Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 42 of 292
Found at i:11540627 original size:46 final size:46
Alignment explanation
Indices: 11540457--11540629 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
11540447 AACCCGCCCC
* *
11540457 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
11540503 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
11540551 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
11540596 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11540630 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 58 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:11541088 original size:30 final size:30
Alignment explanation
Indices: 11541054--11541113 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
11541044 ATTTAATACG
11541054 AACTTTAAAAAAATTACACTTTTACCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
*** * *
11541084 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTACCCCTA
11541114 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTACCCCTA
Found at i:11548010 original size:43 final size:43
Alignment explanation
Indices: 11547974--11548066 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
11547964 TACATGTAAT
*
11547974 CACATATCGATGTC-ACTATCCCAGACAGGGTCTTACACGAGAA
1 CACATATCGATGCCAACT-TCCCAGACAGGGTCTTACACGAGAA
*
11548017 CACATATCGATGCCAACTTCCCAGA-TGTGGTCTTACACGAGAA
1 CACATATCGATGCCAACTTCCCAGACAG-GGTCTTACACGAGAA
11548060 CACATAT
1 CACATAT
11548067 TGATAATCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
42 1 0.02
43 42 0.91
44 3 0.07
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
CACATATCGATGCCAACTTCCCAGACAGGGTCTTACACGAGAA
Found at i:11548763 original size:25 final size:25
Alignment explanation
Indices: 11548705--11548764 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
11548695 ACTAACATCA
* *
11548705 CAAAAATT-AATTATTCATCAATTG
1 CAAAAATTAAAATATTCATCAAATG
* *
11548729 CATAATTTAAAATATTCATCAAAAT-
1 CAAAAATTAAAATATTCATC-AAATG
11548754 CAAAAATTAAA
1 CAAAAATTAAA
11548765 GCATGAGCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 6 0.21
25 19 0.68
26 3 0.11
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (25 bp):
CAAAAATTAAAATATTCATCAAATG
Found at i:11554309 original size:2 final size:2
Alignment explanation
Indices: 11554302--11554333 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11554292 AATGTAAATA
11554302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11554334 GTACCAGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11559417 original size:12 final size:12
Alignment explanation
Indices: 11559400--11559424 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11559390 TGACATCTCG
11559400 TATGATATTTGA
1 TATGATATTTGA
11559412 TATGATATTTGA
1 TATGATATTTGA
11559424 T
1 T
11559425 GCATCTCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TATGATATTTGA
Found at i:11559740 original size:29 final size:29
Alignment explanation
Indices: 11559679--11559777 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 29
11559669 ACAGTAAGTC
*
11559679 CGCACACTTATTGCT-TA-ATATTCAAACT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
11559707 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
11559736 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
11559764 CGCACACTTAGTGC
1 CGCACACTTAGTGC
11559778 CAATCTCATT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
28 33 0.49
29 34 0.50
30 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:11572142 original size:18 final size:19
Alignment explanation
Indices: 11572121--11572162 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
11572111 AAAAGTAATT
* *
11572121 TAAAAAG-ATAAATAAAGA
1 TAAAAAGTAAAAATAAAAA
11572139 T-AAAAGTAAAAATAAAAA
1 TAAAAAGTAAAAATAAAAA
11572157 TAAAAA
1 TAAAAA
11572163 TTAATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
TAAAAAGTAAAAATAAAAA
Found at i:11572150 original size:7 final size:6
Alignment explanation
Indices: 11572130--11572163 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
11572120 TTAAAAAGAT
* *
11572130 AAATAA AGATAA AAGTAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
11572164 TAATAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:11584677 original size:40 final size:39
Alignment explanation
Indices: 11584512--11584695 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
11584502 AAATTGAATG
* * *
11584512 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
11584552 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
11584592 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
11584632 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
11584671 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
11584696 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:11584720 original size:80 final size:81
Alignment explanation
Indices: 11584552--11584740 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
11584542 GCTGGAAATT
* * * *
11584552 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
11584617 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
11584633 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
11584696 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
11584712 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
11584741 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:11592783 original size:40 final size:39
Alignment explanation
Indices: 11592618--11592801 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
11592608 AAATTGAATG
* * *
11592618 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
11592658 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
11592698 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
11592738 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
11592777 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
11592802 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:11592826 original size:80 final size:81
Alignment explanation
Indices: 11592658--11592846 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
11592648 GCTGGAAATT
* * * *
11592658 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
11592723 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
11592739 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
11592802 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
11592818 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
11592847 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:11600576 original size:31 final size:32
Alignment explanation
Indices: 11600538--11600599 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 32
11600528 ACGAGTCAAT
11600538 TCGAAACAAATTCATTCAATAAAATT-TTAAC
1 TCGAAACAAATTCATTCAATAAAATTATTAAC
11600569 TCGAAACAAATTCATTCAATAAAATTATTAA
1 TCGAAACAAATTCATTCAATAAAATTATTAA
11600600 AATAACTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (32 bp):
TCGAAACAAATTCATTCAATAAAATTATTAAC
Found at i:11601475 original size:14 final size:16
Alignment explanation
Indices: 11601443--11601477 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11601433 AGTACTTCAA
*
11601443 TTTTTAATACTTAATT
1 TTTTTAACACTTAATT
11601459 TTTTTAACACTT-ATT
1 TTTTTAACACTTAATT
11601474 TTTT
1 TTTT
11601478 CAGTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTAACACTTAATT
Found at i:11610373 original size:12 final size:12
Alignment explanation
Indices: 11610356--11610381 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11610346 CACACGCCCA
11610356 TGTGCTAGGCCG
1 TGTGCTAGGCCG
11610368 TGTGCTAGGCCG
1 TGTGCTAGGCCG
11610380 TG
1 TG
11610382 CCAAACTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.23, G:0.42, T:0.27
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:11611539 original size:40 final size:40
Alignment explanation
Indices: 11611438--11611620 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
11611428 AAATTCTCAT
* * *
11611438 ACACTAAGTGCCAATACATAGGCGAAGCTATTTC-AATCTCGC
1 ACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAA--TCAC
* * *
11611480 ACACTAAGTGCCATTCATAGCCGAATCTATCTCGACTCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
* ** *
11611520 GCACTAAGTGCCATACATAGTTGAAGCTATCTCGAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
* *
