Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold40
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: 3440810
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 28138 characters in sequence are not A, C, G, or T
File 11 of 24
Found at i:1498646 original size:16 final size:16
Alignment explanation
Indices: 1498625--1498665 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1498615 CTCGGGTTCG
*
1498625 TTTGAGTTTTGCCTTT
1 TTTGAGTTTTGACTTT
1498641 TTTGAGTTTTGACTTT
1 TTTGAGTTTTGACTTT
1498657 TTTGAGTTT
1 TTTGAGTTT
1498666 AAATTTATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.10, C:0.07, G:0.20, T:0.63
Consensus pattern (16 bp):
TTTGAGTTTTGACTTT
Found at i:1498698 original size:16 final size:16
Alignment explanation
Indices: 1498679--1498709 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1498669 TTTATTCAGG
1498679 TTTAAATTTTTTTGAA
1 TTTAAATTTTTTTGAA
1498695 TTTAAATTTTTTTGA
1 TTTAAATTTTTTTGA
1498710 GTTTGAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTAAATTTTTTTGAA
Found at i:1509033 original size:46 final size:46
Alignment explanation
Indices: 1508946--1509033 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
1508936 TGAATACTAT
* * * *
1508946 AATATTTTAAAATAATTAAGTGAATTCTATTATTTTAATTAAAAAC
1 AATATTTTAAAATAAGTAACTAAATTCTATTATTCTAATTAAAAAC
* *
1508992 AATATTTTAAAATAAGTATCTAAATTTTATTATTGCT-ATTAA
1 AATATTTTAAAATAAGTAACTAAATTCTATTATT-CTAATTAA
1509034 TTATCTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
46 34 0.97
47 1 0.03
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (46 bp):
AATATTTTAAAATAAGTAACTAAATTCTATTATTCTAATTAAAAAC
Found at i:1509075 original size:23 final size:23
Alignment explanation
Indices: 1509032--1509075 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1509022 TATTGCTATT
* *
1509032 AATTATCTTTTTATTAGTATTAA
1 AATTATCTTTTTAATACTATTAA
1509055 AATTAT-TTTGTTAATACTATT
1 AATTATCTTT-TTAATACTATT
1509076 TAATTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
AATTATCTTTTTAATACTATTAA
Found at i:1511091 original size:13 final size:13
Alignment explanation
Indices: 1511073--1511098 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1511063 TACAGCAAGT
1511073 ATGTATCGATACA
1 ATGTATCGATACA
1511086 ATGTATCGATACA
1 ATGTATCGATACA
1511099 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1514722 original size:13 final size:13
Alignment explanation
Indices: 1514704--1514728 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1514694 TTTTCCAGAT
1514704 TGTATCGATACAA
1 TGTATCGATACAA
1514717 TGTATCGATACA
1 TGTATCGATACA
1514729 TTGCTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1515602 original size:27 final size:27
Alignment explanation
Indices: 1515564--1515616 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
1515554 GACAACGTAT
1515564 TAAGGGGGAGAGTTTGTATAAATTTTC
1 TAAGGGGGAGAGTTTGTATAAATTTTC
1515591 TAAGGGGGAGAGTTTGTATAAATTTT
1 TAAGGGGGAGAGTTTGTATAAATTTT
1515617 GTATTAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (27 bp):
TAAGGGGGAGAGTTTGTATAAATTTTC
Found at i:1516790 original size:13 final size:13
Alignment explanation
Indices: 1516772--1516797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1516762 TACAGCAAGT
1516772 ATGTATCGATACA
1 ATGTATCGATACA
1516785 ATGTATCGATACA
1 ATGTATCGATACA
1516798 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1521541 original size:111 final size:112
Alignment explanation
Indices: 1521342--1521565 Score: 328
Period size: 111 Copynumber: 2.0 Consensus size: 112
1521332 GGAAAATGAC
* * * ** *
1521342 TTTTCTTTATGCATGTTTTCATTCTAATTTGGTCACTTTGGTGACTAATGAATTGCATAAACGTA
1 TTTTCTTTATGCATGTATTCATTCTAATTTGGCCACTTTAGTGACTAACAAATTGCATAAACATA
*
1521407 AACATGCATATAAACATAATAGCTATTGCAATAATTATAAA-AAAATA
66 AACATGCATATAAACATAATAGCTATTGCAAGAATTA-AAACAAAATA
* *
1521454 TTTT-TTTATGCATGTATTCATTCTAGTTTGGCCACTTTAGTGACTAACAAATTGCATACACATA
1 TTTTCTTTATGCATGTATTCATTCTAATTTGGCCACTTTAGTGACTAACAAATTGCATAAACATA
1521518 AACAT-CTATATAAACATAATAGCTATTGCAAGAATTAAAACAAAATA
66 AACATGC-ATATAAACATAATAGCTATTGCAAGAATTAAAACAAAATA
1521565 T
1 T
1521566 AAGAATATAT
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
110 4 0.04
111 93 0.92
112 4 0.04
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (112 bp):
TTTTCTTTATGCATGTATTCATTCTAATTTGGCCACTTTAGTGACTAACAAATTGCATAAACATA
AACATGCATATAAACATAATAGCTATTGCAAGAATTAAAACAAAATA
Found at i:1522430 original size:16 final size:16
Alignment explanation
Indices: 1522409--1522464 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
1522399 TTTTTCTAAT
1522409 TTTTTATAATTATATA
1 TTTTTATAATTATATA
1522425 TTTTTA-AATT-TA-A
1 TTTTTATAATTATATA
1522438 TTTTTATTAATTTAGTATA
1 TTTTTA-TAA-TTA-TATA
1522457 TTTCTTAT
1 TTT-TTAT
1522465 TAACTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
13 7 0.21
14 2 0.06
15 6 0.18
16 8 0.24
18 2 0.06
19 5 0.15
20 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTTATAATTATATA
Found at i:1522434 original size:15 final size:14
Alignment explanation
Indices: 1522409--1522451 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
1522399 TTTTTCTAAT
1522409 TTTTTATAATTATATA
1 TTTTTATAATT-TA-A
1522425 TTTTTA-AATTTAA
1 TTTTTATAATTTAA
1522438 TTTTTATTAATTTA
1 TTTTTA-TAATTTA
1522452 GTATATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.28
14 2 0.08
15 10 0.40
16 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTATAATTTAA
Found at i:1522704 original size:18 final size:18
Alignment explanation
Indices: 1522662--1522707 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
1522652 GTTAAACCTT
1522662 ATCTA-TTTTTTAAACAA
1 ATCTATTTTTTTAAACAA
**
1522679 ATCTTATTTTTTTATCCAA
1 ATC-TATTTTTTTAAACAA
1522698 ATCTATTTTT
1 ATCTATTTTT
1522708 GAAGCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 9 0.36
19 13 0.52
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (18 bp):
ATCTATTTTTTTAAACAA
Found at i:1523131 original size:12 final size:11
Alignment explanation
Indices: 1523094--1523141 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 11
1523084 ACTCGTTCAT
1523094 ATTATTTTTAA
1 ATTATTTTTAA
*
1523105 TTTATTTTTAAAA
1 ATTATTTTT--AA
1523118 ATATATTTTTAA
1 AT-TATTTTTAA
1523130 ATTAATTTTTAA
1 ATT-ATTTTTAA
1523142 TAATTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 9 0.29
12 12 0.39
13 3 0.10
14 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTATTTTTAA
Found at i:1526121 original size:16 final size:15
Alignment explanation
Indices: 1526097--1526148 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
1526087 TACAATGTTT
1526097 TTTTATTAATTTTTA
1 TTTTATTAATTTTTA
*
1526112 TTTTATTTAATTTTCA
1 TTTTA-TTAATTTTTA
* *
1526128 TCTTTAATATTTTTTA
1 T-TTTATTAATTTTTA
1526144 TTTTA
1 TTTTA
1526149 AAATAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 9 0.29
16 18 0.58
17 4 0.13
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTAATTTTTA
Found at i:1526680 original size:15 final size:15
Alignment explanation
Indices: 1526639--1526679 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
1526629 ATTATTGACT
*
1526639 TAAAACTAAAAATAC
1 TAAAAATAAAAATAC
1526654 TAAAAATAAAAATAC
1 TAAAAATAAAAATAC
*
1526669 -AAAATTAAAAA
1 TAAAAATAAAAA
1526680 AAAAAATCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAAAATAAAAATAC
Found at i:1527349 original size:18 final size:18
Alignment explanation
Indices: 1527315--1527354 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1527305 TCTAAAAACA
1527315 ATAATATAAAAATAATAT
1 ATAATATAAAAATAATAT
*
1527333 ATAACTATAAATA-AATAT
1 ATAA-TATAAAAATAATAT
1527351 ATAA
1 ATAA
1527355 ACATATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATATAAAAATAATAT
Found at i:1527637 original size:2 final size:2
Alignment explanation
Indices: 1527632--1527714 Score: 64
Period size: 2 Copynumber: 43.0 Consensus size: 2
1527622 TTTTAAAATT
* * * * *
1527632 TA TA TA TA TA TA TA TA TA TT TA TT TA -A AA GA T- TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1527672 AA TA TA TA TC TA AA TA TA TA TA TA TA TA TA TA -A TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1527713 TA
1 TA
1527715 AAAATAAAAG
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
1 3 0.05
2 59 0.95
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1527715 original size:6 final size:6
Alignment explanation
Indices: 1527670--1527722 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
1527660 AGATTATATT
* * * * *
1527670 TAAATA TATATC TAAATA TATATA TATATA TATAATA TAAATA TAAAAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TA-AATA TAAATA TAAATA
1527719 TAAA
1 TAAA
1527723 AGGCATAATC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (6 bp):
TAAATA
Found at i:1530711 original size:10 final size:11
Alignment explanation
Indices: 1530694--1530732 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
1530684 GATGATACTC
1530694 ATATATATTTAA
1 ATATATA-TTAA
1530706 ATATATATTAA
1 ATATATATTAA
*
1530717 TATAAATATTAA
1 -ATATATATTAA
1530729 ATAT
1 ATAT
1530733 GAATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 7 0.29
12 17 0.71
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATATATTAA
Found at i:1531253 original size:2 final size:2
Alignment explanation
Indices: 1531248--1531279 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1531238 TCCAAGCTAA
1531248 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
1531280 TTTGGAATTC
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:1543687 original size:42 final size:42
Alignment explanation
Indices: 1543619--1543714 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
1543609 TTGTTCATTA
*
1543619 TATCGATACATTGTATTGATACATTCTAGGTTTACCCAGATG
1 TATCGATACATTGTATCGATACATTCTAGGTTTACCCAGATG
* *
1543661 TATCAATACATTGTATCGATATATTCTAGGTTTACCCAGATG
1 TATCGATACATTGTATCGATACATTCTAGGTTTACCCAGATG
1543703 TATCGATACATT
1 TATCGATACATT
1543715 TTGCATTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (42 bp):
TATCGATACATTGTATCGATACATTCTAGGTTTACCCAGATG
Found at i:1543728 original size:20 final size:19
Alignment explanation
Indices: 1543703--1543753 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
1543693 TACCCAGATG
*
1543703 TATCGATACATTTTGCATTA
1 TATCGATACATTCT-CATTA
* *
1543723 TATCGATACATGCTCATTG
1 TATCGATACATTCTCATTA
1543742 TATCGATACATT
1 TATCGATACATT
1543754 GCCCAGATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (19 bp):
TATCGATACATTCTCATTA
Found at i:1543785 original size:20 final size:20
Alignment explanation
Indices: 1543700--1543794 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
1543690 GTTTACCCAG
1543700 ATGTATCGATACATTTTGCA
1 ATGTATCGATACATTTTGCA
* * **
1543720 TTATATCGATACATGCT-CA
1 ATGTATCGATACATTTTGCA
* ***
1543739 TTGTATCGATACATTGCCCA
1 ATGTATCGATACATTTTGCA
*
1543759 GATGTATCGATACATTTTGTA
1 -ATGTATCGATACATTTTGCA
*
1543780 ATGTATCGACACATT
1 ATGTATCGATACATT
1543795 CAGGCATTTT
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 15 0.25
20 29 0.49
21 15 0.25
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTTGCA
Found at i:1546212 original size:79 final size:79
Alignment explanation
Indices: 1546077--1546276 Score: 258
Period size: 79 Copynumber: 2.5 Consensus size: 79
1546067 TTTTTATCTC
* * * *
1546077 GGGGATACTCCAACCCTGGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCAATTTCTCACAATCCGGGATACTCCAAC
* *
1546142 CTCGTTATTT-TCGA
66 CCCATTATTTCT-GA
* * * * *
1546156 GGGGATACTCTAAGCCTGGCTTTATTTCTAAAATATTAATTTCTCACAATCCGGGATACTCCAAC
1 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCAATTTCTCACAATCCGGGATACTCCAAC
1546221 CCCATTATTTCTGA
66 CCCATTATTTCTGA
* * *
