Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 81 of 190
Found at i:23428314 original size:43 final size:44
Alignment explanation
Indices: 23428262--23428350 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 44
23428252 GAAGATGAAA
*
23428262 CTGGAAATTG-TTGCATTTGTTT-TG-ATATTGTTCTTGATTTGTT
1 CTGGAAATTGTTTG-A-TTGTTTCTGTAAATTGTTCTTGATTTGTT
23428305 CTGGAAATTGTTTTGATTGTTTGCTGTAAATTGTTCTTGATTTGTT
1 CTGGAAATTG-TTTGATTGTTT-CTGTAAATTGTTCTTGATTTGTT
23428351 AGTCAGTAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
43 16 0.40
44 1 0.03
45 5 0.12
46 18 0.45
ACGTcount: A:0.17, C:0.07, G:0.21, T:0.55
Consensus pattern (44 bp):
CTGGAAATTGTTTGATTGTTTCTGTAAATTGTTCTTGATTTGTT
Found at i:23428335 original size:23 final size:23
Alignment explanation
Indices: 23428288--23428350 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
23428278 TTGTTTTGAT
23428288 ATTGTTCTTGATTTGTTCTGGAA
1 ATTGTTCTTGATTTGTTCTGGAA
*
23428311 ATTGTT-TTGA-TTGTTTGCTGTAA
1 ATTGTTCTTGATTTG-TT-CTGGAA
23428334 ATTGTTCTTGATTTGTT
1 ATTGTTCTTGATTTGTT
23428351 AGTCAGTAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
21 3 0.09
22 6 0.17
23 17 0.49
24 6 0.17
25 3 0.09
ACGTcount: A:0.16, C:0.06, G:0.21, T:0.57
Consensus pattern (23 bp):
ATTGTTCTTGATTTGTTCTGGAA
Found at i:23428678 original size:2 final size:2
Alignment explanation
Indices: 23428671--23428708 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
23428661 CAAAGAGCCA
* *
23428671 AT AT AT AT CT AT AT CT 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
23428709 GTCAAAACAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23429199 original size:31 final size:31
Alignment explanation
Indices: 23429161--23429224 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
23429151 CCATCATTCT
*
23429161 TTATTAAACCAAATCCTCATTTTTTATTTTA
1 TTATTAAACCAAATCCTCATTATTTATTTTA
23429192 TTATTAAACCAAATCCTCATTATTTATTTTA
1 TTATTAAACCAAATCCTCATTATTTATTTTA
23429223 TT
1 TT
23429225 TGTTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.52
Consensus pattern (31 bp):
TTATTAAACCAAATCCTCATTATTTATTTTA
Found at i:23429310 original size:37 final size:37
Alignment explanation
Indices: 23429267--23429355 Score: 169
Period size: 37 Copynumber: 2.4 Consensus size: 37
23429257 ATCATAAATA
23429267 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
23429304 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
23429341 AATAAACTAATCAAT
1 AATAAACTAATCAAT
23429356 ATATTTATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:23429447 original size:29 final size:29
Alignment explanation
Indices: 23429415--23429480 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 29
23429405 AACTTCAATT
23429415 TCATTATTAAACCAACAATTAATTTTAGG
1 TCATTATTAAACCAACAATTAATTTTAGG
* *
23429444 TCA-TACATATACCAACAATTAATTTTAGG
1 TCATTA-TTAAACCAACAATTAATTTTAGG
23429473 TCAATTAT
1 TC-ATTAT
23429481 ACATGCTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 2 0.06
29 26 0.84
30 1 0.03
31 2 0.06
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (29 bp):
TCATTATTAAACCAACAATTAATTTTAGG
Found at i:23432650 original size:91 final size:91
Alignment explanation
Indices: 23432503--23432710 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 91
23432493 TTGATTTTAG
* * *
23432503 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAGATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * * *
23432568 ATTTAATATTAGTTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
23432595 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
23432660 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
23432686 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
23432711 GTTATAATTA
Statistics
Matches: 107, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 91 0.85
92 16 0.15
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:23432679 original size:26 final size:28
Alignment explanation
Indices: 23432625--23432685 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
23432615 TATTATCAAG
* *
23432625 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
23432653 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
23432679 AATTATA
1 AATTATA
23432686 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:23432685 original size:44 final size:43
Alignment explanation
Indices: 23432543--23432685 Score: 103
Period size: 44 Copynumber: 3.2 Consensus size: 43
23432533 GAATTTTATG
* * * *
23432543 AAATTATATATCATTATTAGATTATATTTAATATTAGTTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
23432587 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
23432634 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
23432678 AAATTATA
1 AAATTATA
23432686 CAAATTCATA
Statistics
Matches: 74, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.15
47 12 0.16
48 3 0.04
49 5 0.07
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:23432760 original size:15 final size:16
Alignment explanation
Indices: 23432740--23432776 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
23432730 TTATTAAATC
23432740 ATATATTTTAATAA-A
1 ATATATTTTAATAATA
23432755 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
23432770 AT-TATTT
1 ATATATTT
23432777 CAAATTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:23434476 original size:13 final size:13
Alignment explanation
Indices: 23434460--23434525 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
23434450 TTTAAACCAA
23434460 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
*
23434473 ACTTCTCAAAAGT
1 ACTTTTCAAAAGT
* * * *
23434486 ATTTTTCCACAGC
1 ACTTTTCAAAAGT
*
23434499 ACTTTTCAAAAGC
1 ACTTTTCAAAAGT
23434512 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
23434525 A
1 A
23434526 ATGAAGAACT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:23434706 original size:17 final size:18
Alignment explanation
Indices: 23434673--23434706 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23434663 TAAGAGATGA
23434673 GCTTTTATATGGAAAAGT
1 GCTTTTATATGGAAAAGT
*
23434691 GCTTTTCTAT-GAAAAG
1 GCTTTTATATGGAAAAG
23434707 CAATAAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (18 bp):
GCTTTTATATGGAAAAGT
Found at i:23434872 original size:26 final size:26
Alignment explanation
Indices: 23434843--23434946 Score: 91
Period size: 26 Copynumber: 3.7 Consensus size: 26
23434833 CTCTCATCGT
23434843 TGGTTCTTTGTTCCTCTGCCCTCTGC
1 TGGTTCTTTGTTCCTCTGCCCTCTGC
* *
23434869 TGGTTCTCTATTCCTCTGCCCTCTGCTACGC
1 TGGTTCTTTGTTCCTCTG-CC-CT-CT--GC
23434900 TGGTTCTTTGCTCTCATCTCTGCCCTCTGC
1 TGGTTCTTTG-T-TC--CTCTGCCCTCTGC
* *
23434930 CGATTCTTTGTTCCTCT
1 TGGTTCTTTGTTCCTCT
23434947 TCTCCACCAC
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
26 20 0.32
27 2 0.03
28 4 0.06
29 3 0.05
30 10 0.16
31 10 0.16
32 3 0.05
33 4 0.06
34 2 0.03
35 5 0.08
ACGTcount: A:0.04, C:0.36, G:0.16, T:0.44
Consensus pattern (26 bp):
TGGTTCTTTGTTCCTCTGCCCTCTGC
Found at i:23440590 original size:41 final size:41
Alignment explanation
Indices: 23440545--23440646 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
23440535 GCTTAGCGCT
*
23440545 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * * *
23440586 TAGCAGGCTTAATGTCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
23440627 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
23440647 TACTGAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.06
41 51 0.94
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:23440828 original size:2 final size:2
Alignment explanation
Indices: 23440821--23440846 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23440811 CAATTGTAAA
23440821 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
23440847 GCTCTGGGAT
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:23441664 original size:18 final size:18
Alignment explanation
Indices: 23441641--23441688 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
23441631 AAAATATGAG
*
23441641 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
23441659 AAATGATTTTCACATTTC
1 AAATGATGTTCACATTTC
23441677 AAATGATGTTCA
1 AAATGATGTTCA
23441689 AATTGATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:23442216 original size:71 final size:72
Alignment explanation
Indices: 23442118--23442251 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 72
23442108 CAATGCTAAA
* * * *
23442118 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTTTGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATACTGAATTTATGTTCTACTTATTTAT
23442183 GTGTAAT
66 GTGTAAT
* *
23442190 CTAGTTTTATTAAT-GTTGTTTATGTTTGGTCTTTAGATACTGAATTTATGTTCTACTTATTT
1 CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATACTGAATTTATGTTCTACTTATTT
23442252 TTTTACTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
71 43 0.77
72 13 0.23
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.57
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATACTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:23444372 original size:26 final size:26
Alignment explanation
Indices: 23444338--23444388 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
23444328 ACACTCAAAA
* *
23444338 TTTTCAAAAGCACTTCTCAACAGCAT
1 TTTTCAAAAACACTTCTCAAAAGCAT
* *
23444364 TTTTTAAAAACACTTTTCAAAAGCA
1 TTTTCAAAAACACTTCTCAAAAGCA
23444389 ATGAAGAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (26 bp):
TTTTCAAAAACACTTCTCAAAAGCAT
Found at i:23446218 original size:2 final size:2
Alignment explanation
Indices: 23446206--23446238 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23446196 CCTCTAATGT
*
23446206 TA TA AA 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 T
23446239 TAGCTTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23448124 original size:43 final size:43
Alignment explanation
Indices: 23448075--23448174 Score: 173
Period size: 43 Copynumber: 2.3 Consensus size: 43
23448065 GGCGTTTATT
23448075 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTATTCC
1 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTATTCC
* * *
23448118 CACAAACGCCGCTAAAGGTCATGTTCTTTTGCGGCGCTTTTTC
1 CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTATTCC
23448161 CACAAACGCCGCTA
1 CACAAACGCCGCTA
23448175 TTGTTTGGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (43 bp):
CACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTATTCC
Found at i:23448550 original size:21 final size:21
Alignment explanation
Indices: 23448526--23448572 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
23448516 TGCTCTGCTT
23448526 TGCTTCCCTCGCTGCAGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
*
23448547 TGCTTCCCTCGCTGCCGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
23448568 TGCTT
1 TGCTT
23448573 TAATTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.47, G:0.19, T:0.32
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCAGCCTC
Found at i:23451169 original size:21 final size:20
Alignment explanation
Indices: 23451101--23451176 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
23451091 TGAAACCCTA
*
23451101 AACCTCTAACCCCTAAAGCGT
1 AACC-CTAACCCCTAAAGCAT
*
23451122 AGCCCATAACCCCT-AA--AT
1 AACCC-TAACCCCTAAAGCAT
*
23451140 CACCCTAACCCCTAAAGCAT
1 AACCCTAACCCCTAAAGCAT
*
23451160 AACTCCTAACCCTTAAA
1 AAC-CCTAACCCCTAAA
23451177 CCTTAAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
17 8 0.18
18 6 0.14
20 7 0.16
21 23 0.52
ACGTcount: A:0.37, C:0.39, G:0.05, T:0.18
Consensus pattern (20 bp):
AACCCTAACCCCTAAAGCAT
Found at i:23451782 original size:41 final size:40
Alignment explanation
Indices: 23451722--23451881 Score: 212
Period size: 41 Copynumber: 3.9 Consensus size: 40
23451712 TTTTTTTATT
23451722 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCCGAGC
1 ATTAGCGGCGCTTT-TCAAAAACGCCGCTAAAAGCCCGAGC
* * * *
23451763 ATTAGTGGTGCTATTTCAAAAACGCTGCTAAAGGCCCGAGC
1 ATTAGCGGCGCT-TTTCAAAAACGCCGCTAAAAGCCCGAGC
* **
23451804 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGAACGAGC
1 ATTAGCGGCGC-TTTTCAAAAACGCCGCTAAAAGCCCGAGC
*
23451845 ATTAGCGGCGCTTCTTCAAAAACGCTGCTAAAAGCCC
1 ATTAGCGGCGCTT-TTCAAAAACGCCGCTAAAAGCCC
23451882 CAAAAGCTCA
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 2 0.02
41 98 0.95
42 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.21
Consensus pattern (40 bp):
ATTAGCGGCGCTTTTCAAAAACGCCGCTAAAAGCCCGAGC
Found at i:23451863 original size:82 final size:82
Alignment explanation
Indices: 23451722--23451881 Score: 241
Period size: 82 Copynumber: 2.0 Consensus size: 82
23451712 TTTTTTTATT
** * *
23451722 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCCGAGCATTAGTGGTGCTATTTCAAAAACG
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAGAACGAGCATTAGCGGCGCTATTTCAAAAACG
*
23451787 CTGCTAAAGGCCCGAGC
66 CTGCTAAAAGCCCGAGC
* *
23451804 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGAACGAGCATTAGCGGCGCT-TCTTCAAAAAC
1 ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAGAACGAGCATTAGCGGCGCTAT-TTCAAAAAC
23451868 GCTGCTAAAAGCCC
65 GCTGCTAAAAGCCC
23451882 CAAAAGCTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
81 1 0.01
82 69 0.99
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.21
Consensus pattern (82 bp):
ATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAAGAACGAGCATTAGCGGCGCTATTTCAAAAACG
CTGCTAAAAGCCCGAGC
Found at i:23451965 original size:39 final size:40
Alignment explanation
Indices: 23451916--23452027 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 40
23451906 CGGTCTTAGG
* * *
23451916 TTTTTTGCGGCGCTTTTTAGAAAA-CGCTGCTAATGCT-TA
1 TTTTTAGCGGCG-TTTTTAGAAAAGCGCCGCTAATGCTCCA
*
23451955 TTTTTAGCGGCGTTTTCCA-AAAAGCGCCGCTAATGCTCCA
1 TTTTTAGCGGCGTTTT-TAGAAAAGCGCCGCTAATGCTCCA
* * **
23451995 TCTTTAGAGGCGTTTTTAGAAAAATGCCGCTAA
1 TTTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAA
23452028 AAGCCTATTT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
38 8 0.13
39 25 0.42
40 27 0.45
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTCCA
Found at i:23453225 original size:22 final size:22
Alignment explanation
Indices: 23453200--23453245 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
23453190 ACACATGAAC
23453200 TTCAATATAATT-AAACATTCAT
1 TTCAATA-AATTAAAACATTCAT
*
23453222 TTCAATAGATTAAAACATTCAT
1 TTCAATAAATTAAAACATTCAT
23453244 TT
1 TT
23453246 TAACATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (22 bp):
TTCAATAAATTAAAACATTCAT
Found at i:23458103 original size:13 final size:12
Alignment explanation
Indices: 23458085--23458114 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
23458075 CATGTTAGGG
23458085 GAATGGATGTATT
1 GAATGGATGTA-T
23458098 GAATGGATGTAT
1 GAATGGATGTAT
23458110 GAATG
1 GAATG
23458115 TTTATTGCAT
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:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (12 bp):
GAATGGATGTAT
Found at i:23465318 original size:21 final size:20
Alignment explanation
Indices: 23465276--23465335 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 20
23465266 CCGTATGCAA
*
23465276 TTTTTTTTTCAAA--ATTTT
1 TTTTTTTTTCAAATTTTTTT
* *
23465294 TTTTCTTTTC-GATTTTTTT
1 TTTTTTTTTCAAATTTTTTT
23465313 TATTTTTTTTCAAATTTTTTT
1 T-TTTTTTTTCAAATTTTTTT
23465334 TT
1 TT
23465336 CGAGGTTGCG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 1 0.03
18 9 0.27
19 5 0.15
20 9 0.27
21 9 0.27
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTTTTTCAAATTTTTTT
Found at i:23468900 original size:14 final size:14
Alignment explanation
Indices: 23468883--23468909 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23468873 TGAAAATAGC
23468883 TTTTGAAAAATGAT
1 TTTTGAAAAATGAT
23468897 TTTTGAAAAATGA
1 TTTTGAAAAATGA
23468910 CTTACTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
TTTTGAAAAATGAT
Found at i:23469480 original size:16 final size:15
Alignment explanation
Indices: 23469428--23469479 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
23469418 ATGTGAAGAA
23469428 TATTATTTAA-AATT
1 TATTATTTAATAATT
* *
23469442 TATTATTAAAATAATA
1 TATTATT-TAATAATT
*
23469458 AATTATATTAATAATT
1 TATTAT-TTAATAATT
23469474 TATTAT
1 TATTAT
23469480 AATAATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 7 0.24
15 2 0.07
16 19 0.66
17 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATTTAATAATT
Found at i:23469485 original size:16 final size:16
Alignment explanation
Indices: 23469438--23469485 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
23469428 TATTATTTAA
23469438 AATTTATTATTAA-AAT
1 AATTTATTA-TAATAAT
** *
23469454 AATAAATTATATTAAT
1 AATTTATTATAATAAT
23469470 AATTTATTATAATAAT
1 AATTTATTATAATAAT
23469486 TAAATATGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTATTATAATAAT
Found at i:23469534 original size:31 final size:31
Alignment explanation
Indices: 23469460--23469553 Score: 86
Period size: 31 Copynumber: 3.0 Consensus size: 31
23469450 AAATAATAAA
*
23469460 TTATATTAATAATTTATTATAATAAT-TAAATAT
1 TTATATTAATAA--TATTA-AAAAATATAAATAT
*
23469493 GTATATTTAATAATATTAAAAAATAT-AATATT
1 TTATA-TTAATAATATTAAAAAATATAAATA-T
* *
23469525 TTATATTAAT-ATTTTAAAAAATAAAAATA
1 TTATATTAATAATATTAAAAAATATAAATA
23469554 AATTTATTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
30 12 0.23
31 18 0.35
32 11 0.21
33 4 0.08
34 7 0.13
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (31 bp):
TTATATTAATAATATTAAAAAATATAAATAT
Found at i:23481014 original size:23 final size:26
Alignment explanation
Indices: 23480958--23481019 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
23480948 GTACATACAT
*
23480958 AATTGAGAATTCGGTTCTATAAAAAC
1 AATTGAGAATTTGGTTCTATAAAAAC
*
23480984 AATTGAGATTTTGGTTCT-T-AAAA-
1 AATTGAGAATTTGGTTCTATAAAAAC
23481007 AATTGAGAATTTG
1 AATTGAGAATTTG
23481020 TAAACATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.36
24 4 0.12
25 1 0.03
26 16 0.48
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (26 bp):
AATTGAGAATTTGGTTCTATAAAAAC
Found at i:23481169 original size:23 final size:22
Alignment explanation
Indices: 23481120--23481169 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
23481110 CAGTTTTAAA
* *
23481120 ATTTTATAATATTTATTCAATT
1 ATTTTATAATATTCATGCAATT
*
23481142 TTTTTATAATATATCATGCAATT
1 ATTTTATAATAT-TCATGCAATT
23481165 ATTTT
1 ATTTT
23481170 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTATAATATTCATGCAATT
Found at i:23481385 original size:18 final size:16
Alignment explanation
Indices: 23481347--23481377 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23481337 TAATCAATTG
*
23481347 TATTATATTTTTGTAT
1 TATTATATTTTTGAAT
23481363 TATTATATTTTTGAA
1 TATTATATTTTTGAA
23481378 AATTATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TATTATATTTTTGAAT
Found at i:23481681 original size:7 final size:7
Alignment explanation
Indices: 23481662--23481706 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
23481652 AGTGTGCTTA
23481662 ATAAAAT
1 ATAAAAT
23481669 -TAAAAT
1 ATAAAAT
23481675 ATAAAAT
1 ATAAAAT
*
23481682 ATAAAAC
1 ATAAAAT
23481689 ATAAAAT
1 ATAAAAT
23481696 ATAAAA-
1 ATAAAAT
23481702 ATAAA
1 ATAAA
23481707 GTTTTAGCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
6 11 0.31
7 24 0.69
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (7 bp):
ATAAAAT
Found at i:23490229 original size:16 final size:16
Alignment explanation
Indices: 23490210--23490256 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 16
23490200 AAATTTGAAT
23490210 AATAATAAATTAATCA
1 AATAATAAATTAATCA
23490226 AATAAT-AATT--T-A
1 AATAATAAATTAATCA
*
23490238 AGTAA-AAATTAATCA
1 AATAATAAATTAATCA
23490253 AATA
1 AATA
23490257 TATATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 9
0.69 0.06 0.25
Matches are distributed among these distances:
12 9 0.36
13 1 0.04
14 1 0.04
15 8 0.32
16 6 0.24
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (16 bp):
AATAATAAATTAATCA
Found at i:23502462 original size:9 final size:9
Alignment explanation
Indices: 23502448--23502473 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
23502438 TTAAAACACA
23502448 AACTAAAAT