11611560 ACACTAAGTGCCATACATAGTCGAAGCTATCTTGAATCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
* *
11611600 ACACTAAGTACCGTACATAGC
1 ACACTAAGTGCCATACATAGC
11611621 TGAATTGTCG
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 90 0.75
41 17 0.14
42 13 0.11
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
Found at i:11611572 original size:80 final size:80
Alignment explanation
Indices: 11611438--11611624 Score: 234
Period size: 80 Copynumber: 2.3 Consensus size: 80
11611428 AAATTCTCAT
* *
11611438 ACACTAAGTGCCAATACATAGGC-GAAGCTATTTCAATCTCGCACACTAAGTGCCATTCATAGCC
1 ACACTAAGTGCC-ATACATA-GCTGAAGCTATCTCAA-CTCGCACACTAAGTGCCATACATAGCC
* *
11611502 GAATCTATCTCGACTCAC
63 GAAGCTATCTCGAATCAC
* * *
11611520 GCACTAAGTGCCATACATAGTTGAAGCTATCTCGAA-TCGCACACTAAGTGCCATACATAGTCGA
1 ACACTAAGTGCCATACATAGCTGAAGCTATCTC-AACTCGCACACTAAGTGCCATACATAGCCGA
*
11611584 AGCTATCTTGAATCAC
65 AGCTATCTCGAATCAC
* *
11611600 ACACTAAGTACCGTACATAGCTGAA
1 ACACTAAGTGCCATACATAGCTGAA
11611625 TTGTCGTCAA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 61 0.67
81 17 0.19
82 13 0.14
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (80 bp):
ACACTAAGTGCCATACATAGCTGAAGCTATCTCAACTCGCACACTAAGTGCCATACATAGCCGAA
GCTATCTCGAATCAC
Found at i:11625887 original size:39 final size:39
Alignment explanation
Indices: 11625833--11625995 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
11625823 TGTGTATGAA
*
11625833 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
11625872 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
11625911 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
11625950 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
11625990 TGTGCG
1 TGTGCG
11625996 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:11633835 original size:18 final size:18
Alignment explanation
Indices: 11633814--11633913 Score: 103
Period size: 18 Copynumber: 5.6 Consensus size: 18
11633804 TAATAATTAG
* *
11633814 TTATTCAGTAACGGTCAT
1 TTATTCAGTAACAGTCAA
* * *
11633832 TTATTCAATATCAGTAAA
1 TTATTCAGTAACAGTCAA
**
11633850 TTATTCAGTAGTAGTCAA
1 TTATTCAGTAACAGTCAA
11633868 TTATTCAGTAACAGTC-A
1 TTATTCAGTAACAGTCAA
* *
11633885 TTGATTCAATAACAGTCGA
1 TT-ATTCAGTAACAGTCAA
11633904 TTATTCAGTA
1 TTATTCAGTA
11633914 GCGATCAATT
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
17 3 0.04
18 61 0.91
19 3 0.04
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:11633859 original size:54 final size:54
Alignment explanation
Indices: 11633800--11633913 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
11633790 CAGTCAGTCA
* * * * *
11633800 TCAGTAATAATTAGTTATTCAGTAACGGTCATTTATTCAATATCAGTAAATTAT
1 TCAGTAATAATCAATTATTCAGTAACAGTCATTGATTCAATAACAGTAAATTAT
* * **
11633854 TCAGTAGTAGTCAATTATTCAGTAACAGTCATTGATTCAATAACAGTCGATTAT
1 TCAGTAATAATCAATTATTCAGTAACAGTCATTGATTCAATAACAGTAAATTAT
11633908 TCAGTA
1 TCAGTA
11633914 GCGATCAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (54 bp):
TCAGTAATAATCAATTATTCAGTAACAGTCATTGATTCAATAACAGTAAATTAT
Found at i:11633922 original size:54 final size:54
Alignment explanation
Indices: 11633814--11633923 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
11633804 TAATAATTAG
* * * *
11633814 TTATTCAGTAACGGTCATTTATTCAATATCAGTAAATTATTCAGTAGTAGTCAA
1 TTATTCAGTAACAGTCATTGATTCAATAACAGTAAATTATTCAGTAGGAGTCAA
**
11633868 TTATTCAGTAACAGTCATTGATTCAATAACAGTCGATTATTCAGTAGCGA-TCAA
1 TTATTCAGTAACAGTCATTGATTCAATAACAGTAAATTATTCAGTAG-GAGTCAA
11633922 TT
1 TT
11633924 TTTAGTACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 48 0.98
55 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.37
Consensus pattern (54 bp):
TTATTCAGTAACAGTCATTGATTCAATAACAGTAAATTATTCAGTAGGAGTCAA
Found at i:11634157 original size:51 final size:53
Alignment explanation
Indices: 11634052--11634169 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 53
11634042 CAATAATGGT
* * *
11634052 AACAATAACAGTAGCAGTATGGTACATAGAGTACCTTATAGGAACGAATCCGG
1 AACAATAACAGTAACAGTAAGGTACATAGAGTACCTTATAGGAACAAATCCGG
* * *
11634105 AACAATAACAGTAACAGTAAGGTACA-A-AGTACCTTTTTGGAACAAATTCGG
1 AACAATAACAGTAACAGTAAGGTACATAGAGTACCTTATAGGAACAAATCCGG
* *
11634156 AACAGTAATAGTAA
1 AACAATAACAGTAA
11634170 GACGACACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 32 0.56
52 1 0.02
53 24 0.42
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.22
Consensus pattern (53 bp):
AACAATAACAGTAACAGTAAGGTACATAGAGTACCTTATAGGAACAAATCCGG
Found at i:11635231 original size:18 final size:19
Alignment explanation
Indices: 11635208--11635246 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
11635198 TCCTAATTCT
*
11635208 CCCTTTTCTT-TTTCTTTC
1 CCCTTTTCTTCCTTCTTTC
11635226 CCCTTTTCTTCCTTCTTTC
1 CCCTTTTCTTCCTTCTTTC
11635245 CC
1 CC
11635247 GTTTGCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (19 bp):
CCCTTTTCTTCCTTCTTTC
Found at i:11641841 original size:29 final size:29
Alignment explanation
Indices: 11641806--11641878 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
11641796 GTTGTGAGAT
*
11641806 TGGCACTAAGTGTGCGGGCTTGAAA-TACA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
11641835 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
11641864 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
11641879 ATGGTTGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:11645602 original size:46 final size:46
Alignment explanation
Indices: 11645535--11645704 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
11645525 AACCCGCCCC
* *
11645535 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCA
* * *
11645581 TAAGTTAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCGCATCCA
* * *
11645629 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCA
11645674 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
11645705 GGATGCTCAA
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 3 0.03
46 55 0.53
47 25 0.24
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCA
Found at i:11645653 original size:93 final size:93
Alignment explanation
Indices: 11645540--11645710 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
11645530 GCCCCTAAGT
* * *
11645540 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTTAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11645605 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
11645633 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11645698 CGAGTTCGGATGC
66 CGAGTTCGGATGC
11645711 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:11647391 original size:28 final size:27
Alignment explanation
Indices: 11647325--11647394 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
11647315 ATAGTGAGTC
*
11647325 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
11647352 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
11647380 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11647395 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:11649170 original size:30 final size:30
Alignment explanation
Indices: 11649136--11649195 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
11649126 ATTTAATACG
11649136 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
11649166 AACTTTTGCATAATTACACTTTTGTCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
11649196 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:11652255 original size:13 final size:13
Alignment explanation
Indices: 11652237--11652271 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
11652227 GCACACGGGC
11652237 GTGCCCCGGCCGT
1 GTGCCCCGGCCGT
11652250 GTGCCCCACGGCCGT
1 GTG-CCC-CGGCCGT
11652265 GTGCCCC
1 GTGCCCC
11652272 AATTTCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.20
14 6 0.30
15 10 0.50
ACGTcount: A:0.03, C:0.49, G:0.34, T:0.14
Consensus pattern (13 bp):
GTGCCCCGGCCGT
Found at i:11652263 original size:15 final size:15
Alignment explanation
Indices: 11652243--11652272 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11652233 GGGCGTGCCC
11652243 CGGCCGTGTGCCCCA
1 CGGCCGTGTGCCCCA
11652258 CGGCCGTGTGCCCCA
1 CGGCCGTGTGCCCCA
11652273 ATTTCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.47, G:0.33, T:0.13
Consensus pattern (15 bp):
CGGCCGTGTGCCCCA
Found at i:11653724 original size:13 final size:13
Alignment explanation
