Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 202 of 214
Found at i:59283518 original size:23 final size:23
Alignment explanation
Indices: 59283490--59283533 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
59283480 TAAATTTTTT
59283490 TAAATTTTAAAATATTTTTAAAA
1 TAAATTTTAAAATATTTTTAAAA
* *
59283513 TAAATTTTTAAATTTTTTTAA
1 TAAATTTTAAAATATTTTTAA
59283534 TTTTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TAAATTTTAAAATATTTTTAAAA
Found at i:59283538 original size:29 final size:32
Alignment explanation
Indices: 59283505--59283575 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
59283495 TTTAAAATAT
59283505 TTTTAAAATA-AATTTTTAA-ATTT-TTTTAA
1 TTTTAAAATACAATTTTTAATATTTATTTTAA
** *
59283534 TTTTAAAATACTTTTTTTAATTTTTATTTTAA
1 TTTTAAAATACAATTTTTAATATTTATTTTAA
59283566 TTTTAAAATA
1 TTTTAAAATA
59283576 TTTTAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.28
30 7 0.19
31 3 0.08
32 16 0.44
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (32 bp):
TTTTAAAATACAATTTTTAATATTTATTTTAA
Found at i:59283568 original size:41 final size:39
Alignment explanation
Indices: 59283444--59283579 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
59283434 AAATATATTT
*
59283444 ATTTTTTTAATTTTAAAATA-TTTTTTACATACTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTTTA-ATAATTTTTAA
**
59283483 ATTTTTTTAAATTTTAAAATATTTTTAAAATAAATTTTTAA
1 ATTTTTTT-AATTTTAAAATATTTTTTTAAT-AATTTTTAA
*
59283524 ATTTTTTTAATTTTAAAATACTTTTTT--TAATTTTT--
1 ATTTTTTTAATTTTAAAATATTTTTTTAATAATTTTTAA
59283559 A---TTTTAATTTTAAAATATTTT
1 ATTTTTTTAATTTTAAAATATTTT
59283580 AAAAATATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
32 19 0.22
35 1 0.01
37 7 0.08
38 1 0.01
39 8 0.09
40 30 0.34
41 21 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (39 bp):
ATTTTTTTAATTTTAAAATATTTTTTTAATAATTTTTAA
Found at i:59283579 original size:29 final size:27
Alignment explanation
Indices: 59283505--59283593 Score: 79
Period size: 32 Copynumber: 3.0 Consensus size: 27
59283495 TTTAAAATAT
59283505 TTTTAAAATAAATTTTTAAATTTTTTTAA
1 TTTTAAAAT--ATTTTTAAATTTTTTTAA
*
59283534 TTTTAAAATACTTTTTTTAATTTTTATTTTAA
1 TTTTAAAATA---TTTTTAA-ATTT-TTTTAA
* *
59283566 TTTTAAAATATTTTAAAAATATTTTTAA
1 TTTTAAAATATTTT-TAAATTTTTTTAA
59283594 AATACTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
27 1 0.02
28 6 0.12
29 15 0.30
30 9 0.18
31 3 0.06
32 16 0.32
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTAAAATATTTTTAAATTTTTTTAA
Found at i:59283602 original size:12 final size:11
Alignment explanation
Indices: 59283454--59283603 Score: 65
Period size: 11 Copynumber: 14.4 Consensus size: 11
59283444 ATTTTTTTAA
59283454 TTTTAAAATAT
1 TTTTAAAATAT
* *
59283465 TTTTTACATACT
1 TTTTAAAATA-T
59283477 TTTT-AAAT-T
1 TTTTAAAATAT
*
59283486 TTTT-TAA-A-
1 TTTTAAAATAT
59283494 TTTTAAAATAT
1 TTTTAAAATAT
59283505 TTTTAAAATAAAT
1 TTTTAAAAT--AT
59283518 TTTT-AAAT-T
1 TTTTAAAATAT
*
59283527 TTTT----TAA
1 TTTTAAAATAT
59283534 TTTTAAAATACT
1 TTTTAAAATA-T
**
59283546 TTTT-TTA-AT
1 TTTTAAAATAT
*** *
59283555 TTTTATTTTAA
1 TTTTAAAATAT
59283566 TTTTAAAATAT
1 TTTTAAAATAT
*
59283577 TTTAAAAATAT
1 TTTTAAAATAT
59283588 TTTTAAAATACT
1 TTTTAAAATA-T
59283600 TTTT
1 TTTT
59283604 TTAATTTCTT
Statistics
Matches: 106, Mismatches: 17, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
6 1 0.01
7 4 0.04
8 4 0.04
9 19 0.18
10 4 0.04
11 50 0.47
12 18 0.17
13 6 0.06
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:59290030 original size:22 final size:22
Alignment explanation
Indices: 59290005--59290048 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59289995 TTAGACCAAC
* *
59290005 AAAAATTAAAAATTTATAAAAT
1 AAAAATAAAAAATATATAAAAT
*
59290027 AAAAATAAAAAATATATTAAAT
1 AAAAATAAAAAATATATAAAAT
59290049 TGGTTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AAAAATAAAAAATATATAAAAT
Found at i:59291600 original size:24 final size:24
Alignment explanation
Indices: 59291550--59291610 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
59291540 TAATATTGTG
*
59291550 AAAAATAAATTTATATTATTTCATA
1 AAAAATATATTTATATTATTT-ATA
*
59291575 AAAAATATATTTATTTTAATTT-TA
1 AAAAATATATTTATATT-ATTTATA
*
59291599 AACAATAT-TTTA
1 AAAAATATATTTA
59291611 ACATACCGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.12
24 9 0.28
25 15 0.47
26 4 0.12
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAAATATATTTATATTATTTATA
Found at i:59292023 original size:27 final size:27
Alignment explanation
Indices: 59291957--59292037 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
59291947 TAACTATTAT
* * * *
59291957 TTATGAAGTTTATAAAATTTTGAAAATG
1 TTATAAAGTTTTTAAAAATTTG-AAACG
59291985 TTATATAA-TTTTTAAAAATTTGAAACG
1 TTATA-AAGTTTTTAAAAATTTGAAACG
*
59292012 TTATAAAG-TTTTAATAAATTTTAAAC
1 TTATAAAGTTTTTAA-AAATTTGAAAC
59292038 AAATTATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 8 0.18
27 19 0.42
28 16 0.36
29 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (27 bp):
TTATAAAGTTTTTAAAAATTTGAAACG
Found at i:59292062 original size:29 final size:30
Alignment explanation
Indices: 59292012--59292078 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
59292002 ATTTGAAACG
*
59292012 TTATAAAGTTTTAATAAATTTTAAACA-A-A
1 TTATAAAGTTCTAATAAATTTTAAA-ATATA
***
59292041 TTATAAAGTTCTAATTTTTTTTAAAATATA
1 TTATAAAGTTCTAATAAATTTTAAAATATA
59292071 TTATAAAG
1 TTATAAAG
59292079 CTTTTTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 1 0.03
29 22 0.69
30 9 0.28
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (30 bp):
TTATAAAGTTCTAATAAATTTTAAAATATA
Found at i:59306105 original size:37 final size:35
Alignment explanation
Indices: 59306063--59306139 Score: 120
Period size: 34 Copynumber: 2.2 Consensus size: 35
59306053 GAATCAATGG
59306063 CTAAGAAAAGACCAGTTAGTAACATATTGAGCATTAA
1 CTAAG-AAA-ACCAGTTAGTAACATATTGAGCATTAA
*
59306100 CTAAG-AAACCAGTTAGTAATATATTGAGCATTAA
1 CTAAGAAAACCAGTTAGTAACATATTGAGCATTAA
59306134 CTAAGA
1 CTAAGA
59306140 GACAAGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
34 31 0.82
35 2 0.05
37 5 0.13
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (35 bp):
CTAAGAAAACCAGTTAGTAACATATTGAGCATTAA
Found at i:59306114 original size:34 final size:34
Alignment explanation
Indices: 59306073--59306139 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
59306063 CTAAGAAAAG
59306073 ACCAGTTAGTAACATATTGAGCATTAACTAAGAA
1 ACCAGTTAGTAACATATTGAGCATTAACTAAGAA
*
59306107 ACCAGTTAGTAATATATTGAGCATTAACTAAGA
1 ACCAGTTAGTAACATATTGAGCATTAACTAAGA
59306140 GACAAGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (34 bp):
ACCAGTTAGTAACATATTGAGCATTAACTAAGAA
Found at i:59310939 original size:12 final size:13
Alignment explanation
Indices: 59310918--59310946 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
59310908 CCAAAACAGG
59310918 AAAAGTAAAAAGA
1 AAAAGTAAAAAGA
59310931 AAAAG-AAAAAGA
1 AAAAGTAAAAAGA
59310943 AAAA
1 AAAA
59310947 AAGCCAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAAGTAAAAAGA
Found at i:59321033 original size:14 final size:15
Alignment explanation
Indices: 59321009--59321050 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
59320999 AAATAAATTA
59321009 AAAAATCAAAAAAAG-
1 AAAAAT-AAAAAAAGC
*
59321024 AAAAAT-AAAATAGC
1 AAAAATAAAAAAAGC
59321038 AAAAATAAAAAAA
1 AAAAATAAAAAAA
59321051 ACTCTCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 6 0.26
14 6 0.26
15 11 0.48
ACGTcount: A:0.81, C:0.05, G:0.05, T:0.10
Consensus pattern (15 bp):
AAAAATAAAAAAAGC
Found at i:59325936 original size:24 final size:24
Alignment explanation
Indices: 59325902--59325954 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
59325892 TTTCTAGAAG
* **
59325902 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
59325926 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
59325950 ATTTA
1 ATTTA
59325955 ACTTTGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:59325964 original size:24 final size:24
Alignment explanation
Indices: 59325919--59325964 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
59325909 ATTTATGAGT
*
59325919 ATAATATATTTAGCATTTATTAAC
1 ATAATATATTTAACATTTATTAAC
59325943 ATAATATATTTAAC-TTTGATTA
1 ATAATATATTTAACATTT-ATTA
59325965 GAATTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (24 bp):
ATAATATATTTAACATTTATTAAC
Found at i:59339140 original size:16 final size:16
Alignment explanation
Indices: 59339119--59339152 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59339109 CTAAATTATG
