Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 359 of 444
Found at i:104285940 original size:30 final size:30
Alignment explanation
Indices: 104285906--104285966 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
104285896 TCCTTAACTC
104285906 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
104285936 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
104285966 A
1 A
104285967 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:104291412 original size:41 final size:40
Alignment explanation
Indices: 104291363--104291508 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
104291353 CTGTCTCAAA
* * * *
104291363 TCGCACACTAAGTGCAATATATAGTAGAACCTATCTCGAT
1 TCGCACACTAAGTGCCATATATAGCAGAAGCTATGTCGAT
* *
104291403 CTCGCACACTAAGTGCCATATATAGCAGTAGCTATGTCGAA
1 -TCGCACACTAAGTGCCATATATAGCAGAAGCTATGTCGAT
* * * *
104291444 TCGAACACTAAATGCCATATATAGCCGAAGCTATGTTGAT
1 TCGCACACTAAGTGCCATATATAGCAGAAGCTATGTCGAT
* *
104291484 TCGCACACTAAGTACCACATATAGC
1 TCGCACACTAAGTGCCATATATAGC
104291509 TGATTTGTCG
Statistics
Matches: 89, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 55 0.62
41 34 0.38
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCAGAAGCTATGTCGAT
Found at i:104298278 original size:37 final size:35
Alignment explanation
Indices: 104298220--104298336 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 35
104298210 TCAATCATGC
*
104298220 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT-T
104298258 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
104298289 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
104298320 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
104298337 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
31 49 0.63
32 2 0.03
33 1 0.01
35 1 0.01
37 14 0.18
38 11 0.14
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:104298295 original size:31 final size:31
Alignment explanation
Indices: 104298243--104298336 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
104298233 CCTTTTCATA
104298243 TTTCATATTTCATA-TACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
104298273 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
104298304 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
104298335 TT
1 TT
104298337 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 14 0.22
31 49 0.78
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:104298669 original size:47 final size:47
Alignment explanation
Indices: 104298528--104298669 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
104298518 GCTTTATCAT
* * *
104298528 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTTTA
*
104298577 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
104298624 ATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTT
104298670 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
47 60 0.69
48 15 0.17
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTTA
Found at i:104298670 original size:24 final size:24
Alignment explanation
Indices: 104298528--104298669 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
104298518 GCTTTATCAT
*
104298528 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
104298553 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
104298577 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
104298600 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
104298624 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
104298648 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
104298670 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
23 39 0.35
24 59 0.54
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:104298745 original size:20 final size:20
Alignment explanation
Indices: 104298720--104298779 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
104298710 TATGATTACC
104298720 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
104298740 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
104298760 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
104298780 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:104298854 original size:25 final size:25
Alignment explanation
Indices: 104298822--104298869 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104298812 ATACATAAAC
* * *
104298822 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
104298847 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
104298870 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:104300127 original size:27 final size:27
Alignment explanation
Indices: 104300107--104300451 Score: 385
Period size: 27 Copynumber: 12.9 Consensus size: 27
104300097 AGGGTATTTT
104300107 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
104300134 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
104300161 AGTAATTTTGTAAATCAAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* * *
104300188 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
104300215 GGTAA-TTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
104300241 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
104300268 A-TAATTATGTAAATCTG-GGGTAAAAT
1 AGTAATTTTGTAAATC-GAGGGTAAAAC
* * *
104300294 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTTTGTAAATCGA-GGGTAAAAC
* * * *
104300321 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTTTGTAAATCGAGGGTAAAAC
*
104300348 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTTTGTAAATC-GAGGGTAAAAC
* * *
104300375 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* **
104300402 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTTTGTAAATCGAGGGTAAAAC
* *
104300429 AGTAATTCTATAAATCGAGGGTA
1 AGTAATTTTGTAAATCGAGGGTA
104300452 CTTTGGTAAT
Statistics
Matches: 280, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
26 45 0.16
27 233 0.83
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTTTGTAAATCGAGGGTAAAAC
Found at i:104300180 original size:81 final size:81
Alignment explanation
Indices: 104300106--104300451 Score: 439
Period size: 81 Copynumber: 4.3 Consensus size: 81
104300096 AAGGGTATTT
* * * * *
104300106 TAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTTTG
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTA
*
104300171 TAAATCAAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * *
104300187 TAGTAATTCTATAAATCGAGGGTAAAATGGTAA-TTTGTAAATCGAGGGTAAAACGGTAATTCTG
1 TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTA
104300251 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * * *
104300267 CA-TAATTATGTAAATCTG-GGGTAAAATGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCT
1 TAGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCT
104300330 ATAAATCGAGGGTAAAA
65 ATAAATCGAGGGTAAAA
* * * *
104300347 TAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTT
1 TAGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCT
*
104300411 ACAAATCGAGGGTAAAA
65 ATAAATCGAGGGTAAAA
* *
104300428 CAGTAATTCTATAAATCGAGGGTA
1 TAGTAATTCTGTAAATCGAGGGTA
104300452 CTTTGGTAAT
Statistics
Matches: 232, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
79 26 0.11
80 91 0.39
81 114 0.49
82 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
TAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:104300473 original size:27 final size:27
Alignment explanation
Indices: 104300375--104300652 Score: 204
Period size: 27 Copynumber: 10.3 Consensus size: 27
104300365 AGGGTAAAAC
* * ****
104300375 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
104300402 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * * *
104300429 AGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
104300456 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
104300483 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
104300510 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
104300537 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
104300564 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * * *
104300591 GGTAATTTTATAAACCAATGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
104300618 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
104300644 GGTAATTTT
1 GGTAATTTT
104300653 GTAAACCAAA
Statistics
Matches: 212, Mismatches: 36, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.08
27 192 0.91
28 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:104300489 original size:81 final size:80
Alignment explanation
Indices: 104300163--104300577 Score: 245
Period size: 81 Copynumber: 5.2 Consensus size: 80
104300153 GGTAAAACAG
** * * **
104300163 TAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTGTA-A
1 TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAATTTGGTAATTT-TACA
*** *
104300227 ATCGAGGGTAAAACGG
65 ATCGAGGGTATTTCGA
* ** * * **
104300243 TAATTCTGTAAATCGAGGGTAAAACA-TAATTATGTAAATCTG-GGGTAAAATGGTAATTATGTA
1 TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATC-GAGGGTAATTTGGTAATT-T-TA
* *** *