1546235 GGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTT
1 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCAATTT
1546277 TGCATAATCG
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
79 100 0.99
80 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCAATTTCTCACAATCCGGGATACTCCAAC
CCCATTATTTCTGA
Found at i:1546318 original size:50 final size:51
Alignment explanation
Indices: 1546238--1546351 Score: 149
Period size: 50 Copynumber: 2.3 Consensus size: 51
1546228 TTTCTGAGGG
* ** *
1546238 GATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTGCATAATC-GA
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTGCACAATCGGA
* * * *
1546288 GATACTCCGACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGG
1 GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTGCACAATCGGA
1546339 GATACTCCAACCC
1 GATACTCCAACCC
1546352 TGTTATTTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
50 41 0.77
51 12 0.23
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTGCACAATCGGA
Found at i:1546368 original size:28 final size:29
Alignment explanation
Indices: 1546336--1546407 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
1546326 TTTCACAATC
*
1546336 GGGGATACTCCAACCCT-GTTATTTCAT-T
1 GGGGATACTCCAACCCTCGTTATTTC-TGA
*
1546364 GGGGATACTCTAA-CCTCGTTATTTCTGA
1 GGGGATACTCCAACCCTCGTTATTTCTGA
1546392 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1546408 CGACTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 4 0.11
28 32 0.84
29 2 0.05
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (29 bp):
GGGGATACTCCAACCCTCGTTATTTCTGA
Found at i:1546433 original size:107 final size:107
Alignment explanation
Indices: 1546288--1546480 Score: 255
Period size: 107 Copynumber: 1.8 Consensus size: 107
1546278 GCATAATCGA
* * * * *
1546288 GATACTCCGACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACC-C
1 GATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCAGGGATACTCCAACCTC
*
1546352 TGTTA-TTTCATTGGGGATACTCTAACCTCGTTATTTCTGAGGG
66 -GTTATTTTCA-CGGGGATACTCTAACCTCGTTATTTCTGAGGG
* * ** *
1546395 GATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTCTCACAATCAGGGATACTTCAACCTC
1 GATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCAGGGATACTCCAACCTC
1546460 GTTATTTTCACGGGGATACTC
66 GTTATTTTCACGGGGATACTC
1546481 CAACTTTGCC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
107 67 0.92
108 6 0.08
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (107 bp):
GATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCAGGGATACTCCAACCTC
GTTATTTTCACGGGGATACTCTAACCTCGTTATTTCTGAGGG
Found at i:1546461 original size:79 final size:78
Alignment explanation
Indices: 1546365--1546762 Score: 277
Period size: 79 Copynumber: 5.1 Consensus size: 78
1546355 TATTTCATTG
* *
1546365 GGGATACTCTAACCTCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTCT-AAAATATT
1 GGGATACTC-AACCTCGTTATTT-TGAGGGGATACTCCAACCCCGACTTTATTTCTCAAAACATC
1546429 AATTTCTCACAATCA
64 AATTTCTCACAATCA
* *** * *
1546444 GGGATACTTCAACCTCGTTATTTTCACGGGGATACTCCAACTTTG-CCTTATTTCT-AAAGCATC
1 GGGATAC-TCAACCTCGTTATTTTGA-GGGGATACTCCAACCCCGACTTTATTTCTCAAAACATC
* * *
1546507 AATTTTTTATAATC-
64 AATTTCTCACAATCA
1546521 GGAGATACTCTAATCCT-GTTATTTTTGAGGGGATACTCC-ACCCCGA-TTTCATTT-TCAAAAC
1 GG-GATACTC-AA-CCTCGTTA-TTTTGAGGGGATACTCCAACCCCGACTTT-ATTTCTCAAAAC
* *
1546582 ACCAATTT-TCCACAAT-G
61 ATCAATTTCT-CACAATCA
* * * * * *
1546599 GGGATACT---CCACGTTATTTTCGAGTGGATACTCCAACCCTGATTTTA-TTCTCAAAACGTCG
1 GGGATACTCAACCTCGTTATTTT-GAGGGGATACTCCAACCCCGACTTTATTTCTCAAAACATCA
***
1546660 ATTTCTTGTAATCA
65 ATTTCTCACAATCA
* * * * * * * *
1546674 AGGATGCTCCAACCTTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTT-TTAGAACACC
1 GGGATACT-CAACCTCGTTATTT-TGAGGGGATACTCCAACCCCGACTTTATTTCTCAAAACATC
* *
1546738 AATTTCCCATAATCA
64 AATTTCTCACAATCA
1546753 GGGGATACTC
1 -GGGATACTC
1546763 CAGCCCCGTT
Statistics
Matches: 247, Mismatches: 47, Indels: 50
0.72 0.14 0.15
Matches are distributed among these distances:
72 6 0.02
73 18 0.07
74 22 0.09
75 10 0.04
77 17 0.07
78 70 0.28
79 94 0.38
80 10 0.04
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (78 bp):
GGGATACTCAACCTCGTTATTTTGAGGGGATACTCCAACCCCGACTTTATTTCTCAAAACATCAA
TTTCTCACAATCA
Found at i:1552285 original size:13 final size:13
Alignment explanation
Indices: 1552267--1552293 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1552257 TACATAAGTG
1552267 TTGTATCGATACA
1 TTGTATCGATACA
1552280 TTGTATCGATACA
1 TTGTATCGATACA
1552293 T
1 T
1552294 CGATCTTTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1552357 original size:20 final size:19
Alignment explanation
Indices: 1552332--1552405 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
1552322 TTTACCCAGA
1552332 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
1552352 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
1552372 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
1552392 TGTATCGATACATT
1 TGTATCGATACATT
1552406 CAGGCATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:1554687 original size:51 final size:51
Alignment explanation
Indices: 1554612--1554790 Score: 227
Period size: 51 Copynumber: 3.5 Consensus size: 51
1554602 AAATTTCTAG
* * * *
1554612 ATTTTTCAT-CTCGTGGATACTCCAA-TCTCGGTTTCATTTCCAAAACATCC
1 ATTTTTCATAATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAACATCC
* * *
1554662 ATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCC
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCC
* **
1554713 ATTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATTG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCC
* *
1554764 ACTTTTCACAATCGGGGATACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
1554791 CCCGTTGTTT
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
50 8 0.07
51 101 0.91
52 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.35
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCC
Found at i:1554973 original size:79 final size:79
Alignment explanation
Indices: 1554726--1555030 Score: 384
Period size: 79 Copynumber: 3.9 Consensus size: 79
1554716 TTCCATAATC
* * * *
1554726 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATTGACTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCCAAC
* *
1554791 CCCGTTGTTTCTGA
66 CCCGTTATTTCCGA
* * * *
1554805 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTT--C-ATCAGGGATACTCCAAT
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCCAAC
*
1554867 CCCGTTATTTTCGA
66 CCCGTTATTTCCGA
* *
1554881 GGGGATACTCCAACCCC-AGTTTTATTTCTAAAACATTAATTTTTCATAATCGGGGATATTCCAA
1 GGGGATACTCCAACCCCGA-TTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCCAA
1554945 CCCCGTTATTTCCGA
65 CCCCGTTATTTCCGA
* * ** * * *
1554960 AGGGATACTCCAACCCTGATTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATATTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCCAAC
*
1555025 TCCGTT
66 CCCGTT
1555031 TTATTTCCAA
Statistics
Matches: 195, Mismatches: 26, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
76 67 0.34
77 1 0.01
79 126 0.65
80 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:1555043 original size:129 final size:130
Alignment explanation
Indices: 1554881--1555129 Score: 333
Period size: 129 Copynumber: 1.9 Consensus size: 130
1554871 TTATTTTCGA
* ** * * *
1554881 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACATTAATTTTTCATAATCGGGGATATTCCAAC
1 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAACTTTTCACAATCGGGGATACTCCAAC
* *
1554946 CCCGTTATTTCCGAAGG-GATACTCCAA-CCCTGATTTTATTTCTAAAACACCAATTCTCCACAA
66 CCCGTTATTTCCG-AGGAGACACTCCAACCCCAG-TTTTATTTCTAAAACACCAATTCTCCACAA
1555009 TC
129 TC
* * *
1555011 GGGGATATTCCAACTCC-GTTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAACTTTTCACAATCGGGGATACTCCAAC
** *
1555075 CCCGTTATTTTTGAGGAGACACTCCAACCCCAGTTTTATTTCTAAAACATCAATT
66 CCCGTTATTTCCGAGGAGACACTCCAACCCCAGTTTTATTTCTAAAACACCAATT
1555130 TTTCATCGGA
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
128 3 0.03
129 81 0.79
130 19 0.18
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (130 bp):
GGGGATACTCCAACCCCAGTTTTATTTCCAAAACACCAACTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTCCGAGGAGACACTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCACAATC
Found at i:1555080 original size:50 final size:50
Alignment explanation
Indices: 1554961--1555080 Score: 161
Period size: 50 Copynumber: 2.4 Consensus size: 50
1554951 TATTTCCGAA
* *
1554961 GGGATACTCCAACCCTGATTTTATTTCTAAAACACCAATTCTCCACAATCG
1 GGGATACTCCAACCCCG-TTTTATTTCCAAAACACCAATTCTCCACAATCG
* * * *
1555012 GGGATATTCCAACTCCGTTTTATTTCCAAAACACCGACTT-TTCACAATCG
1 GGGATACTCCAACCCCGTTTTATTTCCAAAACACC-AATTCTCCACAATCG
1555062 GGGATACTCCAACCCCGTT
1 GGGATACTCCAACCCCGTT
1555081 ATTTTTGAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 43 0.72
51 17 0.28
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.29
Consensus pattern (50 bp):
GGGATACTCCAACCCCGTTTTATTTCCAAAACACCAATTCTCCACAATCG
Found at i:1555189 original size:284 final size:279
Alignment explanation
Indices: 1554676--1555311 Score: 936
Period size: 284 Copynumber: 2.2 Consensus size: 279
1554666 TTCTTAATCG
*
1554676 GGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATCGGGGATACTCCAACT
1 GGGATACTCCAAC-CCGATTTTATTTCTAAAACA-CCAATTTCCATAATCGGGGATACTCCAACT
** *
1554741 CCGATTTTATTTCCAAAACATTGACTTTTCACAATCGGGGATACTCCAACCCCGTTGTTTCTGAG
64 CCG-TTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAG
* * *
1554806 GGGACACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTTCATCAGGGATACTCCAATCCCG
128 GAGACACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATCAGGGATACTCCAATCCCG
*
1554871 TTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATTAATTTTTCATAATCGGGG
193 TTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTC---ATCGGGG
*
1554936 ATATTCCAACCCCGTTA-TTTCCGAA
255 ATACTCCAACCCCGTTATTTTCC-AA
* *
1554961 GGGATACTCCAACCCTGATTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATATTCCAACT
1 GGGATACTCCAACCC-GATTTTATTTCTAAAACACCAATT-TCCATAATCGGGGATACTCCAACT
*
1555026 CCGTTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGG
64 CCGTTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGG
1555091 AGACACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATC-GGAGATACTCCAATCCCG
129 AGACACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATCAGG-GATACTCCAATCCCG
* * *
1555155 TTATTTTCGAGGGGATACTCTAACCCCGGTTTTATTTCTGAAACATCAATTTTTCATCGGGGATA
193 TTATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATA
*
1555220 CTCCAACCCCGTTATTTTCCAG
258 CTCCAACCCCGTTATTTTCCAA
** * **
1555242 GGGATAC-CTCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGATACTC-CAA-CCCGATTTTATTTCTAAAACACCAATTTC-CATAATCGGGGATACTCCAAC
*
1555306 CCCGTT
63 TCCGTT
1555312 ATTTTCGAGG
Statistics
Matches: 320, Mismatches: 24, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
280 3 0.01
281 77 0.24
282 8 0.03
283 2 0.01
284 174 0.54
285 56 0.17
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (279 bp):
GGGATACTCCAACCCGATTTTATTTCTAAAACACCAATTTCCATAATCGGGGATACTCCAACTCC
GTTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGGAG
ACACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATCAGGGATACTCCAATCCCGTTA
TTTTCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTC
CAACCCCGTTATTTTCCAA
Found at i:1555323 original size:79 final size:78
Alignment explanation
Indices: 1555011--1555495 Score: 579
Period size: 79 Copynumber: 6.2 Consensus size: 78
1555001 CTCCACAATC
* * * * * *
1555011 GGGGATATTCCAACTCC-GTTTTATTTCCAAAACACCGACTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATC-AATTTTCATAATCGGGGATACTCCAAC