Indices: 11653706--11653732 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11653696 GGAGTAATCG
11653706 CACACGGGCGTGT
1 CACACGGGCGTGT
11653719 CACACGGGCGTGT
1 CACACGGGCGTGT
11653732 C
1 C
11653733 CCTGCCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:11657094 original size:30 final size:30
Alignment explanation
Indices: 11657059--11657128 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
11657049 TATTTTTGTC
*
11657059 CACACGGGCATGTGT-CTCAGCAATGTGCGA
1 CACACGGGCATGT-TACACAGCAATGTGCGA
* * *
11657089 CACACGGTCATGTTACACAGCCATGTGCGT
1 CACACGGGCATGTTACACAGCAATGTGCGA
*
11657119 CACATGGGCA
1 CACACGGGCA
11657129 AGTGGTCGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (30 bp):
CACACGGGCATGTTACACAGCAATGTGCGA
Found at i:11660672 original size:28 final size:28
Alignment explanation
Indices: 11660603--11660703 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
11660593 GACAAGATTG
* * * *
11660603 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
11660633 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
11660661 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
11660690 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
11660704 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:11668631 original size:28 final size:28
Alignment explanation
Indices: 11668562--11668662 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
11668552 GACAAGATTG
* * * *
11668562 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
11668592 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
11668620 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
11668649 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
11668663 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:11674247 original size:40 final size:40
Alignment explanation
Indices: 11674202--11674331 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
11674192 CGGAATACAA
11674202 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
11674242 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
11674282 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
11674322 CCGGATATAA
1 CCGGATATAA
11674332 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:11679781 original size:40 final size:40
Alignment explanation
Indices: 11679654--11679783 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
11679644 ATGCTGGAAA
* *
11679654 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
11679694 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
11679734 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
11679774 TTATATCCGG
1 TTATATCCGG
11679784 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:11685277 original size:43 final size:43
Alignment explanation
Indices: 11685180--11685334 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 43
11685170 ATTAAGATGT
* * * *
11685180 GATTACATGTAAAACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
* *
11685223 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGA
* * * ** * * *
11685266 GATTTCCTGTAAGACCCTATCTAAGACAGTGGGATCG-ATATGT
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATCGTA-ATGA
* * *
11685309 GATAACATGTAAGACCATATCTGGGA
1 GATTACCTGTAAGACCATGTCTGGGA
11685335 TATAGCATTC
Statistics
Matches: 89, Mismatches: 20, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 83 0.93
44 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
GATTACCTGTAAGACCATGTCTGGGACATTGGCATCGTAATGA
Found at i:11691149 original size:26 final size:27
Alignment explanation
Indices: 11691105--11691163 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
11691095 TTACCTCGAC
11691105 CCCCTAATAGATAAAATGACTGTTATA
1 CCCCTAATAGATAAAATGACTGTTATA
* * *
11691132 CCCCTAAT-GGTAAAATGACTGTTTTG
1 CCCCTAATAGATAAAATGACTGTTATA
11691158 CCCCTA
1 CCCCTA
11691164 TGTGATGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (27 bp):
CCCCTAATAGATAAAATGACTGTTATA
Found at i:11694996 original size:14 final size:14
Alignment explanation
Indices: 11694977--11695006 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11694967 CCGACAAATT
11694977 TTCATTTTTGACTC
1 TTCATTTTTGACTC
11694991 TTCATTTTTGACTC
1 TTCATTTTTGACTC
11695005 TT
1 TT
11695007 AATCTCTTTC
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:0.13, C:0.20, G:0.07, T:0.60
Consensus pattern (14 bp):
TTCATTTTTGACTC
Found at i:11698704 original size:22 final size:22
Alignment explanation
Indices: 11698676--11698722 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
11698666 AAGTAGTTAA
11698676 TTAAAACAAAACCCTATTATTC
1 TTAAAACAAAACCCTATTATTC
11698698 TTAAAACAAAACCCTATTATTC
1 TTAAAACAAAACCCTATTATTC
11698720 TTA
1 TTA
11698723 GGCCAGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (22 bp):
TTAAAACAAAACCCTATTATTC
Found at i:11706757 original size:78 final size:78
Alignment explanation
Indices: 11706658--11706837 Score: 281
Period size: 78 Copynumber: 2.3 Consensus size: 78
11706648 ATAATGGAGA
11706658 ATTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAG
1 ATTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAG
* *
11706722 GCATTCGTGCTGGT
66 GC-TTCGTGATGCT
* *
11706736 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGCAG
1 ATTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAG
*
11706801 GCTTTGTGATGCT
66 GCTTCGTGATGCT
11706814 ATTATATCTGGGCTTAAAGTCCCG
1 ATTATATCTGGGC-T-AAGTCCCG
11706838 CATGCTTTGT
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
78 72 0.77
79 13 0.14
80 8 0.09
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (78 bp):
ATTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAG
GCTTCGTGATGCT
Found at i:11706839 original size:40 final size:39
Alignment explanation
Indices: 11706658--11706837 Score: 254
Period size: 39 Copynumber: 4.6 Consensus size: 39
11706648 ATAATGGAGA
*
11706658 ATTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
*
11706697 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
11706736 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
* * * * *
11706775 GTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGATGCT
1 ATTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGT
*
11706814 ATTATATCTGGGCTTAAAGTCCCG
1 ATTATATCCGGGC-T-AAGTCCCG
11706838 CATGCTTTGT
Statistics
Matches: 129, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 107 0.83
40 22 0.17
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (39 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGT
Found at i:11713158 original size:39 final size:39
Alignment explanation
Indices: 11713104--11713350 Score: 397
Period size: 39 Copynumber: 6.3 Consensus size: 39
11713094 TAATGGAGAA
*
11713104 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
11713143 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTACTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
11713182 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
11713221 TTATATCCGGGCTAAGTCCCGAAAGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
11713260 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
11713299 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
11713338 TTATATCCGGGCT
1 TTATATCCGGGCT
11713351 TAAAGTCCTG
Statistics
Matches: 193, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 181 0.94
40 12 0.06
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:11730723 original size:12 final size:12
Alignment explanation
Indices: 11730706--11730741 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
11730696 TGGCCGTGTG
11730706 TGGCACATGGGC
1 TGGCACATGGGC
11730718 TGGCACATGGGC
1 TGGCACATGGGC
11730730 TGGCACATGGGC
1 TGGCACATGGGC
11730742 ATGTGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.17
Consensus pattern (12 bp):
TGGCACATGGGC
Found at i:11731475 original size:16 final size:18
Alignment explanation
Indices: 11731448--11731488 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
11731438 ATTACGCAAA
11731448 TATATGTGCATG-AACCT
1 TATATGTGCATGCAACCT
*
11731465 TATAT-TGCATGCAAGCT
1 TATATGTGCATGCAACCT
11731482 TATATGT
1 TATATGT
11731489 ACATATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 14 0.67
18 1 0.05
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (18 bp):
TATATGTGCATGCAACCT
Found at i:11731843 original size:32 final size:32
Alignment explanation