104300306 -AAT-TAGGGGTAAAACGG
63 CAATCGA-GGGTATTTCGA
* * * * ***
104300323 TAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATA
1 TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATC-GAGGGTAATTTGGTAATT-T-TA
*** *
104300387 -AATCGAGGGTAAAACGG
63 CAATCGAGGGTATTTCGA
*
104300404 TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAA
1 TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAATTTGGTAATTTTACAA
*
104300469 GTCGAGGGTATTTCAA
66 -TCGAGGGTATTTCGA
** *** * * *
104300485 TAATTTTACAGGTCGAGGGTATTTCAGTAATT-TCACAAAT-TAGGGGTATTTTGGTAATTTTAC
1 TAATTTTACAAATCGAGGGTAAAACAGTAATTCT-ATAAATCGA-GGGTAATTTGGTAATTTTAC
* * *
104300548 AAACTAGGGGTATTTTGA
64 AATCGA-GGGTATTTCGA
104300566 TAATTTTACAAA
1 TAATTTTACAAA
104300578 CTAGGGGTAT
Statistics
Matches: 283, Mismatches: 40, Indels: 23
0.82 0.12 0.07
Matches are distributed among these distances:
79 31 0.11
80 76 0.27
81 174 0.61
82 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.32
Consensus pattern (80 bp):
TAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAATTTGGTAATTTTACAA
TCGAGGGTATTTCGA
Found at i:104300666 original size:26 final size:26
Alignment explanation
Indices: 104300529--104300669 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
104300519 ACAAATTAGG
* * *
104300529 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
104300556 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
104300583 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
104300609 TGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
104300636 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
104300662 AGTATTTT
1 GGTATTTT
104300670 AAACATGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:104303415 original size:37 final size:35
Alignment explanation
Indices: 104303357--104303473 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 35
104303347 TCAATCATGC
*
104303357 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT-T
104303395 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
104303426 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
104303457 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
104303474 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
31 49 0.63
32 2 0.03
33 1 0.01
35 1 0.01
37 14 0.18
38 11 0.14
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:104303432 original size:31 final size:31
Alignment explanation
Indices: 104303380--104303473 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
104303370 CCTTTTCATA
104303380 TTTCATATTTCATA-TACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
104303410 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
104303441 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
104303472 TT
1 TT
104303474 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 14 0.22
31 49 0.78
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:104303716 original size:24 final size:24
Alignment explanation
Indices: 104303665--104303807 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
104303655 GCTTTATCAT
*
104303665 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
104303690 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
104303714 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
104303737 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
104303761 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
104303785 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
104303808 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:104303744 original size:47 final size:48
Alignment explanation
Indices: 104303665--104303806 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
104303655 GCTTTATCAT
* *
104303665 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
104303714 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
104303761 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
104303807 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:104303765 original size:71 final size:72
Alignment explanation
Indices: 104303664--104303807 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
104303654 TGCTTTATCA
*
104303664 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
104303729 GCCCTTT
66 GCCCTTT
* * **
104303736 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
104303799 AGCCCTTT
65 AGCCCTTT
104303807 T
1 T
104303808 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:104303883 original size:20 final size:20
Alignment explanation
Indices: 104303858--104303917 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
104303848 TATGATTACC
104303858 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
104303878 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
104303898 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
104303918 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:104303992 original size:25 final size:25
Alignment explanation
Indices: 104303960--104304007 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104303950 ATACATAAAC
* * *
104303960 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
104303985 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
104304008 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:104306449 original size:29 final size:29
Alignment explanation
Indices: 104306415--104306492 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
104306405 GTGACGAGAT
* *
104306415 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
104306444 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
104306473 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
104306493 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:104314280 original size:29 final size:29
Alignment explanation
Indices: 104314246--104314323 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
104314236 GTGACGAGAT
* *
104314246 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
104314275 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
104314304 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
104314324 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:104316452 original size:27 final size:27
Alignment explanation
Indices: 104316096--104316441 Score: 401
Period size: 27 Copynumber: 12.8 Consensus size: 27
104316086 GGGTATTTTA
* * *
104316096 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
104316123 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * **
104316150 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
104316177 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
104316204 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
104316231 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
104316258 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
104316285 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
104316312 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
104316339 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
104316366 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
104316393 GTAATTTTACAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
104316420 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
104316442 CTTTGGTAAT
Statistics
Matches: 284, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.00
27 280 0.99
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:104316463 original size:27 final size:27
Alignment explanation
Indices: 104316365--104316669 Score: 233
Period size: 27 Copynumber: 11.3 Consensus size: 27
104316355 AGGGTAAAAC
* * ****
104316365 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* ****
104316392 GGTAATTTTACAAATTGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
104316419 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
104316446 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
104316473 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
104316500 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
104316527 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
104316554 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
104316581 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * * *
104316608 GGTAATTTTATAAACCAATGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
104316635 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
104316661 GGTAATTTT
1 GGTAATTTT
104316670 GTAAACCAAA
Statistics
Matches: 239, Mismatches: 36, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
26 18 0.08
27 219 0.92
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:104316683 original size:26 final size:26
Alignment explanation
Indices: 104316519--104316686 Score: 174
Period size: 27 Copynumber: 6.3 Consensus size: 26
104316509 ACAAATTAGG
* *
104316519 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
104316546 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* *
104316573 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
