Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
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: 6219335
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 77647 characters in sequence are not A, C, G, or T
File 12 of 13
Found at i:5656674 original size:26 final size:27
Alignment explanation
Indices: 5656643--5656708 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
5656633 TATAAAAACT
*
5656643 TATTTAATTAAAAAT-ATAAATATAAA
1 TATTTAATTAAAAATAATAAAAATAAA
*
5656669 TATTTAATTAAATATAATAAAAATAAA
1 TATTTAATTAAAAATAATAAAAATAAA
* *
5656696 AATTTATTTAAAA
1 TATTTAATTAAAA
5656709 TTTTTTAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
TATTTAATTAAAAATAATAAAAATAAA
Found at i:5658916 original size:12 final size:12
Alignment explanation
Indices: 5658899--5658931 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
5658889 CAACCAGAAA
5658899 TGCCACTGCTTT
1 TGCCACTGCTTT
5658911 TGCCACTGCTTT
1 TGCCACTGCTTT
*
5658923 TGCCCCTGC
1 TGCCACTGC
5658932 AAACGGAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.39, G:0.18, T:0.36
Consensus pattern (12 bp):
TGCCACTGCTTT
Found at i:5678549 original size:7 final size:7
Alignment explanation
Indices: 5678537--5678563 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
5678527 ATTTTGTTAA
5678537 AAATTTT
1 AAATTTT
5678544 AAATTTT
1 AAATTTT
5678551 AAATTTT
1 AAATTTT
5678558 AAATTT
1 AAATTT
5678564 ATTATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AAATTTT
Found at i:5685468 original size:15 final size:16
Alignment explanation
Indices: 5685448--5685491 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
5685438 NNNNNNAAAA
*
5685448 GAAGAAA-ACAGAAAG
1 GAAGAAAGAAAGAAAG
5685463 GAAGAAAGAAAGAAAG
1 GAAGAAAGAAAGAAAG
5685479 G-AGAAAG-AAGAAA
1 GAAGAAAGAAAGAAA
5685492 AAAAAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.22
15 13 0.48
16 8 0.30
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (16 bp):
GAAGAAAGAAAGAAAG
Found at i:5685485 original size:7 final size:7
Alignment explanation
Indices: 5685445--5685501 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
5685435 NNNNNNNNNA
5685445 AAAGAAG
1 AAAGAAG
5685452 AAA-ACAG
1 AAAGA-AG
5685459 AAAGGAAG
1 AAA-GAAG
5685467 AAAGAAAG
1 AAAG-AAG
*
5685475 AAAGGAG
1 AAAGAAG
5685482 AAAGAAG
1 AAAGAAG
* *
5685489 AAAAAAA
1 AAAGAAG
5685496 AAAGAA
1 AAAGAA
5685502 AAGGTTCGGC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
6 1 0.02
7 27 0.66
8 12 0.29
9 1 0.02
ACGTcount: A:0.74, C:0.02, G:0.25, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:5693430 original size:16 final size:16
Alignment explanation
Indices: 5693399--5693442 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
5693389 TCCTTTCCTT
*
5693399 TTTCTT-CTTCCT-CC
1 TTTCTTCCTTTCTCCC
5693413 TTTCTTCCTTTCTCCC
1 TTTCTTCCTTTCTCCC
*
5693429 TTTCATCCTTTCTC
1 TTTCTTCCTTTCTC
5693443 TTCTCACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 6 0.23
15 5 0.19
16 15 0.58
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTCTTCCTTTCTCCC
Found at i:5720881 original size:21 final size:19
Alignment explanation
Indices: 5720845--5720885 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
5720835 ACAGGTTGAG
5720845 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
5720864 TAGTTCAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
5720885 T
1 T
5720886 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:5727195 original size:9 final size:9
Alignment explanation
Indices: 5727183--5727229 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
5727173 TTAAAATTTC
5727183 TTATATATT
1 TTATATATT
5727192 TTATATATT
1 TTATATATT
*
5727201 TTATAAATT
1 TTATATATT
*
5727210 TTATAAATT
1 TTATATATT
*
5727219 TTTTAT-TT
1 TTATATATT
5727227 TTA
1 TTA
5727230 ATTTATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 4 0.12
9 30 0.88
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TTATATATT
Found at i:5727210 original size:18 final size:18
Alignment explanation
Indices: 5727183--5727252 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 18
5727173 TTAAAATTTC
*
5727183 TTATATATTTTATATATT
1 TTATATATTTTATAAATT
*
5727201 TTATAAATTTTATAAATT
1 TTATATATTTTATAAATT
5727219 TT-T-TATTTT-T-AA-T
1 TTATATATTTTATAAATT
*
5727232 TTATAT-TTTTAAAAAATT
1 TTATATATTTT-ATAAATT
5727250 TTA
1 TTA
5727253 ATTCATCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
13 3 0.07
14 7 0.17
15 2 0.05
16 5 0.12
17 3 0.07
18 22 0.52
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATATATTTTATAAATT
Found at i:5731633 original size:4 final size:4
Alignment explanation
Indices: 5731624--5731653 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
5731614 TATTATTATT
5731624 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
5731654 AATGAGTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:5738653 original size:36 final size:33
Alignment explanation
Indices: 5738604--5738717 Score: 95
Period size: 34 Copynumber: 3.3 Consensus size: 33
5738594 TAAAAAAAAT
*
5738604 ATGCTTTTAATAGGATAAAGCATTAAACCCTCACA
1 ATGCTTTTTATAGGATAAAGCA-T-AACCCTCACA
* * * *
5738639 ATGGCTTTTTATAGGAGAAACCATCACCCTTACA
1 AT-GCTTTTTATAGGATAAAGCATAACCCTCACA
* * *
5738673 ATGCTTTTTCATAGGATCAAGCAGACCCCAT-ACA
1 ATGCTTTTT-ATAGGATAAAGCATAACCC-TCACA
*
5738707 ATGCCTTTTAT
1 ATGCTTTTTAT
5738718 TAGAAGCAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
33 9 0.14
34 34 0.53
35 4 0.06
36 17 0.27
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (33 bp):
ATGCTTTTTATAGGATAAAGCATAACCCTCACA
Found at i:5738737 original size:34 final size:34
Alignment explanation
Indices: 5738699--5738772 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
5738689 TCAAGCAGAC
*
5738699 CCCATACAATGCCTTTTATTAGAAGCAAACACAA
1 CCCATACAATGCCTTTAATTAGAAGCAAACACAA
* * *
5738733 CCCATACAATGCCTTTAATTTGGAGCAAGCACAA
1 CCCATACAATGCCTTTAATTAGAAGCAAACACAA
*
5738767 ACCATA
1 CCCATA
5738773 TAGTAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (34 bp):
CCCATACAATGCCTTTAATTAGAAGCAAACACAA
Found at i:5739204 original size:16 final size:16
Alignment explanation
Indices: 5739183--5739213 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5739173 CAAAAATTTA
5739183 GATTTTGATTCTTTTG
1 GATTTTGATTCTTTTG
*
5739199 GATTTTGATTGTTTT
1 GATTTTGATTCTTTT
5739214 TTATATTTTT
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:0.13, C:0.03, G:0.19, T:0.65
Consensus pattern (16 bp):
GATTTTGATTCTTTTG
Found at i:5760379 original size:19 final size:19
Alignment explanation
Indices: 5760348--5760386 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5760338 GCTAGAGAAA
*
5760348 AATTTTAGAATAAAATAAT
1 AATTTTAGAATAAAAAAAT
5760367 AATTGTTAG-ATAAAAAAAT
1 AATT-TTAGAATAAAAAAAT
5760386 A
1 A
5760387 TTAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
AATTTTAGAATAAAAAAAT
Found at i:5760746 original size:12 final size:12
Alignment explanation
Indices: 5760724--5760756 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5760714 TTTTATTTTG
5760724 GAAA-GCAAGAT
1 GAAATGCAAGAT
*
5760735 GAAATTCAAGAT
1 GAAATGCAAGAT
5760747 GAAATGCAAG
1 GAAATGCAAG
5760757 TAAAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.52, C:0.09, G:0.24, T:0.15
Consensus pattern (12 bp):
GAAATGCAAGAT
Found at i:5760766 original size:16 final size:16
Alignment explanation
Indices: 5760745--5760778 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5760735 GAAATTCAAG
* *
5760745 ATGAAATGCAAGTAAA
1 ATGAAATACAACTAAA
5760761 ATGAAATACAACTAAA
1 ATGAAATACAACTAAA
5760777 AT
1 AT
5760779 TGTATAGCAT
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:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (16 bp):
ATGAAATACAACTAAA
Found at i:5769211 original size:22 final size:22
Alignment explanation
Indices: 5769186--5769259 Score: 139
Period size: 22 Copynumber: 3.4 Consensus size: 22
5769176 GAGCTCAGCG
5769186 CTGCAGCGCTGGAGAAGTAGCA
1 CTGCAGCGCTGGAGAAGTAGCA
5769208 CTGCAGCGCTGGAGAAGTAGCA
1 CTGCAGCGCTGGAGAAGTAGCA
5769230 CTGCAGCGCTGGAGAAGTAGCA
1 CTGCAGCGCTGGAGAAGTAGCA
*
5769252 CCGCAGCG
1 CTGCAGCG
5769260 GTGGGCGACT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.12
Consensus pattern (22 bp):
CTGCAGCGCTGGAGAAGTAGCA
Found at i:5774672 original size:3 final size:3
Alignment explanation
Indices: 5774666--5774705 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
5774656 AATAAGGTGT
5774666 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
5774706 ATTTGTTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:5776522 original size:12 final size:12
Alignment explanation