Indices: 11731807--11731903 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
11731797 TGTATGCATT
*
11731807 TTAGCATTTTAATAGTCAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
11731839 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
11731871 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
11731903 T
1 T
11731904 GATAAGCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:11735011 original size:12 final size:12
Alignment explanation
Indices: 11734994--11735022 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
11734984 ACTTGGGTAA
11734994 GAGGCCGTGGTC
1 GAGGCCGTGGTC
11735006 GAGGCCGTGGTC
1 GAGGCCGTGGTC
11735018 GAGGC
1 GAGGC
11735023 TGAGGTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.24, G:0.52, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:11739888 original size:32 final size:32
Alignment explanation
Indices: 11739852--11739944 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
11739842 TGCATTTTAA
*
11739852 CATTTTAATAGTCAATGGATGATGGGCATTAG
1 CATTTTAATAGTTAATGGATGATGGGCATTAG
* *
11739884 CATTTTAATAGTTAATGAATTATGGGCATTAG
1 CATTTTAATAGTTAATGGATGATGGGCATTAG
11739916 CATTTTAATAGTTAATGGATGATGGGCAT
1 CATTTTAATAGTTAATGGATGATGGGCAT
11739945 GATAAGCATT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.38
Consensus pattern (32 bp):
CATTTTAATAGTTAATGGATGATGGGCATTAG
Found at i:11748271 original size:14 final size:13
Alignment explanation
Indices: 11748251--11748289 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
11748241 GGAAATATTG
11748251 GAAATAATAATTT
1 GAAATAATAATTT
11748264 G-AA-AATAATTT
1 GAAATAATAATTT
11748275 G-AA-AATAATTT
1 GAAATAATAATTT
11748286 GAAA
1 GAAA
11748290 GCTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.80
12 4 0.16
13 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.33
Consensus pattern (13 bp):
GAAATAATAATTT
Found at i:11748272 original size:11 final size:11
Alignment explanation
Indices: 11748256--11748289 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
11748246 TATTGGAAAT
11748256 AATAATTTGAA
1 AATAATTTGAA
11748267 AATAATTTGAA
1 AATAATTTGAA
11748278 AATAATTTGAA
1 AATAATTTGAA
11748289 A
1 A
11748290 GCTTAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (11 bp):
AATAATTTGAA
Found at i:11748626 original size:22 final size:23
Alignment explanation
Indices: 11748596--11748657 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
11748586 TTTTTTCAGG
* *
11748596 GAATCTTCATTGTTCATGCCAAA
1 GAATCTTCACTATTCATGCCAAA
*
11748619 GAAT-TTCACTATTCATGCCAGA
1 GAATCTTCACTATTCATGCCAAA
* *
11748641 GATTCTTTACTATTCAT
1 GAATCTTCACTATTCAT
11748658 TCATTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 18 0.55
23 15 0.45
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (23 bp):
GAATCTTCACTATTCATGCCAAA
Found at i:11749833 original size:69 final size:71
Alignment explanation
Indices: 11749760--11749892 Score: 182
Period size: 69 Copynumber: 1.9 Consensus size: 71
11749750 ATACATTATC
* * *
11749760 ATTTCATGC-AGATATAATCATAGAAAACAATGAAAATAAC-A-ATATAGATTACATAATATATA
1 ATTTCATGCAAAATATAA-CACAGAAAACAATGAAAATAACAATATATAAATTACATAATATATA
11749822 TAATAAT
65 TAATAAT
* **
11749829 ATTTCTTGCAAAATATAACACAGAAAACAATGAATCTAACAATATATAAATTACATAATATATA
1 ATTTCATGCAAAATATAACACAGAAAACAATGAAAATAACAATATATAAATTACATAATATATA
11749893 ACAATATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
69 27 0.49
70 8 0.15
71 20 0.36
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (71 bp):
ATTTCATGCAAAATATAACACAGAAAACAATGAAAATAACAATATATAAATTACATAATATATAT
AATAAT
Found at i:11750427 original size:17 final size:17
Alignment explanation
Indices: 11750402--11750434 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11750392 ATAGGGAATA
11750402 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
11750419 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
11750435 ATAAATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:11750464 original size:24 final size:22
Alignment explanation
Indices: 11750430--11750477 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
11750420 TATGTAATAA
11750430 AATATATAAATGAA-ATATAAAT
1 AATATATAAAT-AACATATAAAT
11750452 AATATGATAAAATAACATATAAAT
1 AATAT-AT-AAATAACATATAAAT
11750476 AA
1 AA
11750478 AATAATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 4 0.17
24 14 0.61
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
AATATATAAATAACATATAAAT
Found at i:11753614 original size:27 final size:26
Alignment explanation
Indices: 11753576--11753711 Score: 191
Period size: 27 Copynumber: 5.0 Consensus size: 26
11753566 AAGCATCCTA
* *
11753576 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
11753603 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
11753630 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
11753657 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTGT-TCTG
* *
11753685 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
11753711 G
1 G
11753712 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
26 7 0.07
27 78 0.76
28 17 0.17
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:11755170 original size:12 final size:12
Alignment explanation
Indices: 11755153--11755194 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
11755143 GGTGGTCTAT
11755153 TTTGG-TGGTAAA
1 TTTGGTTGG-AAA
11755165 TTTGGTTGGAAA
1 TTTGGTTGGAAA
*
11755177 TTTGTTTGGAGAA
1 TTTGGTTGGA-AA
11755190 TTTGG
1 TTTGG
11755195 GTTTGCAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (12 bp):
TTTGGTTGGAAA
Found at i:11757072 original size:46 final size:46
Alignment explanation
Indices: 11757022--11757197 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
11757012 TGGTTGAGCA
11757022 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11757068 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11757113 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
11757161 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11757198 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11757178 original size:93 final size:93
Alignment explanation
Indices: 11757019--11757189 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
11757009 GGATGGTTGA
* *
11757019 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11757084 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
11757112 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11757177 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11757190 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11772122 original size:28 final size:28
Alignment explanation
Indices: 11772074--11772141 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
11772064 ATTTAAACCC
* *
11772074 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
11772101 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
11772129 TAGGGGTAATTTC
1 TAGGGGTAATTTC
11772142 GTGATCTACG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCAGTAATTTTGCTCTT
Found at i:11773965 original size:19 final size:18
Alignment explanation
Indices: 11773928--11773971 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
11773918 ATACATACAG
11773928 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
11773945 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
11773964 TACTAATT
1 TAATAATT
11773972 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:11776412 original size:27 final size:27
Alignment explanation
Indices: 11776345--11776412 Score: 104
Period size: 26 Copynumber: 2.6 Consensus size: 27
11776335 ATTTAAACCC
*
11776345 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTC-GTAATTTTGCTCTT
11776372 TA-GGGTAATTTCGTAATTTTGCTCTT
1 TAGGGGTAATTTCGTAATTTTGCTCTT
11776398 TAGGGGTAATTTCGT
1 TAGGGGTAATTTCGT
11776413 GATCTACGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
26 20 0.53
27 18 0.47
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.46
Consensus pattern (27 bp):
TAGGGGTAATTTCGTAATTTTGCTCTT
Found at i:11778226 original size:18 final size:17
Alignment explanation
Indices: 11778191--11778232 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
11778181 AAACATACAG
11778191 TAAT-ATTTTCTAATAA
1 TAATAATTTTCTAATAA
*
11778207 TAATAATTTATCTCATAA
1 TAATAATTT-TCTAATAA
*
11778225 TACTAATT
1 TAATAATT