104316600 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
104316626 TGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
104316653 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
104316679 AGTATTTT
1 GGTATTTT
104316687 AAACATGGAT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
26 28 0.22
27 97 0.78
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:104318805 original size:15 final size:16
Alignment explanation
Indices: 104318787--104318816 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104318777 ATGGAAACTA
104318787 TGATAT-ATGAAATAT
1 TGATATAATGAAATAT
104318802 TGATATAATGAAATA
1 TGATATAATGAAATA
104318817 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (16 bp):
TGATATAATGAAATAT
Found at i:104320505 original size:42 final size:44
Alignment explanation
Indices: 104320440--104320551 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
104320430 TACAATATCG
* * *
104320440 ATGCCACTGTCCCAAACAAGGTCTTACAC-TAAATCA-AA-TACC
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-CC
* *
104320482 ATGCCAATGTCCCAGTCATGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGTCC
* *
104320526 ATGCCAACGTCCCAGACGTGGTCTTA
1 ATGCCAATGTCCCAGACATGGTCTTA
104320552 AACGAAAACA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 25 0.42
43 7 0.12
44 26 0.44
45 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGTCC
Found at i:104328107 original size:31 final size:31
Alignment explanation
Indices: 104328048--104328109 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
104328038 GAGTTTGATC
* *
104328048 ATATAGCACTAAGTGTTCGAGCTGAATATAT
1 ATATAGCACTAAGTGTGCGAGCTCAATATAT
104328079 ATATAGCACTAAGTGTGCG-GACTCAATATAT
1 ATATAGCACTAAGTGTGCGAG-CTCAATATAT
104328110 GCTTTTGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (31 bp):
ATATAGCACTAAGTGTGCGAGCTCAATATAT
Found at i:104332090 original size:2 final size:2
Alignment explanation
Indices: 104332078--104332118 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
104332068 AGTATAGTTG
104332078 AT AT AT GAT 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 AT AT
104332119 GTATGCATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:104332712 original size:29 final size:29
Alignment explanation
Indices: 104332680--104332755 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
104332670 GTGAGAGAGA
* *
104332680 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
104332709 ATGGCACTAAGTGTGCCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTG-CGAGTTGAAAGTAC
104332739 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
104332756 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 22 0.52
30 20 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:104332744 original size:30 final size:30
Alignment explanation
Indices: 104332680--104332754 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
104332670 GTGAGAGAGA
* *
104332680 ATGGCACTAAGTGTG-CGGGCTTGAAATGC
1 ATGGCACTAAGTGTGCCGAGCTTGAAATAC
*
104332709 ATGGCACTAAGTGTGCCGAG-TTTAAAGTAC
1 ATGGCACTAAGTGTGCCGAGCTTGAAA-TAC
104332739 ATGGCACTAAGTGTGC
1 ATGGCACTAAGTGTGC
104332755 GTGGTTGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
29 20 0.49
30 21 0.51
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (30 bp):
ATGGCACTAAGTGTGCCGAGCTTGAAATAC
Found at i:104358483 original size:20 final size:20
Alignment explanation
Indices: 104358458--104358495 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
104358448 GTTTATTCGC
*
104358458 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
104358478 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
104358496 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:104360154 original size:28 final size:28
Alignment explanation
Indices: 104360122--104360190 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
104360112 GCGTAGATCA
104360122 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
104360150 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
104360178 CGATA-TACCCCTA
1 CGAAATTACCCCTA
104360191 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:104366446 original size:20 final size:20
Alignment explanation
Indices: 104366421--104366458 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
104366411 GTTTATTCGC
*
104366421 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
104366441 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
104366459 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:104368116 original size:28 final size:28
Alignment explanation
Indices: 104368084--104368152 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
104368074 GCGTAGATCA
104368084 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
104368112 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
104368140 CGATA-TACCCCTA
1 CGAAATTACCCCTA
104368153 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:104375952 original size:28 final size:28
Alignment explanation
Indices: 104375883--104375983 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
104375873 GACAAGATTG
* * * *
104375883 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
104375913 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
104375941 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
104375970 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104375984 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:104383898 original size:28 final size:28
Alignment explanation
Indices: 104383829--104383929 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
104383819 GACAAGATTG
* * * *
104383829 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
104383859 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
104383887 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
104383916 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
104383930 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:104389842 original size:43 final size:43
Alignment explanation
Indices: 104389786--104390070 Score: 401
Period size: 43 Copynumber: 6.6 Consensus size: 43
104389776 CATATCGTAA
* * * *
104389786 ATGCCAACATCCCAGACGAGATCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
104389829 ATGCCAACGTCCCAGACGTGGTCTTATACATAATCACGTATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
104389872 ATGCCAACGTCCCAGACGTGGTCTTAGACGTAATCACATATC-
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* ** *
104389914 AGTGCCAATGTCCCAGACGTGGTCTTACAAATAATCACATATTG
1 A-TGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
104389958 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATTACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
104390001 ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCACATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
104390044 ATGCTAATGTCCCAGACGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
104390071 TCGCACACAT
Statistics
Matches: 214, Mismatches: 26, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
42 1 0.00
43 212 0.99
44 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:104400970 original size:49 final size:50
Alignment explanation
Indices: 104400896--104401091 Score: 207
Period size: 50 Copynumber: 3.9 Consensus size: 50
104400886 TAGCCGAAGC
* *
104400896 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* * * *
104400944 TAGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAC
1 TA-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
* ** * * * *
104400995 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACA-A
* * * *
104401046 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
104401092 TCACAATAGA
Statistics
Matches: 123, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
48 2 0.02
49 38 0.31
50 44 0.36
51 39 0.32
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCACAA
Found at i:104401082 original size:101 final size:99
Alignment explanation
Indices: 104400909--104401095 Score: 266
Period size: 101 Copynumber: 1.9 Consensus size: 99
104400899 CTGGTACGCA
* * *
104400909 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATAGTCGGGTACACATAGTAGCCTGCACTTA
*
104400974 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * ** *
104401008 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATAGTCGGGTACACATAGTAGCCTGCACT
*
104401073 TAGTACTACACATGCGACCTCAC
64 TAGTACTACACACGCGACCTCAC
104401096 AATAGATCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
99 29 0.38
100 1 0.01
101 46 0.61
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:104403236 original size:14 final size:15
Alignment explanation
Indices: 104403217--104403280 Score: 64
Period size: 14 Copynumber: 4.4 Consensus size: 15
104403207 TAAAGATAAC
*
104403217 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
104403231 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
104403246 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
