Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 22 of 100
Found at i:6294508 original size:15 final size:13
Alignment explanation
Indices: 6294487--6294538 Score: 59
Period size: 15 Copynumber: 3.7 Consensus size: 13
6294477 TGTTTAATAC
6294487 TTTTATTTTATTT
1 TTTTATTTTATTT
6294500 TCCTTTATTTTAATTT
1 T--TTTATTTT-ATTT
*
6294516 TTATTATTTTATTA
1 TT-TTATTTTATTT
6294530 TTTTATTTT
1 TTTTATTTT
6294539 CTTTAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 8 0.24
14 6 0.18
15 15 0.44
16 5 0.15
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:6294527 original size:8 final size:8
Alignment explanation
Indices: 6294504--6294536 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
6294494 TTATTTTCCT
6294504 TTATTTTA
1 TTATTTTA
*
6294512 AT-TTTTA
1 TTATTTTA
6294519 TTATTTTA
1 TTATTTTA
6294527 TTATTTTA
1 TTATTTTA
6294535 TT
1 TT
6294537 TTCTTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTTTA
Found at i:6294632 original size:57 final size:55
Alignment explanation
Indices: 6294566--6294830 Score: 269
Period size: 57 Copynumber: 4.6 Consensus size: 55
6294556 AAAAATATAT
6294566 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAAATAAATTTTCAAAAAAAGA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTTT-AAAAATAAATTTTCAAAAAAA-A
* * *
6294623 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTTCCAAAAAATAAA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAATAAA-TTTTC-AAAAA-AAA
* * * * * * *
6294682 TTTTTTGAGGAAAAATTAAAAGTATCAATTTTCTTTAGAAACAATTTTTCAAAAGTGAAT
1 --TTTTGAGGAAAAGTTGAAAGTATCAATTTT-TTTAAAAATAAATTTTCAAAA--AAAA
** * * *
6294742 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTCTAAAAAATA
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTT-TTAAAAATAAATTTTC-AAAAAAAA
*
6294799 TTTTGAGAAAAAGTTGAAAGTATCAATTTTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTT
6294831 CTACATAAAA
Statistics
Matches: 171, Mismatches: 26, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
56 1 0.01
57 70 0.41
58 43 0.25
59 14 0.08
60 8 0.05
61 34 0.20
62 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.38
Consensus pattern (55 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAATAAATTTTCAAAAAAAA
Found at i:6294795 original size:119 final size:116
Alignment explanation
Indices: 6294546--6294830 Score: 366
Period size: 119 Copynumber: 2.4 Consensus size: 116
6294536 TTTCTTTAAA
* *
6294546 TAAAA-TTCAAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTTTAAAAAATAAAT
1 TAAAATTTCAAAAAAATA-ATTTTTGAGGAAAAATTGAAAGTATCAATTTTTTTAAAAAACAAAT
*
6294610 TTTCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAT
65 TTTCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAT
* * * *
6294662 TAAAGTTTCCAAAAAATAAATTTTTTGAGGAAAAATTAAAAGTATCAATTTTCTTT-AGAAACAA
1 TAAAATTTCAAAAAAAT-AA-TTTTTGAGGAAAAATTGAAAGTATCAATTTT-TTTAAAAAACAA