11778233 AAAATTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 4 0.18
17 4 0.18
18 14 0.64
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATAATTTTCTAATAA
Found at i:11780344 original size:27 final size:27
Alignment explanation
Indices: 11780313--11780381 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
11780303 ATTTAAACCC
*
11780313 TAGGGGT-ATATTGGTAATTTTGCTCTT
1 TAGGGGTAAT-TTCGTAATTTTGCTCTT
11780340 TAGGGGTAATTTCGTAATTTTGCTCTT
1 TAGGGGTAATTTCGTAATTTTGCTCTT
11780367 TAGGGGTAATTTCGT
1 TAGGGGTAATTTCGT
11780382 GATCTACGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 38 0.95
28 2 0.05
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.46
Consensus pattern (27 bp):
TAGGGGTAATTTCGTAATTTTGCTCTT
Found at i:11782205 original size:19 final size:18
Alignment explanation
Indices: 11782168--11782211 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
11782158 ATACATACAG
11782168 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
11782185 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
11782204 TACTAATT
1 TAATAATT
11782212 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:11783683 original size:13 final size:13
Alignment explanation
Indices: 11783665--11783691 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11783655 AAGGGGGGAT
11783665 TTGGGGATAATTC
1 TTGGGGATAATTC
11783678 TTGGGGATAATTC
1 TTGGGGATAATTC
11783691 T
1 T
11783692 AGTAAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.30, T:0.41
Consensus pattern (13 bp):
TTGGGGATAATTC
Found at i:11785682 original size:3 final size:3
Alignment explanation
Indices: 11785674--11785705 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11785664 TATGTAAGTA
11785674 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
11785706 TTTAAGAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:11794204 original size:31 final size:31
Alignment explanation
Indices: 11794158--11794225 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
11794148 GCCGTGTGGG
*
11794158 CCACACGAGCCTGTGGG-TCAACAAGGGTAAT
1 CCACACGAGCATGTGGGTTC-ACAAGGGTAAT
* * *
11794189 CCACACGGGCATGTGGGTTCACATGGGTAGT
1 CCACACGAGCATGTGGGTTCACAAGGGTAAT
11794220 CCACAC
1 CCACAC
11794226 AAGTGTGTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.18
Consensus pattern (31 bp):
CCACACGAGCATGTGGGTTCACAAGGGTAAT
Found at i:11794334 original size:30 final size:30
Alignment explanation
Indices: 11794285--11794342 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11794275 CAATCTAGGT
* *
11794285 GTGTGGGCCACACGGGCAAGCCACATGGGC
1 GTGTGAGCCACACGAGCAAGCCACATGGGC
*
11794315 GTGTGAGCCATACGAGCAAGCCACATGG
1 GTGTGAGCCACACGAGCAAGCCACATGG
11794343 ACGTATGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.36, T:0.12
Consensus pattern (30 bp):
GTGTGAGCCACACGAGCAAGCCACATGGGC
Found at i:11801041 original size:40 final size:39
Alignment explanation
Indices: 11800963--11801146 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
11800953 TCGAATGATG
* * *
11800963 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
11801003 TCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
11801043 TCCGGGCTAAGCCCGAAGGCA-TGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
11801081 TCCGGGTTAAGTCCGGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTA-AA
*
11801122 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
11801147 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 26 0.22
39 15 0.12
40 67 0.56
41 12 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:11801524 original size:100 final size:100
Alignment explanation
Indices: 11801398--11801600 Score: 406
Period size: 100 Copynumber: 2.0 Consensus size: 100
11801388 ATATTGAGAA
11801398 TTTGTGCATATGAAATTATCTGTTTAGCTACATGAATGCTATACTTTGGTTGTGTCTAAATTCAT
1 TTTGTGCATATGAAATTATCTGTTTAGCTACATGAATGCTATACTTTGGTTGTGTCTAAATTCAT
11801463 GACTCAAACTTACTAAGCATTAAATGCTTACTCCG
66 GACTCAAACTTACTAAGCATTAAATGCTTACTCCG
11801498 TTTGTGCATATGAAATTATCTGTTTAGCTACATGAATGCTATACTTTGGTTGTGTCTAAATTCAT
1 TTTGTGCATATGAAATTATCTGTTTAGCTACATGAATGCTATACTTTGGTTGTGTCTAAATTCAT
11801563 GACTCAAACTTACTAAGCATTAAATGCTTACTCCG
66 GACTCAAACTTACTAAGCATTAAATGCTTACTCCG
11801598 TTT
1 TTT
11801601 CTTTGATTCT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (100 bp):
TTTGTGCATATGAAATTATCTGTTTAGCTACATGAATGCTATACTTTGGTTGTGTCTAAATTCAT
GACTCAAACTTACTAAGCATTAAATGCTTACTCCG
Found at i:11804497 original size:29 final size:28
Alignment explanation
Indices: 11804463--11804565 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
11804453 TAATCGATCA
* *
11804463 CGCACACTTAGTGCAATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
*
11804492 CGCACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
11804521 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
11804550 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
11804566 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 60 0.91
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:11809168 original size:40 final size:40
Alignment explanation
Indices: 11809124--11809201 Score: 115
Period size: 40 Copynumber: 1.9 Consensus size: 40
11809114 CTAAGTTCCA
11809124 TATATAGCCGAAGCTAT-TCCGAAT-CGCACACTAAGTGCTT
1 TATATAGCCGAAGCTATCT-C-AATACGCACACTAAGTGCTT
*
11809164 TATATAGCCGAAGCTATCTCAATACTCACACTAAGTGC
1 TATATAGCCGAAGCTATCTCAATACGCACACTAAGTGC
11809202 CAAACATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
39 3 0.09
40 31 0.89
41 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (40 bp):
TATATAGCCGAAGCTATCTCAATACGCACACTAAGTGCTT
Found at i:11809231 original size:19 final size:19
Alignment explanation
Indices: 11809207--11809245 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
11809197 AGTGCCAAAC
11809207 ATAATCAATTCATCATCGT
1 ATAATCAATTCATCATCGT
11809226 ATAATCAATTCATCATCGT
1 ATAATCAATTCATCATCGT
11809245 A
1 A
11809246 CACAACCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (19 bp):
ATAATCAATTCATCATCGT
Found at i:11809689 original size:28 final size:30
Alignment explanation
Indices: 11809637--11809697 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
11809627 ATTTATTTTA
*
11809637 CAATTTAACCCCTCAATTTACATTTTT-CT
1 CAATTTAACCCCTCAATATACATTTTTACT
* *
11809666 CAATTTAATCCCT-AATATGCATTTTTACT
1 CAATTTAACCCCTCAATATACATTTTTACT
11809695 CAA
1 CAA
11809698 AATCACCTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.31, C:0.25, G:0.02, T:0.43
Consensus pattern (30 bp):
CAATTTAACCCCTCAATATACATTTTTACT
Found at i:11811824 original size:22 final size:22
Alignment explanation
Indices: 11811796--11811857 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
11811786 ATTTAAAATA
*
11811796 TATATTTATCAATCAATTTAAT
1 TATATTTATCAATCAATTTAAG
*
11811818 TATATTTCAT-AATTAATTTAAG
1 TATATTT-ATCAATCAATTTAAG
* *
11811840 TA-ATATATCAAACAATTT
1 TATATTTATCAATCAATTT
11811858 TATAATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 2 0.06
21 10 0.30
22 19 0.58
23 2 0.06
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (22 bp):
TATATTTATCAATCAATTTAAG
Found at i:11811890 original size:12 final size:13
Alignment explanation
Indices: 11811856--11811890 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
11811846 ATCAAACAAT
*
11811856 TTTATAATTTAAA
1 TTTATTATTTAAA
11811869 TTTATTATTTAAA
1 TTTATTATTTAAA
11811882 TTT-TTATTT
1 TTTATTATTT
11811891 TTTTAACAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTATTATTTAAA
Found at i:11812202 original size:30 final size:30
Alignment explanation
Indices: 11812146--11812202 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
11812136 TAGTGTTAAA
*
11812146 AATACTTAAAATTAATATTTTACATTTTAG
1 AATACTTAAAATTAATATTATACATTTTAG
11812176 AATAC-TAAAA-TAATAATTATAGCATTT
1 AATACTTAAAATTAAT-ATTATA-CATTT
11812203 GGTCATGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.17
29 10 0.42
30 10 0.42
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (30 bp):
AATACTTAAAATTAATATTATACATTTTAG
Found at i:11812384 original size:5 final size:5
Alignment explanation
Indices: 11812376--11812402 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11812366 ACAAATTAAA
11812376 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
11812403 TCTACATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:11812882 original size:24 final size:24
