Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 51 of 133
Found at i:10710736 original size:30 final size:30
Alignment explanation
Indices: 10710702--10710759 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10710692 CTAAGATATT
10710702 TTTAAAATTATAAAAAATAAAAATGAAATA
1 TTTAAAATTATAAAAAATAAAAATGAAATA
* * * *
10710732 TTTAAATTTTTAAAAAATATATATGAAA
1 TTTAAAATTATAAAAAATAAAAATGAAA
10710760 ACATAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
TTTAAAATTATAAAAAATAAAAATGAAATA
Found at i:10710840 original size:18 final size:18
Alignment explanation
Indices: 10710819--10710877 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 18
10710809 TCTAAAATTT
10710819 TTAAAAATTTCAAAAAAA
1 TTAAAAATTTCAAAAAAA
*
10710837 TT-AAAATTTTAACAAAAA
1 TTAAAAATTTCAA-AAAAA
* **
10710855 -TAAAATTTTC-TTAAAA
1 TTAAAAATTTCAAAAAAA
10710871 TTAAAAA
1 TTAAAAA
10710878 ACTCACAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
16 4 0.12
17 15 0.47
18 13 0.41
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAAATTTCAAAAAAA
Found at i:10710863 original size:17 final size:17
Alignment explanation
Indices: 10710822--10710863 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10710812 AAAATTTTTA
*
10710822 AAAATTTCAAAAAAATT
1 AAAATTTTAAAAAAATT
10710839 AAAATTTTAACAAAAA-T
1 AAAATTTTAA-AAAAATT
10710856 AAAATTTT
1 AAAATTTT
10710864 CTTAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTTTAAAAAAATT
Found at i:10710949 original size:17 final size:18
Alignment explanation
Indices: 10710924--10710958 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10710914 TCTAAAAATT
10710924 TTTGAAAAAATAT-AAAA
1 TTTGAAAAAATATGAAAA
*
10710941 TTTGTAAAAATATGAAAA
1 TTTGAAAAAATATGAAAA
10710959 CTTTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (18 bp):
TTTGAAAAAATATGAAAA
Found at i:10711134 original size:19 final size:19
Alignment explanation
Indices: 10711098--10711137 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10711088 TTGTTTTTAT
*
10711098 AAATTTTTATATTGTTAAA
1 AAATTTTTAGATTGTTAAA
10711117 AAATTTTTAGATAT-TTAAA
1 AAATTTTTAGAT-TGTTAAA
10711136 AA
1 AA
10711138 TAGATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
AAATTTTTAGATTGTTAAA
Found at i:10712833 original size:21 final size:21
Alignment explanation
Indices: 10712781--10712836 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
10712771 TATATTTTAG
*
10712781 AGTTTAGGGTTTTAGGGTTTCA
1 AGTTTAGGG-TTTAGGATTTCA
* *
10712803 AATTTGGGGTTTAGGATTT-A
1 AGTTTAGGGTTTAGGATTTCA
10712823 AGGTTTAGGGTTTA
1 A-GTTTAGGGTTTA
10712837 ATTAAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.07
21 19 0.68
22 7 0.25
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.45
Consensus pattern (21 bp):
AGTTTAGGGTTTAGGATTTCA
Found at i:10718454 original size:25 final size:24
Alignment explanation
Indices: 10718425--10718490 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
10718415 TTGCTATAAC
10718425 TATTAAAATATTAAAAATTATTTAT
1 TATTAAAATATTAAAAATT-TTTAT
* * *
10718450 TATTAAAGTATATTGAAACTTTTTGT
1 TATTAAA--ATATTAAAAATTTTTAT
10718476 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
10718491 TATTCAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.03
25 12 0.35
26 11 0.32
27 10 0.29
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (24 bp):
TATTAAAATATTAAAAATTTTTAT
Found at i:10718927 original size:26 final size:26
Alignment explanation
Indices: 10718898--10718949 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10718888 AAAATATTAT
* * *
10718898 ATATATTATTATTTCTTATTAAAATA
1 ATATAATACTATTTATTATTAAAATA
*
10718924 ATATAATACTATTTATTATTGAAATA
1 ATATAATACTATTTATTATTAAAATA
10718950 CTAAAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATAATACTATTTATTATTAAAATA
Found at i:10719108 original size:157 final size:163
Alignment explanation
Indices: 10718947--10719248 Score: 368
Period size: 165 Copynumber: 1.9 Consensus size: 163
10718937 TATTATTGAA
* *
10718947 ATACTAAAAATATTTATGTTC-AA-TA-AT-A-TACAAA-ATAAAATTATTTAAAATTGAAATAT
1 ATACTAAAAATA-TTATGTTCAAATTACATGAGTA-AAACATAAAAATATTTAAAATTAAAATAT
* * ** * * *
10719006 CAAAAGACTTTTAATGTTAATATTTTAATTTTTTAATTAAAATTAAGTA-AACTATT-TTTATTA
64 CAAAAAACTCTTAATAATAATATTTTAATTTTTTAAGTAAAATTAAATACAAATATTATTTATTA
10719069 ATATAATAATATTTAAGTCGAATCAAATCAAACTC
129 ATATAATAATATTTAAGTCGAATCAAATCAAACTC
* * *
10719104 ATACTTAAAATATTATGTTCAAAGTCTTACTTGAGTAAAACTATAAAAATATTTAATATTAAAAT
1 ATACTAAAAATATTATGTTCAAA---TTACATGAGTAAAAC-ATAAAAATATTTAAAATTAAAAT
*
10719169 ATTAAAAAACTCTTAATAATAATATTTTAATTTTTTAAGTAAAATTAAATACAAATATTATTTAT
62 ATCAAAAAACTCTTAATAATAATATTTTAATTTTTTAAGTAAAATTAAATACAAATATTATTTAT
*
10719234 TTATATAATAATATT
127 TAATATAATAATATT
10719249 GGAGTTGGGT
Statistics
Matches: 119, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
156 8 0.07
157 13 0.11
161 2 0.02
162 1 0.01
163 4 0.03
164 2 0.02
165 64 0.54
166 6 0.05
167 19 0.16
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (163 bp):
ATACTAAAAATATTATGTTCAAATTACATGAGTAAAACATAAAAATATTTAAAATTAAAATATCA
AAAAACTCTTAATAATAATATTTTAATTTTTTAAGTAAAATTAAATACAAATATTATTTATTAAT
ATAATAATATTTAAGTCGAATCAAATCAAACTC
Found at i:10726752 original size:13 final size:14
Alignment explanation
Indices: 10726734--10726777 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
10726724 AATGAGTAAT
*
10726734 AAATAATAACAT-G
1 AAATAATAACATAA
*
10726747 AAATAATATCATAA
1 AAATAATAACATAA
10726761 AAATAATAACAATAA
1 AAATAATAAC-ATAA
10726776 AA
1 AA
10726778 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 11 0.42
14 9 0.35
15 6 0.23
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (14 bp):
AAATAATAACATAA
Found at i:10726777 original size:14 final size:13
Alignment explanation
Indices: 10726734--10726780 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
10726724 AATGAGTAAT
*
10726734 AAATAATAACATG
1 AAATAATAACATA
*
10726747 AAATAATATCATAA
1 AAATAATAACAT-A
10726761 AAATAATAACAATA
1 AAATAATAAC-ATA
10726775 AAATAA
1 AAATAA
10726781 AATAAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 16 0.55
15 2 0.07
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (13 bp):
AAATAATAACATA
Found at i:10726787 original size:24 final size:24
Alignment explanation
Indices: 10726734--10726811 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 24
10726724 AATGAGTAAT
*
10726734 AAATAATAAC-ATGAAATAATATCATAA
1 AAATAATAACAATAAAATAA-A--AT-A
10726761 AAATAATAACAATAAAATAAAATA
1 AAATAATAACAATAAAATAAAATA
* *
10726785 AAATATTAA-AAGAAAATGAAAATA
1 AAATAATAACAATAAAAT-AAAATA
10726809 AAA
1 AAA
10726812 AAAAAGGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
23 7 0.15
24 18 0.39
25 2 0.04
27 11 0.24
28 8 0.17
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (24 bp):
AAATAATAACAATAAAATAAAATA
Found at i:10726800 original size:18 final size:19
Alignment explanation
Indices: 10726773--10726808 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10726763 ATAATAACAA
*
10726773 TAAAATAAAAT-AAAATAT
1 TAAAAGAAAATGAAAATAT
10726791 TAAAAGAAAATGAAAATA
1 TAAAAGAAAATGAAAATA
10726809 AAAAAAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (19 bp):
TAAAAGAAAATGAAAATAT
Found at i:10726834 original size:22 final size:21
Alignment explanation
Indices: 10726792--10726834 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
10726782 ATAAAATATT
*
10726792 AAAAGAAAATGAAAATAAAAA
1 AAAAGAAAATGAAAAGAAAAA
*
10726813 AAAAGGAAAATGAAAAGGAAAA
1 AAAA-GAAAATGAAAAGAAAAA
10726835 CTACCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (21 bp):
AAAAGAAAATGAAAAGAAAAA
Found at i:10727629 original size:3 final size:3
Alignment explanation
Indices: 10727621--10727650 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10727611 AAAAGAAGTA
10727621 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10727651 TAAAAATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10729509 original size:15 final size:14
Alignment explanation
Indices: 10729481--10729515 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
10729471 TTTTATTAAA
10729481 TAAAT-AAAAAAAT
1 TAAATAAAAAAAAT
10729494 TAAATAAAAAAGAAT
1 TAAATAAAAAA-AAT
10729509 TAAATAA
1 TAAATAA
10729516 CTTGACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 5 0.25
15 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAATAAAAAAAAT
Found at i:10730430 original size:20 final size:20
Alignment explanation
Indices: 10730402--10730440 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10730392 GCCCAAATAA
10730402 AAAAATAGAA-ACAAAAAAAG
1 AAAAATAGAAGA-AAAAAAAG
*
10730422 AAAATTAGAAGAAAAAAAA
1 AAAAATAGAAGAAAAAAAA
10730441 CCTAAGTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (20 bp):
AAAAATAGAAGAAAAAAAAG
Found at i:10730551 original size:13 final size:14
Alignment explanation
Indices: 10730533--10730562 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
10730523 ACTTACTCTC
10730533 AAAAATTAAAAA-A
1 AAAAATTAAAAATA
10730546 AAAAATTAAAAATA
1 AAAAATTAAAAATA
10730560 AAA
1 AAA
10730563 GGATGACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAATTAAAAATA
Found at i:10734545 original size:20 final size:20
Alignment explanation
Indices: 10734517--10734555 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10734507 TAAATAATTG
* *
10734517 TTTATAATTTAATATTATTA
1 TTTAAAATTTAAAATTATTA
10734537 TTTAAAATTTAAAATTATT
1 TTTAAAATTTAAAATTATT
10734556 TCATTTCAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAAAATTTAAAATTATTA
Found at i:10735312 original size:12 final size:14
Alignment explanation
Indices: 10735295--10735326 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10735285 TTAGGATAAC
10735295 TAAATA-AT-TTTT
1 TAAATATATATTTT
10735307 TAAATATATATTTT
1 TAAATATATATTTT
10735321 TAAATA
1 TAAATA
10735327 GTCTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 2 0.11
14 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAAATATATATTTT
Found at i:10736577 original size:18 final size:18
Alignment explanation
Indices: 10736544--10736594 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
10736534 AAATAGTTTT
* *
10736544 TTAACAATTAAAATTAAC
1 TTAATAATTCAAATTAAC
*
10736562 TTTAA-ATTTCAAATTAAC
1 -TTAATAATTCAAATTAAC
10736580 TTAATAATTCAAATT
1 TTAATAATTCAAATT
10736595 CTTTTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 20 0.71
19 4 0.14
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAATAATTCAAATTAAC
Found at i:10738306 original size:127 final size:126
Alignment explanation
Indices: 10738095--10738359 Score: 308
Period size: 127 Copynumber: 2.1 Consensus size: 126
10738085 TTATGAGTAC
* * * * *
10738095 TTCATAGAAATTGACATGTGGCATTTTTTCAAAATTACTATAAAACCTCTATTAAATTATATTTT
1 TTCATAAAAATTGACATATGACATTTTTTCAAAATTACTATAAAACCTCTATTAAATTATATATG
* * * *
10738160 AAATTTTAACATAGTATAAAAT-TAA-TGACATATTAAATTATTAAAATATCTTTGCCATTGCT