1 AACTAAAAT
23502457 AACTAAAAT
1 AACTAAAAT
23502466 AACTAAAA
1 AACTAAAA
23502474 ATTAATGAAT
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:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:23502463 original size:21 final size:23
Alignment explanation
Indices: 23502423--23502464 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
23502413 TAATGATGTG
*
23502423 CAAACTATAACATAATTAAAACA
1 CAAACTATAACATAACTAAAACA
23502446 CAAACTA-AA-ATAACTAAAA
1 CAAACTATAACATAACTAAAA
23502465 TAACTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 2 0.11
23 7 0.39
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (23 bp):
CAAACTATAACATAACTAAAACA
Found at i:23509872 original size:19 final size:19
Alignment explanation
Indices: 23509848--23509884 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
23509838 TTTGATGTTG
23509848 TGGTATG-ATAGTTTAAATA
1 TGGTATGTAT-GTTTAAATA
23509867 TGGTATGTATGTTTAAAT
1 TGGTATGTATGTTTAAAT
23509885 CCATGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (19 bp):
TGGTATGTATGTTTAAATA
Found at i:23527668 original size:9 final size:9
Alignment explanation
Indices: 23527639--23527685 Score: 69
Period size: 9 Copynumber: 5.2 Consensus size: 9
23527629 CTTCTACAAA
23527639 TATTTAATC
1 TATTTAATC
*
23527648 TATTT-TTCC
1 TATTTAAT-C
23527657 TATTTAATC
1 TATTTAATC
23527666 TATTTAATC
1 TATTTAATC
23527675 TATTTAATC
1 TATTTAATC
23527684 TA
1 TA
23527686 CAAATATCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 1 0.03
9 32 0.94
10 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (9 bp):
TATTTAATC
Found at i:23534243 original size:17 final size:17
Alignment explanation
Indices: 23534221--23534254 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23534211 TTAAGAGGAT
23534221 TAAAAATAAATAAATAA
1 TAAAAATAAATAAATAA
23534238 TAAAAATAAATAAATAA
1 TAAAAATAAATAAATAA
23534255 GGAAAGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAAATAAATAAATAA
Found at i:23535748 original size:47 final size:44
Alignment explanation
Indices: 23535639--23535748 Score: 114
Period size: 47 Copynumber: 2.4 Consensus size: 44
23535629 ACTTAATCAT
* *
23535639 TTTAATATTAAATTAATATAATACTTATCAAGATAAATATTAGA
1 TTTAATATTAAATTAATAGAATACTTATCAAGATAAATATTAAA
* *
23535683 TTAAATCTTATTAAATTAATAGAATATTTATCTATAAGATAAATATTAAA
1 TTTAA---TATTAAATTAATAGAATACTTATC---AAGATAAATATTAAA
23535733 TTTAAT-TTAATATTAA
1 TTTAATATTAA-ATTAA
23535749 AACTATTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
44 4 0.07
46 4 0.07
47 28 0.52
50 18 0.33
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (44 bp):
TTTAATATTAAATTAATAGAATACTTATCAAGATAAATATTAAA
Found at i:23545657 original size:76 final size:76
Alignment explanation
Indices: 23545531--23545683 Score: 279
Period size: 76 Copynumber: 2.0 Consensus size: 76
23545521 ACAGTAGAAG
23545531 AAAGATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCTTTACAAACATGAAATAGA
1 AAAGATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCTTTACAAACATGAAATAGA
23545596 AAGTAATCACC
66 AAGTAATCACC
* * *
23545607 AAAGATTGAATAAAATAACATTTAACCTAGAAATCATGTATTCTTCTTTACAAATATGAAATAGA
1 AAAGATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCTTTACAAACATGAAATAGA
23545672 AAGTAATCACC
66 AAGTAATCACC
23545683 A
1 A
23545684 GCGTTTAGAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.28
Consensus pattern (76 bp):
AAAGATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCTTTACAAACATGAAATAGA
AAGTAATCACC
Found at i:23562998 original size:3 final size:3
Alignment explanation
Indices: 23562990--23563014 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23562980 CTCAAAATTC
23562990 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
23563015 TGTTAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:23563975 original size:25 final size:25
Alignment explanation
Indices: 23563899--23563980 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
23563889 AAACCAAACC
* *
23563899 AAGCCTTTGTGGTGAA-TATTTTGTA
1 AAGCCTTTGTGGCGAACT-CTTTGTA
* * * *
23563924 AAGCCTTTATGGCAAACTCTCTATA
1 AAGCCTTTGTGGCGAACTCTTTGTA
23563949 AAGCCTTTGTGGCGAACTCTTTGTA
1 AAGCCTTTGTGGCGAACTCTTTGTA
*
23563974 AAACCTT
1 AAGCCTT
23563981 CTTGGCATAT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
25 44 0.98
26 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (25 bp):
AAGCCTTTGTGGCGAACTCTTTGTA
Found at i:23569171 original size:21 final size:20
Alignment explanation
Indices: 23569145--23569198 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
23569135 AACAGCGGTG
23569145 GCGGTGAGATTAATTACTATA
1 GCGGTGAGATTAA-TACTATA
* *
23569166 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATT-AATACTATA
*
23569187 GCAGTGAGATTA
1 GCGGTGAGATTA
23569199 GAAACAATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (20 bp):
GCGGTGAGATTAATACTATA
Found at i:23576683 original size:44 final size:44
Alignment explanation
Indices: 23576635--23576765 Score: 131
Period size: 44 Copynumber: 3.0 Consensus size: 44
23576625 CTTCGATCTG
* *
23576635 CTCCACTATTGCTTAGGGAGACAAGTTCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAACCTA
* ** ** * * *
23576679 CTCCACTGCTG-TTCAGGGAGACAAGGCCTG-GGTCTTCAATCTG
1 CTCCACTACTGCTT-AGGGAGACAAGATCTGTAATTTTCAACCTA
* *
23576722 CTCCAATACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAACCTA
23576766 ATTCACTGCT
Statistics
Matches: 65, Mismatches: 19, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
43 32 0.49
44 33 0.51
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTTCAACCTA
Found at i:23576721 original size:87 final size:87
Alignment explanation
Indices: 23576623--23576781 Score: 255
Period size: 87 Copynumber: 1.8 Consensus size: 87
23576613 TAGGATTAGA
* * * * *
23576623 GTCTTCGATCTGCTCCACTATTGCTTAGGGAGACAAGTTCTGTAATTTTCAACCTACTCCACTGC
1 GTCTTCAATCTGCTCCAATACTGCTTAGGGAGACAAGATCTGTAATTTTCAACCTAATCCACTGC
23576688 TGTTCAGGGAGACAAGGCCTGG
66 TGTTCAGGGAGACAAGGCCTGG
* *
23576710 GTCTTCAATCTGCTCCAATACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTAATTCACTGC
1 GTCTTCAATCTGCTCCAATACTGCTTAGGGAGACAAGATCTGTAATTTTCAACCTAATCCACTGC
23576775 TGTTCAG
66 TGTTCAG
23576782 AGAGCTAGGA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (87 bp):
GTCTTCAATCTGCTCCAATACTGCTTAGGGAGACAAGATCTGTAATTTTCAACCTAATCCACTGC
TGTTCAGGGAGACAAGGCCTGG
Found at i:23576740 original size:43 final size:44
Alignment explanation
Indices: 23576622--23576742 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 44
23576612 ATAGGATTAG
* * **
23576622 AGTCTTCGATCTGCTCCACTATTGCTTAGGGAGACAAGTTCTGT
1 AGTCTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGGCCTGT
* * * * *
23576666 AATTTTCAACCTACTCCACTGCTG-TTCAGGGAGACAAGGCCTG-
1 AGTCTTCAATCTGCTCCACTACTGCTT-AGGGAGACAAGGCCTGT
* *
23576709 GGTCTTCAATCTGCTCCAATACTGCTTAGGGAGA
1 AGTCTTCAATCTGCTCCACTACTGCTTAGGGAGA
23576743 TAAGATCTGT
Statistics
Matches: 59, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
43 26 0.44
44 33 0.56
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (44 bp):
AGTCTTCAATCTGCTCCACTACTGCTTAGGGAGACAAGGCCTGT
Found at i:23576835 original size:44 final size:44
Alignment explanation
Indices: 23576803--23577413 Score: 997
Period size: 44 Copynumber: 13.8 Consensus size: 44
23576793 ATGCAATCTC
** * *
23576803 CCACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTACAATCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
23576847 CCACCTATTCCACTGCAGGTCAGGGAACTAGGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
23576891 CCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
* *
23576935 CCACCTATTCCAATTGCTGGTCAGGGAACTAGGACTTACAGTCTT
1 CCACCTATTCC-ACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
23576980 CCACCTATTCCGCTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
* *
23577024 CCACCTATTCCACTACTGGTCAGGGAATTAGGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
23577068 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACGGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
* * *
23577112 CCACTTATTCCAACTGCTGATCAGGGAACTAGGACTTACAGTCTT
1 CCACCTATTCC-ACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
* *
23577157 CCACCTATTCCACTGCTGGTCAGAGAACTAGAGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
23577201 CCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
* *
23577245 CCACCTATTCCAACTGTTGGTCAGGGAACTAGGACTTACAGTCTT
1 CCACCTATTCC-ACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
23577290 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTATAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
23577334 CAACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
23577378 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
23577414 GTGATTTCAC
Statistics
Matches: 524, Mismatches: 40, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
44 402 0.77
45 122 0.23
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (44 bp):
CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
Found at i:23576980 original size:133 final size:132
Alignment explanation
Indices: 23576803--23577413 Score: 997
Period size: 133 Copynumber: 4.6 Consensus size: 132
23576793 ATGCAATCTC
** * * *
23576803 CCACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTACAATCTTCCACCTATTCCACTGCAGGTC
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGTC
23576868 AGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTC
66 AGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTC
23576933 TT
131 TT
* * *
23576935 CCACCTATTCCAATTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCGCTGCTGGT
1 CCACCTATTCC-ACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGT
*
23577000 CAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAATTAGGGCTTACAGT
65 CAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGT
23577065 CTT
130 CTT
* * *
23577068 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACGGTCTTCCACTTATTCCAACTGCTGAT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCC-ACTGCTGGT
* * * *
