Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 80 of 335
Found at i:26509663 original size:17 final size:18
Alignment explanation
Indices: 26509625--26509663 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26509615 AAAAAATAAT
* *
26509625 TTAAAATTTATAAAAAAT
1 TTAAAATATATAAAAAAG
26509643 TTAAAATATAT-AAAAAG
1 TTAAAATATATAAAAAAG
26509660 TTAA
1 TTAA
26509664 TTTGATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TTAAAATATATAAAAAAG
Found at i:26514775 original size:38 final size:38
Alignment explanation
Indices: 26514667--26514823 Score: 136
Period size: 38 Copynumber: 4.0 Consensus size: 38
26514657 ATTTGATGTG
* * * *
26514667 TATCCGAGCTTAAAGACCCGCAGG-CTATATGCTAGAATTA
1 TATCCGAG-TTAAA-TCCCGCAGGCCTA-GTGCTGGTATTA
* * *
26514707 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGAGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
*
26514745 TATCCGAGTTAAATTCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGAGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
** * * * *
26514783 TATCTAAGTTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTA
1 TATCCGAG-TTAAA-TCCCGCAGGCCTAGTGCTGGTATTA
26514823 T
1 T
26514824 GTTCGGGTTT
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
38 57 0.59
39 11 0.11
40 28 0.29
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (38 bp):
TATCCGAGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:26530982 original size:253 final size:252
Alignment explanation
Indices: 26530485--26530983 Score: 743
Period size: 253 Copynumber: 2.0 Consensus size: 252
26530475 ATAGAATGAG
* *
26530485 AGATTTTTGTTCTCATCACAGAACCCCGGGCCTAAGTTACTATTCCTTTAAAATGTAATCCTCAA
1 AGATTTTTGTTCTCATCACAGAACCCCAGGCCTAAGTTACAATTCCTTTAAAATGTAATCCTCAA
*
26530550 CCTGAAGAATTCAGTCAAACTACTTTCTACTCAACTTCCAAAGACCTTTACAAATATTTGGCCCC
66 CCTGAAGAATTCAGTCAAACTACTTTCCACTCAACTTCCAAAGACCTTTACAAATATTTGGCCCC
* * * *
26530615 ATCTTTCAACCTAAAGCTGATACTGCAATCTAGCTGGTACTTAGCAAAACTCATCCTACCCAACT
131 ATCCTTCAACCTAAAGCTGATACTACAACCTAGCTGCTACTTAGCAAAACTCATCCTACCCAACT
* * * *
26530680 AGTTCGGTTCAGACCCAAAGCGATTGAATCAAATTCAAAATATTAAAAACAAATTCA
196 AGTTCAGCTCAGACCCAAAGCAATTGAATCAAATTCAAAATACTAAAAACAAATTCA
***
26530737 AGATTTTTGTTCT-AGTCACAGAACCCCAGTTTTAAGTTACAATTCCTTTAAAATGTAATCCTCA
1 AGATTTTTGTTCTCA-TCACAGAACCCCAGGCCTAAGTTACAATTCCTTTAAAATGTAATCCTCA
** * * *
26530801 ACCTGAAGAATTTGGTCAAACTACTTTCCACTCGACTTCCAAAGGCCTTCTTCAAATATTTGGCC
65 ACCTGAAGAATTCAGTCAAACTACTTTCCACTCAACTTCCAAAGACCTT-TACAAATATTTGGCC
*
26530866 CCATCCTTCAACCTAAAGCTGATA-TCACAACCTAGCTGCTACATT-GCAAAATTCATCCTACCC
129 CCATCCTTCAACCTAAAGCTGATACT-ACAACCTAGCTGCTAC-TTAGCAAAACTCATCCTACCC
* *
26530929 AACTTGTTCAGCTCAGACCCAAAGCAATTGAATCAAATTCGAAATACTAAAAACA
192 AACTAGTTCAGCTCAGACCCAAAGCAATTGAATCAAATTCAAAATACTAAAAACA
26530984 TCAAGAAAGA
Statistics
Matches: 221, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
251 1 0.00
252 102 0.46
253 116 0.52
254 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (252 bp):
AGATTTTTGTTCTCATCACAGAACCCCAGGCCTAAGTTACAATTCCTTTAAAATGTAATCCTCAA
CCTGAAGAATTCAGTCAAACTACTTTCCACTCAACTTCCAAAGACCTTTACAAATATTTGGCCCC
ATCCTTCAACCTAAAGCTGATACTACAACCTAGCTGCTACTTAGCAAAACTCATCCTACCCAACT
AGTTCAGCTCAGACCCAAAGCAATTGAATCAAATTCAAAATACTAAAAACAAATTCA
Found at i:26531531 original size:2 final size:2
Alignment explanation
Indices: 26531526--26531556 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26531516 TTCCCCCCAA
26531526 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
26531557 TCAAACTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26531770 original size:13 final size:13
Alignment explanation
Indices: 26531752--26531776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26531742 ACCGAGAACG
26531752 AAAAAAAAAGAAA
1 AAAAAAAAAGAAA
26531765 AAAAAAAAAGAA
1 AAAAAAAAAGAA
26531777 GAGAAGAAGT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:26533567 original size:13 final size:13
Alignment explanation
Indices: 26533546--26533596 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
26533536 TTAAAGTTAG
*
26533546 ATTATTATATTAT
1 ATTAGTATATTAT
26533559 ATTAGTATATTAT
1 ATTAGTATATTAT
* *
26533572 ATTTATTATTTTA-
1 A-TTAGTATATTAT
26533585 ATTAG-ATATTAT
1 ATTAGTATATTAT
26533597 TGTTAAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 5 0.16
12 3 0.10
13 14 0.45
14 9 0.29
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (13 bp):
ATTAGTATATTAT
Found at i:26538621 original size:16 final size:16
Alignment explanation
Indices: 26538597--26538628 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26538587 AGGATGAAAT
*
26538597 AAAATTAAAATAAAAG
1 AAAAATAAAATAAAAG
26538613 AAAAATAAAATAAAAG
1 AAAAATAAAATAAAAG
26538629 GTAGTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAATAAAATAAAAG
Found at i:26543110 original size:4 final size:4
Alignment explanation
Indices: 26543101--26543132 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
26543091 GAAAAGCAGG
26543101 GAAA GAAA GAAA GAAA GAAA GAAA G-AA GAAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
26543133 GGAAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:26544675 original size:12 final size:12
Alignment explanation
Indices: 26544658--26544682 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26544648 TCCGACTACT
26544658 GTTACTGTTACC
1 GTTACTGTTACC
26544670 GTTACTGTTACC
1 GTTACTGTTACC
26544682 G
1 G
26544683 ATTCGGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:26544788 original size:47 final size:47
Alignment explanation
Indices: 26544713--26544829 Score: 173
Period size: 47 Copynumber: 2.5 Consensus size: 47
26544703 GATATTGTTA
* * * *
26544713 CTGT-TACCGTTACTGTTAATATTTCGGATTTGTTCCGATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTCCGGATTTGTTCCGATGAGGCACT
26544760 CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGCACT
1 CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGCACT
*
26544807 CTGTGTACCGTACTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
26544830 ACTGTTCCGG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 59 0.92
48 5 0.08
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (47 bp):
CTGTGTACCGTACTGTTACTGTTCCGGATTTGTTCCGATGAGGCACT
Found at i:26544831 original size:53 final size:52
Alignment explanation
Indices: 26544723--26544870 Score: 159
Period size: 47 Copynumber: 3.0 Consensus size: 52
26544713 CTGTTACCGT
* * * *
26544723 TACTGTTAATATTTCGGATTTGTTCCGATGAGGTACTCTGTGTA-C---C-G
1 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGCACTCTGTGTACCGTACTG
26544770 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGCACTCTGTGTACCGTACTG
1 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGCACTCTGTGTACCGTACTG
* * * *
26544822 CTACTGTTACTGTTCCGGCTTCG-GCCGATGAGGCACTATGTG--CCGTACT
1 -TACTGTTACTGTTCCGGATTTGTTCCGATGAGGCACTCTGTGTACCGTACT
26544871 TGTGTGTTGG
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
47 40 0.46
48 1 0.01
50 7 0.08
51 1 0.01
52 18 0.21
53 20 0.23
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (52 bp):
TACTGTTACTGTTCCGGATTTGTTCCGATGAGGCACTCTGTGTACCGTACTG
Found at i:26544963 original size:18 final size:18
Alignment explanation
Indices: 26544940--26545142 Score: 173
Period size: 18 Copynumber: 11.3 Consensus size: 18
26544930 AAAGGTATAA
* *
26544940 AATAATTGATTATTACTG
1 AATAATTGACTGTTACTG
*
26544958 AATAATTGACTGTTACCG
1 AATAATTGACTGTTACTG
*
26544976 GATAATTGACTGTTACTG
1 AATAATTGACTGTTACTG
*
26544994 GAT-ATTAGACTGTTACTG
1 AATAATT-GACTGTTACTG
* * *
26545012 AATAACTGAATATTACTG
1 AATAATTGACTGTTACTG
*
26545030 AATAATTGA-TCATTACTG
1 AATAATTGACT-GTTACTG
* * *
26545048 AATAACTGATTGTCACTG
