:15 final size:14
Alignment explanation
Indices: 104935089--104935149 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
104935079 GTATGATGAT
104935089 AATAATAAT-AATA
1 AATAATAATAAATA
104935102 GAAGTAATAATAAATA
1 -AA-TAATAATAAATA
104935118 AATAATAATGAAA-A
1 AATAATAAT-AAATA
104935132 ATATAACTAATATAATA
1 A-ATAA-TAATA-AATA
104935149 A
1 A
104935150 TATTACAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
14 11 0.28
15 17 0.43
16 10 0.25
17 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (14 bp):
AATAATAATAAATA
Found at i:104935121 original size:26 final size:24
Alignment explanation
Indices: 104935092--104935151 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
104935082 TGATGATAAT
*
104935092 AATAATAATAGAAGTAATAATAAATA
1 AATAATAATAGAA-AAAT-ATAAATA
*
104935118 AATAATAAT-GAAAAATATAACTA
1 AATAATAATAGAAAAATATAAATA
104935141 ATATAATAATA
1 A-ATAATAATA
104935152 TTACAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 7 0.23
24 11 0.37
25 3 0.10
26 9 0.30
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (24 bp):
AATAATAATAGAAAAATATAAATA
Found at i:104937479 original size:15 final size:15
Alignment explanation
Indices: 104937444--104937473 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
104937434 TTTAATTCTT
104937444 TATAAATTATAAAAA
1 TATAAATTATAAAAA
104937459 TATAAATTATAAAAA
1 TATAAATTATAAAAA
104937474 ATTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAATTATAAAAA
Found at i:104944828 original size:28 final size:28
Alignment explanation
Indices: 104944741--104944830 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
104944731 GTGACAGAGT
*
104944741 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
* ** **
104944770 CACCAAAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCATAGC
*
104944797 CACCAGAACAGATAATTTGTGGCATAGT
1 CACCAGAACAGATAATTTGTGGCATAGC
104944825 CACCAG
1 CACCAG
104944831 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
27 21 0.44
28 21 0.44
29 6 0.12
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:104944983 original size:28 final size:28
Alignment explanation
Indices: 104944936--104944997 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
104944926 AAATTAACCC
* *
104944936 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGCATAAAGGTAATTTTGCATACA
*
104944964 TAGGGGCATAATGGTAATTTTGCATACA
1 TAGGGGCATAAAGGTAATTTTGCATACA
104944992 TAGGGG
1 TAGGGG
104944998 TATTCTAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.31
Consensus pattern (28 bp):
TAGGGGCATAAAGGTAATTTTGCATACA
Found at i:104948467 original size:18 final size:18
Alignment explanation
Indices: 104948439--104948477 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
104948429 AGTGGAAGGA
104948439 AAAACCAAGAAAATAAAAT
1 AAAACCAAG-AAATAAAAT
*
104948458 AAAA-CAAGAATTAAAAT
1 AAAACCAAGAAATAAAAT
104948475 AAA
1 AAA
104948478 GAGAGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 4 0.21
19 4 0.21
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAACCAAGAAATAAAAT
Found at i:104948659 original size:35 final size:34
Alignment explanation
Indices: 104948599--104948666 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
104948589 TGAGAAGTGA
* * *
104948599 AGGGGATGAGGGAGAAGGGGAAAGGAG-AGGGGT
1 AGGGGAAGAGGGAAAAAGGGAAAGGAGAAGGGGT
104948632 AGGGGAAGAGAGGAAAAAGGGAGAAGGAGAAGGGG
1 AGGGGAAGAG-GGAAAAAGGGA-AAGGAGAAGGGG
104948667 GCTGGTTGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 9 0.31
34 9 0.31
35 6 0.21
36 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.57, T:0.03
Consensus pattern (34 bp):
AGGGGAAGAGGGAAAAAGGGAAAGGAGAAGGGGT
Found at i:104954028 original size:12 final size:12
Alignment explanation
Indices: 104954011--104954041 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
104954001 GAAACAGGGG
104954011 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
104954023 AGAAAAAGGGAA
1 AGAAAAAGAGAA
104954035 AGAAAAA
1 AGAAAAA
104954042 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:104957958 original size:42 final size:41
Alignment explanation
Indices: 104957897--104958032 Score: 177
Period size: 41 Copynumber: 3.3 Consensus size: 41
104957887 ACATTAGCAG
*
104957897 ACGCCGCT-AAAAACAGAGCAATAGCTGTGTTTTTTGGTAAA
1 ACGCCGCTAAAAAACAGAGCAATAGCTGCG-TTTTTGGTAAA
* *
104957938 ACGCCACTAAAAAACAGAGCAATAGCTGCGTTTTTGGTCAA
1 ACGCCGCTAAAAAACAGAGCAATAGCTGCGTTTTTGGTAAA
* ** *
104957979 ACGCCGCTAAAAAACAGACCAATAGAGGCGTTTTTGCTCAAA
1 ACGCCGCTAAAAAACAGAGCAATAGCTGCGTTTTTGGT-AAA
104958021 ACGCCGC-AAAAA
1 ACGCCGCTAAAAA
104958033 GTCATATAAC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
41 55 0.65
42 29 0.35
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (41 bp):
ACGCCGCTAAAAAACAGAGCAATAGCTGCGTTTTTGGTAAA
Found at i:104958090 original size:47 final size:45
Alignment explanation
Indices: 104958037--104958167 Score: 174
Period size: 47 Copynumber: 2.8 Consensus size: 45
104958027 CAAAAAGTCA
*
104958037 TATAACCCCTAAAATCCTAAACCCTCAAAAAATCATAAACACTAATT
1 TATAACCCCTAAAA-CCTAAACCC-CAAAAAATCATAAACACTAATC
104958084 TATAACCCCTAAAACCTTTAAACCCCAAAAAA-CACTAAACACTAATC
1 TATAACCCCTAAAACC--TAAACCCCAAAAAATCA-TAAACACTAATC
*
104958131 TATAACCCCTAAAACCCTAAACCCAAAAAACATCATA
1 TATAACCCCTAAAA-CCTAAACCCCAAAAA-ATCATA
104958168 TGGACGTTGA
Statistics
Matches: 76, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
46 16 0.21
47 49 0.64
48 11 0.14
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.20
Consensus pattern (45 bp):
TATAACCCCTAAAACCTAAACCCCAAAAAATCATAAACACTAATC
Found at i:104966763 original size:21 final size:20
Alignment explanation
Indices: 104966737--104966776 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
104966727 AATTGTATAT
104966737 AAAAACACATAAAAATAATAA
1 AAAAACAC-TAAAAATAATAA
* *
104966758 AAAAACTCTTAAAATAATA
1 AAAAACACTAAAAATAATA
104966777 TAATATACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAAACACTAAAAATAATAA
Found at i:104967124 original size:22 final size:24
Alignment explanation
Indices: 104967073--104967128 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
104967063 ATACAATCTT
*
104967073 AGATATGA-TGTGTAAATATTAGA
1 AGATATGATTTTGTAAATATTAGA
*
104967096 AGATATGATTTTG-AAATCTTAG-
1 AGATATGATTTTGTAAATATTAGA
104967118 AGATATGATTT
1 AGATATGATTT
104967129 GTAGATAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 11 0.37
23 16 0.53
24 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (24 bp):
AGATATGATTTTGTAAATATTAGA
Found at i:104969659 original size:22 final size:22
Alignment explanation
Indices: 104969631--104969675 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
104969621 TACAGAAAGC
104969631 TTATAGAGATATACAC-AAGGAA
1 TTATAGAGATATAC-CGAAGGAA
104969653 TTATAGAGATATACCGAAGGAA
1 TTATAGAGATATACCGAAGGAA
104969675 T
1 T
104969676 GAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (22 bp):
TTATAGAGATATACCGAAGGAA
Found at i:104971629 original size:20 final size:22
Alignment explanation
Indices: 104971590--104971635 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
104971580 CTCTGCTCAA
*
104971590 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
104971611 ACTCCACCTG-TGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
104971632 ACTC
1 ACTC
104971636 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:104976083 original size:44 final size:44
Alignment explanation
Indices: 104976030--104976154 Score: 182
Period size: 43 Copynumber: 2.9 Consensus size: 44
104976020 CCCCTACCCC
* * *
104976030 ATAATTTTTTTCTCCGAT-CAATATGGCTCACAAGTTCCCATAAA
1 ATAATTTTTTTCTCCAATGC-ACATGGCACACAAGTTCCCATAAA
* *
104976074 AT-AGTTTTTTCTCCAATGCACATGGCAGACAAGTTCCCATAAA
1 ATAATTTTTTTCTCCAATGCACATGGCACACAAGTTCCCATAAA
104976117 ATAATTTTTTTCTCCAATGCACATGGCACACAAGTTCC
1 ATAATTTTTTTCTCCAATGCACATGGCACACAAGTTCC
104976155 ACATGTTGTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
43 36 0.50
44 36 0.50
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (44 bp):
ATAATTTTTTTCTCCAATGCACATGGCACACAAGTTCCCATAAA