*
59339119 TAAAAAATTTAAAATA
1 TAAAAAATATAAAATA
*
59339135 TAAAAAATATGAAATA
1 TAAAAAATATAAAATA
59339151 TA
1 TA
59339153 TGAATTAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAAAATATAAAATA
Found at i:59339860 original size:29 final size:27
Alignment explanation
Indices: 59339804--59339882 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 27
59339794 TTAAAATGAC
* * *
59339804 TATAAAATTTTTCAATAAATAAAAAAAT
1 TATAAAATTATTAAAT-ATTAAAAAAAT
59339832 GTATAAAATTATTAAATATTAAAATAAAT
1 -TATAAAATTATTAAATATTAAAA-AAAT
*
59339861 TA-AATATTATTTTAAATATTAA
1 TATAAAATTA--TTAAATATTAA
59339883 TATAGGCGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
27 6 0.14
28 8 0.19
29 29 0.67
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (27 bp):
TATAAAATTATTAAATATTAAAAAAAT
Found at i:59340149 original size:31 final size:34
Alignment explanation
Indices: 59340101--59340162 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 34
59340091 AGGTGACGTC
59340101 ATTATACTTTAACCC-TTTAAAAT-ATGAAAAAT
1 ATTATACTTTAACCCTTTTAAAATGATGAAAAAT
*
59340133 ATTATA-TTTAATCCTTTTAAAATGATGAAA
1 ATTATACTTTAACCCTTTTAAAATGATGAAA
59340163 TTATAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 14 0.52
33 6 0.22
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (34 bp):
ATTATACTTTAACCCTTTTAAAATGATGAAAAAT
Found at i:59340515 original size:13 final size:13
Alignment explanation
Indices: 59340497--59340524 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
59340487 TCAGCAGCAA
59340497 TGGAGATTTCAGC
1 TGGAGATTTCAGC
59340510 TGGAGATTTCAGC
1 TGGAGATTTCAGC
59340523 TG
1 TG
59340525 TTGGTATTTT
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:0.21, C:0.14, G:0.32, T:0.32
Consensus pattern (13 bp):
TGGAGATTTCAGC
Found at i:59341365 original size:21 final size:21
Alignment explanation
Indices: 59341341--59341393 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
59341331 TATTGTTTCT
* *
59341341 AATCTCACCGCTATAGTATCC
1 AATCTCACCGCTACAGTAACC
*
59341362 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
59341383 AATCTCACCGC
1 AATCTCACCGC
59341394 CACCGCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:59341512 original size:13 final size:13
Alignment explanation
Indices: 59341494--59341528 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
59341484 TCTTCATTGT
59341494 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
59341507 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
59341520 TTTTGAAAA
1 TTTTGAAAA
59341529 TTTTGAATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:59341787 original size:23 final size:21
Alignment explanation
Indices: 59341761--59341817 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
59341751 TATTTATTAA
59341761 ATTTAATTAGAATATATTTAAAT
1 ATTTAATTAGAATA-A-TTAAAT
* *
59341784 ATTTAAATATAATAATTAAAT
1 ATTTAATTAGAATAATTAAAT
59341805 ATTTGTAATTAGA
1 A-TT-TAATTAGA
59341818 TATTGACACA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 7 0.25
22 3 0.11
23 18 0.64
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
ATTTAATTAGAATAATTAAAT
Found at i:59343696 original size:72 final size:72
Alignment explanation
Indices: 59343571--59343741 Score: 258
Period size: 72 Copynumber: 2.4 Consensus size: 72
59343561 AAAATCATAT
* * *
59343571 ATAAACAACTATTGATAAAACTA-ATTTAATAAAAATAAGTAGAACATAAATTCAATATCTAAAG
1 ATAAACAACTATTGATAAAACTAGATTTAACAAAAATAAGTAGAACATAAATTCAATATCCAAAA
59343635 ACCAAAC
66 ACCAAAC
* *
59343642 ATAAACAACTATTAATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGATTTA-ACAAAAATAAGTAGAACATAAATTCAATATCCAAA
59343706 AACCAAAC
65 AACCAAAC
*
59343714 ATAAATAACTATTGATAAAACTAG-TTTA
1 ATAAACAACTATTGATAAAACTAGATTTA
59343742 GCATTGTCAG
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
71 25 0.28
72 65 0.72
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTTAACAAAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:59346122 original size:23 final size:24
Alignment explanation
Indices: 59346074--59346126 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
59346064 TGGAGAAGAA
*
59346074 GAACAAAGAATAAGCACCAGCAGAG
1 GAACAAAGAACAAGCA-CAGCAGAG
*
59346099 GAACAAAGAACCAGCA-AGCAGAG
1 GAACAAAGAACAAGCACAGCAGAG
59346122 GAACA
1 GAACA
59346127 CCAGCACCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 12 0.46
25 14 0.54
ACGTcount: A:0.53, C:0.21, G:0.25, T:0.02
Consensus pattern (24 bp):
GAACAAAGAACAAGCACAGCAGAG
Found at i:59346215 original size:14 final size:14
Alignment explanation
Indices: 59346196--59346225 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
59346186 GAACACCAGC
59346196 ACCAGCAGAGAAGA
1 ACCAGCAGAGAAGA
59346210 ACCAGCAGAGAAGA
1 ACCAGCAGAGAAGA
59346224 AC
1 AC
59346226 AAATGTGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.23, G:0.27, T:0.00
Consensus pattern (14 bp):
ACCAGCAGAGAAGA
Found at i:59348204 original size:17 final size:18
Alignment explanation
Indices: 59348182--59348216 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
59348172 GTTAGGGGTA
59348182 AAAAATCAT-GAATAAAT
1 AAAAATCATGGAATAAAT
*
59348199 AAAAATGATGGAATAAAT
1 AAAAATCATGGAATAAAT
59348217 TGAGAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (18 bp):
AAAAATCATGGAATAAAT
Found at i:59350218 original size:21 final size:22
Alignment explanation
Indices: 59350165--59350220 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
59350155 TTGTCTCATA
59350165 ATTTTTATTTTTCAAAAAACATT
1 ATTTTTATTTTT-AAAAAACATT
** *
59350188 ATAATT-TTTTTAAAATACATT
1 ATTTTTATTTTTAAAAAACATT
59350209 -TTTTTATTTTTA
1 ATTTTTATTTTTA
59350221 TTTAAAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.11
21 15 0.56
22 5 0.19
23 4 0.15
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTTATTTTTAAAAAACATT
Found at i:59359175 original size:41 final size:41
Alignment explanation
Indices: 59359100--59359180 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
59359090 AACTGGTTTG
* * *
59359100 TATTATTTATTTAATTGTGATTATTATCGCAAGTGCTACTA
1 TATTATTCATTTAATGGTGATTATTATCACAAGTGCTACTA
* *
59359141 TATTATTCATTTAATGGTGATTATTATTATAAGTGCTACT
1 TATTATTCATTTAATGGTGATTATTATCACAAGTGCTACT
59359181 CTAAATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (41 bp):
TATTATTCATTTAATGGTGATTATTATCACAAGTGCTACTA
Found at i:59362286 original size:3 final size:3
Alignment explanation
Indices: 59362278--59362303 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59362268 AGGGAAAACA
59362278 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
59362304 AAGGCCACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:59364070 original size:17 final size:17
Alignment explanation
Indices: 59364048--59364082 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
59364038 TTATCAAACA
*
59364048 ATTTAATTATACTTAAT
1 ATTTAATTATACGTAAT
*
59364065 ATTTAATTTTACGTAAT
1 ATTTAATTATACGTAAT
59364082 A
1 A
59364083 CACCAAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTTAATTATACGTAAT
Found at i:59369553 original size:4 final size:4
Alignment explanation
Indices: 59369544--59369593 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
59369534 ATAAAAAAGA
* * *
59369544 TATG TATG TA-- TATG TATG CATG CATG CATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
59369590 TATG
1 TATG
59369594 ATTGAATGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
4 40 0.95
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (4 bp):
TATG
Found at i:59382366 original size:18 final size:18
Alignment explanation
Indices: 59382326--59382368 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
59382316 GTTTAAAGTG
59382326 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
59382344 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
59382362 TAATTAA
1 TAATTAA
59382369 AAACCCATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:59385590 original size:13 final size:13
Alignment explanation
Indices: 59385572--59385603 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59385562 TTAGAATGAA
59385572 ATGAAATGAAATT
1 ATGAAATGAAATT
59385585 ATGAAAT-AAATT
1 ATGAAATGAAATT
59385597 -TGAAATG
1 ATGAAATG
59385604 TTAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.33
12 5 0.28
13 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (13 bp):
ATGAAATGAAATT
Found at i:59390895 original size:21 final size:21
Alignment explanation
Indices: 59390869--59390908 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
59390859 AGTTGGTCGT
59390869 ATGAAATTAAAGAAAAGAATA