1 AATAATTGACTGTTACTG
*
26545066 AATGAA-TGACTGCTACTG
1 AAT-AATTGACTGTTACTG
* *
26545084 AATAACTTAATTGTTACTG
1 AATAA-TTGACTGTTACTG
*
26545103 AAT-ATCTGA-TTTTACTG
1 AATAAT-TGACTGTTACTG
26545120 AATAATTGACTGTTACTG
1 AATAATTGACTGTTACTG
*
26545138 GATAA
1 AATAA
26545143 CCGATCAATT
Statistics
Matches: 152, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
17 20 0.13
18 115 0.76
19 17 0.11
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAATTGACTGTTACTG
Found at i:26545231 original size:18 final size:18
Alignment explanation
Indices: 26544940--26545235 Score: 168
Period size: 18 Copynumber: 16.1 Consensus size: 18
26544930 AAAGGTATAA
* *
26544940 AATAATTGATTATTACTG
1 AATAACTGATTGTTACTG
* * *
26544958 AATAATTGACTGTTACCG
1 AATAACTGATTGTTACTG
* * *
26544976 GATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* * *
26544994 GAT-ATTAGACTGTTACTG
1 AATAACT-GATTGTTACTG
* *
26545012 AATAACTGAATATTACTG
1 AATAACTGATTGTTACTG
* **
26545030 AATAATTGATCATTACTG
1 AATAACTGATTGTTACTG
*
26545048 AATAACTGATTGTCACTG
1 AATAACTGATTGTTACTG
* *
26545066 AATGAA-TGACTGCTACTG
1 AAT-AACTGATTGTTACTG
*
26545084 AATAACTTAATTGTTACTG
1 AATAAC-TGATTGTTACTG
*
26545103 AATATCTGATT-TTACTG
1 AATAACTGATTGTTACTG
* *
26545120 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
26545138 GATAACCGATCAATTGATCGATACTG
1 AATAA-C--T-GATTG-T---TACTG
* * *
26545164 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
* *
26545182 AATAATTGATTGTTACCG
1 AATAACTGATTGTTACTG
*
26545200 AATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
26545218 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
26545235 A
1 A
26545236 GAGTTAATGA
Statistics
Matches: 217, Mismatches: 47, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
17 23 0.11
18 157 0.72
19 18 0.08
21 2 0.01
22 5 0.02
23 2 0.01
25 1 0.00
26 9 0.04
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:26549910 original size:40 final size:40
Alignment explanation
Indices: 26549866--26549984 Score: 143
Period size: 40 Copynumber: 3.0 Consensus size: 40
26549856 TGAGTTACCA
* * *
26549866 TAGTGAACCAGGAACAAATCCTATCCACTTTATATAT-TTC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTA-ATATCTTC
* * *
26549906 TAGTGAATCAAGAATAAATCCTATTCACTTTAATTTCTTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
*
26549946 TAGTGAATCAGGAATAGATCCTATTCACTTTTAAT-TCTT
1 TAGTGAATCAGGAATAAATCCTATTCAC-TTTAATATCTT
26549985 GAGAAGGCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.04
40 60 0.87
41 6 0.09
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.39
Consensus pattern (40 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTTC
Found at i:26551129 original size:35 final size:32
Alignment explanation
Indices: 26551090--26551159 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 32
26551080 TTAATTATTT
*
26551090 ATTTTA-TTTAATTAATATAATATAATAATATAATA
1 ATTTTACTTAAATT-ATA-AATA-AAT-ATATAATA
*
26551125 ATTTTACTTAAATTATAAGTAAATATATAATA
1 ATTTTACTTAAATTATAAATAAATATATAATA
26551157 ATT
1 ATT
26551160 ACTAATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 11 0.34
33 3 0.09
34 3 0.09
35 9 0.28
36 6 0.19
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
ATTTTACTTAAATTATAAATAAATATATAATA
Found at i:26554033 original size:42 final size:42
Alignment explanation
Indices: 26553981--26554061 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
26553971 AGGTGTCATG
26553981 ACATTAGACATGTAATTAGAGTAATCTGCCCCTAGTGTTGCA
1 ACATTAGACATGTAATTAGAGTAATCTGCCCCTAGTGTTGCA
* * *
26554023 ACATTGGACATGTAATTAGAGTAATTTTCCCCTAGTGTT
1 ACATTAGACATGTAATTAGAGTAATCTGCCCCTAGTGTT
26554062 TTGCACACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (42 bp):
ACATTAGACATGTAATTAGAGTAATCTGCCCCTAGTGTTGCA
Found at i:26555024 original size:23 final size:23
Alignment explanation
Indices: 26554945--26555027 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 23
26554935 CTACATTCCA
*
26554945 TAGAATGTAA-TGCACCGAAGTGC
1 TAGAATG-AATTGCACCAAAGTGC
** * *
26554968 TAGAATGAATCACACCATAGTAC
1 TAGAATGAATTGCACCAAAGTGC
* ** *
26554991 CAGAACAAATTGCAACAAAGTGC
1 TAGAATGAATTGCACCAAAGTGC
26555014 TAGAATGAATTGCA
1 TAGAATGAATTGCA
26555028 TCGAAGTGTC
Statistics
Matches: 43, Mismatches: 16, Indels: 2
0.70 0.26 0.03
Matches are distributed among these distances:
22 2 0.05
23 41 0.95
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.20
Consensus pattern (23 bp):
TAGAATGAATTGCACCAAAGTGC
Found at i:26555685 original size:12 final size:12
Alignment explanation
Indices: 26555670--26555696 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
26555660 AATTTCTCAT
26555670 TCTTAATCTCTC
1 TCTTAATCTCTC
26555682 TCTTAATCTCTC
1 TCTTAATCTCTC
26555694 TCT
1 TCT
26555697 AAAGTTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.52
Consensus pattern (12 bp):
TCTTAATCTCTC
Found at i:26560075 original size:94 final size:94
Alignment explanation
Indices: 26559976--26560159 Score: 323
Period size: 94 Copynumber: 2.0 Consensus size: 94
26559966 CAAGCCAATT
* *
26559976 TGACTTTTCATATGTAAAAGGAGTTTAGTGGTCCAAAAAGAAAAACAAATGAAGTATTACGGGCT
1 TGACTTTTCACATGTAAAAGGAGTTTAGTGGTCCAAAAAGAAAAACAAATGAAGCATTACGGGCT
26560041 TGACCAATTTGCATCCTTCAATGCTAATC
66 TGACCAATTTGCATCCTTCAATGCTAATC
**
26560070 TGACTTTTCACATGTAAAAGGAGTTTAGTGGTCCAAAAAGAAAAACAAATGAAGCATTGTGGGCT
1 TGACTTTTCACATGTAAAAGGAGTTTAGTGGTCCAAAAAGAAAAACAAATGAAGCATTACGGGCT
*
26560135 TGACCAATTTGTATCCTTCAATGCT
66 TGACCAATTTGCATCCTTCAATGCT
26560160 TCCTCCACAC
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 85 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (94 bp):
TGACTTTTCACATGTAAAAGGAGTTTAGTGGTCCAAAAAGAAAAACAAATGAAGCATTACGGGCT
TGACCAATTTGCATCCTTCAATGCTAATC
Found at i:26567966 original size:2 final size:2
Alignment explanation
Indices: 26567961--26567986 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26567951 TATAAACCCA
26567961 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26567987 TAATTTTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26569369 original size:46 final size:44
Alignment explanation
Indices: 26569310--26569424 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
26569300 ACAGGACAGA
* *
26569310 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
26569356 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
26569400 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
26569425 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:26569405 original size:44 final size:45
Alignment explanation
Indices: 26569310--26569443 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
26569300 ACAGGACAGA
* *
26569310 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
26569356 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
26569400 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
26569444 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:26571378 original size:13 final size:12
Alignment explanation
Indices: 26571356--26571385 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
26571346 AACCCAACCC
26571356 AAAAATAAAAAT
1 AAAAATAAAAAT
26571368 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
26571381 AAAAA
1 AAAAA
26571386 ACTTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:26571386 original size:7 final size:6
Alignment explanation
Indices: 26571356--26571385 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
26571346 AACCCAACCC
26571356 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
26571386 ACTTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:26575328 original size:20 final size:20
Alignment explanation