*
1555075 CCCGTTATTTTTGA
65 CCCGTTATTTTCGA
* * * * * *
1555089 GGAGACACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTT--TCATCGGAGATACTCCAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCATAATCGGGGATACTCCAACC
1555152 CCGTTATTTTCGA
66 CCGTTATTTTCGA
* * *
1555165 GGGGATACTCTAACCCCGGTTTTATTTCTGAAACATCAATTTT--TCATCGGGGATACTCCAACC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCATAATCGGGGATACTCCAACC
*
1555228 CCGTTATTTTCCA
66 CCGTTATTTTCGA
* * *
1555241 GGGGATAC-CTCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTC-CAACCCCGGTTTTATTTCTAAAACATCAATTT-TCATAATCGGGGATACTCCAA
1555305 CCCCGTTATTTTCGA
64 CCCCGTTATTTTCGA
* * *
1555320 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTTATAGTCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAA-TTTTCATAATCGGGGATACTCCAAC
1555385 CCCGTTA-TTTCTGA
65 CCCGTTATTTTC-GA
* * * * * * *
1555399 GGGGATGCTCCAATCCCGATTTTATTTCTAAATCATCGATTTTTCACAACCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATC-AATTTTCATAATCGGGGATACTCCAAC
*
1555464 CCCGTTATTTTCAA
65 CCCGTTATTTTCGA
*
1555478 GAGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1555496 TTATTATCTC
Statistics
Matches: 352, Mismatches: 45, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
75 1 0.00
76 131 0.37
77 1 0.00
78 22 0.06
79 188 0.53
80 9 0.03
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTCATAATCGGGGATACTCCAACC
CCGTTATTTTCGA
Found at i:1557555 original size:63 final size:61
Alignment explanation
Indices: 1557425--1557612 Score: 241
Period size: 62 Copynumber: 3.0 Consensus size: 61
1557415 CCTCTTTTAG
* * * * * *
1557425 CCCTTTAGTCCTCAAAAAGCAAGACGTCTTTTTTCTTTTTAAAGCCCATACGAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGAC-ACCTTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCA
* *
1557488 CCTTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * *
1557550 CCCTTTAGTCCTCAAAGAGCAGAACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1557611 CC
1 CC
1557613 TCTCAGTCTT
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
61 28 0.25
62 60 0.55
63 22 0.20
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (61 bp):
CCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1557644 original size:61 final size:61
Alignment explanation
Indices: 1557429--1557647 Score: 226
Period size: 61 Copynumber: 3.5 Consensus size: 61
1557419 TTTTAGCCCT
* * * * * * * *
1557429 TTAGTCCTCAAAAAGCAAGACGTCTTTTTTCTTTTTAAAGCCCATACGAGTTGGTGGCACCTT
1 TTAGTCCTCAAAGAGCAGGACG-C-CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
* * * *
1557492 TTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCACC-C
1 TTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTC
*
1557553 TTTAGTCCTCAAAGAGCAGAACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
1 -TTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
* * * *
1557615 TCAGTCTTCAAAAAGTAGGACG-CTCTCTCCTTT
1 TTAGTCCTCAAAGAGCAGGACGCCT-TCTCCTTT
1557648 CACCTCTGTT
Statistics
Matches: 132, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
60 2 0.02
61 57 0.43
62 54 0.41
63 19 0.14
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (61 bp):
TTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
Found at i:1557888 original size:21 final size:21
Alignment explanation
Indices: 1557855--1557895 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1557845 CTAAGTAAAA
1557855 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1557876 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1557896 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1557960 original size:20 final size:20
Alignment explanation
Indices: 1557929--1558005 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
1557919 GTCAAAACCC
*
1557929 TGAAAAGTATCGATACACAT
1 TGAATAGTATCGATACACAT
* *
1557949 TTAAGT-GTATCGATACAAAT
1 TGAA-TAGTATCGATACACAT
*
1557969 TGCATAGTATCGATACACA-
1 TGAATAGTATCGATACACAT
**
1557988 CAAATATGTATCGATACA
1 TGAATA-GTATCGATACA
1558006 GGTCATTGGC
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 4 0.09
20 41 0.91
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.29
Consensus pattern (20 bp):
TGAATAGTATCGATACACAT
Found at i:1558101 original size:10 final size:10
Alignment explanation
Indices: 1558082--1558112 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1558072 AATCTCATTT
1558082 TCACTGTTCA
1 TCACTGTTCA
*
1558092 TCACTATTCA
1 TCACTGTTCA
1558102 TCACTGTTCA
1 TCACTGTTCA
1558112 T
1 T
1558113 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1558134 original size:21 final size:22
Alignment explanation
Indices: 1558100--1558154 Score: 103
Period size: 21 Copynumber: 2.5 Consensus size: 22
1558090 CATCACTATT
1558100 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1558122 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
1558143 CATCACTGTTCA
1 CATCACTGTTCA
1558155 CACTGTTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:1558242 original size:13 final size:13
Alignment explanation
Indices: 1558224--1558249 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1558214 ACATATTTGT
1558224 GTGTATCGATACA
1 GTGTATCGATACA
1558237 GTGTATCGATACA
1 GTGTATCGATACA
1558250 TCATAAATAG
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:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:1559277 original size:61 final size:62
Alignment explanation
Indices: 1559168--1560077 Score: 1071
Period size: 61 Copynumber: 14.8 Consensus size: 62
1559158 GTAGGACGCC
* * * *
1559168 TTTCGAAGCCCAGACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGACATCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTT-TAGTCCTCAAAGAGCAGGACACCTTTTTCT
* ** *
1559231 TTTCAAAG-CCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCA--AGATGTATTTTCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCT-TTTTCT
** * * *
1559291 TTTGGAAGCCTACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGTAGGACACCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTT-TAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * * *
1559354 TTGCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCC-TTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * * * ** *
1559415 TTTCAAAACCCACACAAGCTGGTGGCA-CCTTCAGTCTTCAAAGAGCAGGATGCCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * * * ** *
1559476 TTT-AAAACCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAATGAGCAGTACGTCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTT-AGTCCTCAAAGAGCAGGACACCTTTTTCT
* * * *
1559537 TTTTAAAGCCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * *
1559599 TTTCAAAGCCCACACGAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGTAGGACACCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * * *
1559660 TTT-AAAGCCCACATAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACTTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * **
1559721 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAACAGGAC-GGTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * **
1559782 TTTCAAAGCCCACACGAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * * * *
1559843 TTTCAAAGCCAACACGACTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAAGACACATTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* *
1559904 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTTAGTCCTCAAAAAGCAGGACGA-CTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCC-TTTAGTCCTCAAAGAGCAGGAC-ACCTTTTTCT
* * *
1559967 TTTCAAAGCCCACACGAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGACGCC-TTCTC-
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * *
1560026 CTTCAAAGCCCATACAAGTTGGTGGCA-CCTCCTAGTCCTCAAAGAGCAGGAC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCCT-TTAGTCCTCAAAGAGCAGGAC
1560078 GCACTTCATT
Statistics
Matches: 744, Mismatches: 86, Indels: 37
0.86 0.10 0.04
Matches are distributed among these distances:
59 31 0.04
60 123 0.17
61 312 0.42
62 175 0.24
63 99 0.13
64 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (62 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACACCTTTTTCT
Found at i:1559492 original size:184 final size:184
Alignment explanation
Indices: 1559168--1560077 Score: 1231
Period size: 184 Copynumber: 4.9 Consensus size: 184
1559158 GTAGGACGCC
* * *
1559168 TTTCGAAGCCCAGACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGACATCTTTTTCTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGAC-GCTTTTTCTTT
* * ** **
1559233 TCAAAG-CCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAAGATGTATTTTCCTTTGGA
64 TCAAAGCCCACACGAGTTGGTGGCA-CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAA
* *
1559297 AGCCTACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGTAGGACACCTTTTTCT
128 AGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * *
1559354 TTGCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCTTTTCTTTTC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTC
* * * * * *
1559419 AAAACCCACACAAGCTGGTGGCACCTTCAGTCTTCAAAGAGCAGGATGCCTTTTCCTTTTAAAAC
66 AAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGC
* * * ** *
1559484 CCACACAAGTTGGTGGCACTTTTC-AGTCCTCAATGAGCAGTACGTCTTTTCCT
131 CCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * *
1559537 TTTTAAAGCCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACATCTTTTTCTTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC-GCTTTTTCTTTT
* **
1559602 CAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAG
65 CAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAG
* * *
1559667 CCCACATAAGCTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACACTTTTTTCT
130 CCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* * * *
1559721 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAACAGGACGGTTTTTCTTTTC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTC
* *
1559786 AAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAG
66 AAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAG
* * * * *
1559851 CCAACACGACTTGGTGGCACC-TT-TAGTCCTCAAAGAGCAAGACACATTTTTCT
130 CCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCT
* *
1559904 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTTAGTCCTCAAAAAGCAGGACGACTTTTTCTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGACG-CTTTTTCTTT
* * *
1559969 TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCC-TTCAAA
64 TCAAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAA
* *
1560033 GCCCATACAAGTTGGTGGCACC-TCCTAGTCCTCAAAGAGCAGGAC
129 GCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGAC
1560078 GCACTTCATT
Statistics
Matches: 635, Mismatches: 82, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
183 216 0.34
184 291 0.46
185 99 0.16
186 29 0.05
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (184 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTC
AAAGCCCACACGAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGC
CCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCT
Found at i:1560182 original size:105 final size:105
Alignment explanation
Indices: 1559994--1560227 Score: 396
Period size: 105 Copynumber: 2.2 Consensus size: 105
1559984 GTTGGTGGCA
* *
1559994 CCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCATACAAGTTGGTGGCACCTCCT
1 CCTTTTGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCTCCT
1560059 AGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTCTC
66 AGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTCTC
1560099 CCTTTTGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCTCCT
1 CCTTTTGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCTCCT
* * * *
1560164 AGTCCTCAAAGGGTAGGACGCACTTCATTTCCTTCTTTTT