23577133 CAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGTCAGAGAACTAGAGCTTACAGT
65 CAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGT
23577198 CTT
130 CTT
* *
23577201 CCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCAACTGTTGGT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCC-ACTGCTGGT
* * *
23577266 CAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTATAGT
65 CAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGT
23577331 CTT
130 CTT
*
23577334 CAACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGTC
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGTC
23577399 AGGGAACTAGGGCTT
66 AGGGAACTAGGGCTT
23577414 GTGATTTCAC
Statistics
Matches: 447, Mismatches: 30, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
132 74 0.17
133 373 0.83
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (132 bp):
CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGTC
AGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTC
TT
Found at i:23577026 original size:177 final size:177
Alignment explanation
Indices: 23576770--23577413 Score: 1020
Period size: 177 Copynumber: 3.6 Consensus size: 177
23576760 AACCTAATTC
* * * * * * * **
23576770 ACTGCTGTTCAGAGAGCTAGGACATGCAATCTCCCACCTATTCCACTGCTGGTCAGGGAGTTAGG
1 ACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGG
* * * *
23576835 ACTTACAATCTTCCACCTATTCCACTGCAGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATT
66 GCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATT
*
23576900 CCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCA
131 CCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCA
* *
23576947 ATTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCGCTGCTGGTCAGGGAACTAGG
1 ACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGG
*
23577012 GCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAATTAGGGCTTACAGTCTTCCACCTATT
66 GCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATT
* *
23577077 CCACTGCTGGTCAGGGAACTAGGGCTTACGGTCTTCCACTTATTCCA
131 CCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCA
* * *
23577124 ACTGCTGATCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGTCAGAGAACTAGA
1 ACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGG
23577189 GCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATT
66 GCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATT
* *
23577254 CCAACTGTTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCC-
131 CC-ACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCA
* * *
23577301 ACTGCTGGTCAGGGAACTAGGGCTTATAGTCTTCAACCTATTCCACTGCTGGTCAGGGAACTAGG
1 ACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGG
*
23577366 GCTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
66 GCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTT
23577414 GTGATTTCAC
Statistics
Matches: 430, Mismatches: 36, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
177 390 0.91
178 40 0.09
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (177 bp):
ACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGG
GCTTACAGTCTTCCACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATT
CCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCA
Found at i:23578694 original size:13 final size:15
Alignment explanation
Indices: 23578674--23578710 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
23578664 CCTTAGCCTC
23578674 TCCATTTTT-ACTTT
1 TCCATTTTTCACTTT
*
23578688 T-CATTTTTCATTTT
1 TCCATTTTTCACTTT
23578702 TCCATTTTT
1 TCCATTTTT
23578711 TTGACTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 6 0.30
15 7 0.35
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.68
Consensus pattern (15 bp):
TCCATTTTTCACTTT
Found at i:23591387 original size:25 final size:24
Alignment explanation
Indices: 23591356--23591416 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
23591346 TATTATTATT
*
23591356 ATATTTTCTATACATATACATGCGC
1 ATATTTTATATACA-ATACATGCGC
* * *
23591381 ATATTTTATATATAATATATGTGC
1 ATATTTTATATACAATACATGCGC
*
23591405 ATATTTAATATA
1 ATATTTTATATA
23591417 TATATATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
24 19 0.61
25 12 0.39
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.46
Consensus pattern (24 bp):
ATATTTTATATACAATACATGCGC
Found at i:23591415 original size:24 final size:25
Alignment explanation
Indices: 23591364--23591425 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
23591354 TTATATTTTC
* * * *
23591364 TATACATATACATGCGCATATTTTA
1 TATATATATATATGTGCATATTTAA
23591389 TATATA-ATATATGTGCATATTTAA
1 TATATATATATATGTGCATATTTAA
23591413 TATATATATATAT
1 TATATATATATAT
23591426 ATATATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 21 0.66
25 11 0.34
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (25 bp):
TATATATATATATGTGCATATTTAA
Found at i:23591417 original size:2 final size:2
Alignment explanation
Indices: 23591412--23591443 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23591402 TGCATATTTA
23591412 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
23591444 TAAGCCTTTA
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:23597693 original size:134 final size:133
Alignment explanation
Indices: 23597503--23598587 Score: 1053
Period size: 134 Copynumber: 8.2 Consensus size: 133
23597493 GTTGAAAAGC
* * **
23597503 AGCAGATCCTGTCTTCATATATTGGTAGCGAAGTGGATCGAAGATAGTAGATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCATATATTGGT-GCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCAT
* * * * *
23597568 ACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCA
65 ACTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCA
*
23597633 AATAT
129 AAGAT
* * * * *
23597638 AGCAGATCTTGTCTTCATGTATTTGTGTGAAGTAGATCGAAGATAACAAATCTTGTCTTTCCATA
1 AGCAGATCTTGTCTTCATATATTGGTGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATA
* * * * * * *
23597703 CTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCTATACTGGCAGCGAAGTAGATCAA
66 CTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCAA
*
23597768 ATAT
130 AGAT
* * **
23597772 AGCAGATCTTGTCTTCATGTATT-G-GCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 AGCAGATCTTGTCTTCATATATTGGTGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATA
* * * * * *
23597835 CTGGCAGCGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAA
66 CTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAA
23597900 GAT
131 GAT
** * * **
23597903 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCTGT
1 AGCAGATCTTGTCTTCATATATTGGT-GCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCAT
* * * *
23597968 ACTGGCAGCGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGA
65 ACTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAA
23598033 AGAT
130 AGAT
* * * **
23598037 AGCAGATCTTGTCTTTC-TATACTGGTTGCGAAGTAGAGCGAAGAAAACAGATCTTGTCTTCCTG
1 AGCAGATCTTGTC-TTCATATATTGG-TGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCA
* * * *
23598101 TACTGGCAGCGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGTATTGACATG-A--AG-T--
64 TACTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCA
23598160 -AGAT
129 AAGAT
** * * ** ***
23598164 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCATATATTGGT-GCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCAT
* ** * * *
23598229 ATTGACA-TGAAGTAGATC-AGAGATAGCAGATCTTGTCTTCATGTATTGACATGAGGTAGATCA
65 ACTGGTAGCGAAGTAGATCGA-AGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCA
*
23598292 GAGAT
129 AAGAT
* ***** *
23598297 AGCAGATCTTGTCTTCATGTATTAACATGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATA
1 AGCAGATCTTGTCTTCATATATTGGTGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATA
* * *** * ** *
23598362 CTGGTGGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
66 CTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATCAA
23598427 AGAT
130 AGAT
*** * * * **** * *
23598431 AATGGATCTTGTGTTCATGTTTTGACATGAAGTAGATC-AGAGATAGCAGATCTTGCCTTCCCAT
1 AGCAGATCTTGTCTTCATATATTGGTGCGAAGTAGATCGA-AGATAACAGATCTTGTCTTCCCAT
* *** * * *
23598495 ACTGGTAGTGAAGTAGATCGAAGATAATGGGTCTTGTCTTCATGTATTGACATGAAATAGATCAA
65 ACTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAA
23598560 AGAT
130 AGAT
*
23598564 AGCAGATCTTGTCTTCCTATATTG
1 AGCAGATCTTGTCTTCATATATTG
23598588 ACAACAAAGA
Statistics
Matches: 821, Mismatches: 110, Indels: 40
0.85 0.11 0.04
Matches are distributed among these distances:
125 1 0.00
126 46 0.06
127 61 0.07
129 2 0.00
130 2 0.00
131 35 0.04
132 108 0.13
133 93 0.11
134 446 0.54
135 27 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (133 bp):
AGCAGATCTTGTCTTCATATATTGGTGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATA
CTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAA
GAT
Found at i:23597696 original size:89 final size:90
Alignment explanation
Indices: 23597503--23598581 Score: 878
Period size: 89 Copynumber: 12.2 Consensus size: 90
23597493 GTTGAAAAGC
* * * * * * * * **
23597503 AGCAGATCCTGTCTTCATATATTGGTAGCGAAGTGGATCGAAGATAGTAGATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
** * *
23597568 ACTGGTGGCGAAGTAGATCGAAGAA
66 ACTGGACGTGAAGTAGATCGAAGAT
* * * *
23597593 AACAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * *
23597658 ATTTG-TGTGAAGTAGATCGAAGAT
66 ACTGGACGTGAAGTAGATCGAAGAT
* * * ** * * * *
23597682 AACAAATCTTGTCTTTCC-ATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCCTA
1 AGCAGATCTTGTC-TTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTG
* * *
23597746 TACTGG-CAGCGAAGTAGATCAAATAT
65 TACTGGAC-GTGAAGTAGATCGAAGAT
* *
23597772 AGCAGATCTTGTCTTCATGTATTGGC---GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * *
23597834 ACTGG-CAGCGAAGTAGATCAAATAT
66 ACTGGAC-GTGAAGTAGATCGAAGAT
* * * **
23597859 AGCAGATCTTGTCTTCATGTATTAGC-GTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
** * *
23597923 ACTGGTGGCGAAGTAGATCGAAGAA
66 ACTGGACGTGAAGTAGATCGAAGAT
* * * * *
23597948 AACAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAATATAGCAGATCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