66 AAATTTCAACATAATAT-AAATCTAACT-ACATATTAAATTACTAAAATACCTTTGCCATTG-T
* **
10738222 TT-ATAAAAATTAGACATATGACATTTTATTTAAAATTACTATACTACC-CTTATTAAATTAT-T
1 TTCATAAAAATT-GACATATGACATTTT-TTCAAAATTACTATAAAACCTC-TATTAAATTATAT
*
10738284 ATGAAATTTCAAC-TCAATATAAATCTAACTACATATTAAATTACTAAAATACCTTTGCTATTGT
63 ATGAAATTTCAACAT-AATATAAATCTAACTACATATTAAATTACTAAAATACCTTTGCCATTGT
10738348 TTCATAAAAATT
1 TTCATAAAAATT
10738360 TAGCATTTTA
Statistics
Matches: 118, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
126 16 0.14
127 73 0.62
128 29 0.25
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.41
Consensus pattern (126 bp):
TTCATAAAAATTGACATATGACATTTTTTCAAAATTACTATAAAACCTCTATTAAATTATATATG
AAATTTCAACATAATATAAATCTAACTACATATTAAATTACTAAAATACCTTTGCCATTGT
Found at i:10738671 original size:61 final size:61
Alignment explanation
Indices: 10738544--10738684 Score: 153
Period size: 61 Copynumber: 2.3 Consensus size: 61
10738534 ATTCATTTTC
* * * * * * *
10738544 TTATAATTAGCCAAAGTTAGTATAATGCCTTCTTACCATAATTACAGAAATGCCCATTTCA
1 TTATAATTAGCCAAAATTACTATAATCCCTTCTTACAATAATTACAAAAATACCCATCTCA
*
10738605 CTATAATTAGCCAAAATTACTATAATACCCTT-TTACAATAATTACAAAAATA-CC-TCTCCTA
1 TTATAATTAGCCAAAATTACTATAAT-CCCTTCTTACAATAATTACAAAAATACCCATCT-C-A
*
10738666 TTATAATTGGCCAAAATTA
1 TTATAATTAGCCAAAATTA
10738685 TTATTGTCGT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.03
60 3 0.04
61 58 0.87
62 4 0.06
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (61 bp):
TTATAATTAGCCAAAATTACTATAATCCCTTCTTACAATAATTACAAAAATACCCATCTCA
Found at i:10739568 original size:17 final size:18
Alignment explanation
Indices: 10739536--10739581 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
10739526 GGTTCAGGTC
10739536 TTTAGGGTTTGGGGGTCAA
1 TTTAGGGTTT-GGGGTCAA
* *
10739555 TTTAGGGTTT-GGGTTAG
1 TTTAGGGTTTGGGGTCAA
10739572 TTTAGGGTTT
1 TTTAGGGTTT
10739582 AAAATAGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 15 0.60
19 10 0.40
ACGTcount: A:0.13, C:0.02, G:0.39, T:0.46
Consensus pattern (18 bp):
TTTAGGGTTTGGGGTCAA
Found at i:10739596 original size:7 final size:7
Alignment explanation
Indices: 10739586--10739703 Score: 83
Period size: 7 Copynumber: 18.0 Consensus size: 7
10739576 GGGTTTAAAA
10739586 TAGGGTT
1 TAGGGTT
*
10739593 TAGGATT
1 TAGGGTT
*
10739600 TAGGGCT
1 TAGGGTT
*
10739607 TAAGGTT
1 TAGGGTT
*
10739614 TAAGGTT
1 TAGGGTT
10739621 T-GGG-T
1 TAGGGTT
10739626 TAGGGTTT
1 TAGGG-TT
10739634 TAGGGTT
1 TAGGGTT
* *
10739641 T-TGATT
1 TAGGGTT
10739647 T-GGGTT
1 TAGGGTT
10739653 TAGGGTT
1 TAGGGTT
10739660 T--GGTT
1 TAGGGTT
*
10739665 TAGGTTT
1 TAGGGTT
10739672 TAGGGTT
1 TAGGGTT
**
10739679 T-GATTT
1 TAGGGTT
10739685 TAGGGTT
1 TAGGGTT
10739692 T--GGTT
1 TAGGGTT
10739697 TAGGGTT
1 TAGGGTT
10739704 GAGGTTTGGA
Statistics
Matches: 86, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
5 12 0.14
6 17 0.20
7 51 0.59
8 6 0.07
ACGTcount: A:0.14, C:0.01, G:0.37, T:0.47
Consensus pattern (7 bp):
TAGGGTT
Found at i:10739656 original size:19 final size:19
Alignment explanation
Indices: 10739610--10739692 Score: 87
Period size: 19 Copynumber: 4.3 Consensus size: 19
10739600 TAGGGCTTAA
* **
10739610 GGTTTAAGGTTTGGGTTAG
1 GGTTTAGGGTTTGATTTAG
10739629 GGTTTTAGGGTTTTGATTT-G
1 GG-TTTAGGG-TTTGATTTAG
*
10739649 GGTTTAGGGTTTGGTTTAG
1 GGTTTAGGGTTTGATTTAG
*
10739668 GTTTTAGGGTTTGATTTTAG
1 GGTTTAGGGTTTGA-TTTAG
10739688 GGTTT
1 GGTTT
10739693 GGTTTAGGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
18 7 0.13
19 22 0.42
20 18 0.34
21 6 0.11
ACGTcount: A:0.12, C:0.00, G:0.37, T:0.51
Consensus pattern (19 bp):
GGTTTAGGGTTTGATTTAG
Found at i:10739665 original size:32 final size:32
Alignment explanation
Indices: 10739632--10739703 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
10739622 GGGTTAGGGT
*
10739632 TTTAGGGTTTT-GATTTGGGTTTAGGGTTTGG
1 TTTAGGGTTTTAGATTTGAGTTTAGGGTTTGG
* *
10739663 TTTA-GGTTTTAGGGTTTGATTTTAGGGTTTGG
1 TTTAGGGTTTTA-GATTTGAGTTTAGGGTTTGG
10739695 TTTAGGGTT
1 TTTAGGGTT
10739704 GAGGTTTGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 6 0.17
31 4 0.11
32 21 0.60
33 4 0.11
ACGTcount: A:0.11, C:0.00, G:0.36, T:0.53
Consensus pattern (32 bp):
TTTAGGGTTTTAGATTTGAGTTTAGGGTTTGG
Found at i:10739687 original size:13 final size:12
Alignment explanation
Indices: 10739668--10739703 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
10739658 TTTGGTTTAG
10739668 GTTTTAGGGTTT
1 GTTTTAGGGTTT
10739680 GATTTTAGGGTTT
1 G-TTTTAGGGTTT
*
10739693 GGTTTAGGGTT
1 GTTTTAGGGTT
10739704 GAGGTTTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.11, C:0.00, G:0.36, T:0.53
Consensus pattern (12 bp):
GTTTTAGGGTTT
Found at i:10739692 original size:39 final size:39
Alignment explanation
Indices: 10739610--10739684 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
10739600 TAGGGCTTAA
10739610 GGTTTAAGGTTTGGGTTAGGGTTTTAGGGTTTTGATTTG
1 GGTTTAAGGTTTGGGTTAGGGTTTTAGGGTTTTGATTTG
* *
10739649 GGTTTAGGGTTTGGTTTA-GGTTTTAGGG-TTTGATTT
1 GGTTTAAGGTTTGGGTTAGGGTTTTAGGGTTTTGATTT
10739685 TAGGGTTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 8 0.24
38 10 0.29
39 16 0.47
ACGTcount: A:0.12, C:0.00, G:0.37, T:0.51
Consensus pattern (39 bp):
GGTTTAAGGTTTGGGTTAGGGTTTTAGGGTTTTGATTTG
Found at i:10741054 original size:52 final size:48
Alignment explanation
Indices: 10740915--10741066 Score: 144
Period size: 50 Copynumber: 3.0 Consensus size: 48
10740905 AAAAATTTTA
* * *
10740915 TAAAAAAATCTCATTTTGGAAATTGCTCCTATGAAGATAGGCAGCAAAATT
1 TAAAAAAATCTCAATTT-AAAATGGCTCCTATGAAGATAGGCA--AAAATT
* * * * *
10740966 TAAAAAGATCTC-ATTTGAAAAAGGTTCCAATAAAGATAGGCAAAGAACTT
1 TAAAAAAATCTCAATTT-AAAATGGCTCCTATGAAGATAGGCAAA-AA-TT
*
10741016 TAGAAAAAATCTCAATTTACAAATGGCTCCTATGAAGATAGGCAACAATT
1 TA-AAAAAATCTCAATTTA-AAATGGCTCCTATGAAGATAGGCAAAAATT
10741066 T
1 T
10741067 TTTTTTTTAA
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 30 0.37
51 23 0.28
52 25 0.30
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (48 bp):
TAAAAAAATCTCAATTTAAAATGGCTCCTATGAAGATAGGCAAAAATT
Found at i:10741162 original size:51 final size:51
Alignment explanation
Indices: 10741076--10741182 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
10741066 TTTTTTTTTA
* * * *
10741076 AAAAAAATCTCACTTTGGAAAAGGTTCCTATAAAGATAGGCAACG-AACTTT
1 AAAAAAATCTCACTTTGGAAAAGGTTCATACAAAGATAAGCAA-GAAACTTC
* *
10741127 AAAAAAATCTCA-TTTTGAAAAGGGTTTATACAAAGATAAGCAAGAAACTTC
1 AAAAAAATCTCACTTTGGAAAA-GGTTCATACAAAGATAAGCAAGAAACTTC
10741178 AAAAA
1 AAAAA
10741183 TCTCTTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 9 0.19
51 39 0.81
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.24
Consensus pattern (51 bp):
AAAAAAATCTCACTTTGGAAAAGGTTCATACAAAGATAAGCAAGAAACTTC
Found at i:10741844 original size:14 final size:14
Alignment explanation
Indices: 10741809--10741846 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
10741799 ACCATTATTC
10741809 TTTTA-TCATTTCA
1 TTTTATTCATTTCA
* *
10741822 TTCTGTTCATTTCA
1 TTTTATTCATTTCA
10741836 TTTTATTCATT
1 TTTTATTCATT
10741847 CGTTCACTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 3 0.15
14 17 0.85
ACGTcount: A:0.18, C:0.16, G:0.03, T:0.63
Consensus pattern (14 bp):
TTTTATTCATTTCA
Found at i:10743667 original size:147 final size:147
Alignment explanation
Indices: 10743400--10743698 Score: 562
Period size: 147 Copynumber: 2.0 Consensus size: 147
10743390 AGCACCAAGA
10743400 CATGTAATGGTACTAGAGGAGCATGGATTTTATTTGCATAAATCTAGCATTTATGATATCCCCTT
1 CATGTAATGGTACTAGAGGAGCATGGATTTTATTTGCATAAATCTAGCATTTATGATATCCCCTT
* * *
10743465 GTACAATTGATACAATCATTCTCCAACTTCTACCAATTGTATCTTGCTCTCATTACTTGTTTGGC
66 GCACAATTGATACAATCATTCTCCAACTTCAACCAATTGTATCTTGCTCTCATTACTTGTCTGGC
*
10743530 CATCATGTGACGATTGG
131 CATCATGTGACCATTGG
10743547 CATGTAATGGTACTAGAGGAGCATGGATTTTATTTGCATAAATCTAGCATTTATGATATCCCCTT
1 CATGTAATGGTACTAGAGGAGCATGGATTTTATTTGCATAAATCTAGCATTTATGATATCCCCTT
10743612 GCACAATTGATACAATCATTCTCCAACTTCAACCAATTGTATCTTGCTCTCATTACTTGTCTGGC
66 GCACAATTGATACAATCATTCTCCAACTTCAACCAATTGTATCTTGCTCTCATTACTTGTCTGGC
10743677 CATCATGTGACCATTGG
131 CATCATGTGACCATTGG
10743694 CATGT
1 CATGT
10743699 GTCTCACATA
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
147 148 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (147 bp):
CATGTAATGGTACTAGAGGAGCATGGATTTTATTTGCATAAATCTAGCATTTATGATATCCCCTT
GCACAATTGATACAATCATTCTCCAACTTCAACCAATTGTATCTTGCTCTCATTACTTGTCTGGC
CATCATGTGACCATTGG
Found at i:10764413 original size:59 final size:58
Alignment explanation
Indices: 10764286--10764799 Score: 694
Period size: 60 Copynumber: 8.7 Consensus size: 58
10764276 TTGTGCAGGA
* * *
10764286 AAAATTGATACTTTCAATTTTTCCCCAAAAAT-TGATTTTTTGAAAATTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT--TTTTTTG-AAATTTTATTTTTAAGG
*
10764346 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAA-TTTTATTTTTAAGG
* * * *
10764405 AAAATTGATACTTTCAACTTTTTCCCAAACATATTTTTTTAGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAA-TTTTATTTTTAAGG
* * *
10764465 AAAATTGATACTTTCAACTTTTCCTCAAAAACGTTTTTTTTTTAAATTTTA-TTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTTGAAATTTTATTTTTAAGG
* *
10764524 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTTGAAATTTTATTTTTAAGG
*
10764584 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAATTTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAAGG
* * *
10764641 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAACTTTAATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAA-TTTTATTTTTAAGG
* * *
10764699 AAAATTGATACTTTTAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAATTTTATTTTTAAGG
10764759 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTT
10764800 TATTTTTATT
Statistics
Matches: 412, Mismatches: 31, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
57 65 0.16
58 47 0.11
59 120 0.29
60 158 0.38
61 14 0.03
62 8 0.02
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAAGG
Found at i:10764444 original size:119 final size:117
Alignment explanation
Indices: 10764284--10764800 Score: 665
Period size: 119 Copynumber: 4.4 Consensus size: 117
10764274 TCTTGTGCAG
*
10764284 GAAAAATTGATACTTTCAA-TTTTTCCCCAAAA-ATTGATTTTTTGAAAATTTTATTTTCAAGAA
1 GAAAAATTGATACTTTCAACTTTTT-CCCAAAATATT--TTTTTTGAAAATTTTATTTTCAAGGA
10764347 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTTATTTTTAA
63 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAA-TTTTATTTTTAA
* * *
10764403 GAAAAATTGATACTTTCAACTTTTTCCCAAACATATTTTTTTAGAAACTTTGATTTTCAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAA-ATATTTTTTTTGAAAATTTTATTTTCAAGGAAA
* * *
10764468 ATTGATACTTTCAACTTTTCCTCAAAAACGTTTTTTTTTTAAATTTTA-TTTTAA
65 ATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTTGAAATTTTATTTTTAA
* * *
10764522 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAACTTTTTTTTTTG-AAATTTTATTTTTAAGGA