66 AGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTCTC
* *
1560204 CCTTTTGTCTTCAAAGAGTAGGAC
1 CCTTTTGTCCTCAAAGAGCAGGAC
1560228 ACACTTTATT
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 121 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (105 bp):
CCTTTTGTCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCTCCT
AGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTCTC
Found at i:1560472 original size:135 final size:134
Alignment explanation
Indices: 1560178--1560783 Score: 854
Period size: 134 Copynumber: 4.5 Consensus size: 134
1560168 CTCAAAGGGT
* * * * *
1560178 AGGACGCACTTCATTTCCTTCTTTTTCCTTTTGTCTTCAAAGAGTAGGACACACTTTATTTTCCT
1 AGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTTCCT
* * * * * * *
1560243 TTTCCCCTTTGTCTTCAAAGAGCAGGAGACATTGCTTTCTCTTTTTGTCCCCTTTTGTCCTCAAA
66 TTTCCCCCTTGTCCTCAAAGAGCAGGACACATTCCATTCCCTTTTTTTCCCCTTTTGTCCTCAAA
*
1560308 GAGC
131 GAAC
* *
1560312 AGGACGCACTTCATTTCCTTTTTTTCCCTTTTATCCTCAAAGAGCAAGACGCACTTTATTTTCCT
1 AGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTTCCT
* *
1560377 TTTCCCCCTTATCCTCAAAGAGCAGGACACATTCCATTCCCCTTTTTTTCCCCTTTTATCCTCAA
66 TTTCCCCCTTGTCCTCAAAGAGCAGGACACATTCCATT-CCCTTTTTTTCCCCTTTTGTCCTCAA
1560442 AGAAC
130 AGAAC
* * * *
1560447 AGGACGCACTTCATTTCTTTCTTTTCCCTTTTGACCTCAAAGAGCATGATGCACTTTATTTTCCT
1 AGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTTCCT
* * * * *
1560512 TTTCCCTCTTGTCCTCAAAGAGCAGGACACATTTCATTCCCTTCTTTTCTCCTTTTGTTCTCAAA
66 TTTCCCCCTTGTCCTCAAAGAGCAGGACACATTCCATTCCCTTTTTTTCCCCTTTTGTCCTCAAA
*
1560577 GAGC
131 GAAC
* * *
1560581 AGGACGCACTTCATTTCCTTCTTTTCACTTTTGTCCTCAAAGAGCAGGACACACTTTATTTTCCT
1 AGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTTCCT
* * * *
1560646 TTTCCCCCTTGTCCTCAAAGAGTAGGACACGTTCCATTTCCTTATTTTCCCCTTTTTGTCCTCAA
66 TTTCCCCCTTGTCCTCAAAGAGCAGGACACATTCCATTCCCTTTTTTTCCCC-TTTTGTCCTCAA
1560711 AGAGA-
130 AGA-AC
* *
1560716 AGGACGCACTTCATTTCCTTCTTGTCCCTTTTGTCCTCAAAGAGCAAGGCGCACTTTATTTTCCT
1 AGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTTCCT
1560781 TTT
66 TTT
1560784 TCTTTTGTCC
Statistics
Matches: 418, Mismatches: 51, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
134 220 0.53
135 198 0.47
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (134 bp):
AGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGCACTTTATTTTCCT
TTTCCCCCTTGTCCTCAAAGAGCAGGACACATTCCATTCCCTTTTTTTCCCCTTTTGTCCTCAAA
GAAC
Found at i:1560645 original size:269 final size:269
Alignment explanation
Indices: 1560166--1560798 Score: 898
Period size: 269 Copynumber: 2.4 Consensus size: 269
1560156 CACCTCCTAG
* * * * * * *
1560166 TCCTCAAAGGGTAGGACGCACTTCATTTCCTTCTTTTTCCTTTTGTCTTCAAAGAGTAGGACACA
1 TCCTCAAAGAGAAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGCA
* * * *
1560231 CTTTATTTTCCTTTTCCC-CTTTGTCTTCAAAGAGCAGGAGACATTGCTTTCTCTTTTTGTCCCC
66 CTTTATTTTCCTTTTCCCTC-TTGTCCTCAAAGAGCAGGACACATTGCATTCCCTTTTTGTCCCC
* *
1560295 TTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTTTCCCTTTTATCCTCAAAGAGCAAG
130 TTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCACTTTTATCCTCAAAGAGCAAG
* *
1560360 ACGCACTTTATTTTCCTTTTCCCCCTTATCCTCAAAGAGCAGGACACATTCCATTCCCCTTTTTT
195 ACACACTTTATTTTCCTTTTCCCCCTTATCCTCAAAGAGCAGGACACATTCCATT-CCCTTATTT
1560425 TCCCC-TTTTA
259 TCCCCTTTTTA
* * * *
1560435 TCCTCAAAGA-ACAGGACGCACTTCATTTCTTTCTTTTCCCTTTTGACCTCAAAGAGCATGATGC
1 TCCTCAAAGAGA-AGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGC
* *
1560499 ACTTTATTTTCCTTTTCCCTCTTGTCCTCAAAGAGCAGGACACATTTCATTCCCTTCTTT-TCTC
65 ACTTTATTTTCCTTTTCCCTCTTGTCCTCAAAGAGCAGGACACATTGCATTCCCTT-TTTGTCCC
* * *
1560563 CTTTTGTTCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCACTTTTGTCCTCAAAGAGCAG
129 CTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCACTTTTATCCTCAAAGAGCAA
* * * *
1560628 GACACACTTTATTTTCCTTTTCCCCCTTGTCCTCAAAGAGTAGGACACGTTCCATTTCCTTATTT
194 GACACACTTTATTTTCCTTTTCCCCCTTATCCTCAAAGAGCAGGACACATTCCATTCCCTTATTT
*
1560693 TCCCCTTTTTG
259 TCCCCTTTTTA
* *
1560704 TCCTCAAAGAGAAGGACGCACTTCATTTCCTTCTTGTCCCTTTTGTCCTCAAAGAGCAAGGCGCA
1 TCCTCAAAGAGAAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGCA
* *
1560769 CTTTATTTTCCTTTT-TCTTTTGTCCTCAAA
66 CTTTATTTTCCTTTTCCCTCTTGTCCTCAAA
1560799 AAACAGGGCG
Statistics
Matches: 323, Mismatches: 36, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
268 25 0.08
269 293 0.91
270 5 0.02
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (269 bp):
TCCTCAAAGAGAAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAAGACGCA
CTTTATTTTCCTTTTCCCTCTTGTCCTCAAAGAGCAGGACACATTGCATTCCCTTTTTGTCCCCT
TTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCACTTTTATCCTCAAAGAGCAAGA
CACACTTTATTTTCCTTTTCCCCCTTATCCTCAAAGAGCAGGACACATTCCATTCCCTTATTTTC
CCCTTTTTA
Found at i:1560809 original size:42 final size:42
Alignment explanation
Indices: 1560699--1560848 Score: 126
Period size: 42 Copynumber: 3.5 Consensus size: 42
1560689 ATTTTCCCCT
* * *
1560699 TTTTGTCCTCAAAGAGA-AGGACGCACTTCA-TTTCCTTCTTGTCCC
1 TTTTGTCCTCAAA-AAACAGGGCGCACTTTATTTTCCTT-TT-T--C
* * *
1560744 TTTTGTCCTCAAAGAGCAAGGCGCACTTTATTTTCCTTTTTC
1 TTTTGTCCTCAAAAAACAGGGCGCACTTTATTTTCCTTTTTC
*
1560786 TTTTGTCCTCAAAAAACAGGGCGCA-TTTCGTTTTCCTTTTTTC
1 TTTTGTCCTCAAAAAACAGGGCGCACTTT-ATTTTCC-TTTTTC
* * *
1560829 CTTTGTCTTCAAAAATCAGG
1 TTTTGTCCTCAAAAAACAGG
1560849 ACGTACTCTT
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 29 0.33
43 23 0.26
44 1 0.01
45 25 0.28
46 7 0.08
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (42 bp):
TTTTGTCCTCAAAAAACAGGGCGCACTTTATTTTCCTTTTTC
Found at i:1561646 original size:20 final size:19
Alignment explanation
Indices: 1561621--1561673 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1561611 TTTACCCAGA
*
1561621 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCT-CAT
* *
1561641 TGTATCGATGCATGCTCAT
1 TGTATCGATACATTCTCAT
1561660 TGTATCGATACATT
1 TGTATCGATACATT
1561674 GTATCGATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTCTCAT
Found at i:1561675 original size:13 final size:13
Alignment explanation
Indices: 1561657--1561687 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1561647 GATGCATGCT
1561657 CATTGTATCGATA
1 CATTGTATCGATA
1561670 CATTGTATCGATA
1 CATTGTATCGATA
*
1561683 GATTG
1 CATTG
1561688 CCCAGATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1563968 original size:79 final size:79
Alignment explanation
Indices: 1563830--1564022 Score: 269
Period size: 79 Copynumber: 2.4 Consensus size: 79
1563820 TTTTCATTTC
* * * * * *
1563830 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCACAACCGGGAATACTCCAAC
1563895 CCCGTTATTTCTGA
66 CCCGTTATTTCTGA
* * * * *
1563909 GGGGATACTCTAACCCCGGCTTTATTTCTAAAATATTAATTTCTCACAACCGGGAATACTCCAAT
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCACAACCGGGAATACTCCAAC
* *
1563974 CTCGTTATTTTTGA
66 CCCGTTATTTCTGA
1563988 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACA
1564023 CAAATTTTCC
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 98 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCACAACCGGGAATACTCCAAC
CCCGTTATTTCTGA
Found at i:1564046 original size:79 final size:78
Alignment explanation
Indices: 1563830--1564049 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 78
1563820 TTTTCATTTC
* * * *
1563830 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACA-CAATTTTCCATAATCGGGAATACTCCAAC
1563895 CCCGTTATTTCTGA
65 CCCGTTATTTCTGA
* * * * * *
1563909 GGGGATACTCTAACCCCGGCTTTATTTCTAAAATATTAA-TTTCTCACAACCGGGAATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACA-CAATTTTC-CATAATCGGGAATACTCCAA
* * *
1563973 TCTCGTTATTTTTGA
64 CCCCGTTATTTCTGA
**
1563988 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACAAATTTTCCATAATCGAAAATACTCC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC-AATTTTCCATAATCGGGAATACTCC
1564050 GACTCTGATT
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
78 3 0.03
79 110 0.94
80 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACAATTTTCCATAATCGGGAATACTCCAACC
CCGTTATTTCTGA
Found at i:1564098 original size:51 final size:51
Alignment explanation
Indices: 1563988--1564105 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
1563978 TTATTTTTGA
* *
1563988 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACAAATTTTCCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACAAATTTTCCACAATC
*** * * * * *
1564039 GAAAATACTCCGACTCTGATTTTATTT-TCAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACACAAATTTTCCACAATC
1564090 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1564106 TGTTATTTCA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
50 1 0.02
51 50 0.98
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACAAATTTTCCACAATC
Found at i:1564149 original size:28 final size:27
Alignment explanation
Indices: 1564090--1564163 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
1564080 TTTCACAATC
*
1564090 GGGGATACTCCAACCCTGTTATTTCATT
1 GGGGATACTCCAACCCCGTTATTTCA-T
1564118 GGGGATACTCCAACCCCGTTATTTTCGA-
1 GGGGATACTCCAACCCCGTTA-TTTC-AT
* *
1564146 GGGGATATTCTAACCCCG
1 GGGGATACTCCAACCCCG
1564164 ATTTTATTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTCAT
Found at i:1564267 original size:79 final size:79
Alignment explanation
Indices: 1564119--1564296 Score: 205
Period size: 79 Copynumber: 2.2 Consensus size: 79
1564109 TATTTCATTG
* * * *
1564119 GGGATACTCCAACCCCGTTATTTTCGAGGGGATATTCTAACCCCGATTTTATTCTCAAAACGCCG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCTCAAAACACCA
1564184 ATTTCTTGTAATCA
66 ATTTCTTGTAATCA
* ** ** *
1564198 GGGATGCTCCAACCTTGTTATTTTCGAGGGGATACTCCAACCTTGATTTTATT-TCTAGAACACC
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCTC-AAAACACC
***
1564262 AATTTCCCATAATCA
65 AATTTCTTGTAATCA
*
1564277 GGGGATACTCCAGCCCCGTT
1 -GGGATACTCCAACCCCGTT
1564297 GTCATTTCCA
Statistics
Matches: 80, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
78 2 0.03
79 63 0.79
80 15 0.19
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCTCAAAACACCA
ATTTCTTGTAATCA
Found at i:1567391 original size:17 final size:18
Alignment explanation
Indices: 1567357--1567391 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1567347 AACAAATTGC
*
1567357 ATAAACATAAATATCTAT
1 ATAAACATAAATAGCTAT
1567375 ATAAACAT-AATAGCTAT
1 ATAAACATAAATAGCTAT
1567392 TGCAAGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAAACATAAATAGCTAT
Found at i:1567487 original size:13 final size:14
Alignment explanation
Indices: 1567469--1567500 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1567459 TTAAACATGG
1567469 TTTTT-CTTTAATT
1 TTTTTCCTTTAATT
1567482 TTTTTCCTTTAATT
1 TTTTTCCTTTAATT
1567496 TTTTT
1 TTTTT
1567501 TTAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTCCTTTAATT
Found at i:1568377 original size:27 final size:27
Alignment explanation
Indices: 1568347--1568404 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
1568337 TTAGTTAAAA
* *
1568347 TATA-AATAATAATATATTTTTAATATT
1 TATACAATAATAATAGATATTT-ATATT
* *
1568374 TATACTATAATATTAGATATTTATATT
1 TATACAATAATAATAGATATTTATATT
1568401 TATA
1 TATA
1568405 TTTATTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TATACAATAATAATAGATATTTATATT
Found at i:1568383 original size:28 final size:27
Alignment explanation
Indices: 1568352--1568404 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
1568342 TAAAATATAA
* *
1568352 ATAATAATATATTTTTAATATTTATACT
1 ATAATAATAGATATTT-ATATTTATACT
*
1568380 ATAATATTAGATATTTATATTTATA
1 ATAATAATAGATATTTATATTTATA
1568405 TTTATTCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
ATAATAATAGATATTTATATTTATACT
Found at i:1568416 original size:23 final size:21