Indices: 5776505--5776550 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
5776495 GAATAGTTTC
5776505 TTGCTGCCTCCT
1 TTGCTGCCTCCT
5776517 TTGCTGCCT-CT
1 TTGCTGCCTCCT
5776528 CTTGCTGCCTCTCT
1 -TTGCTGCCTC-CT
5776542 TT-CTGCCTC
1 TTGCTGCCTC
5776551 AAAAATCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.06
12 25 0.81
13 2 0.06
14 2 0.06
ACGTcount: A:0.00, C:0.41, G:0.15, T:0.43
Consensus pattern (12 bp):
TTGCTGCCTCCT
Found at i:5776531 original size:24 final size:24
Alignment explanation
Indices: 5776503--5776550 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
5776493 CAGAATAGTT
5776503 TCTTGCTGCCTC-CTTTGCTGCCTC
1 TCTTGCTGCCTCTCTTT-CTGCCTC
5776527 TCTTGCTGCCTCTCTTTCTGCCTC
1 TCTTGCTGCCTCTCTTTCTGCCTC
5776551 AAAAATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.00, C:0.42, G:0.15, T:0.44
Consensus pattern (24 bp):
TCTTGCTGCCTCTCTTTCTGCCTC
Found at i:5777234 original size:21 final size:22
Alignment explanation
Indices: 5777199--5777242 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
5777189 CTCTTAAAGT
5777199 AATTTAAAATAAAATAACCTAA
1 AATTTAAAATAAAATAACCTAA
* *
5777221 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACCTAA
5777242 A
1 A
5777243 TTAATCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTTAAAATAAAATAACCTAA
Found at i:5779989 original size:77 final size:77
Alignment explanation
Indices: 5779852--5780014 Score: 231
Period size: 77 Copynumber: 2.1 Consensus size: 77
5779842 AATGCCATCT
*
5779852 ATTTAAATTTTAGGTGATTCATAAAAAATAGAAAATTGTTTTATCCTTTAAAAGCAATTCCTAAA
1 ATTTAAATTTTAGGTGATTCATAAAAAATAGAAAATTGTTTTATACTTTAAAAGCAATTCCTAAA
5779917 ATTAAGGATAGA
66 ATTAAGGATAGA
* * * *
5779929 ATTTGAATTTTGGGTGATTCATAAAGAATA-AGAAATTGTTTTCTACTTTAAAAG-ATATTCCTA
1 ATTTAAATTTTAGGTGATTCATAAAAAATAGA-AAATTGTTTTATACTTTAAAAGCA-ATTCCTA
*
5779992 AAATTAAGGATAGT
64 AAATTAAGGATAGA
*
5780006 ATTTTAATT
1 ATTTAAATT
5780015 AGGAAAATTC
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
76 2 0.03
77 75 0.97
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (77 bp):
ATTTAAATTTTAGGTGATTCATAAAAAATAGAAAATTGTTTTATACTTTAAAAGCAATTCCTAAA
ATTAAGGATAGA
Found at i:5786045 original size:25 final size:25
Alignment explanation
Indices: 5786010--5786069 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
5786000 CAGTCTGTGA
*
5786010 TTATACATGGCAAGGCCACTG-GTTG
1 TTATACGTGGCAAGGCCA-TGAGTTG
*
5786035 TTATACGTGGCTAGGCCATGAGTTG
1 TTATACGTGGCAAGGCCATGAGTTG
*
5786060 ATATACGTGG
1 TTATACGTGG
5786070 TTACGACCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 2 0.06
25 29 0.94
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (25 bp):
TTATACGTGGCAAGGCCATGAGTTG
Found at i:5793217 original size:20 final size:22
Alignment explanation
Indices: 5793178--5793221 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
5793168 AAAAAATTAA
5793178 ATTAAAATTTTAATTATAAATT
1 ATTAAAATTTTAATTATAAATT
*
5793200 ATTAATATTTT-A-TATAAATT
1 ATTAAAATTTTAATTATAAATT
5793220 AT
1 AT
5793222 AAATTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 10 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTAAAATTTTAATTATAAATT
Found at i:5794772 original size:21 final size:21
Alignment explanation
Indices: 5794747--5794786 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5794737 TATTTTAATA
5794747 AAAAAT-AAAAGAGAAAAAAGG
1 AAAAATGAAAAGA-AAAAAAGG
*
5794768 AAAAATGAAAATAAAAAAA
1 AAAAATGAAAAGAAAAAAA
5794787 TAAAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAAATGAAAAGAAAAAAAGG
Found at i:5810737 original size:21 final size:21
Alignment explanation
Indices: 5810698--5810737 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5810688 CACTAAAAGT
* *
5810698 TTCTTCATCTTCGTTTTCAAC
1 TTCTTCATCTTCATCTTCAAC
*
5810719 TTCTTCTTCTTCATCTTCA
1 TTCTTCATCTTCATCTTCA
5810738 TCTCCTTCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.30, G:0.03, T:0.55
Consensus pattern (21 bp):
TTCTTCATCTTCATCTTCAAC
Found at i:5810784 original size:30 final size:30
Alignment explanation
Indices: 5810750--5810818 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
5810740 TCCTTCCATA
*
5810750 TCATCTTCATCTCCTTCCATATCATCTTCT
1 TCATCTTCATCTCCTTCCATACCATCTTCT
* * *
5810780 TCATCTTCATCTCTTTGCATGCCATCTTCT
1 TCATCTTCATCTCCTTCCATACCATCTTCT
5810810 TCATCTTCA
1 TCATCTTCA
5810819 ATGAAATGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.16, C:0.35, G:0.03, T:0.46
Consensus pattern (30 bp):
TCATCTTCATCTCCTTCCATACCATCTTCT
Found at i:5810787 original size:21 final size:21
Alignment explanation
Indices: 5810729--5810778 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
5810719 TTCTTCTTCT
5810729 TCATCTTCATCTCCTTCCATA
1 TCATCTTCATCTCCTTCCATA
5810750 TCATCTTCATCTCCTTCCATA
1 TCATCTTCATCTCCTTCCATA
5810771 TCATCTTC
1 TCATCTTC
5810779 TTCATCTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.44
Consensus pattern (21 bp):
TCATCTTCATCTCCTTCCATA
Found at i:5816046 original size:128 final size:131
Alignment explanation
Indices: 5815814--5816070 Score: 358
Period size: 128 Copynumber: 2.0 Consensus size: 131
5815804 CTCCAAAAAG
* * * *
5815814 AAAGGAAAAGTGGAAGGAGGTCGTAGATAGGCCGGCGGCAGATAGGGAGGACGACGGAGGAAGGG
1 AAAGGAAAAGTGGAAGGAGGCCGTAGATAGGCCGACAGCAGATAGGGAGGACGAC-GAGGAAGGA
* *
5815879 CGATTTTTCTCTGGCTTTACAAAGAGGGAAGAAGGATTTGATAAACAAAAGAA-TAAAAGGAAAA
65 CGATGTTTCTCTGGCTTTACAAAGAGGGAAGAAGGATTTGATAAACAAAAGAACAAAAAGGAAAA
5815943 TA
130 TA
* * * * * *
5815945 AAAGGGAAGGTGGAGGGAGGCCGTAGATAGGCTGACAGTAGATAGGGAGGATGAC-A-GAAGGAC
1 AAAGGAAAAGTGGAAGGAGGCCGTAGATAGGCCGACAGCAGATAGGGAGGACGACGAGGAAGGAC
* *
5816008 GATGTTTCTCTGGTTTTACAAAGAGGGAAGATGGATTTGATAAACAAAAGAACAAAAAGGAAA
66 GATGTTTCTCTGGCTTTACAAAGAGGGAAGAAGGATTTGATAAACAAAAGAACAAAAAGGAAA
5816071 GGAAGAAAGA
Statistics
Matches: 111, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
128 55 0.50
129 10 0.09
131 46 0.41
ACGTcount: A:0.40, C:0.09, G:0.34, T:0.17
Consensus pattern (131 bp):
AAAGGAAAAGTGGAAGGAGGCCGTAGATAGGCCGACAGCAGATAGGGAGGACGACGAGGAAGGAC
GATGTTTCTCTGGCTTTACAAAGAGGGAAGAAGGATTTGATAAACAAAAGAACAAAAAGGAAAAT
A
Found at i:5816389 original size:3 final size:3
Alignment explanation
Indices: 5816372--5816411 Score: 62
Period size: 3 Copynumber: 12.7 Consensus size: 3
5816362 ACTTATTATG
5816372 TAA TGAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA T-AA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
5816412 TNNNNNNNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 29 0.83
4 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5821824 original size:17 final size:17
Alignment explanation
Indices: 5821802--5821840 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
5821792 CTCTCATTCT
5821802 TTCATTAAAATTCTTCC
1 TTCATTAAAATTCTTCC
*
5821819 TTCATTACAATTCTTCC
1 TTCATTAAAATTCTTCC
5821836 TTCAT
1 TTCAT
5821841 CAAACACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (17 bp):
TTCATTAAAATTCTTCC
Found at i:5824155 original size:8 final size:9
Alignment explanation
Indices: 5824129--5824154 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5824119 ATCATATATC
5824129 AACATTTTT
1 AACATTTTT
5824138 AACATTTTT
1 AACATTTTT
5824147 AACATTTT
1 AACATTTT
5824155 AGTAACAATG
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:0.35, C:0.12, G:0.00, T:0.54
Consensus pattern (9 bp):
AACATTTTT
Found at i:5827594 original size:4 final size:4
Alignment explanation
Indices: 5827587--5827672 Score: 55
Period size: 4 Copynumber: 19.8 Consensus size: 4
5827577 TCATTGGACC
* * *
5827587 TAAT TAAT TAAAT TATT TAAT TAAG TCAT TAGACT TAAT TAAT TAAAT
1 TAAT TAAT T-AAT TAAT TAAT TAAT TAAT TA-A-T TAAT TAAT T-AAT
* * *
5827635 TATT TAAT TAAG TCAT TAGACT TAAT TAAT TAAAT TAA
1 TAAT TAAT TAAT TAAT TA-A-T TAAT TAAT T-AAT TAA
5827673 ACAATTAAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
4 41 0.65
5 16 0.25
6 6 0.10
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (4 bp):
TAAT
Found at i:5827597 original size:35 final size:35
Alignment explanation
Indices: 5827551--5827698 Score: 206
Period size: 35 Copynumber: 4.2 Consensus size: 35
5827541 TAAGTTATAT
* * *
5827551 CTAATTAATTAAATTGTTTAATTAAATCATTGGAC
1 CTAATTAATTAAATTATTTAATTAAGTCATTAGAC
5827586 CTAATTAATTAAATTATTTAATTAAGTCATTAGAC
1 CTAATTAATTAAATTATTTAATTAAGTCATTAGAC
*
5827621 TTAATTAATTAAATTATTTAATTAAGTCATTAGAC
1 CTAATTAATTAAATTATTTAATTAAGTCATTAGAC
* *** * *
5827656 TTAATTAATTAAATTAAACAATTAAGTTATTAGGC
1 CTAATTAATTAAATTATTTAATTAAGTCATTAGAC
5827691 CTAATTAA
1 CTAATTAA
5827699 NNNNNNNNNN
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 103 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (35 bp):