Found at i:104976329 original size:20 final size:20
Alignment explanation
Indices: 104976291--104976329 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
104976281 TTTTTACATA
* *
104976291 TTTATAATTTTAAACAATAT
1 TTTATAATTTAAAAAAATAT
*
104976311 TTTATAGTTTAAAAAAATA
1 TTTATAATTTAAAAAAATA
104976330 AATAAATATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTATAATTTAAAAAAATAT
Found at i:104976363 original size:20 final size:20
Alignment explanation
Indices: 104976333--104976380 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
104976323 AAAAATAAAT
*
104976333 AAATATTTTTTA-ATTTTTA
1 AAATTTTTTTTATATTTTTA
104976352 AAGATTTTTTTTATATTTTTA
1 AA-ATTTTTTTTATATTTTTA
104976373 AAATTTTT
1 AAATTTTT
104976381 GATAACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 15 0.58
21 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
AAATTTTTTTTATATTTTTA
Found at i:104990309 original size:24 final size:24
Alignment explanation
Indices: 104990258--104990377 Score: 179
Period size: 24 Copynumber: 5.0 Consensus size: 24
104990248 GCTTTATCAT
*
104990258 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
104990283 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
104990307 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
104990331 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
104990355 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
104990378 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
24 75 0.86
25 12 0.14
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:104990456 original size:20 final size:20
Alignment explanation
Indices: 104990427--104990493 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
104990417 TTATGAATAC
104990427 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
104990447 ATCATATGCATATCGTACAT
1 ATCATGTGCATATCATACAT
*
104990467 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
104990487 ACCATGT
1 ATCATGT
104990494 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:104990458 original size:11 final size:11
Alignment explanation
Indices: 104990427--104990483 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
104990417 TTATGAATAC
*
104990427 ATCATGTGCAT
1 ATCATATGCAT
104990438 ATCATA--CAT
1 ATCATATGCAT
104990447 ATCATATGCAT
1 ATCATATGCAT
*
104990458 ATCGTA--CAT
1 ATCATATGCAT
* *
104990467 GTCATGTGCAT
1 ATCATATGCAT
104990478 ATCATA
1 ATCATA
104990484 CATACCATGT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:104990562 original size:25 final size:25
Alignment explanation
Indices: 104990530--104990577 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
104990520 ATATATAAAC
* *
104990530 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
104990555 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
104990578 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:104993015 original size:19 final size:18
Alignment explanation
Indices: 104992978--104993021 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
104992968 ATACTTACAG
104992978 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
104992995 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
104993014 TACTAATT
1 TAATAATT
104993022 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:104995749 original size:26 final size:25
Alignment explanation
Indices: 104995720--104995792 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
104995710 TTTCTCAAGG
104995720 GTAAAATCATCAAAATTTTACGTGAT
1 GTAAAAT-ATCAAAATTTTACGTGAT
* * *
104995746 GTAAAATTGTTAAAATTTTACGTGGT
1 GTAAAA-TATCAAAATTTTACGTGAT
104995772 GTAAAATAGTCAAAATTTTAC
1 GTAAAATA-TCAAAATTTTAC
104995793 TACAGTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.03
26 38 0.95
27 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (25 bp):
GTAAAATATCAAAATTTTACGTGAT
Found at i:104998518 original size:39 final size:39
Alignment explanation
Indices: 104998475--104998629 Score: 238
Period size: 39 Copynumber: 4.0 Consensus size: 39
104998465 CAGCACGTAT
*
104998475 CCTGCGGACCTAAAGTCCGGATATAATTCTCGCATATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* * *
104998514 CCTGCGGACATGAAGTCCGGATATAATTCTAGCTTATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* *
104998553 CCTGCGGACCTGAAGTCCAGATATAATTCTCGCTTATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* *
104998592 CCTGCGGACCTGAAGTCTGGATATAATTCTCACATATA
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATA
104998630 TATATTCACA
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (39 bp):
CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
Found at i:105006785 original size:39 final size:39
Alignment explanation
Indices: 105006742--105006896 Score: 229
Period size: 39 Copynumber: 4.0 Consensus size: 39
105006732 CAGCACGTAT
* *
105006742 CCTGCGGACCTAAAGTCTGGATATAATTCTCGCATATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* * *
105006781 CCTGCGGACATGAAGTCCGGATATAATTCTAGCTTATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* *
105006820 CCTGCGGACCTGAAGTCCAGATATAATTCTCGCTTATAG
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
* *
105006859 CCTGCGGACCTGAAGTCTGGATATAATTCTCACATATA
1 CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATA
105006897 TATATTCACA
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 104 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (39 bp):
CCTGCGGACCTGAAGTCCGGATATAATTCTCGCATATAG
Found at i:105009949 original size:58 final size:58
Alignment explanation
Indices: 105009829--105009952 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 58
105009819 TCTTTGTCAC
* * * * * * *
105009829 AATCTCTGAAAGAAAAGCCTTTGTGGTGAGTACTGAATGAAAAGGACGCACTTGTGGC
1 AATCTCTAAAAGAAAAGCATTTGTAGTGAGTACTGAACGAAAAGGACACACTTATGGA
* *
105009887 AATCTCTAAAAGGAAAGTATTTGTAGTGAGTACTGAACGAAAAGGACAC-CTTTATGGA
1 AATCTCTAAAAGAAAAGCATTTGTAGTGAGTACTGAACGAAAAGGACACAC-TTATGGA
105009945 AATCTCTA
1 AATCTCTA
105009953 GATATGGAAG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 1 0.02
58 55 0.98
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (58 bp):
AATCTCTAAAAGAAAAGCATTTGTAGTGAGTACTGAACGAAAAGGACACACTTATGGA
Found at i:105019379 original size:21 final size:21
Alignment explanation
Indices: 105019339--105019396 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
105019329 TCATTAAACG
*
105019339 TTAAACCATAAAACCCTAAACTA
1 TTAAACC-TTAAACCCTAAA-TA
* *
105019362 -TAGACCTTAAACCTTAAATA
1 TTAAACCTTAAACCCTAAATA
105019382 TTAAACCTTAAACCC
1 TTAAACCTTAAACCC
105019397 AAAAAAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 2 0.07
21 22 0.76
22 5 0.17
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (21 bp):
TTAAACCTTAAACCCTAAATA
Found at i:105019619 original size:54 final size:54
Alignment explanation
Indices: 105019509--105019625 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 54
105019499 GTTTTTTGAT
* *
105019509 GTTTAGGGTTTTAAGGGTAATAGTTTAGTGTTTAAGGTTTTTTAAGGTTTAGGG
1 GTTTAGGGTTTTAAGGGTAATAGATTAGTGTTTAAAGTTTTTTAAGGTTTAGGG
* * * * **
105019563 GTTTAGTGTTTTAGGGGTTATAGATTAGTGTTTATAATTTTTTTGGGGTTTA-GG
1 GTTTAGGGTTTTAAGGGTAATAGATTAGTGTTTA-AAGTTTTTTAAGGTTTAGGG
105019617 GTTGTAGGG
1 GTT-TAGGG
105019626 GTTATATGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (54 bp):
GTTTAGGGTTTTAAGGGTAATAGATTAGTGTTTAAAGTTTTTTAAGGTTTAGGG
Found at i:105019693 original size:41 final size:41
Alignment explanation
Indices: 105019636--105019817 Score: 242
Period size: 41 Copynumber: 4.4 Consensus size: 41
105019626 GTTATATGAC
* * *
105019636 TTTTAGCAGTGTTTTACTGAAAGCGACGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGACGCTAATGCTCTAGT
** * *
105019677 TTTTAGCGGCGTTTTACAAAAAACGCCGCTAATGCTCT-GAT
1 TTTTAGCGGCGTTTTACCGAAAGCGACGCTAATGCTCTAG-T
*
105019718 TTTTAGCGGCGTTTTACCGAAAGC-ACAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGAC-GCTAATGCTCTAGT
* *
105019759 TTTTAGCGACGTTTTACCGAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGACGCTAATGCTCTAGT
105019800 TTTTAGCGGCGTTTTACC