Indices: 26575273--26575328 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
26575263 ATGTCACATC
*
26575273 AAAAATAATTTAAAAATTAT
1 AAAAATAATTTAAAAAATAT
*
26575293 AAAAAT-ATTTAGAAAATA-
1 AAAAATAATTTAAAAAATAT
26575311 AAAAATCAATTTAAAAAA
1 AAAAAT-AATTTAAAAAA
26575329 ATATTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 6 0.19
19 10 0.32
20 15 0.48
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATAATTTAAAAAATAT
Found at i:26575758 original size:2 final size:2
Alignment explanation
Indices: 26575753--26575786 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
26575743 TCTTCTTCTT
26575753 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26575787 AAATATTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26583127 original size:74 final size:74
Alignment explanation
Indices: 26583006--26583151 Score: 283
Period size: 74 Copynumber: 2.0 Consensus size: 74
26582996 TTGGCCAAGG
26583006 CTAAATTAGCAGAAGTTAAATCCTTATAACCCATGATGAACTGGTTATGTAGATTACAATGACCT
1 CTAAATTAGCAGAAGTTAAATCCTTATAACCCATGATGAACTGGTTATGTAGATTACAATGACCT
26583071 GTAATTGGC
66 GTAATTGGC
*
26583080 CTAAATTAGCAGAAGTTAAATCCTTATAACCCATGGTGAACTGGTTATGTAGATTACAATGACCT
1 CTAAATTAGCAGAAGTTAAATCCTTATAACCCATGATGAACTGGTTATGTAGATTACAATGACCT
26583145 GTAATTG
66 GTAATTG
26583152 AGCTAGCTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (74 bp):
CTAAATTAGCAGAAGTTAAATCCTTATAACCCATGATGAACTGGTTATGTAGATTACAATGACCT
GTAATTGGC
Found at i:26590821 original size:31 final size:29
Alignment explanation
Indices: 26590776--26590833 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
26590766 TCTCAAAATT
*
26590776 ATATATTAACTTTGATTTAATGTGTAATTTA
1 ATATATAAACTTTGATTT-A-GTGTAATTTA
*
26590807 ATATATAAATTTTGATTTAGTGTAATT
1 ATATATAAACTTTGATTTAGTGTAATT
26590834 ATACACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.32
30 1 0.04
31 16 0.64
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (29 bp):
ATATATAAACTTTGATTTAGTGTAATTTA
Found at i:26591027 original size:29 final size:31
Alignment explanation
Indices: 26590976--26591048 Score: 107
Period size: 30 Copynumber: 2.4 Consensus size: 31
26590966 ATTGTGTTAA
*
26590976 TAATTTATAAGAATTAGATC-AAATTAAAATT
1 TAATATATAA-AATTAGATCAAAATTAAAATT
26591007 TAATATATAAAATTAGA-CAAAATTAAAATT
1 TAATATATAAAATTAGATCAAAATTAAAATT
26591037 T-ATATATAAAAT
1 TAATATATAAAAT
26591049 AACACATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 12 0.30
30 19 0.47
31 9 0.22
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (31 bp):
TAATATATAAAATTAGATCAAAATTAAAATT
Found at i:26591065 original size:31 final size:29
Alignment explanation
Indices: 26591000--26591076 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
26590990 TAGATCAAAT
* * *
26591000 TAAAATTTAATATATAAAATTAGACAAAAT
1 TAAAATTT-ATATATAAAATAACACAAAAC
26591030 TAAAATTTATATATAAAATAACACATTAAAC
1 TAAAATTTATATATAAAATAACACA--AAAC
* *
26591061 TAAAATTAATGTATAA
1 TAAAATTTATATATAA
26591077 TTTTAAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
29 15 0.38
30 8 0.20
31 17 0.43
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (29 bp):
TAAAATTTATATATAAAATAACACAAAAC
Found at i:26592219 original size:3 final size:3
Alignment explanation
Indices: 26592211--26592256 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
26592201 GAATCCCAGG
*
26592211 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
26592257 GGCATTGACG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:26604649 original size:26 final size:24
Alignment explanation
Indices: 26604619--26604668 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
26604609 AAATAAAAAA
*
26604619 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
26604645 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
26604669 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:26604688 original size:21 final size:21
Alignment explanation
Indices: 26604639--26604697 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
26604629 ATAATAAATC
*
26604639 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
26604659 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
26604681 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
26604698 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:26605400 original size:11 final size:11
Alignment explanation
Indices: 26605384--26605408 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26605374 TATAAATTTT
26605384 TTTTTAATATA
1 TTTTTAATATA
26605395 TTTTTAATATA
1 TTTTTAATATA
26605406 TTT
1 TTT
26605409 ATTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTAATATA
Found at i:26618631 original size:20 final size:20
Alignment explanation
Indices: 26618606--26618646 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
26618596 AAAAAGTTAC
26618606 ATATATATATATATATTGGT
1 ATATATATATATATATTGGT
26618626 ATATATATATATATATTGGT
1 ATATATATATATATATTGGT
26618646 A
1 A
26618647 ACAAGGAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
ATATATATATATATATTGGT
Found at i:26620113 original size:20 final size:19
Alignment explanation
Indices: 26620088--26620131 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
26620078 AAATTTAAAA
*
26620088 TTTTATTATATGTCTTAT-TT
1 TTTTATT-TATAT-TTATATT
26620108 TTTTATTTATATTTATATT
1 TTTTATTTATATTTATATT
26620127 TTTTA
1 TTTTA
26620132 ATATTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 11 0.50
20 7 0.32
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTATTTATATTTATATT
Found at i:26625496 original size:70 final size:71
Alignment explanation
Indices: 26625410--26625547 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 71
26625400 CAAACGGTAA
* * *
26625410 GTCGAAACCCAGCAGGATTAGGTATGATTTCTCGAATTTCCAAACACAAAATATTGTCTTATTTT
1 GTCGAAACCCAGCAGGATTAGGCACGATTTCTCGAATTTCCAAACACAAAATATTGCCTTATTTT
26625475 AATAAT
66 AATAAT
26625481 GTCGAAA-CCAGCAGGATTAGGCACGATTTCTCGAATTTCCAAACACAAAATATTGCCTTATTTT
1 GTCGAAACCCAGCAGGATTAGGCACGATTTCTCGAATTTCCAAACACAAAATATTGCCTTATTTT
26625545 AAT
66 AAT
26625548 TTAAGAAAAC
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
70 57 0.89
71 7 0.11
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (71 bp):
GTCGAAACCCAGCAGGATTAGGCACGATTTCTCGAATTTCCAAACACAAAATATTGCCTTATTTT
AATAAT
Found at i:26626005 original size:18 final size:18
Alignment explanation
Indices: 26625964--26626006 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
26625954 AAGATAAAAT
*
26625964 AATATATAAAAACTCTTTA
1 AATATATAAAAACTC-TAA
26625983 AATATATAAACAACTC-AA
1 AATATATAAA-AACTCTAA
26626001 AATATA
1 AATATA
26626007 ATGTGTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 10 0.45
20 5 0.23
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (18 bp):
AATATATAAAAACTCTAA
Found at i:26626076 original size:24 final size:24
Alignment explanation
Indices: 26626004--26626107 Score: 91
Period size: 24 Copynumber: 4.2 Consensus size: 24
26625994 AACTCAAAAT
* *
26626004 ATAATGTGTAAAAAAGTTTAAAATAC
1 ATAATGTAT-AAAAA-TTTAAAATAA
* *
26626030 ATAATATATGAAAATATTAAAATAA
1 ATAATGTATAAAAAT-TTAAAATAA
* *
26626055 ATAATGTATAAAAATTTGAAATGA
1 ATAATGTATAAAAATTTAAAATAA
** * *
26626079 ATGTTGTATAAAAAGTTAAAATAG
1 ATAATGTATAAAAATTTAAAATAA
26626103 ATAAT
1 ATAAT
26626108 AACAAAAAAA
Statistics
Matches: 61, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
24 29 0.48
25 25 0.41
26 7 0.11
ACGTcount: A:0.56, C:0.01, G:0.11, T:0.33
Consensus pattern (24 bp):
ATAATGTATAAAAATTTAAAATAA
Found at i:26626245 original size:15 final size:14
Alignment explanation
Indices: 26626187--26626258 Score: 56
Period size: 15 Copynumber: 5.0 Consensus size: 14
26626177 ATATTAGTAT