1 ATGAAATTAAAGAAAAGAATA
59390890 ATGAAATTAAAGAAAAGAA
1 ATGAAATTAAAGAAAAGAA
59390909 AAGAATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (21 bp):
ATGAAATTAAAGAAAAGAATA
Found at i:59391035 original size:13 final size:13
Alignment explanation
Indices: 59391017--59391049 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
59391007 ATTCATGAAT
59391017 CAAAATCACCATG
1 CAAAATCACCATG
59391030 CAAAATCACCATG
1 CAAAATCACCATG
59391043 CAAAATC
1 CAAAATC
59391050 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.48, C:0.30, G:0.06, T:0.15
Consensus pattern (13 bp):
CAAAATCACCATG
Found at i:59392834 original size:84 final size:84
Alignment explanation
Indices: 59392597--59392835 Score: 379
Period size: 84 Copynumber: 2.8 Consensus size: 84
59392587 CGTTTTGCGG
* * * ** *
59392597 AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGTCACTACAAGATTTTATTTTAGTAGAG
1 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
* *
59392662 AAACAGCGCCGTATTGGCA
66 AAACGGCGCCGAATTGGCA
*
59392681 AACATTAATTCACTCTTGCGGCGTTTTATTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
1 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
59392746 AAACGGCGCCGAATTGGCA
66 AAACGGCGCCGAATTGGCA
* *
59392765 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAATATTTTATTCCACTAGAG
1 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
59392830 AAACGG
66 AAACGG
59392836 TGCCACTTTG
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 143 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (84 bp):
AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
AAACGGCGCCGAATTGGCA
Found at i:59392857 original size:84 final size:83
Alignment explanation
Indices: 59392597--59392876 Score: 355
Period size: 84 Copynumber: 3.3 Consensus size: 83
59392587 CGTTTTGCGG
* * ** *
59392597 AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGTCACTACAAGATTTTATTTTAGTAGAG
1 AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
* *
59392662 AAACAGCGCCGTATTGGCA
66 AAACGGCGCCAT-TTGGCA
* *
59392681 AACATTAATTCACTCTTGCGGCGTTTTATTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
1 AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
*
59392746 AAACGGCGCCGAATTGGCA
66 AAACGGCGCC-ATTTGGCA
* * *
59392765 AACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAATATTTTATTCCACTAGAG
1 AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
* *
59392830 AAACGGTGCCACTTTGCCA
66 AAACGGCGCCA-TTTGGCA
** *
59392849 AATTTTAA-TAAATCCTTGCGGCGTTTTC
1 AACATTAATTCAAT-CTTGCGGCGTTTTC
59392877 ACTAAAAACA
Statistics
Matches: 173, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
83 4 0.02
84 169 0.98
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.32
Consensus pattern (83 bp):
AACATTAATTCAATCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTTATTCCAATAGAG
AAACGGCGCCATTTGGCA
Found at i:59393266 original size:16 final size:16
Alignment explanation
Indices: 59393245--59393286 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
59393235 ATCAATTTCA
59393245 AATTAATAATCTTTAC
1 AATTAATAATCTTTAC
59393261 AATTAATAATCTTTAC
1 AATTAATAATCTTTAC
59393277 AATTATATAA
1 AATTA-ATAA
59393287 GAACTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTAATAATCTTTAC
Found at i:59394777 original size:3 final size:3
Alignment explanation
Indices: 59394769--59394831 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
59394759 ATTCCCACTC
59394769 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
59394817 ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA
59394832 CTTACCTCAC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:59395134 original size:14 final size:14
Alignment explanation
Indices: 59395097--59395149 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
59395087 CTTCTATTTT
* *
59395097 TTTATTTTAACTTAC
1 TTTATTTT-ATTTCC
*
59395112 TTTACTTTATTTCC
1 TTTATTTTATTTCC
*
59395126 TTTATTTTATTTCT
1 TTTATTTTATTTCC
59395140 TTTATGTTTA
1 TTTAT-TTTA
59395150 ATTAATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.19, C:0.11, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTATTTTATTTCC
Found at i:59396289 original size:101 final size:99
Alignment explanation
Indices: 59396142--59396453 Score: 414
Period size: 100 Copynumber: 3.1 Consensus size: 99
59396132 TTAACCGGGC
* *
59396142 CCCTAACCCTTAACCCTTAACCCATAACCCCTAAAACTTATTTAATATATAAATTAAAAAATACT
1 CCCTAACCC--AACCCTTAACCC-TAA-CCCTAAACCTTATTTAATATATAAATTAAAAAACACT
*
59396207 AATTAATTTAAACCCTAAACTATAACCCGACCCCAAAT
62 AATTAATCTAAACCCTAAACTATAACCCGACCCCAAAT
* *
59396245 CCCTAATCCCAACCTTTAACCCTAACATCTAAACCTTATTTAATATATAAATTAAAAAACACTAA
1 CCCTAA-CCCAACCCTTAACCCTAAC-CCTAAACCTTATTTAATATATAAATTAAAAAACACTAA
59396310 TTAATCTAAACCCTAAA-TCATAA-CCGACCCCAAAT
64 TTAATCTAAACCCTAAACT-ATAACCCGACCCCAAAT
* *
59396345 CCCCAACCCGACCCTTAACCCCTAACCCATAAACCTTATTTAATATATAAATT-AAAAACACTAA
1 CCCTAACCCAACCCTTAA-CCCTAACCC-TAAACCTTATTTAATATATAAATTAAAAAACACTAA
* * * * *
59396409 TTAATCTAAATCCTAAACCATAACCCAATCCCGAAT
64 TTAATCTAAACCCTAAACTATAACCCGACCCCAAAT
59396445 CCCTAACCC
1 CCCTAACCC
59396454 CTAAACCTTA
Statistics
Matches: 187, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
99 42 0.22
100 67 0.36
101 58 0.31
102 11 0.06
103 6 0.03
104 3 0.02
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.26
Consensus pattern (99 bp):
CCCTAACCCAACCCTTAACCCTAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATT
AATCTAAACCCTAAACTATAACCCGACCCCAAAT
Found at i:59396385 original size:100 final size:99
Alignment explanation
Indices: 59396153--59396433 Score: 397
Period size: 101 Copynumber: 2.8 Consensus size: 99
59396143 CCTAACCCTT
* * * *
59396153 AACCCTTAACCCATAACCCCTAAAACTTATTTAATATATAAATTAAAAAATACTAATTAATTTAA
1 AACCCTTAACCCCTAA-CCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
*
59396218 ACCCTAAACTATAACCCGACCCCAAATCCCTAATCCC
65 ACCCTAAAC-ATAA-CCGACCCCAAATCCCCAATCCC
* *
59396255 AACCTTTAA-CCCTAACATCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
1 AACCCTTAACCCCTAAC-CCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
59396319 ACCCTAAATCATAACCGACCCCAAATCCCCAA-CCC
65 ACCCTAAA-CATAACCGACCCCAAATCCCCAATCCC
*
59396354 GACCCTTAACCCCTAACCCATAAACCTTATTTAATATATAAATT-AAAAACACTAATTAATCTAA
1 AACCCTTAACCCCTAACCC-TAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAA
*
59396418 ATCCTAAACCATAACC
65 ACCCTAAA-CATAACC
59396434 CAATCCCGAA
Statistics
Matches: 163, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
99 45 0.28
100 49 0.30
101 60 0.37
102 9 0.06
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.26
Consensus pattern (99 bp):
AACCCTTAACCCCTAACCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAA
CCCTAAACATAACCGACCCCAAATCCCCAATCCC
Found at i:59396535 original size:81 final size:81
Alignment explanation
Indices: 59396364--59396538 Score: 296
Period size: 81 Copynumber: 2.2 Consensus size: 81
59396354 GACCCTTAAC
*
59396364 CCCTAACCCATAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCA
1 CCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCA
* *
59396429 TAACCCAATCCCGAAT
66 TAACCCAACCCCAAAT
*
59396445 CCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACGCTAATTAATCTAAATCCTAAACCA
1 CCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCA
**
59396510 TAACCTGACCCCAAAT
66 TAACCCAACCCCAAAT
59396526 CCCTAACCCCTAA
1 CCCTAACCCCTAA
59396539 CATTTAACCG
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.26
Consensus pattern (81 bp):
CCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCA
TAACCCAACCCCAAAT
Found at i:59404529 original size:21 final size:21
Alignment explanation
Indices: 59404472--59404532 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
59404462 AGCTTTTGAG
*
59404472 CAATATATTTTAAGTCATGGT
1 CAATATATTTTAAGTCATGAT
* * *
59404493 -AACT-T-TATAAAATCATGAT
1 CAA-TATATTTTAAGTCATGAT
59404512 CAATATATTTTAAGTCATGAT
1 CAATATATTTTAAGTCATGAT
59404533 AACTTTATAA
Statistics
Matches: 29, Mismatches: 7, Indels: 8
0.66 0.16 0.18
Matches are distributed among these distances:
19 11 0.38
20 6 0.21
21 12 0.41
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (21 bp):
CAATATATTTTAAGTCATGAT
Found at i:59406311 original size:27 final size:27
Alignment explanation
Indices: 59406246--59406315 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
59406236 CAAATTTTAG
* *
59406246 ATTGTTGGATTTTGATATATGTCTTGA
1 ATTGTTGGATATTGATATATGTCTTAA
* *
59406273 ATTGGTTAGATATTGAT-TATGTTTTAA
1 ATT-GTTGGATATTGATATATGTCTTAA
59406300 CATTGTTGGATATTGA