CTAATTAATTAAATTATTTAATTAAGTCATTAGAC
Found at i:5831588 original size:28 final size:28
Alignment explanation
Indices: 5831556--5831619 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
5831546 TGATAGCTTT
*
5831556 AATATGTTTGTCTTAATTTAGATAAGAA
1 AATATGTTTGTCTTAATTTAGACAAGAA
5831584 AATATGTTTGTCTTAATTTAGACAAGAA
1 AATATGTTTGTCTTAATTTAGACAAGAA
5831612 AATATGTT
1 AATATGTT
5831620 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (28 bp):
AATATGTTTGTCTTAATTTAGACAAGAA
Found at i:5831666 original size:30 final size:29
Alignment explanation
Indices: 5831632--5831697 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
5831622 NNNNNNNNTA
* * * *
5831632 AGACAAGAAAAATATTTTTTGTCTTAATTT
1 AGACAAGAAAAACA-TATTTATCTCAATTT
*
5831662 AGACAAAAAAAACATATTTATCTCAATTT
1 AGACAAGAAAAACATATTTATCTCAATTT
5831691 AGACAAG
1 AGACAAG
5831698 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (29 bp):
AGACAAGAAAAACATATTTATCTCAATTT
Found at i:5833269 original size:48 final size:48
Alignment explanation
Indices: 5833184--5833275 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
5833174 TGGGCCCCTT
*
5833184 TTAAAATTTTTTCAATAAATTTTTTTAAGAAAGAATTACATTTATATTC
1 TTAAAATTTTTTCAATAAATTTTTTTAAGAAAAAATTA-ATTTATATTC
* **
5833233 TTAAAATTTTTT-TA-AAATTTATTTTATTAAAAAATTAATTTAT
1 TTAAAATTTTTTCAATAAATTT-TTTTAAGAAAAAATTAATTTAT
5833276 TTTAGCCTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 12 0.32
48 14 0.37
49 12 0.32
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (48 bp):
TTAAAATTTTTTCAATAAATTTTTTTAAGAAAAAATTAATTTATATTC
Found at i:5838525 original size:27 final size:26
Alignment explanation
Indices: 5838495--5838580 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
5838485 ATTATATAGT
5838495 TATTAAGGTACTATGATTCTATTGAGA
1 TATTAAGGTAC-ATGATTCTATTGAGA
** * *
5838522 TATTAAAATACAT--TTGTA-TGAAAA
1 TATTAAGGTACATGATTCTATTG-AGA
5838546 GTCATTAAGGTACCATGATTCTATTGAGA
1 -T-ATTAAGGTA-CATGATTCTATTGAGA
5838575 TATTAA
1 TATTAA
5838581 AATACATTNN
Statistics
Matches: 44, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
23 2 0.05
24 6 0.14
25 1 0.02
26 9 0.20
27 17 0.39
28 1 0.02
29 6 0.14
30 2 0.05
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (26 bp):
TATTAAGGTACATGATTCTATTGAGA
Found at i:5839572 original size:29 final size:28
Alignment explanation
Indices: 5839530--5839693 Score: 141
Period size: 28 Copynumber: 5.6 Consensus size: 28
5839520 TGATAGCTTT
*
5839530 AACATGTTTGTCTTAATTTAGATAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
5839558 AACATGTTTGGTCTTAATTTAGACAA-AA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
* * *
5839586 AAGTATGTTTATCTTAATTGAAGACAAGAAA
1 AA-CATGTTTGTCTTAATT-TAGACAAG-AA
* * *
5839617 AATATTTTTTGTCTTAATCTAGACAAGAA
1 AACA-TGTTTGTCTTAATTTAGACAAGAA
* * * *
5839646 AACATATTTGCCTCAATTTATACAAGATAA
1 AACATGTTTGTCTTAATTTAGACAAG--AA
* *
5839676 AATATTTTTGTCTTAATT
1 AACATGTTTGTCTTAATT
5839694 AAAGACATGA
Statistics
Matches: 110, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
28 38 0.35
29 32 0.29
30 25 0.23
31 15 0.14
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.39
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:5841424 original size:21 final size:22
Alignment explanation
Indices: 5841389--5841432 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
5841379 CTCTTAAAGT
5841389 AATTTAAAATAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
*
5841411 AATTT-AACTAAAATAACTTAA
1 AATTTAAAATAAAATAACTTAA
5841432 A
1 A
5841433 TTAATCACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTTAAAATAAAATAACTTAA
Found at i:5846825 original size:7 final size:7
Alignment explanation
Indices: 5846804--5846851 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
5846794 CAAAGTAAAA
5846804 GAGAAAG
1 GAGAAAG
5846811 GAAGAAAG
1 G-AGAAAG
5846819 GAGAAAG
1 GAGAAAG
* * *
5846826 AAAAAAA
1 GAGAAAG
5846833 GAGAAAG
1 GAGAAAG
5846840 GAGAAAG
1 GAGAAAG
*
5846847 AAGAA
1 GAGAA
5846852 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (7 bp):
GAGAAAG
Found at i:5847942 original size:2 final size:2
Alignment explanation
Indices: 5847902--5847932 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
5847892 ATTGCTTTGA
*
5847902 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5847933 AGCTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5856870 original size:62 final size:62
Alignment explanation
Indices: 5856773--5856901 Score: 195
Period size: 62 Copynumber: 2.1 Consensus size: 62
5856763 AGGATGGTGT
* * * * *
5856773 ATATGATGTAAATTTCATATGCCATATGAGGTGATTAAGTATGCATGATTAATGCCATGAGA
1 ATATGATGTAAATTCCATATACCACATGAGATGATTAAGTATGCATAATTAATGCCATGAGA
* *
5856835 ATATGATGTATATTCCATATACTACATGAGATGATTAAGTATGCATAATTAATGCCATGAGA
1 ATATGATGTAAATTCCATATACCACATGAGATGATTAAGTATGCATAATTAATGCCATGAGA
5856897 ATATG
1 ATATG
5856902 TATACAATGT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (62 bp):
ATATGATGTAAATTCCATATACCACATGAGATGATTAAGTATGCATAATTAATGCCATGAGA
Found at i:5856971 original size:28 final size:28
Alignment explanation
Indices: 5856927--5856990 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
5856917 CCAGACACTA
*
5856927 CATGAGATGATTGAGCAAGCATAAATGC
1 CATGAGATGATTAAGCAAGCATAAATGC
*
5856955 CATGAGATGATTAAGCAAGCATTAATGC
1 CATGAGATGATTAAGCAAGCATAAATGC
5856983 CATGAGAT
1 CATGAGAT
5856991 TATGTATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (28 bp):
CATGAGATGATTAAGCAAGCATAAATGC
Found at i:5862433 original size:125 final size:125
Alignment explanation
Indices: 5862211--5862460 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
5862201 TTGGGAAAAG
5862211 CAAAGATTCAAGTTTGGGGGTATTTGATGTGTGCATCAAATACATTTATTTAATGGGAGATTAAA
1 CAAAGATTCAAGTTTGGGGGTATTTGATGTGTGCATCAAATACATTTATTTAATGGGAGATTAAA
5862276 TACCTAATTAGTCTAAGTTAGACTAGATTTAGGATCGCATTTAGGTGTTTTTAGCTATTT
66 TACCTAATTAGTCTAAGTTAGACTAGATTTAGGATCGCATTTAGGTGTTTTTAGCTATTT
5862336 CAAAGATTCAAGTTTGGGGGTATTTGATGTGTGCATCAAATACATTTATTTAATGGGAGATTAAA
1 CAAAGATTCAAGTTTGGGGGTATTTGATGTGTGCATCAAATACATTTATTTAATGGGAGATTAAA
5862401 TACCTAATTAGTCTAAGTTAGACTAGATTTAGGATCGCATTTAGGTGTTTTTAGCTATTT
66 TACCTAATTAGTCTAAGTTAGACTAGATTTAGGATCGCATTTAGGTGTTTTTAGCTATTT
5862461 TATTAGTTTA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (125 bp):
CAAAGATTCAAGTTTGGGGGTATTTGATGTGTGCATCAAATACATTTATTTAATGGGAGATTAAA
TACCTAATTAGTCTAAGTTAGACTAGATTTAGGATCGCATTTAGGTGTTTTTAGCTATTT
Found at i:5865606 original size:25 final size:27
Alignment explanation
Indices: 5865578--5865639 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
5865568 AAAACCTGTA
5865578 GCCTAGCCACATAT-ATC-A-ACTCGTG
1 GCCTAGCCACATATAATCAAGAC-CGTG
* *
5865603 GCCTTGCCATATATAATCATAGACCGTG
1 GCCTAGCCACATATAATCA-AGACCGTG
5865631 GCCTAGCCA
1 GCCTAGCCA
5865640 TGTCGAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 12 0.40
26 3 0.10
28 13 0.43
29 2 0.07
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (27 bp):
GCCTAGCCACATATAATCAAGACCGTG
Found at i:5883180 original size:37 final size:37
Alignment explanation
Indices: 5883139--5883215 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
5883129 TTCTAAATGA
5883139 TATATTTTATTGATTCACTACATGTCATGGAGGACTT
1 TATATTTTATTGATTCACTACATGTCATGGAGGACTT
* *
5883176 TATATTTTTTTGATTCGCTACATGTCATGGAGGACTT
1 TATATTTTATTGATTCACTACATGTCATGGAGGACTT
5883213 TAT
1 TAT
5883216 GTTAAGGATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (37 bp):
TATATTTTATTGATTCACTACATGTCATGGAGGACTT
Found at i:5905923 original size:25 final size:25
Alignment explanation
Indices: 5905895--5905965 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 25
5905885 AAGTAACGTT
*
5905895 TTAATTAATAATAA-TTAATTAATTA
1 TTAATT-ATAAAAATTTAATTAATTA
*
5905920 TTAATTATAAAAATTTATTTAA-T-
1 TTAATTATAAAAATTTAATTAATTA
* *
5905943 TTAA-AATAAAAATTTATTTAATT
1 TTAATTATAAAAATTTAATTAATT
5905966 GTTTTAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 16 0.39
23 5 0.12
24 7 0.17
25 13 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATTATAAAAATTTAATTAATTA
Found at i:5905999 original size:19 final size:18
Alignment explanation
Indices: 5905960--5905999 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5905950 AAAAATTTAT
*
5905960 TTAATTGTTTTAAAATAA
1 TTAATTGTTTTAAAAAAA
*
5905978 TTAATTTTTTTAAAAAATA
1 TTAATTGTTTTAAAAAA-A
5905997 TTA
1 TTA
5906000 TACGTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTAATTGTTTTAAAAAAA
Found at i:5912194 original size:28 final size:28
Alignment explanation
Indices: 5912145--5912226 Score: 137
Period size: 29 Copynumber: 2.9 Consensus size: 28