*
26626187 ATAAATAGAAATAG
1 ATAAATAAAAATAG
*
26626201 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
26626215 TTGAAATATAAATAG
1 AT-AAATAAAAATAG
26626230 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
* *
26626245 ATAACTAATAATAG
1 ATAAATAAAAATAG
26626259 TATTAGAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
13 2 0.04
14 20 0.44
15 21 0.47
16 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:26640884 original size:25 final size:25
Alignment explanation
Indices: 26640869--26640947 Score: 131
Period size: 25 Copynumber: 3.2 Consensus size: 25
26640859 AGCTCTTCCA
* *
26640869 AGCTATATAACGGGAAGCTCATGTG
1 AGCTAAATAACGGGAAGCTCATGCG
*
26640894 AGCTAAATAACGGGAAGCTCATGGG
1 AGCTAAATAACGGGAAGCTCATGCG
26640919 AGCTAAATAACGGGAAGCTCATGCG
1 AGCTAAATAACGGGAAGCTCATGCG
26640944 AGCT
1 AGCT
26640948 GTATATCAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (25 bp):
AGCTAAATAACGGGAAGCTCATGCG
Found at i:26640962 original size:50 final size:50
Alignment explanation
Indices: 26640869--26640972 Score: 136
Period size: 50 Copynumber: 2.1 Consensus size: 50
26640859 AGCTCTTCCA
* * * * *
26640869 AGCTATATAACGGGAAGCTCATGTGAGCTAAATAACGGGAAGCTCATGGG
1 AGCTAAATAACGGGAAGCTCATGCGAGCTAAATAACAGAAAGCTCATGAG
** *
26640919 AGCTAAATAACGGGAAGCTCATGCGAGCTGTATATCAGAAAGCTCATGAG
1 AGCTAAATAACGGGAAGCTCATGCGAGCTAAATAACAGAAAGCTCATGAG
26640969 AGCT
1 AGCT
26640973 GTGGTGTGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (50 bp):
AGCTAAATAACGGGAAGCTCATGCGAGCTAAATAACAGAAAGCTCATGAG
Found at i:26643406 original size:13 final size:13
Alignment explanation
Indices: 26643390--26643422 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
26643380 TTGCCCACGA
26643390 TTTCAACCCACAG
1 TTTCAACCCACAG
*
26643403 TTTCAACCCACGG
1 TTTCAACCCACAG
26643416 TTTCAAC
1 TTTCAAC
26643423 AAGTAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.36, G:0.09, T:0.27
Consensus pattern (13 bp):
TTTCAACCCACAG
Found at i:26646945 original size:34 final size:34
Alignment explanation
Indices: 26646902--26646969 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
26646892 TTAGTTGGGC
26646902 CTTAGTTCCTCATGGGTTTAACACCAAGTTATGA
1 CTTAGTTCCTCATGGGTTTAACACCAAGTTATGA
26646936 CTTAGTTCCTCATGGGTTTAACACCAAGTTATGA
1 CTTAGTTCCTCATGGGTTTAACACCAAGTTATGA
26646970 AGCTTATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (34 bp):
CTTAGTTCCTCATGGGTTTAACACCAAGTTATGA
Found at i:26659562 original size:41 final size:41
Alignment explanation
Indices: 26659470--26659562 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
26659460 AATTAGTAGG
*
26659470 AAAGTAATTTTAATGTTTAATATATTAAATTTTATACTTAA
1 AAAGTATTTTTAATGTTTAATATATTAAATTTTATACTTAA
* * * * *
26659511 AAAGTATTTTTAATGTTTGATATGTTAAGTTTTATAGTTAG
1 AAAGTATTTTTAATGTTTAATATATTAAATTTTATACTTAA
*
26659552 AAAGTGTTTTT
1 AAAGTATTTTT
26659563 GACATTTGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.51
Consensus pattern (41 bp):
AAAGTATTTTTAATGTTTAATATATTAAATTTTATACTTAA
Found at i:26659571 original size:41 final size:41
Alignment explanation
Indices: 26659470--26659577 Score: 99
Period size: 41 Copynumber: 2.6 Consensus size: 41
26659460 AATTAGTAGG
* ** *
26659470 AAAGTAATTTTAATGTTTAATATATTAAATTTTATACTTAA
1 AAAGTATTTTTAACATTTGATATATTAAATTTTATACTTAA
** * * * *
26659511 AAAGTATTTTTAATGTTTGATATGTTAAGTTTTATAGTTAG
1 AAAGTATTTTTAACATTTGATATATTAAATTTTATACTTAA
* * *
26659552 AAAGTGTTTTTGACATTTGACATATT
1 AAAGTATTTTTAACATTTGATATATT
26659578 TTCTCTATTA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (41 bp):
AAAGTATTTTTAACATTTGATATATTAAATTTTATACTTAA
Found at i:26661426 original size:52 final size:49
Alignment explanation
Indices: 26661345--26661443 Score: 112
Period size: 52 Copynumber: 2.0 Consensus size: 49
26661335 TTCTTTAAAA
* *
26661345 ATAATATATAAATAATTCAAAATATATAATGTGTGAAAAAAGTTTGAAATAC
1 ATAATATATAAATAATTCAAAATAAATAATGTAT--AAAAA-TTTGAAATAC
*
26661397 ATAATATATGAAA-ATATT-AAAGTAAATAATGTATAAAAATTTGAAAT
1 ATAATATAT-AAATA-ATTCAAAATAAATAATGTATAAAAATTTGAAAT
26661444 GAGCATTCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
49 8 0.19
50 5 0.12
52 23 0.55
53 6 0.14
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (49 bp):
ATAATATATAAATAATTCAAAATAAATAATGTATAAAAATTTGAAATAC
Found at i:26662365 original size:20 final size:20
Alignment explanation
Indices: 26662328--26662365 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26662318 TGATGGGGAG
*
26662328 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
26662348 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
26662366 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:26664308 original size:46 final size:46
Alignment explanation
Indices: 26664256--26664430 Score: 287
Period size: 46 Copynumber: 3.7 Consensus size: 46
26664246 AGTGTACTCT
26664256 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
26664302 CTGATATGAAATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCATC
1 CTGATATG--A--A-ATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
26664353 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
*
26664399 CTGATATGAAATGTGTAAAACCATGGTTGAAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAA
26664431 CCTGATATAA
Statistics
Matches: 121, Mismatches: 3, Indels: 10
0.90 0.02 0.07
Matches are distributed among these distances:
46 74 0.61
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 43 0.36
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:26664437 original size:33 final size:33
Alignment explanation
Indices: 26664398--26664463 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
26664388 ACCATGGCAG
*
26664398 CCTGATATGAAATGTGTAAAACCATGGTTGAAA
1 CCTGATATAAAATGTGTAAAACCATGGTTGAAA
*
26664431 CCTGATATAAAATGTGTAAGACCATGGTTGAAA
1 CCTGATATAAAATGTGTAAAACCATGGTTGAAA
26664464 GATACCATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (33 bp):
CCTGATATAAAATGTGTAAAACCATGGTTGAAA
Found at i:26664445 original size:79 final size:79
Alignment explanation
Indices: 26664352--26664509 Score: 253
Period size: 79 Copynumber: 2.0 Consensus size: 79
26664342 ACCATGGCAT
* * ***
26664352 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAA
26664417 AACCATGGTTGAAA
66 AACCATGGTTGAAA
*
26664431 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAA
*
26664496 GACCATGGTTGAAA
66 AACCATGGTTGAAA
26664510 GATACCATGG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (79 bp):
CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAA
AACCATGGTTGAAA
Found at i:26664472 original size:125 final size:125
Alignment explanation
Indices: 26664317--26664555 Score: 363
Period size: 125 Copynumber: 1.9 Consensus size: 125
26664307 ATGAAATGAG
* ***
26664317 ATGTGTAAGACCATGGTTGAAAGATACCATGGCATCCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTG
* * * *
26664382 AAAGATACCATGGCAGCCTGATATG-AAATGTGTAAAACCATGGTTGAAACCTGATATAAA
66 AAAGATACCATGGCAACATGATA-GAAAATGAGTAAAACCATAGTTGAAACCTGATATAAA
*
26664442 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTG
* *
26664507 AAAGATACCATGGTAACATGATAGAAAATGAGTAAGACCATAGTTGAAA
66 AAAGATACCATGGCAACATGATAGAAAATGAGTAAAACCATAGTTGAAA
26664556 GACACTATGG
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
124 1 0.01
125 101 0.99
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (125 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAACAAGACCATGGTTG
AAAGATACCATGGCAACATGATAGAAAATGAGTAAAACCATAGTTGAAACCTGATATAAA
Found at i:26664490 original size:46 final size:46
Alignment explanation
Indices: 26664433--26664572 Score: 174
Period size: 46 Copynumber: 3.0 Consensus size: 46
26664423 GGTTGAAACC
* * *