1 GAAAAATTGATACTTTCAACTTTTTCC-C-AAAA-TATTTTTTTTGAAAATTTTATTTTCAAGGA
10764585 AAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAATTTTATTTTTAA
63 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAA
* * *
10764639 -AGAAAATTGATACTTTCAAC-TTTTCCTCAAAA-ATATTTTTTGAAACTTTAATTTTCAAGGAA
1 GA-AAAATTGATACTTTCAACTTTTTCC-CAAAATATTTTTTTTGAAAATTTTATTTTCAAGGAA
* * *
10764701 AATTGATACTTTTAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTTATTTTTAA
64 AATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAATTTTATTTTTAA
* *
10764757 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTT
1 GAAAAATTGATACTTTCAACTTTTTCCC-AAAATAT-TTTTTTT
10764801 ATTTTTATTT
Statistics
Matches: 351, Mismatches: 28, Indels: 36
0.85 0.07 0.09
Matches are distributed among these distances:
114 8 0.02
115 44 0.13
116 18 0.05
117 33 0.09
118 47 0.13
119 156 0.44
120 25 0.07
121 20 0.06
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (117 bp):
GAAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTTTGAAAATTTTATTTTCAAGGAAAA
TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAA
Found at i:10764841 original size:5 final size:5
Alignment explanation
Indices: 10764825--10764969 Score: 68
Period size: 5 Copynumber: 27.4 Consensus size: 5
10764815 AAAATTGCAT
*
10764825 AATAA AACAA AATAAA AATAA AA-ATA AA-AA AATAA AATAA ACA-AA
1 AATAA AATAA AAT-AA AATAA AATA-A AATAA AATAA AATAA A-ATAA
* *
10764870 AATAA AACAAA AATAAA AATAA AATAA AGATAA AA-AGA ATATTA AATAA
1 AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AATA-A A-ATAA AATAA
* * *
10764919 ACCTAA TCTAAT-A AATAA AATAA ATTAA AA-ACA AATATA AATAA ATTAA
1 A-ATAA ---AATAA AATAA AATAA AATAA AATA-A AATA-A AATAA AATAA
10764968 AA
1 AA
10764970 ATTAAAAAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
4 10 0.09
5 64 0.59
6 32 0.29
7 1 0.01
8 1 0.01
9 1 0.01
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:10764844 original size:6 final size:6
Alignment explanation
Indices: 10764833--10764905 Score: 73
Period size: 6 Copynumber: 12.7 Consensus size: 6
10764823 ATAATAAAAC
* * *
10764833 AAAATA AAAATA AAAATA AAAA-A ATAAA-A TAAACA AAAAT- AAAACA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA
*
10764879 AAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
10764906 GAATATTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
5 14 0.25
6 42 0.75
ACGTcount: A:0.82, C:0.03, G:0.01, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:10764847 original size:11 final size:11
Alignment explanation
Indices: 10764828--10764904 Score: 77
Period size: 11 Copynumber: 6.8 Consensus size: 11
10764818 ATTGCATAAT
*
10764828 AAAACAAAATA
1 AAAATAAAATA
10764839 AAAATAAAAATAAA
1 AAAAT-AAAAT--A
10764853 AAAATAAAATA
1 AAAATAAAATA
*
10764864 AACA-AAAATA
1 AAAATAAAATA
10764874 AAACA-AAAATA
1 AAA-ATAAAATA
10764885 AAAATAAAATA
1 AAAATAAAATA
*
10764896 AAGATAAAA
1 AAAATAAAA
10764905 AGAATATTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
10 9 0.16
11 32 0.56
12 5 0.09
13 5 0.09
14 6 0.11
ACGTcount: A:0.82, C:0.04, G:0.01, T:0.13
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:10764962 original size:21 final size:20
Alignment explanation
Indices: 10764931--10764970 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
10764921 CTAATCTAAT
10764931 AAATAAAATAAATTAAAAAC
1 AAATAAAATAAATTAAAAAC
10764951 AAATATAAATAAATTAAAAA
1 AAATA-AAATAAATTAAAAA
10764971 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATAAAATAAATTAAAAAC
Found at i:10765833 original size:43 final size:44
Alignment explanation
Indices: 10765768--10765879 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 44
10765758 AAAAGAAAAA
* * *
10765768 AAAATAATAATGATAATCAGATAAATGAAAAAAAAATTA-ACAGAT
1 AAAA-AATAATAATAATAAGATAAATCAAAAAAAAATTATA-AGAT
* * *
10765813 AATTAAA-AA-AATAATAAGATAAATCCAAAAAATATTATAAGAT
1 AA-AAAATAATAATAATAAGATAAATCAAAAAAAAATTATAAGAT
10765856 AAAAAATAATAATAATAA-ATAAAT
1 AAAAAATAATAATAATAAGATAAAT
10765880 TATAATATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
42 3 0.05
43 37 0.66
44 11 0.20
45 4 0.07
46 1 0.02
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.24
Consensus pattern (44 bp):
AAAAAATAATAATAATAAGATAAATCAAAAAAAAATTATAAGAT
Found at i:10765878 original size:4 final size:4
Alignment explanation
Indices: 10765849--10765991 Score: 52
Period size: 4 Copynumber: 35.8 Consensus size: 4
10765839 AAAAAATATT
10765849 ATAA GATAA A-AA AT-A AT-A AT-A ATAA ATAA ATTATA ATATA AT-A
1 ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATAA A-TA-A ATA-A ATAA
* * * *
10765892 ATAA ATAT ATAA CTAT ATAA ATAAA ATACA TATAA ATATTA ACAA A-AA
1 ATAA ATAA ATAA ATAA ATAA AT-AA ATA-A -ATAA ATA--A ATAA ATAA
* * * * * *
10765940 ATAA ATAA ATAA AGAT ATAC ATAT ATTA ATAC AT-A AT-A AT-A ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
10765985 ATAA ATA
1 ATAA ATA
10765992 TAAAATACAA
Statistics
Matches: 109, Mismatches: 17, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
3 26 0.24
4 57 0.52
5 18 0.17
6 8 0.07
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.30
Consensus pattern (4 bp):
ATAA
Found at i:10765908 original size:25 final size:27
Alignment explanation
Indices: 10765859--10765925 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 27
10765849 ATAAGATAAA
*
10765859 AAATAATAAT-AATAAATAAA-T-TAT
1 AAATAATAATAAATATATAAACTATAT
10765883 AATATAATAATAAATATAT-AACTATAT
1 AA-ATAATAATAAATATATAAACTATAT
*
10765910 AAATAA-AATACATATA
1 AAATAATAATAAATATA
10765926 AATATTAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
24 2 0.05
25 19 0.51
26 11 0.30
27 5 0.14
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATAATAATAAATATATAAACTATAT
Found at i:10765909 original size:22 final size:22
Alignment explanation
Indices: 10765864--10765991 Score: 65
Period size: 22 Copynumber: 5.8 Consensus size: 22
10765854 ATAAAAAATA
*
10765864 ATAATAATAAATAAATTATAAT
1 ATAATAATAAATAAATAATAAT
*
10765886 ATAATAATAAATATATAACT-AT
1 ATAATAATAAATAAATAA-TAAT
*
10765908 AT-A-AATAAAATACAT-ATAA-
1 ATAATAAT-AAATAAATAATAAT
* *
10765927 ATATTAACAAA-AAATAAATAA-
1 ATAATAATAAATAAAT-AATAAT
*
10765948 ATAA-AGATATACATATATTAATACAT
1 ATAATA-ATA-A-ATA-AATAATA-AT
10765974 AATAATAATAAATAAATA
1 -ATAATAATAAATAAATA
10765992 TAAAATACAA
Statistics
Matches: 80, Mismatches: 10, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
19 6 0.08
20 9 0.11
21 19 0.24
22 21 0.26
23 2 0.03
24 8 0.10
25 6 0.08
26 1 0.01
27 7 0.09
28 1 0.01
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (22 bp):
ATAATAATAAATAAATAATAAT
Found at i:10766011 original size:15 final size:15
Alignment explanation
Indices: 10765993--10766039 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
10765983 AAATAAATAT
*
10765993 AAAATACAAAAGAAA
1 AAAATACAAAATAAA
10766008 AAAATA-AAAATAAA
1 AAAATACAAAATAAA
10766022 AATAATACAAAATAAA
1 AA-AATACAAAATAAA
10766038 AA
1 AA
10766040 TCGAATTGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 9 0.31
15 10 0.34
16 10 0.34
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (15 bp):
AAAATACAAAATAAA
Found at i:10766012 original size:22 final size:22
Alignment explanation
Indices: 10765987--10766040 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
10765977 AATAATAAAT
10765987 AAATATAAAATACAAAAGAA-A-A
1 AAATA-AAAATA-AAAAGAATACA
*
10766009 AAATAAAAATAAAAATAATACA
1 AAATAAAAATAAAAAGAATACA
10766031 AAATAAAAAT
1 AAATAAAAAT
10766041 CGAATTGGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 6 0.21
21 7 0.24
22 16 0.55
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.17
Consensus pattern (22 bp):
AAATAAAAATAAAAAGAATACA
Found at i:10766029 original size:30 final size:33
Alignment explanation
Indices: 10765977--10766039 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 33
10765967 AATACATAAT
10765977 AATAATAAATAAATATAAAATACAAAAGAAAAA
1 AATAATAAATAAATATAAAATACAAAAGAAAAA
* *
10766010 AATAA-AAATAAA-A-ATAATACAAAATAAAAA
1 AATAATAAATAAATATAAAATACAAAAGAAAAA
10766040 TCGAATTGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 15 0.54
31 1 0.04
32 7 0.25
33 5 0.18
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (33 bp):
AATAATAAATAAATATAAAATACAAAAGAAAAA
Found at i:10766365 original size:84 final size:84
Alignment explanation
Indices: 10766224--10766397 Score: 262
Period size: 84 Copynumber: 2.1 Consensus size: 84
10766214 TTTTACCAAA
* * *
10766224 GCTCCTCTAAATAGAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGACACCA
10766289 CGACTTTGAAAAGTAAATT
66 CGACTTTGAAAAGTAAATT
* *
10766308 GCTCCTCTAAACAGAGGCACCACGACTTTTG-GAAA-AGTAAATTGCTCCTTTAAACAGAGACAC
1 GCTCCTCTAAACAGAGGCACAACGAC-TTTGAGAAACA-TAAATTGCTCCTCTAAACAGAGACAC
*
10766371 CACGACTTTGGAAAGTAAATT
64 CACGACTTTGAAAAGTAAATT
10766392 GCTCCT
1 GCTCCT
10766398 TGACAATCAT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
83 1 0.01
84 77 0.94
85 4 0.05
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (84 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGACACCA
CGACTTTGAAAAGTAAATT
Found at i:10766398 original size:41 final size:41
Alignment explanation
Indices: 10766224--10766397 Score: 249
Period size: 43 Copynumber: 4.1 Consensus size: 41
10766214 TTTTACCAAA
* * * *
10766224 GCTCCTCTAAATAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-GTAAATT
*
10766267 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
10766308 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGG-AAAGTAAATT
* *
10766351 GCTCCTTTAAACAGAGACACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
10766392 GCTCCT
1 GCTCCT
10766398 TGACAATCAT
Statistics
Matches: 121, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
41 48 0.40
42 12 0.10
43 61 0.50
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:10767453 original size:22 final size:21
Alignment explanation
Indices: 10767405--10767454 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
10767395 CATTCACTTT
10767405 TTTTTTC-TTTTTTTTTTTCA
1 TTTTTTCATTTTTTTTTTTCA
*
10767425 TTTTTTCATTTTTTATTTTTTA
1 TTTTTTCATTTTTT-TTTTTCA
10767447 TTTTTTCA
1 TTTTTTCA
10767455 AGCATAGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 7 0.26
21 6 0.22
22 14 0.52
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTCATTTTTTTTTTTCA
Found at i:10775894 original size:58 final size:58
Alignment explanation
Indices: 10775770--10776398 Score: 818
Period size: 58 Copynumber: 10.7 Consensus size: 58
10775760 TTGTGCAGGA
* * *
10775770 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-TGATTTTTTGAAATTTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT--TTTTTTGAAA-ATTTATTTTTAAGG
10775830 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* *
10775888 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* * * *
10775946 AAAATTGATACTTTTAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAAATTT-ATTTTTAAGG