Alignment explanation
Indices: 1568359--1568416 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
1568349 TAAATAATAA
1568359 TATATTT-TTAATATTTATAC
1 TATATTTATTAATATTTATAC
* *
1568379 TATA-ATATTAGATATTTATATT
1 TATATTTATTA-ATATTTATA-C
1568401 TATATTTATTCAATAT
1 TATATTTATT-AATAT
1568417 ATGAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.03
20 7 0.23
21 9 0.30
22 4 0.13
23 8 0.27
24 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATTTATTAATATTTATAC
Found at i:1568971 original size:13 final size:13
Alignment explanation
Indices: 1568925--1569023 Score: 50
Period size: 13 Copynumber: 7.8 Consensus size: 13
1568915 ACTCGTTCGC
1568925 ATTAATTTTTT-A
1 ATTAATTTTTTAA
*
1568937 ATTTA-TTTTTAA
1 ATTAATTTTTTAA
1568949 CA--AATATTTTTAA
1 -ATTAAT-TTTTTAA
1568962 ATTAA-TTTTT-A
1 ATTAATTTTTTAA
**
1568973 A-TAATTTAATAA
1 ATTAATTTTTTAA
* * *
1568985 TTTTATTTTTAAA
1 ATTAATTTTTTAA
1568998 ATTTAATTTTTTAA
1 A-TTAATTTTTTAA
*
1569012 TTTAATATTTTT
1 ATTAAT-TTTTT
1569024 TACTTAAATT
Statistics
Matches: 63, Mismatches: 13, Indels: 20
0.66 0.14 0.21
Matches are distributed among these distances:
10 3 0.05
11 11 0.17
12 12 0.19
13 20 0.32
14 17 0.27
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTAATTTTTTAA
Found at i:1568986 original size:22 final size:22
Alignment explanation
Indices: 1568963--1569014 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1568953 TATTTTTAAA
1568963 TTAATTTTTAATAATTTAATAAT
1 TTAATTTTTAA-AATTTAATAAT
* **
1568986 TTTATTTTTAAAATTTAATTTT
1 TTAATTTTTAAAATTTAATAAT
1569008 TTAATTT
1 TTAATTT
1569015 AATATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTAATTTTTAAAATTTAATAAT
Found at i:1568997 original size:35 final size:35
Alignment explanation
Indices: 1568953--1569023 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 35
1568943 TTTTAACAAA
1568953 TATTTTT-AAA-TTAATTTTTAATAATTTAATAATTT
1 TATTTTTAAAATTTAATTTTT--TAATTTAATAATTT
*
1568988 TATTTTTAAAATTTAATTTTTTAATTTAATATTTT
1 TATTTTTAAAATTTAATTTTTTAATTTAATAATTT
1569023 T
1 T
1569024 TACTTAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 21 0.64
36 3 0.09
37 9 0.27
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (35 bp):
TATTTTTAAAATTTAATTTTTTAATTTAATAATTT
Found at i:1578552 original size:280 final size:279
Alignment explanation
Indices: 1578095--1579021 Score: 791
Period size: 288 Copynumber: 3.3 Consensus size: 279
1578085 TTCTTATTGC
* * * * *
1578095 CCTTTCCAATTTTCTCAGAGATCTTTCCA-ACATACGAAGGATTATTTGCTATGATTGTTTGGCA
1 CCTTTCCAATTTTCTTAGAGATCTTTTCAGA-ACACCAAGGATTATTTGCTATGATTATTTGGCA
* * * * *
1578159 GCAGCAGCTCATAATTT-ATTGTTC-GATACTCCCTTGATGAATGTATTTTCAAGTTTGATATGC
65 GCAGCAGCTCACAATTTGA-TGTTCAGA-ACT-CTTTGATGCATGT-TTCTCAAGTTTGATATGT
* * * *
1578222 TACTGTCCTGTTTGTCGAAATGCCTAACCATTACAACAGTCACTGTTTCTTTGATCAAATGCGTG
126 TACTGTCCTGTTTATTGAAATGCCTGACCATTACAACAGTCACTGTTTCTTTGATCAAATGC-TA
* *
1578287 ATCACAACGGTAGCTTATTTCTAAAACTTTCTTTTCTTCTATTATCT-CTCTC-A-ATTCTTACT
190 ACCACAACGGTAGCTTATTTCTAAAACTTTCTTTTCTTCTATTATCTCCTCTCTACATTCTCACT
* *
1578349 TTCTTTTATGTTAACTTATGCTTGG
255 TTCTTATATGTTAACTCATGCTTGG
* *
1578374 CCTTTCTAATTTTCTTACG-GATC-TTTCAAGAACGCCAAGGATTATTTGCTATGATTATTTGGC
1 CCTTTCCAATTTTCTTA-GAGATCTTTTC-AGAACACCAAGGATTATTTGCTATGATTATTTGGC
* * * *
1578437 AGCAACAGCTCACATTTTGATGTTCAGAGCTCTTTGGGTGCATGTTCGTCTCAAGTTTGATATGT
64 AGCAGCAGCTCACAATTTGATGTTCAGAACTCTTT-GATGCATGTT--TCTCAAGTTTGATATGT
* * * * *
1578502 TATTGTCCTGTTCATTGAAATGCCTGACCATTACAACAATCGCTGTTTCTTTTATCAAATGCCTA
126 TACTGTCCTGTTTATTGAAATGCCTGACCATTACAACAGTCACTGTTTCTTTGATCAAATG-CTA
* * ** * * * *
1578567 ACCACAACCGG-AGCTAATTTCCAACTCTTTTTTCTTCTTTTCTTCTTCTGTGCCTCTCTACATT
190 ACCACAA-CGGTAGCTTATTTCTAAAACTTTCTT-TTC--TTC-TATTATCT-CCTCTCTACATT
1578631 CTCACTTTCTTATATGTTAACTCATGCTTGG
249 CTCACTTTCTTATATGTTAACTCATGCTTGG
* * * * * * *
1578662 CCTTTCCAATTTTCTTAGAGATCTTTTCAGCATACCACGTATTGTTTGATATGATTATTTGGCGG
1 CCTTTCCAATTTTCTTAGAGATCTTTTCAGAACACCAAGGATTATTTGCTATGATTATTTGGCAG
* * * * * *
1578727 CAGTAACTCACAATCTGATGTTCAGAACTATCTTGATGCATGTTATCTTCAAGTCTGATATGTTG
66 CAGCAGCTCACAATTTGATGTTCAGAACTCT-TTGATGCATGTT-TC-TCAAGTTTGATATGTTA
* * * * * *
1578792 CT-ACCTTTTTTATTAAAATGCCCGACCACTACAACAGTCACTGTTTCTTTGATCAAATATCTAA
128 CTGTCC-TGTTTATTGAAATGCCTGACCATTACAACAGTCACTGTTTCTTTGATCAAAT-GCTAA
** *** * * *
1578856 CCACAACAATAGCTTATTTCTTTTACTTTCTTTTCTTCTTTCTTTCTTTTGTAACTCTCT-CTAT
191 CCACAACGGTAGCTTATTTCTAAAACTTTCTTTTCTTCTAT-TATC-----T-CCTCTCTAC-AT
* * * * *
1578920 TCTTAGTTTCTTATGTGTTAACTCATGGTTGA
248 TCTCACTTTCTTATATGTTAACTCATGCTTGG
* * * * * *
1578952 CTTTTCTAGA-ATTCTTAAAGAT-TTTTCCAGCATACCAAGGATTATTTGCTATGATTATTTGGC
1 CCTTTCCA-ATTTTCTTAGAGATCTTTT-CAGAACACCAAGGATTATTTGCTATGATTATTTGGC
1579015 AGCAGCA
64 AGCAGCA
1579022 AACAACTCAC
Statistics
Matches: 517, Mismatches: 97, Indels: 57
0.77 0.14 0.08
Matches are distributed among these distances:
278 7 0.01
279 77 0.15
280 97 0.19
281 7 0.01
283 3 0.01
284 7 0.01
285 5 0.01
286 5 0.01
287 10 0.02
288 198 0.38
289 11 0.02
290 89 0.17
291 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.42
Consensus pattern (279 bp):
CCTTTCCAATTTTCTTAGAGATCTTTTCAGAACACCAAGGATTATTTGCTATGATTATTTGGCAG
CAGCAGCTCACAATTTGATGTTCAGAACTCTTTGATGCATGTTTCTCAAGTTTGATATGTTACTG
TCCTGTTTATTGAAATGCCTGACCATTACAACAGTCACTGTTTCTTTGATCAAATGCTAACCACA
ACGGTAGCTTATTTCTAAAACTTTCTTTTCTTCTATTATCTCCTCTCTACATTCTCACTTTCTTA
TATGTTAACTCATGCTTGG
Found at i:1578902 original size:16 final size:15
Alignment explanation
Indices: 1578872--1578905 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1578862 CAATAGCTTA
1578872 TTTCTTTTACTTTCT
1 TTTCTTTTACTTTCT
*
1578887 TTTCTTCTTTCTTTCT
1 TTTCTT-TTACTTTCT
1578903 TTT
1 TTT
1578906 GTAACTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTTTTACTTTCT
Found at i:1580564 original size:13 final size:13
Alignment explanation
Indices: 1580548--1580582 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
1580538 ATTAATTGTT
1580548 TTTAATTTTTTTA
1 TTTAATTTTTTTA
1580561 TTTAATTTTTTTA
1 TTTAATTTTTTTA
1580574 TTTAATTTT
1 TTTAATTTT
1580583 CAAATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTAATTTTTTTA
Found at i:1581667 original size:31 final size:31
Alignment explanation
Indices: 1581629--1581687 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1581619 TGTATCGATA
* *
1581629 CATAAGTTTTGTGTTGATACAATATATCAAT
1 CATAAGTTTTGTATCGATACAATATATCAAT
*
1581660 CATAAGTTTTGTATCGATACAATGTATC
1 CATAAGTTTTGTATCGATACAATATATC
1581688 GCTACGAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (31 bp):
CATAAGTTTTGTATCGATACAATATATCAAT
Found at i:1581731 original size:21 final size:21
Alignment explanation
Indices: 1581705--1581746 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1581695 AGCTACTGCC
1581705 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1581726 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1581747 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:1581751 original size:13 final size:13
Alignment explanation
Indices: 1581733--1581758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1581723 ATTAAGGAAA
1581733 TGTATCGATACAT
1 TGTATCGATACAT
1581746 TGTATCGATACAT
1 TGTATCGATACAT
1581759 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1584187 original size:52 final size:53
Alignment explanation
Indices: 1584125--1584225 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 53
1584115 CAATTGTTCA
* * *
1584125 TAATCAGGGATACTTCAACCT-CGGTTTTATTTTC-AAAACACCAATTTTCCTT
1 TAATCAGGGATAC-TCAAACTCCGATTTTATTTCCAAAAACACCAATTTTCCTT
*
1584177 TAATCGGGGATACTCAAACTCCGATTTTATTTCCAAAAACACCAATTTT
1 TAATCAGGGATACTCAAACTCCGATTTTATTTCCAAAAACACCAATTTT
1584226 TCACAATCGA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 6 0.14
52 23 0.53
53 14 0.33
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.36
Consensus pattern (53 bp):
TAATCAGGGATACTCAAACTCCGATTTTATTTCCAAAAACACCAATTTTCCTT
Found at i:1584234 original size:52 final size:51
Alignment explanation
Indices: 1584115--1584508 Score: 215
Period size: 51 Copynumber: 7.6 Consensus size: 51
1584105 TTAAGTTTCT
* * * * * *
1584115 CAATTGTTCATAATCAGGGATACTTCAAC-CTCGGTTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAACAC
* ** *
1584166 CAATTTTCCTTTAATCGGGGATACTCAAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
* ** * ***** * *
1584219 CAATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATCGGGGATACTC
1 CAATTTTTCACAATCGGGGATACTCCAA-CTC-CGATTTTATTTCCAAAACAC
* * * * * * * *
1584272 CAACCCTGTT-AC-CTCCGAGGGGATACTCCCAC-CCTAGCTTTATTTCCAAAATAT
1 CAA--TTTTTCACAAT-C--GGGGATACTCCAACTCCGA-TTTTATTTCCAAAACAC
** * * * * * *
1584326 TGATTTCTCATAATCGGGGATACTTCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * * *
1584377 TAATTTTTCACAATCGGGGATACTCCAACCCCGGTTTTATCTT-TAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTCCAAAACAC
* **
1584428 CAATTTTCCTTTAATC-GGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
*
1584480 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTTCACAATCGGGGATACTCCAAC
1584509 CTTGTTATTT
Statistics
Matches: 254, Mismatches: 70, Indels: 37
0.70 0.19 0.10
Matches are distributed among these distances:
50 2 0.01
51 109 0.43
52 79 0.31
53 31 0.12
54 18 0.07
55 4 0.02
56 11 0.04
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:1584611 original size:79 final size:79
Alignment explanation
Indices: 1584520--1584771 Score: 299
Period size: 79 Copynumber: 3.2 Consensus size: 79
1584510 TTGTTATTTC
** *
1584520 ATCGGGGACACTCCAACCCTGTTACCTCCAAGGGGATACTCCAACCCCGGCTTTATTCCCAAAAT
1 ATCGGGGACACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
* *
1584585 ATTGATTTCGCATA
66 ATTGATTTCTCACA
* * * ** *
1584599 ATTGGGGACACTCCAACCCTGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAAT
1 ATCGGGGACACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
* *
1584663 CATCGATTTTTCACA
66 -ATTGATTTCTCACA
* * * * * *
1584678 ACCGGAGATACTCCAACCCCGTTATTTTCAAGGGGATACTTCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGACACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
*
1584743 ATTGGTTTCTCACA
66 ATTGATTTCTCACA
*
1584757 ATCGGGGATACTCCA
1 ATCGGGGACACTCCA
1584772 GCCCCGTTGT
Statistics
Matches: 141, Mismatches: 30, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
78 3 0.02
79 135 0.96
80 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (79 bp):
ATCGGGGACACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
ATTGATTTCTCACA
Found at i:1586156 original size:13 final size:13
Alignment explanation
Indices: 1586140--1586186 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
1586130 TTAGAAAACT
1586140 AAAAATAAAAATA
1 AAAAATAAAAATA
**
1586153 AAAAATAATGATA
1 AAAAATAAAAATA
1586166 AAGAAAT-AAAATA
1 AA-AAATAAAAATA
*
1586179 ATAAATAA
1 AAAAATAA
1586187 GGGTTGCAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
12 4 0.15
13 19 0.70
14 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:1586444 original size:20 final size:20
Alignment explanation
Indices: 1586421--1586465 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1586411 CAAATGTATG
* *
1586421 ATACAATATGCATCGTATCA
1 ATACAATACGCATCATATCA
*
1586441 ATACAATACGCATCATATCG
1 ATACAATACGCATCATATCA
1586461 ATACA
1 ATACA
1586466 TTTTCAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (20 bp):
ATACAATACGCATCATATCA
Found at i:1593586 original size:16 final size:16
Alignment explanation
Indices: 1593567--1593597 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1593557 TTTTAGTCAA
1593567 TTTAGATTTAGATTAC
1 TTTAGATTTAGATTAC
*
1593583 TTTAGGTTTAGATTA
1 TTTAGATTTAGATTA