26664433 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
** *
26664479 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGTAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
26664525 TGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
26664571 TG
1 TG
26664573 TCAAAGATAA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 1 0.01
46 79 0.99
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:26665215 original size:14 final size:14
Alignment explanation
Indices: 26665198--26665232 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
26665188 GTAGAAAAAT
26665198 AAATAGATAAATAA
1 AAATAGATAAATAA
26665212 AAATTAGATAAATAA
1 AAA-TAGATAAATAA
*
26665227 TAATAG
1 AAATAG
26665233 TATTAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (14 bp):
AAATAGATAAATAA
Found at i:26666269 original size:9 final size:9
Alignment explanation
Indices: 26666255--26666279 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26666245 CAATAATATC
26666255 TTATAATTT
1 TTATAATTT
26666264 TTATAATTT
1 TTATAATTT
26666273 TTATAAT
1 TTATAAT
26666280 ATTCTTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTATAATTT
Found at i:26668117 original size:5 final size:5
Alignment explanation
Indices: 26668109--26668140 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
26668099 TTATGTTTTA
26668109 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
26668141 ATAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:26669466 original size:18 final size:19
Alignment explanation
Indices: 26669443--26669481 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
26669433 ATATATAGAT
26669443 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
26669461 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
26669480 AT
1 AT
26669482 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:26670015 original size:19 final size:18
Alignment explanation
Indices: 26669977--26670016 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
26669967 ATGAAATGAT
26669977 AAATTGAATTGAGAATTG
1 AAATTGAATTGAGAATTG
26669995 AAATTGAGATATGAG-ATTG
1 AAATTGA-AT-TGAGAATTG
26670014 AAA
1 AAA
26670017 ACATGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AAATTGAATTGAGAATTG
Found at i:26673291 original size:27 final size:27
Alignment explanation
Indices: 26673252--26673303 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
26673242 TTTAGGTTAG
* *
26673252 AAAATGAAAAAAAAGTAAGGAAAAAAT
1 AAAAAGAAAAAAAAGTAAAGAAAAAAT
* *
26673279 AAAAAGAACAAAAATTAAAGAAAAA
1 AAAAAGAAAAAAAAGTAAAGAAAAA
26673304 GAAATTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.10
Consensus pattern (27 bp):
AAAAAGAAAAAAAAGTAAAGAAAAAAT
Found at i:26673308 original size:15 final size:14
Alignment explanation
Indices: 26673257--26673312 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
26673247 GTTAGAAAAT
* *
26673257 GAAAAAAAAGTAAG
1 GAAAAAAAATTAAA
26673271 GAAAAAATAA--AAA
1 GAAAAAA-AATTAAA
*
26673284 GAACAAAAATTAAA
1 GAAAAAAAATTAAA
26673298 GAAAAAGAAATTAAA
1 GAAAAA-AAATTAAA
26673313 AAAGAAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
12 2 0.06
13 8 0.23
14 15 0.43
15 10 0.29
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (14 bp):
GAAAAAAAATTAAA
Found at i:26673954 original size:53 final size:53
Alignment explanation
Indices: 26673869--26673977 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 53
26673859 GTAAAATTGG
*
26673869 TCTGTTTATTGGTTAGTGAACAATAGAACCCGGCAAACCTTTTCATTTTCCTA
1 TCTGTTTATTCGTTAGTGAACAATAGAACCCGGCAAACCTTTTCATTTTCCTA
* * * *
26673922 TCTGTTTGTTCGTTAGTGAACAATAGAGCCCGGCATACCTTTTGATTTTCCTA
1 TCTGTTTATTCGTTAGTGAACAATAGAACCCGGCAAACCTTTTCATTTTCCTA
26673975 TCT
1 TCT
26673978 TCTCAGATCC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (53 bp):
TCTGTTTATTCGTTAGTGAACAATAGAACCCGGCAAACCTTTTCATTTTCCTA
Found at i:26682631 original size:43 final size:44
Alignment explanation
Indices: 26682570--26682662 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
26682560 TCCTAATTGG
26682570 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
26682613 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
26682657 -AAAATA
1 GAAAATA
26682663 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:26682706 original size:19 final size:18
Alignment explanation
Indices: 26682684--26682723 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
26682674 TGAATAAAAC
26682684 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
26682703 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
26682721 TTA
1 TTA
26682724 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:26687350 original size:43 final size:44
Alignment explanation
Indices: 26687289--26687381 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
26687279 TCCTAATTGG
26687289 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
26687332 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
26687376 -AAAATA
1 GAAAATA
26687382 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:26687425 original size:19 final size:18
Alignment explanation
Indices: 26687403--26687442 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
26687393 TGAATAAAAC
26687403 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
26687422 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
26687440 TTA
1 TTA
26687443 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:26690446 original size:39 final size:39
Alignment explanation
Indices: 26690399--26690473 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
26690389 CTAGCTTCGA
* * *
26690399 TTTTGTTTTCAAGGATTCTAGTTTTGATTTGATAGCTTT
1 TTTTGTTTTCAAAGATTCGAGTTTTGATTCGATAGCTTT
*
26690438 TTTTGTTTTCAAAGTTTCGAGTTTTGATTCGATAGC
1 TTTTGTTTTCAAAGATTCGAGTTTTGATTCGATAGC
26690474 ATTTGAGTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.53
Consensus pattern (39 bp):
TTTTGTTTTCAAAGATTCGAGTTTTGATTCGATAGCTTT
Found at i:26690920 original size:20 final size:20
Alignment explanation
Indices: 26690895--26690933 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26690885 ATAAAAATAC
* *
26690895 TTTTATAATAATATAATTTA
1 TTTTATAAAAAAATAATTTA
26690915 TTTTATAAAAAAATAATTT
1 TTTTATAAAAAAATAATTT
26690934 TTTAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTATAAAAAAATAATTTA
Found at i:26690929 original size:22 final size:22
Alignment explanation
Indices: 26690870--26690930 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 22
26690860 TTTTTTATCA
26690870 ATTTTATATAAAAATATAAAAAT
1 ATTTTATA-AAAAATATAAAAAT
* **
26690893 ACTTTTAT-AATAATAT-AATTT
1 A-TTTTATAAAAAATATAAAAAT
26690914 ATTTTATAAAAAA-ATAA
1 ATTTTATAAAAAATATAA
26690931 TTTTTTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
20 8 0.26
21 9 0.29
22 7 0.23
23 1 0.03
24 6 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTATAAAAAATATAAAAAT
Found at i:26692125 original size:30 final size:30
Alignment explanation
Indices: 26692070--26692127 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
26692060 AATTCAGCTG
*
26692070 AAAATTAAAAATTTAGTTGCTCTATTTTTT
1 AAAATTAAAAATTTAGGTGCTCTATTTTTT
*
26692100 AAAATTTAAAATTTAGGTG-TACTATTTT
1 AAAATTAAAAATTTAGGTGCT-CTATTTT
26692128 AACATTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (30 bp):
AAAATTAAAAATTTAGGTGCTCTATTTTTT
Found at i:26693038 original size:2 final size:2
Alignment explanation
Indices: 26693031--26693060 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26693021 CTGAATGAAC
26693031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26693061 GGCAGATGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26695587 original size:29 final size:29