* * *
6294726 TTTTTCAAAAGTGAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAT
63 ATTTTCAAAA--AAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAT
*
6294781 TAAAATTTCTAAAAAAT-A-TTTTGA-GAAAAAGTTGAAAGTATCAATTTTTT
1 TAAAATTTCAAAAAAATAATTTTTGAGGAAAAA-TTGAAAGTATCAATTTTTT
6294831 CTACATAAAA
Statistics
Matches: 149, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
114 8 0.05
115 22 0.15
116 4 0.03
117 12 0.08
118 45 0.30
119 56 0.38
120 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (116 bp):
TAAAATTTCAAAAAAATAATTTTTGAGGAAAAATTGAAAGTATCAATTTTTTTAAAAAACAAATT
TTCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAAT
Found at i:6298805 original size:19 final size:20
Alignment explanation
Indices: 6298771--6298808 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6298761 ACAAATTTTA
6298771 ATTTAACTAATTTTTTTATT
1 ATTTAACTAATTTTTTTATT
*
6298791 ATTTAACT-CTTTTTTTAT
1 ATTTAACTAATTTTTTTAT
6298809 AGTAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTAACTAATTTTTTTATT
Found at i:6301678 original size:150 final size:149
Alignment explanation
Indices: 6301484--6301781 Score: 384
Period size: 150 Copynumber: 2.0 Consensus size: 149
6301474 GACTCACTAC
* *
6301484 AATATTTTTTACTCTTTATAAATGAAAAAGTTGATTAGTATCAAAATATCAAAAAAGTCAATTTC
1 AATATTCTTTACTCTTTATAAATGAAAAAGTTGATCAGTATCAAAATATCAAAAAAGTCAATTTC
* * *
6301549 AATGATGGGAATAAAAATAAACCAACAATTAAAAATATACCATA-TTTTTATTTAGTAGAAGAAA
66 AATAATGGGAATAAAAATAAACCAACAATTAAAAATATACCA-ACTTTTTATGTAATAGAAGAAA
*
6301613 TTTTTTTATGGAGATTACAAA
130 -TTTTTTATGGAGAATACAAA
* * * * * *
6301634 AATATTCTTTACT-TTTTTCAAATGAAGAAGTTGATCGGTATCAAAATATTAAAAAAGTTATTTT
1 AATATTCTTTACTCTTTAT-AAATGAAAAAGTTGATCAGTATCAAAATATCAAAAAAGTCAATTT
* * * * * * *
6301698 TAATAATGGTAATAAAAATGAAGCAACAATTAAAAATATACTAACTTTTTGTGTAATAGAATAAA
65 CAATAATGGGAATAAAAATAAACCAACAATTAAAAATATACCAACTTTTTATGTAATAGAAGAAA
6301763 TTTTTTATGGAGAATACAA
130 TTTTTTATGGAGAATACAA
6301782 TTGTGAATTT
Statistics
Matches: 127, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
149 23 0.18
150 104 0.82
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (149 bp):
AATATTCTTTACTCTTTATAAATGAAAAAGTTGATCAGTATCAAAATATCAAAAAAGTCAATTTC
AATAATGGGAATAAAAATAAACCAACAATTAAAAATATACCAACTTTTTATGTAATAGAAGAAAT
TTTTTATGGAGAATACAAA
Found at i:6302430 original size:20 final size:20
Alignment explanation
Indices: 6302407--6302451 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
6302397 AAATTTAAAT
6302407 GTAATCAGT-ATAATTTAGTA
1 GTAATCA-TCATAATTTAGTA
6302427 GTAATCATCGATAATTTAGTA
1 GTAATCATC-ATAATTTAGTA
6302448 GTAA
1 GTAA
6302452 ATTAGTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.04
20 7 0.30
21 15 0.65
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (20 bp):
GTAATCATCATAATTTAGTA
Found at i:6302471 original size:22 final size:22