* ** *
10776006 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTCTT-CAAATTTA-TTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTT-TTGAAAATTTATTTTTAAGG
* *
10776064 AAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTTGAAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAAA-TTT-ATTTTTAAGG
* * * * * *
10776124 AAAATTGAAACTTTCAACTTTTCCTCAGAAACTTTTTTTTTGAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCA-AAAATATTTTTTTGAAAATTTATTTTTAAGG
* *
10776183 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* * *
10776241 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAACTTTAATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTT-ATTTTTAAGG
* * * *
10776299 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTTATTTTTAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAAATTTATTTTTAAGG
*
10776359 AAAATTGATACTTTCAACTTTTCCCCAAAAAGATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
10776399 TATTTTTATT
Statistics
Matches: 504, Mismatches: 49, Indels: 34
0.86 0.08 0.06
Matches are distributed among these distances:
55 2 0.00
56 4 0.01
57 16 0.03
58 249 0.49
59 51 0.10
60 147 0.29
61 26 0.05
62 9 0.02
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
Found at i:10775909 original size:118 final size:115
Alignment explanation
Indices: 10775770--10776397 Score: 825
Period size: 118 Copynumber: 5.3 Consensus size: 115
10775760 TTGTGCAGGA
*
10775770 AAAATTGATACTTTCAACTTTTCCCCAAAAATTGATTTTTTGAAATTTTTATTTTCAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-T-ATTTTTTGAAA-TTTTATTTTCAAGGAAAAT
10775835 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
63 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
*
10775888 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTTGGAAA-TTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTT-GAAATTTTATTTTCAAGGAAAATT
* * * *
10775952 GATACTTTTAACTTTTTCCCAAAAATATTTTTTTGGAAACTTTGATTTTCAAGG
64 GATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAAATTT-ATTTTTAAGG
* *
10776006 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTCTTCAAA-TTTATTTT-AAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTT-TTGAAATTTTATTTTCAAGGAAAA
* *
10776068 TTGATACTTTCAACTTTTCTCCAAAAATA-TTTTTTGAAAAACTTTGATTTTCAAGG
62 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAAA-TTT-ATTTTTAAGG
* * * * * *
10776124 AAAATTGAAACTTTCAACTTTTCCTCAGAAACTTTTTTTTTGAAATTTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCA-AAA-ATATTTTTTGAAATTTTATTTTCAAGGAAAATT
* *
10776189 GATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAAAG
64 GATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
* *
10776241 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTAATTTTCAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAA-TTTTATTTTCAAGGAAAATTG
* * * *
10776306 ATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTTATTTTTAAAG
65 ATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAAATTTATTTTTAAGG
*
10776359 AAAATTGATACTTTCAACTTTTCCCCAAAAAGATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
10776398 TTATTTTTAT
Statistics
Matches: 461, Mismatches: 30, Indels: 38
0.87 0.06 0.07
Matches are distributed among these distances:
115 11 0.02
116 98 0.21
117 61 0.13
118 225 0.49
119 54 0.12
120 11 0.02
121 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAATTTTATTTTCAAGGAAAATTGA
TACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGG
Found at i:10776062 original size:176 final size:173
Alignment explanation
Indices: 10775770--10776398 Score: 856
Period size: 176 Copynumber: 3.6 Consensus size: 173
10775760 TTGTGCAGGA
*
10775770 AAAATTGATACTTTCAACTTTTCCCCAAAAATTGATTTTTTGAAATTTTTATTTTCAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATT--TTTTTTGAAA-TTTTATTTTCAAGAAAAAT
10775835 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATTGATACT
63 TGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-AAAATTTATTTTTAAGGAAAATTGATACT
*
10775900 TTCAACTTTTCCCCAAAAATATTCTTTTGGAAA-TTT-ATTTTTAAGG
127 TTCAACTTTTCCCCAAAAATATT-TTTTGGAAACTTTAATTTTCAAGG
* * *
10775946 AAAATTGATACTTTTAACTTTTTCC-CAAAAATATTTTTTTGGAAACTTTGATTTTCAAGGAAAA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAAT-TTTTTTT-GAAA-TTTTATTTTCAAGAAAAA
* ** *
10776010 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTCTTCAAATTTA-TTTTAAGGAAAATTGATA
62 TTGATACTTTCAACTTTTCCCCAAAAA-TATTTTT-TTAAAATTTATTTTTAAGGAAAATTGATA
* * *
10776074 CTTTCAACTTTTCTCCAAAAATATTTTTTGAAAAACTTTGATTTTCAAGG
125 CTTTCAACTTTTCCCCAAAAATATTTTTTG-GAAACTTTAATTTTCAAGG
* * *
10776124 AAAATTGAAACTTTCAACTTTTCCTCAGAAACTTTTTTTTTGAAATTTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCA-AAA-ATTTTTTTTGAAATTTTATTTTCAAGAAAAATT
* *
10776189 GATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAAAGAAAATTGATACTT
64 GATACTTTCAACTTTTCCCCAAAAATATTTTTTT-AAAATTTATTTTTAAGGAAAATTGATACTT
*
10776254 TCAACTTTTCCTCAAAAATATTTTTT-GAAACTTTAATTTTCAAGG
128 TCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTTCAAGG
* *
10776299 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTTATTTTTAA-AGAAAA
1 AAAATTGATACTTTCAACTTTTCCTC--AAAAA-TTTTTTTTGAAATTTTATTTTCAAGA-AAAA
*
10776363 TTGATACTTTCAACTTTTCCCCAAAAAGATTTTTTT
62 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
10776399 TATTTTTATT
Statistics
Matches: 405, Mismatches: 31, Indels: 34
0.86 0.07 0.07
Matches are distributed among these distances:
175 56 0.14
176 191 0.47
177 114 0.28
178 33 0.08
179 10 0.02
180 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (173 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAATTTTATTTTCAAGAAAAATTGA
TACTTTCAACTTTTCCCCAAAAATATTTTTTTAAAATTTATTTTTAAGGAAAATTGATACTTTCA
ACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTTCAAGG
Found at i:10777054 original size:3 final size:3
Alignment explanation
Indices: 10777041--10777083 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
10777031 ATATTACAAG
* *
10777041 ATA AAA ATA ATA ATA ATA ATA ATA AGTT ATA AT- ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA A
10777084 ATATATAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10777086 original size:12 final size:12
Alignment explanation
Indices: 10777041--10777196 Score: 63
Period size: 12 Copynumber: 12.4 Consensus size: 12
10777031 ATATTACAAG
*
10777041 ATAAAAATAATA
1 ATAAATATAATA
10777053 AT-AATAATAATA
1 ATAAAT-ATAATA
10777065 AGTTATAATATAATA
1 A--TA-AATATAATA
10777080 ATAAATAT-ATA
1 ATAAATATAATA
*
10777091 ACTATATA-AATAAA
1 A-TAAATATAAT--A
*
10777105 ATACATATAAATA
1 ATAAATAT-AATA
* * *
10777118 TTAACAGAAAATAA
1 ATAA-ATATAAT-A
10777132 ATAAATA-AATAA
1 ATAAATATAAT-A
*
10777144 ATAAATA-AAGA
1 ATAAATATAATA
* *
10777155 TATACATATATTA
1 -ATAAATATAATA
*
10777168 ATACATAATAATA
1 ATAAAT-ATAATA
10777181 ATAAATA-AATA
1 ATAAATATAATA
10777192 ATAAA
1 ATAAA
10777197 ATACATAAAA
Statistics
Matches: 113, Mismatches: 15, Indels: 33
0.70 0.09 0.20
Matches are distributed among these distances:
11 16 0.14
12 48 0.42
13 27 0.24
14 9 0.08
15 10 0.09
16 3 0.03
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (12 bp):
ATAAATATAATA
Found at i:10777103 original size:4 final size:4
Alignment explanation
Indices: 10777079--10777196 Score: 57
Period size: 4 Copynumber: 29.5 Consensus size: 4
10777069 ATAATATAAT
* * * * *
10777079 AATA AATA TATA ACTA TATA AATAA AATA CATATA AAT- ATTA ACAGA
1 AATA AATA AATA AATA AATA AAT-A AATA -A-ATA AATA AATA A-ATA
* * * * * *
10777126 AAATA AATA AATA AATA AATA AATA AAGA TATA CATA TATT AATA CAT-
1 A-ATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
10777174 AAT- AAT- AATA AATA AAT- AATA AA
1 AATA AATA AATA AATA AATA AATA AA
10777197 ATACATAAAA
Statistics
Matches: 86, Mismatches: 21, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
3 13 0.15
4 59 0.69
5 11 0.13
6 3 0.03
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:10777208 original size:17 final size:17
Alignment explanation
Indices: 10777045--10777205 Score: 77
Period size: 20 Copynumber: 9.2 Consensus size: 17
10777035 TACAAGATAA
10777045 AAATAATAATAAT-AAT
1 AAATAATAATAATAAAT
*
10777061 -AATAAGTTATAATATAAT
1 AAATAA-TAATAATA-AAT
*
10777079 -AATAAATATATAACTATAT
1 AAAT-AATA-ATAA-TAAAT
10777098 AAATAA-AATACAT--AT
1 AAATAATAATA-ATAAAT
* *
10777113 AAATATTAACAGA-AAAT
1 AAATAATAATA-ATAAAT
10777130 AAATAAATAAATAAATAAAT
1 AAAT-AAT-AAT-AATAAAT
* *
10777150 AAAGATATACATATATTAAT
1 AAATA-ATA-ATA-ATAAAT
*
10777170 ACATAATAATAATAAAT
1 AAATAATAATAATAAAT
*
10777187 AAATAATAA-AATACAT
1 AAATAATAATAATAAAT
10777203 AAA
1 AAA
10777206 ATACAAAAGA
Statistics
Matches: 112, Mismatches: 15, Indels: 36
0.69 0.09 0.22
Matches are distributed among these distances:
15 12 0.11
16 19 0.17
17 23 0.21
18 14 0.12
19 19 0.17
20 25 0.22
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (17 bp):
AAATAATAATAATAAAT
Found at i:10777213 original size:16 final size:15
Alignment explanation
Indices: 10777180--10777250 Score: 63
Period size: 16 Copynumber: 4.5 Consensus size: 15
10777170 ACATAATAAT
* *
10777180 AATAAATAAATAATAA
1 AATAAAAAAAT-ACAA
*
10777196 AATACATAAAATACAA
1 AATA-AAAAAATACAA
*
10777212 AAGAAAAAAAATA-AA
1 AA-TAAAAAAATACAA
10777227 AATAAAAATAATACAA
1 AATAAAAA-AATACAA
10777243 AATAAAAA
1 AATAAAAA
10777251 TCGAATTGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
14 5 0.11
15 8 0.18
16 26 0.58
17 6 0.13
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.17
Consensus pattern (15 bp):
AATAAAAAAATACAA
Found at i:10777228 original size:22 final size:22
Alignment explanation
Indices: 10777203--10777251 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
10777193 TAAAATACAT
10777203 AAAATACAAAAGAA-AAAAAATA
1 AAAATA-AAAAGAATAAAAAATA
* *
10777225 AAAATAAAAATAATACAAAATA
1 AAAATAAAAAGAATAAAAAATA
10777247 AAAAT
1 AAAAT
10777252 CGAATTGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (22 bp):
AAAATAAAAAGAATAAAAAATA
Found at i:10777251 original size:16 final size:16
Alignment explanation
Indices: 10777205--10777251 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
10777195 AAATACATAA
* *
10777205 AATACAAAAGAAAAAA
1 AATACAAAATAAAAAT
10777221 AATA-AAAATAAAAAT
1 AATACAAAATAAAAAT
10777236 AATACAAAATAAAAAT
1 AATACAAAATAAAAAT
10777252 CGAATTGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (16 bp):
AATACAAAATAAAAAT
Found at i:10777433 original size:19 final size:21
Alignment explanation
Indices: 10777403--10777449 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
10777393 TAAGAAGCAA
10777403 GGGTTGGTTTTAGG-GTTTAG
1 GGGTTGGTTTTAGGTGTTTAG
*
10777423 GGGTTGG-TTTAGGTTTTTAG
1 GGGTTGGTTTTAGGTGTTTAG
*
10777443 GGTTTGG
1 GGGTTGG
10777450 AATGGTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.09, C:0.00, G:0.45, T:0.47
Consensus pattern (21 bp):
GGGTTGGTTTTAGGTGTTTAG