1 -ATTGTTGGATATTGA
59406316 ATTGATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (27 bp):
ATTGTTGGATATTGATATATGTCTTAA
Found at i:59407718 original size:14 final size:14
Alignment explanation
Indices: 59407695--59407736 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
59407685 ACAGAAAAGT
*
59407695 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
59407709 AAATCATTTTACGG
1 AAAACATTTTACAG
59407723 AAAACATTTTACAG
1 AAAACATTTTACAG
59407737 CCAATCAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:59407720 original size:34 final size:35
Alignment explanation
Indices: 59407660--59407726 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
59407650 CAAACACCAG
* *
59407660 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
59407695 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
59407727 CATTTTACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:59412193 original size:8 final size:8
Alignment explanation
Indices: 59412180--59412204 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
59412170 AAAATGTATA
59412180 AAAATTTT
1 AAAATTTT
59412188 AAAATTTT
1 AAAATTTT
59412196 AAAATTTT
1 AAAATTTT
59412204 A
1 A
59412205 GTCGACTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAAATTTT
Found at i:59414139 original size:19 final size:18
Alignment explanation
Indices: 59414101--59414139 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
59414091 TAATAAAGTG
* *
59414101 TGTATAATAAAATTAAAA
1 TGTATAAAAAAATCAAAA
59414119 TGTATAAAAAAGATCAAAA
1 TGTATAAAAAA-ATCAAAA
59414138 TG
1 TG
59414140 AAGCTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (18 bp):
TGTATAAAAAAATCAAAA
Found at i:59416036 original size:60 final size:60
Alignment explanation
Indices: 59415952--59416070 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
59415942 ATACTAAACT
* * *
59415952 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAAATACTAACAAATTAATTTTAAAATAATTAC
59416012 AAACAC-ACAAATTTATAACATAATCCTAAAATACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAC-AATTTATAACATAATCCTAAAATACTAACAAATTAATTTTAAAATAATTA
59416071 TAAAAAGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 2 0.04
60 53 0.96
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAAATACTAACAAATTAATTTTAAAATAATTAC
Found at i:59428973 original size:6 final size:6
Alignment explanation
Indices: 59428962--59429000 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
59428952 TATACATGTA
59428962 TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGG
1 TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGG
59429001 AGTGGAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.82, T:0.18
Consensus pattern (6 bp):
TGGGGG
Found at i:59433826 original size:16 final size:16
Alignment explanation
Indices: 59433805--59433839 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
59433795 AAACAAATAA
59433805 TTATTTACTT-AGAATT
1 TTATTTACTTCAG-ATT
59433821 TTATTTACTTCAGATT
1 TTATTTACTTCAGATT
59433837 TTA
1 TTA
59433840 CAAGCATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.57
Consensus pattern (16 bp):
TTATTTACTTCAGATT
Found at i:59443056 original size:4 final size:4
Alignment explanation
Indices: 59443047--59443071 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
59443037 ACAAAGTAGG
59443047 GGTA GGTA GGTA GGTA GGTA GGTA G
1 GGTA GGTA GGTA GGTA GGTA GGTA G
59443072 CAGAAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (4 bp):
GGTA
Found at i:59446612 original size:16 final size:16
Alignment explanation
Indices: 59446593--59446623 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59446583 CAAAGAGTAC
*
59446593 AACAGAAGAAGAATAT
1 AACAGAAGAAAAATAT
59446609 AACAGAAGAAAAATA
1 AACAGAAGAAAAATA
59446624 ATAAATTAAT
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:0.68, C:0.06, G:0.16, T:0.10
Consensus pattern (16 bp):
AACAGAAGAAAAATAT
Found at i:59448618 original size:32 final size:31
Alignment explanation
Indices: 59448537--59448618 Score: 75
Period size: 31 Copynumber: 2.8 Consensus size: 31
59448527 TTGGCCTCAA
*
59448537 TGTTCAATTTTGTACCT-AAA---CATTTTT
1 TGTTCAATTTGGTACCTGAAACTTCATTTTT
* * * *
59448564 TATCCAATTAGGTACTTG-AACTTCATTTTTT
1 TGTTCAATTTGGTACCTGAAACTTCA-TTTTT
59448595 TGTTCAATTTGGTACCTGAAACTT
1 TGTTCAATTTGGTACCTGAAACTT
59448619 GGATATATAG
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
27 14 0.35
30 2 0.05
31 19 0.47
32 5 0.12
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.48
Consensus pattern (31 bp):
TGTTCAATTTGGTACCTGAAACTTCATTTTT
Found at i:59453114 original size:3 final size:3
Alignment explanation
Indices: 59453106--59453131 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
59453096 CCAGCACTTG
59453106 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
59453132 ACAACAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:59462337 original size:23 final size:22
Alignment explanation
Indices: 59462311--59462354 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
59462301 AATTGACTAA
59462311 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
59462334 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
59462355 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:59462385 original size:38 final size:38
Alignment explanation
Indices: 59462342--59462423 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
59462332 AGGTGTGGAA
59462342 TTGAATTGAATAT-CGACTTAGAAA-TGAAAAAGTG-AATT
1 TTGAATTGAAT-TGCGA-TT-GAAAGTGAAAAAGTGAAATT
*
59462380 TTGAATTGAATTGTGATTGAAAGTGAAAAAGTGAAATT
1 TTGAATTGAATTGCGATTGAAAGTGAAAAAGTGAAATT
*
59462418 ATGAAT
1 TTGAAT
59462424 ACATTTAGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
36 4 0.10
37 13 0.33
38 22 0.56
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (38 bp):
TTGAATTGAATTGCGATTGAAAGTGAAAAAGTGAAATT
Found at i:59465633 original size:43 final size:42
Alignment explanation
Indices: 59465567--59465695 Score: 174
Period size: 43 Copynumber: 3.0 Consensus size: 42
59465557 ATAGGATTTC
59465567 CGATATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
59465610 CGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGA-TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
*
59465653 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
59465696 TGTACGAGTT
Statistics
Matches: 77, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
42 3 0.04
43 68 0.88
44 6 0.08
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
CGATATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:59466680 original size:94 final size:93
Alignment explanation
Indices: 59466519--59466769 Score: 448
Period size: 93 Copynumber: 2.7 Consensus size: 93
59466509 TTGATTTGGT
59466519 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
59466584 TGCTTAAATGCTGCCCAATTTGTTACATA
66 TGCTTAAATGCTG-CCAATTTGTTACATA
* * * *
59466613 TATGCTGTCCAATTTCGATGCTTAAGTGCTGCCTAATTTGTTACATATATGCTGTCTAATTTTGA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
59466678 TGCTTAAATGCTGCCAATTTGTTACATA
66 TGCTTAAATGCTGCCAATTTGTTACATA
*
59466706 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAGTTTTG
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTG
59466770 GTGTAAAAAT
Statistics
Matches: 148, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
93 74 0.50
94 74 0.50
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (93 bp):
TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
TGCTTAAATGCTGCCAATTTGTTACATA
Found at i:59466784 original size:47 final size:47
Alignment explanation
Indices: 59466519--59466769 Score: 450
Period size: 47 Copynumber: 5.4 Consensus size: 47
59466509 TTGATTTGGT
59466519 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
59466566 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
* * *
59466613 TATGCTGTCCAATTTCGATGCTTAAGTGCTGCCTAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
*
59466660 TATGCTGTCTAATTTTGATGCTTAAATGCTG-CCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
59466706 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
*
59466753 TATGCTGTCCAGTTTTG
1 TATGCTGTCCAATTTTG
59466770 GTGTAAAAAT
Statistics
Matches: 194, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 44 0.23
47 150 0.77
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (47 bp):
TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
Found at i:59466801 original size:47 final size:47
Alignment explanation
Indices: 59466519--59466811 Score: 338