104403261 AA-AAATCCAGAATA
1 AAGAAATCCAGAATA
104403275 AAGAAA
1 AAGAAA
104403281 CCCAAGATAC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 24 0.57
15 15 0.36
16 3 0.07
ACGTcount: A:0.64, C:0.14, G:0.12, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:104403263 original size:13 final size:14
Alignment explanation
Indices: 104403247--104403284 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
104403237 TCCAAGATAG
104403247 AAAAACCCAGAATA
1 AAAAACCCAGAATA
*
104403261 AAAAATCCAGAATA
1 AAAAACCCAGAATA
104403275 AAGAAACCCA
1 AA-AAACCCA
104403285 AGATACGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.63, C:0.21, G:0.08, T:0.08
Consensus pattern (14 bp):
AAAAACCCAGAATA
Found at i:104403281 original size:29 final size:31
Alignment explanation
Indices: 104403217--104403284 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 31
104403207 TAAAGATAAC
*
104403217 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
104403247 AA-AAACCCAGAATAAA-AAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
104403275 AAGAAACCCA
1 AAGAAACCCA
104403285 AGATACGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 4 0.12
29 21 0.62
30 9 0.26
ACGTcount: A:0.62, C:0.18, G:0.12, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:104406334 original size:49 final size:48
Alignment explanation
Indices: 104406259--104406450 Score: 172
Period size: 49 Copynumber: 3.9 Consensus size: 48
104406249 GCCGAAGCTA
*
104406259 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAG
* * * * * *
104406308 TCTGGTACACGTAGTAGCCTGAACTTAATACTACACAGGTGACCTC-G
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG
** * * * *
104406355 CCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG
* **
104406406 TTTTGGGTATGCATA-TAGCCTGCACTTAGTACTACACATGCGACC
1 -TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
104406451 TCACAATAGA
Statistics
Matches: 114, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 67 0.59
50 44 0.39
51 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG
Found at i:104406441 original size:99 final size:99
Alignment explanation
Indices: 104406270--104406452 Score: 235
Period size: 99 Copynumber: 1.8 Consensus size: 99
104406260 CTGGTACGCA
* *
104406270 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGAACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTGGTACACATAGTAGCCTGAACTTA
*
104406335 ATACTACACAGGTGACCTCGCCATCTAATACACG
66 ATACTACACAGGCGACCTCGCCATCTAATACACG
* * * ** *
104406369 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTGGGTATGCATA-TAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG-TCT-GGTACACATAGTAGCCTGAACT
* *
104406432 TAGTACTACACATGCGACCTC
64 TAATACTACACAGGCGACCTC
104406453 ACAATAGATC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
98 4 0.06
99 60 0.85
100 7 0.10
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTGGTACACATAGTAGCCTGAACTTA
ATACTACACAGGCGACCTCGCCATCTAATACACG
Found at i:104409678 original size:49 final size:49
Alignment explanation
Indices: 104409436--104409701 Score: 162
Period size: 49 Copynumber: 5.6 Consensus size: 49
104409426 GGTGTGAGCT
* * * * *
104409436 AGTGTATGA-CATGTCCGGGACAT-GCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATGATGATAGCC
* * ** ** * * *
104409482 AGTGTAAGACCATGTTTGGGACATGGAATCGGGATTGA-GATAATTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATGATGATAGCC
* * * *
104409530 AGAGTAAGA-CATGTATGGGACAT-GCATCGG-CTACGA-GATG-T-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CAATGATGATAGCC
* * * * *
104409574 AGTGTAAAACCATGTCTGGGACATGGCATCAGCAC-GAAT-ATGCGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCAATGAT--GATAGCC
*
104409624 A-TGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATGATGATAGCC
* **
104409672 AGTGTAAGACCATATCCAGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
104409702 AGCAACTTGC
Statistics
Matches: 166, Mismatches: 38, Indels: 29
0.71 0.16 0.12
Matches are distributed among these distances:
44 8 0.05
45 15 0.09
46 28 0.17
47 25 0.15
48 28 0.17
49 58 0.35
50 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATGATGATAGCC
Found at i:104414632 original size:28 final size:28
Alignment explanation
Indices: 104414571--104414668 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
104414561 TCACAAATTG
** * *
104414571 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
104414600 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
104414628 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
104414656 GCACTAAGTGTGC
1 GCACTAAGTGTGC
104414669 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:104422225 original size:28 final size:28
Alignment explanation
Indices: 104422164--104422261 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
104422154 TCACAAATTG
** * *
104422164 GCACTAAGTGTGCTGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
104422193 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
104422221 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
104422249 GCACTAAGTGTGC
1 GCACTAAGTGTGC
104422262 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:104436473 original size:29 final size:31
Alignment explanation
Indices: 104436434--104436491 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
104436424 TTTTTGAGCA
* *
104436434 TAGGGGTAAAAA-GGTTATTTTTCCAAAGTC
1 TAGGGGTAAAAATGGTCATTTTACCAAAGTC
104436464 TAGGGG-AAAAATGGTCATTTTACCAAAG
1 TAGGGGTAAAAATGGTCATTTTACCAAAG
104436492 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (31 bp):
TAGGGGTAAAAATGGTCATTTTACCAAAGTC
Found at i:104437087 original size:99 final size:94
Alignment explanation
Indices: 104436844--104437099 Score: 263
Period size: 94 Copynumber: 2.7 Consensus size: 94
104436834 ATAGTGTATA
* * *
104436844 ACATGTCTGGGACATGCATAGGC--CGCATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATG
1 ACATGTCTGGGACATGCATCGGCTACG-A-GATGATAGCCAGTGTAAGACCATGTCTGGGACATG
* ** **
104436907 GCATCGATATTAAGACGAGTTCTAGAGTAAG
64 GCATCGACAAAAAGACGAGAGCTAGAGTAAG
* *
104436938 ACATGTCTGGGACATGCATCGGCTACGAGATG-T-GTCAGTGTAAGACCATGTTTGGGACATGGC
1 ACATGTCTGGGACATGCATCGGCTACGAGATGATAGCCAGTGTAAGACCATGTCTGGGACATGGC
* *
104437001 ATCGACACAAATATACGAGAGCTAGTGTAAG
66 ATCGACA-AAA-AGACGAGAGCTAGAGTAAG
* *
104437032 ACCATGTTTGTGG-CATAGCATCGGCCT-CGATGATGATAGCCAGTGTAAGACCATGTCCGGGAC
1 A-CATGTCTG-GGACAT-GCATCGG-CTACGA-GATGATAGCCAGTGTAAGACCATGTCTGGGAC
104437095 ATGGC
61 ATGGC
104437100 TTCAGCAACT
Statistics
Matches: 135, Mismatches: 16, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
92 34 0.25
93 1 0.01
94 41 0.30
95 11 0.08
96 14 0.10
97 6 0.04
98 1 0.01
99 27 0.20
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
ACATGTCTGGGACATGCATCGGCTACGAGATGATAGCCAGTGTAAGACCATGTCTGGGACATGGC
ATCGACAAAAAGACGAGAGCTAGAGTAAG
Found at i:104438398 original size:46 final size:46
Alignment explanation
Indices: 104438338--104438557 Score: 278
Period size: 46 Copynumber: 5.0 Consensus size: 46
104438328 TTTGACATGA
* * * * * *
104438338 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
104438384 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104438430 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104438476 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104438514 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
104438558 AGAGCACACT
Statistics
Matches: 154, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
38 34 0.22
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 4 0.03
46 108 0.70
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:104438521 original size:38 final size:38
Alignment explanation
Indices: 104438470--104438545 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
104438460 ACATTTCATA
104438470 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
104438508 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
104438546 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:104440652 original size:11 final size:11
Alignment explanation
Indices: 104440636--104440687 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
104440626 TATACTAAAT
104440636 AAATAATAATA
1 AAATAATAATA
*
104440647 AAATAAT-ATT
1 AAATAATAATA
* *
104440657 AAATATCTCATA
1 AAATA-ATAATA
*
104440669 AAATATTAATA
1 AAATAATAATA
104440680 AAATAATA
1 AAATAATA
104440688 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:104442843 original size:46 final size:46
Alignment explanation
Indices: 104442773--104442991 Score: 269
Period size: 46 Copynumber: 5.0 Consensus size: 46
104442763 GTTGACATGA
* * * * * *
104442773 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
104442819 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104442865 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104442911 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
104442949 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
104442992 AGAGCACACT
Statistics