5912135 NNNNNNNNNT
5912145 TTTTCTTGTCTTAAATTAAGACAAACATA
1 TTTTCTTGTC-TAAATTAAGACAAACATA
*
5912174 TTTTCTTGTCTAAATTAAGACCAACCATA
1 TTTTCTTGTCTAAATTAAGA-CAAACATA
5912203 TTTTCTTGTCTAAATTAAGACAAA
1 TTTTCTTGTCTAAATTAAGACAAA
5912227 TATGTTAAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
28 13 0.26
29 37 0.74
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (28 bp):
TTTTCTTGTCTAAATTAAGACAAACATA
Found at i:5913400 original size:107 final size:107
Alignment explanation
Indices: 5913200--5913405 Score: 344
Period size: 107 Copynumber: 1.9 Consensus size: 107
5913190 NNNNNNNNNN
5913200 CAATAGAATCATGGTACCTTAATAACTAAATGATGAATGCTTACTTAAAACAAACTCTTCGTCTT
1 CAATAGAATCATGGTACCTTAATAACTAAATGATGAATGCTTACTTAAAACAAACTCTTCGTCTT
* *
5913265 GTTATAAAAAATGTACTTTTATACAAATATATTTTAATATCT
66 ATTATAAAAAATGTACTTTTATACAAATAAATTTTAATATCT
*
5913307 CAATAGAATCATGGTACCTTAATAACTAAATTG-TGAATGCTTACTTAAAACAAACTCTTTGTCT
1 CAATAGAATCATGGTACCTTAATAACTAAA-TGATGAATGCTTACTTAAAACAAACTCTTCGTCT
*
5913371 TATTATAAAAAATGTA-TTTTATTATAAATAAATTT
65 TATTATAAAAAATGTACTTTTA-TACAAATAAATTT
5913406 AATGAAATTA
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
106 5 0.05
107 86 0.92
108 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (107 bp):
CAATAGAATCATGGTACCTTAATAACTAAATGATGAATGCTTACTTAAAACAAACTCTTCGTCTT
ATTATAAAAAATGTACTTTTATACAAATAAATTTTAATATCT
Found at i:5925699 original size:13 final size:14
Alignment explanation
Indices: 5925683--5925711 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5925673 TTTAACTGAT
5925683 AAATT-AAACTAAC
1 AAATTAAAACTAAC
5925696 AAATTAAAACTAAC
1 AAATTAAAACTAAC
5925710 AA
1 AA
5925712 TTGAAGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATTAAAACTAAC
Found at i:5933443 original size:8 final size:8
Alignment explanation
Indices: 5933417--5933475 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
5933407 GTGTAAAAAA
5933417 TAATAATTT
1 TAATAA-TT
5933426 TAATTAATT
1 TAA-TAATT
5933435 TAATAATT
1 TAATAATT
*
5933443 TTATATATT
1 TAATA-ATT
* *
5933452 TAATTATG
1 TAATAATT
5933460 TAA-AA-T
1 TAATAATT
5933466 TAATAATT
1 TAATAATT
5933474 TA
1 TA
5933476 GTTACCAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
6 3 0.08
7 3 0.08
8 17 0.43
9 14 0.35
10 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (8 bp):
TAATAATT
Found at i:5939418 original size:12 final size:12
Alignment explanation
Indices: 5939401--5939440 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
5939391 TTGTAGGCTG
5939401 AAGAGAGGCAGC
1 AAGAGAGGCAGC
5939413 AAGAGAGGCAGC
1 AAGAGAGGCAGC
5939425 AA-AGGAGGCAGC
1 AAGA-GAGGCAGC
5939437 AAGA
1 AAGA
5939441 AACTATTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 1 0.04
12 24 0.92
13 1 0.04
ACGTcount: A:0.45, C:0.15, G:0.40, T:0.00
Consensus pattern (12 bp):
AAGAGAGGCAGC
Found at i:5941433 original size:27 final size:27
Alignment explanation
Indices: 5941399--5941450 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
5941389 GTTAACATGC
*
5941399 TTAAAACTAGTTAACTAAAAACATACT
1 TTAAAACTAATTAACTAAAAACATACT
5941426 TTAAAACTAATTAACTAAAAACATA
1 TTAAAACTAATTAACTAAAAACATA
5941451 AAAACTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (27 bp):
TTAAAACTAATTAACTAAAAACATACT
Found at i:5945442 original size:19 final size:18
Alignment explanation
Indices: 5945405--5945452 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
5945395 ATAACAAGTA
*
5945405 AAAAAAATATTTTAAAAT
1 AAAATAATATTTTAAAAT
*
5945423 AAAATAATATTTTATGAAT
1 AAAATAATATTTTA-AAAT
*
5945442 AAAATATTATT
1 AAAATAATATT
5945453 AAACTATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAATAATATTTTAAAAT
Found at i:5949425 original size:44 final size:44
Alignment explanation
Indices: 5949375--5949462 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
5949365 GTATTAGCTG
5949375 TCATTCTATTTTAAATTATTGTGGAGGCAATTTGGCATTATCTA
1 TCATTCTATTTTAAATTATTGTGGAGGCAATTTGGCATTATCTA
* * *
5949419 TCATTCTATTTTAAATTATTGTGGAGTCAGTTTTGCATTATCTA
1 TCATTCTATTTTAAATTATTGTGGAGGCAATTTGGCATTATCTA
5949463 CATATTCCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (44 bp):
TCATTCTATTTTAAATTATTGTGGAGGCAATTTGGCATTATCTA
Found at i:5949530 original size:20 final size:21
Alignment explanation
Indices: 5949481--5949530 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
5949471 TAAATAGTTA
*
5949481 GAGTCAGTTGCTTTTTAATAG
1 GAGTCAGTTGCTTATTAATAG
* * *
5949502 AAATAAGTTGC-TATTAATAG
1 GAGTCAGTTGCTTATTAATAG
5949522 GAGTCAGTT
1 GAGTCAGTT
5949531 ATGATCAATC
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (21 bp):
GAGTCAGTTGCTTATTAATAG
Found at i:5966535 original size:13 final size:13
Alignment explanation
Indices: 5966517--5966541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5966507 CCTCAAGAAT
5966517 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
5966530 AAAAAGAGAAAA
1 AAAAAGAGAAAA
5966542 GGGTTTTTGG
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAAA
Found at i:5966682 original size:15 final size:15
Alignment explanation
Indices: 5966662--5966731 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
5966652 GATATTACTT
5966662 TTAAATTTAAATAAA
1 TTAAATTTAAATAAA
5966677 TTAAATTTAAATATAA
1 TTAAATTTAAATA-AA
5966693 TT-AATCCTT--AT---
1 TTAAAT--TTAAATAAA
*
5966704 TTAAATTTAAACAAA
1 TTAAATTTAAATAAA
5966719 TTAAATTTAAATA
1 TTAAATTTAAATA
5966732 TAATGAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
10 2 0.05
11 2 0.05
12 4 0.09
15 30 0.68
16 4 0.09
17 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAAATTTAAATAAA
Found at i:5966708 original size:42 final size:43
Alignment explanation
Indices: 5966661--5966782 Score: 165
Period size: 49 Copynumber: 2.7 Consensus size: 43
5966651 GGATATTACT
*
5966661 TTTAAATTTAAATAAATTAAATTTAAATATAAT-TAATCCTTA
1 TTTAAATTTAAACAAATTAAATTTAAATATAATATAATCCTTA
*
5966703 TTTAAATTTAAACAAATTAAATTTAAATATAATGAATAGATAATTCTTA
1 TTTAAATTTAAACAAATTAAATTT-AA-AT-AT-AAT--ATAATCCTTA
5966752 TTTAAATTTAAACAAATTAAATTTAAATATA
1 TTTAAATTTAAACAAATTAAATTTAAATATA
5966783 TATCCTATCT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
42 23 0.32
43 2 0.03
44 2 0.03
45 3 0.04
46 5 0.07
47 2 0.03
48 2 0.03
49 32 0.45
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (43 bp):
TTTAAATTTAAACAAATTAAATTTAAATATAATATAATCCTTA
Found at i:5966973 original size:16 final size:16
Alignment explanation
Indices: 5966952--5966984 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5966942 CCATTGGCAC
5966952 CAATTTATAC-CATTCT
1 CAATTTA-ACTCATTCT
5966968 CAATTTAACTCATTCT
1 CAATTTAACTCATTCT
5966984 C
1 C
5966985 CATTCATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (16 bp):
CAATTTAACTCATTCT
Found at i:5976467 original size:2 final size:2
Alignment explanation
Indices: 5976460--5976484 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5976450 CAATCTTTAA
5976460 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5976485 ACAGGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5978903 original size:81 final size:80
Alignment explanation
Indices: 5978685--5978928 Score: 280
Period size: 80 Copynumber: 3.1 Consensus size: 80
5978675 GATTATTTGA
* * * * *
5978685 AGATAATATTTAAATTAT-ACCAATCAAAAATTAGTTATTGATCATCCATATTATCTCTAAATAA
1 AGATAATATTCATATTTTGACCAATCAAAAATTAGTTATTGGTCATCCAAATTATCTCTAAATAA
*
5978749 ATCAAAATAATTTAG
66 ATAAAAATAATTTAG
* * * *
5978764 AGATAATATTTATATTTTGACCAATCAAAAGTTAGTTGTTGGTCATCCAAGTTATCTCTAAATAA
1 AGATAATATTCATATTTTGACCAATCAAAAATTAGTTATTGGTCATCCAAATTATCTCTAAATAA
5978829 ATAAAAATAATTT-G
66 ATAAAAATAATTTAG
* * * **
5978843 CAGATAATCTTCATAATTTTGACCAATCAAAATTTAATTATTGGTCATTTAAATTATCTCT-AAT
1 -AGATAATATTCAT-ATTTTGACCAATCAAAAATTAGTTATTGGTCATCCAAATTATCTCTAAAT
* * *
5978907 -AATTATATTAATTTAG
64 AAATAAAAATAATTTAG
5978923 AGATAA
1 AGATAA
5978929 AAATCAAATT
Statistics
Matches: 142, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
79 34 0.24
80 68 0.48
81 40 0.28
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.39
Consensus pattern (80 bp):
AGATAATATTCATATTTTGACCAATCAAAAATTAGTTATTGGTCATCCAAATTATCTCTAAATAA
ATAAAAATAATTTAG
Found at i:5979370 original size:51 final size:51
Alignment explanation
Indices: 5979294--5979468 Score: 192
Period size: 51 Copynumber: 3.5 Consensus size: 51
5979284 CGTGATCAAA
* *
5979294 ATATCAAGTGTTCGTAATCAAGATTAAGTCGTGAAGACCCTTGAAGTGAAG
1 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
** *
5979345 ATATCAAGTGTTCGTGATCAAGATTAAGTCGCAAAGACCATTGAAGCGAAG
1 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
**********
5979396 --ATCAAGTGTTCGTGATCAANNNNNNNNNNTGAAGACCCTTGAAGCGAAG