1593598 ACTTAAATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (16 bp):
TTTAGATTTAGATTAC
Found at i:1599948 original size:2 final size:2
Alignment explanation
Indices: 1599941--1599972 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1599931 AAACCTTTCA
1599941 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1599973 CCCCTCGGGC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1602056 original size:6 final size:6
Alignment explanation
Indices: 1602045--1602095 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
1602035 TAATAATTTA
1602045 TATATT TATA-T TATATT TATA-- TAT-TT TATCATAT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TAT-AT-T TATATT TATATT
1602091 TATAT
1 TATAT
1602096 AAATTTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
4 3 0.08
5 8 0.21
6 21 0.54
7 3 0.08
8 4 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:1602104 original size:23 final size:23
Alignment explanation
Indices: 1602052--1602105 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
1602042 TTATATATTT
* *
1602052 ATATTATATTTATATATTTTATC
1 ATATTATATTTATATATTATATA
1602075 ATATTATATTTATAT-TTATATA
1 ATATTATATTTATATATTATATA
*
1602097 A-ATTTTATT
1 ATATTATATT
1602106 ATACAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 7 0.25
22 6 0.21
23 15 0.54
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
ATATTATATTTATATATTATATA
Found at i:1602105 original size:21 final size:23
Alignment explanation
Indices: 1602040--1602105 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 23
1602030 AAACCTAATA
1602040 ATTTATATATT-TAT---ATTAT
1 ATTTATATATTATATCAAATTAT
* *
1602059 ATTTATATATTTTATCATATTAT
1 ATTTATATATTATATCAAATTAT
*
1602082 ATTTATAT-TTATAT-AAATTTT
1 ATTTATATATTATATCAAATTAT
1602103 ATT
1 ATT
1602106 ATACAATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 11 0.28
20 3 0.08
21 8 0.20
22 5 0.12
23 13 0.32
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTTATATATTATATCAAATTAT
Found at i:1611703 original size:21 final size:21
Alignment explanation
Indices: 1611677--1611735 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
1611667 TACAAAGATC
1611677 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
1611698 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
*
1611719 AAGGTATCGATACATTT
1 AATGTATCGATACATTT
1611736 CCTTGGCAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGT
Found at i:1611884 original size:21 final size:21
Alignment explanation
Indices: 1611858--1611898 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1611848 GGACCTTGTA
1611858 TAGCAATGTATCGATACATTC
1 TAGCAATGTATCGATACATTC
1611879 TAGCAATGTATCGATACATT
1 TAGCAATGTATCGATACATT
1611899 TAGACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (21 bp):
TAGCAATGTATCGATACATTC
Found at i:1612611 original size:52 final size:51
Alignment explanation
Indices: 1612534--1613593 Score: 964
Period size: 52 Copynumber: 21.6 Consensus size: 51
1612524 AAAGGATGTT
* * * * *
1612534 AATGTGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAGAATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAG-GTGCC
* ** *
1612586 AATGTGCTGATTCAAGGCCAACGACATTGGGGGTTTAAAGATGACGAAGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATT--GGACTTAAAGATGA-GAAGGTGCC
** * * *
1612640 AATACGCTGATTCAAGGCCAGCGATACTGGTCTTAAAGAT--GAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* * *
1612689 AATGTGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGACAAGGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAA-GGTGCC
* * * *
1612741 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAGGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAA-GGTGCC
* * *
1612793 AATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAA-GGTGCC
* * *
1612845 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--GAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* * * *
1612894 AATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGCC
* * *
1612946 AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT--GAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* *
1612995 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGCC
* * *
1613047 AATATGCTGATTCAAGGCCAGCGATATTGGAGTTAAAGAT--GAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* * * *
1613096 AATGTGCTGATTCAAGTCCAGCGACATTGGACTTAAATATGACAAAGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGCC
* * *
1613148 AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT--GAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
*
1613197 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--GAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* * *
1613246 AATGTGCTGATTCAAGGCCAACGACTTTGGGC-T-----T----A--TGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* ** * *
1613285 AATGTGTTGATTCAAGGCCAATGACATTGGTCTTAAGGAT--GAA-GTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* * ***
1613333 AATATGCTGATTCAAGGCCAGCGATACCAGACTTAAAGAT--GAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* *
1613382 AATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T----A--TGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* ** * *
1613421 AATGTGTTGATTCAAGGCCAATGACATTGGTCTT-AA-A-GACAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* * * *
1613469 AATATGCGGATTCAAGGCCAGCAATATTGGAC-T-----T-A-AAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
* * * *
1613512 AATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGCC
* *
1613564 AATATGCTGATTCAAGGCCAGCGATATTGG
1 AATGTGCTGATTCAAGGCCAGCGACATTGG
1613594 GTTATGCCAA
Statistics
Matches: 844, Mismatches: 119, Indels: 90
0.80 0.11 0.09
Matches are distributed among these distances:
39 62 0.07
40 2 0.00
41 2 0.00
43 36 0.04
44 2 0.00
45 1 0.00
46 1 0.00
47 2 0.00
48 67 0.08
49 284 0.34
50 3 0.00
51 2 0.00
52 340 0.40
54 36 0.04
55 4 0.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (51 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGCC
Found at i:1612756 original size:101 final size:100
Alignment explanation
Indices: 1612538--1613416 Score: 1160
Period size: 101 Copynumber: 8.8 Consensus size: 100
1612528 GATGTTAATG
* * * * * *
1612538 TGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAGAATGCCAATGTGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--GAAG-GTGCCAATGTGCTGATTCAAGG
* **
1612603 CCAACGACATTGGGGGTTTAAAGATGACGAAGGCGCCAATA
63 CCAGCGACATT--GGACTTAAAGATGAC-AAGGCGCCAATA
* * * *
1612644 CGCTGATTCAAGGCCAGCGATACTGGTCTTAAAGATGAAGGTGCCAATGTGCTGATTTAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
1612709 GCGACATTGGACTTAAAGATGACAAGGGCGCCAATA
66 GCGACATTGGACTTAAAGATGACAA-GGCGCCAATA
* *
1612745 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAGGGCGCCAATATGCTGATTCAAGG
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG--AA-GGTGCCAATGTGCTGATTCAAGG
1612810 CCAGCGACATTGGACTTAAAGATGACAAGGGCGCCAATA
63 CCAGCGACATTGGACTTAAAGATGACAA-GGCGCCAATA
* *
1612849 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTAATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
*
1612914 GCGACATTGGACTTAAAGATGACAAAGGCGTCAATA
66 GCGACATTGGACTTAAAGATGAC-AAGGCGCCAATA
*
1612950 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
1613015 GCGACATTGGACTTAAAGATGACAAAGGCGCCAATA
66 GCGACATTGGACTTAAAGATGAC-AAGGCGCCAATA
* *
1613051 TGCTGATTCAAGGCCAGCGATATTGGAGTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGTCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
*
1613116 GCGACATTGGACTTAAATATGACAAAGGCGCCAATA
66 GCGACATTGGACTTAAAGATGAC-AAGGCGCCAATA
*
1613152 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
** *
1613217 GCGACATTGGACTTAAAGATG--AAGATGCCAATG
66 GCGACATTGGACTTAAAGATGACAAGGCGCCAATA
* * *
1613250 TGCTGATTCAAGGCCAACGACT-TTGGGC-T-----T--A--TGCCAATGTGTTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGA-TATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
** * * *
1613304 AATGACATTGGTCTTAAGGATG--AA-GTGCCAATA
65 AGCGACATTGGACTTAAAGATGACAAGGCGCCAATA
*** *
1613337 TGCTGATTCAAGGCCAGCGATACCAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
*
1613402 GCGATATTGGACTTA
66 GCGACATTGGACTTA
1613417 TGCCAATGTG
Statistics
Matches: 698, Mismatches: 58, Indels: 43
0.87 0.07 0.05
Matches are distributed among these distances:
86 1 0.00
87 28 0.04
88 43 0.06
90 1 0.00
92 1 0.00
93 1 0.00
95 1 0.00
97 34 0.05
98 34 0.05
99 1 0.00
100 2 0.00
101 387 0.55
102 4 0.01
103 32 0.05
104 100 0.14
106 28 0.04
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (100 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA
GCGACATTGGACTTAAAGATGACAAGGCGCCAATA
Found at i:1613284 original size:39 final size:39
Alignment explanation
Indices: 1613241--1613319 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
1613231 AAAGATGAAG
*
1613241 ATGCCAATGTGCTGATTCAAGGCCAACGACTTTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
* * *
1613280 ATGCCAATGTGTTGATTCAAGGCCAATGACATTGGTCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
1613319 A
1 A
1613320 AGGATGAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (39 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTT
Found at i:1613352 original size:48 final size:49
Alignment explanation
Indices: 1613281--1613687 Score: 307
Period size: 48 Copynumber: 8.9 Consensus size: 49
1613271 TTTGGGCTTA
* * ** * *
1613281 TGCCAATGTGTTGATTCAAGGCCAATGACATTGGTCTTAAGGATGAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* ***
1613329 TGCCAATATGCTGATTCAAGGCCAGCGATACCAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
*
1613378 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * ** * *
1613417 TGCCAATGTGTTGATTCAAGGCCAATGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * *
1613465 TGCCAATATGCGGATTCAAGGCCAGCAATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * *
1613508 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGG
* * *
1613560 CGCCAATATGCTGATTCAAGGCCAGCGATATTGG-------G-T-TA--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* *
1613598 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* *
1613646 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
1613688 GAAGACACCA
Statistics
Matches: 283, Mismatches: 45, Indels: 62
0.73 0.12 0.16
Matches are distributed among these distances:
38 31 0.11
39 30 0.11
40 2 0.01
41 1 0.00
43 37 0.13
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 107 0.38
49 34 0.12
52 34 0.12
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
Found at i:1613390 original size:136 final size:137
Alignment explanation
Indices: 1612991--1613546 Score: 635
Period size: 136 Copynumber: 4.0 Consensus size: 137
1612981 AAGATGAAGG
* *
1612991 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTG
* *
1613056 ATTCAAGGCCAGCGATATTGGAGTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGTCCAGCGAC
63 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAC
*
1613121 ATTGGACTTAAATA
128 TTTGGAC-T---TA
* *
1613135 TGACAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAAT
1 T---------GCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1613200 GTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
57 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
* *
1613265 AACGACTTTGGGCTTA
122 AGCGACTTTGGACTTA
* * * *
1613281 TGCCAATGTGTTGATTCAAGGCCAATGACATTGGTCTTAAGGATGAA-GTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
*** *
1613345 CAAGGCCAGCGATACCAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGA-TAT
66 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACT-T
1613409 TGGACTTA
130 TGGACTTA
* * * * *
1613417 TGCCAATGTGTTGATTCAAGGCCAATGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCGGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