Matches: 154, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 34 0.22
40 3 0.02
41 1 0.01
42 1 0.01
44 3 0.02
45 8 0.05
46 104 0.68
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:104442956 original size:38 final size:38
Alignment explanation
Indices: 104442905--104442980 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
104442895 ACATTTCATA
104442905 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
104442943 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
104442981 ATTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:104445135 original size:11 final size:11
Alignment explanation
Indices: 104445119--104445170 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
104445109 TATACTAAAT
104445119 AAATAATAATA
1 AAATAATAATA
*
104445130 AAATAAT-ATT
1 AAATAATAATA
* *
104445140 AAATATCTCATA
1 AAATA-ATAATA
*
104445152 AAATATTAATA
1 AAATAATAATA
104445163 AAATAATA
1 AAATAATA
104445171 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:104453539 original size:20 final size:20
Alignment explanation
Indices: 104453514--104453557 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
104453504 ATAAAGTGCA
104453514 AAAGTTGAATTCTAATAGCT
1 AAAGTTGAATTCTAATAGCT
104453534 AAAGTTGAATTCTAATAGCT
1 AAAGTTGAATTCTAATAGCT
104453554 AAAG
1 AAAG
104453558 GTATTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (20 bp):
AAAGTTGAATTCTAATAGCT
Found at i:104456095 original size:19 final size:18
Alignment explanation
Indices: 104456056--104456098 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
104456046 CTTTATTATG
104456056 TTTTTGTATTTCAGCATA
1 TTTTTGTATTTCAGCATA
*
104456074 TTTTATGTATTTTAGC-TGA
1 TTTT-TGTATTTCAGCAT-A
104456093 TTTTTG
1 TTTTTG
104456099 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTTCAGCATA
Found at i:104470982 original size:13 final size:12
Alignment explanation
Indices: 104470960--104471005 Score: 65
Period size: 13 Copynumber: 3.7 Consensus size: 12
104470950 AAGAATCTTA
104470960 TTTTTATTTTAT
1 TTTTTATTTTAT
104470972 TTTTTACTTTTAT
1 TTTTTA-TTTTAT
104470985 TTTTTATTTTGAT
1 TTTTTATTTT-AT
*
104470998 TTTATATT
1 TTTTTATT
104471006 AATTTAGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
12 10 0.32
13 21 0.68
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:104472378 original size:30 final size:31
Alignment explanation
Indices: 104472304--104472382 Score: 108
Period size: 30 Copynumber: 2.6 Consensus size: 31
104472294 TCAATCTCAA
*
104472304 CATAT-ACTGGGCCGAAGCCTTTGCGTTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* *
104472334 CATGTCACTGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
*
104472364 CATATCATTGGGCCGAAGC
1 CATATCACTGGGCCGAAGC
104472383 ATTTACTGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 22 0.51
31 21 0.49
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:104472653 original size:24 final size:23
Alignment explanation
Indices: 104472595--104472653 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 23
104472585 TTGGAGGCCT
*
104472595 AGCCTCTTTTAATAACTGGGGCAA
1 AGCC-CTTTTGATAACTGGGGCAA
104472619 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGAT-AACTGGGGCAA
104472644 AGCCCTTTTG
1 AGCCCTTTTG
104472654 CACTTCCTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 1 0.03
24 15 0.47
25 16 0.50
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (23 bp):
AGCCCTTTTGATAACTGGGGCAA
Found at i:104472716 original size:11 final size:11
Alignment explanation
Indices: 104472700--104472748 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
104472690 TATATGAATC
104472700 TATCATGTGCA
1 TATCATGTGCA
*
104472711 TATCA--TACA
1 TATCATGTGCA
*
104472720 TATCATGTGCC
1 TATCATGTGCA
104472731 TATCATGT-CA
1 TATCATGTGCA
*
104472741 AATCATGT
1 TATCATGT
104472749 ATATCAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
9 8 0.26
10 8 0.26
11 15 0.48
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:104475272 original size:40 final size:40
Alignment explanation
Indices: 104475177--104475392 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
104475167 CGGATGATAA
* *
104475177 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
104475216 -TGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
104475255 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
104475295 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
104475336 -CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
104475375 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
104475393 TACTTGGTTG
Statistics
Matches: 165, Mismatches: 7, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
38 33 0.20
39 20 0.12
40 110 0.67
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:104483258 original size:40 final size:40
Alignment explanation
Indices: 104483203--104483379 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
104483193 GGATGATAAT
*
104483203 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TC
*
104483243 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATC
*
104483283 CGGGCTAAGTCCCGAAGGCATTTTTGCTAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATC
*
104483323 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATAT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATC
* *
104483362 CTGGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
104483380 TACTTGGTTG
Statistics
Matches: 127, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 18 0.14
40 108 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATC
Found at i:104488445 original size:30 final size:31
Alignment explanation
Indices: 104488371--104488447 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
104488361 TCAATCTCAA
104488371 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* *
104488401 CATGTCACTGGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
*
104488431 CATATCATTGGGCCGAA
1 CATATCACTGGGCCGAA
104488448 AGCTTTACTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 20 0.48
31 22 0.52
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:104488699 original size:24 final size:24
Alignment explanation
Indices: 104488661--104488718 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
104488651 CTGGAGGCCT
104488661 AGCCTCTTTTAAT-AACTAGGGCAA
1 AGCC-CTTTTAATAAACTAGGGCAA
*
104488685 AGCCCTTTTAGATAAACTGGGGCAA
1 AGCCCTTTTA-ATAAACTAGGGCAA
104488710 AGCCCTTTT
1 AGCCCTTTT
104488719 GCACTTCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
23 6 0.19
24 6 0.19
25 19 0.61
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTAGGGCAA
Found at i:104488798 original size:11 final size:11
Alignment explanation
Indices: 104488766--104488814 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
104488756 TATATGAATT
104488766 TATCATGTGCA
1 TATCATGTGCA
* *
104488777 TATC--CTACA
1 TATCATGTGCA
104488786 TATCATGTGCA
1 TATCATGTGCA
104488797 TATCATGT-CA
1 TATCATGTGCA
*
104488807 AATCATGT
1 TATCATGT
104488815 ATATCAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
9 7 0.23
10 9 0.29
11 15 0.48
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:104488879 original size:25 final size:25
Alignment explanation
Indices: 104488851--104488898 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
104488841 ATAATTAAAC
* **
104488851 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
104488876 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
104488899 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:104491171 original size:12 final size:12
Alignment explanation
Indices: 104491156--104491180 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104491146 ACAACAAATA
104491156 ATAAAAATTTTC
1 ATAAAAATTTTC
104491168 ATAAAAATTTTC
1 ATAAAAATTTTC
104491180 A
1 A
104491181 AACATACATA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:104493700 original size:39 final size:39
Alignment explanation
Indices: 104493646--104493880 Score: 380
Period size: 39 Copynumber: 6.0 Consensus size: 39
104493636 GATGTGTATG
104493646 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
104493685 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
104493724 AAGGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
104493763 AAGGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
104493802 ATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
104493841 ATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
104493881 TTTGTGCGGG
Statistics
Matches: 187, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 177 0.95
40 10 0.05
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:104493904 original size:40 final size:39
Alignment explanation
Indices: 104493648--104493919 Score: 283
Period size: 39 Copynumber: 6.9 Consensus size: 39
104493638 TGTGTATGAA
* * * *
104493648 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATAACCGGGCTAAGCCCGAAGGCAAT
* * * *
104493687 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATAACCGGGCTAAGCCCGAAGGCAAT