Alignment explanation
Indices: 11812855--11812900 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
11812845 ATATATATTA
** *
11812855 AAAAATATGTAAATATCAAATAAT
1 AAAAATAAATAAATATAAAATAAT
*
11812879 AAAATTAAATAAATATAAAATA
1 AAAAATAAATAAATATAAAATA
11812901 TTCATCAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATAAATAAATATAAAATAAT
Found at i:11815162 original size:29 final size:29
Alignment explanation
Indices: 11815129--11815289 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
11815119 GTGACGAGAT
11815129 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
11815158 TGGCACTAAATGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
11815187 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
11815216 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
11815245 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
11815274 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
11815290 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:11817620 original size:14 final size:14
Alignment explanation
Indices: 11817601--11817629 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11817591 CTAGGTGAAG
11817601 TTAGAGTTTCAAGA
1 TTAGAGTTTCAAGA
11817615 TTAGAGTTTCAAGA
1 TTAGAGTTTCAAGA
11817629 T
1 T
11817630 CTTTAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (14 bp):
TTAGAGTTTCAAGA
Found at i:11822693 original size:4 final size:4
Alignment explanation
Indices: 11822684--11822759 Score: 70
Period size: 4 Copynumber: 18.8 Consensus size: 4
11822674 TTCCCTTACT
*
11822684 TTTA TTTA TTTA TTTA TTTT TATTA TTTA -TTA TTTA -TTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
11822730 TTTA -TTA TTTTA TTATA TTCTA TTTTA TTT
1 TTTA TTTA -TTTA TT-TA TT-TA -TTTA TTT
11822760 TTCTTCTTAC
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
3 12 0.20
4 33 0.54
5 14 0.23
6 2 0.03
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:11822714 original size:7 final size:7
Alignment explanation
Indices: 11822685--11822745 Score: 97
Period size: 7 Copynumber: 8.6 Consensus size: 7
11822675 TCCCTTACTT
11822685 TTATTTA
1 TTATTTA
11822692 TTTATTTA
1 -TTATTTA
11822700 TT-TTTA
1 TTATTTA
11822706 TTATTTA
1 TTATTTA
11822713 TTATTTA
1 TTATTTA
11822720 TTATTTA
1 TTATTTA
11822727 TTATTTA
1 TTATTTA
11822734 TTATTTTA
1 TTA-TTTA
11822742 TTAT
1 TTAT
11822746 ATTCTATTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.12
7 31 0.61
8 14 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:11822716 original size:3 final size:3
Alignment explanation
Indices: 11822697--11822815 Score: 54
Period size: 3 Copynumber: 39.7 Consensus size: 3
11822687 ATTTATTTAT
*
11822697 TTA TTT TTA TTA TTTA TTA TTTA TTA TTTA TTA TTTA TTA TT- TTA TTA
1 TTA TTA TTA TTA -TTA TTA -TTA TTA -TTA TTA -TTA TTA TTA TTA TTA
* * * * * *
11822745 -TA TT- CTA TT- TTA TTT TTC TTC TTA CTT- TTA TTC TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
*
11822787 GTT- TTA TTA TTC TTA GTT- TTA TTA TTA TT
1 -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
11822816 TTTTGTTTTG
Statistics
Matches: 89, Mismatches: 13, Indels: 28
0.68 0.10 0.22
Matches are distributed among these distances:
2 13 0.15
3 58 0.65
4 18 0.20
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:11822796 original size:15 final size:15
Alignment explanation
Indices: 11822778--11822812 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
11822768 ACTTTTATTC
*
11822778 TTATTGTTAGTTTTA
1 TTATTCTTAGTTTTA
11822793 TTATTCTTAGTTTTA
1 TTATTCTTAGTTTTA
11822808 TTATT
1 TTATT
11822813 ATTTTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATTCTTAGTTTTA
Found at i:11822811 original size:18 final size:17
Alignment explanation
Indices: 11822701--11822815 Score: 78
Period size: 18 Copynumber: 6.8 Consensus size: 17
11822691 ATTTATTTAT
*
11822701 TTTTATTATTTATTATT-
1 TTTTATTA-TTATTCTTA
* *
11822718 TATTATTTATTATTTATTA
1 TTTTA-TTATTA-TTCTTA
11822737 TTTTATTA-TATTC-TA
1 TTTTATTATTATTCTTA
* *
11822752 TTTTATTTTTCTTCTTA
1 TTTTATTATTATTCTTA
* *
11822769 CTTTTATTCTTATTGTTA
1 -TTTTATTATTATTCTTA
*
11822787 -GTT-TTATTATTCTTA
1 TTTTATTATTATTCTTA
11822802 GTTTTATTATTATT
1 -TTTTATTATTATT
11822816 TTTTGTTTTG
Statistics
Matches: 77, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
15 19 0.25
16 8 0.10
17 13 0.17
18 33 0.43
19 4 0.05
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTATTATTATTCTTA
Found at i:11822942 original size:21 final size:21
Alignment explanation
Indices: 11822900--11822964 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
11822890 TCGGATGTTC
*
11822900 ATTATT-CTCTT-TTAGTTATT
1 ATTATTACTCTTATTA-TTTTT
11822920 ATTATTACTCTTATTATTTTT
1 ATTATTACTCTTATTATTTTT
*
11822941 ATTTATTA-TTTTATTATTTTT
1 A-TTATTACTCTTATTATTTTT
11822962 ATT
1 ATT
11822965 GTCATTCTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.20
21 23 0.57
22 9 0.22
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (21 bp):
ATTATTACTCTTATTATTTTT
Found at i:11823066 original size:3 final size:3
Alignment explanation
Indices: 11823058--11823097 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
11823048 TTTGGTTTTC
* *
11823058 TAT TAT TAT TAT TAT TAT T-T TAT TGT TAT TAT TTT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11823098 GTACTATCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:11823086 original size:14 final size:14
Alignment explanation
Indices: 11823058--11823097 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
11823048 TTTGGTTTTC
11823058 TATTATTATTATTAT
1 TATT-TTATTATTAT
*
11823073 TATTTTATTGTTAT
1 TATTTTATTATTAT
11823087 TATTTTTATTA
1 TA-TTTTATTA
11823098 GTACTATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TATTTTATTATTAT
Found at i:11823086 original size:20 final size:20
Alignment explanation
Indices: 11823058--11823096 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11823048 TTTGGTTTTC
11823058 TATTATTATTATTATTATTT
1 TATTATTATTATTATTATTT
* *
11823078 TATTGTTATTATTTTTATT
1 TATTATTATTATTATTATT
11823097 AGTACTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TATTATTATTATTATTATTT
Found at i:11825764 original size:25 final size:25
Alignment explanation
Indices: 11825736--11825785 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11825726 CCCTTAACCT
11825736 AAGCCCCATTATAACCTCTTAAAGA
1 AAGCCCCATTATAACCTCTTAAAGA
11825761 AAGCCCCATTATAACCTCTTAAAGA
1 AAGCCCCATTATAACCTCTTAAAGA
11825786 CCTCTTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (25 bp):
AAGCCCCATTATAACCTCTTAAAGA
Found at i:11830658 original size:15 final size:17
Alignment explanation
Indices: 11830638--11830705 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 17
11830628 AAATGATAAT
11830638 AATAT-ATAG-ATAAAA
1 AATATAATAGTATAAAA
11830653 AATATAATAGTATAAAA
1 AATATAATAGTATAAAA
*
11830670 AATGACATAATAATATAAAA
1 AAT---ATAATAGTATAAAA
11830690 TAATTATAATA-TATAA
1 -AA-TATAATAGTATAA
11830706 TACGAAAGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
15 5 0.11
16 4 0.09
17 9 0.20
18 5 0.11
19 6 0.13
20 13 0.29
21 2 0.04
22 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (17 bp):
AATATAATAGTATAAAA
Found at i:11830770 original size:20 final size:21
Alignment explanation
Indices: 11830724--11830770 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
11830714 TATATATGTG
11830724 AATATAATATATAAAACAGAT
1 AATATAATATATAAAACAGAT
*
11830745 AA-ATAAT-TA-ATAAACATAT
1 AATATAATATATA-AAACAGAT
11830764 AATATAA
1 AATATAA
11830771 GTAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 11 0.48
20 9 0.39
21 2 0.09
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
AATATAATATATAAAACAGAT
Found at i:11830793 original size:25 final size:24
Alignment explanation
Indices: 11830765--11830888 Score: 81
Period size: 27 Copynumber: 4.8 Consensus size: 24
11830755 TAAACATATA
*
11830765 ATATAAGTAAAAATATAACAATAAT
1 ATATAAATAAAAATATAA-AATAAT
* *
11830790 ATATAAATAATAATTTAAAATAAT
1 ATATAAATAAAAATATAAAATAAT
*
11830814 A-ATAATTAGTGAAAAATAATAATATAAT
1 ATATAA--A-T-AAAAAT-ATAAAATAAT
* *
11830842 AATATAAATAATACATAATAGAATAACT
1 -ATATAAATAA-AAAT-ATAAAATAA-T
*
11830870 ATAT-AATATAAATATAAAA
1 ATATAAATAAAAATATAAAA
11830889 ATAGGGTTAA
Statistics