* *
23598013 ATTGG-CATGAAGTAGATCGAAGAT
66 ACTGGACGTGAAGTAGATCGAAGAT
* * ** * * * *
23598037 AGCAGATCTTGTCTTTCTATACTGGTTGCGAAGTAGAGCGAAGAAAACAGATCTTGTCTTCCTGT
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * *
23598102 ACTGG-CAGCGAAGTAGATCAAATAT
66 ACTGGAC-GTGAAGTAGATCGAAGAT
* * * **
23598127 AGCAGATCTTGTCTTCATGTATTGACA-TG-A--AG-T---AGATAGCAGATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
**
23598184 ACTGGTGGTGAAGTAGATCGAAGAT
66 ACTGGACGTGAAGTAGATCGAAGAT
*** * * * *
23598209 AATGGATCTTGTCTTCATGTATTGACA-TGAAGTAGATC-AGAGATAGCAGATCTTGTCTTCATG
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGA-AGATAGCAGATCTTGTCTTCCTG
* * *
23598272 TA-TTGACATGAGGTAGATC-AGAGAT
65 TACTGGACGTGAAGTAGATCGA-AGAT
* * ** **
23598297 AGCAGATCTTGTCTTCATGTATTAACA-TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCAT
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
**
23598361 ACTGGTGGTGAAGTAGATCGAAGAT
66 ACTGGACGTGAAGTAGATCGAAGAT
** ** *** * *
23598386 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATAATGGATCTTGTGTTCATGT
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * *
23598451 -TTTGACATGAAGTAGATC-AGAGAT
66 ACTGGACGTGAAGTAGATCGA-AGAT
* ** * *** * *
23598475 AGCAGATCTTGCCTTCCCATACTGGTAGTGAAGTAGATCGAAGATAATGGGTCTTGTCTTCATGT
1 AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * * *
23598540 A-TTGACATGAAATAGATCAAAGAT
66 ACTGGACGTGAAGTAGATCGAAGAT
23598564 AGCAGATCTTGTCTTCCT
1 AGCAGATCTTGTCTTCCT
23598582 ATATTGACAA
Statistics
Matches: 815, Mismatches: 150, Indels: 49
0.80 0.15 0.05
Matches are distributed among these distances:
82 66 0.08
83 1 0.00
85 2 0.00
86 3 0.00
87 84 0.10
88 74 0.09
89 394 0.48
90 191 0.23
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (90 bp):
AGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGT
ACTGGACGTGAAGTAGATCGAAGAT
Found at i:23598530 original size:45 final size:45
Alignment explanation
Indices: 23597503--23598580 Score: 780
Period size: 45 Copynumber: 24.4 Consensus size: 45
23597493 GTTGAAAAGC
* ** * * *
23597503 AGCAGATCCTGTCTTCATATATTGGTAGCGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
* * * *
23597548 AGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
* ** * * *
23597593 AACAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCAAATAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
*** * *
23597638 AGCAGATCTTGTCTTCATGTATTTGT-GTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
* * * * * *
23597682 AACAAATCTTGTCTTTCCATACTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
* * * * * *
23597727 AACAGATCTTGTCTTCCTATACTGGCAGCGAAGTAGATCAAATAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
* ** * *
23597772 AGCAGATCTTGTCTT--CAT-GTATTGGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
** * * * *
23597814 AGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAATAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
*** * * *
23597859 AGCAGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
* * *
23597903 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
* ** * * * *
23597948 AACAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAATAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
*** * *
23597993 AGCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
* * * * * *
23598037 AGCAGATCTTGTCTTTCTATACTGGTTGCGAAGTAGAGCGAAGAA
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
* ** * * * *
23598082 AACAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATCAAATAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
* * *
23598127 AGCAGATCTTGTCTT--C--A-T-GTATTGACA-T-GA-AGTAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGA-AGTAGATCGAAGAT
*
23598164 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
*** *** * **
23598209 AATGGATCTTGTCTTCATGTATTGACA-TGAAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGA-AGAT
*** * ** *
23598253 AGCAGATCTTGTCTTCATGTATTGACA-TGAGGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGA-AGAT
*** * ***
23598297 AGCAGATCTTGTCTTCATGTATTAACA-TGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
*
23598341 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
*
23598386 AGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
*** * *** ** **
23598431 AATGGATCTTGTGTTCATGTTTTGACA-TGAAGTAGATC-AGAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGA-AGAT
*
23598475 AGCAGATCTTGCCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
*** * *** * ** * *
23598520 AATGGGTCTTGTCTTCATGTATTGACA-TGAAATAGATCAAAGAT
1 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
23598564 AGCAGATCTTGTCTTCC
1 AGCAGATCTTGTCTTCC
23598581 TATATTGACA
Statistics
Matches: 824, Mismatches: 187, Indels: 45
0.78 0.18 0.04
Matches are distributed among these distances:
37 18 0.02
38 2 0.00
39 6 0.01
40 2 0.00
41 2 0.00
42 34 0.04
43 10 0.01
44 278 0.34
45 471 0.57
46 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGAT
Found at i:23598587 original size:44 final size:44
Alignment explanation
Indices: 23598160--23598590 Score: 364
Period size: 44 Copynumber: 9.7 Consensus size: 44
23598150 GACATGAAGT
** * ***
23598160 AGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCATATA-TTGACATGAAGTAGATCGA
*** *
23598205 AGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATC-A
1 AGATAGCAGATCTTGTCTTCATATATTGACATGAAGTAGATCGA
* *
23598248 GAGATAGCAGATCTTGTCTTCATGTATTGACATGAGGTAGATC-A
1 -AGATAGCAGATCTTGTCTTCATATATTGACATGAAGTAGATCGA
* *
23598292 GAGATAGCAGATCTTGTCTTCATGTATTAACATGAAGTAGATCGA
1 -AGATAGCAGATCTTGTCTTCATATATTGACATGAAGTAGATCGA
** * ***
23598337 AGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCATATA-TTGACATGAAGTAGATCGA
** * ***
23598382 AGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
1 AGATAGCAGATCTTGTCTTCATATA-TTGACATGAAGTAGATCGA
*** * * *
23598427 AGATAATGGATCTTGTGTTCATGTTTTGACATGAAGTAGATC-A
1 AGATAGCAGATCTTGTCTTCATATATTGACATGAAGTAGATCGA
* ** * **
23598470 GAGATAGCAGATCTTGCCTTCCCATACTGGTAGTGAAGTAGATCGA
1 -AGATAGCAGATCTTGTCTTCATATATTGACA-TGAAGTAGATCGA
*** * * * *
23598516 AGATAATGGGTCTTGTCTTCATGTATTGACATGAAATAGATCAA
1 AGATAGCAGATCTTGTCTTCATATATTGACATGAAGTAGATCGA
*
23598560 AGATAGCAGATCTTGTCTTCCTATATTGACA
1 AGATAGCAGATCTTGTCTTCATATATTGACA
23598591 ACAAAGAAGA
Statistics
Matches: 313, Mismatches: 67, Indels: 13
0.80 0.17 0.03
Matches are distributed among these distances:
43 2 0.01
44 183 0.58
45 127 0.41
46 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (44 bp):
AGATAGCAGATCTTGTCTTCATATATTGACATGAAGTAGATCGA
Found at i:23599818 original size:2 final size:2
Alignment explanation
Indices: 23599811--23599866 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
23599801 GCGCATATTT
* *
23599811 TA TA TA TA -A TA TA TA TG CA 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 TA TA TA TA
23599852 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
23599867 TAAGCCTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23609004 original size:13 final size:14
Alignment explanation
Indices: 23608950--23609004 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
23608940 TGAAATAGGA
23608950 TAAA-AATAATAAT
1 TAAATAATAATAAT
** *
23608963 TAGTTAATAATAGT
1 TAAATAATAATAAT
*
23608977 AAAAATAATAATAAT
1 -TAAATAATAATAAT
23608992 TAAATAA-AATAAT
1 TAAATAATAATAAT
23609005 AATGGTATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
13 8 0.25
14 14 0.44
15 10 0.31
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (14 bp):
TAAATAATAATAAT
Found at i:23610528 original size:27 final size:27
Alignment explanation
Indices: 23610497--23610555 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
23610487 GCCATTAAAT
23610497 ATGTTCAAACTAGGACAGATTTAATTC
1 ATGTTCAAACTAGGACAGATTTAATTC
23610524 ATGTTCAAACTAGGACAGATTTAATTC
1 ATGTTCAAACTAGGACAGATTTAATTC
23610551 ATGTT
1 ATGTT
23610556 TTTGTCTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (27 bp):
ATGTTCAAACTAGGACAGATTTAATTC
Found at i:23611178 original size:45 final size:45
Alignment explanation
Indices: 23611123--23611212 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
23611113 ATTTTGTTCC
* * * *
23611123 ATGAATTTTCCAGCTGAAAACTAAGTTCATTTTAGCTTATTAATT
1 ATGAAGTTTCCAGCTGAAAACTAAGTTCAATTCAGCTCATTAATT
23611168 ATGAAGTTTCCAGCTGAAAACTAAGTTCAATTCAGCTCATTAATT
1 ATGAAGTTTCCAGCTGAAAACTAAGTTCAATTCAGCTCATTAATT
23611213 TGTAATCATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (45 bp):
ATGAAGTTTCCAGCTGAAAACTAAGTTCAATTCAGCTCATTAATT
Found at i:23612035 original size:32 final size:34
Alignment explanation
Indices: 23611967--23612043 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
23611957 TGGACTTTAT
* * *
23611967 TATATATAATATATATACGTGGTTTTCGGTGTTA
1 TATATATAATATATATACATGGTTCTCAGTGTTA
* *
23612001 TATATATAATATATATGCATGGTTCT-ATTGTATA
1 TATATATAATATATATACATGGTTCTCAGTGT-TA
23612035 TAGTATATA
1 TA-TATATA
23612044 TAATTATGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 3 0.08
34 27 0.75
35 6 0.17
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (34 bp):
TATATATAATATATATACATGGTTCTCAGTGTTA
Found at i:23614810 original size:18 final size:18
Alignment explanation
Indices: 23614787--23614825 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
23614777 ACCCAGCTTG
* *
23614787 GAAGATGATTGTTGAAAA
1 GAAGATGATTGCTAAAAA
23614805 GAAGATGATTGCTAAAAA
1 GAAGATGATTGCTAAAAA
23614823 GAA
1 GAA
23614826 TTAAGTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.26, T:0.23
Consensus pattern (18 bp):
GAAGATGATTGCTAAAAA
Found at i:23616666 original size:43 final size:41
Alignment explanation
Indices: 23616609--23616732 Score: 113
Period size: 43 Copynumber: 2.9 Consensus size: 41
23616599 TACTAAGAGG
*
23616609 TGATAACATGTAAGACCATGTCTGGGACATTGGCATTGTTATA
1 TGATAACATATAAGACCATGTCTGGGACA-TGGCATTGTT-TA
** * * * * *
23616652 TGATTTCATATAAGACCCTGTTTGGAACAGTGGCATCGATTTG
1 TGATAACATATAAGACCATGTCTGGGACA-TGGCATTG-TTTA
* * *
23616695 TGATAACATATAAGACCATATCTAGGATATGGCATTGT