Found at i:10777486 original size:19 final size:19
Alignment explanation
Indices: 10777453--10777522 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
10777443 GGTTTGGAAT
* * *
10777453 GGTTTAGGGTCTAGGATAG
1 GGTTTAAGGTTTAGGATAA
10777472 GGTTTAAGGTTTAGGGATCAA
1 GGTTTAAGGTTTA-GGAT-AA
* *
10777493 GGTTTAAGGTTTGGGTTAA
1 GGTTTAAGGTTTAGGATAA
10777512 GG-TTAAGGTTT
1 GGTTTAAGGTTT
10777523 TAGGGTTCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
18 9 0.20
19 15 0.34
20 7 0.16
21 13 0.30
ACGTcount: A:0.23, C:0.03, G:0.37, T:0.37
Consensus pattern (19 bp):
GGTTTAAGGTTTAGGATAA
Found at i:10777497 original size:21 final size:20
Alignment explanation
Indices: 10777472--10777528 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
10777462 TCTAGGATAG
10777472 GGTTTAAGGTTTAGGGATCAA
1 GGTTTAAGGTTTAGGG-TCAA
*
10777493 GGTTTAAGGTTT-GGGTTAA
1 GGTTTAAGGTTTAGGGTCAA
10777512 GG-TTAAGGTTTTAGGGT
1 GGTTTAAGG-TTTAGGGT
10777529 TCAGAGTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 6 0.18
19 8 0.24
20 7 0.21
21 12 0.36
ACGTcount: A:0.23, C:0.02, G:0.37, T:0.39
Consensus pattern (20 bp):
GGTTTAAGGTTTAGGGTCAA
Found at i:10780303 original size:21 final size:20
Alignment explanation
Indices: 10780279--10780334 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 20
10780269 GAAATTCAAG
10780279 AACCAATCGATCCTCAATTAA
1 AACCAATCGATCCTC-ATTAA
10780300 AACCAATCGATTTCC-CATTAA
1 AACCAATCGA--TCCTCATTAA
10780321 AACCAATCGATCCT
1 AACCAATCGATCCT
10780335 TTTGCCCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 3 0.09
21 25 0.78
22 1 0.03
23 3 0.09
ACGTcount: A:0.39, C:0.30, G:0.05, T:0.25
Consensus pattern (20 bp):
AACCAATCGATCCTCATTAA
Found at i:10780452 original size:17 final size:16
Alignment explanation
Indices: 10780425--10780461 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
10780415 CTACAAATGC
10780425 ATTTACATTTACATCT
1 ATTTACATTTACATCT
*
10780441 ATTTACCATTTACATTT
1 ATTTA-CATTTACATCT
10780458 ATTT
1 ATTT
10780462 GAATATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTACATTTACATCT
Found at i:10788925 original size:15 final size:15
Alignment explanation
Indices: 10788905--10788933 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10788895 TGAGTTGACA
10788905 TGTGGCCATTTTGTT
1 TGTGGCCATTTTGTT
10788920 TGTGGCCATTTTGT
1 TGTGGCCATTTTGT
10788934 ATTCTGCGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.28, T:0.52
Consensus pattern (15 bp):
TGTGGCCATTTTGTT
Found at i:10789127 original size:23 final size:23
Alignment explanation
Indices: 10789101--10789149 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
10789091 CATTGAAAAA
* *
10789101 ATTTAAGCGTTGAAAATTTAAAT
1 ATTTAAGAGTTAAAAATTTAAAT
* *
10789124 ATTTAATATTTAAAAATTTAAAT
1 ATTTAAGAGTTAAAAATTTAAAT
10789147 ATT
1 ATT
10789150 AAATTTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (23 bp):
ATTTAAGAGTTAAAAATTTAAAT
Found at i:10789129 original size:8 final size:8
Alignment explanation
Indices: 10789116--10789153 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
10789106 AGCGTTGAAA
10789116 ATTTAAAT
1 ATTTAAAT
10789124 ATTT-AAT
1 ATTTAAAT
*
10789131 ATTTAAAA
1 ATTTAAAT
10789139 ATTTAAAT
1 ATTTAAAT
10789147 A-TTAAAT
1 ATTTAAAT
10789154 TTTCATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTTAAAT
Found at i:10789134 original size:15 final size:14
Alignment explanation
Indices: 10789114--10789153 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
10789104 TAAGCGTTGA
10789114 AAATTTAAATATTT
1 AAATTTAAATATTT
*
10789128 AATATTTAAAAATTT
1 AA-ATTTAAATATTT
10789143 AAATATTAAAT
1 AAAT-TTAAAT
10789154 TTTCATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATTTAAATATTT
Found at i:10792378 original size:67 final size:65
Alignment explanation
Indices: 10792265--10792395 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 65
10792255 AAAGATTTAA
*
10792265 AGGAAGACTTCTTTTTATAGAGACCATGGCTCTTCACTTTCACTTGTTCTTTTGATATGGGATGT
1 AGGAAGACTTCTTTTTATAGAGACCATAGCTCTTCACTTTCACTTGTTCTTTTG--ATGGGATGT
10792330 TT
64 TT
* * * *
10792332 AGGAGGACTTCTTTTTATAG-GAATCATAGCTTTTTACTTTCACTTGTTCTTTTGATGGGATGTT
1 AGGAAGACTTCTTTTTATAGAG-ACCATAGCTCTTCACTTTCACTTGTTCTTTTGATGGGATGTT
10792396 GAGCAGCTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 10 0.17
66 1 0.02
67 47 0.81
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.45
Consensus pattern (65 bp):
AGGAAGACTTCTTTTTATAGAGACCATAGCTCTTCACTTTCACTTGTTCTTTTGATGGGATGTTT
Found at i:10792933 original size:10 final size:10
Alignment explanation
Indices: 10792918--10792943 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10792908 GTTAAACTTA
10792918 ATAAATGAAC
1 ATAAATGAAC
10792928 ATAAATGAAC
1 ATAAATGAAC
10792938 ATAAAT
1 ATAAAT
10792944 TGAAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (10 bp):
ATAAATGAAC
Found at i:10794863 original size:130 final size:132
Alignment explanation
Indices: 10794667--10794929 Score: 386
Period size: 130 Copynumber: 2.0 Consensus size: 132
10794657 TAAGGTTAGC
* ** *
10794667 GACGTTTTTTTATAAAACTGCAACTAAATTCTTATATGGTGGTGTTTGGATTTAAAAACACCACT
1 GACGTTTTTTTATAAAACCGCAACTAAATTCTTATATGGTGGCATTTAGATTTAAAAACACCACT
* * * * * *
10794732 AAAAGTATA-TTTGTGGTGTTTGTTGTCCTAAATGTCGCTATATACTTTGACTTTTATAAATTTC
66 AAAAATATATTTTATGGTGTTTGTTGTCCTAAACGCCACTATATACTTTGACTTTTAAAAATTTC
10794796 AT
131 AT
**
10794798 GACGTTTTTTTAT-AAACCGCAACTAAATTCTTATATGGTGGCATTTAGATTTAAAAATGCCACT
1 GACGTTTTTTTATAAAACCGCAACTAAATTCTTATATGGTGGCATTTAGATTTAAAAACACCACT
*
10794862 AAAAATATATTTTTATGGTGTTTGTTGTCCTAAACGCCATTATATACTTTGACTTTTAAAAATTT
66 AAAAATATA-TTTTATGGTGTTTGTTGTCCTAAACGCCACTATATACTTTGACTTTTAAAAATTT
10794927 CAT
130 CAT
10794930 AGCGTTTATA
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
130 53 0.45
131 13 0.11
132 51 0.44
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (132 bp):
GACGTTTTTTTATAAAACCGCAACTAAATTCTTATATGGTGGCATTTAGATTTAAAAACACCACT
AAAAATATATTTTATGGTGTTTGTTGTCCTAAACGCCACTATATACTTTGACTTTTAAAAATTTC
AT
Found at i:10795892 original size:62 final size:61
Alignment explanation
Indices: 10795795--10795986 Score: 176
Period size: 62 Copynumber: 3.1 Consensus size: 61
10795785 TTTGGCAAGA
* * * * *
10795795 GATTATTCAAAGCA-TTTTTGGCTAAAAATACCTTGAAAAATCCCATCATAAAAATTGAAGCG
1 GATTATTC-AAGAAGTTTTTAGCCAAAAATGCCTTGAATAATCCCATCATAAAAATTGAAG-G
* * * * ****
10795857 GATTATTTAAGACGTTTTTAGCCAAAAATGCCTTGATTAACCCCAGTCA-ATTTTTTGTAAGG
1 GATTATTCAAGAAGTTTTTAGCCAAAAATGCCTTGAATAATCCCA-TCATAAAAATTG-AAGG
*
10795919 GACTATTCAAGAAG-TTTTAGCCAAAAATGCCTTGAATAATCTCC-TCATAAAAATTGAAGGG
1 GATTATTCAAGAAGTTTTTAGCCAAAAATGCCTTGAATAATC-CCATCATAAAAATTGAA-GG
10795980 GATTATT
1 GATTATT
10795987 AAAAGTGTTT
Statistics
Matches: 101, Mismatches: 23, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
60 5 0.05
61 40 0.40
62 50 0.50
63 6 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (61 bp):
GATTATTCAAGAAGTTTTTAGCCAAAAATGCCTTGAATAATCCCATCATAAAAATTGAAGG
Found at i:10795997 original size:61 final size:61
Alignment explanation
Indices: 10795818--10795997 Score: 158
Period size: 61 Copynumber: 2.9 Consensus size: 61
10795808 ATTTTTGGCT
* * * *
10795818 AAAAATACCTTGAAAAATCCCATCATAAAAATTGAAGCGGATTATTTAAGACGT-TTTTAGCC
1 AAAAATGCCTTGAATAATCCC-TCATAAAAATTGAAGGGGATTA-TTAAGAAGTGTTTTAGCC
* *** *
10795880 AAAAATGCCTTGATTAA-CCC-CAGTCAATTTTTTGTAA-GGGACTATTCAAGAA--GTTTTAGC
1 AAAAATGCCTTGAATAATCCCTCA-T-AA-AAATTG-AAGGGGATTATT-AAGAAGTGTTTTAGC
10795940 C
61 C
10795941 AAAAATGCCTTGAATAATCTCCTCATAAAAATTGAAGGGGATTATTAA-AAGTGTTTT
1 AAAAATGCCTTGAATAATC-CCTCATAAAAATTGAAGGGGATTATTAAGAAGTGTTTT
10795998 TGGTTAGAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
59 4 0.04
60 5 0.05
61 47 0.51
62 29 0.32
63 5 0.05
64 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (61 bp):
AAAAATGCCTTGAATAATCCCTCATAAAAATTGAAGGGGATTATTAAGAAGTGTTTTAGCC
Found at i:10796037 original size:123 final size:124
Alignment explanation
Indices: 10795818--10796087 Score: 305
Period size: 123 Copynumber: 2.2 Consensus size: 124
10795808 ATTTTTGGCT
* * *
10795818 AAAAATACCTTGAAAAATCCCATCATAAAAATTGAAGCGGATTATTTAAGACGTTTTTAGCCAAA
1 AAAAATGCCTTGAATAATCCCATCATAAAAATTGAAGCGGATTATTAAAGACGTTTTTAGCCAAA
** * * *
10795883 AATGCCTTGATTAACCCCAGTCAATTTTTTGT-AAGGGACTATTCAA-GAAGTTTTAGCC
66 AACACCTTAAATAACCCCAGTCAATTTTTTGTAAAGGG-CTATTCAAGGAACTTTTAGCC
* * * **
10795941 AAAAATGCCTTGAATAATCTCC-TCATAAAAATTGAAGGGGATTATTAAA-AGTGTTTTTGGTTA
1 AAAAATGCCTTGAATAATC-CCATCATAAAAATTGAAGCGGATTATTAAAGA-CGTTTTTAGCCA
* * * * *
10796004 GAAACACCTTAAATAACCCCATTTAATTTTTTGTAAAGGGTTATTCAAGGAACTTTTAGCT
64 AAAACACCTTAAATAACCCCAGTCAATTTTTTGTAAAGGGCTATTCAAGGAACTTTTAGCC
* *
10796065 AGAAATGCCTTGAATAACCCCAT
1 AAAAATGCCTTGAATAATCCCAT
10796088 TCAATTTTCT
Statistics
Matches: 122, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
122 1 0.01
123 86 0.70
124 35 0.29
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (124 bp):
AAAAATGCCTTGAATAATCCCATCATAAAAATTGAAGCGGATTATTAAAGACGTTTTTAGCCAAA
AACACCTTAAATAACCCCAGTCAATTTTTTGTAAAGGGCTATTCAAGGAACTTTTAGCC
Found at i:10800834 original size:17 final size:17
Alignment explanation
Indices: 10800812--10800848 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
10800802 AGATTGAATT
10800812 TATCTAATTTATTTCTA
1 TATCTAATTTATTTCTA
10800829 TATCTAATTTATTTCTA
1 TATCTAATTTATTTCTA
10800846 TAT
1 TAT
10800849 AGAATAGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (17 bp):
TATCTAATTTATTTCTA
Found at i:10801752 original size:17 final size:17
Alignment explanation
Indices: 10801712--10801766 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
10801702 ACATACATGA
*
10801712 CAAT-TTAACTAATTGAT
1 CAATATTAATTAATT-AT
* *
10801729 ACAATATTTATTTATTAT
1 -CAATATTAATTAATTAT
10801747 CAATATTAATTAATTAT
1 CAATATTAATTAATTAT
10801764 CAA
1 CAA
10801767 ATTCAAACCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 18 0.58
18 6 0.19
19 7 0.23
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (17 bp):
CAATATTAATTAATTAT
Found at i:10802337 original size:26 final size:25
Alignment explanation
Indices: 10802308--10802376 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
10802298 GGTATTATAA
* * *
10802308 TTATTTTGATCAATTTTGATGAAAAG
1 TTATTTTAAT-AATTATGATAAAAAG
10802334 TTATTTTAATAATTATGATAAAAA-
1 TTATTTTAATAATTATGATAAAAAG
* * *
10802358 ATATTATAATAATTTTGAT
1 TTATTTTAATAATTATGAT
10802377 CAATCATGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 16 0.43
25 12 0.32
26 9 0.24
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (25 bp):
TTATTTTAATAATTATGATAAAAAG
Found at i:10802399 original size:59 final size:60
Alignment explanation
Indices: 10802276--10802408 Score: 162
Period size: 59 Copynumber: 2.2 Consensus size: 60
10802266 TTATAATGAT
* * * ** *
10802276 ATTTTTATAATTATGGTAAAAAGGTATTATAATTATTTTGATCAATTTTGATGAAAAGTT