1 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
*
5979445 ATATCAAGTGCTCGTGATCAAGAT
1 ATATCAAGTGTTCGTGATCAAGAT
5979469 ATCAAGTGTT
Statistics
Matches: 100, Mismatches: 22, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
49 36 0.36
51 64 0.64
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.24
Consensus pattern (51 bp):
ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
Found at i:5979470 original size:22 final size:22
Alignment explanation
Indices: 5979442--5979490 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
5979432 CCTTGAAGCG
5979442 AAGATATCAAGTGCTCGTGATC
1 AAGATATCAAGTGCTCGTGATC
*
5979464 AAGATATCAAGTGTTCGTGATC
1 AAGATATCAAGTGCTCGTGATC
5979486 AAGAT
1 AAGAT
5979491 TAAGTCATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (22 bp):
AAGATATCAAGTGCTCGTGATC
Found at i:5979559 original size:122 final size:120
Alignment explanation
Indices: 5979342--5979588 Score: 296
Period size: 122 Copynumber: 2.0 Consensus size: 120
5979332 CCTTGAAGTG
* * *
5979342 AAGATATCAAGTGTTCGTGATCAAGATTAAGTCGCAAAGACCATTGAAGCGAAGATCAAGTGTTC
1 AAGATATCAAGTGTTCGTGATCAAGATTAAGTCACAAAGACCATTGAAGCAAAAATCAAGTGTTC
********** * * *
5979407 GTGATCAANNNNNNNNNNTGAAGACCCTTGAAGCGAAGATATCAAGTGCTCGTGATC
66 GTGATCAAGATCAAGTCGTGAAAACCCTTGAAACGAAG--ATCAAGTGCTCATGATC
** *
5979464 AAGATATCAAGTGTTCGTGATCAAGATTAAGTCATGAAGACCCTTGAAGCAAAAATCAAGTGTTC
1 AAGATATCAAGTGTTCGTGATCAAGATTAAGTCACAAAGACCATTGAAGCAAAAATCAAGTGTTC
*
5979529 GTGATCAAGATCAAGTCGTGAAAACCCTTGAAACGAAGATCAAGTGTTCATGATC
66 GTGATCAAGATCAAGTCGTGAAAACCCTTGAAACGAAGATCAAGTGCTCATGATC
5979584 AAGAT
1 AAGAT
5979589 TAAGTCATGA
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
120 20 0.19
122 85 0.81
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.23
Consensus pattern (120 bp):
AAGATATCAAGTGTTCGTGATCAAGATTAAGTCACAAAGACCATTGAAGCAAAAATCAAGTGTTC
GTGATCAAGATCAAGTCGTGAAAACCCTTGAAACGAAGATCAAGTGCTCATGATC
Found at i:5979609 original size:171 final size:173
Alignment explanation
Indices: 5979283--5979609 Score: 435
Period size: 171 Copynumber: 1.9 Consensus size: 173
5979273 ACAACGAAGT
* * *
5979283 TCGTGATCAAAATATCAAGTGTTCGTAATCAAGATTAAGTCGTGAAGACCCTTGAAGTGAAGATA
1 TCGTGATCAAAATATCAAGTGTTCGTAATCAAGATTAAGTCATGAAGACCCTTGAAGTCAAGAAA
* * *
5979348 TCAAGTGTTCGTGATCAAGATTAAGTCGCAAAGACCATTGAAGCGAAGATCAAGTGTTCGTGATC
66 TCAAGTGTTCGTGATCAAGATCAAGTCGCAAAGACCATTGAAACGAAGATCAAGTGTTCATGATC
********** *
5979413 AANNNNNNNNNNTGAAGACCCTTGAAGCGAAGATATCAAGTGC
131 AAGATTAAGTCATGAAAACCCTTGAAGCGAAGATATCAAGTGC
* *
5979456 TCGTGATCAAGATATCAAGTGTTCGTGATCAAGATTAAGTCATGAAGACCCTTGAAG-CAA-AAA
1 TCGTGATCAAAATATCAAGTGTTCGTAATCAAGATTAAGTCATGAAGACCCTTGAAGTCAAGAAA
* *
5979519 TCAAGTGTTCGTGATCAAGATCAAGTCGTGAAA-ACCCTTGAAACGAAGATCAAGTGTTCATGAT
66 TCAAGTGTTCGTGATCAAGATCAAGTCG-CAAAGACCATTGAAACGAAGATCAAGTGTTCATGAT
5979583 CAAGATTAAGTCATGAAAACCCTTGAA
130 CAAGATTAAGTCATGAAAACCCTTGAA
5979610 ACAAAGATTA
Statistics
Matches: 132, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
171 73 0.55
172 5 0.04
173 54 0.41
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.24
Consensus pattern (173 bp):
TCGTGATCAAAATATCAAGTGTTCGTAATCAAGATTAAGTCATGAAGACCCTTGAAGTCAAGAAA
TCAAGTGTTCGTGATCAAGATCAAGTCGCAAAGACCATTGAAACGAAGATCAAGTGTTCATGATC
AAGATTAAGTCATGAAAACCCTTGAAGCGAAGATATCAAGTGC
Found at i:5979617 original size:49 final size:49
Alignment explanation
Indices: 5979469--5979617 Score: 235
Period size: 49 Copynumber: 3.0 Consensus size: 49
5979459 TGATCAAGAT
* * *
5979469 ATCAAGTGTTCGTGATCAAGATTAAGTCATGAAGACCCTTGAAGCAAAA
1 ATCAAGTGTTCGTGATCAAGATTAAGTCATGAAAACCCTTGAAACAAAG
* * *
5979518 ATCAAGTGTTCGTGATCAAGATCAAGTCGTGAAAACCCTTGAAACGAAG
1 ATCAAGTGTTCGTGATCAAGATTAAGTCATGAAAACCCTTGAAACAAAG
*
5979567 ATCAAGTGTTCATGATCAAGATTAAGTCATGAAAACCCTTGAAACAAAG
1 ATCAAGTGTTCGTGATCAAGATTAAGTCATGAAAACCCTTGAAACAAAG
5979616 AT
1 AT
5979618 TAAACGAAGT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 90 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (49 bp):
ATCAAGTGTTCGTGATCAAGATTAAGTCATGAAAACCCTTGAAACAAAG
Found at i:5991302 original size:36 final size:35
Alignment explanation
Indices: 5991255--5991395 Score: 113
Period size: 36 Copynumber: 3.8 Consensus size: 35
5991245 ATGAATTGTG
* * *
5991255 TGCTAGTATAAAGAGCACCTCCCAAGGTTCAACAAA
1 TGCTATTATAAAGAGCACC-CCCAAGGATCAAAAAA
5991291 TGCTATTATAAAGAGCACCCTCCAAGGAT-AATAAATTA
1 TGCTATTATAAAGAGCACCC-CCAAGGATCAA-AAA--A
* * * *
5991329 TAAGCTATTTTAAAGAACACCCCCCAAGGATCAATAAG
1 T--GCTATTATAAAGAGCA-CCCCCAAGGATCAAAAAA
* *
5991367 TGCTATTATAAAGGGCACCCTCCGAGGAT
1 TGCTATTATAAAGAGCACCC-CCAAGGAT
5991396 AACAAATCAT
Statistics
Matches: 85, Mismatches: 11, Indels: 18
0.75 0.10 0.16
Matches are distributed among these distances:
35 6 0.07
36 47 0.55
38 3 0.04
40 24 0.28
41 5 0.06
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (35 bp):
TGCTATTATAAAGAGCACCCCCAAGGATCAAAAAA
Found at i:5991343 original size:76 final size:76
Alignment explanation
Indices: 5991215--5991425 Score: 251
Period size: 76 Copynumber: 2.8 Consensus size: 76
5991205 CTAAATTGTG
* * * * * *
5991215 TGCTAGTATAAAGAGTACCCTCCAAGGATAATGAATTGTGTGCTAGTATAAAGAGCACCTCCCAA
1 TGCTATTATAAAGAGCACCCTCCAAGGATAATAAATTATGTGCTATTATAAAGAGCACCCCCCAA
*
5991280 GGTTCAACAAA
66 GGATCAACAAA
** * *
5991291 TGCTATTATAAAGAGCACCCTCCAAGGATAATAAATTATAAGCTATTTTAAAGAACACCCCCCAA
1 TGCTATTATAAAGAGCACCCTCCAAGGATAATAAATTATGTGCTATTATAAAGAGCACCCCCCAA
* *
5991356 GGATCAATAAG
66 GGATCAACAAA
* * * * * *
5991367 TGCTATTATAAAGGGCACCCTCCGAGGATAACAAATCATGTGCTATTCTAAAAAGCACC
1 TGCTATTATAAAGAGCACCCTCCAAGGATAATAAATTATGTGCTATTATAAAGAGCACC
5991426 ACTTTAAGTT
Statistics
Matches: 113, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 113 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (76 bp):
TGCTATTATAAAGAGCACCCTCCAAGGATAATAAATTATGTGCTATTATAAAGAGCACCCCCCAA
GGATCAACAAA
Found at i:5991425 original size:40 final size:39
Alignment explanation
Indices: 5991213--5991425 Score: 129
Period size: 40 Copynumber: 5.5 Consensus size: 39
5991203 TTCTAAATTG
* * * * * *
5991213 TGTGCTAGTATAAAGAGTACCCTCCAAGGATAATGAATTG
1 TGTGCTATTATAAAAAGCACCCTCCAAGGATAA-CAAATA
* * *
5991253 TGTGCTAGTATAAAGAGCA-CCTCCCAAGGTTCAAC-AA-A
1 TGTGCTATTATAAAAAGCACCCT-CCAAGGAT-AACAAATA
* *
5991291 --TGCTATTATAAAGAGCACCCTCCAAGGATAATAAATTA
1 TGTGCTATTATAAAAAGCACCCTCCAAGGATAACAAA-TA
** * *
5991329 TAAGCTATTTTAAAGAA-CACCCCCCAAGGAT--C-AATA
1 TGTGCTATTATAAA-AAGCACCCTCCAAGGATAACAAATA
* ** *
5991365 AGTGCTATTATAAAGGGCACCCTCCGAGGATAACAAATCA
1 TGTGCTATTATAAAAAGCACCCTCCAAGGATAACAAAT-A
*
5991405 TGTGCTATTCTAAAAAGCACC
1 TGTGCTATTATAAAAAGCACC
5991426 ACTTTAAGTT
Statistics
Matches: 134, Mismatches: 25, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
35 2 0.01
36 49 0.37
37 5 0.04
38 2 0.01
39 7 0.05
40 66 0.49
41 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (39 bp):
TGTGCTATTATAAAAAGCACCCTCCAAGGATAACAAATA
Found at i:5992353 original size:28 final size:28
Alignment explanation
Indices: 5992313--5992366 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
5992303 TTTTAAGTTT
*
5992313 ATAGTTCTATTGCAATATACTTCTTCAA
1 ATAGTTCTATTGCAATATACATCTTCAA
*
5992341 ATAGTTTTATTGCAATATACATCTTC
1 ATAGTTCTATTGCAATATACATCTTC
5992367 TAAAATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.44
Consensus pattern (28 bp):
ATAGTTCTATTGCAATATACATCTTCAA
Found at i:5992798 original size:80 final size:79
Alignment explanation
Indices: 5992690--5992933 Score: 305
Period size: 80 Copynumber: 3.1 Consensus size: 79
5992680 GATTATTTGA
* *
5992690 AGATAATATTTA-AATTGGACCAATCAAAAATTAGTTATTGGTCATCCATATTATCTCTAAATAA
1 AGATAATATTTATATTTTGACCAATCAAAAATTAGTTATTGGTCATCCA-ATTATCTCTAAATAA
5992754 ATCAAAATAATTTAG
65 ATCAAAATAATTTAG
*
5992769 AGATAATATTTATATTTTGACCAATCAAAAATTAGTTGTTGGTCATCCAAGTTATCTCTAAATAA
1 AGATAATATTTATATTTTGACCAATCAAAAATTAGTTATTGGTCATCCAA-TTATCTCTAAATAA
*
5992834 ATCAAAATAATTTGG
65 ATCAAAATAATTTAG
* * * * * **
5992849 AGATAATCTTCATATTTTTGACCAATCAAAATTTAATTATTGGTCTTTTAGATTATCTCT-AAT-
1 AGATAATATTTATA-TTTTGACCAATCAAAAATTAGTTATTGGTCATCCA-ATTATCTCTAAATA
* * *
5992912 AATTATATTAATTTAG
64 AATCAAAATAATTTAG
5992928 AGATAA
1 AGATAA
5992934 AAATCAAATT
Statistics
Matches: 145, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 31 0.21
80 76 0.52
81 37 0.26
82 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (79 bp):
AGATAATATTTATATTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTATCTCTAAATAAA
TCAAAATAATTTAG
Found at i:5993040 original size:30 final size:30
Alignment explanation