1 TGATAACATATAAGACCATGTCTGGGACATGGCATTGT
23616733 ATGAGTTATT
Statistics
Matches: 62, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
41 1 0.02
42 7 0.11
43 52 0.84
44 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (41 bp):
TGATAACATATAAGACCATGTCTGGGACATGGCATTGTTTA
Found at i:23617414 original size:23 final size:25
Alignment explanation
Indices: 23617362--23617444 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 25
23617352 CAGGTCGTAT
*
23617362 GAGCTTACCGATATATCAGCTC-TTA
1 GAGCTTACCGATAT-TCAGCTCAATA
23617387 TGAGCTTACCG-T-TTCAGCTCAATA
1 -GAGCTTACCGATATTCAGCTCAATA
* * *
23617411 GAGCTTGCCGTTCTTCAGCTCGGAAT-
1 GAGCTTACCGATATTCAGCTC--AATA
23617437 GAGCTTAC
1 GAGCTTAC
23617445 TGATCATGGC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
23 16 0.33
24 4 0.08
25 9 0.18
26 17 0.35
27 3 0.06
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGATATTCAGCTCAATA
Found at i:23621468 original size:15 final size:15
Alignment explanation
Indices: 23621447--23621482 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23621437 AGTGTTAATG
23621447 AAATCTACCAGTTGT
1 AAATCTACCAGTTGT
* *
23621462 GAATCTACTAGTTGT
1 AAATCTACCAGTTGT
23621477 AAATCT
1 AAATCT
23621483 TACGAATCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (15 bp):
AAATCTACCAGTTGT
Found at i:23622215 original size:32 final size:32
Alignment explanation
Indices: 23622179--23622242 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
23622169 ATGTTGTCTA
23622179 TCAAGTCCAATTGGAGAGATGCTATGTCTTGG
1 TCAAGTCCAATTGGAGAGATGCTATGTCTTGG
23622211 TCAAGTCCAATTGGAGAGATGCTATGTCTTGG
1 TCAAGTCCAATTGGAGAGATGCTATGTCTTGG
23622243 CCATCGAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (32 bp):
TCAAGTCCAATTGGAGAGATGCTATGTCTTGG
Found at i:23626139 original size:18 final size:18
Alignment explanation
Indices: 23626113--23626147 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23626103 AAACTTATTA
*
23626113 TTATTGTTGTTGTTGTTG
1 TTATGGTTGTTGTTGTTG
23626131 TTATGGTTGTTGTTGTT
1 TTATGGTTGTTGTTGTT
23626148 AAGCTTGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.29, T:0.66
Consensus pattern (18 bp):
TTATGGTTGTTGTTGTTG
Found at i:23631920 original size:122 final size:122
Alignment explanation
Indices: 23631756--23631992 Score: 393
Period size: 122 Copynumber: 1.9 Consensus size: 122
23631746 CAATGTACTC
* * *
23631756 CACTGTAACCCCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTCATGCTTAGGGAAATA
1 CACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAAATA
*
23631821 AGATCTGAAATCTTCAATCTATTCCACTACCAACCAGGGGGATAGAATTACTGGCTT
66 AGATCTGAAATCTTCAATCTATTCCACTACCAACCAGGGAGATAGAATTACTGGCTT
* * *
23631878 CACTGTAACCATAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAATGCCTAGGGAGATA
1 CACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAAATA
* *
23631943 AGATCTGAAATCTTCAATCTATTCCATTGCCAACCAGGGAGATAGAATTA
66 AGATCTGAAATCTTCAATCTATTCCACTACCAACCAGGGAGATAGAATTA
23631993 GTATCTTCGA
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
122 106 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (122 bp):
CACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAATGCCTAGGGAAATA
AGATCTGAAATCTTCAATCTATTCCACTACCAACCAGGGAGATAGAATTACTGGCTT
Found at i:23633306 original size:15 final size:16
Alignment explanation
Indices: 23633281--23633322 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
23633271 AGCCTCTCCA
23633281 CTTTTACTTTTTC-CAT
1 CTTTTA-TTTTTCACAT
*
23633297 TTTTTATTTTTCACAT
1 CTTTTATTTTTCACAT
23633313 CTTTT-TTTTT
1 CTTTTATTTTT
23633323 GTGACTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (16 bp):
CTTTTATTTTTCACAT
Found at i:23633317 original size:16 final size:15
Alignment explanation
Indices: 23633277--23633322 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
23633267 CCTTAGCCTC
23633277 TCCA-CTTTTACTTTT
1 TCCATCTTTTA-TTTT
*
23633292 TCCATTTTTTATTTT
1 TCCATCTTTTATTTT
23633307 TCACATCTTTT-TTTT
1 TC-CATCTTTTATTTT
23633322 T
1 T
23633323 GTGACTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (15 bp):
TCCATCTTTTATTTT
Found at i:23633813 original size:1 final size:1
Alignment explanation
Indices: 23633802--23633860 Score: 64
Period size: 1 Copynumber: 59.0 Consensus size: 1
23633792 CATGTAGAGG
* * * * * *
23633802 TTTTTTGTTTTTTTTGTTTTTTTTGTTTGTTTTTTTTTGTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23633861 GAATCTGCAC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:23633816 original size:9 final size:9
Alignment explanation
Indices: 23633802--23633860 Score: 75
Period size: 9 Copynumber: 6.3 Consensus size: 9
23633792 CATGTAGAGG
23633802 TTTTTTGTT
1 TTTTTTGTT
23633811 TTTTTTGTT
1 TTTTTTGTT
23633820 TTTTTTGTTT
1 TTTTTTG-TT
*
23633830 GTTTTTTTTT
1 -TTTTTTGTT
23633840 GTTTTTTGTT
1 -TTTTTTGTT
23633850 TTTTTT-TT
1 TTTTTTGTT
23633858 TTT
1 TTT
23633861 GAATCTGCAC
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
8 5 0.11
9 22 0.48
10 13 0.28
11 6 0.13
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:23633831 original size:22 final size:21
Alignment explanation
Indices: 23633805--23633861 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
23633795 GTAGAGGTTT
*
23633805 TTTGTTTTTTTTGTTTTTTTTG
1 TTTGTTTTTTTT-TGTTTTTTG
23633827 TTTGTTTTTTTTTGTTTTTTG
1 TTTGTTTTTTTTTGTTTTTTG
*
23633848 TTTTTTTTTTTTTG
1 TTTGTTTTTTTTTG
23633862 AATCTGCACT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (21 bp):
TTTGTTTTTTTTTGTTTTTTG
Found at i:23636552 original size:16 final size:16
Alignment explanation
Indices: 23636527--23636561 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23636517 TTCTATAATG
23636527 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
* *
23636543 AAATGTCATGCATTCA
1 AAATGCCATGCAGTCA
23636559 AAA
1 AAA
23636562 CAAAACACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:23641438 original size:4 final size:4
Alignment explanation
Indices: 23641429--23641474 Score: 83
Period size: 4 Copynumber: 11.5 Consensus size: 4
23641419 GACACTAAGG
*
23641429 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
23641475 CCCAAATTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:23643837 original size:13 final size:13
Alignment explanation
Indices: 23643819--23643846 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23643809 ATATAGACTG
23643819 TTAAAATAATATT
1 TTAAAATAATATT
23643832 TTAAAATAATATT
1 TTAAAATAATATT
23643845 TT
1 TT
23643847 TACTATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAAATAATATT
Found at i:23644081 original size:2 final size:2
Alignment explanation
Indices: 23644074--23644107 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23644064 AAATGAAATT
23644074 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
23644108 CCTATACTTT
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:23648350 original size:10 final size:11
Alignment explanation
Indices: 23648335--23648360 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23648325 TTTCAACTTC
23648335 TTTTTTTCTAT
1 TTTTTTTCTAT
23648346 TTTTTTTCTAT
1 TTTTTTTCTAT
23648357 TTTT
1 TTTT
23648361 AATTGCAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTCTAT
Found at i:23648536 original size:10 final size:10
Alignment explanation
Indices: 23648521--23648550 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
23648511 AAATTTGTTT
23648521 ATTATAATAA
1 ATTATAATAA
23648531 ATTATAATAA
1 ATTATAATAA
23648541 ATTATAATAA
1 ATTATAATAA
23648551 TGGTGATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATTATAATAA
Found at i:23652467 original size:25 final size:26
Alignment explanation
Indices: 23652413--23652473 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
23652403 TTTAAAATAC
*
23652413 TTTTAAAATAATTTTTTATTTTTAAT
1 TTTTAAAATAATTTTTTATGTTTAAT
23652439 TTTTAAAATAATTTTTTAATGTTT-AT
1 TTTTAAAATAATTTTTT-ATGTTTAAT
*
23652465 TTTAAAAAT
1 TTTTAAAAT
23652474 GGGCCGGGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 27 0.84
27 5 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTTAAAATAATTTTTTATGTTTAAT
Found at i:23654892 original size:37 final size:33
Alignment explanation
Indices: 23654851--23654958 Score: 90
Period size: 37 Copynumber: 3.0 Consensus size: 33
23654841 CAAGATAAAC
23654851 ATTAAATTTAATTTAATATTAAGATAATCACTTTAAT
1 ATTAAATTTAATTTAATATTAAGATAAT-A--TT-AT
** *
23654888 ATTAAATTAATAAAATACTATTAAGATAAGTATTAT
1 ATTAAATT--TAATTTAATATTAAGATAA-TATTAT
*
23654924 ATTAAATTTAATATTAAACTATTAAAATAATATTA
1 ATTAAATTTAAT-TT-AA-TATTAAGATAATATTA
23654959 ATTTTGGAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
34 3 0.05
35 1 0.02
36 16 0.28
37 20 0.34
39 17 0.29
40 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (33 bp):
ATTAAATTTAATTTAATATTAAGATAATATTAT
Found at i:23654911 original size:25 final size:25
Alignment explanation
Indices: 23654857--23654911 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
23654847 AAACATTAAA
*
23654857 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
23654882 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
23654906 TATTAA
1 T-TTAA
23654912 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:23656788 original size:15 final size:15
Alignment explanation
Indices: 23656768--23656797 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23656758 TCTTTGGATG
23656768 CTACTTTCATCACAT
1 CTACTTTCATCACAT
23656783 CTACTTTCATCACAT
1 CTACTTTCATCACAT
23656798 TTACAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (15 bp):
CTACTTTCATCACAT
Found at i:23660988 original size:26 final size:27
Alignment explanation
Indices: 23660942--23661023 Score: 105
Period size: 26 Copynumber: 3.1 Consensus size: 27
23660932 GCAAATCATG
* *
23660942 GACCAAAATACCCTCGATGGGTAAAAT
1 GACCGAAATACTCTCGATGGGTAAAAT
23660969 GACCGAAATA-TCTCGATGGGTAAAAT
1 GACCGAAATACTCTCGATGGGTAAAAT
* *
23660995 GACCGTAATACTCTTG-TAGGGTAAAAT
1 GACCGAAATACTCTCGAT-GGGTAAAAT
23661022 GA
1 GA
23661024 TCGTAATCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 25 0.51
27 24 0.49