Alignment explanation
Indices: 6302436--6302951 Score: 167
Period size: 22 Copynumber: 23.9 Consensus size: 22
6302426 AGTAATCATC
* * *
6302436 GATAATTTAGTAGTAAATTAGT
1 GATAACTTAATAGTAAATTAAT
6302458 GATAACTTAATAGTAAATTAAT
1 GATAACTTAATAGTAAATTAAT
*
6302480 GATAATTTAATAGTAAA-TAATT
1 GATAACTTAATAGTAAATTAA-T
** *
6302502 GATAACTTTTTAGTAAATCAAT
1 GATAACTTAATAGTAAATTAAT
* * * * **
6302524 AATGA-TATAATAATATATGCAT
1 GATAACT-TAATAGTAAATTAAT
* * *
6302546 AATATCTTAATAGTAAATCAAT
1 GATAACTTAATAGTAAATTAAT
* *
6302568 TATAA--T-ATAGTTATAAATACAT
1 GATAACTTAATAG-TA-AATTA-AT
* * * * *
6302590 AATAACATAGTAATAAATTAAA
1 GATAACTTAATAGTAAATTAAT
* *
6302612 GATAATTTTAA-A--AAAATAAGT
1 GATAA-CTTAATAGTAAATTAA-T
* * * *
6302633 GATAATTTAGTAGTTACTT-AT
1 GATAACTTAATAGTAAATTAAT
*
6302654 GATAACTTAATAATAAATTAAT
1 GATAACTTAATAGTAAATTAAT
* *
6302676 AATAACTTAATAATAAATTAAT
1 GATAACTTAATAGTAAATTAAT
* * * *
6302698 AATATCCTAATAGTAAATTAGT
1 GATAACTTAATAGTAAATTAAT
* * * *
6302720 AATAATTTAATAATAAATCAAT
1 GATAACTTAATAGTAAATTAAT
** **
6302742 TTTAGTTTAATAGT-AATTAAT
1 GATAACTTAATAGTAAATTAAT
*
6302763 --TGAC--AATAGTAAATCATAA-
1 GATAACTTAATAGTAAAT--TAAT
* * * *
6302782 -AAAATTTAGTAGTAAATCAAT
1 GATAACTTAATAGTAAATTAAT
* *
6302803 AATAAATTAATAGTAAA-TAATT
1 GATAACTTAATAGTAAATTAA-T
* * * * *
6302825 GATAATTTATTAGTTAATCATT
1 GATAACTTAATAGTAAATTAAT
* *
6302847 GAAAACTTAAAAGTAAATT--T
1 GATAACTTAATAGTAAATTAAT
* *
6302867 GTATAACTTAGTAGTAAA-TCAT
1 G-ATAACTTAATAGTAAATTAAT
* * * *
6302889 CGATAACATAATAGTTAATGAGT
1 -GATAACTTAATAGTAAATTAAT
*
6302912 GATAACTTAATAATAAATT-AT
1 GATAACTTAATAGTAAATTAAT
*
6302933 GTATAATTTAATA-TAAATT
1 G-ATAACTTAATAGTAAATT
6302952 TGTCATAACT
Statistics
Matches: 361, Mismatches: 101, Indels: 65
0.69 0.19 0.12
Matches are distributed among these distances:
17 6 0.02
18 3 0.01
19 5 0.01
20 22 0.06
21 57 0.16
22 249 0.69
23 14 0.04
24 3 0.01
25 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (22 bp):
GATAACTTAATAGTAAATTAAT
Found at i:6302485 original size:44 final size:44
Alignment explanation
Indices: 6302436--6302951 Score: 201
Period size: 44 Copynumber: 11.9 Consensus size: 44
6302426 AGTAATCATC
* *
6302436 GATAATTTAGTAGTAAATTAGTGATAACTTAATAGTAAATTAAT
1 GATAATTTAATAGTAAATTAATGATAACTTAATAGTAAATTAAT
** *
6302480 GATAATTTAATAGTAAA-TAATTGATAACTTTTTAGTAAATCAAT
1 GATAATTTAATAGTAAATTAA-TGATAACTTAATAGTAAATTAAT
* * * * * ** * * *
6302524 AATGATATAATAATATATGCATAATATCTTAATAGTAAATCAAT
1 GATAATTTAATAGTAAATTAATGATAACTTAATAGTAAATTAAT
* * * * * * * *
6302568 TATAATATAGTTA-TAAA-TACATAATAACATAGTAATAAATTAAA
1 GATAATTTA-ATAGTAAATTA-ATGATAACTTAATAGTAAATTAAT
* * * * *
6302612 GATAATTTTAA-A--AAAATAAGTGATAATTTAGTAGTTACTT-AT
1 GATAA-TTTAATAGTAAATTAA-TGATAACTTAATAGTAAATTAAT
* * * *
6302654 GATAACTTAATAATAAATTAATAATAACTTAATAATAAATTAAT