1 ATTTTTATAATTATGATAAAAAGATATTATAATAATTTTGATCAATCATGATGAAAAGTA
* * *
10802336 ATTTTAATAATTATGATAAAAA-ATATTATAATAATTTTGATCAATCATGAT-AGTAGGTA
1 ATTTTTATAATTATGATAAAAAGATATTATAATAATTTTGATCAATCATGATGA-AAAGTA
10802395 ATTTTTATAATTAT
1 ATTTTTATAATTAT
10802409 AGTTGGAGGG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 1 0.02
59 41 0.66
60 20 0.32
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (60 bp):
ATTTTTATAATTATGATAAAAAGATATTATAATAATTTTGATCAATCATGATGAAAAGTA
Found at i:10802559 original size:56 final size:56
Alignment explanation
Indices: 10802494--10802613 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 56
10802484 TTATAGTGAT
* ** *
10802494 TTTATATTTAGAAGAG-TTTTTTTTTGTCATTTAAG-AATAAAGGACATTATAATAA
1 TTTACATTTAGAAGAGAGATTTTTTTGTCATTTAAGAAATAAA-GAAATTATAATAA
* * *
10802549 TTTGACATTTATAAGAGAGATTTTTTTGTCATTTAAGAAATGAAGAAATTATAGTAA
1 TTT-ACATTTAGAAGAGAGATTTTTTTGTCATTTAAGAAATAAAGAAATTATAATAA
10802606 TTTACATT
1 TTTACATT
10802614 CAAAAAGGGG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
55 3 0.05
56 16 0.29
57 31 0.56
58 5 0.09
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (56 bp):
TTTACATTTAGAAGAGAGATTTTTTTGTCATTTAAGAAATAAAGAAATTATAATAA
Found at i:10804678 original size:25 final size:26
Alignment explanation
Indices: 10804650--10804708 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
10804640 TTAATATAGC
10804650 TATTAAAATAT-TAAAAATTATTTAT
1 TATTAAAATATATAAAAATTATTTAT
**
10804675 TATTAAAATATATTGAAATTATTTAT
1 TATTAAAATATATAAAAATTATTTAT
10804701 TATTAAAA
1 TATTAAAA
10804709 AATAGTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 11 0.35
26 20 0.65
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TATTAAAATATATAAAAATTATTTAT
Found at i:10804837 original size:36 final size:35
Alignment explanation
Indices: 10804785--10804854 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 35
10804775 TAAAACTATT
* *
10804785 TATTATTCTTTATATTATTTATTAATATATTATAA
1 TATTATTCTTAATATTATTTACTAATATATTATAA
10804820 TATTATCTCTTAATATTATTTACTAATATATTATA
1 TATTAT-TCTTAATATTATTTACTAATATATTATA
10804855 TTAATAGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTCTTAATATTATTTACTAATATATTATAA
Found at i:10804846 original size:13 final size:13
Alignment explanation
Indices: 10804796--10804848 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
10804786 ATTATTCTTT
*
10804796 ATATTATTTATTA
1 ATATTATTTACTA
10804809 ATA-TA-TTA-TA
1 ATATTATTTACTA
*
10804819 ATATTATCT-CTTA
1 ATATTATTTAC-TA
10804832 ATATTATTTACTA
1 ATATTATTTACTA
10804845 ATAT
1 ATAT
10804849 ATTATATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
10 5 0.15
11 5 0.15
12 3 0.09
13 19 0.58
14 1 0.03
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTATTTACTA
Found at i:10804874 original size:18 final size:18
Alignment explanation
Indices: 10804843--10804950 Score: 91
Period size: 18 Copynumber: 6.1 Consensus size: 18
10804833 TATTATTTAC
10804843 TAATATATTA--TATTAA
1 TAATATATTATTTATTAA
*
10804859 TAGTATATTATTTATTAA
1 TAATATATTATTTATTAA
*
10804877 TAATATATTATTTGTTAA
1 TAATATATTATTTATTAA
* *
10804895 T-ATATTATAATATTATTTAT
1 TAATA-TATTAT-TTA-TTAA
*
10804915 TAATATATGA--TATTAA
1 TAATATATTATTTATTAA
*
10804931 TAATAGATTATTTATATAA
1 TAATATATTATTTAT-TAA
10804950 T
1 T
10804951 TTATTTATTA
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
16 20 0.27
17 5 0.07
18 31 0.42
19 6 0.08
20 8 0.11
21 3 0.04
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (18 bp):
TAATATATTATTTATTAA
Found at i:10804895 original size:85 final size:85
Alignment explanation
Indices: 10804795--10804963 Score: 229
Period size: 85 Copynumber: 2.0 Consensus size: 85
10804785 TATTATTCTT
* * *
10804795 TATATTATTTATTAATATATTATAATATTATCTCTTAATAT-T-AT-TTACTAATATATTATATT
1 TATATTATTTATTAATATATTATAATATTATCTATTAATATATGATATTAATAATAGATTAT-TT
10804857 A-ATAGTATATTATTTATTAATAA
65 ATATA--AT-TTATTTATTAATAA
* *
10804880 TATATTATTTGTTAATATATTATAATATTATTTATTAATATATGATATTAATAATAGATTATTTA
1 TATATTATTTATTAATATATTATAATATTATCTATTAATATATGATATTAATAATAGATTATTTA
10804945 TATAATTTATTTATTAATA
66 TATAATTTATTTATTAATA
10804964 TATTATAATA
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
85 51 0.68
86 3 0.04
87 5 0.07
88 16 0.21
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (85 bp):
TATATTATTTATTAATATATTATAATATTATCTATTAATATATGATATTAATAATAGATTATTTA
TATAATTTATTTATTAATAA
Found at i:10804911 original size:23 final size:23
Alignment explanation
Indices: 10804863--10804983 Score: 96
Period size: 23 Copynumber: 5.5 Consensus size: 23
10804853 TATTAATAGT
10804863 ATATTATTTATT-A-ATA--AT-
1 ATATTATTTATTAATATATTATA
*
10804881 ATATTATTTGTTAATATATTATA
1 ATATTATTTATTAATATATTATA
*
10804904 ATATTATTTATTAATATATGATA
1 ATATTATTTATTAATATATTATA
* * ** *
10804927 TTAATAATAGATT-ATTTA-TATA
1 AT-ATTATTTATTAATATATTATA
10804949 AT-TTATTTATTAATATATTATA
1 ATATTATTTATTAATATATTATA
*
10804971 ATATAATATTATT
1 ATATTAT-TTATT
10804984 TATAAGTAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
18 11 0.14
19 1 0.01
20 9 0.12
21 4 0.05
22 12 0.15
23 29 0.37
24 12 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATTATTTATTAATATATTATA
Found at i:10804922 original size:67 final size:68
Alignment explanation
Indices: 10804843--10804983 Score: 152
Period size: 67 Copynumber: 2.1 Consensus size: 68
10804833 TATTATTTAC
* * *
10804843 TAATA-TATT-ATAT-TAATAGT-ATATTA-TTTATTAATA-ATATATTATTTGTTAATATATTA
1 TAATATTATTAATATATAATAGTAATAATAGATTATTAATATA-AT-TTATTTATTAATATATTA
10804902 TAATA
64 TAATA
* * * *
10804907 TTAT-TTATTAATATATGATATTAATAATAGATTATTTATATAATTTATTTATTAATATATTATA
1 TAATATTATTAATATATAATAGTAATAATAGATTATTAATATAATTTATTTATTAATATATTATA
10804971 ATA
66 ATA
10804974 TAATATTATT
1 TAATATTATT
10804984 TATAAGTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
64 7 0.11
65 4 0.06
66 5 0.08
67 30 0.48
68 15 0.24
69 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (68 bp):
TAATATTATTAATATATAATAGTAATAATAGATTATTAATATAATTTATTTATTAATATATTATA
ATA
Found at i:10804973 original size:54 final size:54
Alignment explanation
Indices: 10804871--10804975 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
10804861 GTATATTATT
* *
10804871 TATTAATAATATATTATTTGTTAATATATTATAATATTATTTATTAATATATGA
1 TATTAATAATAGATTATTTATTAATATATTATAATATTATTTATTAATATATGA
*
10804925 TATTAATAATAGATTATTTATATAATTTATTTATTAATA-TA-TTA-TAATATA
1 TATTAATAATAGATTATTTAT-TAATATA-TTA-TAATATTATTTATTAATATA
10804976 ATATTATTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
54 26 0.58
55 9 0.20
56 5 0.11
57 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (54 bp):
TATTAATAATAGATTATTTATTAATATATTATAATATTATTTATTAATATATGA
Found at i:10804984 original size:72 final size:72
Alignment explanation
Indices: 10804830--10804986 Score: 201
Period size: 72 Copynumber: 2.2 Consensus size: 72
10804820 TATTATCTCT
* * * * **
10804830 TAATATTATTTACTAATATATTATATTAATAGTATATTATTTATTAATAATATATTATTTGTTAA
1 TAATATTATTTATTAATATATGATATTAATAATAGATTATTTATTAATAATATATTATTAATTAA
*
10804895 TATATTA
66 TATAATA
*
10804902 TAATATTATTTATTAATATATGATATTAATAATAGATTATTTA-T-ATAATTTATTTATTAATAT
1 TAATATTATTTATTAATATATGATATTAATAATAGATTATTTATTAATAATATA-TTATTAAT-T
*
10804965 ATTATAATA
64 AATATAATA
10804974 TAATATTATTTAT
1 TAATATTATTTAT
10804987 AAGTAAAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
70 7 0.09
71 7 0.09
72 60 0.81
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.54
Consensus pattern (72 bp):
TAATATTATTTATTAATATATGATATTAATAATAGATTATTTATTAATAATATATTATTAATTAA
TATAATA
Found at i:10812009 original size:20 final size:20
Alignment explanation
Indices: 10811976--10812025 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
10811966 AAGTCAATAA
10811976 AGTTT-TAA-ATAATCTATT
1 AGTTTATAATATAATCTATT
10811994 AGTTTATAATATAATCTATT
1 AGTTTATAATATAATCTATT
10812014 AGTTTATAATAT
1 AGTTTATAATAT
10812026 TATTAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.17
19 3 0.10
20 22 0.73
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (20 bp):
AGTTTATAATATAATCTATT
Found at i:10817341 original size:22 final size:23
Alignment explanation
Indices: 10817316--10817364 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
10817306 AAATTTGGGA
*
10817316 TTTTTATTTGTACT-TTTTTATT
1 TTTTTATTTATACTATTTTTATT
* *
10817338 TTTTTCTTTATATTATTTTTATT
1 TTTTTATTTATACTATTTTTATT
10817361 TTTT
1 TTTT
10817365 ATGCTATCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTTATTTATACTATTTTTATT
Found at i:10817426 original size:17 final size:17
Alignment explanation
Indices: 10817406--10817444 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
10817396 CTATTATAAA
10817406 TATTT-ATTATTTATCTT
1 TATTTGATTATTTAT-TT
*
10817423 TATTTGTTTATTTATTT
1 TATTTGATTATTTATTT
10817440 TATTT
1 TATTT
10817445 TTTTATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TATTTGATTATTTATTT
Found at i:10817435 original size:18 final size:18
Alignment explanation
Indices: 10817412--10817460 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
10817402 TAAATATTTA
10817412 TTATTTATCTTTATTTGT
1 TTATTTATCTTTATTTGT
*
10817430 TTATTTAT-TTTATTTTT
1 TTATTTATCTTTATTTGT
10817447 TTATCTTATTCTTT
1 TTAT-TTA-TCTTT
10817461 TAATTATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 12 0.44
18 11 0.41
19 1 0.04
20 3 0.11
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (18 bp):
TTATTTATCTTTATTTGT
Found at i:10818079 original size:16 final size:17
Alignment explanation
Indices: 10818058--10818096 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
10818048 TAATTTGATT
10818058 AATAAAAATAAA-TTAA
1 AATAAAAATAAATTTAA
*
10818074 AAT-AAATTAAATTTAA
1 AATAAAAATAAATTTAA
10818090 AATAAAA
1 AATAAAA
10818097 TTTTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 7 0.35
16 10 0.50
17 3 0.15
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAAAAATAAATTTAA
Found at i:10818391 original size:28 final size:26
Alignment explanation
Indices: 10818337--10818391 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
10818327 CAACATGAGA
* *
10818337 TTTTTAAAAATTTCAAATGGTTAATT
1 TTTTTAAAAATTTCAAATGATGAATT
*
10818363 TTTTTAAAAAATTTCTAGATGATGAATT
1 TTTTT-AAAAATTTC-AAATGATGAATT
10818391 T
1 T
10818392 ATCTAAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 9 0.38
28 10 0.42
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (26 bp):
TTTTTAAAAATTTCAAATGATGAATT
Found at i:10821931 original size:16 final size:16
Alignment explanation
Indices: 10821906--10821940 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10821896 CTTAAGGGTG
*
10821906 AGTAGCTGAATTTTAA
1 AGTAGCTGAATTCTAA
*
10821922 AGTAGGTGAATTCTAA
1 AGTAGCTGAATTCTAA
10821938 AGT
1 AGT
10821941 TATACCTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (16 bp):
AGTAGCTGAATTCTAA
Found at i:10822419 original size:385 final size:378