1 TTTTAGCGGCGTTTTACC
105019818 AAAAAATGCC
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
40 2 0.02
41 119 0.97
42 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGACGCTAATGCTCTAGT
Found at i:105031141 original size:22 final size:22
Alignment explanation
Indices: 105031111--105031163 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
105031101 TTCAATACAA
*
105031111 AGATGATTTGCCAAAGCCTTAAG
1 AGAT-ATTTGCCAAAGCCTCAAG
*
105031134 TGATATTTGCCAAAGCCTCAAG
1 AGATATTTGCCAAAGCCTCAAG
105031156 AGATATTT
1 AGATATTT
105031164 CCTCTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 24 0.89
23 3 0.11
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (22 bp):
AGATATTTGCCAAAGCCTCAAG
Found at i:105041002 original size:18 final size:18
Alignment explanation
Indices: 105040979--105041023 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
105040969 TGTCGTCGAC
105040979 CACACGGCCATGTT-TTCG
1 CACACGGCCATGTTCTT-G
105040997 CACACGGCCATGTTCTTG
1 CACACGGCCATGTTCTTG
*
105041015 CACATGGCC
1 CACACGGCC
105041024 TACCACACGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.18, C:0.36, G:0.22, T:0.24
Consensus pattern (18 bp):
CACACGGCCATGTTCTTG
Found at i:105043183 original size:42 final size:42
Alignment explanation
Indices: 105043105--105043210 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
105043095 ATGCCATACA
* * * *
105043105 GCCTGGACACATGCCCATGTCCTTGCTAGTCTGGCTCACACT
1 GCCTGGGCACACGCCCATGTCCTTGCCAGTCAGGCTCACACT
* * * *
105043147 GCCTTGGCACACGCCCATGTCCTTGCCCGTGAGGCTCGCACT
1 GCCTGGGCACACGCCCATGTCCTTGCCAGTCAGGCTCACACT
*
105043189 GCCTGGGCACACACCCATGTCC
1 GCCTGGGCACACGCCCATGTCC
105043211 CTGGCTGTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.15, C:0.40, G:0.24, T:0.22
Consensus pattern (42 bp):
GCCTGGGCACACGCCCATGTCCTTGCCAGTCAGGCTCACACT
Found at i:105043310 original size:104 final size:104
Alignment explanation
Indices: 105043154--105043418 Score: 343
Period size: 104 Copynumber: 2.5 Consensus size: 104
105043144 ACTGCCTTGG
* * * * *
105043154 CACACGCCCATGTCCTTGCCCGTGAGGCTCGCACT-GCCTGGGCACACACCCATGTCCCTGGCTG
1 CACAAGCCCATGTCCTTGCCCGTGTGGCTCACA-TGGCCTGGGCACACGCCCATGTCCCTGGCCG
*
105043218 TGTGGTTCTAAAACGTAAACATTGAGTTACACGGCCTAGA
65 TGTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
* * *
105043258 CACATGCCTATGTCCTTGCCCGTGTGACTCACATGGCCTGGGCACACGCCCATGTCCCTGGCCGT
1 CACAAGCCCATGTCCTTGCCCGTGTGGCTCACATGGCCTGGGCACACGCCCATGTCCCTGGCCGT
* * ** *
105043323 GTGGTTCTAAAGCGTAAACAATGAGTTATACGGGTTGGA
66 GTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
* * * * *
105043362 CACAAGCCCATGTCCTTGCTCGTGTGGCTCACACGGTCTGGGCATATGCCCATGTCC
1 CACAAGCCCATGTCCTTGCCCGTGTGGCTCACATGGCCTGGGCACACGCCCATGTCC
105043419 TTACCTGTGT
Statistics
Matches: 139, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
103 1 0.01
104 138 0.99
ACGTcount: A:0.20, C:0.31, G:0.25, T:0.24
Consensus pattern (104 bp):
CACAAGCCCATGTCCTTGCCCGTGTGGCTCACATGGCCTGGGCACACGCCCATGTCCCTGGCCGT
GTGGTTCTAAAACGTAAACAATGAGTTACACGGCCTAGA
Found at i:105056624 original size:24 final size:23
Alignment explanation
Indices: 105056596--105056643 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
105056586 ACTCCAGATT
105056596 AACAAATTTATAAACCCAGAAAAA
1 AACAAATTTATAAACCCA-AAAAA
105056620 AACAAATTTATAAACCCAAAAAA
1 AACAAATTTATAAACCCAAAAAA
105056643 A
1 A
105056644 TGGTTGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.65, C:0.17, G:0.02, T:0.17
Consensus pattern (23 bp):
AACAAATTTATAAACCCAAAAAA
Found at i:105057292 original size:24 final size:25
Alignment explanation
Indices: 105057243--105057298 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
105057233 TAATTAGCAT
*
105057243 AAATATA-TATTTTTGAAATTATAA
1 AAATATATTATTTATGAAATTATAA
105057267 AAATATATTATTTAATG-AATTA-AA
1 AAATATATTATTT-ATGAAATTATAA
*
105057291 AACTATAT
1 AAATATAT
105057299 AAAACTCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 16 0.57
25 10 0.36
26 2 0.07
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (25 bp):
AAATATATTATTTATGAAATTATAA
Found at i:105066377 original size:41 final size:41
Alignment explanation
Indices: 105066329--105066414 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
105066319 AATCAACAAG
105066329 AAAATTCTTAAAATCTTTAAAATTTCAATAAAAAAGAGGTT
1 AAAATTCTTAAAATCTTTAAAATTTCAATAAAAAAGAGGTT
105066370 AAAATTCTTAAAATCTTTAAAATTTCAATAAAAAAGAGGTT
1 AAAATTCTTAAAATCTTTAAAATTTCAATAAAAAAGAGGTT
105066411 AAAA
1 AAAA
105066415 CTTTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (41 bp):
AAAATTCTTAAAATCTTTAAAATTTCAATAAAAAAGAGGTT
Found at i:105067016 original size:16 final size:16
Alignment explanation
Indices: 105066991--105067045 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
105066981 TCCTTAATCA
*
105066991 AATATATATTTTATTT
1 AATATTTATTTTATTT
*
105067007 AATATTTATTATATTT
1 AATATTTATTTTATTT
*
105067023 AATACTTATTTTATATT
1 AATATTTATTTTAT-TT
105067040 AA-ATTT
1 AATATTT
105067046 TTTAATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 29 0.88
17 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
AATATTTATTTTATTT
Found at i:105073164 original size:24 final size:24
Alignment explanation
Indices: 105073137--105073188 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
105073127 TTGCCAATAA
105073137 AGCTGAATATGTAGCAACTACTGG
1 AGCTGAATATGTAGCAACTACTGG
* *
105073161 AGCTGAATATGTAGCAGCTGCTGG
1 AGCTGAATATGTAGCAACTACTGG
105073185 AGCT
1 AGCT
105073189 ATGAATCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (24 bp):
AGCTGAATATGTAGCAACTACTGG
Found at i:105079986 original size:17 final size:16
Alignment explanation
Indices: 105079968--105080009 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
105079958 TAAATTAATA
105079968 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
*
105079984 AAATAAATAATAAAACT
1 AAATAAA-AATAAAAAT
105080001 AAATAAAAA
1 AAATAAAAA
105080010 AATATCTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:105079990 original size:29 final size:29
Alignment explanation
Indices: 105079958--105080013 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
105079948 TAGCCTATTC
105079958 TAAATTAATAAAA-TAAA-AATAAAAATAAA
1 TAAA-TAATAAAACTAAATAA-AAAAATAAA
105079987 TAAATAATAAAACTAAATAAAAAAATA
1 TAAATAATAAAACTAAATAAAAAAATA
105080014 TCTTCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 8 0.32
29 15 0.60
30 2 0.08
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (29 bp):
TAAATAATAAAACTAAATAAAAAAATAAA
Found at i:105081456 original size:17 final size:18
Alignment explanation
Indices: 105081431--105081466 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
105081421 ACTATTTTTA
*
105081431 AATATAAATTATAAAAAT
1 AATATAAATAATAAAAAT
105081449 AATA-AAATAATAAAAAT
1 AATATAAATAATAAAAAT
105081466 A
1 A
105081467 TTTTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AATATAAATAATAAAAAT
Found at i:105083088 original size:13 final size:13
Alignment explanation
Indices: 105083072--105083101 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
105083062 GGTGCTGCAA
105083072 AAAAATGCTTATG
1 AAAAATGCTTATG
*
105083085 AAAAATGCTTTTG
1 AAAAATGCTTATG
105083098 AAAA
1 AAAA
105083102 GCTTGGTCTA
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:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:105084652 original size:59 final size:58
Alignment explanation
Indices: 105084589--105084774 Score: 189
Period size: 59 Copynumber: 3.1 Consensus size: 58
105084579 CAAAATCAAT
105084589 TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAA
1 TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-TATAAGAA
* * * * * ** * * *
105084648 TATTTAATACTAAGAATTTTATTA-AATTATATATTTAT-ATTAAATTATATT-TAATAATAA
1 TATTTTAGA-TTA-TATTTTA-TAGTATTATATA-TTATGATTTTAGTAAATTCT-ATAAGAA
105084708 TTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
1 -TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC-TATAAGAA
105084768 TATTTTA
1 TATTTTA