Matches: 78, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.05
24 12 0.15
25 19 0.24
26 7 0.09
27 21 0.27
28 10 0.13
29 1 0.01
30 4 0.05
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
ATATAAATAAAAATATAAAATAAT
Found at i:11830801 original size:3 final size:3
Alignment explanation
Indices: 11830762--11830861 Score: 50
Period size: 3 Copynumber: 33.0 Consensus size: 3
11830752 TAATAAACAT
* * *
11830762 ATA AT- ATA AGTA AAA AT- ATA ACA ATA ATA TATAA ATA ATA AT- TTA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA ATA ATA
* *
11830807 A-A ATA ATA ATA ATTA GTGA AAA ATA ATA AT- ATA ATA AT- ATAA ATA
1 ATA ATA ATA ATA A-TA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA
11830852 ATA CATA ATA
1 ATA -ATA ATA
11830862 GAATAACTAT
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
2 11 0.15
3 47 0.64
4 15 0.20
5 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11830802 original size:20 final size:22
Alignment explanation
Indices: 11830724--11830891 Score: 64
Period size: 23 Copynumber: 7.6 Consensus size: 22
11830714 TATATATGTG
* *
11830724 AATATAATATATAA-AACAGAT
1 AATATAATAAATAATAACATAT
*
11830745 AA-ATAATTAAT-A-AACATAT
1 AATATAATAAATAATAACATAT
*
11830764 AATATAAGTAAAAATATAACA-AT
1 AATATAA-TAAATA-ATAACATAT
** *
11830787 AATAT-ATAAATAATAATTTAA
1 AATATAATAAATAATAACATAT
* * *
11830808 AATAATAATAATTAGTGAAAAATAAT
1 AAT-ATAATAAATAAT--AACAT-AT
* *
11830834 AATATAATAATATAAATAATACAT
1 AATATAATAA-AT-AATAACATAT
* * *
11830858 AATAGAATAACTATATAATATA-
1 AATATAATAAATA-ATAACATAT
11830880 AATATAA-AAATA
1 AATATAATAAATA
11830892 GGGTTAAAAA
Statistics
Matches: 110, Mismatches: 23, Indels: 28
0.68 0.14 0.17
Matches are distributed among these distances:
19 9 0.08
20 15 0.14
21 18 0.16
22 10 0.09
23 23 0.21
24 15 0.14
25 13 0.12
26 5 0.05
27 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (22 bp):
AATATAATAAATAATAACATAT
Found at i:11830810 original size:13 final size:14
Alignment explanation
Indices: 11830784--11830883 Score: 59
Period size: 14 Copynumber: 7.1 Consensus size: 14
11830774 AAAATATAAC
11830784 AATAATATATAAAT
1 AATAATATATAAAT
*
11830798 AATAATTTA-AAAT
1 AATAATATATAAAT
* *
11830811 AATAATA-ATTAGT
1 AATAATATATAAAT
*
11830824 GAAAAATA-AT-AAT
1 -AATAATATATAAAT
11830837 -ATAATAATATAAAT
1 AATAAT-ATATAAAT
11830851 AATACATA-ATAGAAT
1 AATA-ATATATA-AAT
11830866 AACTATATAATATAAAT
1 AA-TA-AT-ATATAAAT
11830883 A
1 A
11830884 TAAAAATAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
11 4 0.06
12 2 0.03
13 16 0.24
14 22 0.33
15 9 0.13
16 6 0.09
17 5 0.07
18 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATATATAAAT
Found at i:11830844 original size:11 final size:11
Alignment explanation
Indices: 11830762--11830891 Score: 63
Period size: 11 Copynumber: 11.3 Consensus size: 11
11830752 TAATAAACAT
11830762 ATAATATAAGTA
1 ATAATATAA-TA
* *
11830774 AAAATATAACA
1 ATAATATAATA
11830785 ATAATATATAAATA
1 AT-A-ATAT-AATA
*
11830799 ATAATTTAA-A
1 ATAATATAATA
11830809 ATAATAATAATTA
1 ATAAT-ATAA-TA
*
11830822 GTGAA-A-AATA
1 AT-AATATAATA
11830832 ATAATATAATA
1 ATAATATAATA
*
11830843 ATATAAATAATA
1 ATA-ATATAATA
*
11830855 CATAATAGAATA
1 -ATAATATAATA
11830867 ACT-ATATAAT-
1 A-TAATATAATA
*
11830877 ATAAATATAAAA
1 AT-AATATAATA
11830889 ATA
1 ATA
11830892 GGGTTAAAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 31
0.67 0.10 0.23
Matches are distributed among these distances:
9 3 0.03
10 11 0.12
11 30 0.33
12 29 0.32
13 10 0.11
14 7 0.08
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (11 bp):
ATAATATAATA
Found at i:11830859 original size:16 final size:17
Alignment explanation
Indices: 11830840--11830883 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
11830830 TAATAATATA
11830840 ATAATATAAATAA-TAC
1 ATAATATAAATAACTAC
* *
11830856 ATAATA-GAATAACTAT
1 ATAATATAAATAACTAC
11830872 ATAATATAAATA
1 ATAATATAAATA
11830884 TAAAAATAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 14 0.61
17 4 0.17
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (17 bp):
ATAATATAAATAACTAC
Found at i:11830876 original size:40 final size:40
Alignment explanation
Indices: 11830784--11830891 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 40
11830774 AAAATATAAC
*
11830784 AATAATATATAA-ATAATAATTTAAAATAATAATAATTAGTG
1 AATAATATATAATATAATAATAT-AAATAATAATAATTAG-G
*
11830825 AAAAATA-ATAATATAATAATATAAATAATACATAA-TA-G
1 AATAATATATAATATAATAATATAAATAATA-ATAATTAGG
11830863 AATAACTATATAATAT-A-AATATAAA-AATA
1 AATAA-TATATAATATAATAATATAAATAATA
11830892 GGGTTAAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
37 4 0.07
38 13 0.22
39 3 0.05
40 21 0.35
41 19 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (40 bp):
AATAATATATAATATAATAATATAAATAATAATAATTAGG
Found at i:11844256 original size:14 final size:14
Alignment explanation
Indices: 11844233--11844262 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11844223 TTGAAAATAT
11844233 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
11844247 GTTGATTTGGATTG
1 GTTGAATTGGATTG
11844261 GT
1 GT
11844263 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:11847208 original size:5 final size:5
Alignment explanation
Indices: 11847198--11847241 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
11847188 ATTTATCCAT
* * *
11847198 TTTTA TTTTA TTTTA TTTTA TTTTA TATT- TTTTG TTTTA ATTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
11847242 AATTTTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 3 0.09
5 31 0.91
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:11847235 original size:19 final size:19
Alignment explanation
Indices: 11847198--11847249 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
11847188 ATTTATCCAT
*
11847198 TTTTATTTTATTTTATTTTA
1 TTTTATATT-TTTTATTTTA
*
11847218 TTTTATATTTTTTGTTTTA
1 TTTTATATTTTTTATTTTA
* *
11847237 ATTTAAATTTTTT
1 TTTTATATTTTTT
11847250 TGTTGCTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTATATTTTTTATTTTA
Found at i:11860487 original size:13 final size:13
Alignment explanation
Indices: 11860469--11860494 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11860459 TTCAAACTAC
11860469 TTTTTATTTTTTA
1 TTTTTATTTTTTA
11860482 TTTTTATTTTTTA
1 TTTTTATTTTTTA
11860495 GCAGATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:11866881 original size:17 final size:18
Alignment explanation
Indices: 11866839--11866887 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
11866829 AGTTGAAAAG
11866839 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
11866858 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
11866875 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
11866888 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:11867775 original size:40 final size:40
Alignment explanation
Indices: 11867709--11867875 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
11867699 AAATTGAATG
* * *
11867709 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
11867748 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
11867788 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
11867828 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
11867868 ATATCCGG
1 ATATCCGG
11867876 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:11874880 original size:17 final size:18
Alignment explanation
Indices: 11874838--11874886 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
11874828 AGTTGAAAAG
11874838 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
11874857 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
11874874 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
11874887 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:11875774 original size:40 final size:40
Alignment explanation
Indices: 11875708--11875874 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
11875698 AAATTGAATG
* * *
11875708 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
11875747 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
11875787 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
11875827 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
11875867 ATATCCGG
1 ATATCCGG
11875875 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:11877982 original size:40 final size:40
Alignment explanation