Indices: 5993000--5993073 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
5992990 ACACCTAACT
5993000 TCGACCAATCAAAATTCAAGGACTCAAAGG
1 TCGACCAATCAAAATTCAAGGACTCAAAGG
* *
5993030 TCGACTAATCAAAATTCAAGGACTCAAAGT
1 TCGACCAATCAAAATTCAAGGACTCAAAGG
*
5993060 TCGGCCAATCAAAA
1 TCGACCAATCAAAA
5993074 GACTTTCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (30 bp):
TCGACCAATCAAAATTCAAGGACTCAAAGG
Found at i:5993379 original size:51 final size:51
Alignment explanation
Indices: 5993324--5993722 Score: 511
Period size: 51 Copynumber: 8.0 Consensus size: 51
5993314 CGTGATCAAA
*
5993324 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGTGAAG
1 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
* * *
5993375 ATATCAAGTGTTCGAGATCAAGATTAAGACGTGAAGACCTTTGAAGCGAAG
1 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
5993426 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
1 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
*
5993477 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGACGACCCTTGAAGCGAAG
1 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
* ** * *
5993528 ATATCAAGTGTTCAG-GATCAGGA-T-A-TC---AATTG-TTCGTG-ATC-AAG
1 ATATCAAGTGTTC-GTGATCAAGATTAAGTCGTGAA--GACCCTTGAAGCGAAG
* *
5993572 ATATCAAGTGTTCGTAATCAAGATTAAGTCGTGAAGACCCTTGAAGTGAAG
1 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
* * *
5993623 --ATCAAGTGTTCATAATCAAGATCAAGTCGTGAAGACCCTTGAAGCGAAG
1 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
* * *
5993672 --ATCAATTGTTCGTGATCAAGATTAAGTCATGAAGACCCTTGATGCGAAG
1 ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
5993721 AT
1 AT
5993723 TAAACGAAGT
Statistics
Matches: 303, Mismatches: 30, Indels: 30
0.83 0.08 0.08
Matches are distributed among these distances:
43 1 0.00
44 22 0.07
45 4 0.01
46 4 0.01
47 3 0.01
48 3 0.01
49 93 0.31
50 4 0.01
51 168 0.55
52 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (51 bp):
ATATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCGAAG
Found at i:5993555 original size:22 final size:22
Alignment explanation
Indices: 5993525--5993595 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
5993515 CCTTGAAGCG
5993525 AAGATATCAAGTGTTCAG-GATC
1 AAGATATCAAGTGTTC-GTGATC
* *
5993547 AGGATATCAATTGTTCGTGATC
1 AAGATATCAAGTGTTCGTGATC
*
5993569 AAGATATCAAGTGTTCGTAATC
1 AAGATATCAAGTGTTCGTGATC
5993591 AAGAT
1 AAGAT
5993596 TAAGTCGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 1 0.02
22 42 0.98
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (22 bp):
AAGATATCAAGTGTTCGTGATC
Found at i:5993643 original size:49 final size:50
Alignment explanation
Indices: 5993569--5993721 Score: 211
Period size: 49 Copynumber: 3.1 Consensus size: 50
5993559 GTTCGTGATC
* *
5993569 AAGATATCAAGTGTTCGTAATCAAGATTAAGTCGTGAAGACCCTTGAAGTG
1 AAGA-ATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCG
* * *
5993620 AAG-ATCAAGTGTTCATAATCAAGATCAAGTCGTGAAGACCCTTGAAGCG
1 AAGAATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCG
* * *
5993669 AAG-ATCAATTGTTCGTGATCAAGATTAAGTCATGAAGACCCTTGATGCG
1 AAGAATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCG
5993718 AAGA
1 AAGA
5993722 TTAAACGAAG
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
49 89 0.97
51 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGAATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCG
Found at i:6032987 original size:21 final size:21
Alignment explanation
Indices: 6032962--6033043 Score: 87
Period size: 21 Copynumber: 3.8 Consensus size: 21
6032952 CCGAACCCTC
6032962 CCTTTCTT-TTTTCTTCTTCC-T
1 CCTTTCTTCTTTTC-TC-TCCTT
6032983 CCTTTCTTCTTTTCTCTCCTT
1 CCTTTCTTCTTTTCTCTCCTT
* *
6033004 CCTTTCTTCCTTTCTCTTCTT
1 CCTTTCTTCTTTTCTCTCCTT
*
6033025 TCTTTCTTCTCCTTTCTCT
1 CCTTTCTTCT--TTTCTCT
6033044 TTTCTTCTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.06
21 38 0.72
22 5 0.09
23 7 0.13
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (21 bp):
CCTTTCTTCTTTTCTCTCCTT
Found at i:6032992 original size:17 final size:17
Alignment explanation
Indices: 6032967--6033041 Score: 50
Period size: 17 Copynumber: 4.4 Consensus size: 17
6032957 CCCTCCCTTT
*
6032967 CTTTTTTCTTCTTCCTC
1 CTTTCTTCTTCTTCCTC
6032984 CTTTCTTCTT-TTCTCTC
1 CTTTCTTCTTCTTC-CTC
* *
6033001 C-TTCCT-TTCTTCCTTT
1 CTTTCTTCTTCTTCC-TC
6033017 CTCTTCTTTCTTTCTT-CTC
1 CT-TTC-TTC-TTCTTCCTC
6033036 CTTTCT
1 CTTTCT
6033042 CTTTTCTTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 16
0.68 0.08 0.24
Matches are distributed among these distances:
15 3 0.07
16 12 0.27
17 14 0.31
18 6 0.13
19 4 0.09
20 1 0.02
21 5 0.11
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
CTTTCTTCTTCTTCCTC
Found at i:6033022 original size:42 final size:43
Alignment explanation
Indices: 6032962--6033043 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 43
6032952 CCGAACCCTC
*
6032962 CCTTTCTTTTTTCTTCTTCCTCCTTTCTTCT-TTTCTCTCCTT
1 CCTTTCTTCTTTCTTCTTCCTCCTTTCTTCTCTTTCTCTCCTT
* *
6033004 CCTTTCTTCCTTTC-TCTTCTTTCTTTCTTCTCCTTTCTCT
1 CCTTTCTT-CTTTCTTCTTCCTCCTTTCTTCT-CTTTCTCT
6033044 TTTCTTCTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 23 0.68
43 4 0.12
44 7 0.21
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (43 bp):
CCTTTCTTCTTTCTTCTTCCTCCTTTCTTCTCTTTCTCTCCTT
Found at i:6033047 original size:17 final size:17
Alignment explanation
Indices: 6032975--6033051 Score: 54
Period size: 17 Copynumber: 4.4 Consensus size: 17
6032965 TTCTTTTTTC
6032975 TTCTTCCTCCTTTCTTCTT
1 TTCTT-CTCCTTTC-TCTT
6032994 TTC-TCTCC-TTC-C-T
1 TTCTTCTCCTTTCTCTT
* *
6033007 TTCTTCCTTTCTCTTCTTTCT
1 TTCTT-C-TCCT-TTCTCT-T
6033028 TTCTTCTCCTTTCTCTT
1 TTCTTCTCCTTTCTCTT
6033045 TTCTTCT
1 TTCTTCT
6033052 TGGTAGTGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
13 4 0.09
14 2 0.04
15 1 0.02
16 5 0.11
17 12 0.26
18 9 0.20
19 6 0.13
20 1 0.02
21 6 0.13
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
TTCTTCTCCTTTCTCTT
Found at i:6036030 original size:24 final size:24
Alignment explanation
Indices: 6035998--6036043 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
6035988 CTTGAGTAAG
6035998 ATGATAAATTAGGAAATCCTTAAT
1 ATGATAAATTAGGAAATCCTTAAT
*
6036022 ATGATAAATTAGGAAATTCTTA
1 ATGATAAATTAGGAAATCCTTA
6036044 GGTGAGCATA
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:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (24 bp):
ATGATAAATTAGGAAATCCTTAAT
Found at i:6036542 original size:21 final size:21
Alignment explanation
Indices: 6036518--6036559 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6036508 AAACTACATT
*
6036518 CTGTCTCA-AATGTATCGATAC
1 CTGT-TCATAATGTATCCATAC
*
6036539 CTGTTCATGATGTATCCATAC
1 CTGTTCATAATGTATCCATAC
6036560 ATTTCACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (21 bp):
CTGTTCATAATGTATCCATAC
Found at i:6036670 original size:20 final size:20
Alignment explanation
Indices: 6036636--6036693 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
6036626 TACCCCAAAA
*
6036636 CCAATTGTATTGATACATGGG
1 CCAA-TGTATAGATACATGGG
6036657 CCAATGTATAGATACATGGG
1 CCAATGTATAGATACATGGG
*
6036677 CCAATGTATCGATACAT
1 CCAATGTATAGATACAT
6036694 TTCGTTGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 31 0.89
21 4 0.11
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (20 bp):
CCAATGTATAGATACATGGG
Found at i:6038494 original size:35 final size:35
Alignment explanation
Indices: 6038445--6038521 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
6038435 TCACCAAGCT
*
6038445 TCAACAATGGCTTTTCAAAGGCTCAGCCACAACCA
1 TCAACAATGACTTTTCAAAGGCTCAGCCACAACCA
* *
6038480 TCAACAATGACTTTTTAAAGGCTCAGCCACAACCT
1 TCAACAATGACTTTTCAAAGGCTCAGCCACAACCA
6038515 TCAACAA
1 TCAACAA
6038522 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (35 bp):
TCAACAATGACTTTTCAAAGGCTCAGCCACAACCA
Found at i:6051405 original size:21 final size:21
Alignment explanation
Indices: 6051381--6051502 Score: 81
Period size: 21 Copynumber: 5.8 Consensus size: 21
6051371 GCGTTAGATA
*
6051381 TAAATTTAAATTTAATTTGTT
1 TAAATTTAAATTTAATTAGTT
**
6051402 TAAATTTAAA-TTACCTA-TCCAT
1 TAAATTTAAATTTAATTAGT---T
* *
6051424 TATATTTAAATTTAATTTGTT
1 TAAATTTAAATTTAATTAGTT
* **
6051445 TAAATTT-AA-TTAAGGATAAAT
1 TAAATTTAAATTTAA--TTAGTT
*
6051466 TACATTTAAATTTAATTAGTT
1 TAAATTTAAATTTAATTAGTT
*
6051487 TAAATTTAAATATAAT
1 TAAATTTAAATTTAAT
6051503 ATCCCATCTC
Statistics
Matches: 74, Mismatches: 18, Indels: 18
0.67 0.16 0.16
Matches are distributed among these distances:
19 5 0.07
20 6 0.08
21 42 0.57
22 12 0.16
23 8 0.11
24 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (21 bp):
TAAATTTAAATTTAATTAGTT