105084775 ATATTAAGAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 16 0.16
61 31 0.32
62 6 0.06
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (58 bp):
TATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCTATAAGAA
Found at i:105084700 original size:16 final size:18
Alignment explanation
Indices: 105084663--105084697 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
105084653 AATACTAAGA
105084663 ATTT-TATTAAATTATAT
1 ATTTATATTAAATTATAT
105084680 ATTTATATTAAATTATAT
1 ATTTATATTAAATTATAT
105084698 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATATTAAATTATAT
Found at i:105084709 original size:16 final size:17
Alignment explanation
Indices: 105084670--105084715 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
105084660 AGAATTTTAT
* *
105084670 TAAATTATATATTTATAT
1 TAAATTATAT-TTAATAA
105084688 TAAATTATATTTAATAA
1 TAAATTATATTTAATAA
105084705 T-AATTAT-TTTA
1 TAAATTATATTTA
105084716 GATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 6 0.23
18 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTATATTTAATAA
Found at i:105084711 original size:26 final size:25
Alignment explanation
Indices: 105084682--105084738 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
105084672 AATTATATAT
105084682 TTATATTAAATTATATTTAATAATAA
1 TTATATTAAATTATATTTAATAAT-A
* * * *
105084708 TTATTTTAGATTATATTTTATAGTA
1 TTATATTAAATTATATTTAATAATA
105084733 TTATAT
1 TTATAT
105084739 ATTATGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
TTATATTAAATTATATTTAATAATA
Found at i:105084743 original size:120 final size:121
Alignment explanation
Indices: 105084586--105084832 Score: 442
Period size: 120 Copynumber: 2.0 Consensus size: 121
105084576 CCACAAAATC
*
105084586 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCGTATAAGAATA-
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
105084650 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
66 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
105084706 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* * *
105084771 TTTAATATTAAGAATTTTATTAAATTATATTTTTTTATTAAATTATATTTAATAAT
66 TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
*
105084827 TATTAT
1 AATTAT
105084833 GTTAAAATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
120 63 0.52
121 58 0.48
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (121 bp):
AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTTAATACTAAGAATTTTATTAAATTATATATTTATATTAAATTATATTTAATAAT
Found at i:105084806 original size:18 final size:18
Alignment explanation
Indices: 105084785--105084820 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
105084775 ATATTAAGAA
105084785 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
105084803 TTTTATTAAATTATATTT
1 TTTTATTAAATTATATTT
105084821 AATAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTAAATTATATTT
Found at i:105084828 original size:18 final size:18
Alignment explanation
Indices: 105084789--105084828 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
105084779 TAAGAATTTT
** *
105084789 ATTAAATTATATTTTTTT
1 ATTAAATTATATTTAATA
105084807 ATTAAATTATATTTAATA
1 ATTAAATTATATTTAATA
105084825 ATTA
1 ATTA
105084829 TTATGTTAAA
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:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAAATTATATTTAATA
Found at i:105085068 original size:45 final size:44
Alignment explanation
Indices: 105084978--105085072 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
105084968 TTACACCTCT
* *
105084978 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTAATCC
*** *
105085022 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAATCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTAATCC
105085067 ATTACA
1 ATTACA
105085073 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 20 0.45
45 24 0.55
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTAATCC
Found at i:105085072 original size:16 final size:16
Alignment explanation
Indices: 105085051--105085120 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
105085041 TTGATTTGCT
105085051 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
105085067 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
105085083 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
105085099 ATTACGCCTCTAATCC
1 ATTACACCTCTAATCC
*
105085115 AATACA
1 ATTACA
105085121 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.36, G:0.01, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:105089705 original size:67 final size:67
Alignment explanation
Indices: 105089597--105089731 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
105089587 CATGAAGTAA
105089597 AGATCTTAGCATCGAATTACGACTGCTATTAATACTTCACTGTAATTACGGATAATGAAATGTAC
1 AGATCTTAGCATCGAATTACGACTGCTATTAATACTTCACTGTAATTACGGATAATGAAATGTAC
105089662 TT
66 TT
*
105089664 AGATCTTAGCATCGAATTACGACTGCTATTGATACTTCACTGTAATTACGGATAATGAAATGTAC
1 AGATCTTAGCATCGAATTACGACTGCTATTAATACTTCACTGTAATTACGGATAATGAAATGTAC
105089729 TT
66 TT
105089731 A
1 A
105089732 CTTTTTCACC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (67 bp):
AGATCTTAGCATCGAATTACGACTGCTATTAATACTTCACTGTAATTACGGATAATGAAATGTAC
TT
Found at i:105093230 original size:45 final size:45
Alignment explanation
Indices: 105093166--105093254 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
105093156 GAAAAAGTAA
105093166 GTACATTTAATTAGCTGTAATTACAGTCAAGTATCAATAGTAGTT
1 GTACATTTAATTAGCTGTAATTACAGTCAAGTATCAATAGTAGTT
105093211 GTACATTTAATTAGCTGTAATTACAGTCAAGTATCAATAGTAGT
1 GTACATTTAATTAGCTGTAATTACAGTCAAGTATCAATAGTAGT
105093255 CGTAATTCGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (45 bp):
GTACATTTAATTAGCTGTAATTACAGTCAAGTATCAATAGTAGTT
Found at i:105095483 original size:18 final size:19
Alignment explanation
Indices: 105095460--105095497 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
105095450 GTTTATAATA
*
105095460 ATTTATAT-TATGTTATTT
1 ATTTATATATATGTAATTT
105095478 ATTTATATATATGTAATTT
1 ATTTATATATATGTAATTT
105095497 A
1 A
105095498 GAGCACATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
ATTTATATATATGTAATTT
Found at i:105100208 original size:35 final size:35
Alignment explanation
Indices: 105100162--105100232 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
105100152 TTTTATGCAA
105100162 CAACTTAGTCAACGGTGCTCTAATCAATGAGAACC
1 CAACTTAGTCAACGGTGCTCTAATCAATGAGAACC
105100197 CAACTTAGTCAACGGTGCTCTAATCAATGAGAACC
1 CAACTTAGTCAACGGTGCTCTAATCAATGAGAACC
105100232 C
1 C
105100233 TTCTATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (35 bp):
CAACTTAGTCAACGGTGCTCTAATCAATGAGAACC
Found at i:105106126 original size:20 final size:21
Alignment explanation
Indices: 105106074--105106136 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 21
105106064 GTCCATTTTA
105106074 AAATTATATTA-AAAATAGTT
1 AAATTATATTATAAAATAGTT
***
105106094 TTTTTA-ATT-TAAAATA-TT
1 AAATTATATTATAAAATAGTT
105106112 AAATTATATTATAAAAAATAGTT
1 AAATTATATTAT--AAAATAGTT
105106135 AA
1 AA
105106137 TTTTTAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 9
0.67 0.13 0.20
Matches are distributed among these distances:
18 5 0.16
19 12 0.39
20 4 0.13
22 6 0.19
23 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (21 bp):
AAATTATATTATAAAATAGTT
Found at i:105106196 original size:16 final size:17
Alignment explanation
Indices: 105106175--105106209 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
105106165 TCAGAAAATT
*
105106175 AAAATAT-AATTATTTA
1 AAAATATAAAATATTTA
105106191 AAAATATAAAATATTTA
1 AAAATATAAAATATTTA
105106208 AA
1 AA
105106210 TATTCTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAATATAAAATATTTA
Found at i:105108063 original size:33 final size:34
Alignment explanation
Indices: 105108021--105108089 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 34
105108011 AGATAGAAGC
* *
105108021 ATTGTCACTAATTGATAAATTTATAGT-AGAAAA
1 ATTGCCACTAATTAATAAATTTATAGTAAGAAAA
*
105108054 ATTGCCACTAATTAATAAATTTATTGTAAGAAAA
1 ATTGCCACTAATTAATAAATTTATAGTAAGAAAA