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (27 bp):
GACCGAAATACTCTCGATGGGTAAAAT
Found at i:23661028 original size:27 final size:27
Alignment explanation
Indices: 23660960--23661134 Score: 150
Period size: 27 Copynumber: 6.7 Consensus size: 27
23660950 TACCCTCGAT
* *
23660960 GGGTAAAATGACCGAAATA-TCTCG-A
1 GGGTAAAATGACCGTAATACTCTTGTA
23660985 TGGGTAAAATGACCGTAATACTCTTGTA
1 -GGGTAAAATGACCGTAATACTCTTGTA
* * *
23661013 GGGTAAAATGATCGTAAT-CT-AT-CA
1 GGGTAAAATGACCGTAATACTCTTGTA
* * *
23661037 -GGTAAAATGACCATAATCCCCTTGTA
1 GGGTAAAATGACCGTAATACTCTTGTA
* * *
23661063 GGGTAAAATAACCGTAATGCCCCTT-TA
1 GGGTAAAATGACCGTAAT-ACTCTTGTA
*
23661090 GGGTAAAATGACCGTAATGC-CTCTGTA
1 GGGTAAAATGACCGTAATACTCT-TGTA
*
23661117 GGGTAAAATGACTGTAAT
1 GGGTAAAATGACCGTAAT
23661135 GCCCCTGTTA
Statistics
Matches: 125, Mismatches: 15, Indels: 17
0.80 0.10 0.11
Matches are distributed among these distances:
23 15 0.12
24 2 0.02
25 4 0.03
26 23 0.18
27 74 0.59
28 7 0.06
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATACTCTTGTA
Found at i:23661119 original size:54 final size:55
Alignment explanation
Indices: 23660986--23661140 Score: 189
Period size: 54 Copynumber: 2.9 Consensus size: 55
23660976 ATATCTCGAT
* *
23660986 GGGTAAAATGACCGTAATACTCTTGTAGGGTAAAATGATCGTAAT----CTATCA
1 GGGTAAAATGACCGTAATCCTCTTGTAGGGTAAAATGACCGTAATGCCCCTATCA
* * * *
23661037 -GGTAAAATGACCATAATCCCCTTGTAGGGTAAAATAACCGTAATGCCCCT-TTA
1 GGGTAAAATGACCGTAATCCTCTTGTAGGGTAAAATGACCGTAATGCCCCTATCA
*
23661090 GGGTAAAATGACCGTAATGCCTC-TGTAGGGTAAAATGACTGTAATGCCCCT
1 GGGTAAAATGACCGTAAT-CCTCTTGTAGGGTAAAATGACCGTAATGCCCCT
23661141 GTTACTGGTG
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
50 39 0.44
53 2 0.02
54 44 0.50
55 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (55 bp):
GGGTAAAATGACCGTAATCCTCTTGTAGGGTAAAATGACCGTAATGCCCCTATCA
Found at i:23661135 original size:27 final size:26
Alignment explanation
Indices: 23660986--23661142 Score: 151
Period size: 27 Copynumber: 6.0 Consensus size: 26
23660976 ATATCTCGAT
* *
23660986 GGGTAAAATGACCGTAATACTCTTGTA
1 GGGTAAAATGACCGTAAT-CCCCTGTA
* *
23661013 GGGTAAAATGATCGTAAT---CTATCA
1 GGGTAAAATGACCGTAATCCCCTGT-A
*
23661037 -GGTAAAATGACCATAATCCCCTTGTA
1 GGGTAAAATGACCGTAATCCCC-TGTA
* *
23661063 GGGTAAAATAACCGTAATGCCCCTTTA
1 GGGTAAAATGACCGTAAT-CCCCTGTA
*
23661090 GGGTAAAATGACCGTAATGCCTCTGTA
1 GGGTAAAATGACCGTAAT-CCCCTGTA
*
23661117 GGGTAAAATGACTGTAATGCCCCTGT
1 GGGTAAAATGACCGTAAT-CCCCTGT
23661143 TACTGGTGGC
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
23 17 0.16
24 1 0.01
26 2 0.02
27 85 0.78
28 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (26 bp):
GGGTAAAATGACCGTAATCCCCTGTA
Found at i:23661300 original size:32 final size:32
Alignment explanation
Indices: 23661251--23661481 Score: 117
Period size: 32 Copynumber: 7.2 Consensus size: 32
23661241 GATGCTAATA
* *
23661251 ATGGCTTTGTG-TCGATCATATTAACGTTACTG
1 ATGGCTTGGTGCT-GATCATATTCACGTTACTG
* *
23661283 ATGGCTTGGTGCTGATCATATTGACGTTACCG
1 ATGGCTTGGTGCTGATCATATTCACGTTACTG
* *
23661315 ATGGC-TGTGTG-TCGATCAT-TTCACTATTACTA
1 ATGGCTTG-GTGCT-GATCATATTCAC-GTTACTG
*
23661347 ATGG-TTGTGTACTGATCATA-TCAC-TACTACTG
1 ATGGCTTG-GTGCTGATCATATTCACGT--TACTG
* * * *
23661379 ATGGCTTTGTGCCGATCATGTT-ACCATTACTG
1 ATGGCTTGGTGCTGATCATATTCA-CGTTACTG
* * *
23661411 ATGG-TTGTGTGCCGGTCATA-TCACTGCTACTG
1 ATGGCTTG-GTGCTGATCATATTCAC-GTTACTG
* * * *
23661443 ATGGCTTTGTGCTAATCACATT-AC-TATACTT
1 ATGGCTTGGTGCTGATCATATTCACGT-TACTG
23661474 ATGGCTTG
1 ATGGCTTG
23661482 TAGTCATTCT
Statistics
Matches: 154, Mismatches: 26, Indels: 39
0.70 0.12 0.18
Matches are distributed among these distances:
30 1 0.01
31 22 0.14
32 121 0.79
33 9 0.06
34 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (32 bp):
ATGGCTTGGTGCTGATCATATTCACGTTACTG
Found at i:23661382 original size:64 final size:64
Alignment explanation
Indices: 23661314--23661454 Score: 194
Period size: 64 Copynumber: 2.2 Consensus size: 64
23661304 TGACGTTACC
* * * *
23661314 GATGGCTGTGTGTCGATCAT-TTCACTATTACTAATGGTTGTGTACTGATCATATCACTACTACT
1 GATGGCTTTGTGCCGATCATGTT-ACCATTACTAATGGTTGTGTACCGATCATATCACTACTACT
* * * *
23661378 GATGGCTTTGTGCCGATCATGTTACCATTACTGATGGTTGTGTGCCGGTCATATCACTGCTACT
1 GATGGCTTTGTGCCGATCATGTTACCATTACTAATGGTTGTGTACCGATCATATCACTACTACT
23661442 GATGGCTTTGTGC
1 GATGGCTTTGTGC
23661455 TAATCACATT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 66 0.97
65 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (64 bp):
GATGGCTTTGTGCCGATCATGTTACCATTACTAATGGTTGTGTACCGATCATATCACTACTACT
Found at i:23661559 original size:26 final size:26
Alignment explanation
Indices: 23661530--23661580 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
23661520 GACTCTTAGC
* *
23661530 CATTCTGACTACTGGCAGCTCTACTG
1 CATTATGACTACTGGCAGCTATACTG
*
23661556 CATTATTACTACTGGCAGCTATACT
1 CATTATGACTACTGGCAGCTATACT
23661581 ACGATATTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATACTG
Found at i:23664822 original size:25 final size:25
Alignment explanation
Indices: 23664785--23664832 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23664775 TTGTAAATCA
*
23664785 GAAAAATATCTTTAGA-AATTTTTT
1 GAAAAATATCTTTAAAGAATTTTTT
*
23664809 GAAATAATCTCTTTAAAGAATTTT
1 GAAA-AATATCTTTAAAGAATTTT
23664833 CTCTTTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 10 0.50
26 6 0.30
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (25 bp):
GAAAAATATCTTTAAAGAATTTTTT
Found at i:23669816 original size:18 final size:17
Alignment explanation
Indices: 23669793--23669851 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 17
23669783 TCTAGTATAC
23669793 ATAAAAGATTTAAAAAAT
1 ATAAAA-ATTTAAAAAAT
* * *
23669811 ATAAAAA-ATCAAATAT
1 ATAAAAATTTAAAAAAT
*
23669827 ATAAAAATTTTAAAAAT
1 ATAAAAATTTAAAAAAT
23669844 AATAAAAA
1 -ATAAAAA
23669852 ACAAATATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 13 0.39
17 7 0.21
18 13 0.39
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
ATAAAAATTTAAAAAAT
Found at i:23669830 original size:16 final size:16
Alignment explanation
Indices: 23669809--23669860 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
23669799 GATTTAAAAA
23669809 ATATAAAAAATCAAAT
1 ATATAAAAAATCAAAT
* * *
23669825 ATATAAAAATTTTAAAA
1 ATATAAAAA-ATCAAAT
23669842 ATAATAAAAAA-CAAAT
1 AT-ATAAAAAATCAAAT
23669858 ATA
1 ATA
23669861 AAAGATTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
15 1 0.04
16 14 0.50
17 6 0.21
18 7 0.25
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (16 bp):
ATATAAAAAATCAAAT
Found at i:23669839 original size:34 final size:33
Alignment explanation
Indices: 23669793--23669867 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
23669783 TCTAGTATAC
23669793 ATAAAAGATTTAAAAA-ATATAAAAAATCAAATAT
1 ATAAAAGATTTAAAAATA-ATAAAAAA-CAAATAT
23669827 ATAAAA-ATTTTAAAAATAATAAAAAAC-AA-AT
1 ATAAAAGA-TTTAAAAATAATAAAAAACAAATAT
23669858 ATAAAAGATT
1 ATAAAAGATT
23669868 AATTTAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
31 10 0.26
32 3 0.08
33 2 0.05
34 22 0.58
35 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (33 bp):
ATAAAAGATTTAAAAATAATAAAAAACAAATAT
Found at i:23669877 original size:33 final size:34
Alignment explanation
Indices: 23669793--23669860 Score: 104
Period size: 33 Copynumber: 2.0 Consensus size: 34
23669783 TCTAGTATAC
*
23669793 ATAAAAGATTTAAAAAAT-ATAAAAAATCAAATAT
1 ATAAAA-ATTTTAAAAATAATAAAAAATCAAATAT
23669827 ATAAAAATTTTAAAAATAATAAAAAA-CAAATAT
1 ATAAAAATTTTAAAAATAATAAAAAATCAAATAT
23669860 A
1 A
23669861 AAAGATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 18 0.56
34 14 0.44
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (34 bp):
ATAAAAATTTTAAAAATAATAAAAAATCAAATAT
Found at i:23674673 original size:14 final size:14
Alignment explanation
Indices: 23674654--23674703 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
23674644 TAGTTTCTTC
*
23674654 AAAAAAAAACTCGA
1 AAAAAAAAATTCGA
*
23674668 AAAAAAAATTTC-A
1 AAAAAAAAATTCGA
23674681 AAAAAAAAATTTCGA
1 AAAAAAAAA-TTCGA
23674696 AAAAAAAA
1 AAAAAAAA
23674704 CTAGTTTCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.29
14 13 0.42
15 9 0.29
ACGTcount: A:0.74, C:0.08, G:0.04, T:0.14
Consensus pattern (14 bp):
AAAAAAAAATTCGA
Found at i:23674765 original size:14 final size:14
Alignment explanation
Indices: 23674746--23674795 Score: 82
Period size: 14 Copynumber: 3.6 Consensus size: 14
23674736 TCAAGTTGTG
23674746 AAAAAAAATTTTGA
1 AAAAAAAATTTTGA
*
23674760 AAAAAAAAATTTGA
1 AAAAAAAATTTTGA
*
23674774 AAAAAAAATTGTGA
1 AAAAAAAATTTTGA
23674788 AAAAAAAA
1 AAAAAAAA
23674796 AAGAGAGAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (14 bp):
AAAAAAAATTTTGA
Found at i:23674766 original size:15 final size:15
Alignment explanation
Indices: 23674746--23674796 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
23674736 TCAAGTTGTG
23674746 AAAAAAAATTTTGAA
1 AAAAAAAATTTTGAA
23674761 AAAAAAAA-TTTG-A
1 AAAAAAAATTTTGAA
*
23674774 AAAAAAAATTGTGAA
1 AAAAAAAATTTTGAA
23674789 AAAAAAAA
1 AAAAAAAA
23674797 AGAGAGAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
13 9 0.27
14 7 0.21
15 17 0.52
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (15 bp):
AAAAAAAATTTTGAA
Found at i:23675882 original size:24 final size:24
Alignment explanation
Indices: 23675816--23675870 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
23675806 AAGAAAAATG
* * *
23675816 AAAGAAAAAGAAACAGAAATTGAA
1 AAAGAAAATGAGATAGAAATTGAA
* *
23675840 AAAGAAAATGAGATTGAAATTGCA
1 AAAGAAAATGAGATAGAAATTGAA
23675864 AAAGAAA
1 AAAGAAA
23675871 GTATGGAAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.65, C:0.04, G:0.18, T:0.13
Consensus pattern (24 bp):
AAAGAAAATGAGATAGAAATTGAA
Found at i:23680074 original size:15 final size:16
Alignment explanation
Indices: 23680045--23680074 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23680035 CAAACATGCT
23680045 TTAACACATTATCAAA
1 TTAACACATTATCAAA
23680061 TTAACACA-TATCAA
1 TTAACACATTATCAA
23680075 CAAGACACAA