* * * * *
104493726 GGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TGTGCGAGTTATGATAACCGGGCTAAGCCCGAAGGCAAT
* * * *
104493765 GGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATAACCGGGCTAAGCCCGAAGGCAAT
*
104493804 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATAACCGGGCTAAGCCCGAAGGCAAT
* * * *
104493843 TGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATAACCGGGCTAAG-CCCGAAGGCAAT
* ** * *
104493883 TGTGCGGGTTACCACAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATAACCGGGCTAAG-CCCGAAGGC
104493920 GTTTGAACGA
Statistics
Matches: 215, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
39 175 0.81
40 40 0.19
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (39 bp):
TGTGCGAGTTATGATAACCGGGCTAAGCCCGAAGGCAAT
Found at i:104500958 original size:29 final size:29
Alignment explanation
Indices: 104500926--104500998 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
104500916 CTTCGAGCTC
* *
104500926 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
104500955 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
104500984 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
104500999 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:104508841 original size:29 final size:29
Alignment explanation
Indices: 104508809--104508881 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
104508799 CTTCGAGCTC
*
104508809 GCACACCCAGTG-CAGTATTTTTCCAGCAT
1 GCACACCCAGTGCCA-TATATTTCCAGCAT
**
104508838 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
104508867 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
104508882 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 38 0.95
30 2 0.05
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:104510093 original size:24 final size:24
Alignment explanation
Indices: 104510052--104510107 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
104510042 TTTTTTTCCT
104510052 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* *
104510077 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
104510100 TATTCTTT
1 T-TTCTTT
104510108 CTACATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:104511959 original size:31 final size:31
Alignment explanation
Indices: 104511900--104511961 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
104511890 GAGTTTGATC
*
104511900 ATATAGCACTAAGTGTGCGAGCTGAATATAT
1 ATATAGCACTAAGTGTGCGAGCTCAATATAT
104511931 ATATAGCACTAAGTGTGCG-GACTCAATATAT
1 ATATAGCACTAAGTGTGCGAG-CTCAATATAT
104511962 GCTTTTGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (31 bp):
ATATAGCACTAAGTGTGCGAGCTCAATATAT
Found at i:104519968 original size:46 final size:46
Alignment explanation
Indices: 104519824--104520037 Score: 188
Period size: 46 Copynumber: 4.6 Consensus size: 46
104519814 TTTGTGTGCT
* * * * *
104519824 AGTGTAAGACACGTCTGGGACTTGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * * *
104519870 AGTGTAAGACCGTGTCTT-GGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGT-TTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
104519918 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * *
104519964 AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGAT--GTGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGATGAGAGCC
*
104520008 AGTGTAAAACAATGTTTGGGACATGGCATC
1 AGTGTAAGAC-ATGTTTGGGACAT-GCATC
104520038 AGTACGTATA
Statistics
Matches: 138, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 67 0.49
47 19 0.14
48 25 0.18
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:104520076 original size:48 final size:46
Alignment explanation
Indices: 104519867--104520088 Score: 134
Period size: 46 Copynumber: 4.8 Consensus size: 46
104519857 CATTATGAGA
* * * * *
104519867 GCCAGTGTAAGACCGTGTCTTGGACATGGCATCGGC-ATTGAGACGAGA
1 GCCAATGTAAGACCATGTCTGGGACATGGCATCGACTA-TGAGA-G-GT
* * * * * *
104519915 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCT-CGAGATGT
1 GCCAATGTAAGACCATGTCTGGGACATGGCATC-GACTATGAGAGGT
* * *
104519959 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGT
1 --GCCAATGTAAGACCATGTCTGGGACATGGCATCGACTATGAGAGGT
* * * *
104520005 GCCAGTGTAAAACAATGTTTGGGACATGGCATCAGTACGTAT-AGAGGT
1 GCCAATGTAAGACCATGTCTGGGACATGGCATC-G-AC-TATGAGAGGT
* *
104520053 GTCAATGTAAGACCATGTCTGGGACATGGAATCGAC
1 GCCAATGTAAGACCATGTCTGGGACATGGCATCGAC
104520089 ATAGATATGT
Statistics
Matches: 141, Mismatches: 23, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 52 0.37
47 15 0.11
48 44 0.31
49 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GCCAATGTAAGACCATGTCTGGGACATGGCATCGACTATGAGAGGT
Found at i:104526009 original size:40 final size:40
Alignment explanation
Indices: 104525978--104526089 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
104525968 TAGTACCAAT
*
104525978 ACTAAACCTGCGGGATTTAACCCGGATATATATTACCAGC
1 ACTAAGCCTGCGGGATTTAACCCGGATATATATTACCAGC
* * *
104526018 ACGAAGCCTGCGAGATTTAACCCTGATATATATTACCAGC
1 ACTAAGCCTGCGGGATTTAACCCGGATATATATTACCAGC
*
104526058 A-TGAAGCCTGCGGGATTTAACGCGGATATATA
1 ACT-AAGCCTGCGGGATTTAACCCGGATATATA
104526090 ATATATCAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTAAGCCTGCGGGATTTAACCCGGATATATATTACCAGC
Found at i:104526907 original size:2 final size:2
Alignment explanation
Indices: 104526900--104526929 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
104526890 AAGCCGAATG
104526900 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
104526930 TACATATATA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:104539023 original size:40 final size:39
Alignment explanation
Indices: 104538873--104539025 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
104538863 GAATGTTCGA
* *
104538873 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
104538912 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTACGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
104538951 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* * * **
104538990 GTGATACCCAGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
104539026 GGTTACCATA
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 86 0.84
40 16 0.16
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:104542771 original size:29 final size:29
Alignment explanation
Indices: 104542739--104542812 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
104542729 CTTCGAGCTC
*
104542739 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
104542768 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
104542797 GCACACTTAGTGCCAT
1 GCACACCCAGTGCCAT
104542813 CTCGTCACCG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:104549895 original size:2 final size:2
Alignment explanation
Indices: 104549888--104549914 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
104549878 TCGATCGGAG
104549888 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 A
104549915 GAGTACGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:104550039 original size:29 final size:29
Alignment explanation
Indices: 104550007--104550080 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
104549997 CTTCGAGCTC
*
104550007 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
104550036 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
104550065 GCACACTTAGTGCCAT
1 GCACACCCAGTGCCAT
104550081 CTCGTCACCG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:104551897 original size:16 final size:15
Alignment explanation
Indices: 104551871--104551900 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
104551861 ACTAGATCGG
104551871 CGAAAGCCGAAAAGC
1 CGAAAGCCGAAAAGC
104551886 CGAAATGCCGAAAAG
1 CGAAA-GCCGAAAAG
104551901 TTGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.23, G:0.27, T:0.03
Consensus pattern (15 bp):
CGAAAGCCGAAAAGC
Found at i:104552350 original size:27 final size:27
Alignment explanation
Indices: 104552310--104552386 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
104552300 TTTTGGAGGA
*
104552310 GCCACAATTATCTGATCTGGTGGCTGT
1 GCCACAATTATCTGATCTGGTGGCTCT
*
104552337 GCCACATATT-TCTGCTCTGGTGGCTCT
1 GCCACA-ATTATCTGATCTGGTGGCTCT
*
104552364 GCCACAATTATCTGTTTCTGGTG
1 GCCACAATTATCTG-ATCTGGTG
104552387 ACTCGATCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
26 3 0.07
27 31 0.70
28 10 0.23
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (27 bp):
GCCACAATTATCTGATCTGGTGGCTCT
Found at i:104553135 original size:13 final size:13
Alignment explanation
Indices: 104553117--104553145 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
104553107 GATCCGAAAG
104553117 AGCTTGGTACTTA
1 AGCTTGGTACTTA
104553130 AGCTTGGTACTTA
1 AGCTTGGTACTTA
104553143 AGC
1 AGC
104553146 CAATCCGCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (13 bp):
AGCTTGGTACTTA
Found at i:104554796 original size:45 final size:45
Alignment explanation
Indices: 104554641--104554809 Score: 193
Period size: 45 Copynumber: 3.7 Consensus size: 45
104554631 GAGATCCGAA