* * *
1613481 CAAGGCCAGCAATATTGGACTT----A--AAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATT
66 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACTTT
*
1613540 GGTCTTA
131 GGACTTA
1613547 AAGATGACAA
Statistics
Matches: 362, Mismatches: 38, Indels: 38
0.83 0.09 0.09
Matches are distributed among these distances:
130 38 0.10
132 1 0.00
135 3 0.01
136 154 0.43
137 40 0.11
144 1 0.00
146 3 0.01
149 1 0.00
150 80 0.22
153 41 0.11
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (137 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACTTT
GGACTTA
Found at i:1613450 original size:39 final size:39
Alignment explanation
Indices: 1613378--1613455 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
1613368 AAGATGAAGG
* *
1613378 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
* * * *
1613417 TGCCAATGTGTTGATTCAAGGCCAATGACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
1613456 AAGACAAGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTA
Found at i:1613631 original size:181 final size:179
Alignment explanation
Indices: 1613328--1613688 Score: 544
Period size: 181 Copynumber: 2.0 Consensus size: 179
1613318 TAAGGATGAA
* * *
1613328 GTGCCAATATGCTGATTCAAGGCCAGCGATACCAGACTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATATGCTAATTCAAGGCCAGCGACACCAGACTTAAAGATGAAGGCGCCAATATGCTGAT
* * *
1613393 TCAAGGCCAGCGATATTGGACTTATGCCAATGTGTTGATTCAAGGCCAATGACATTGGTCTTAAA
66 TCAAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAA
*
1613458 GACAAGGTGCCAATATGCGGATTCAAGGCCAGCAATATTGGACTTAAAG
131 GACAAGGTGCCAATATGCGAATTCAAGGCCAGCAATATTGGACTTAAAG
* *** *
1613507 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCT
1 GTGCCAATATGCTAATTCAAGGCCAGCGACACCAGACTTAAAGATG---AAGGCGCCAATATGCT
* *
1613572 GATTCAAGGCCAGCGATATTGG-GTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
63 GATTCAAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTT
* *
1613636 AAAGACAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAG
128 AAAGACAAGGTGCCAATATGCGAATTCAAGGCCAGCAATATTGGACTTAAAG
1613688 G
1 G
1613689 AAGACACCAC
Statistics
Matches: 163, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
179 39 0.24
181 87 0.53
182 37 0.23
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (179 bp):
GTGCCAATATGCTAATTCAAGGCCAGCGACACCAGACTTAAAGATGAAGGCGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAA
GACAAGGTGCCAATATGCGAATTCAAGGCCAGCAATATTGGACTTAAAG
Found at i:1613797 original size:30 final size:29
Alignment explanation
Indices: 1613706--1613800 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 29
1613696 CACCAACTTG
**
1613706 TGTGGGCTTTTGAAAGGGT-TGCACCAACT
1 TGTGGGCTTTTGAAAGGGTGT-CACTGACT
* * * *
1613735 TGTGTGCTTTT--AAGGTTGCCATTGACT
1 TGTGGGCTTTTGAAAGGGTGTCACTGACT
*
1613762 GGTGGGCTTTTGGAAAGGGTGTCACTGACT
1 TGTGGGCTTTT-GAAAGGGTGTCACTGACT
1613792 TGTGGGCTT
1 TGTGGGCTT
1613801 AAAAGGAGAA
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
27 19 0.38
29 10 0.20
30 21 0.42
ACGTcount: A:0.16, C:0.15, G:0.34, T:0.36
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGGTGTCACTGACT
Found at i:1613835 original size:33 final size:33
Alignment explanation
Indices: 1613791--1614154 Score: 239
Period size: 34 Copynumber: 11.3 Consensus size: 33
1613781 TGTCACTGAC
*
1613791 TTGTGGGCTTAAAAGGAGAAAGATGCCACGGAG
1 TTGTGGACTTAAAAGGAGAAAGATGCCACGGAG
* * *
1613824 TTGTAGACTTAAAAGG-GAAA-ATGTGCCACAGAA
1 TTGTGGACTTAAAAGGAGAAAGA--TGCCACGGAG
*
1613857 TTGTGGACTTAAAAGGA-ACAAGGATGCTACGGAG
1 TTGTGGACTTAAAAGGAGA-AA-GATGCCACGGAG
*
1613891 TTGTGGACTTAAAAGG-GAAAAAGTGCCACGGAG
1 TTGTGGACTTAAAAGGAGAAAGA-TGCCACGGAG
*
1613924 TTGTGGACTTAAAAGGA-ACAAGGATGCCACAGAG
1 TTGTGGACTTAAAAGGAGA-AA-GATGCCACGGAG
* * **
1613958 TTGTGGATTTAAAA-G-G---G-TGCTACAAAG
1 TTGTGGACTTAAAAGGAGAAAGATGCCACGGAG
* * *
1613985 TTGTGGACTTAAAAAGAAAAAGA-GCACCACAGAG
1 TTGTGGACTTAAAAGGAGAAAGATG--CCACGGAG
* * *
1614019 TTGTGGGCTTAAAAGGA-ACAAGGTGCCATGGAG
1 TTGTGGACTTAAAAGGAGA-AAGATGCCACGGAG
* *
1614052 TTGTGGACTTTAAA--AG---GATGCCATGGAG
1 TTGTGGACTTAAAAGGAGAAAGATGCCACGGAG
* *
1614080 TTGTGGACTTTGAAAA-GAGAAAGGTGCCACGAAG
1 TTGTGGAC-TT-AAAAGGAGAAAGATGCCACGGAG
* ** *
1614114 TTGTGGGCTTTGAA-GA-AAAGATGCCACTGAG
1 TTGTGGACTTAAAAGGAGAAAGATGCCACGGAG
*
1614145 TCGTGGACTT
1 TTGTGGACTT
1614155 TGAAAAGAGA
Statistics
Matches: 263, Mismatches: 39, Indels: 60
0.73 0.11 0.17
Matches are distributed among these distances:
27 21 0.08
28 21 0.08
29 2 0.01
30 3 0.01
31 24 0.09
32 11 0.04
33 88 0.33
34 90 0.34
35 2 0.01
36 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (33 bp):
TTGTGGACTTAAAAGGAGAAAGATGCCACGGAG
Found at i:1613900 original size:34 final size:32
Alignment explanation
Indices: 1613773--1614154 Score: 259
Period size: 33 Copynumber: 11.9 Consensus size: 32
1613763 GTGGGCTTTT
* * * * *
1613773 GGAAAGGGTGTCACTGACTTGTGGGCTTAAAA
1 GGAAAAGGTGCCACAGAGTTGTGGACTTAAAA
* * *
1613805 GGAGAAAGATGCCACGGAGTTGTAGACTTAAAA
1 GGA-AAAGGTGCCACAGAGTTGTGGACTTAAAA
* *
1613838 GGGAAAATGTGCCACAGAATTGTGGACTTAAAA
1 -GGAAAAGGTGCCACAGAGTTGTGGACTTAAAA
* *
1613871 GGAACAAGGATGCTACGGAGTTGTGGACTTAAAA
1 GGAA-AAGG-TGCCACAGAGTTGTGGACTTAAAA
* *
1613905 GGGAAAAAGTGCCACGGAGTTGTGGACTTAAAA
1 -GGAAAAGGTGCCACAGAGTTGTGGACTTAAAA
*
1613938 GGAACAAGGATGCCACAGAGTTGTGGATTTAAAA
1 GGAA-AAGG-TGCCACAGAGTTGTGGACTTAAAA
* *
1613972 -G----GGTGCTACAAAGTTGTGGACTTAAAAA
1 GGAAAAGGTGCCACAGAGTTGTGGACTT-AAAA
* ** *
1614000 GAAAAAGAGCACCACAGAGTTGTGGGCTTAAAA
1 GGAAAAG-GTGCCACAGAGTTGTGGACTTAAAA
**
1614033 GGAACAAGGTGCCATGGAGTTGTGGACTTTAAAA
1 GGAA-AAGGTGCCACAGAGTTGTGGAC-TTAAAA
**
1614067 GG---A--TGCCATGGAGTTGTGGACTTTGAAAA
1 GGAAAAGGTGCCACAGAGTTGTGGAC-TT-AAAA
* **
1614096 -GAGAAAGGTGCCAC-GAAGTTGTGGGCTTTGAA
1 GGA-AAAGGTGCCACAG-AGTTGTGGACTTAAAA
* * *
1614128 -GAAAAGATGCCACTGAGTCGTGGACTT
1 GGAAAAGGTGCCACAGAGTTGTGGACTT
1614155 TGAAAAGAGA
Statistics
Matches: 282, Mismatches: 43, Indels: 51
0.75 0.11 0.14
Matches are distributed among these distances:
27 17 0.06
28 28 0.10
29 4 0.01
30 1 0.00
31 20 0.07
32 17 0.06
33 101 0.36
34 90 0.32
35 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (32 bp):
GGAAAAGGTGCCACAGAGTTGTGGACTTAAAA
Found at i:1613901 original size:67 final size:67
Alignment explanation
Indices: 1613791--1613974 Score: 273
Period size: 67 Copynumber: 2.8 Consensus size: 67
1613781 TGTCACTGAC
* * *
1613791 TTGTGGGCTTAAAAGGAGA-AA-GATGCCACGGAGTTGTAGACTTAAAAGGGAAAATGTGCCACA
1 TTGTGGACTTAAAAGGA-ACAAGGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGTGCCACA
1613854 GAA
65 GAA
* *
1613857 TTGTGGACTTAAAAGGAACAAGGATGCTACGGAGTTGTGGACTTAAAAGGGAAAAAGTGCCACGG
1 TTGTGGACTTAAAAGGAACAAGGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGTGCCACAG
*
1613922 AG
66 AA
* *
1613924 TTGTGGACTTAAAAGGAACAAGGATGCCACAGAGTTGTGGATTTAAAAGGG
1 TTGTGGACTTAAAAGGAACAAGGATGCCACGGAGTTGTGGACTTAAAAGGG
1613975 TGCTACAAAG
Statistics
Matches: 107, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
65 1 0.01
66 18 0.17
67 88 0.82
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.21
Consensus pattern (67 bp):
TTGTGGACTTAAAAGGAACAAGGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGTGCCACAG
AA
Found at i:1613992 original size:61 final size:62
Alignment explanation
Indices: 1613791--1614035 Score: 214
Period size: 67 Copynumber: 3.8 Consensus size: 62
1613781 TGTCACTGAC
* * *
1613791 TTGTGGGCTTAAAAGGAGA-AA-GATGCCACGGAGTTGTAGACTTAAAAGGGAAAATGTGCCACA
1 TTGTGGACTTAAAAGGA-ACAAGGATGCCACAGAGTTGTGGACTTAAAA-GG---A-GTGCCACA
1613854 GAA-
60 -AAG
* * **
1613857 TTGTGGACTTAAAAGGAACAAGGATGCTACGGAGTTGTGGACTTAAAAGGGAAAAAGTGCCACGG
1 TTGTGGACTTAAAAGGAACAAGGATGCCACAGAGTTGTGGACTTAAAA-GG----AGTGCCACAA
1613922 AG
61 AG
* *
1613924 TTGTGGACTTAAAAGGAACAAGGATGCCACAGAGTTGTGGATTTAAAAGG-GTGCTACAAAG
1 TTGTGGACTTAAAAGGAACAAGGATGCCACAGAGTTGTGGACTTAAAAGGAGTGCCACAAAG
* * *
1613985 TTGTGGACTTAAAAAGAA-AAAGA-GCACCACAGAGTTGTGGGCTTAAAAGGA
1 TTGTGGACTTAAAAGGAACAAGGATG--CCACAGAGTTGTGGACTTAAAAGGA
1614036 ACAAGGTGCC
Statistics
Matches: 157, Mismatches: 15, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 4 0.03
61 47 0.30
65 1 0.01
66 21 0.13
67 79 0.50
68 4 0.03
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.20
Consensus pattern (62 bp):
TTGTGGACTTAAAAGGAACAAGGATGCCACAGAGTTGTGGACTTAAAAGGAGTGCCACAAAG
Found at i:1614040 original size:95 final size:94
Alignment explanation
Indices: 1613791--1614161 Score: 292
Period size: 95 Copynumber: 3.9 Consensus size: 94
1613781 TGTCACTGAC
* * * * *
1613791 TTGTGGGCTTAAAAG-GAGAAAGATGCCACGGAGTTGTAGACTTAAAAGGGAA-AATGTGCCACA
1 TTGTGGACTTAAAAGAGAAAAAGA-GCCACAGAGTTGTGGACTTAAAA-GGAACAAGGTGCCACA
* **
1613854 GAATTGTGGAC-TTAAAAGGAACAAGGATGCTACGGAG
64 GAGTTGTGGACTTTAAAA-G-----GG-TGCTACAAAG
* * *
1613891 TTGTGGACTTAAAAGGGAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGATGCCACAG
1 TTGTGGACTTAAAAGAGAAAAAGAGCCACAGAGTTGTGGACTTAAAAGGAACAAGG-TGCCACAG
1613956 AGTTGTGGA-TTTAAAAGGGTGCTACAAAG
65 AGTTGTGGACTTTAAAAGGGTGCTACAAAG
* **
1613985 TTGTGGACTTAAAA-AGAAAAAGAGCACCACAGAGTTGTGGGCTTAAAAGGAACAAGGTGCCATG
1 TTGTGGACTTAAAAGAGAAAAAGAG--CCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACA
* * ***
1614049 GAGTTGTGGACTTTAAAAGGATGCCATGGAG
64 GAGTTGTGGACTTTAAAAGGGTGCTACAAAG
* * * ** *
1614080 TTGTGGACTTTGAAAAGAG-AAAGGTGCCAC-GAAGTTGTGGGCTTTGAA-GAA-AAGATGCCAC
1 TTGTGGAC-TT-AAAAGAGAAAAAGAGCCACAG-AGTTGTGGACTTAAAAGGAACAAGGTGCCAC
* *
1614141 TGAGTCGTGGACTTTGAAAAG
63 AGAGTTGTGGACTTT-AAAAG
1614162 AGATTGCCAC
Statistics
Matches: 232, Mismatches: 27, Indels: 30
0.80 0.09 0.10
Matches are distributed among these distances:
93 29 0.12
94 46 0.20
95 72 0.31
96 2 0.01
97 9 0.04
98 2 0.01
99 4 0.02
100 40 0.17
101 28 0.12
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (94 bp):
TTGTGGACTTAAAAGAGAAAAAGAGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGA
GTTGTGGACTTTAAAAGGGTGCTACAAAG
Found at i:1614077 original size:28 final size:28
Alignment explanation
Indices: 1614038--1614096 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
1614028 TAAAAGGAAC
1614038 AAGGTGCCATGGAGTTGTGGACTTT-AA
1 AAGGTGCCATGGAGTTGTGGACTTTGAA
1614065 AAGGATGCCATGGAGTTGTGGACTTTGAA
1 AAGG-TGCCATGGAGTTGTGGACTTTGAA
1614094 AAG
1 AAG
1614097 AGAAAGGTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 4 0.13
28 21 0.70
29 5 0.17
ACGTcount: A:0.29, C:0.10, G:0.34, T:0.27
Consensus pattern (28 bp):
AAGGTGCCATGGAGTTGTGGACTTTGAA
Found at i:1614139 original size:31 final size:30
Alignment explanation
Indices: 1614049--1614252 Score: 118
Period size: 31 Copynumber: 6.7 Consensus size: 30
1614039 AGGTGCCATG
* *
1614049 GAGTTGTGGACTTT--A-AAAGGATGCCATG
1 GAGTTGTGGACTTTGAAGAAAAGATGCCA-C
*
1614077 GAGTTGTGGACTTTGAAAAGAGAAAGGTGCCAC
1 GAGTTGTGGACTTTG--AAGA-AAAGATGCCAC
*
1614110 GAAGTTGTGGGCTTTGAAGAAAAGATGCCAC
1 G-AGTTGTGGACTTTGAAGAAAAGATGCCAC
* *
1614141 TGAGTCGTGGACTTTGAA-AAGAGATTGCCAC
1 -GAGTTGTGGACTTTGAAGAAAAGA-TGCCAC
** *
1614172 TGAGTCATGGACTTTG-GGACAAA-ATGCCAC
1 -GAGTTGTGGACTTTGAAGA-AAAGATGCCAC
* * *
1614202 TGAGTCGTGGGCTTTGAA-AAGAGATTGCCAC
1 -GAGTTGTGGACTTTGAAGAAAAGA-TGCCAC
**
1614233 TGAGTCATGGACTTT-AAGAA
1 -GAGTTGTGGACTTTGAAGAA
1614253 GGTATTTGAA
Statistics
Matches: 144, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
28 14 0.10
29 2 0.01
30 29 0.20
31 68 0.47
32 8 0.06
33 2 0.01
34 21 0.15
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (30 bp):
GAGTTGTGGACTTTGAAGAAAAGATGCCAC
Found at i:1614202 original size:30 final size:31
Alignment explanation
Indices: 1614121--1614247 Score: 154
Period size: 31 Copynumber: 4.1 Consensus size: 31