Alignment explanation
Indices: 10821704--10822480 Score: 1240
Period size: 385 Copynumber: 2.0 Consensus size: 378
10821694 GTGGGGTAAA
*
10821704 AACAATAAGAAGGATAAAGCATAGAAAAAGGCTTGAGCTTATTATTAGGGCTAAATAACAAAGAG
1 AACAATAAGAAGGATAAAACATAGAAAAAGGCTTGAGCTTATTATTAGGGCTAAATAACAAAGAG
10821769 AAAAAAATATAAAGGCTCAAAATAAAAGTACTAAGGATGCTTTATTATAGGTGGGCTTGAAAAAA
66 AAAAAAATATAAAGGCTCAAAATAAAAGTACTAAGGATGCTTTATTATAGGTGGGCTTGAAAAAA
10821834 ACTTAAACGGTTCAAGAATGGCTTAAATAATTTCTTGAGTCAAGTATAGCTTAAGATTTTGCCTT
131 ACTTAAACGGTTCAAGAATGGCTTAAATAATTTCTTGAGTCAAGTATAGCTTAAGATTTTGCCTT
10821899 AAGGGTGAGTAGCTGAATTTTAAAGTAGGTGAATTCTAAAGTTATACCTATGCCTTAAATCTTTA
196 AA----GAG-AGCTG-------AAGTAGGTGAATTCTAAAGTTATACCTATGCCTTAAATCTTTA
10821964 TGCAAATTTATAGTCACATTACTTTTCACAAAGATTCATACATGTTAAAAATCAAGATGACAATT
249 TGCAAATTTATAGTCACATTACTTTTCACAAAGATTCATACATGTTAAAAATCAAGATGACAATT
10822029 CATAATCCCTAAACTAGCATACTCATGATTTCACTTCATGTTTTCAATATGTTCATTCTTGTCTT
314 CATAATCCCTAAACTAGCATACTCATGATTTCACTTCATGTTTTCAATATGTTCATTCTTGTCTT
10822094 AACAATAAGAAGGATAAAACATAGAAAAAGGCTTGAGCTTATTATT-GTGGCTAAATAACAAAGA
1 AACAATAAGAAGGATAAAACATAGAAAAAGGCTTGAGCTTATTATTAG-GGCTAAATAACAAAGA
* *
10822158 GAAAAAAATATAAAGGCTCAAAATAAAGGTACTAAGGATGTTTTAAGGATGTTTTATTATAGGTG
65 GAAAAAAATATAAAGGCTCAAAATAAAAGTAC-----------TAAGGATGCTTTATTATAGGTG
* *
10822223 GGCTTGAAAAAAGCTTAAATGGTTCAAGAATGGCTTAAATAATTTCTTGAGTCAAGTATAGCTTA
119 GGCTTGAAAAAAACTTAAACGGTTCAAGAATGGCTTAAATAATTTCTTGAGTCAAGTATAGCTTA
* *
10822288 GGATTTTGTCTTAA-AG-G-TG-AGTAGGTGAATTCTAAAGTTATACCTATGCCTTAAATCTTTA
184 AGATTTTGCCTTAAGAGAGCTGAAGTAGGTGAATTCTAAAGTTATACCTATGCCTTAAATCTTTA
10822349 TGCAAATTTATAGTCACATTACTTTTCACAAAGATTCATACATGTTAAAAATCAAGATGACAATT
249 TGCAAATTTATAGTCACATTACTTTTCACAAAGATTCATACATGTTAAAAATCAAGATGACAATT
10822414 CATAATCCCTAAACTAGCATACTCATGATTTCACTTCATGTTTTCAATATGTTCATTCTTGTCTT
314 CATAATCCCTAAACTAGCATACTCATGATTTCACTTCATGTTTTCAATATGTTCATTCTTGTCTT
10822479 AA
1 AA
10822481 GATCATACAT
Statistics
Matches: 368, Mismatches: 7, Indels: 29
0.91 0.02 0.07
Matches are distributed among these distances:
385 174 0.47
389 1 0.00
390 92 0.25
393 2 0.01
394 1 0.00
396 2 0.01
401 96 0.26
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (378 bp):
AACAATAAGAAGGATAAAACATAGAAAAAGGCTTGAGCTTATTATTAGGGCTAAATAACAAAGAG
AAAAAAATATAAAGGCTCAAAATAAAAGTACTAAGGATGCTTTATTATAGGTGGGCTTGAAAAAA
ACTTAAACGGTTCAAGAATGGCTTAAATAATTTCTTGAGTCAAGTATAGCTTAAGATTTTGCCTT
AAGAGAGCTGAAGTAGGTGAATTCTAAAGTTATACCTATGCCTTAAATCTTTATGCAAATTTATA
GTCACATTACTTTTCACAAAGATTCATACATGTTAAAAATCAAGATGACAATTCATAATCCCTAA
ACTAGCATACTCATGATTTCACTTCATGTTTTCAATATGTTCATTCTTGTCTT
Found at i:10830720 original size:19 final size:19
Alignment explanation
Indices: 10830692--10830737 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
10830682 TATCTAGTAT
*
10830692 CAATCCTTTTCTAGGGTGC
1 CAATCCTTTTCTAGGATGC
*
10830711 CAATCTTTTTCTAGGATGC
1 CAATCCTTTTCTAGGATGC
10830730 CAATCCTT
1 CAATCCTT
10830738 GTCAATCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (19 bp):
CAATCCTTTTCTAGGATGC
Found at i:10834699 original size:13 final size:13
Alignment explanation
Indices: 10834683--10834707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10834673 ATTGTGTTAT
10834683 TTCCTTGTATATA
1 TTCCTTGTATATA
10834696 TTCCTTGTATAT
1 TTCCTTGTATAT
10834708 GATATATTTT
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:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TTCCTTGTATATA
Found at i:10844586 original size:20 final size:21
Alignment explanation
Indices: 10844556--10844601 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
10844546 CATTAGTTAT
10844556 CTTATGTTAAGAACC-GCACCA
1 CTTATGTTAAGAACCAG-ACCA
10844577 CTTA-GTTAAGAACCAGACCA
1 CTTATGTTAAGAACCAGACCA
10844597 CTTAT
1 CTTAT
10844602 AATGCTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (21 bp):
CTTATGTTAAGAACCAGACCA
Found at i:10845164 original size:8 final size:9
Alignment explanation
Indices: 10845146--10845170 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10845136 AATTGCGAAC
10845146 AAAAAGAAA
1 AAAAAGAAA
10845155 AAAAAGAAA
1 AAAAAGAAA
10845164 AAAAAGA
1 AAAAAGA
10845171 TGAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:10847141 original size:22 final size:22
Alignment explanation
Indices: 10847116--10847157 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10847106 ACTTTTGGGC
10847116 ATGACCTATAAAACCTCCAGGT
1 ATGACCTATAAAACCTCCAGGT
* *
10847138 ATGATCTTTAAAACCTCCAG
1 ATGACCTATAAAACCTCCAG
10847158 ATACTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (22 bp):
ATGACCTATAAAACCTCCAGGT
Found at i:10847568 original size:44 final size:44
Alignment explanation
Indices: 10847449--10847571 Score: 124
Period size: 45 Copynumber: 2.8 Consensus size: 44
10847439 TTTCTAAGAC
* *
10847449 TTTTGAATGTGATCTTTGAAGTTTTGGATGTGAATCTTAAAAATT
1 TTTTGAATGTGATCTTTGAA-TTTTGGATGTGAATATAAAAAATT
** * * *
10847494 TTTCAAACGTGATCGTTGAAAATTTGGATGT-AA-ATAAAAGAATT
1 TTTTGAATGTGATCTTTG-AATTTTGGATGTGAATATAAAA-AATT
*
10847538 TTTTGAATGTGAATCTTTGAATTTTAGATGTGAA
1 TTTTGAATGTG-ATCTTTGAATTTTGGATGTGAA
10847572 GTTTTAAACT
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
43 4 0.07
44 24 0.39
45 31 0.51
46 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (44 bp):
TTTTGAATGTGATCTTTGAATTTTGGATGTGAATATAAAAAATT
Found at i:10847722 original size:18 final size:18
Alignment explanation
Indices: 10847680--10847933 Score: 191
Period size: 18 Copynumber: 14.5 Consensus size: 18
10847670 AAAATTACAA
*
10847680 TTGTGAATTTTTGAA-TC
1 TTGTGAATCTTTGAATTC
* *
10847697 TTGCGAATCATTGAATTC
1 TTGTGAATCTTTGAATTC
*
10847715 TTGTGAAT-TTGTAAATT-
1 TTGTGAATCTT-TGAATTC
* *
10847732 TTGTGAATGTTTGAATCC
1 TTGTGAATCTTTGAATTC
* *
10847750 TTATGAATTTTTGAATTC
1 TTGTGAATCTTTGAATTC
* * *
10847768 TTGCGAATCTTTAAATCC
1 TTGTGAATCTTTGAATTC
**
10847786 TTACGAATCTTTGAA-TC
1 TTGTGAATCTTTGAATTC
* *
10847803 TTATGAATCTTTGAATTT
1 TTGTGAATCTTTGAATTC
*
10847821 TTGCGAATCTTTGAA-TC
1 TTGTGAATCTTTGAATTC
* *
10847838 CTGTGAATCTTT-ATTTC
1 TTGTGAATCTTTGAATTC
*** * *
10847855 TTACAAATCTGTGAA-CC
1 TTGTGAATCTTTGAATTC
*
10847872 TTGTGAATCGTTGAATTC
1 TTGTGAATCTTTGAATTC
* *
10847890 TTGTGAATTTTTAAATTC
1 TTGTGAATCTTTGAATTC
**
10847908 TTGCAAATCTTTGAA-TC
1 TTGTGAATCTTTGAATTC
10847925 TTGTGAATC
1 TTGTGAATC
10847934 ATAAAATCTT
Statistics
Matches: 180, Mismatches: 49, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
16 1 0.01
17 80 0.44
18 99 0.55
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (18 bp):
TTGTGAATCTTTGAATTC
Found at i:10847783 original size:53 final size:53
Alignment explanation
Indices: 10847680--10847849 Score: 193
Period size: 53 Copynumber: 3.2 Consensus size: 53
10847670 AAAATTACAA
* ** * * *
10847680 TTGTGAATTTTTGAATCTTGCGAATCATTGAATTCTTGTGAAT-TTGTAAAT-T
1 TTGTGAATCTTTGAATCTTATGAATCTTTGAATTCTTGCGAATCTT-TAAATCC
* *
10847732 TTGTGAATGTTTGAATCCTTATGAATTTTTGAATTCTTGCGAATCTTTAAATCC
1 TTGTGAATCTTTGAAT-CTTATGAATCTTTGAATTCTTGCGAATCTTTAAATCC
** * *
10847786 TTACGAATCTTTGAATCTTATGAATCTTTGAATTTTTGCGAATCTTTGAATCC
1 TTGTGAATCTTTGAATCTTATGAATCTTTGAATTCTTGCGAATCTTTAAATCC
10847839 -TGTGAATCTTT
1 TTGTGAATCTTT
10847850 ATTTCTTACA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
52 24 0.24
53 61 0.61
54 15 0.15
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (53 bp):
TTGTGAATCTTTGAATCTTATGAATCTTTGAATTCTTGCGAATCTTTAAATCC
Found at i:10847828 original size:35 final size:35
Alignment explanation
Indices: 10847684--10847923 Score: 144
Period size: 35 Copynumber: 6.8 Consensus size: 35
10847674 TTACAATTGT
* * * * *
10847684 GAATTTTTGAATCTTGCGAATCATTGAATTCTTGT
1 GAATCTTTGAATCTTGTGAATCTTTGAATTTTTGC
* * * ** **
10847719 GAAT-TTGTAAATTTTGTGAATGTTTGAATCCTTAT
1 GAATCTT-TGAATCTTGTGAATCTTTGAATTTTTGC
* * * ** *
10847754 GAATTTTTGAATTCTTGCGAATCTTTAAATCCTTAC
1 GAATCTTTGAA-TCTTGTGAATCTTTGAATTTTTGC
*
10847790 GAATCTTTGAATCTTATGAATCTTTGAATTTTTGC
1 GAATCTTTGAATCTTGTGAATCTTTGAATTTTTGC
* *
10847825 GAATCTTTGAATCCTGTGAATCTTT--ATTTCTTAC
1 GAATCTTTGAATCTTGTGAATCTTTGAATTT-TTGC
* * * * * *
10847859 AAATCTGTGAACCTTGTGAATCGTTGAATTCTTGT
1 GAATCTTTGAATCTTGTGAATCTTTGAATTTTTGC
* * **
10847894 GAATTTTTAAATTCTTGCAAATCTTTGAAT
1 GAATCTTTGAA-TCTTGTGAATCTTTGAAT
10847924 CTTGTGAATC
Statistics
Matches: 159, Mismatches: 39, Indels: 13
0.75 0.18 0.06
Matches are distributed among these distances:
33 4 0.03
34 25 0.16
35 82 0.52
36 48 0.30
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (35 bp):
GAATCTTTGAATCTTGTGAATCTTTGAATTTTTGC
Found at i:10847916 original size:53 final size:51
Alignment explanation
Indices: 10847825--10847933 Score: 137
Period size: 53 Copynumber: 2.1 Consensus size: 51
10847815 GAATTTTTGC
* *
10847825 GAATCTTTGAATCCTGTGAATCTTTATTTCTTACAAATCTGTGAACCTTGT
1 GAATCGTTGAATCCTGTGAATCTTTAATTCTTACAAATCTGTGAACCTTGT
* * * * *
10847876 GAATCGTTGAATTCTTGTGAATTTTTAAATTCTTGCAAATCTTTGAATCTTGT
1 GAATCGTTGAA-TCCTGTGAATCTTT-AATTCTTACAAATCTGTGAACCTTGT
10847929 GAATC
1 GAATC
10847934 ATAAAATCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
51 10 0.20
52 12 0.24
53 27 0.55
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (51 bp):
GAATCGTTGAATCCTGTGAATCTTTAATTCTTACAAATCTGTGAACCTTGT
Found at i:10848027 original size:17 final size:17
Alignment explanation
Indices: 10847763--10848114 Score: 72
Period size: 17 Copynumber: 20.5 Consensus size: 17
10847753 TGAATTTTTG
10847763 AATTCTTGCGAATCTTTA
1 AATTCTTGCGAATC-TTA
* * *
10847781 AATCCTTACGAATCTTTG
1 AATTCTTGCGAATC-TTA
** *
10847799 AA-TCTTATGAATCTTTG
1 AATTCTTGCGAATC-TTA
* *
10847816 AATTTTTGCGAATCTTTG
1 AATTCTTGCGAATC-TTA
* * *
10847834 AA-TCCTGTGAATCTTT
1 AATTCTTGCGAATCTTA
* * * *
10847850 ATTTCTTACAAATCTGTG
1 AATTCTTGCGAATCT-TA
* * *
10847868 AA-CCTTGTGAATCGTTG
1 AATTCTTGCGAATC-TTA
* *
10847885 AATTCTTGTGAATTTTTA
1 AATTCTTGCGAA-TCTTA
* *
10847903 AATTCTTGCAAATCTTTG
1 AATTCTTGCGAATC-TTA
* *
10847921 AA-TCTTGTGAATCATA
1 AATTCTTGCGAATCTTA
* ** *
10847937 AAATCTTATGAAGC--A
1 AATTCTTGCGAATCTTA
* *
10847952 ACATTCTTACAAAT-TTGA
1 A-ATTCTTGCGAATCTT-A
* * *
10847970 AAATCTTGCAAATCTTC
1 AATTCTTGCGAATCTTA
** * *
10847987 AATTCTTGTAAATATGA
1 AATTCTTGCGAATCTTA
* *
10848004 AAATCTTGCGAATCTTC
1 AATTCTTGCGAATCTTA
*
10848021 AATTCTTGTGAATCTTA
1 AATTCTTGCGAATCTTA
* * * * *
10848038 AAATCTTGAGAGTTTTT
1 AATTCTTGCGAATCTTA
*
10848055 AATTCTTGCGAATCTGA
1 AATTCTTGCGAATCTTA
* * * *
10848072 TAA-TCTTGTGACTTTTC
1 -AATTCTTGCGAATCTTA
* *
10848089 AATTCTTGCAAATCTAA
1 AATTCTTGCGAATCTTA
*
10848106 AAGTCTTGC
1 AATTCTTGC
10848115 AAACTTTTGA
Statistics
Matches: 239, Mismatches: 80, Indels: 31
0.68 0.23 0.09
Matches are distributed among these distances:
15 2 0.01
16 16 0.07
17 156 0.65
18 64 0.27
19 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
AATTCTTGCGAATCTTA