105108088 AT
1 AT
105108090 AATTTCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 24 0.75
34 8 0.25
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.36
Consensus pattern (34 bp):
ATTGCCACTAATTAATAAATTTATAGTAAGAAAA
Found at i:105108319 original size:6 final size:6
Alignment explanation
Indices: 105108308--105108341 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
105108298 TAAAGTTTTC
*
105108308 AATTTA AATTTA AATTTA AATTT- AATTTA GATTT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT
105108342 CGATCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:105113641 original size:19 final size:18
Alignment explanation
Indices: 105113599--105113660 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
105113589 TCATCCACCA
* * *
105113599 AATTAGCTAATTAGATTT
1 AATTAGTTAATTATAATT
*
105113617 ATATTAGTTAATTGTTAATT
1 A-ATTAGTTAATT-ATAATT
105113637 AATTAAGTTAATTATAATT
1 AATT-AGTTAATTATAATT
105113656 AATTA
1 AATTA
105113661 TAAACTAACC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 2 0.06
19 22 0.61
20 12 0.33
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (18 bp):
AATTAGTTAATTATAATT
Found at i:105125812 original size:35 final size:35
Alignment explanation
Indices: 105125773--105125839 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
105125763 TATATTATTA
* **
105125773 ATAAATTTATTATTTTGTCATTCAATTTTAAAAAT
1 ATAAATTAATTATTAAGTCATTCAATTTTAAAAAT
*
105125808 ATAAATTAATTATTAAGTTATTCAATTTTAAA
1 ATAAATTAATTATTAAGTCATTCAATTTTAAA
105125840 TTATTGAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (35 bp):
ATAAATTAATTATTAAGTCATTCAATTTTAAAAAT
Found at i:105128035 original size:17 final size:17
Alignment explanation
Indices: 105127999--105128037 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
105127989 AGTGAGCCAT
*
105127999 TAATAAAGATACAATCA
1 TAATAAAGATACAATAA
105128016 TAATAAA-ATACAATAAA
1 TAATAAAGATACAAT-AA
105128033 TAATA
1 TAATA
105128038 TTACAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (17 bp):
TAATAAAGATACAATAA
Found at i:105129954 original size:44 final size:44
Alignment explanation
Indices: 105129901--105130013 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 44
105129891 AAATTCGGCT
* *
105129901 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCTTTGAATTCAACC
1 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCTGTAAATTCAACC
* * ** *
105129945 TGTTACCCTACTGCCTT--GGGGTTTAGGGTCTGTAAATTTAACC
1 TGTTACCCTACTG-CTTAGGGGGTTAAAGCCCTGTAAATTCAACC
* *
105129988 TGTTACCCTACTACTTAGGGGTTTAA
1 TGTTACCCTACTGCTTAGGGGGTTAA
105130014 GACTCATCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 3 0.05
43 31 0.55
44 19 0.34
45 3 0.05
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (44 bp):
TGTTACCCTACTGCTTAGGGGGTTAAAGCCCTGTAAATTCAACC
Found at i:105130072 original size:45 final size:45
Alignment explanation
Indices: 105129901--105130078 Score: 136
Period size: 44 Copynumber: 4.0 Consensus size: 45
105129891 AAATTCGGCT
* ** * * *
105129901 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCTTTGAA--TTCAACC
1 TGTTACCCTACTACTTAGGGGGTT-AAGATCTGTAAATCTTCAATC
* * * * *
105129945 TGTTACCCTACTGCCTT-GGGGTTTAGGGTCTGTAAAT-TT-AACC
1 TGTTACCCTACT-ACTTAGGGGGTTAAGATCTGTAAATCTTCAATC
* * *
105129988 TGTTACCCTACTACTTAGGGGTTTAAGA-CT-CATCATCTTCAATC
1 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTA-AATCTTCAATC
* *
105130032 TGTTTCCCTACTACTTAGGGGGTTGAGATCTGTAAATCTTCAATC
1 TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAATC
105130077 TG
1 TG
105130079 CTTCACTGCA
Statistics
Matches: 108, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 7 0.06
43 34 0.31
44 48 0.44
45 17 0.16
46 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (45 bp):
TGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATCTTCAATC
Found at i:105130218 original size:43 final size:43
Alignment explanation
Indices: 105130169--105130325 Score: 151
Period size: 44 Copynumber: 3.6 Consensus size: 43
105130159 TTTCAGCCTA
*
105130169 TTACCCTACTACTTAGGGGGTTAAAGTCTGTAAATTTGGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAAGTCTGTAAATTTGGCTTG
* * *
105130212 TTACCCTACTGCTTAGGGGGTTAAAG-C-GCATTATTTTGGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAAGTCTG--TAAATTTGGCT-TG
* * * * *
105130256 TTTCCCTACTGCTTAGGGTGAT-AAGATCTACG-AACTTTAGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAAG-TCT--GTAAATTTGGCTTG
105130300 TTACCCTACTGCTTAGGGGGTTAAAG
1 TTACCCTACTGCTTAGGGGGTTAAAG
105130326 CTCGTTGCCT
Statistics
Matches: 91, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 36 0.40
44 42 0.46
45 10 0.11
48 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (43 bp):
TTACCCTACTGCTTAGGGGGTTAAAGTCTGTAAATTTGGCTTG
Found at i:105130342 original size:88 final size:87
Alignment explanation
Indices: 105130207--105130371 Score: 233
Period size: 88 Copynumber: 1.9 Consensus size: 87
105130197 TGTAAATTTG
** * * *
105130207 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCGCATTATTTTGGATCTGTTTCCCTACTGCTTA-
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCGCATTACCTTCGATCTATTCCCCTACTGCTTAT
105130271 GGGTGATAAGATCTACGAACTTTA
66 GGG-G-TAAGATCTACGAACTTTA
* * *
105130295 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCGTTGCCTTCGATCTATTCCCCTACTGCTTAT
1 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCGCATTACCTTCGATCTATTCCCCTACTGCTTAT
105130360 GGGGTAAGATCT
66 GGGGTAAGATCT
105130372 GTGAATTCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
87 8 0.12
88 57 0.84
89 3 0.04
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (87 bp):
GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCGCATTACCTTCGATCTATTCCCCTACTGCTTAT
GGGGTAAGATCTACGAACTTTA
Found at i:105142672 original size:3 final size:3
Alignment explanation
Indices: 105142664--105142688 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
105142654 GTATATTAGG
105142664 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
105142689 CTATATAGAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:105143162 original size:17 final size:17
Alignment explanation
Indices: 105143126--105143164 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
105143116 AGTGAGCCAT
*
105143126 TAATAAAGATACAATCA
1 TAATAAAGATACAATAA
105143143 TAATAAA-ATACAATAAA
1 TAATAAAGATACAAT-AA
105143160 TAATA
1 TAATA
105143165 TTACAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (17 bp):
TAATAAAGATACAATAA
Found at i:105144463 original size:30 final size:29
Alignment explanation
Indices: 105144374--105144463 Score: 76
Period size: 30 Copynumber: 3.0 Consensus size: 29
105144364 AAATTTGAGG
*
105144374 ATTAAATTGATAGAATTTGTAA-ATGTGAAA
1 ATTAAATTGATAGAATATGTAAGAT-TG-AA
* * *
105144404 AGTTAAATTTATTGAATTAT-TTAGAATTGAA
1 A-TTAAATTGATAGAA-TATGTAAG-ATTGAA
105144435 ATTAAATTGATAGAATATGTAAGTATTGA
1 ATTAAATTGATAGAATATGTAAG-ATTGA
105144464 GGACTGAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
29 3 0.06
30 21 0.45
31 17 0.36
32 4 0.09
33 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (29 bp):
ATTAAATTGATAGAATATGTAAGATTGAA
Found at i:105145200 original size:5 final size:5
Alignment explanation
Indices: 105145177--105145225 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
105145167 TCTTTTTTTC
* *
105145177 TTTA- TTTAT TTT-C TTTAT TTTAT TTTAT TTTAT TTT-C TTTAT TATTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT
105145225 T
1 T
105145226 AACTTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 10 0.27
5 22 0.59
6 5 0.14
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:105145208 original size:24 final size:24
Alignment explanation
Indices: 105145177--105145225 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
105145167 TCTTTTTTTC
105145177 TTTATTTATTTTCTTTATT-TTAT
1 TTTATTTATTTTCTTTATTATTAT
105145200 TTTATTTTATTTTCTTTATTATTAT
1 TTTA-TTTATTTTCTTTATTATTAT
105145225 T
1 T
105145226 AACTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.17
24 15 0.62
25 5 0.21