Period size: 47 Copynumber: 6.3 Consensus size: 47
59466509 TTGATTTGGT
* **
59466519 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTAAAATGCTGCCCAAACTGTTACATA
* **
59466566 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTAAAATGCTGCCCAAACTGTTACATA
* * * * **
59466613 TATGCTGTCCAATTTCGATGCTTAAGTGCTGCCTAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTAAAATGCTGCCCAAACTGTTACATA
* * **
59466660 TATGCTGTCTAATTTTGATGCTTAAATGCTG-CCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTAAAATGCTGCCCAAACTGTTACATA
* **
59466706 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATA
1 TATGCTGTCCAATTTTGATGCTAAAATGCTGCCCAAACTGTTACATA
* * * **
59466753 TATGCTGTCCAGTTTTGGTG-TAAAAATGCTGCTCAAACTGTTGTATA
1 TATGCTGTCCAATTTTGATGCT-AAAATGCTGCCCAAACTGTTACATA
*
59466800 TATGCTGCCCAA
1 TATGCTGTCCAA
59466812 ATTGTTGTAT
Statistics
Matches: 226, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 45 0.20
47 181 0.80
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.40
Consensus pattern (47 bp):
TATGCTGTCCAATTTTGATGCTAAAATGCTGCCCAAACTGTTACATA
Found at i:59466801 original size:140 final size:141
Alignment explanation
Indices: 59466519--59466811 Score: 448
Period size: 140 Copynumber: 2.1 Consensus size: 141
59466509 TTGATTTGGT
59466519 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
* *
59466584 TGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTCGATGCTTAAGTGCTGCCTAA
66 TGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTCGATGCTAAAATGCTGCCTAA
**
59466649 TTTGTTACATA
131 ACTGTTACATA
*
59466660 TATGCTGTCTAATTTTGATGCTTAAATGCTG-CCAATTTGTTACATATATGCTGTCCAATTTTGA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
* * *
59466724 TGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAGTTTTGGTG-TAAAAATGCTG-CTC
66 TGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTCGATGCT-AAAATGCTGCCT-
**
59466787 AAACTGTTGTATA
129 AAACTGTTACATA
*
59466800 TATGCTGCCCAA
1 TATGCTGTCCAA
59466812 ATTGTTGTAT
Statistics
Matches: 138, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
139 3 0.02
140 105 0.76
141 30 0.22
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.40
Consensus pattern (141 bp):
TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
TGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTCGATGCTAAAATGCTGCCTAA
ACTGTTACATA
Found at i:59466852 original size:71 final size:69
Alignment explanation
Indices: 59466730--59466893 Score: 179
Period size: 71 Copynumber: 2.3 Consensus size: 69
59466720 TTGATGCTTA
* ** * *
59466730 AATGCTGCCCAATTTGTTACATATATGCTGTCCAGTTTTGGTGTAAAAATGCTGCTCAAACTGTT
1 AATGCTGCCCAAATTGTTGTATATATGCTATCCAATTTTGGTGTAAAAATGCTG-TCAAA-T-TT
59466795 -GTATAT
63 GGTATAT
* * *
59466801 -ATGCTGCCCAAATTGTTGTATTTATGCTATCCAAATTTTGGTGTGAAAATGCTGTCTAATTTGG
1 AATGCTGCCCAAATTGTTGTATATATGCTATCC-AATTTTGGTGTAAAAATGCTGTCAAATTTGG
59466865 TATAT
65 TATAT
* *
59466870 AAATGCTGTCCAAATTGATGTATA
1 -AATGCTGCCCAAATTGTTGTATA
59466894 AAAGCTGTCC
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
68 2 0.03
69 7 0.09
70 31 0.40
71 38 0.49
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (69 bp):
AATGCTGCCCAAATTGTTGTATATATGCTATCCAATTTTGGTGTAAAAATGCTGTCAAATTTGGT
ATAT
Found at i:59466875 original size:187 final size:187
Alignment explanation
Indices: 59466519--59466882 Score: 438
Period size: 187 Copynumber: 1.9 Consensus size: 187
59466509 TTGATTTGGT
59466519 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
* ** * * * *
59466584 TGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTCGATGCTTAAGTGCTGCCTAA
66 TGCTAAAATGCTGCCCAAACTGTTACATATATGCTGCCCAAATTCGATGATTAAGTGCTGCCAAA
* *
59466649 TTTGTTACATATATGCTGTCTAATTTTGATGCTTAAATGCTG-CCAATTTGTTACATA
131 TTTGTTACATATATGCTGTCTAATTTGGAT-CATAAATGCTGTCCAATTTGTTACATA
* *
59466706 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAGTTTTGG
1 TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
* ** * * *
59466771 TG-TAAAAATGCTGCTCAAACTGTTGTATATATGCTGCCCAAATT-GTTGTATTTA-TGCTATCC
66 TGCT-AAAATGCTGCCCAAACTGTTACATATATGCTGCCCAAATTCGATG-ATTAAGTGCT-GCC
59466833 AAATTTTGGTGTGA-A-A-ATGCTGTCTAATTTGGTAT-ATAAATGCTGTCCAA
128 AAA-TTT-GT-T-ACATATATGCTGTCTAATTTGG-ATCATAAATGCTGTCCAA
59466883 ATTGATGTAT
Statistics
Matches: 151, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
186 8 0.05
187 113 0.75
188 22 0.15
189 5 0.03
190 2 0.01
191 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (187 bp):
TATGCTGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGTTACATATATGCTGTCCAATTTTGA
TGCTAAAATGCTGCCCAAACTGTTACATATATGCTGCCCAAATTCGATGATTAAGTGCTGCCAAA
TTTGTTACATATATGCTGTCTAATTTGGATCATAAATGCTGTCCAATTTGTTACATA
Found at i:59466893 original size:23 final size:23
Alignment explanation
Indices: 59466767--59466907 Score: 106
Period size: 23 Copynumber: 6.0 Consensus size: 23
59466757 CTGTCCAGTT
*
59466767 TTGGTGTAAAAATGCTG-CTCAAA
1 TTGGTGTATAAATGCTGTC-CAAA
* * * *
59466790 CTGTTGTATATATGCTGCCCAAA
1 TTGGTGTATAAATGCTGTCCAAA
* ** *
59466813 TTGTTGTATTTATGCTATCCAAA
1 TTGGTGTATAAATGCTGTCCAAA
* *
59466836 TTTTGGTGTGA-AAATGCTGTCTAAT
1 --TTGGTGT-ATAAATGCTGTCCAAA
*
59466861 TTGGTATATAAATGCTGTCCAAA
1 TTGGTGTATAAATGCTGTCCAAA
* *
59466884 TTGATGTATAAAAGCTGTCCAAA
1 TTGGTGTATAAATGCTGTCCAAA
59466907 T
1 T
59466908 AGGGTAGATT
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.01
23 75 0.81
24 1 0.01
25 15 0.16
26 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (23 bp):
TTGGTGTATAAATGCTGTCCAAA
Found at i:59471406 original size:29 final size:30
Alignment explanation
Indices: 59471347--59471412 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
59471337 TGTATTTCAA
* **
59471347 TGATGGACGGTTTAATTGATGGTTGTGTTT
1 TGATGGACGATTTAATTGATGGTTGAATTT
* *
59471377 TGATGGAC-ATTTTATTGATGTTTGAATTT
1 TGATGGACGATTTAATTGATGGTTGAATTT
*
59471406 TAATGGA
1 TGATGGA
59471413 TGGTTCAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.47
Consensus pattern (30 bp):
TGATGGACGATTTAATTGATGGTTGAATTT
Found at i:59472982 original size:18 final size:19
Alignment explanation
Indices: 59472954--59472992 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
59472944 AAATCGCTCC
59472954 CCTAGGGGCGCGTTTTGCT
1 CCTAGGGGCGCGTTTTGCT
59472973 CCTA-GGGCGCGTTTTGCT
1 CCTAGGGGCGCGTTTTGCT
59472991 CC
1 CC
59472993 GTGTGTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.05, C:0.31, G:0.33, T:0.31
Consensus pattern (19 bp):
CCTAGGGGCGCGTTTTGCT
Found at i:59473074 original size:17 final size:15
Alignment explanation
Indices: 59473036--59473074 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
59473026 GTTTAGTCCC
59473036 TAGGGTTTTTTGGTT
1 TAGGGTTTTTTGGTT
*
59473051 TAAGGTTTTTTAGGGTT
1 TAGGGTTTTTT--GGTT
59473068 TAGGGTT
1 TAGGGTT
59473075 AGGGTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
17 10 0.50
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (15 bp):
TAGGGTTTTTTGGTT
Found at i:59473227 original size:34 final size:32
Alignment explanation
Indices: 59473161--59473251 Score: 101
Period size: 34 Copynumber: 2.8 Consensus size: 32
59473151 TTTAAAAAAC
* *
59473161 AAATTATGGTTTAGTGTTTTTTAAAATCAATT
1 AAATTAGGGTTTAGAGTTTTTTAAAATCAATT
* * *
59473193 AATTTGGGGTTTAGAGTTTTTAATAAAATTAATT
1 AAATTAGGGTTTAGAGTTTTT--TAAAATCAATT
**
59473227 AAATTAGGGTTTAGCTTTTTTTAAA
1 AAATTAGGGTTTAGAGTTTTTTAAA
59473252 TAACTTTGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
32 21 0.44
34 27 0.56
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.48
Consensus pattern (32 bp):
AAATTAGGGTTTAGAGTTTTTTAAAATCAATT
Found at i:59473530 original size:126 final size:125
Alignment explanation
Indices: 59473318--59473574 Score: 433
Period size: 126 Copynumber: 2.0 Consensus size: 125
59473308 TTTTCTATTT
* * *
59473318 TAGTTCTTGAAAAAATTATTTTGAGAAGACAGTTCTGAACAAATAGTGTCAAAAACGCTTCAAGC
1 TAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTATGAACAAATAGTGTAAAAAACGCTTCAAGC
* *
59473383 AGGATGCACTGTCAACAAAATTGATGAAAAAAACTCCCACGTGGACGCTCTTTTTCTACAG
66 AGGATGCACTATCAACAAAATTGAT-AAAAAAACTCCCACGTGGACGCTCTTTTTCTACAA
*
59473444 TAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTATGAACAAATAGTGTAAAAAACGCTTCAAGC
1 TAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTATGAACAAATAGTGTAAAAAACGCTTCAAGC
* *
59473509 AGGATGCACTATCAGCAAAATTGATAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAA
66 AGGATGCACTATCAACAAAATTGATAAAAAAACTCCCACGTGGACGCTCTTTTTCTACAA
59473569 TAGTTC
1 TAGTTC
59473575 CTGTTTGATC
Statistics
Matches: 123, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