Alignment explanation
Indices: 26695554--26695633 Score: 124
Period size: 29 Copynumber: 2.8 Consensus size: 29
26695544 TTCAAATCTG
* *
26695554 AAAAGTAGAAGAATTAAATTCTTGAAAAT
1 AAAAGTACAAGAACTAAATTCTTGAAAAT
26695583 AAAAGTACAAGAACTAAATTCTTGAAAAT
1 AAAAGTACAAGAACTAAATTCTTGAAAAT
* *
26695612 AAAAATACAAGGACTAAATTCT
1 AAAAGTACAAGAACTAAATTCT
26695634 AAATTTGTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.25
Consensus pattern (29 bp):
AAAAGTACAAGAACTAAATTCTTGAAAAT
Found at i:26695740 original size:15 final size:15
Alignment explanation
Indices: 26695684--26695741 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
26695674 CTTTACACTA
26695684 TAAAATATTTATTAT
1 TAAAATATTTATTAT
* * *
26695699 TAATATTTTTATAAT
1 TAAAATATTTATTAT
26695714 TGCAATAAATATTTATTAT
1 T---A-AAATATTTATTAT
26695733 TAAAATATT
1 TAAAATATT
26695742 AATATTGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 20 0.61
16 1 0.03
18 1 0.03
19 11 0.33
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TAAAATATTTATTAT
Found at i:26698069 original size:10 final size:9
Alignment explanation
Indices: 26698054--26698079 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
26698044 GCTCATCTGC
26698054 AAAAAAATA
1 AAAAAAATA
26698063 AAAAAAATA
1 AAAAAAATA
26698072 AAAAAAAT
1 AAAAAAAT
26698080 CAACATTTAC
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAATA
Found at i:26698596 original size:14 final size:14
Alignment explanation
Indices: 26698567--26698604 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
26698557 GAGTTCTGAA
26698567 TTTAAAATTT-GAG
1 TTTAAAATTTAGAG
*
26698580 TTTAAATTTTAGAG
1 TTTAAAATTTAGAG
26698594 TTTAAAATTTA
1 TTTAAAATTTA
26698605 TAATTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (14 bp):
TTTAAAATTTAGAG
Found at i:26699515 original size:15 final size:16
Alignment explanation
Indices: 26699495--26699528 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
26699485 TTAAAATTTA
*
26699495 AAAAATACCAA-AACT
1 AAAAATAACAATAACT
26699510 AAAAATAACAATAACT
1 AAAAATAACAATAACT
26699526 AAA
1 AAA
26699529 TCTATAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.71, C:0.15, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAATAACAATAACT
Found at i:26701407 original size:31 final size:31
Alignment explanation
Indices: 26701350--26701409 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
26701340 TTAAACTATA
*
26701350 TAAAAATATTAATAAATTAATGAATTATTTT
1 TAAAAATATTAATAAATAAATGAATTATTTT
*
26701381 TAAAAATATTAA-AAATAAATATAATTATT
1 TAAAAATATTAATAAATAAAT-GAATTATT
26701410 ATATTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (31 bp):
TAAAAATATTAATAAATAAATGAATTATTTT
Found at i:26705563 original size:2 final size:2
Alignment explanation
Indices: 26705558--26705593 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
26705548 GTGTAAAATG
26705558 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26705594 TTAGCGATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26706294 original size:32 final size:34
Alignment explanation
Indices: 26706227--26706312 Score: 79
Period size: 35 Copynumber: 2.5 Consensus size: 34
26706217 AAATAAAAAT
*
26706227 AATATAATAATAATAAAAATATAAAAAGTGGATAA
1 AATATAATAATAATAAAAATATAAAAAG-GAATAA
*
26706262 AATATAATGAT-ATAAAAATA-AAATAA-GAATAA
1 AATATAATAATAATAAAAATATAAA-AAGGAATAA
* *
26706294 AGTAATAGGTAATAATAAA
1 AAT-ATA-ATAATAATAAA
26706313 TGCAGTAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
32 7 0.17
33 6 0.14
34 14 0.33
35 15 0.36
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (34 bp):
AATATAATAATAATAAAAATATAAAAAGGAATAA
Found at i:26706787 original size:18 final size:16
Alignment explanation
Indices: 26706766--26706804 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
26706756 AAGAAAGAAA
26706766 GAGAGAAAAAGAGGAGGG
1 GAGAG-AAAAGA-GAGGG
*
26706784 GAGAGAAGAGAGAGGG
1 GAGAGAAAAGAGAGGG
26706800 GAGAG
1 GAGAG
26706805 GGAGAGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 5 0.25
18 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (16 bp):
GAGAGAAAAGAGAGGG
Found at i:26708346 original size:18 final size:18
Alignment explanation
Indices: 26708325--26708377 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
26708315 TTTTATTTTT
26708325 ATATAAAAAATTAAAAAA
1 ATATAAAAAATTAAAAAA
* * * *
26708343 ATATAATATATCAAAAAT
1 ATATAAAAAATTAAAAAA
26708361 AT-TAAAAACATTAAAAA
1 ATATAAAAA-ATTAAAAA
26708378 TAAATTAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (18 bp):
ATATAAAAAATTAAAAAA
Found at i:26730826 original size:32 final size:32
Alignment explanation
Indices: 26730790--26730855 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
26730780 GTTAAACAAT
*
26730790 TTAGTTTCAAATTGTTCATATGGATTCTTAAC
1 TTAGTTTCAAATTGTTCATATGAATTCTTAAC
26730822 TTAGTTTCAAATTGTTCATATGAATTCTTAAC
1 TTAGTTTCAAATTGTTCATATGAATTCTTAAC
26730854 TT
1 TT
26730856 TGACATAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (32 bp):
TTAGTTTCAAATTGTTCATATGAATTCTTAAC
Found at i:26730995 original size:86 final size:86
Alignment explanation
Indices: 26730893--26731067 Score: 305
Period size: 86 Copynumber: 2.0 Consensus size: 86
26730883 TTAGCGAACA
* * *
26730893 AATTTACAGCGTTTCTCGCCTTGCTTCTCCTCATGTAGTTCTTACTTCCCTGATTTTGTTTTGAC
1 AATTTACAGCGCTTCTCCCCCTGCTTCTCCTCATGTAGTTCTTACTTCCCTGATTTTGTTTTGAC
26730958 TTAGAAATGATTACAAGACCT
66 TTAGAAATGATTACAAGACCT
26730979 AATTTACAGCGCTTCTCCCCCTGCTTCTCCTCATGTAGTTCTTACTTCCCTGATTTTGTTTTGAC
1 AATTTACAGCGCTTCTCCCCCTGCTTCTCCTCATGTAGTTCTTACTTCCCTGATTTTGTTTTGAC
* *
26731044 TTAGTAATGATTACATGACCT
66 TTAGAAATGATTACAAGACCT
26731065 AAT
1 AAT
26731068 GTTTGGTTGC
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.42
Consensus pattern (86 bp):
AATTTACAGCGCTTCTCCCCCTGCTTCTCCTCATGTAGTTCTTACTTCCCTGATTTTGTTTTGAC
TTAGAAATGATTACAAGACCT
Found at i:26738208 original size:27 final size:27
Alignment explanation
Indices: 26738173--26738229 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
26738163 ATATTTTATT
* *
26738173 TTTAAACTATCCTAATATATACAATGA
1 TTTAAACTAGCCTAATATATACAATAA
* * *
26738200 TTTAGACTAGCCTATTATATATAATAA
1 TTTAAACTAGCCTAATATATACAATAA
26738227 TTT
1 TTT
26738230 GCTTTTAAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (27 bp):
TTTAAACTAGCCTAATATATACAATAA
Found at i:26748951 original size:14 final size:14
Alignment explanation
Indices: 26748915--26748951 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
26748905 TGCTACTATT
*
26748915 TTACTATTATGTTG
1 TTACTATTTTGTTG
26748929 TTACTATTTTGTTG
1 TTACTATTTTGTTG
*
26748943 TTATTATTT
1 TTACTATTT
26748952 GGATATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.05, G:0.11, T:0.65
Consensus pattern (14 bp):
TTACTATTTTGTTG
Found at i:26748989 original size:17 final size:17
Alignment explanation
Indices: 26748967--26748999 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
26748957 TTATATAAAA
26748967 TTTATT-TTATTGTTAAT
1 TTTATTATTATT-TTAAT
26748984 TTTATTATTATTTTAA
1 TTTATTATTATTTTAA
26749000 AGACATTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTTTAAT
Found at i:26749016 original size:30 final size:30
Alignment explanation
Indices: 26748980--26749038 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
26748970 ATTTTATTGT
26748980 TAATTTTATTATTATTTTAAAGACATTTGC
1 TAATTTTATTATTATTTTAAAGACATTTGC
* * *
26749010 TAATTTTGTTATTATTTTAGAGGCATTTG
1 TAATTTTATTATTATTTTAAAGACATTTG
26749039 TTTGTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (30 bp):
TAATTTTATTATTATTTTAAAGACATTTGC
Found at i:26750740 original size:11 final size:11
Alignment explanation
Indices: 26750726--26750773 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