* * *
104554641 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAG
* * *
104554687 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CC-AG
104554734 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAG
104554779 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104554810 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 9, Indels: 21
0.78 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 36 0.35
46 26 0.25
47 24 0.23
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAG
Found at i:104562120 original size:46 final size:46
Alignment explanation
Indices: 104562070--104562245 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
104562060 TGGTTGAGCA
*
104562070 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
104562116 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * * *
104562161 CATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
104562209 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
104562246 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.58
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:104562235 original size:93 final size:93
Alignment explanation
Indices: 104562067--104562237 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
104562057 GGATGGTTGA
* * *
104562067 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCATTGAGT
104562132 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
104562160 GCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCATTGAGT
104562225 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
104562238 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:104563762 original size:38 final size:38
Alignment explanation
Indices: 104563706--104563824 Score: 184
Period size: 38 Copynumber: 3.1 Consensus size: 38
104563696 CACTCGATAC
* *
104563706 ATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTAGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
104563744 ATATCCGTGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
104563782 ATATCCGGGTTAAATCCTGCAGGCTTAGTGCTGGTACT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
104563820 ATATC
1 ATATC
104563825 TGAGCTTAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 74 1.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:104563853 original size:40 final size:38
Alignment explanation
Indices: 104563706--104563846 Score: 149
Period size: 38 Copynumber: 3.7 Consensus size: 38
104563696 CACTCGATAC
* * * * *
104563706 ATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTAGTAAT
1 ATATCCGGCTTAAATCCTGCAGGCTTAGTGCTGGTAAT
* *
104563744 ATATCCGTG-TTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCG-GCTTAAATCCTGCAGGCTTAGTGCTGGTAAT
* *
104563782 ATATCCGGGTTAAATCCTGCAGGCTTAGTGCTGGTACT
1 ATATCCGGCTTAAATCCTGCAGGCTTAGTGCTGGTAAT
* *
104563820 ATATCTGAGCTTAAAGTCCTGTAGGCT
1 ATATCCG-GCTTAAA-TCCTGCAGGCT
104563847 CTGTGCTAGT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
37 1 0.01
38 73 0.80
39 7 0.08
40 10 0.11
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
ATATCCGGCTTAAATCCTGCAGGCTTAGTGCTGGTAAT
Found at i:104568104 original size:18 final size:17
Alignment explanation
Indices: 104568063--104568112 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
104568053 TTCTCCCTAT
104568063 CTTGACTAGTGTCATGC
1 CTTGACTAGTGTCATGC
* *
104568080 ATGTGACTAGTGTCGTGGC
1 CT-TGACTAGTGTCAT-GC
*
104568099 CTTGACTCGTGTCA
1 CTTGACTAGTGTCA
104568113 GATACGAGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 1 0.04
18 22 0.85
19 3 0.12
ACGTcount: A:0.16, C:0.22, G:0.28, T:0.34
Consensus pattern (17 bp):
CTTGACTAGTGTCATGC
Found at i:104570598 original size:20 final size:20
Alignment explanation
Indices: 104570573--104570644 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
104570563 ATTCATTTCT
*
104570573 ATTCATATAAACTGTAATTC
1 ATTCATATAAACTGTAGTTC
104570593 ATTCATAT-AACTAGTAGTTC
1 ATTCATATAAACT-GTAGTTC
* * *
104570613 ATCCGTATAAACAGTAGTTC
1 ATTCATATAAACTGTAGTTC
104570633 A-TCTATATAAAC
1 ATTC-ATATAAAC
104570645 ACATATCTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.12
20 35 0.81
21 3 0.07
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (20 bp):
ATTCATATAAACTGTAGTTC
Found at i:104570844 original size:23 final size:23
Alignment explanation
Indices: 104570813--104570925 Score: 133
Period size: 23 Copynumber: 4.9 Consensus size: 23
104570803 AGAGTTGATG
* *
104570813 AACAATAAGCTCTATTGAGCTGA
1 AACAGTAAGCTCTATCGAGCTGA
*
104570836 AACGGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTATCGAGCTGA
104570858 AACAGTAAGCTC-ATACGAGCTGA
1 AACAGTAAGCTCTAT-CGAGCTGA
**
104570881 AATGGTAAGCTCTATCGAGCTGAA
1 AACAGTAAGCTCTATCGAGCTG-A
104570905 AACAGTAAGCTCTTAT-GAGCT
1 AACAGTAAGCTC-TATCGAGCT
104570926 AATATATATC
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
21 2 0.03
22 18 0.23
23 36 0.47
24 18 0.23
25 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:104570867 original size:45 final size:46
Alignment explanation
Indices: 104570811--104570925 Score: 164
Period size: 45 Copynumber: 2.5 Consensus size: 46
104570801 CTAGAGTTGA
*
104570811 TGAACAATAAGCTCTAT-TGAGCTGAAACGGTAAGCTCTATCGAGC
1 TGAACAGTAAGCTCTATATGAGCTGAAACGGTAAGCTCTATCGAGC
* *
104570856 TGAACAGTAAGCTC-ATACGAGCTGAAATGGTAAGCTCTATCGAGC
1 TGAACAGTAAGCTCTATATGAGCTGAAACGGTAAGCTCTATCGAGC
104570901 TGAAAACAGTAAGCTCT-TATGAGCT
1 TG--AACAGTAAGCTCTATATGAGCT
104570926 AATATATATC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 2 0.03
45 41 0.66
47 19 0.31
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (46 bp):
TGAACAGTAAGCTCTATATGAGCTGAAACGGTAAGCTCTATCGAGC
Found at i:104572806 original size:2 final size:2
Alignment explanation
Indices: 104572799--104572830 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
104572789 GGCTTTGCAC
104572799 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
104572831 CTGTTTGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104584619 original size:28 final size:28
Alignment explanation
Indices: 104584573--104584641 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
104584563 TTTAAAACCC
*
104584573 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
104584600 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
104584628 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
104584642 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:104585292 original size:27 final size:27
Alignment explanation
Indices: 104585262--104585323 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
104585252 GGGCAAAATG
104585262 GTAATTTTACCCCACAAGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTTA
* *
104585289 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTTA
104585316 GTAATTTT
1 GTAATTTT
104585324 TCAAACCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTTA
Found at i:104585338 original size:54 final size:54
Alignment explanation
Indices: 104585279--104585429 Score: 178
Period size: 54 Copynumber: 2.8 Consensus size: 54
104585269 TACCCCACAA
* ** * * *
104585279 GGGTATTTTAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTTGGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* *
104585333 TGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* * * *
104585387 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATT
104585430 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 82 0.98
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:104585395 original size:81 final size:81
Alignment explanation
Indices: 104585277--104585429 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
104585267 TTTACCCCAC
** **
104585277 AAGGGTATTTTAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATTGGTATTT
1 AAGGGTATTTTAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
104585341 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* *
104585358 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTTAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
104585422 TGGTAATT
65 TGGTAATT
104585430 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (81 bp):
AAGGGTATTTTAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:104585436 original size:27 final size:27
Alignment explanation
Indices: 104585306--104585429 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
104585296 TACCCTACAG
* *
104585306 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
* *
104585333 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
104585360 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
104585387 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
104585414 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
104585430 CTGTAAATTG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:104585443 original size:27 final size:27
Alignment explanation
Indices: 104585413--104585483 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
104585403 TTATAAACCA
* *