125 39 0.32
126 84 0.68
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (125 bp):
TAGTTCTTGAAAAAATAATTTTGAGAAGACAGTTATGAACAAATAGTGTAAAAAACGCTTCAAGC
AGGATGCACTATCAACAAAATTGATAAAAAAACTCCCACGTGGACGCTCTTTTTCTACAA
Found at i:59476850 original size:24 final size:24
Alignment explanation
Indices: 59476823--59476868 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
59476813 GTTGCTCCGA
*
59476823 TTGTGGGTGTTGGGAGGATGACGG
1 TTGTGGGTGTTAGGAGGATGACGG
59476847 TTGTGGGTGTTAGGAGGATGAC
1 TTGTGGGTGTTAGGAGGATGAC
59476869 CCACATTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.04, G:0.50, T:0.30
Consensus pattern (24 bp):
TTGTGGGTGTTAGGAGGATGACGG
Found at i:59478809 original size:18 final size:18
Alignment explanation
Indices: 59478771--59478810 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59478761 TTTGATTAAA
**
59478771 AATTAACCGAATTACTTG
1 AATTAACCGAATTACCCG
*
59478789 AATTATCCGAATTACCCG
1 AATTAACCGAATTACCCG
59478807 AATT
1 AATT
59478811 GAATCACTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:59478855 original size:37 final size:37
Alignment explanation
Indices: 59478809--59478883 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
59478799 ATTACCCGAA
* *
59478809 TTGAATCACTACATAATTAAAAATATTACATAAATCT
1 TTGAATCACTACATAATTAAAAACATTAAATAAATCT
*
59478846 TTGAATCACTACATAATTAAAAACATTAAATAATTCT
1 TTGAATCACTACATAATTAAAAACATTAAATAAATCT
59478883 T
1 T
59478884 GAAATTAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.36
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTAAATAAATCT
Found at i:59479062 original size:38 final size:39
Alignment explanation
Indices: 59479011--59479088 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 39
59479001 ACTTAAGAGT
*
59479011 TAGACTTTAGTTTTA-TTTCTATTGTGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTT-TATTGGGTTGGGTAATTGGG
59479049 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
59479088 T
1 T
59479089 TGGGTTCGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
38 23 0.62
39 14 0.38
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:59479087 original size:13 final size:13
Alignment explanation
Indices: 59479069--59479093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59479059 TTTTAGTTTT
59479069 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
59479082 ATTGGGTTGGGT
1 ATTGGGTTGGGT
59479094 TCGTAATTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:59479093 original size:18 final size:18
Alignment explanation
Indices: 59479070--59479119 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
59479060 TTTAGTTTTA
59479070 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
59479088 TTGGGTT-CGTAATTGGG
1 TTGGGTTGGGTAATTGGG
* *
59479105 TTTGGTTGGATAATT
1 TTGGGTTGGGTAATT
59479120 TTATTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.14, C:0.02, G:0.40, T:0.44
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:59479609 original size:30 final size:30
Alignment explanation
Indices: 59479575--59479639 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
59479565 ATTAATTAAA
59479575 GAGAGCTTTGAGAAATTTAAGGA-AAATTTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAA-TTT
*
59479605 GAGAGCTTTGAGAAATTTAGGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
59479635 GAGAG
1 GAGAG
59479640 TTTTTTGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 30 0.91
31 3 0.09
ACGTcount: A:0.38, C:0.03, G:0.29, T:0.29
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAGGAGAAATTT
Found at i:59480504 original size:29 final size:29
Alignment explanation
Indices: 59480443--59480505 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
59480433 GTTTAATGTG
* * ** * *
59480443 CAATTTTATACATGAACTTTGATTTTGTG
1 CAATTTTATACATGAAATTTAAACTTATC
59480472 CAATTTTATACATGAAATTTAAACTTATC
1 CAATTTTATACATGAAATTTAAACTTATC
59480501 CAATT
1 CAATT
59480506 CTCACAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (29 bp):
CAATTTTATACATGAAATTTAAACTTATC
Found at i:59493775 original size:9 final size:9
Alignment explanation
Indices: 59493761--59493786 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
59493751 AAAAAAACTT
59493761 CATCATCTA
1 CATCATCTA
59493770 CATCATCTA
1 CATCATCTA
59493779 CATCATCT
1 CATCATCT
59493787 TTTCCAAACA
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:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (9 bp):
CATCATCTA
Found at i:59497801 original size:43 final size:43
Alignment explanation
Indices: 59497740--59497825 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
59497730 TTTTCAAATT
59497740 AATTTATCTTGTTGGTTGTAAATTGTTACTGAGTTTCCAACTC
1 AATTTATCTTGTTGGTTGTAAATTGTTACTGAGTTTCCAACTC
59497783 AATTTATCTTGTTGGTTGTAAATTGTTACTGAGTTTCCAACTC
1 AATTTATCTTGTTGGTTGTAAATTGTTACTGAGTTTCCAACTC
59497826 TTGAACTCGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (43 bp):
AATTTATCTTGTTGGTTGTAAATTGTTACTGAGTTTCCAACTC
Found at i:59504283 original size:53 final size:53
Alignment explanation
Indices: 59504226--59504328 Score: 138
Period size: 53 Copynumber: 1.9 Consensus size: 53
59504216 GATTTTCTTC
*
59504226 TCTATTGATTCATTATGGTATTC-TCCCATGATTCTTTGT-GTTTTTCTTTCTCT
1 TCTATTGATTCATTATGGT-TTCTTCCC-TGATTCTCTGTGGTTTTTCTTTCTCT
* * *
59504279 TCTATTGGTTCCTTCTGGTTTCTTCCCTGATTCTCTGTGGTTTTTCTTTC
1 TCTATTGATTCATTATGGTTTCTTCCCTGATTCTCTGTGGTTTTTCTTTC
59504329 CTATGTCTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 13 0.30
53 31 0.70
ACGTcount: A:0.09, C:0.21, G:0.14, T:0.56
Consensus pattern (53 bp):
TCTATTGATTCATTATGGTTTCTTCCCTGATTCTCTGTGGTTTTTCTTTCTCT
Found at i:59514712 original size:46 final size:44
Alignment explanation
Indices: 59514660--59514747 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
59514650 AGAACAGAAA
*
59514660 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
59514706 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
59514748 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:59514759 original size:44 final size:45
Alignment explanation
Indices: 59514653--59514786 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
59514643 ACAGGACAGA
* * *
59514653 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
59514699 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
59514743 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59514787 CAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59517362 original size:7 final size:7
Alignment explanation
Indices: 59517339--59517372 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
59517329 TTACACAATA
59517339 ATCACCAT
1 ATCA-CAT
59517347 ATCCACAT
1 AT-CACAT
59517355 ATCACAT
1 ATCACAT
59517362 ATCACAT
1 ATCACAT
59517369 ATCA
1 ATCA
59517373 TGCATATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 16 0.64
8 7 0.28
9 2 0.08
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (7 bp):
ATCACAT
Found at i:59522672 original size:46 final size:44
Alignment explanation
Indices: 59522620--59522707 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
59522610 AGAACAGAAA
*
59522620 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
59522666 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
59522708 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:59522719 original size:44 final size:45
Alignment explanation
Indices: 59522613--59522746 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
59522603 ACAGGACAGA
* * *
59522613 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
59522659 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
59522703 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59522747 CAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59525718 original size:46 final size:44
Alignment explanation
Indices: 59525666--59525753 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
59525656 AGAACAGAAA
*
59525666 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
59525712 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
59525754 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:59525765 original size:44 final size:45
Alignment explanation
Indices: 59525659--59525792 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
59525649 ACAGGACAGA
* * *
59525659 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
59525705 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
59525749 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59525793 CAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59528792 original size:46 final size:44