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTATTTATTTTCTTTATTATTAT
Found at i:105145232 original size:24 final size:24
Alignment explanation
Indices: 105145181--105145232 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
105145171 TTTTTCTTTA
* *
105145181 TTTATTTTCTTTATTTTATTTTAT
1 TTTATTTTCTTTATTTTATTTAAC
105145205 TTTATTTTCTTTATTATTA-TTAAC
1 TTTATTTTCTTTATT-TTATTTAAC
105145229 TTTA
1 TTTA
105145233 AAAATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTATTTTCTTTATTTTATTTAAC
Found at i:105145292 original size:33 final size:33
Alignment explanation
Indices: 105145250--105145329 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
105145240 TGAATTATAT
* * *
105145250 ATTTGAAATATTTTTTTAACA-TATATTTTTTAA
1 ATTTTAAATATTTATTTAAAATTAT-TTTTTTAA
*
105145283 ATTTTAAATATATATTTAAAATTATTTTTTTAA
1 ATTTTAAATATTTATTTAAAATTATTTTTTTAA
105145316 ATTTTAAATATTTA
1 ATTTTAAATATTTA
105145330 AATATTTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
33 38 0.93
34 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (33 bp):
ATTTTAAATATTTATTTAAAATTATTTTTTTAA
Found at i:105145295 original size:20 final size:21
Alignment explanation
Indices: 105145263--105145305 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
105145253 TGAAATATTT
* *
105145263 TTTTAACATATATTTTTTAAA
1 TTTTAACATATATATTTAAAA
105145284 TTTTAA-ATATATATTTAAAA
1 TTTTAACATATATATTTAAAA
105145304 TT
1 TT
105145306 ATTTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAACATATATATTTAAAA
Found at i:105145328 original size:9 final size:9
Alignment explanation
Indices: 105145316--105145408 Score: 50
Period size: 8 Copynumber: 10.0 Consensus size: 9
105145306 ATTTTTTTAA
105145316 ATTTTAAAT
1 ATTTTAAAT
105145325 A-TTTAAAT
1 ATTTTAAAT
105145333 ATTTTAAA-
1 ATTTTAAAT
*
105145341 CTTTTAAAT
1 ATTTTAAAT
*
105145350 -TTGTT-ATT
1 ATT-TTAAAT
105145358 AGTTTTATAAT
1 A-TTTTA-AAT
*
105145369 AATTTAAAT
1 ATTTTAAAT
*
105145378 ATTATTTAATTT
1 A-T-TTTAA-AT
*
105145390 GTTTTATAAT
1 ATTTTA-AAT
105145400 ATTTTAAAT
1 ATTTTAAAT
105145409 TATGTTTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 22
0.67 0.09 0.23
Matches are distributed among these distances:
8 19 0.30
9 18 0.28
10 16 0.25
11 10 0.16
12 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTTTAAAT
Found at i:105145338 original size:17 final size:17
Alignment explanation
Indices: 105145316--105145349 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
105145306 ATTTTTTTAA
105145316 ATTTTAAA-TATTTAAAT
1 ATTTTAAACT-TTTAAAT
105145333 ATTTTAAACTTTTAAAT
1 ATTTTAAACTTTTAAAT
105145350 TTGTTATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAAACTTTTAAAT
Found at i:105145414 original size:22 final size:21
Alignment explanation
Indices: 105145371--105145416 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
105145361 TTTATAATAA
*
105145371 TTTAAATATTATTTAATTTGT
1 TTTAAATATTATTAAATTTGT
105145392 TTTATAATATT-TTAAATTATGT
1 TTTA-AATATTATTAAATT-TGT
105145414 TTT
1 TTT
105145417 TTAAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTAAATATTATTAAATTTGT
Found at i:105145429 original size:13 final size:14
Alignment explanation
Indices: 105145401--105145429 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105145391 TTTTATAATA
105145401 TTTTAAATTATGTT
1 TTTTAAATTATGTT
105145415 TTTTAAATTAT-TT
1 TTTTAAATTATGTT
105145428 TT
1 TT
105145430 AAAGATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTTAAATTATGTT
Found at i:105145635 original size:39 final size:39
Alignment explanation
Indices: 105145592--105145683 Score: 159
Period size: 39 Copynumber: 2.4 Consensus size: 39
105145582 ATGACAAAAG
*
105145592 TTAAAAAAA-AGTAAAAAATTAAAAATATATATTTAATGT
1 TTAAAAAAATAAT-AAAAATTAAAAATATATATTTAATGT
105145631 TTAAAAAAATAATAAAAATTAAAAATATATATTTAATGT
1 TTAAAAAAATAATAAAAATTAAAAATATATATTTAATGT
105145670 TTAAAAAAATAATA
1 TTAAAAAAATAATA
105145684 TTCAAAATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
39 49 0.96
40 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (39 bp):
TTAAAAAAATAATAAAAATTAAAAATATATATTTAATGT
Found at i:105145636 original size:21 final size:21
Alignment explanation
Indices: 105145610--105145685 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
105145600 AAGTAAAAAA
105145610 TTAAAAATATATATTTAATGT
1 TTAAAAATATATATTTAATGT
* ***
105145631 TTAAAAA-A-ATA-ATAAAAA
1 TTAAAAATATATATTTAATGT
105145649 TTAAAAATATATATTTAATGT
1 TTAAAAATATATATTTAATGT
*
105145670 TTAAAAAAATAATATT
1 TTAAAAATAT-ATATT
105145686 CAAAATTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
18 10 0.24
19 4 0.10
20 4 0.10
21 19 0.45
22 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (21 bp):
TTAAAAATATATATTTAATGT
Found at i:105145654 original size:18 final size:18
Alignment explanation
Indices: 105145559--105145655 Score: 52
Period size: 18 Copynumber: 5.2 Consensus size: 18
105145549 GCAAGTTTTG
* *
105145559 AAAAAATAAAAAAAATCA
1 AAAAAATAATAAAAATTA
* * * *
105145577 TAAAAATGACAAAAGTTA
1 AAAAAATAATAAAAATTA
*
105145595 AAAAAA-AGTAAAAAATTA
1 AAAAAATAAT-AAAAATTA
* ***
105145613 AAAATATATATTTAATGTTTA
1 AAAA-A-ATA-ATAAAAATTA
105145634 AAAAAATAATAAAAATTA
1 AAAAAATAATAAAAATTA
105145652 AAAA
1 AAAA
105145656 TATATATTTA
Statistics
Matches: 56, Mismatches: 18, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
18 39 0.70
19 4 0.07
20 2 0.04
21 10 0.18
22 1 0.02
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (18 bp):
AAAAAATAATAAAAATTA
Found at i:105145797 original size:13 final size:12
Alignment explanation
Indices: 105145775--105145829 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 12
105145765 CAAATTTTTT
*
105145775 AAAATTAATAACA
1 AAAATAAATAA-A
105145788 AAAATAAATAAA
1 AAAATAAATAAA
105145800 CAAAATAAAT-AA
1 -AAAATAAATAAA
105145812 AAAATAAAATAAGA
1 AAAAT-AAATAA-A
105145826 AAAA
1 AAAA
105145830 ATATAAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
11 5 0.14
12 7 0.19
13 20 0.54
14 5 0.14
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (12 bp):
AAAATAAATAAA
Found at i:105145822 original size:16 final size:16
Alignment explanation
Indices: 105145789--105145837 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
105145779 TTAATAACAA
*
105145789 AAATAAATAAACAAAAT
1 AAATAAA-AAATAAAAT
105145806 AAATAAAAAATAAAAT
1 AAATAAAAAATAAAAT
105145822 AAGA-AAAAATATAAAA
1 AA-ATAAAAA-ATAAAA
105145838 CTTAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (16 bp):
AAATAAAAAATAAAAT
Found at i:105145828 original size:24 final size:24
Alignment explanation
Indices: 105145787--105145853 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
105145777 AATTAATAAC
*
105145787 AAAAAT-AAATAA-ACAAAATAAATA
1 AAAAATAAAATAAGA-AAAA-ATATA
105145811 AAAAATAAAATAAGAAAAAATATA
1 AAAAATAAAATAAGAAAAAATATA
** *
105145835 AAACTTAAAAAAAGAAAAA
1 AAAAATAAAATAAGAAAAA
105145854 GGTTTAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 26 0.70
25 10 0.27
26 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (24 bp):
AAAAATAAAATAAGAAAAAATATA
Found at i:105146145 original size:8 final size:8
Alignment explanation
Indices: 105146132--105146179 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
105146122 TGAAAGTTTA
105146132 AAATATTT
1 AAATATTT
105146140 AAATATTT
1 AAATATTT
105146148 AAATATTT
1 AAATATTT
**
105146156 AAA-AAAT
1 AAATATTT
105146163 -AATATTT
1 AAATATTT
105146170 AAA-ATTT
1 AAATATTT
105146177 AAA
1 AAA
105146180 AAATAATTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
6 2 0.06
7 11 0.32
8 21 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
AAATATTT
Found at i:105146178 original size:21 final size:21
Alignment explanation
Indices: 105146141--105146194 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
105146131 AAAATATTTA
105146141 AATATTTAAATATTTAAAAAAT
1 AATATTTAAA-ATTTAAAAAAT
105146163 AATATTTAAAATTTAAAAAAT
1 AATATTTAAAATTTAAAAAAT
*
105146184 AAT-TTCAAAAT
1 AATATTTAAAAT
105146195 ATATATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 10 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AATATTTAAAATTTAAAAAAT