Found at i:6051436 original size:43 final size:43
Alignment explanation
Indices: 6051384--6051497 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 43
6051374 TTAGATATAA
* * ** *
6051384 ATTTAAATTTAATTTGTTTAAATTTAAATTACCTATCCATTAT
1 ATTTAAATTTAATTTGTTTAAATTTAAATTAACGATAAATTAC
*
6051427 ATTTAAATTTAATTTGTTTAAATTT-AATTAAGGATAAATTAC
1 ATTTAAATTTAATTTGTTTAAATTTAAATTAACGATAAATTAC
*
6051469 ATTTAAATTTAATTAGTTTAAATTTAAAT
1 ATTTAAATTTAATTTGTTTAAATTTAAAT
6051498 ATAATATCCC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
42 35 0.56
43 28 0.44
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (43 bp):
ATTTAAATTTAATTTGTTTAAATTTAAATTAACGATAAATTAC
Found at i:6051490 original size:15 final size:15
Alignment explanation
Indices: 6051428--6051495 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
6051418 ATCCATTATA
*
6051428 TTTAAATTTAATTTG
1 TTTAAATTTAATTAG
6051443 TTTAAATTTAATTAAG
1 TTTAAATTTAATT-AG
** *
6051459 GATAAA-TT-A-CA-
1 TTTAAATTTAATTAG
6051470 TTTAAATTTAATTAG
1 TTTAAATTTAATTAG
6051485 TTTAAATTTAA
1 TTTAAATTTAA
6051496 ATATAATATC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 4 0.10
12 3 0.07
13 1 0.02
14 2 0.05
15 26 0.63
16 5 0.12
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTAAATTTAATTAG
Found at i:6058067 original size:33 final size:34
Alignment explanation
Indices: 6058019--6058086 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 34
6058009 GAACGAATTT
* *
6058019 ATAATTTTTTGTTAGTATCTCGA-TTGTCACATTC
1 ATAATTTTTTATTAGTAGCTC-ATTTGTCACATTC
6058053 ATAA-TTTTTATTAGTAGCTCATTTGTCACATTC
1 ATAATTTTTTATTAGTAGCTCATTTGTCACATTC
6058086 A
1 A
6058087 CTNNNNNNNN
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 1 0.03
33 26 0.84
34 4 0.13
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (34 bp):
ATAATTTTTTATTAGTAGCTCATTTGTCACATTC
Found at i:6060482 original size:22 final size:22
Alignment explanation
Indices: 6060450--6060500 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
6060440 TTTTTTATAA
*
6060450 TTTA-TTAAAAAATTCATAAAT
1 TTTATTTAAAACATTCATAAAT
* *
6060471 TTGTATTTAAAACCTTCATATAT
1 TT-TATTTAAAACATTCATAAAT
6060494 TTTATTT
1 TTTATTT
6060501 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 7 0.28
23 16 0.64
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTATTTAAAACATTCATAAAT
Found at i:6060610 original size:28 final size:28
Alignment explanation
Indices: 6060578--6060643 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
6060568 ATATTAAAAT
6060578 ATTAATCATTTAC-ATTTACAATTTTTA
1 ATTAATCATTTACTATTTACAATTTTTA
* * *
6060605 ATTTAAAT-ATTAACTTTTTATAATTTTTA
1 A-TT-AATCATTTACTATTTACAATTTTTA
6060634 ATTAA-CATTT
1 ATTAATCATTT
6060644 TAGTTTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
27 6 0.19
28 9 0.29
29 16 0.52
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTAATCATTTACTATTTACAATTTTTA
Found at i:6061936 original size:64 final size:64
Alignment explanation
Indices: 6061819--6061938 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 64
6061809 ATATTTATGT
* * * * *
6061819 TGAAAATTAGCCTTTTACAAATATTATCGTCAATTTATAATAATAATGATAAAAATACTAAAAA
1 TGAAAATTAGCCTTTTAAAAATATTAACGTAAATTTATAAGAATAATAATAAAAATACTAAAAA
*
6061883 TGAAAATTAGCCTTTTAAAAATCA-TAACTTAAATTTATAAGAATAA-AATTAAAAAT
1 TGAAAATTAGCCTTTTAAAAAT-ATTAACGTAAATTTATAAGAATAATAA-TAAAAAT
6061939 TCATATCACA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 1 0.02
64 46 0.96
65 1 0.02
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (64 bp):
TGAAAATTAGCCTTTTAAAAATATTAACGTAAATTTATAAGAATAATAATAAAAATACTAAAAA
Found at i:6074792 original size:28 final size:28
Alignment explanation
Indices: 6074760--6074814 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
6074750 GATTGAAACT
*
6074760 TTATTTATGTTTGATGTAATTTATTTGC
1 TTATTTATGTTTGATGTAAGTTATTTGC
*
6074788 TTATTTATGTTTGGTGTAAGTTATTTG
1 TTATTTATGTTTGATGTAAGTTATTTG
6074815 TTTGTAGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.20, C:0.02, G:0.18, T:0.60
Consensus pattern (28 bp):
TTATTTATGTTTGATGTAAGTTATTTGC
Found at i:6083780 original size:8 final size:8
Alignment explanation
Indices: 6083769--6083802 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
6083759 TTTTTCCTCA
6083769 TTTCTTCC
1 TTTCTTCC
*
6083777 TTTCTTTC
1 TTTCTTCC
6083785 TTTCTTCC
1 TTTCTTCC
6083793 TTTGCTTCC
1 TTT-CTTCC
6083802 T
1 T
6083803 AGCCGAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (8 bp):
TTTCTTCC
Found at i:6084851 original size:17 final size:17
Alignment explanation
Indices: 6084829--6084864 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6084819 TCTCCCCCAC
*
6084829 TTAGATTAGCCATATAG
1 TTAGATTACCCATATAG
6084846 TTAGATTACCCATATAG
1 TTAGATTACCCATATAG
6084863 TT
1 TT
6084865 CTTCTTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (17 bp):
TTAGATTACCCATATAG
Found at i:6088052 original size:14 final size:15
Alignment explanation
Indices: 6088019--6088072 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
6088009 AATATGTTAA
6088019 ATTTATATAGTATAT
1 ATTTATATAGTATAT
6088034 ATTTATAT-GTAT-T
1 ATTTATATAGTATAT
*
6088047 ACTTTATTATATTATAT
1 A-TTTA-TATAGTATAT
*
6088064 ATATATATA
1 ATTTATATA
6088073 TGAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 2 0.06
14 8 0.24
15 15 0.45
16 6 0.18
17 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (15 bp):
ATTTATATAGTATAT
Found at i:6088709 original size:2 final size:2
Alignment explanation
Indices: 6088702--6088728 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6088692 GTTATAATGT
6088702 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 T
6088729 TACAAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6090734 original size:13 final size:13
Alignment explanation
Indices: 6090716--6090740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6090706 GATTAATTTT
6090716 TATAATATTATTA
1 TATAATATTATTA
6090729 TATAATATTATT
1 TATAATATTATT
6090741 TTTTTTATTA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATAATATTATTA
Found at i:6092969 original size:19 final size:19
Alignment explanation
Indices: 6092945--6092982 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6092935 ATGATCGAGG
6092945 TGATATTATAATGAAATAT
1 TGATATTATAATGAAATAT
6092964 TGATATTATAATGAAATAT
1 TGATATTATAATGAAATAT
6092983 CGTTGTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (19 bp):
TGATATTATAATGAAATAT
Found at i:6093970 original size:31 final size:31
Alignment explanation
Indices: 6093932--6093991 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
6093922 TCTAGCTATT
6093932 TGTTTCAGTATAAATTGTTCACAAGTGTCAA
1 TGTTTCAGTATAAATTGTTCACAAGTGTCAA
* *
6093963 TGTTTCAGTATAAGTTGTTCAGAAGTGTC
1 TGTTTCAGTATAAATTGTTCACAAGTGTC
6093992 CCTGAATTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (31 bp):
TGTTTCAGTATAAATTGTTCACAAGTGTCAA
Found at i:6097003 original size:17 final size:17
Alignment explanation
Indices: 6096981--6097014 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6096971 GATATAAATG
6096981 GCAACTCTGTAATTAAA
1 GCAACTCTGTAATTAAA
6096998 GCAACTCTGTAATTAAA
1 GCAACTCTGTAATTAAA
6097015 AGGCGAAGCT
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:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (17 bp):
GCAACTCTGTAATTAAA
Found at i:6098542 original size:18 final size:18
Alignment explanation
Indices: 6098519--6098558 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6098509 TTCGGGCACG
* *
6098519 GTGGTGGAGGTGGTGGCT
1 GTGGTGGAAGTAGTGGCT
*
6098537 GTGGTGGAAGTAGTGGTT
1 GTGGTGGAAGTAGTGGCT
6098555 GTGG
1 GTGG
6098559 AGGTGAAGCT
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:0.10, C:0.03, G:0.57, T:0.30
Consensus pattern (18 bp):
GTGGTGGAAGTAGTGGCT
Found at i:6102823 original size:2 final size:2
Alignment explanation
Indices: 6102816--6102848 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6102806 ATCAAAAAGA
*
6102816 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6102849 ATCCTAAGTG
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6103961 original size:32 final size:32
Alignment explanation
Indices: 6103925--6104002 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
6103915 CCAGAACTGC
6103925 ATGTGCACAAATGAAGAGCCAATCACAGAAGG
1 ATGTGCACAAATGAAGAGCCAATCACAGAAGG
*
6103957 ATGTGTACAAATGAAGAGCCAATCACAGAAGG
1 ATGTGCACAAATGAAGAGCCAATCACAGAAGG
*
6103989 ACGTGCACAAATGA
1 ATGTGCACAAATGA
6104003 TGCTACTGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (32 bp):
ATGTGCACAAATGAAGAGCCAATCACAGAAGG
Found at i:6118205 original size:21 final size:22
Alignment explanation