Alignment explanation
Indices: 59528740--59528827 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
59528730 AGAACAGAAA
*
59528740 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
59528786 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
59528828 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:59528839 original size:44 final size:45
Alignment explanation
Indices: 59528733--59528866 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
59528723 ACAGGACAGA
* * *
59528733 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
59528779 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
59528823 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59528867 GCAGGGTATT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59531943 original size:45 final size:45
Alignment explanation
Indices: 59531857--59531945 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
59531847 AGAACAGAAA
*
59531857 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGGT
*
59531903 TGAGCCATGTAAGTCCCATATT-ATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGT-CCATATTAAAATATGGCATTGGAGACAGG
59531946 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
45 19 0.47
46 14 0.35
47 7 0.17
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGGT
Found at i:59531957 original size:45 final size:46
Alignment explanation
Indices: 59531850--59531963 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 46
59531840 ACAGGACAGA
* * *
59531850 ACAGAAATGAGCCATGTAAGT-CCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCCATATTA-AAATATGGCATTGGAG
** * *
59531896 ACAGGGTTGAGCCATGTAAGTCCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCCATATTAAAATATGGCATTGGAG
**
59531941 ACAGGAATAATTCATGTAAGTCC
1 ACAGGAATAAGCCATGTAAGTCC
59531964 ATGTCAAAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
45 32 0.56
46 18 0.32
47 7 0.12
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (46 bp):
ACAGGAATAAGCCATGTAAGTCCCATATTAAAATATGGCATTGGAG
Found at i:59534986 original size:46 final size:44
Alignment explanation
Indices: 59534934--59535021 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
59534924 AGAACAGAAA
*
59534934 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
59534980 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
59535022 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:59535033 original size:44 final size:45
Alignment explanation
Indices: 59534927--59535060 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
59534917 ACAGGACAGA
* * *
59534927 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
59534973 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
59535017 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59535061 CAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59537610 original size:7 final size:7
Alignment explanation
Indices: 59537598--59537628 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
59537588 TTACACAATA
59537598 ATCACAT
1 ATCACAT
59537605 ATCACAT
1 ATCACAT
59537612 ATCACAT
1 ATCACAT
59537619 -TCACAT
1 ATCACAT
59537625 ATCA
1 ATCA
59537629 TGCATATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCACAT
Found at i:59537624 original size:13 final size:14
Alignment explanation
Indices: 59537598--59537628 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
59537588 TTACACAATA
59537598 ATCACATATCACAT
1 ATCACATATCACAT
59537612 ATCACAT-TCACAT
1 ATCACATATCACAT
59537625 ATCA
1 ATCA
59537629 TGCATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
ATCACATATCACAT
Found at i:59542903 original size:46 final size:44
Alignment explanation
Indices: 59542851--59542938 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
59542841 AGAACAGAAA
*
59542851 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
59542897 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
59542939 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:59542950 original size:44 final size:45
Alignment explanation
Indices: 59542844--59542977 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
59542834 ACAGGACAGA
* * *
59542844 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
59542890 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
59542934 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59542978 CAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59546013 original size:46 final size:44
Alignment explanation
Indices: 59545961--59546048 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
59545951 AGAACAGAAA
*
59545961 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
59546007 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
59546049 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:59546060 original size:44 final size:45
Alignment explanation
Indices: 59545954--59546087 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
59545944 ACAGGACAGA
* * *
59545954 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
59546000 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
59546044 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59546088 CAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59549127 original size:46 final size:44
Alignment explanation
Indices: 59549075--59549162 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
59549065 AGAACAGAAA
*
59549075 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
59549121 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
59549163 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:59549174 original size:44 final size:45
Alignment explanation
Indices: 59549068--59549201 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
59549058 ACAGGACAGA
* * *
59549068 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
59549114 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
59549158 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59549202 CAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59552240 original size:46 final size:44
Alignment explanation
Indices: 59552188--59552275 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 44
59552178 AGAACAGAAA
*
59552188 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGGT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGGT
*
59552234 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
59552276 AATAATTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 19 0.47
46 21 0.52
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGGT
Found at i:59552287 original size:44 final size:45
Alignment explanation
Indices: 59552181--59552314 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
59552171 ACAGGACAGA
* * *
59552181 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
** * *
59552227 ACAGGGTTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
59552271 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59552315 CAGGGTATTG
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59554891 original size:7 final size:7
Alignment explanation
Indices: 59554868--59554901 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
59554858 TTACACAATA
59554868 ATCACCAT
1 ATCA-CAT
59554876 ATCCACAT
1 AT-CACAT
59554884 ATCACAT
1 ATCACAT
59554891 ATCACAT
1 ATCACAT
59554898 ATCA
1 ATCA
59554902 TGCATATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 16 0.64
8 7 0.28
9 2 0.08
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (7 bp):
ATCACAT
Found at i:59565999 original size:78 final size:78
Alignment explanation
Indices: 59565870--59566038 Score: 275
Period size: 78 Copynumber: 2.2 Consensus size: 78
59565860 GTCTTTGAAG
* * *
59565870 AAATTAATTGATTAGCTTTAACATTTGGAGTTCCTGAACAGCCATTGGAGTGGACTTAGGAGTTG
1 AAATTAATTGATCAGCTTGAACATTTGGAGTTCCCGAACAGCCATTGGAGTGGACTTAGGAGTTG
*
59565935 AGCTAAATGAATC
66 AGCTAAATAAATC
*
59565948 AAATTAATTGATCAGCTTGGACATTTGGAGTTCCCGAACAGCCATTGGAGTGGACTTAGGAGTTG
1 AAATTAATTGATCAGCTTGAACATTTGGAGTTCCCGAACAGCCATTGGAGTGGACTTAGGAGTTG
*
59566013 AGCTGAATAAATC
66 AGCTAAATAAATC
*
59566026 AAATTACTTGATC
1 AAATTAATTGATC
59566039 GGTCAATGGT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 84 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (78 bp):
AAATTAATTGATCAGCTTGAACATTTGGAGTTCCCGAACAGCCATTGGAGTGGACTTAGGAGTTG
AGCTAAATAAATC
Found at i:59576814 original size:17 final size:17
Alignment explanation
Indices: 59576792--59576824 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