Found at i:105146206 original size:13 final size:13
Alignment explanation
Indices: 105146173--105146253 Score: 52
Period size: 13 Copynumber: 6.7 Consensus size: 13
105146163 AATATTTAAA
*
105146173 ATTTAAAAAATA-
1 ATTTAAAATATAT
105146185 ATTTCAAAATATAT
1 ATTT-AAAATATAT
105146199 ATTTAAAAT-T-T
1 ATTTAAAATATAT
*
105146210 A--AAAAATATAT
1 ATTTAAAATATAT
105146221 A-TTAATAA-A-AT
1 ATTTAA-AATATAT
*
105146232 ATTTCAAATATAT
1 ATTTAAAATATAT
*
105146245 ATTTCAAAT
1 ATTTAAAAT
105146254 TTTTTAAAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
9 5 0.09
10 1 0.02
11 9 0.16
12 12 0.21
13 25 0.45
14 4 0.07
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTTAAAATATAT
Found at i:105146218 original size:22 final size:21
Alignment explanation
Indices: 105146184--105146255 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
105146174 TTTAAAAAAT
*
105146184 AATTTCAAAATATATATTTAA
1 AATTTAAAAATATATATTTAA
105146205 AATTTAAAAAATATATATTAATAA
1 AATTT-AAAAATATATATT--TAA
** *
105146229 AATATTTCAAATATATATTTCA
1 AAT-TTAAAAATATATATTTAA
105146251 AATTT
1 AATTT
105146256 TTTAAAGTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 7 0.16
22 17 0.40
24 17 0.40
25 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTTAAAAATATATATTTAA
Found at i:105146240 original size:24 final size:24
Alignment explanation
Indices: 105146175--105146247 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
105146165 TATTTAAAAT
105146175 TTAA-AAAATAATTTCAAAATATATA
1 TTAATAAAAT-ATTTC-AAATATATA
**
105146200 TT--TAAAAT-TTAAAAAATATATA
1 TTAATAAAATATT-TCAAATATATA
105146222 TTAATAAAATATTTCAAATATATA
1 TTAATAAAATATTTCAAATATATA
105146246 TT
1 TT
105146248 TCAAATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
22 13 0.33
24 22 0.56
25 4 0.10
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
TTAATAAAATATTTCAAATATATA
Found at i:105146293 original size:5 final size:5
Alignment explanation
Indices: 105146265--105146312 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
105146255 TTTTAAAGTT
*
105146265 AATAA TAAT-A AAT-A AATAA CATAA AAT-A AA-AA AATAA AATAA AATAA
1 AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
105146312 A
1 A
105146313 TAATGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
4 13 0.35
5 21 0.57
6 3 0.08
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:105146294 original size:18 final size:18
Alignment explanation
Indices: 105146265--105146315 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
105146255 TTTTAAAGTT
105146265 AATAATAATAAATAAATAA
1 AATAA-AATAAATAAATAA
* *
105146284 CATAAAATAAAAAAATAA
1 AATAAAATAAATAAATAA
105146302 AATAAAATAAATAA
1 AATAAAATAAATAA
105146316 TGAAAAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (18 bp):
AATAAAATAAATAAATAA
Found at i:105146313 original size:14 final size:14
Alignment explanation
Indices: 105146274--105146315 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
105146264 TAATAATAAT
105146274 AAAT-AAATAACATA
1 AAATAAAATAA-ATA
105146288 AAATAAAA-AAATA
1 AAATAAAATAAATA
105146301 AAATAAAATAAATA
1 AAATAAAATAAATA
105146315 A
1 A
105146316 TGAAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 11 0.42
14 12 0.46
15 3 0.12
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:105146321 original size:18 final size:17
Alignment explanation
Indices: 105146265--105146321 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 17
105146255 TTTTAAAGTT
105146265 AATAATAATAAATAAATAA
1 AATAA-AATAAAT-AATAA
* *
105146284 CATAAAATAAAAAAATAA
1 AATAAAAT-AAATAATAA
105146302 AATAAAATAAATAATGAA
1 AATAAAATAAATAAT-AA
105146320 AA
1 AA
105146322 AAGACAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 6 0.19
18 19 0.59
19 7 0.22
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (17 bp):
AATAAAATAAATAATAA
Found at i:105146355 original size:20 final size:20
Alignment explanation
Indices: 105146318--105146355 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
105146308 ATAAATAATG
*
105146318 AAAAAAGACAAAAGAAAAGT
1 AAAAAAGACAAAAAAAAAGT
105146338 AAAAAAGTA-AAAAAAAAA
1 AAAAAAG-ACAAAAAAAAA
105146356 AAAGGATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.05
Consensus pattern (20 bp):
AAAAAAGACAAAAAAAAAGT
Found at i:105148317 original size:22 final size:21
Alignment explanation
Indices: 105148287--105148352 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
105148277 TACAAATTAA
105148287 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
105148309 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
105148330 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
105148349 ATCT
1 ATCT
105148353 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:105148339 original size:19 final size:19
Alignment explanation
Indices: 105148304--105148418 Score: 184
Period size: 19 Copynumber: 6.2 Consensus size: 19
105148294 AGATTACAAG
105148304 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
105148325 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
105148344 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
105148361 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
105148378 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
105148397 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
105148416 ATC
1 ATC
105148419 CTTAAAGATT
Statistics
Matches: 92, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
17 34 0.37
19 49 0.53
20 1 0.01
21 8 0.09
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:105148385 original size:53 final size:56
Alignment explanation
Indices: 105148304--105148412 Score: 188
Period size: 53 Copynumber: 2.0 Consensus size: 56
105148294 AGATTACAAG
105148304 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTG-ATATCATATCTAAGATTGCATATCATATCTAAGATTGT
105148361 ATCATATC-T-AAGATTG-TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTG
105148413 CATATCCTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
53 36 0.69
55 7 0.13
56 1 0.02
57 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (56 bp):
ATCATATCTTCAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTGT
Found at i:105148427 original size:53 final size:53
Alignment explanation
Indices: 105148305--105148432 Score: 174
Period size: 53 Copynumber: 2.4 Consensus size: 53
105148295 GATTACAAGA
105148305 TCATATCTTCAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATTG-ATATCATATCTAAGATTGCATATCATATCTAAGATTG
105148360 TATCATATC-TAAGATTG-TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTG
105148413 -CATATCCTTAAAGATT-ATAT
1 TCATAT-CTT-AAGATTGATAT
105148433 TTCCATATGA
Statistics
Matches: 67, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
50 5 0.07
51 1 0.01
52 1 0.01
53 45 0.67
55 7 0.10
56 1 0.01
57 7 0.10
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (53 bp):
TCATATCTTAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:105149736 original size:2 final size:2
Alignment explanation
Indices: 105149729--105149753 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
105149719 TATGTTTTCT
105149729 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
105149754 GTGTTCTCCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:105150269 original size:17 final size:17
Alignment explanation
Indices: 105150247--105150282 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
105150237 ATGGCAATAT
105150247 TTAAAAAATTAAA-AATC
1 TTAAAAAA-TAAATAATC
105150264 TTAAAAAATAAATAATC
1 TTAAAAAATAAATAATC
105150281 TT
1 TT
105150283 TCTATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAAAATAAATAATC
Found at i:105152665 original size:21 final size:21
Alignment explanation
Indices: 105152619--105152666 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
105152609 TTGATGTTGT
* *
105152619 GACACAGAATAAGGGTGTCGT
1 GACATAGAATAAGGGTGTCGC
*
105152640 GACATAGACTAAGGGTGTCGC
1 GACATAGAATAAGGGTGTCGC
105152661 GACATA
1 GACATA