Indices: 11877913--11878132 Score: 270
Period size: 40 Copynumber: 5.6 Consensus size: 40
11877903 AAACCAAGTA
* * *
11877913 CCTTCGGG-TTTAGCCGGA-TATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGATTATAG-TAACTCGCACAAATG
*
11877951 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
* *
11877991 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
* * * *
11878031 CCTTCGGGATTTGGCCCGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
* *
11878071 CCTTCGGGACTTGGCCTAGA-TATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCC-CGATTATAGTAACTCGCACAAATG
*
11878111 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGATTAT
11878133 CAATCCGAAT
Statistics
Matches: 161, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
38 9 0.06
39 18 0.11
40 133 0.83
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
Found at i:11880921 original size:21 final size:21
Alignment explanation
Indices: 11880881--11880922 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11880871 TTTTTTTCCA
* *
11880881 TTTTAGTATTAATTATTAAAT
1 TTTTAGTATTAAGTAGTAAAT
*
11880902 TTTTAGTATTTAGTAGTAAAT
1 TTTTAGTATTAAGTAGTAAAT
11880923 ATTAAAAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTTAGTATTAAGTAGTAAAT
Found at i:11881970 original size:37 final size:37
Alignment explanation
Indices: 11881915--11881989 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
11881905 AGATGACATG
*
11881915 GCCTAAGCCTTGCAACACGGGCAGCTCACACGCCCGT
1 GCCTAAGCCTTGCAACACGAGCAGCTCACACGCCCGT
*
11881952 GCCTAAGCCTTGCCACACGAGCAGCTCACACGCCCGT
1 GCCTAAGCCTTGCAACACGAGCAGCTCACACGCCCGT
11881989 G
1 G
11881990 TCTTTCGAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.13
Consensus pattern (37 bp):
GCCTAAGCCTTGCAACACGAGCAGCTCACACGCCCGT
Found at i:11882973 original size:13 final size:13
Alignment explanation
Indices: 11882955--11882983 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11882945 TTTAGTTTAA
11882955 TTAGTTAATTAGT
1 TTAGTTAATTAGT
11882968 TTAGTTAATTAGT
1 TTAGTTAATTAGT
11882981 TTA
1 TTA
11882984 ATAACAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:11891312 original size:179 final size:179
Alignment explanation
Indices: 11890932--11891268 Score: 523
Period size: 179 Copynumber: 1.9 Consensus size: 179
11890922 TAAGATCCGT
* * * * * *
11890932 TAATTTTCTCTGAAACTAGACTCATAGATATTTTTACCATAAAATTTTTAGAATTTTTGGTTTAG
1 TAATTCTCTCAGAAACTAGACTCACAGATATTATTACCATAAAACTTTTAGAATTTTTAGTTTAG
11890997 CCAATTAGTACAGTTTATTCATTAAAATACCCCTATTTCACTATCCTACAGTTCCGACCTCTCTT
66 CCAATTAGTACAGTTTATTCATTAAAATACCCCTATTTCACTATCCTACAGTTCCGACCTCTCTT
* *
11891062 CACTAAAAATTATTTATTTTATGGTACGAGACTCCAAATTGAGAACCAC
131 CACTAAAAATTATTTATCTCATGGTACGAGACTCCAAATTGAGAACCAC
* * *
11891111 TAATTTTCTCAGAAACTAGACTCACATATATTATTACCATAAAACTTTTAGAATTTTTAGTTTAT
1 TAATTCTCTCAGAAACTAGACTCACAGATATTATTACCATAAAACTTTTAGAATTTTTAGTTTAG
* * *
11891176 CTAATTAGTACAGTTTATTCATTAAATATACCCCTATTTCACTGT-CTGACAGTTCCTACCTCTC
66 CCAATTAGTACAGTTTATTCATTAAA-ATACCCCTATTTCACTATCCT-ACAGTTCCGACCTCTC
11891240 TTCACTAAAAATTATTTATCTCATGGTAC
129 TTCACTAAAAATTATTTATCTCATGGTAC
11891269 AGCTCTCTGA
Statistics
Matches: 144, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
179 85 0.59
180 59 0.41
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (179 bp):
TAATTCTCTCAGAAACTAGACTCACAGATATTATTACCATAAAACTTTTAGAATTTTTAGTTTAG
CCAATTAGTACAGTTTATTCATTAAAATACCCCTATTTCACTATCCTACAGTTCCGACCTCTCTT
CACTAAAAATTATTTATCTCATGGTACGAGACTCCAAATTGAGAACCAC
Found at i:11891612 original size:16 final size:16
Alignment explanation
Indices: 11891593--11891624 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11891583 AATTGTTTTA
11891593 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
11891609 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
11891625 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:11892036 original size:50 final size:49
Alignment explanation
Indices: 11891829--11892164 Score: 194
Period size: 50 Copynumber: 6.7 Consensus size: 49
11891819 AGCTCTCTGG
* * * * * *
11891829 TACACATAGTAGCCTACACCTAATACTACACATGTGACCTATCAAT-TGG
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTA-CAATCCGA
* * * * ** * * **
11891878 TACAC-TAGTTGCCTACACTTAGTACTACGCACATGACTTATCCATCTAA
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTA-CAATCCGA
* * * * * * * *
11891927 TACACATAGCAGCCTGCACTTAGTACTACACACGTGATCGA-AGTTAACGGG
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTACA---ATCCGA
* * *
11891978 TA-GCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCCGG
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTA-CAATCCGA
* * * ** * *
11892027 TACATATAGTAGCTTGCATTTAGGACTACACACATGACCTCACCATCTGA
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCT-ACAATCCGA
* **
11892077 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTAAAACTGTCTTA
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTACAA---TCCGA
* * *
11892129 AACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTG
11892165 GTCTCACAAT
Statistics
Matches: 222, Mismatches: 53, Indels: 21
0.75 0.18 0.07
Matches are distributed among these distances:
48 32 0.14
49 19 0.09
50 128 0.58
51 5 0.02
52 38 0.17
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (49 bp):
TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTACAATCCGA
Found at i:11892095 original size:150 final size:148
Alignment explanation
Indices: 11891833--11892113 Score: 366
Period size: 150 Copynumber: 1.9 Consensus size: 148
11891823 CTCTGGTACA
* * * *
11891833 CATAGTAGCCTACACCTAATACTACACATGTGACCTATCAATTGGTACACTAGTTGCCTACACTT
1 CATAGTAGCCTACACCTAATACTACACATGCGACCTATCAATCGGTACAATAGTAGCCTACACTT
* * *
11891898 AGTACTACGCACATGACTTATCCATCTAATACACATAGCAGCCTGCACTTAGTACTACACACGTG
66 AGGACTACACACATGACTCATCCATCTAATACACATAGCAGCCTGCACTTAGTACTACACACGTG
11891963 ATCGAAGTTAACGGGTAG
131 ATCGAAGTTAACGGGTAG
* * * * * * *
11891981 CATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACATATAGTAGCTTGCAT
1 CATAGTAGCCTACACCTAATACTACACATGCGACCTATCAAT-CGGTACA-ATAGTAGCCTACAC
* * * *
11892046 TTAGGACTACACACATGACCTCA-CCATCTGATACACATAGTAGCTTGCACTTAGTACTACACAT
64 TTAGGACTACACACATGA-CTCATCCATCTAATACACATAGCAGCCTGCACTTAGTACTACACAC
11892110 GTGA
128 GTGA
11892114 CCTAAAACTG
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
148 37 0.33
149 6 0.05
150 66 0.59
151 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (148 bp):
CATAGTAGCCTACACCTAATACTACACATGCGACCTATCAATCGGTACAATAGTAGCCTACACTT
AGGACTACACACATGACTCATCCATCTAATACACATAGCAGCCTGCACTTAGTACTACACACGTG
ATCGAAGTTAACGGGTAG
Found at i:11892160 original size:100 final size:99
Alignment explanation
Indices: 11891981--11892162 Score: 217
Period size: 100 Copynumber: 1.8 Consensus size: 99
11891971 TAACGGGTAG
* * * *
11891981 CATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACATATAGTAGCTTGCAT
1 CATAGTAGCTTGCACTTAGTACTACACATGCGACCTATAAATCCGGTACACATAGTAGCCTGCAC
*
11892046 TTAGGACTACACACATGACCTCACCATCTGATACA
66 ATAGGACTA-ACACATGACCTCACCATCTGATACA
* * *
11892081 CATAGTAGCTTGCACTTAGTACTACACATGTGACCTA-AAA-CTGTCTTAAACACATAGTAGCCT
1 CATAGTAGCTTGCACTTAGTACTACACATGCGACCTATAAATCCG--GT--ACACATAGTAGCCT
*
11892144 GCACATAGTACT-ACACATG
62 GCACATAGGACTAACACATG
11892163 TGGTCTCACA
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
98 2 0.03
99 2 0.03
100 44 0.64
102 21 0.30
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (99 bp):
CATAGTAGCTTGCACTTAGTACTACACATGCGACCTATAAATCCGGTACACATAGTAGCCTGCAC
ATAGGACTAACACATGACCTCACCATCTGATACA
Found at i:11894786 original size:15 final size:15
Alignment explanation
Indices: 11894762--11894806 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
11894752 AACCAGGATT
*
11894762 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
11894777 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
11894792 AAGGAATCCAAGATA
1 AAGAAATCCAAGATA
11894807 CAATATCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.56, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:11894955 original size:2 final size:2
Alignment explanation
Indices: 11894948--11894973 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11894938 GTACCTTCCC
11894948 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11894974 CGAACAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.