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:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:23682600 original size:21 final size:21
Alignment explanation
Indices: 23682560--23682600 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23682550 ATAGAAATGA
* *
23682560 GGTCATACCACTTGACCTTAG
1 GGTCATACCACTTCAACTTAG
*
23682581 GGTCATATCACTTCAACTTA
1 GGTCATACCACTTCAACTTA
23682601 ATAAATCGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (21 bp):
GGTCATACCACTTCAACTTAG
Found at i:23685399 original size:16 final size:16
Alignment explanation
Indices: 23685378--23685410 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23685368 CTCGCTGTAT
23685378 TGGAATAGAGACGTAA
1 TGGAATAGAGACGTAA
*
23685394 TGGAATAGAGGCGTAA
1 TGGAATAGAGACGTAA
23685410 T
1 T
23685411 AGGTAATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGACGTAA
Found at i:23685479 original size:44 final size:46
Alignment explanation
Indices: 23685392--23685484 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
23685382 ATAGAGACGT
*
23685392 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
23685438 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
23685482 AAT
1 AAT
23685485 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:23685480 original size:39 final size:44
Alignment explanation
Indices: 23685392--23685497 Score: 141
Period size: 39 Copynumber: 2.5 Consensus size: 44
23685382 ATAGAGACGT
*
23685392 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--ATGG
23685438 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
*
23685477 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
23685498 CATAAGGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 19 0.33
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 19 0.33
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:23685668 original size:26 final size:26
Alignment explanation
Indices: 23685590--23685668 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
23685580 ATAAGCTTAT
*
23685590 TAATATTAATAATAA-ATAATTTAATCA
1 TAAT-TTAATAAAAATATAATTTAAT-A
* * * * * *
23685617 TATTTTAACATAATTATTATTAAATA
1 TAATTTAATAAAAATATAATTTAATA
23685643 TAATTTAATAAAAATATAATTTAATA
1 TAATTTAATAAAAATATAATTTAATA
23685669 AAATATATGA
Statistics
Matches: 38, Mismatches: 13, Indels: 3
0.70 0.24 0.06
Matches are distributed among these distances:
26 27 0.71
27 11 0.29
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (26 bp):
TAATTTAATAAAAATATAATTTAATA
Found at i:23685683 original size:18 final size:17
Alignment explanation
Indices: 23685640--23685690 Score: 77
Period size: 16 Copynumber: 3.0 Consensus size: 17
23685630 TTATTATTAA
23685640 ATATAATTTAATAAAA-
1 ATATAATTTAATAAAAT
23685656 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
23685673 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
23685691 CATAATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 16 0.50
17 4 0.12
18 12 0.38
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23696359 original size:20 final size:20
Alignment explanation
Indices: 23696334--23696375 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
23696324 CCTTAACCAG
23696334 GTCACCAACTCAGTTAGCAA
1 GTCACCAACTCAGTTAGCAA
23696354 GTCACCAACTCAGTTAGCAA
1 GTCACCAACTCAGTTAGCAA
23696374 GT
1 GT
23696376 TATGAGGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (20 bp):
GTCACCAACTCAGTTAGCAA
Found at i:23696555 original size:18 final size:19
Alignment explanation
Indices: 23696532--23696574 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
23696522 ACTAAAGTTT
23696532 TTTTAATATTT-TTAT-ACA
1 TTTTAAT-TTTATTATCACA
23696550 TTTTAATTTTATTATGCACA
1 TTTTAATTTTATTAT-CACA
23696570 TTTTA
1 TTTTA
23696575 TTACCTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 11 0.50
20 8 0.36
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTAATTTTATTATCACA
Found at i:23699654 original size:90 final size:92
Alignment explanation
Indices: 23699498--23699722 Score: 260
Period size: 90 Copynumber: 2.4 Consensus size: 92
23699488 TCGCTCTACC
* *
23699498 AAATAAAATATCA-ATTTTATATTTAAATTAAAAAAACACATTTACAAAAAAAAAGGTACAATAC
1 AAATAAAATATCATTTTTTATATTTAAATT-AAAAAATACATTT--AAAAAAAAAGGTACAATAC
* * * *
23699562 ACTTGTGGTGCCACTCTTAAT-GTCTCGACA
63 ACTGGTAGCGCCACTCTTAATGGT-TCCACA
*
23699592 AAATAAAATATCATTTTTTATATTTAAATTAAAAAATACA-TT-AAAAAACAGGTACAATACACT
1 AAATAAAATATCATTTTTTATATTTAAATTAAAAAATACATTTAAAAAAAAAGGTACAATACACT
* *
23699655 GGTAGCGCCATTCTTAATGGTTCCACC
66 GGTAGCGCCACTCTTAATGGTTCCACA
* *
23699682 AAATAAAATATGATTTTTTTAATTTTTAAATTTAAAAAATA
1 AAATAAAATATCA-TTTTTT-ATATTTAAA-TTAAAAAATA
23699723 AAAAAATATC
Statistics
Matches: 115, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
90 50 0.43
91 8 0.07
92 8 0.07
93 12 0.10
94 22 0.19
95 15 0.13
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (92 bp):
AAATAAAATATCATTTTTTATATTTAAATTAAAAAATACATTTAAAAAAAAAGGTACAATACACT
GGTAGCGCCACTCTTAATGGTTCCACA
Found at i:23700561 original size:13 final size:14
Alignment explanation
Indices: 23700536--23700564 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23700526 GGCAGCAATT
23700536 AAAACAAATAACAA
1 AAAACAAATAACAA
23700550 AAAACAAA-AACAA
1 AAAACAAATAACAA
23700563 AA
1 AA
23700565 TATCCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAACAAATAACAA
Found at i:23700990 original size:44 final size:44
Alignment explanation
Indices: 23700892--23700978 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
23700882 GATTAATCAT
* *
23700892 GTAATAAAACCATCCAAACAAGCAGTCAAGCTAGCAATTATAAC
1 GTAATAAAATCATCCAAACAAGCAGTCAAGCAAGCAATTATAAC
23700936 GTAATAAAATCATCCAAACAAGCAGTCAAGCAAGCAATTATAA
1 GTAATAAAATCATCCAAACAAGCAGTCAAGCAAGCAATTATAA
23700979 TGTTTAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.49, C:0.21, G:0.11, T:0.18
Consensus pattern (44 bp):
GTAATAAAATCATCCAAACAAGCAGTCAAGCAAGCAATTATAAC
Found at i:23702074 original size:34 final size:29
Alignment explanation
Indices: 23702012--23702093 Score: 76
Period size: 32 Copynumber: 2.6 Consensus size: 29
23702002 AAACCCACAC
*
23702012 ATATA-TATCATGTATAGTAGAACCATGCAT
1 ATATATTAT-ATGTATA-TAGAACCATGCAA
23702042 ATATATGTACTATGTATATAGCATACCTATGCAA
1 ATATAT-TA-TATGTATATAG-A-ACC-ATGCAA
*
23702076 ATATATTATATATATATA
1 ATATATTATATGTATATA
23702094 ACACCCATGC
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
30 5 0.11
31 3 0.07
32 19 0.43
33 6 0.14
34 11 0.25
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (29 bp):
ATATATTATATGTATATAGAACCATGCAA
Found at i:23702138 original size:30 final size:32
Alignment explanation
Indices: 23702073--23702154 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 32
23702063 CATACCTATG
**
23702073 CAAATATATTATATATATATAACACCCATGCACC
1 CAAATATA-TAT-TATATATAACACCCATAAACC
23702107 CAAATATATATTATATATAACA-CCA-AAACC
1 CAAATATATATTATATATAACACCCATAAACC
*
23702137 C--ATATATATTGTATATAA
1 CAAATATATATTATATATAA
23702155 ATAACAAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 16 0.36
30 4 0.09
31 3 0.07
32 11 0.24
33 3 0.07
34 8 0.18
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (32 bp):
CAAATATATATTATATATAACACCCATAAACC
Found at i:23707622 original size:342 final size:342
Alignment explanation
Indices: 23706997--23707679 Score: 1357
Period size: 342 Copynumber: 2.0 Consensus size: 342
23706987 AAGAAGTTTG
23706997 AATCGATACAGTTTTCTTTCTCAAAATATCAAAAACCACATTAGCTTTGCCTAGATGGTATTTGA
1 AATCGATACAGTTTTCTTTCTCAAAATATCAAAAACCACATTAGCTTTGCCTAGATGGTATTTGA
23707062 TGGTCAAGTCGTAATCTTTTAACAGCTTGATCCATCTTTTTTGACTTAGATTCAGCTCCTTTTGA
66 TGGTCAAGTCGTAATCTTTTAACAGCTTGATCCATCTTTTTTGACTTAGATTCAGCTCCTTTTGA
23707127 GAGAGAAAATACTTTAGGCTCTTGTGGTTAGAGAATATACGACATTTCTCCCCATAGACATAATG
131 GAGAGAAAATACTTTAGGCTCTTGTGGTTAGAGAATATACGACATTTCTCCCCATAGACATAATG
23707192 TCTCAAAATCTTTAGGGCTAACACCACAACTGCTTTTCTAAATGAGGGTTGAGTTGGTGTGACAC
196 TCTCAAAATCTTTAGGGCTAACACCACAACTGCTTTTCTAAATGAGGGTTGAGTTGGTGTGACAC
23707257 ATAAGCAATCACCTGTCTTTTCTAAATGAGTACACATCCTATCCCATTCAAGCATGCATCTGTAA
261 ATAAGCAATCACCTGTCTTTTCTAAATGAGTACACATCCTATCCCATTCAAGCATGCATCTGTAA
23707322 ACACAACATATTGTACA
326 ACACAACATATTGTACA
23707339 AATCGATACAGTTTTCTTTCTCAAAATATCAAAAACCACATTAGCTTTGCCTAGATGGTATTTGA
1 AATCGATACAGTTTTCTTTCTCAAAATATCAAAAACCACATTAGCTTTGCCTAGATGGTATTTGA
23707404 TGGTCAAGTCGTAATCTTTTAACAGCTTGATCCATCTTTTTTGACTTAGATTCAGCTCCTTTTGA
66 TGGTCAAGTCGTAATCTTTTAACAGCTTGATCCATCTTTTTTGACTTAGATTCAGCTCCTTTTGA
*
23707469 GAGAGAAAATACTTTAGGCTCTTGTGGTTAGAGAATATACGACATTTCTCCCTATAGACATAATG
131 GAGAGAAAATACTTTAGGCTCTTGTGGTTAGAGAATATACGACATTTCTCCCCATAGACATAATG
23707534 TCTCAAAATCTTTAGGGCTAACACCACAACTGCTTTTCTAAATGAGGGTTGAGTTGGTGTGACAC
196 TCTCAAAATCTTTAGGGCTAACACCACAACTGCTTTTCTAAATGAGGGTTGAGTTGGTGTGACAC
23707599 ATAAGCAATCACCTGTCTTTTCTAAATGAGTACACATCCTATCCCATTCAAGCATGCATCTGTAA
261 ATAAGCAATCACCTGTCTTTTCTAAATGAGTACACATCCTATCCCATTCAAGCATGCATCTGTAA
23707664 ACACAACATATTGTAC
326 ACACAACATATTGTAC
23707680 TCTCACCTCT
Statistics
Matches: 340, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
342 340 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (342 bp):
AATCGATACAGTTTTCTTTCTCAAAATATCAAAAACCACATTAGCTTTGCCTAGATGGTATTTGA
TGGTCAAGTCGTAATCTTTTAACAGCTTGATCCATCTTTTTTGACTTAGATTCAGCTCCTTTTGA
GAGAGAAAATACTTTAGGCTCTTGTGGTTAGAGAATATACGACATTTCTCCCCATAGACATAATG
TCTCAAAATCTTTAGGGCTAACACCACAACTGCTTTTCTAAATGAGGGTTGAGTTGGTGTGACAC
ATAAGCAATCACCTGTCTTTTCTAAATGAGTACACATCCTATCCCATTCAAGCATGCATCTGTAA
ACACAACATATTGTACA
Found at i:23712834 original size:34 final size:34
Alignment explanation
Indices: 23712790--23712865 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
23712780 GAGTTAGTTT
*
23712790 ATTAACTTTATTTCAGCTCAAATAAGTGTTAGTA
1 ATTAATTTTATTTCAGCTCAAATAAGTGTTAGTA
*
23712824 ATTAATTTTATTTCAGCTTAAATAAGTGTTAGTA
1 ATTAATTTTATTTCAGCTCAAATAAGTGTTAGTA
23712858 ATTAATTT
1 ATTAATTT
23712866 GTTTAAATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.46
Consensus pattern (34 bp):
ATTAATTTTATTTCAGCTCAAATAAGTGTTAGTA
Done.