105152667 CCCCTAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (21 bp):
GACATAGAATAAGGGTGTCGC
Found at i:105160708 original size:40 final size:40
Alignment explanation
Indices: 105160653--105160808 Score: 199
Period size: 40 Copynumber: 4.0 Consensus size: 40
105160643 AACATTTGAT
* * *
105160653 ACACCGGCTCAAAGCCTACTAGGCACTAAGCTTGAATATC
1 ACACCGGCACAAAGCCTGCTAGGCACTAAGCCTGAATATC
* * *
105160693 ACACCGACACAAAGCCTTCTAGGCACTAAGCCTGAATAAC
1 ACACCGGCACAAAGCCTGCTAGGCACTAAGCCTGAATATC
* *
105160733 ACACCGGCACGAAGCCTGCTAGGCACTAAGCCT-AA-ATA
1 ACACCGGCACAAAGCCTGCTAGGCACTAAGCCTGAATATC
* * *
105160771 ACTCCGGCACGAAGCCTGCTAGGCACTAAACCTGAATA
1 ACACCGGCACAAAGCCTGCTAGGCACTAAGCCTGAATA
105160809 ACTCATCGGC
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
38 32 0.31
39 4 0.04
40 66 0.65
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.16
Consensus pattern (40 bp):
ACACCGGCACAAAGCCTGCTAGGCACTAAGCCTGAATATC
Found at i:105160787 original size:38 final size:38
Alignment explanation
Indices: 105160653--105160987 Score: 174
Period size: 38 Copynumber: 8.4 Consensus size: 38
105160643 AACATTTGAT
* * * * *
105160653 ACACCGGCTCAAAGCCTACTAGGCACTAAGCTTGAATATC
1 ACACCGGCACGAAGCCTGCTAGGCACTAAGCCT-AA-ATA
* * * *
105160693 ACACCGACACAAAGCCTTCTAGGCACTAAGCCTGAATAA
1 ACACCGGCACGAAGCCTGCTAGGCACTAAGCCTAAAT-A
105160732 CACACCGGCACGAAGCCTGCTAGGCACTAAGCCTAAATA
1 -ACACCGGCACGAAGCCTGCTAGGCACTAAGCCTAAATA
* * *
105160771 ACTCCGGCACGAAGCCTGCTAGGCACTAAACCTGAATA
1 ACACCGGCACGAAGCCTGCTAGGCACTAAGCCTAAATA
* * * * **
105160809 ACTCATCGGCACTAAGCTTGAATAACATCA-GCACGAAGCCT-GCTA
1 A--CACCGGCACGAAGCCTG-----C-T-AGGCACTAAGCCTAAATA
** ** * *
105160854 GACACTAAGC-CTGAATAACT-CATCGGCACTAAGCCTGAATA
1 -ACAC-CGGCAC-GAA-GCCTGC-TAGGCACTAAGCCTAAATA
* * * *
105160895 ACTCTGGCACGAAGCTTGCTAGGCACTAAGCCTGAATA
1 ACACCGGCACGAAGCCTGCTAGGCACTAAGCCTAAATA
* ** *
105160933 ACACCAGCATAAAGCCTGCTAGGCACTAAGTCTAAATA
1 ACACCGGCACGAAGCCTGCTAGGCACTAAGCCTAAATA
* *
105160971 ACACAGGCACAAAGCCT
1 ACACCGGCACGAAGCCT
105160988 TCTACTTATA
Statistics
Matches: 226, Mismatches: 50, Indels: 40
0.72 0.16 0.13
Matches are distributed among these distances:
38 101 0.45
39 8 0.04
40 92 0.41
41 2 0.01
44 3 0.01
45 7 0.03
46 12 0.05
47 1 0.00
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.17
Consensus pattern (38 bp):
ACACCGGCACGAAGCCTGCTAGGCACTAAGCCTAAATA
Found at i:105160810 original size:78 final size:80
Alignment explanation
Indices: 105160653--105160825 Score: 215
Period size: 78 Copynumber: 2.2 Consensus size: 80
105160643 AACATTTGAT
* * * *
105160653 ACACCGGCTCAAAGCCTACTAGGCACTAAGCTTGAATATCACACCGACACAAAGCCTTCTAGGCA
1 ACACCGGCACAAAGCCTACTAGGCACTAAGCCTGAATATAACACCGACACAAAGCCTGCTAGGCA
*
105160718 CTAAGCCTGAATAAC
66 CTAAACCTGAATAAC
* * * * *
105160733 ACACCGGCACGAAGCCTGCTAGGCACTAAGCCT-AA-ATAACTCCGGCACGAAGCCTGCTAGGCA
1 ACACCGGCACAAAGCCTACTAGGCACTAAGCCTGAATATAACACCGACACAAAGCCTGCTAGGCA
105160796 CTAAACCTGAATAAC
66 CTAAACCTGAATAAC
* * *
105160811 TCATCGGCACTAAGC
1 ACACCGGCACAAAGC
105160826 TTGAATAACA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 49 0.61
79 2 0.03
80 29 0.36
ACGTcount: A:0.34, C:0.32, G:0.18, T:0.16
Consensus pattern (80 bp):
ACACCGGCACAAAGCCTACTAGGCACTAAGCCTGAATATAACACCGACACAAAGCCTGCTAGGCA
CTAAACCTGAATAAC
Found at i:105160823 original size:62 final size:62
Alignment explanation
Indices: 105160754--105160934 Score: 283
Period size: 62 Copynumber: 2.9 Consensus size: 62
105160744 AAGCCTGCTA
* *
105160754 GGCACTAAGCCTAAATAACTCCGGCACGAAGCCTGCTAGGCACTAAACCTGAATAACTCATC
1 GGCACTAAGCCTGAATAACTCCGGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACTCATC
* * *
105160816 GGCACTAAGCTTGAATAACAT-CAGCACGAAGCCTGCTAGACACTAAGCCTGAATAACTCATC
1 GGCACTAAGCCTGAATAAC-TCCGGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACTCATC
* *
105160878 GGCACTAAGCCTGAATAACTCTGGCACGAAGCTTGCTAGGCACTAAGCCTGAATAAC
1 GGCACTAAGCCTGAATAACTCCGGCACGAAGCCTGCTAGGCACTAAGCCTGAATAAC
105160935 ACCAGCATAA
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
61 1 0.01
62 105 0.98
63 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (62 bp):
GGCACTAAGCCTGAATAACTCCGGCACGAAGCCTGCTAGGCACTAAGCCTGAATAACTCATC
Found at i:105160830 original size:24 final size:24
Alignment explanation
Indices: 105160792--105160898 Score: 99
Period size: 24 Copynumber: 4.9 Consensus size: 24
105160782 AAGCCTGCTA
*
105160792 GGCACTAAACCTGAATAACTCATC
1 GGCACTAAGCCTGAATAACTCATC
*
105160816 GGCACTAAGCTTGAATAA--CATC
1 GGCACTAAGCCTGAATAACTCATC
* *
105160838 AGCACGAAGCCTG-----CT-A--
1 GGCACTAAGCCTGAATAACTCATC
*
105160854 GACACTAAGCCTGAATAACTCATC
1 GGCACTAAGCCTGAATAACTCATC
105160878 GGCACTAAGCCTGAATAACTC
1 GGCACTAAGCCTGAATAACTC
105160899 TGGCACGAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 20
0.69 0.10 0.22
Matches are distributed among these distances:
16 10 0.16
18 1 0.02
21 2 0.03
22 15 0.23
24 36 0.56
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.20
Consensus pattern (24 bp):
GGCACTAAGCCTGAATAACTCATC
Found at i:105160909 original size:22 final size:24
Alignment explanation
Indices: 105160860--105160909 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
105160850 GCTAGACACT
*
105160860 AAGCCTGAATAACTCATCGGCACT
1 AAGCCTGAATAACTCATCGGCACG
105160884 AAGCCTGAATAACTC-T-GGCACG
1 AAGCCTGAATAACTCATCGGCACG
105160906 AAGC
1 AAGC
105160910 TTGCTAGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.36
23 1 0.04
24 15 0.60
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (24 bp):
AAGCCTGAATAACTCATCGGCACG
Found at i:105162594 original size:2 final size:2
Alignment explanation
Indices: 105162589--105162629 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
105162579 TATATATCTC
* * *
105162589 TG TG TG TA TG TG TG TG TG TG TC TG TG TG TT TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
105162630 ATTCTCCACT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.02, C:0.02, G:0.41, T:0.54
Consensus pattern (2 bp):
TG
Found at i:105167276 original size:27 final size:27
Alignment explanation
Indices: 105167241--105167334 Score: 68
Period size: 27 Copynumber: 3.4 Consensus size: 27
105167231 CATGAAGATG
* *
105167241 TTTCCTATCAGAGATAGCCACAAAGGC
1 TTTCTTATCAAAGATAGCCACAAAGGC
* *
105167268 TTTCTTATCAAAGAT--TCACTTAGAGGC
1 TTTCTTATCAAAGATAGCCAC--AAAGGC
* * *
105167295 ATTCTTGAACATAGATAGCCACAAAGGC
1 TTTCTT-ATCAAAGATAGCCACAAAGGC
105167323 TTTCCTT-TCAAA
1 TTT-CTTATCAAA
105167335 AACTCGCTAA
Statistics
Matches: 49, Mismatches: 12, Indels: 12
0.67 0.16 0.16
Matches are distributed among these distances:
25 3 0.06
27 26 0.53
28 14 0.29
29 3 0.06
30 3 0.06
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (27 bp):
TTTCTTATCAAAGATAGCCACAAAGGC
Found at i:105167366 original size:55 final size:56
Alignment explanation
Indices: 105167302--105167423 Score: 165
Period size: 55 Copynumber: 2.2 Consensus size: 56
105167292 GGCATTCTTG
* *
105167302 AACATAGATAGCCACAAAGGCTTTCCTTTCAAAAACTCGCTA-AAAGACGTCCTTT
1 AACAAAGATAGCCACAAAGGCTTTCCTTTCAAAAACTCGCCACAAAGACGTCCTTT
* * * * * *
105167357 AATAAAGATAGCCACAAAGGTTTTCCTTTTAGAGACTCGCCACAAAGGCGTCCTTT
1 AACAAAGATAGCCACAAAGGCTTTCCTTTCAAAAACTCGCCACAAAGACGTCCTTT
105167413 AACAAAGATAG
1 AACAAAGATAG
105167424 TTACAAAGAC
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
55 35 0.61
56 22 0.39
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.25
Consensus pattern (56 bp):
AACAAAGATAGCCACAAAGGCTTTCCTTTCAAAAACTCGCCACAAAGACGTCCTTT
Found at i:105171661 original size:25 final size:26
Alignment explanation
Indices: 105171616--105171667 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
105171606 ACATCATCAC
105171616 TTAATAGAAGAAATTGATGGA-ATTT
1 TTAATAGAAGAAATTGATGGATATTT
*
105171641 TTAATAGAAG-AATTGGTTGGATATTT
1 TTAATAGAAGAAATT-GATGGATATTT
105171667 T
1 T
105171668 ATCTAACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 15 0.62
26 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (26 bp):
TTAATAGAAGAAATTGATGGATATTT
Done.