104585413 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
104585440 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
104585467 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
104585484 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:104585445 original size:54 final size:54
Alignment explanation
Indices: 104585306--104585429 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
104585296 TACCCTACAG
* **
104585306 GGGTATTTTAGTAATTTTTCAAACCATTGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
104585360 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
104585414 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
104585430 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:104589427 original size:23 final size:24
Alignment explanation
Indices: 104589324--104589442 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
104589314 GCTTTATCAT
*
104589324 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
104589349 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
104589373 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
104589397 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
104589420 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
104589443 GCACTTCCTC
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 22 0.26
24 51 0.60
25 12 0.14
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:104589514 original size:9 final size:9
Alignment explanation
Indices: 104589500--104589556 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
104589490 ATCTCATGTG
104589500 CATATCATA
1 CATATCATA
*
104589509 CATATCATGTG
1 CATATCA--TA
104589520 CATATCATA
1 CATATCATA
* *
104589529 CATGTCATGTG
1 CATATCA--TA
104589540 CATATCATA
1 CATATCATA
104589549 CATATCAT
1 CATATCAT
104589557 GTTTATTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:104589516 original size:20 final size:20
Alignment explanation
Indices: 104589488--104589558 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
104589478 GCATTTATGA
*
104589488 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
104589508 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
104589528 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
104589548 ACATATCATGT
1 ACATATCATGT
104589559 TTATTAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:104589523 original size:11 final size:11
Alignment explanation
Indices: 104589493--104589547 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
104589483 TATGAACATC
104589493 TCATGTGCATA
1 TCATGTGCATA
*
104589504 TCA--TACATA
1 TCATGTGCATA
104589513 TCATGTGCATA
1 TCATGTGCATA
* *
104589524 TCA--TACATG
1 TCATGTGCATA
104589533 TCATGTGCATA
1 TCATGTGCATA
104589544 TCAT
1 TCAT
104589548 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:104599959 original size:26 final size:25
Alignment explanation
Indices: 104599930--104600008 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
104599920 TACACTATCG
* *
104599930 ATTTACCCCTGGAGGGTAAAATGACT
1 ATTTACCCCTCGAGCGT-AAATGACT
* *
104599956 ATTTTGCCCCTCGTGCGTAAATGACT
1 A-TTTACCCCTCGAGCGTAAATGACT
* *
104599982 ATTTTGCCCCTCGTGCGTAAATGACT
1 A-TTTACCCCTCGAGCGTAAATGACT
104600008 A
1 A
104600009 ACTTGTGTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 36 0.75
27 12 0.25
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
ATTTACCCCTCGAGCGTAAATGACT
Found at i:104599966 original size:27 final size:26
Alignment explanation
Indices: 104599948--104600008 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
104599938 CTGGAGGGTA
*
104599948 AAATGACTATTTTGCCCCTCGTGCGT
1 AAATGACTATTTTGCCCCTCGAGCGT
*
104599974 AAATGACTATTTTGCCCCTCGTGCGT
1 AAATGACTATTTTGCCCCTCGAGCGT
104600000 AAATGACTA
1 AAATGACTA
104600009 ACTTGTGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (26 bp):
AAATGACTATTTTGCCCCTCGAGCGT
Found at i:104600650 original size:27 final size:26
Alignment explanation
Indices: 104600606--104600657 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
104600596 CTCGCTGCAA
*
104600606 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
104600633 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
104600658 CCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:104603185 original size:40 final size:40
Alignment explanation
Indices: 104603140--104603306 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
104603130 CGGAATATAA
*
104603140 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
104603180 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
104603220 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
104603260 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
104603299 CCGGATAT
1 CCGGATAT
104603307 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:104603290 original size:80 final size:79
Alignment explanation
Indices: 104603156--104603306 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
104603146 ATAACCATGT
*
104603156 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
104603221 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
104603236 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
104603299 CCGGATAT
64 CCGGATAT
104603307 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:104611165 original size:40 final size:40
Alignment explanation
Indices: 104611120--104611286 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
104611110 CGGAATATAA
*
104611120 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
104611160 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
104611200 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
104611240 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
104611279 CCGGATAT
1 CCGGATAT
104611287 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:104611270 original size:80 final size:79
Alignment explanation
Indices: 104611136--104611286 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
104611126 ATAACCATGT
*
104611136 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
104611201 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
104611216 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
104611279 CCGGATAT
64 CCGGATAT
104611287 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:104613408 original size:2 final size:2
Alignment explanation
Indices: 104613401--104613446 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
104613391 GCTTCGCCAC
104613401 AT AT AT 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 AT AT AT
104613443 AT AT
1 AT AT
104613447 CTGTTCTGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104613495 original size:27 final size:26
Alignment explanation
Indices: 104613443--104613502 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
104613433 ATATATATAT
*
104613443 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
104613469 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
104613496 ATATCTG
1 ATATCTG
104613503 GTAGCCTAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:104635763 original size:18 final size:19
Alignment explanation
Indices: 104635740--104635777 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
104635730 GTATCTCAAT
104635740 TTTTGAAAG-TGTTGATGA
1 TTTTGAAAGTTGTTGATGA
*
104635758 TTTTGAAAGTTGTTGTTGA
1 TTTTGAAAGTTGTTGATGA
104635777 T
1 T
104635778 GAATTCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (19 bp):
TTTTGAAAGTTGTTGATGA
Found at i:104638352 original size:33 final size:33
Alignment explanation
Indices: 104638315--104638383 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
104638305 AGGAAAAATA
104638315 AAATAAGGAGTATGGGTAATAAAATAATAATGC
1 AAATAAGGAGTATGGGTAATAAAATAATAATGC
104638348 AAATAAGGAGTATGGGTAATAAAATAATAATGC
1 AAATAAGGAGTATGGGTAATAAAATAATAATGC
104638381 AAA
1 AAA
104638384 GGGAGGAGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.23
Consensus pattern (33 bp):
AAATAAGGAGTATGGGTAATAAAATAATAATGC
Found at i:104639836 original size:40 final size:40
Alignment explanation
Indices: 104639726--104639863 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 40
104639716 CGAATGATAA
* * * *
104639726 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
104639766 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* **
104639806 CCGGGCTATGTCCCGAAGGCATTCAAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
104639846 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
104639864 TACTTGGCTT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 15 0.17
40 71 0.83
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:104659464 original size:23 final size:21
Alignment explanation
Indices: 104659433--104659475 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
104659423 GATTAAGGTA
104659433 TTGAATTAGTGTTATTTTGATAT
1 TTGAATTA--GTTATTTTGATAT
*
104659456 TTGAGTTAGTTATTTTGATA
1 TTGAATTAGTTATTTTGATA
104659476 GATGTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (21 bp):
TTGAATTAGTTATTTTGATAT
Done.