59576782 TGAGTCTCTG
59576792 TAAACTTCTAAATTCTT
1 TAAACTTCTAAATTCTT
59576809 TAAACTTCTAAATTCT
1 TAAACTTCTAAATTCT
59576825 CTCATAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAACTTCTAAATTCTT
Found at i:59582075 original size:42 final size:41
Alignment explanation
Indices: 59582006--59582137 Score: 178
Period size: 41 Copynumber: 3.2 Consensus size: 41
59581996 GGCCTATTTT
* *
59582006 TATTTTAAATTTTTTTAAAAATT-AAAAAAGTATTTAAAAAA
1 TATTTTAAA-ATTTTAAAAAATTAAAAAAAGTATTTAAAAAA
*
59582047 TATTTTAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTTAAAAAATTAAAAAAAGTATTTAAAAAA
* *
59582088 TATTTTAAAATTTTAAAAAA-AAATTAAAAAGTATGTAAAAAA
1 TATTTTAAAATTTTAAAAAATTAA--AAAAAGTATTTAAAAAA
59582130 TATTTTAA
1 TATTTTAA
59582138 CATTAAAAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
40 13 0.16
41 46 0.56
42 23 0.28
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (41 bp):
TATTTTAAAATTTTAAAAAATTAAAAAAAGTATTTAAAAAA
Found at i:59587648 original size:33 final size:33
Alignment explanation
Indices: 59587583--59587649 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
59587573 CATGCTAGTA
* *
59587583 TTTTGAATTTTTATGAATTATTTATATTTATAT
1 TTTTGAATTTTTATGAAATATTTAAATTTATAT
59587616 TTTTGAATATTTTAT-AAAT-TTTAAATTATATAT
1 TTTTGAAT-TTTTATGAAATATTTAAATT-TATAT
59587649 T
1 T
59587650 GACGTGTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 7 0.23
33 17 0.57
34 6 0.20
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.61
Consensus pattern (33 bp):
TTTTGAATTTTTATGAAATATTTAAATTTATAT
Found at i:59590577 original size:6 final size:7
Alignment explanation
Indices: 59590498--59590679 Score: 86
Period size: 7 Copynumber: 25.7 Consensus size: 7
59590488 ACTAATTAAT
59590498 CTAAACC
1 CTAAACC
59590505 CTAAACTC
1 CTAAAC-C
*
59590513 CTAACCC
1 CTAAACC
*
59590520 CT-ATCTC
1 CTAAAC-C
59590527 CTAAACC
1 CTAAACC
*
59590534 CTAAATC
1 CTAAACC
* *
59590541 ATAAAAC
1 CTAAACC
* *
59590548 ATAAAAC
1 CTAAACC
*
59590555 ATAAACC
1 CTAAACC
59590562 CTAAACCC
1 CTAAA-CC
59590570 CT-AACC
1 CTAAACC
59590576 CTAAACC
1 CTAAACC
*
59590583 C-CAACC
1 CTAAACC
59590589 CTTAAACC
1 C-TAAACC
*
59590597 ATAAACC
1 CTAAACC
* *
59590604 ATAAATC
1 CTAAACC
*
59590611 ATAAACC
1 CTAAACC
* *
59590618 ATAATCC
1 CTAAACC
*
59590625 TTAAACC
1 CTAAACC
*
59590632 TTAAA--
1 CTAAACC
*
59590637 ATAGTAACTC
1 CTA--AAC-C
59590647 CTAAACC
1 CTAAACC
*
59590654 TTAAACC
1 CTAAACC
59590661 CTAAACC
1 CTAAACC
*
59590668 ATAAACC
1 CTAAACC
59590675 CTAAA
1 CTAAA
59590680 TTATAATGAT
Statistics
Matches: 141, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
5 2 0.01
6 11 0.08
7 107 0.76
8 19 0.13
10 2 0.01
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:59590600 original size:49 final size:50
Alignment explanation
Indices: 59590506--59590617 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 50
59590496 ATCTAAACCC
* * *
59590506 TAAACTCCT-AACCCCTATCTCCTAAACCCTAAATCATAAAACATAAAACA
1 TAAAC-CCTAAACCCCTAACTCCTAAACCCCAAACCATAAAACATAAAACA
* * * *
59590556 TAAACCCTAAACCCCTAAC-CCTAAACCCCAACCCTTAAACCATAAACCA
1 TAAACCCTAAACCCCTAACTCCTAAACCCCAAACCATAAAACATAAAACA
* *
59590605 TAAATCATAAACC
1 TAAACCCTAAACC
59590618 ATAATCCTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
49 38 0.73
50 14 0.27
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.19
Consensus pattern (50 bp):
TAAACCCTAAACCCCTAACTCCTAAACCCCAAACCATAAAACATAAAACA
Found at i:59591168 original size:40 final size:40
Alignment explanation
Indices: 59591066--59591214 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 40
59591056 TCGTTAATGG
*
59591066 TCGACCTATAGAGGCGTTTTTCAAGAAGCGCTGCCAAAGC
1 TCGACCTATAGCGGCGTTTTTCAAGAAGCGCTGCCAAAGC
* *
59591106 TCGACCTATAGCGGCGTCTTTCAAGAAGCGTTGCCAAAGC
1 TCGACCTATAGCGGCGTTTTTCAAGAAGCGCTGCCAAAGC
* * * * * * *
59591146 TCGACCTATAGCGTCATTTTTCATA-AGGTGCCGCTAATGC
1 TCGACCTATAGCGGCGTTTTTCA-AGAAGCGCTGCCAAAGC
* * *
59591186 TCGATCTATAGCGGCATTTTTCAAAAAGC
1 TCGACCTATAGCGGCGTTTTTCAAGAAGC
59591215 ACCACTAATG
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 89 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
TCGACCTATAGCGGCGTTTTTCAAGAAGCGCTGCCAAAGC
Found at i:59591223 original size:40 final size:40
Alignment explanation
Indices: 59591060--59591225 Score: 107
Period size: 40 Copynumber: 4.2 Consensus size: 40
59591050 AAGGTGTCGT
* * * * * **
59591060 TAATGGTCGACCTATAGAGGCGTTTTTCAAGAAGCGCTGC
1 TAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCACCAC
* * * * * ****
59591100 CAAAGCTCGACCTATAGCGGCGTCTTTCAAGAAGCGTTGC
1 TAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCACCAC
* * * * * ** *
59591140 CAAAGCTCGACCTATAGCGTCATTTTTCATAAGGTGCCGC
1 TAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCACCAC
*
59591180 TAATGCTCGATCTATAGCGGCATTTTTCAAAAAGCACCAC
1 TAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCACCAC
59591220 TAATGC
1 TAATGC
59591226 CACGGCATTG
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
TAATGCTCGACCTATAGCGGCATTTTTCAAAAAGCACCAC
Found at i:59591352 original size:40 final size:39
Alignment explanation
Indices: 59591253--59591381 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 39
59591243 TTTTTTTGCG
* * * * *
59591253 GCGTTTTTCAAAAAGCACCGCTAATACTCGACCTAGAGC
1 GCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATAGC
* * * *
59591292 GACATTTTTTTAAGAAGCGCCGCTAATGCTTGATCTATAGC
1 G-C-GTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATAGC
* *
59591333 AGCGTTTTTAAAAAAGCGCCACTAAAGCTCGATCTATAGTC
1 -GCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATAG-C
*
59591374 GTGTTTTT
1 GCGTTTTT
59591382 TATCTAAACG
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
39 1 0.01
40 38 0.54
41 31 0.44
42 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (39 bp):
GCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATAGC
Found at i:59596979 original size:56 final size:56
Alignment explanation
Indices: 59596912--59597023 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
59596902 TTCACATTTT
* *
59596912 TTATTGATAACAATATCGATACCGATTAAATTAATACTCAATCAACTACAACTCAA
1 TTATTGATAACAATATCAATACCGATTAAATTAAGACTCAATCAACTACAACTCAA
*
59596968 TTATTGATAACAATATCAATACCGATTAAATTAAGACTCAATCAACTACCACTCAA
1 TTATTGATAACAATATCAATACCGATTAAATTAAGACTCAATCAACTACAACTCAA
59597024 AGCAAACAAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (56 bp):
TTATTGATAACAATATCAATACCGATTAAATTAAGACTCAATCAACTACAACTCAA
Found at i:59601296 original size:19 final size:18
Alignment explanation
Indices: 59601257--59601298 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 18
59601247 GTTTAAGAAC
59601257 TTTTAAATTATTTTTACTA
1 TTTTAAATTATTTTTA-TA
59601276 TTTTAAATATAATTTTT-TA
1 TTTTAAAT-T-ATTTTTATA
59601295 TTTT
1 TTTT
59601299 TATATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 14 0.67
20 1 0.05
21 6 0.29
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAATTATTTTTATA
Found at i:59606033 original size:25 final size:25
Alignment explanation
Indices: 59605974--59606036 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
59605964 ATACATGTAT
* * *
59605974 GCTCATTCGAGCTATGAATCGGTAT
1 GCTCATACGAGTTATGAATCGGTAA
* *
59605999 GCTC-TCACGAGTTTTGAATTGGTAA
1 GCTCAT-ACGAGTTATGAATCGGTAA
59606024 GCTCATACGAGTT
1 GCTCATACGAGTT
59606037 GAGAATCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 29 0.94
26 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (25 bp):
GCTCATACGAGTTATGAATCGGTAA
Found at i:59606049 original size:25 final size:25
Alignment explanation
Indices: 59606021--59606087 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
59606011 TTTGAATTGG
*
59606021 TAAGCTCATACGAGTTG-AGAATCAA
1 TAAGCTCATACGAGCTGCA-AATCAA
* *
59606046 TAAGCTC-TCATGAGCTGCAAATCGA
1 TAAGCTCAT-ACGAGCTGCAAATCAA
59606071 TAAGCTCATACGAGCTG
1 TAAGCTCATACGAGCTG
59606088 TGGTGTGTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 1 0.03
25 32 0.91
26 2 0.06
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGCAAATCAA
Found at i:59615363 original size:49 final size:49
Alignment explanation
Indices: 59615302--59615445 Score: 216
Period size: 49 Copynumber: 2.9 Consensus size: 49
59615292 ATGTGAACAT
* *
59615302 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* * *
59615352 GTGATATGTGATTTCGTGTAAGACCATAATTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59615401 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
59615446 AGAAAACGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Done.