26750716 TTGTTTCACT
*
26750726 TTTTGTCATTA
1 TTTTGTTATTA
26750737 TTTTGTTATTA
1 TTTTGTTATTA
*
26750748 TTTTATTATTA
1 TTTTGTTATTA
*
26750759 TGTTGTTATTA
1 TTTTGTTATTA
26750770 TTTT
1 TTTT
26750774 ATTGTTAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:26750758 original size:22 final size:22
Alignment explanation
Indices: 26750733--26750785 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
26750723 ACTTTTTGTC
*
26750733 ATTATTTTGTTATTATTTTATT
1 ATTATGTTGTTATTATTTTATT
26750755 ATTATGTTGTTATTATTTTATT
1 ATTATGTTGTTATTATTTTATT
*
26750777 GTTAATGTT
1 ATT-ATGTT
26750786 TTAATTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (22 bp):
ATTATGTTGTTATTATTTTATT
Found at i:26754328 original size:18 final size:18
Alignment explanation
Indices: 26754294--26754328 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26754284 TTGTTAATTT
* *
26754294 GATAAAAGTTTTGTATTA
1 GATAAAAGTTATATATTA
26754312 GATAAAAGTTATATATT
1 GATAAAAGTTATATATT
26754329 TTGATACTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (18 bp):
GATAAAAGTTATATATTA
Found at i:26759481 original size:21 final size:21
Alignment explanation
Indices: 26759432--26759481 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
26759422 ATTTTTATAA
26759432 TTAAAAAA-CTTTAGAATTTT
1 TTAAAAAATCTTTAGAATTTT
* * * *
26759452 TTTAGAAATTTTTATAATTTT
1 TTAAAAAATCTTTAGAATTTT
26759473 TTAAAAAAT
1 TTAAAAAAT
26759482 ATAAAATTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
TTAAAAAATCTTTAGAATTTT
Found at i:26759513 original size:20 final size:21
Alignment explanation
Indices: 26759486--26759539 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
26759476 AAAAATATAA
26759486 AATTTGAAATTTTT-ATAAA-T
1 AATTTGAAATTTTTGA-AAATT
*
26759506 ATTTTG-AATTTTTGAAAATT
1 AATTTGAAATTTTTGAAAATT
26759526 AATTTGAAATTTTT
1 AATTTGAAATTTTT
26759540 TGTAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 10 0.34
20 12 0.41
21 7 0.24
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (21 bp):
AATTTGAAATTTTTGAAAATT
Found at i:26759724 original size:23 final size:23
Alignment explanation
Indices: 26759680--26759724 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
26759670 GACTTGAATT
* *
26759680 ACTTATTCGAGTTGACTCAAATG
1 ACTTAATCGAGTTAACTCAAATG
26759703 ACTTAATCGA-TTAACTCGAAAT
1 ACTTAATCGAGTTAACTC-AAAT
26759725 TCAAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (23 bp):
ACTTAATCGAGTTAACTCAAATG
Found at i:26761329 original size:20 final size:21
Alignment explanation
Indices: 26761293--26761336 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
26761283 AGTGTTTTCA
*
26761293 TTTTAGAATATTTTA-TTTAT
1 TTTTAGAATATTATATTTTAT
26761313 TTTTA-AATGATTATATTTTAT
1 TTTTAGAAT-ATTATATTTTAT
26761334 TTT
1 TTT
26761337 ATTAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTAGAATATTATATTTTAT
Found at i:26761337 original size:20 final size:20
Alignment explanation
Indices: 26761287--26761337 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
26761277 AATAATAGTG
*
26761287 TTTTCATTTTAGAATATTTTA
1 TTTT-ATTTTAGAATATTATA
26761308 -TTTATTTTTA-AATGATTATA
1 TTTTA-TTTTAGAAT-ATTATA
26761328 TTTTATTTTA
1 TTTTATTTTA
26761338 TTAATTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 4 0.15
20 18 0.69
21 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTATTTTAGAATATTATA
Found at i:26761875 original size:2 final size:2
Alignment explanation
Indices: 26761868--26761896 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26761858 GCTTATTTGA
26761868 AT AT 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 AT AT A
26761897 AATTAGAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26762452 original size:28 final size:27
Alignment explanation
Indices: 26762399--26762452 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
26762389 ACTATACATA
* *
26762399 TTTTTTCATATTGGTATCTAACCTTTT
1 TTTTTTCATATTGATATCTAAACTTTT
*
26762426 TTTTATTCATATTGATATTTAAACTTT
1 TTTT-TTCATATTGATATCTAAACTTT
26762453 GCCTCCGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.59
Consensus pattern (27 bp):
TTTTTTCATATTGATATCTAAACTTTT
Found at i:26762600 original size:20 final size:20
Alignment explanation
Indices: 26762562--26762600 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
26762552 TTAAAATTAA
*
26762562 AATTAAAGAAGATATAATTT
1 AATTAAAGAAAATATAATTT
26762582 AATTAAATGAAAATA-AATT
1 AATTAAA-GAAAATATAATT
26762601 ACTTATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
AATTAAAGAAAATATAATTT
Found at i:26764481 original size:16 final size:17
Alignment explanation
Indices: 26764460--26764492 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26764450 TATAATAAGC
26764460 ATATTTA-AAAAAATAA
1 ATATTTATAAAAAATAA
26764476 ATATTTATAAAAAATAA
1 ATATTTATAAAAAATAA
26764493 TTTAATAATT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATTTATAAAAAATAA
Found at i:26765690 original size:2 final size:2
Alignment explanation
Indices: 26765683--26765720 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
26765673 AAACAGTTGT
*
26765683 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26765721 ATTATAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:26765989 original size:18 final size:18
Alignment explanation
Indices: 26765957--26766030 Score: 51
Period size: 19 Copynumber: 3.9 Consensus size: 18
26765947 TAAAAAAACT
*
26765957 AAAATAATTTTTAAATTTC
1 AAAAT-ATTTATAAATTTC
*
26765976 AAAATATTTATAAAAATTC
1 AAAATATTTAT-AAATTTC
* ** *
26765995 TAAA-ATTTATATTTTTA
1 AAAATATTTATAAATTTC
26766012 AAAATATATATATAAATTT
1 AAAATAT-T-TATAAATTT
26766031 TAAATGAAGA
Statistics
Matches: 41, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
17 6 0.15
18 13 0.32
19 15 0.37
20 7 0.17
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATATTTATAAATTTC
Found at i:26765999 original size:20 final size:20
Alignment explanation
Indices: 26765931--26766000 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
26765921 AAATTGAGCT
*
26765931 TTCTTAAATAAATTGTTAAAAA
1 TTCTAAAAT-AATT-TTAAAAA
** * *
26765953 AACTAAAATAATTTTTAAAT
1 TTCTAAAATAATTTTAAAAA
26765973 TTC-AAAAT-ATTTATAAAAA
1 TTCTAAAATAATTT-TAAAAA
26765992 TTCTAAAAT
1 TTCTAAAAT
26766001 TTATATTTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 11 0.30
21 4 0.11
22 6 0.16
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (20 bp):
TTCTAAAATAATTTTAAAAA
Found at i:26773580 original size:20 final size:20
Alignment explanation
Indices: 26773555--26773595 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
26773545 CTTAAGGCAC
26773555 TAGACTCAACATGTTTCTTT
1 TAGACTCAACATGTTTCTTT
26773575 TAGACTCAACATGTTTCTTT
1 TAGACTCAACATGTTTCTTT
26773595 T
1 T
26773596 CTCTCTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (20 bp):
TAGACTCAACATGTTTCTTT
Found at i:26773969 original size:17 final size:17
Alignment explanation
Indices: 26773949--26773983 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26773939 GAATTATTTG
26773949 TTAAAAATTA-ATAATAT
1 TTAAAAA-TACATAATAT
26773966 TTAAAAATACATAATAT
1 TTAAAAATACATAATAT
26773983 T
1 T
26773984 ACTTAGATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATACATAATAT
Found at i:26782020 original size:2 final size:2
Alignment explanation
Indices: 26782013--26782038 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26782003 ACATTTTAAA
26782013 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26782039 TCTGATGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26786568 original size:33 final size:33
Alignment explanation
Indices: 26786526--26786591 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