1614111 AAGTTGTGGG
* *
1614121 CTTTGAAGAAAAGA-TGCCACTGAGTCGTGGA
1 CTTTGAA-AAGAGATTGCCACTGAGTCATGGA
1614152 CTTTGAAAAGAGATTGCCACTGAGTCATGGA
1 CTTTGAAAAGAGATTGCCACTGAGTCATGGA
* * *
1614183 CTTTGGGACAA-A-A-TGCCACTGAGTCGTGGG
1 CTTT--GAAAAGAGATTGCCACTGAGTCATGGA
1614213 CTTTGAAAAGAGATTGCCACTGAGTCATGGA
1 CTTTGAAAAGAGATTGCCACTGAGTCATGGA
1614244 CTTT
1 CTTT
1614248 AAGAAGGTAT
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.05
29 1 0.01
30 25 0.30
31 47 0.57
32 1 0.01
33 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (31 bp):
CTTTGAAAAGAGATTGCCACTGAGTCATGGA
Found at i:1615037 original size:24 final size:24
Alignment explanation
Indices: 1615004--1615062 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
1614994 ATACAATTTG
*
1615004 GACATTAATGCCCCTAATAAGCAT
1 GACATGAATGCCCCTAATAAGCAT
1615028 GACATGAATGCCCCTAATAAGCAT
1 GACATGAATGCCCCTAATAAGCAT
1615052 GACATGAATGC
1 GACATGAATGC
1615063 TCCTGATGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (24 bp):
GACATGAATGCCCCTAATAAGCAT
Found at i:1615591 original size:15 final size:15
Alignment explanation
Indices: 1615553--1615591 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1615543 GCCTTTTCAC
*
1615553 TTTTTTGTG-TGTGT
1 TTTTTTGTGTTATGT
1615567 TTTTTT-TGTTATGT
1 TTTTTTGTGTTATGT
1615581 TTTTTTGTGTT
1 TTTTTTGTGTT
1615592 TACTTTTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 16 0.73
15 4 0.18
ACGTcount: A:0.03, C:0.00, G:0.21, T:0.77
Consensus pattern (15 bp):
TTTTTTGTGTTATGT
Found at i:1624804 original size:28 final size:28
Alignment explanation
Indices: 1624764--1624835 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
1624754 AAAAAAAAAT
* ** *
1624764 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1624792 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1624820 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1624836 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1624886 original size:52 final size:50
Alignment explanation
Indices: 1624823--1624993 Score: 164
Period size: 52 Copynumber: 3.3 Consensus size: 50
1624813 GAAATAACGA
* *
1624823 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGT-TTTTTAGAAATAAAACCG
** * ** *
1624874 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTT-GAAAACAAAACCG
1 G-GTTGGAGTATCCCCGATT-GTGAAAAATTGGTTTTTTAG-AAATAAAACCG
* * **
1624926 GGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCGATAAAACCGG
1 GG-TTGGAGTATCCCCGATTGT-GAAAAATTGGTTTTTTAGAAATAAAACC-G
1624979 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1624994 TCGGAAATAA
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
51 3 0.03
52 81 0.84
53 13 0.13
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTTTTTTAGAAATAAAACCG
Found at i:1625039 original size:27 final size:28
Alignment explanation
Indices: 1624976--1625051 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
1624966 GCGATAAAAC
***
1624976 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1625004 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1625031 CTGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1625052 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1625071 original size:212 final size:212
Alignment explanation
Indices: 1624759--1625163 Score: 611
Period size: 212 Copynumber: 1.9 Consensus size: 212
1624749 AGAAGAAAAA
* *
1624759 AAAATCGGGATTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
1 AAAACCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
* * *
1624824 GTTGGAGTATCCTCGATTGTGAAAAATTGGTA-TTTTTAGAAATAAAATCGGAGTTGGAGTATCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTTAGAAATAAAATCGGAGTTAGAGTATCC
* *
1624888 CCGATTAAAGGAAAATTGGCGTTTTGAAAACAAAACCGG-GATTGGAGTATCCCCGATTGTGGAA
131 CCGATTAAA-GAAAATTAGCGTTTTGAAAACAAAACCGGAG-TTGGAATATCCCCGATTGTGGAA
1624952 AAATTAGTGTTTTAGCGAT
194 AAATTAGTGTTTTAGCGAT
* *
1624971 AAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACTG-
1 AAAACCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAAC-GA
*
1625034 GGTTGGAGTATCCCCGATTGTGAAGAAATTAGTATTTTTTTGGAAATAAAATCGGAGTTAGAGTA
65 GGTTGGAGTATCCCCGATTGTGAA-AAATTAGTA-TTTTTTAGAAATAAAATCGGAGTTAGAGTA
* * * *
1625099 TCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
128 TCCCCGATTAAAGAAAATTAGCGTTTTGAAAACAAAACCGGAGTTGGAATATCCCCGATTGTGGA
1625164 GAATTGAGAA
Statistics
Matches: 174, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
211 28 0.16
212 61 0.35
213 46 0.26
214 39 0.22
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (212 bp):
AAAACCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTTAGAAATAAAATCGGAGTTAGAGTATCC
CCGATTAAAGAAAATTAGCGTTTTGAAAACAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAA
ATTAGTGTTTTAGCGAT
Found at i:1627533 original size:13 final size:13
Alignment explanation
Indices: 1627515--1627540 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1627505 ACAAAGATCC
1627515 ATGTATCGATACA
1 ATGTATCGATACA
1627528 ATGTATCGATACA
1 ATGTATCGATACA
1627541 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1627536 original size:33 final size:33
Alignment explanation
Indices: 1627494--1627560 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1627484 AAAATTTCCA
***
1627494 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1627527 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1627560 A
1 A
1627561 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1627604 original size:19 final size:18
Alignment explanation
Indices: 1627580--1627647 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1627570 CAGTAGCTAA
1627580 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1627599 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1627614 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1627631 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1627648 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1627620 original size:13 final size:13
Alignment explanation
Indices: 1627602--1627626 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1627592 ACAATACTTA
1627602 TGTATCGATACAT
1 TGTATCGATACAT
1627615 TGTATCGATACA
1 TGTATCGATACA
1627627 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1627624 original size:32 final size:32
Alignment explanation
Indices: 1627583--1627645 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1627573 TAGCTAATTA
*
1627583 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1627615 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1627646 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1627729 original size:21 final size:21
Alignment explanation
Indices: 1627705--1627759 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1627695 TTTGTAGGTA
1627705 GTATCGATACATTCCACAAAT
1 GTATCGATACATTCCACAAAT
*
1627726 GTATCGATACATTCTACAAAT
1 GTATCGATACATTCCACAAAT
1627747 GTATCGATACATT
1 GTATCGATACATT
1627760 TGGATAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (21 bp):
GTATCGATACATTCCACAAAT
Found at i:1631883 original size:15 final size:16
Alignment explanation
Indices: 1631852--1631884 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1631842 ATTCAACTTT
*
1631852 CTCTCAATTTACTATA
1 CTCTCAAATTACTATA
1631868 CTCTCAAATT-CTATA
1 CTCTCAAATTACTATA
1631883 CT
1 CT
1631885 TCTAAGCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCTCAAATTACTATA
Found at i:1633068 original size:38 final size:36
Alignment explanation
Indices: 1633011--1633107 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 36
1633001 ACACGATTCG
* * *
1633011 AAATAAAAATCACTGTTCTAAATAAGTGGCACAGTTT-A
1 AAATAAAAATTACTATTCTAAATAA--AGCACA-TTTCA
*
1633049 AAATAAAAATTAATATTCTAAAATAAAGCACATTTCA
1 AAATAAAAATTACTATTCT-AAATAAAGCACATTTCA
*
1633086 AAATAAAAACTACTATTCTAAA
1 AAATAAAAATTACTATTCTAAA
1633108 ATTGTGGTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
36 6 0.12
37 23 0.45
38 16 0.31
39 6 0.12
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (36 bp):
AAATAAAAATTACTATTCTAAATAAAGCACATTTCA
Found at i:1633089 original size:37 final size:37
Alignment explanation
Indices: 1633039--1633109 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
1633029 TAAATAAGTG
*
1633039 GCACAGTTTAAAATAAAAATTAATATTCTAAAATAAA
1 GCACAGTTTAAAATAAAAACTAATATTCTAAAATAAA
*
1633076 GCACA-TTTCAAAATAAAAACTACTATTCTAAAAT
1 GCACAGTTT-AAAATAAAAACTAATATTCTAAAAT
1633110 TGTGGTATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 3 0.10
37 28 0.90
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.30
Consensus pattern (37 bp):
GCACAGTTTAAAATAAAAACTAATATTCTAAAATAAA
Found at i:1635033 original size:12 final size:12
Alignment explanation
Indices: 1634999--1635033 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1634989 GGCACATATT
1634999 ATTATTATTATC
1 ATTATTATTATC
**
1635011 ATTATCGTTATC
1 ATTATTATTATC
1635023 ATTATTATTAT
1 ATTATTATTAT
1635034 TTTCCATGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:1637192 original size:30 final size:30
Alignment explanation
Indices: 1637151--1637210 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1637141 TAATTTTAGT
*
1637151 AATGGAACAGTCTTACTTCTCTTACAAAGC
1 AATGAAACAGTCTTACTTCTCTTACAAAGC
1637181 AATGAAACAGTCTTACTTCTCTTACAAAGC
1 AATGAAACAGTCTTACTTCTCTTACAAAGC
1637211 CTGTTTGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (30 bp):
AATGAAACAGTCTTACTTCTCTTACAAAGC
Found at i:1641364 original size:22 final size:22
Alignment explanation
Indices: 1641324--1641365 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1641314 ATAAAAAAAT
*
1641324 TATTTTTATATTAATATTTATG
1 TATTTTTAAATTAATATTTATG
1641346 TATTTTTAAAATTAA-ATTTA
1 TATTTTT-AAATTAATATTTA
1641366 AATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTTTTAAATTAATATTTATG
Found at i:1641696 original size:34 final size:36
Alignment explanation
Indices: 1641652--1641725 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 36
1641642 AGAAGTTTTC
1641652 ACCAACTCT-C-CTATGCAAGGATTAATTTAAAACA
1 ACCAACTCTCCTCTATGCAAGGATTAATTTAAAACA
*
1641686 ACCAATTCTCCTTCTATGCAAGGATTAATTTAAAACA
1 ACCAACTCTCC-TCTATGCAAGGATTAATTTAAAACA
1641723 ACC
1 ACC
1641726 TTGCACAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
34 8 0.22
35 1 0.03
37 27 0.75
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.28
Consensus pattern (36 bp):
ACCAACTCTCCTCTATGCAAGGATTAATTTAAAACA
Found at i:1641926 original size:2 final size:2
Alignment explanation
Indices: 1641913--1641944 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1641903 TACTTTAAGA
*
1641913 AT AT AC 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
1641945 CATGGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1646387 original size:17 final size:18
Alignment explanation
Indices: 1646370--1646429 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
1646360 TTTTAAAATA
1646370 TAAATATAATTTAGATAT
1 TAAATATAATTTAGATAT
* *
1646388 TAAATATATTTTA-TTAAT
1 TAAATATAATTTAGAT-AT
* *
1646406 T-ATTATAA-TTATATAT
1 TAAATATAATTTAGATAT
1646422 TAAATATA
1 TAAATATA
1646430 TTATATTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 6 0.18
17 12 0.36
18 15 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TAAATATAATTTAGATAT
Found at i:1646427 original size:34 final size:35
Alignment explanation
Indices: 1646374--1646442 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
1646364 AAAATATAAA
*
1646374 TATAATTTAGATATTAAATATATTTTATTAATTAT
1 TATAATTTAGATATTAAATATATTATATTAATTAT
* *
1646409 TATAA-TTATATATTAAATATATTATATTGATTAT
1 TATAATTTAGATATTAAATATATTATATTAATTAT
1646443 ATTTAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (35 bp):
TATAATTTAGATATTAAATATATTATATTAATTAT
Done.