Found at i:10848059 original size:34 final size:34
Alignment explanation
Indices: 10847954--10848113 Score: 144
Period size: 34 Copynumber: 4.7 Consensus size: 34
10847944 ATGAAGCAAC
* * *
10847954 ATTCTTACAAATTTGAAAATCTTGCA-AATCTTCA
1 ATTCTTGCAAATCTGAAAATCTTG-AGAATTTTCA
* * * *
10847988 ATTCTTGTAAATATGAAAATCTTGCGAATCTTCA
1 ATTCTTGCAAATCTGAAAATCTTGAGAATTTTCA
** * * *
10848022 ATTCTTGTGAATCTTAAAATCTTGAGAGTTTTTA
1 ATTCTTGCAAATCTGAAAATCTTGAGAATTTTCA
* * * *
10848056 ATTCTTGCGAATCTGATAATCTTGTGACTTTTCA
1 ATTCTTGCAAATCTGAAAATCTTGAGAATTTTCA
10848090 ATTCTTGCAAATCT-AAAAGTCTTG
1 ATTCTTGCAAATCTGAAAA-TCTTG
10848114 CAAACTTTTG
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
33 3 0.03
34 102 0.97
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (34 bp):
ATTCTTGCAAATCTGAAAATCTTGAGAATTTTCA
Found at i:10848212 original size:18 final size:18
Alignment explanation
Indices: 10848154--10848214 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
10848144 TCATAGGAAT
* **
10848154 CTTTGGAATCTTAAGAAC
1 CTTTGAAATCTTGCGAAC
* * * *
10848172 CTTTGAATTTTTGCAAAT
1 CTTTGAAATCTTGCGAAC
*
10848190 TTTTGAAATCTTGCGAAC
1 CTTTGAAATCTTGCGAAC
10848208 CTTTGAA
1 CTTTGAA
10848215 TTTCAAAATG
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
CTTTGAAATCTTGCGAAC
Found at i:10848585 original size:29 final size:33
Alignment explanation
Indices: 10848537--10848604 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 33
10848527 TTTATTTACA
*
10848537 TTATT-TTTATTCTATCTTTTGT-ATTA-TT-T
1 TTATTATTTATTCTATCTTTTATCATTATTTGT
10848566 TTATTATTTA-TCT-TCTTTTTATCATTATTTGT
1 TTATTATTTATTCTATC-TTTTATCATTATTTGT
10848598 TTATTAT
1 TTATTAT
10848605 AAAAAAAGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
28 2 0.06
29 13 0.39
30 8 0.24
31 2 0.06
32 8 0.24
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (33 bp):
TTATTATTTATTCTATCTTTTATCATTATTTGT
Found at i:10855657 original size:32 final size:32
Alignment explanation
Indices: 10855604--10855677 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
10855594 AGTTTGCGGT
10855604 TTAGGGTTTTGGTTTGGGATTTAGGGTTT-TGG
1 TTAGGG-TTTGGTTTGGGATTTAGGGTTTATGG
*
10855636 CTTAGGGTTT-GTCTTGGGATTTTGGGTTTATGG
1 -TTAGGGTTTGGT-TTGGGATTTAGGGTTTATGG
*
10855669 TTAAGGTTT
1 TTAGGGTTT
10855678 AAAGTTTTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 2 0.05
32 26 0.70
33 9 0.24
ACGTcount: A:0.11, C:0.03, G:0.36, T:0.50
Consensus pattern (32 bp):
TTAGGGTTTGGTTTGGGATTTAGGGTTTATGG
Found at i:10855728 original size:19 final size:19
Alignment explanation
Indices: 10855601--10855766 Score: 58
Period size: 19 Copynumber: 8.7 Consensus size: 19
10855591 TAGAGTTTGC
10855601 GGTTTAGGGTTTTGGTTT-G
1 GGTTTA-GGTTTTGGTTTAG
*
10855620 GGATTTAGGGTTTTGGCTTAG
1 GG-TTTA-GGTTTTGGTTTAG
* *
10855641 GGTTT--GTCTTGGGATTTTG
1 GGTTTAGGT-TTTGG-TTTAG
** *
10855660 GGTTTATGGTTAAGGTTTAA
1 GGTTTA-GGTTTTGGTTTAG
* * * *
10855680 AGTTTTGGTTTAAGGTTT-T
1 GGTTTAGGTTT-TGGTTTAG
** *
10855699 GACTTATGTTTTGGTTTAG
1 GGTTTAGGTTTTGGTTTAG
*
10855718 GGTTTAGGTTTT-G-TTAA
1 GGTTTAGGTTTTGGTTTAG
* *
10855735 GGTTTATGG-GTTGGTTTAA
1 GGTTTA-GGTTTTGGTTTAG
*
10855754 GGTTTAGGGTTTG
1 GGTTTAGGTTTTG
10855767 ATGGTGGGTT
Statistics
Matches: 109, Mismatches: 25, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
17 13 0.12
18 15 0.14
19 42 0.39
20 31 0.28
21 6 0.06
22 2 0.02
ACGTcount: A:0.14, C:0.02, G:0.34, T:0.50
Consensus pattern (19 bp):
GGTTTAGGTTTTGGTTTAG
Found at i:10857789 original size:50 final size:51
Alignment explanation
Indices: 10857736--10858090 Score: 251
Period size: 50 Copynumber: 7.1 Consensus size: 51
10857726 CAGAAATCTT
* *
10857736 AAAATCTTACTATTGAAAAAGGTTCCTATAAAAATAGGCTAAGGAAATTTA
1 AAAATCTTACTATTGAAAAAGGTTCCTATAAACATAGGCTAAGGAACTTTA
* * * * * *
10857787 AAAA-CTT-CATATGGGAAAA-GTGTCTTATAAGCATAGACTATGGAACTTTA
1 AAAATCTTAC-TATTGAAAAAGGT-TCCTATAAACATAGGCTAAGGAACTTTA
*
10857837 AAAATCTTACT-TTGAAAAA-GTCTCCTATAAACATAGG-TAGGGAACTTTA
1 AAAATCTTACTATTGAAAAAGGT-TCCTATAAACATAGGCTAAGGAACTTTA
* * * * *
10857886 AAAACCTCAC-ATTGAAAAGGGCTT-CTATAAACATTGG-TAGGGAACTTTA
1 AAAATCTTACTATTGAAAAAGG-TTCCTATAAACATAGGCTAAGGAACTTTA
* **
10857935 AAAATC-T-CGTATGGAAAAAGGGTTTTTATAAACATAGGCT-AGGCAACTTTA
1 AAAATCTTAC-TATTGAAAAA-GGTTCCTATAAACATAGGCTAAGG-AACTTTA
* * * * * *
10857986 AAAATCTTACT-TTTAAAATGGCTCTTATAAACATAGG-TAGGGAGCTTTA
1 AAAATCTTACTATTGAAAAAGGTTCCTATAAACATAGGCTAAGGAACTTTA
* * * *
10858035 AAAATC-T-CTATTTG-GAAAGGCTCCCATAAACATAGGC-AGGGAACTTTTA
1 AAAATCTTACTA-TTGAAAAAGGTTCCTATAAACATAGGCTAAGGAAC-TTTA
*
10858084 GAAATCT
1 AAAATCT
10858091 CATTTTGAAA
Statistics
Matches: 243, Mismatches: 40, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
47 3 0.01
48 25 0.10
49 91 0.37
50 92 0.38
51 28 0.12
52 3 0.01
53 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (51 bp):
AAAATCTTACTATTGAAAAAGGTTCCTATAAACATAGGCTAAGGAACTTTA
Found at i:10857885 original size:49 final size:49
Alignment explanation
Indices: 10857736--10858101 Score: 262
Period size: 49 Copynumber: 7.4 Consensus size: 49
10857726 CAGAAATCTT
* * *
10857736 AAAATCTTACTATTGAAAAAGGT-TCCTATAAAAATAGGCTAAGGAAATTTA
1 AAAATCTTACT-TTGAAAAA-GTCTCCTATAAACATAGG-TAGGGAACTTTA
* * * * * * *
10857787 AAAA-CTT-CATATGGGAAAAGTGTCTTATAAGCATAGACTATGGAACTTTA
1 AAAATCTTAC-T-TTGAAAAAGTCTCCTATAAACATAG-GTAGGGAACTTTA
10857837 AAAATCTTACTTTGAAAAAGTCTCCTATAAACATAGGTAGGGAACTTTA
1 AAAATCTTACTTTGAAAAAGTCTCCTATAAACATAGGTAGGGAACTTTA
* * * * * * *
10857886 AAAACCTCACATTGAAAAGGGCTTCTATAAACATTGGTAGGGAACTTTA
1 AAAATCTTACTTTGAAAAAGTCTCCTATAAACATAGGTAGGGAACTTTA
* ** *
10857935 AAAATC-T-CGTATGGAAAAAGGGT-TTTTATAAACATAGGCTAGGCAACTTTA
1 AAAATCTTAC-T-TTGAAAAA--GTCTCCTATAAACATAGG-TAGGGAACTTTA
* * * * *
10857986 AAAATCTTACTTTTAAAATGGCTCTTATAAACATAGGTAGGGAGCTTTA
1 AAAATCTTACTTTGAAAAAGTCTCCTATAAACATAGGTAGGGAACTTTA
* * * *
10858035 AAAATCTCTA-TTTG-GAAAGGCTCCCATAAACATAGGCAGGGAACTTTTA
1 AAAATCT-TACTTTGAAAAAGTCTCCTATAAACATAGGTAGGGAAC-TTTA
* * *
10858084 GAAATCTCATTTTGAAAA
1 AAAATCTTACTTTGAAAA
10858102 GGAAAAAAGT
Statistics
Matches: 250, Mismatches: 48, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
47 1 0.00
48 25 0.10
49 102 0.41
50 87 0.35
51 31 0.12
52 3 0.01
53 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (49 bp):
AAAATCTTACTTTGAAAAAGTCTCCTATAAACATAGGTAGGGAACTTTA
Found at i:10858101 original size:149 final size:149
Alignment explanation
Indices: 10857747--10858093 Score: 389
Period size: 149 Copynumber: 2.3 Consensus size: 149
10857737 AAATCTTACT
* * * * * * * *
10857747 ATTGAAAAAGGTTCCTATAAAAATAGGCTAAGGAAATTTAAAAA-CTTCATATGGGAAAAGTG-T
1 ATTGAAAAGGGCTCCCATAAACATAGGC-AGGGAACTTTAAAAATC-TCATATGGAAAAAGGGTT
* * *
10857810 CTTATAAGCATAGACTATGGAACTTTAAAAATCTTACTTTGAAAAAGTCTCCTATAAACATAGGT
64 TTTATAAACATAGACTATGGAACTTTAAAAATCTTACTTTGAAAAAGGCTCCTATAAACATAGGT
10857875 AGGGAACTTTAAAAACCTCAC
129 AGGGAACTTTAAAAACCTCAC
* * * * *
10857896 ATTGAAAAGGGCTTCTATAAACATTGGTAGGGAACTTTAAAAATCTCGTATGGAAAAAGGGTTTT
1 ATTGAAAAGGGCTCCCATAAACATAGGCAGGGAACTTTAAAAATCTCATATGGAAAAAGGGTTTT
* * * *
10857961 TATAAACATAGGCTA-GGCAACTTTAAAAATCTTACTTTTAAAATGGCTCTTATAAACATAGGTA
66 TATAAACATAGACTATGG-AACTTTAAAAATCTTACTTTGAAAAAGGCTCCTATAAACATAGGTA
* *
10858025 GGGAGCTTTAAAAATCTCTA-
130 GGGAACTTTAAAAACCTC-AC
* * *
10858045 TTTGGAAA-GGCTCCCATAAACATAGGCAGGGAACTTTTAGAAATCTCAT
1 ATTGAAAAGGGCTCCCATAAACATAGGCAGGGAAC-TTTAAAAATCTCAT
10858094 TTTGAAAAGG
Statistics
Matches: 165, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
148 50 0.30
149 114 0.69
150 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (149 bp):
ATTGAAAAGGGCTCCCATAAACATAGGCAGGGAACTTTAAAAATCTCATATGGAAAAAGGGTTTT
TATAAACATAGACTATGGAACTTTAAAAATCTTACTTTGAAAAAGGCTCCTATAAACATAGGTAG
GGAACTTTAAAAACCTCAC
Found at i:10858837 original size:32 final size:32
Alignment explanation
Indices: 10858783--10858872 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 32
10858773 CTAACTAGGT
* * * *
10858783 TTAAATTTCATTTTAGTGTTAGCTAATTTGAG-T
1 TTAAATTT-ATTCTGGTGTTAGCTAA-TTCAGCC
10858816 TTAAATCTTA-TCTGGTGTTAGCTAATTCAGCC
1 TTAAAT-TTATTCTGGTGTTAGCTAATTCAGCC
*
10858848 TTAAATTTATTCTGGTGCTAGCTAA
1 TTAAATTTATTCTGGTGTTAGCTAA
10858873 ACTACTTGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
31 7 0.14
32 33 0.67
33 7 0.14
34 2 0.04
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.46
Consensus pattern (32 bp):
TTAAATTTATTCTGGTGTTAGCTAATTCAGCC
Found at i:10858989 original size:31 final size:31
Alignment explanation
Indices: 10858922--10858995 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
10858912 GCCAAATTAT
* * * * *
10858922 TCTTAATTATCTTTGGTAACAGCTAGATTGG
1 TCTTAATTCTCCTTGGTAACAACTAGACTGC
* *
10858953 GCTTAATTCTCCTTGGTGACAACTAGACTGC
1 TCTTAATTCTCCTTGGTAACAACTAGACTGC
10858984 TCTTAATTCTCC
1 TCTTAATTCTCC
10858996 ATAACTACTA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TCTTAATTCTCCTTGGTAACAACTAGACTGC
Found at i:10861337 original size:13 final size:13
Alignment explanation
Indices: 10861316--10861347 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10861306 TCATTTATCC
*
10861316 TTTTCCTTCATTT
1 TTTTTCTTCATTT
10861329 TTTTTCTTCATTT
1 TTTTTCTTCATTT
10861342 TTTTTC
1 TTTTTC
10861348 ATTTTTTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTCTTCATTT
Found at i:10865136 original size:37 final size:38
Alignment explanation
Indices: 10865095--10865174 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
10865085 GCATGAAATG
* * *
10865095 GAATGCATATACTAT-TTATTAAGACATGTATGAGATC
1 GAATGCATACACTATCTTATTAAGACATGGATAAGATC
* * *
10865132 GAATGCATACATTATCTTATTAAGATATGGATAAGATG
1 GAATGCATACACTATCTTATTAAGACATGGATAAGATC
10865170 GAATG
1 GAATG
10865175 TATGTGCTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 13 0.36
38 23 0.64
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.34
Consensus pattern (38 bp):
GAATGCATACACTATCTTATTAAGACATGGATAAGATC
Found at i:10865186 original size:38 final size:38
Alignment explanation
Indices: 10865001--10865191 Score: 120
Period size: 37 Copynumber: 5.1 Consensus size: 38
10864991 TGACACTACC
** * * * *
10865001 ATTAAGATGGGCATGAGATGGATTGCATGTATTATC-T
1 ATTAAGATATGCATAAGATGGAATGCATATACTATCTT
* * * * * * * *
10865038 CTTAGGATTTGCATGAGATGGACTACATGTGCTATC-T
1 ATTAAGATATGCATAAGATGGAATGCATATACTATCTT
*
10865075 ATTAAGATGTGCATGAA-ATGGAATGCATATACTAT-TT
1 ATTAAGATATGCAT-AAGATGGAATGCATATACTATCTT
* * * * * *
10865112 ATTAAGACATGTATGAGATCGAATGCATACATTATCTT
1 ATTAAGATATGCATAAGATGGAATGCATATACTATCTT
* * * *
10865150 ATTAAGATATGGATAAGATGGAATGTATGTGCTATCTT
1 ATTAAGATATGCATAAGATGGAATGCATATACTATCTT
10865188 ATTA
1 ATTA
10865192 TTTCCCCCTT
Statistics
Matches: 118, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
36 1 0.01
37 81 0.69
38 36 0.31
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (38 bp):
ATTAAGATATGCATAAGATGGAATGCATATACTATCTT
Done.