26786516 AAATTGAGAC
26786526 AAGATGAGAGAGAAAGTCAACCTTGGAAGCTAT
1 AAGATGAGAGAGAAAGTCAACCTTGGAAGCTAT
26786559 AAGATGAGAGAGAAAGTCAACCTTGGAAGCTAT
1 AAGATGAGAGAGAAAGTCAACCTTGGAAGCTAT
26786592 CTTTCAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.18
Consensus pattern (33 bp):
AAGATGAGAGAGAAAGTCAACCTTGGAAGCTAT
Found at i:26794471 original size:30 final size:32
Alignment explanation
Indices: 26794437--26794505 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
26794427 TACTTTCAGT
**
26794437 TCAGTCACTCAAC-TT-TTTTAAAATAACAAA
1 TCAGTCACTCAACGTTATTGAAAAATAACAAA
* *
26794467 TCAGTCA-TTAACGTTATTGAAAAATGACAAA
1 TCAGTCACTCAACGTTATTGAAAAATAACAAA
26794498 TCAGTCAC
1 TCAGTCAC
26794506 CCATAAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 4 0.12
30 9 0.28
31 19 0.59
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (32 bp):
TCAGTCACTCAACGTTATTGAAAAATAACAAA
Found at i:26798867 original size:2 final size:2
Alignment explanation
Indices: 26798860--26798893 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
26798850 CACTTTCAGA
26798860 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26798894 TCGACTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26806823 original size:2 final size:2
Alignment explanation
Indices: 26806816--26806846 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
26806806 TATAATCCAC
*
26806816 AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
26806847 ATTAAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26807568 original size:41 final size:39
Alignment explanation
Indices: 26807481--26807559 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 39
26807471 TAGATAGGCA
*
26807481 AAAAAAGAGAAAATAAAATGAATAGCTCACAGAATTAGGCC
1 AAAAAAGAGAAAATAAAATGAATAGCT-ACAGAACTA-GCC
*
26807522 AAAAAAGAGAAAATAACATGAATAGCT-CAGAACT-GCC
1 AAAAAAGAGAAAATAAAATGAATAGCTACAGAACTAGCC
26807559 A
1 A
26807560 GAAGAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 4 0.11
39 6 0.17
41 26 0.72
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (39 bp):
AAAAAAGAGAAAATAAAATGAATAGCTACAGAACTAGCC
Found at i:26814261 original size:31 final size:31
Alignment explanation
Indices: 26814226--26814286 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
26814216 ATGATAACTT
26814226 AACTACTTAG-AAG-TTTTCATTTAAGTTATTA
1 AACTAC-TAGAAAGCTTTT-ATTTAAGTTATTA
*
26814257 AACTACTCGAAAGCTTTTATTTAAGTTATT
1 AACTACTAGAAAGCTTTTATTTAAGTTATT
26814287 GAGTTATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (31 bp):
AACTACTAGAAAGCTTTTATTTAAGTTATTA
Found at i:26814561 original size:25 final size:25
Alignment explanation
Indices: 26814533--26814583 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
26814523 CTTTTTTTTT
26814533 AATACAATGCCTAAGATTATTCATA
1 AATACAATGCCTAAGATTATTCATA
*
26814558 AATACAATGCTTAAGATTATTCATA
1 AATACAATGCCTAAGATTATTCATA
26814583 A
1 A
26814584 CTCCTCTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (25 bp):
AATACAATGCCTAAGATTATTCATA
Found at i:26829389 original size:17 final size:17
Alignment explanation
Indices: 26829367--26829402 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26829357 TTTGTTAACT
*
26829367 TTTTAAAGAGAAATATA
1 TTTTAAAGAAAAATATA
*
26829384 TTTTAAGGAAAAATATA
1 TTTTAAAGAAAAATATA
26829401 TT
1 TT
26829403 GGTATTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (17 bp):
TTTTAAAGAAAAATATA
Found at i:26830947 original size:2 final size:2
Alignment explanation
Indices: 26830929--26830967 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
26830919 AATATTATTC
* *
26830929 TA TA TT TA TA CA TA 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 TA TA TA TA TA TA TA T
26830968 TTTTGCTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26833345 original size:13 final size:13
Alignment explanation
Indices: 26833329--26833353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26833319 ACCGAGTTCG
26833329 TAAATATTTTCAT
1 TAAATATTTTCAT
26833342 TAAATATTTTCA
1 TAAATATTTTCA
26833354 AAATTGTTAT
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:0.08, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAATATTTTCAT
Found at i:26834900 original size:22 final size:21
Alignment explanation
Indices: 26834875--26834918 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
26834865 ACATTATTTG
26834875 AATAG-TATATGATGTATAATGA
1 AATAGTTATAT-ATGTAT-ATGA
*
26834897 AATAGTTTTATATGTATATGA
1 AATAGTTATATATGTATATGA
26834918 A
1 A
26834919 TTGAGTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (21 bp):
AATAGTTATATATGTATATGA
Found at i:26837198 original size:14 final size:14
Alignment explanation
Indices: 26837179--26837208 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
26837169 TGTGTTTATC
26837179 GATGGGTAAAATCA
1 GATGGGTAAAATCA
26837193 GATGGGTAAAATCA
1 GATGGGTAAAATCA
26837207 GA
1 GA
26837209 AAGTCTACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.30, T:0.20
Consensus pattern (14 bp):
GATGGGTAAAATCA
Found at i:26837504 original size:50 final size:53
Alignment explanation
Indices: 26837448--26837554 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 53
26837438 AAGTAATTAC
26837448 AAAAGAC-TT-GAAATAAAATCCAAATTGACATCAAA-TTCGAGTTCAATCCT
1 AAAAGACTTTAGAAATAAAATCCAAATTGACATCAAATTTCGAGTTCAATCCT
*
26837498 AAAAGACTTGTGTTAGAAATAAAATCTAAATTGACATCAAATTTCGAGTTCAATCCT
1 AAAAGAC---T-TTAGAAATAAAATCCAAATTGACATCAAATTTCGAGTTCAATCCT
26837555 TGCATAGTAG
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
50 7 0.14
55 2 0.04
56 25 0.51
57 15 0.31
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (53 bp):
AAAAGACTTTAGAAATAAAATCCAAATTGACATCAAATTTCGAGTTCAATCCT
Found at i:26857917 original size:46 final size:46
Alignment explanation
Indices: 26857861--26858217 Score: 527
Period size: 46 Copynumber: 7.7 Consensus size: 46
26857851 GTGCTCTCTA
* * *
26857861 ATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
26857907 ATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACCTG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
26857953 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
26857999 ATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
26858045 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*
26858091 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*** *
26858137 ACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
* * *
26858184 ATA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 ATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
26858218 TATGACATCA
Statistics
Matches: 289, Mismatches: 21, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 247 0.85
47 42 0.15
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:26860150 original size:13 final size:14
Alignment explanation
Indices: 26860122--26860150 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26860112 AATTTTTTGA
26860122 TTAATTATGTTTTT
1 TTAATTATGTTTTT
26860136 TTAATTATGTTTTT
1 TTAATTATGTTTTT
26860150 T
1 T
26860151 CTTACTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TTAATTATGTTTTT
Found at i:26860470 original size:44 final size:44
Alignment explanation
Indices: 26860421--26860505 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
26860411 AAATAGGGGA
26860421 AAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCTTGG
1 AAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCTTGG
*
26860465 AAAGAGTAAAAAAATCAACTTTGAGGCTAATGAACAATTCT
1 AAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCT
26860506 CTCACACCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (44 bp):
AAAGAGTAAAAAAATCAACTTGGAGGCTAATGAACAATTCTTGG
Done.