Indices: 6118181--6118221 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6118171 AAAATTGATT
*
6118181 TTGAT-CTTTGTCAAAAGAACC
1 TTGATACTTTGGCAAAAGAACC
*
6118202 TTGATACTTTGGGAAAAGAA
1 TTGATACTTTGGCAAAAGAA
6118222 AATGAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (22 bp):
TTGATACTTTGGCAAAAGAACC
Found at i:6124581 original size:35 final size:35
Alignment explanation
Indices: 6124540--6124622 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
6124530 GTAGGGTCAG
* *
6124540 GCGTAACCTTTACAACATGCCTTTTGCAAGATCAA
1 GCGTAACCTCTACAACATGCATTTTGCAAGATCAA
* * *
6124575 GCGTAACCTCTACAACTTGCATTTTGTAGGATCAA
1 GCGTAACCTCTACAACATGCATTTTGCAAGATCAA
* *
6124610 GTGTAACTTCTAC
1 GCGTAACCTCTAC
6124623 CAAAACACTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (35 bp):
GCGTAACCTCTACAACATGCATTTTGCAAGATCAA
Found at i:6127008 original size:73 final size:71
Alignment explanation
Indices: 6126927--6127199 Score: 334
Period size: 73 Copynumber: 3.8 Consensus size: 71
6126917 TGCTATATGG
* ** * * *
6126927 ATTGATATATGTTCTACACTAATAAGCATGGTAGCTAAGTTATATGTCATGTGGATATAAATATG
1 ATTGATATATGTTGTACACTAAGGAGCATGGTAGCTGAGCTACATGTCATGTGGATATAAATA-G
6126992 TTGTGTGA
65 -TGTGTGA
* * * * *
6127000 ATTGATATATGTTATACACTGAGGGGCATGGTA-CTTGAGCTACTTGTCATGTGGATATAAACA-
1 ATTGATATATGTTGTACACTAAGGAGCATGGTAGC-TGAGCTACATGTCATGTGGATATAAATAG
6127063 TGTGTGA
65 TGTGTGA
* * *
6127070 ATTGATATATGTTGTACACTGAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATAAATCGG
1 ATTGATATATGTTGTACACTAAGGAGCATGGTAGCTGAGCTACATGTCATGTGGATATAAAT-AG
6127135 CTGTGTGA
65 -TGTGTGA
* * *
6127143 ATTGATACATGTTGTGCATTAAGGAGCATGGTAGCTGAGCTACATGTCATGTGGATA
1 ATTGATATATGTTGTACACTAAGGAGCATGGTAGCTGAGCTACATGTCATGTGGATA
6127200 CATATATATA
Statistics
Matches: 176, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
70 64 0.36
71 1 0.01
72 1 0.01
73 110 0.62
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (71 bp):
ATTGATATATGTTGTACACTAAGGAGCATGGTAGCTGAGCTACATGTCATGTGGATATAAATAGT
GTGTGA
Found at i:6127185 original size:143 final size:143
Alignment explanation
Indices: 6126927--6127199 Score: 368
Period size: 143 Copynumber: 1.9 Consensus size: 143
6126917 TGCTATATGG
* * * *
6126927 ATTGATATATGTTCTACACTAATAAGCATGGTAGCTAAGTTATATGTCATGTGGATATAAATATG
1 ATTGATATATGTTCTACACTAAGAAGCATGGTAGCTAAGCTACATGTCATGTGGATATAAATAGG
* * * * *
6126992 TTGTGTGAATTGATATATGTTATACACTGAGGGGCATGGTACTTGAGCTACTTGTCATGTGGATA
66 CTGTGTGAATTGATACATGTTATACACTAAGGAGCATGGTACTTGAGCTACATGTCATGTGGATA
6127057 TAAACATGTGTGA
131 TAAACATGTGTGA
* * ** * *
6127070 ATTGATATATGTTGTACACTGAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATAAATCGG
1 ATTGATATATGTTCTACACTAAGAAGCATGGTAGCTAAGCTACATGTCATGTGGATATAAATAGG
* * *
6127135 CTGTGTGAATTGATACATGTTGTGCATTAAGGAGCATGGTAGC-TGAGCTACATGTCATGTGGAT
66 CTGTGTGAATTGATACATGTTATACACTAAGGAGCATGGTA-CTTGAGCTACATGTCATGTGGAT
6127199 A
130 A
6127200 CATATATATA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
143 110 0.99
144 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (143 bp):
ATTGATATATGTTCTACACTAAGAAGCATGGTAGCTAAGCTACATGTCATGTGGATATAAATAGG
CTGTGTGAATTGATACATGTTATACACTAAGGAGCATGGTACTTGAGCTACATGTCATGTGGATA
TAAACATGTGTGA
Found at i:6127757 original size:45 final size:45
Alignment explanation
Indices: 6127659--6127746 Score: 133
Period size: 46 Copynumber: 2.0 Consensus size: 45
6127649 ATGTGAGTAT
* *
6127659 GAGATTGTTATGCATGTCGTTTATTGTGAGCATGTGATATGAAAA
1 GAGATTGCTATGCATGTCGTTTATGGTGAGCATGTGATATGAAAA
*
6127704 TACGATTGCTATGCATGTCGTTTATGGTGAGCA-GTGATATGAA
1 GA-GATTGCTATGCATGTCGTTTATGGTGAGCATGTGATATGAA
6127747 CGGGAGATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 11 0.28
46 28 0.72
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.36
Consensus pattern (45 bp):
GAGATTGCTATGCATGTCGTTTATGGTGAGCATGTGATATGAAAA
Found at i:6128449 original size:17 final size:17
Alignment explanation
Indices: 6128427--6128463 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6128417 CATGATATTG
*
6128427 GCTGCTAGCAAGGGAAT
1 GCTGCTAGCAAGGAAAT
6128444 GCTGCTAGCAAGGAAAT
1 GCTGCTAGCAAGGAAAT
6128461 GCT
1 GCT
6128464 ATCACTGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.19
Consensus pattern (17 bp):
GCTGCTAGCAAGGAAAT
Found at i:6129474 original size:67 final size:68
Alignment explanation
Indices: 6129354--6129543 Score: 170
Period size: 67 Copynumber: 2.8 Consensus size: 68
6129344 CTCACATGCT
* ** * * * *
6129354 TAATCACCTCATGTA-GTATATAAAATCTACATCATACACACATTCTCAAGGCATTCACCATGCA
1 TAATCACCTCAT-AAGGTATATGGAATGTACATCATATACACAATCTCATGGCATTCACCATGC-
**
6129418 T-ATT
64 TCACC
* * * * * **
6129422 TAATCATCTCATATGGTATATTGAAT-TATATCATATACACAATCTCATGGCATTTATTATGCTC
1 TAATCACCTCATAAGGTATATGGAATGTACATCATATACACAATCTCATGGCATTCACCATGCTC
6129486 ACC
66 ACC
* * *
6129489 TAATCACCTCATAAGGTATATGGAATGTACATCACATAAACAATCTTATGGCATT
1 TAATCACCTCATAAGGTATATGGAATGTACATCATATACACAATCTCATGGCATT
6129544 TATCACACCA
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
66 1 0.01
67 53 0.54
68 44 0.45
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (68 bp):
TAATCACCTCATAAGGTATATGGAATGTACATCATATACACAATCTCATGGCATTCACCATGCTC
ACC
Found at i:6130775 original size:23 final size:22
Alignment explanation
Indices: 6130728--6130777 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
6130718 TGAAAAAATG
*
6130728 AATTTTTCTAAGTATAAAACTA
1 AATTTTTCTAAGTATAAAACCA
*
6130750 AATTTTTCTATGT-TCAAAACACA
1 AATTTTTCTAAGTAT-AAAAC-CA
6130773 AATTT
1 AATTT
6130778 AATTTGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.71
23 6 0.25
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (22 bp):
AATTTTTCTAAGTATAAAACCA
Found at i:6135340 original size:19 final size:20
Alignment explanation
Indices: 6135304--6135342 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
6135294 AATCTATTAA
* *
6135304 TTTTCAAAATAAACATTTCG
1 TTTTCAAAAAAAAAATTTCG
6135324 TTTT-AAAAAAAAAATTTCG
1 TTTTCAAAAAAAAAATTTCG
6135343 CTAGATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (20 bp):
TTTTCAAAAAAAAAATTTCG
Found at i:6140631 original size:16 final size:15
Alignment explanation
Indices: 6140596--6140645 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
6140586 TTTACATGTT
6140596 TATTTTTT-TTTGTTA
1 TATTTTTTATTT-TTA
6140611 T-TTTTTTAATTTTTA
1 TATTTTTT-ATTTTTA
*
6140626 TATTTTATATTTTTTA
1 TATTTTTTA-TTTTTA
6140642 TATT
1 TATT
6140646 ATCAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.20
15 6 0.20
16 18 0.60
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
TATTTTTTATTTTTA
Found at i:6142986 original size:8 final size:7
Alignment explanation
Indices: 6142947--6142982 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
6142937 TAACGGTGTT
6142947 AAAATTA
1 AAAATTA
6142954 AAAATTA
1 AAAATTA
6142961 AAAATTA
1 AAAATTA
6142968 AAAA-TA
1 AAAATTA
6142974 ATAAATTA
1 A-AAATTA
6142982 A
1 A
6142983 TAAAATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 3 0.11
7 21 0.78
8 3 0.11
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTA
Found at i:6143679 original size:2 final size:2
Alignment explanation
Indices: 6143672--6143702 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6143662 ACCCTGAGCT
6143672 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6143703 TCATTTCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:6151886 original size:21 final size:22
Alignment explanation
Indices: 6151853--6151896 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
6151843 AAGTGATTAA
6151853 TTTAAGTTATTTTAG-TTAAAT
1 TTTAAGTTATTTTAGTTTAAAT
* * *
6151874 TTTATGTTGTTTTGGTTTAAAT
1 TTTAAGTTATTTTAGTTTAAAT
6151896 T
1 T
6151897 ACTTTAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTAGTTTAAAT
Found at i:6153767 original size:7 final size:7
Alignment explanation
Indices: 6153755--6153781 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6153745 TTTTTAAAAA
6153755 AAATAAT
1 AAATAAT
6153762 AAATAAT
1 AAATAAT
6153769 AAATAAT
1 AAATAAT
6153776 AAATAA
1 AAATAA
6153782 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATAAT
Found at i:6153787 original size:9 final size:8
Alignment explanation
Indices: 6153751--6153799 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
6153741 TTTTTTTTTA
6153751 AAAAAAAT
1 AAAAAAAT
6153759 AATAAATAAT
1 AA-AAA-AAT
*
6153769 -AAATAAT
1 AAAAAAAT
6153776 AAATAAAAT
1 AAA-AAAAT
6153785 AAAAAAAT
1 AAAAAAAT
6153793 AAAAAAA
1 AAAAAAA
6153800 GCTGAAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
7 3 0.09
8 18 0.51
9 11 0.31
10 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAAAAAT
Done.