1 GATAATTTAATAGTAAATTAATGATAACTTAATAGTAAATTAAT
* * * * * * *
6302698 AAT-ATCCTAATAGTAAATTAGTAATAATTTAATAATAAATCAAT
1 GATAAT-TTAATAGTAAATTAATGATAACTTAATAGTAAATTAAT
** * *
6302742 TTTAGTTTAATAGT-AATTAAT--TGAC--AATAGTAAATCATAA-
1 GATAATTTAATAGTAAATTAATGATAACTTAATAGTAAAT--TAAT
* * * * *
6302782 -AAAATTTAGTAGTAAATCAATAATAAATTAATAGTAAA-TAATT
1 GATAATTTAATAGTAAATTAATGATAACTTAATAGTAAATTAA-T
* * * * * *
6302825 GATAATTTATTAGTTAATCATTGAAAACTTAAAAGTAAATT--T
1 GATAATTTAATAGTAAATTAATGATAACTTAATAGTAAATTAAT
* * * * * * *
6302867 GTATAACTTAGTAGTAAA-TCATCGATAACATAATAGTTAATGAGT
1 G-ATAATTTAATAGTAAATTAAT-GATAACTTAATAGTAAATTAAT
* * *
6302912 GATAACTTAATAATAAATT-ATGTATAATTTAATA-TAAATT
1 GATAATTTAATAGTAAATTAATG-ATAACTTAATAGTAAATT
6302952 TGTCATAACT
Statistics
Matches: 348, Mismatches: 94, Indels: 61
0.69 0.19 0.12
Matches are distributed among these distances:
39 18 0.05
40 6 0.02
41 11 0.03
42 16 0.05
43 72 0.21
44 214 0.61
45 11 0.03
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (44 bp):
GATAATTTAATAGTAAATTAATGATAACTTAATAGTAAATTAAT
Found at i:6302674 original size:11 final size:11
Alignment explanation
Indices: 6302655--6302737 Score: 94
Period size: 11 Copynumber: 7.5 Consensus size: 11
6302645 GTTACTTATG
*
6302655 ATAACTTAATA
1 ATAAATTAATA
6302666 ATAAATTAATA
1 ATAAATTAATA
*
6302677 ATAACTTAATA
1 ATAAATTAATA
6302688 ATAAATTAATA
1 ATAAATTAATA
***
6302699 ATATCCTAATA
1 ATAAATTAATA
* *
6302710 GTAAATTAGTA
1 ATAAATTAATA
*
6302721 ATAATTTAATA
1 ATAAATTAATA
6302732 ATAAAT
1 ATAAAT
6302738 CAATTTTAGT
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 57 1.00
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.37
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:6302788 original size:61 final size:61
Alignment explanation
Indices: 6302660--6302826 Score: 149
Period size: 61 Copynumber: 2.7 Consensus size: 61
6302650 TTATGATAAC
* * * * *
6302660 TTAATAATAAATTAATAATAACTTAATAATAAATTAATAAT-ATCCTAATAGTAAATTAGTAATA
1 TTAATAATAAATCAATAATAAATTAATAGTAAA-TAAT--TGA--C-AATAGTAAATCAGTAAAA
6302724 AT
60 AT
** ** *
6302726 TTAATAATAAATCAATTTTAGTTTAATAGTAATTAATTGACAATAGTAAATCA-TAAAAAAT
1 TTAATAATAAATCAATAATAAATTAATAGTAAATAATTGACAATAGTAAATCAGT-AAAAAT
* *
6302787 TTAGTAGTAAATCAATAATAAATTAATAGTAAATAATTGA
1 TTAATAATAAATCAATAATAAATTAATAGTAAATAATTGA
6302827 TAATTTATTA
Statistics
Matches: 83, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
60 1 0.01
61 49 0.59
62 1 0.01
63 1 0.01
64 1 0.01
65 4 0.05
66 26 0.31
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (61 bp):
TTAATAATAAATCAATAATAAATTAATAGTAAATAATTGACAATAGTAAATCAGTAAAAAT
Found at i:6302882 original size:65 final size:66
Alignment explanation
Indices: 6302804--6302950 Score: 165
Period size: 65 Copynumber: 2.3 Consensus size: 66
6302794 TAAATCAATA
* ** * *
6302804 ATAAATTAATAGTAAATAATTGATAATTTATTAGTTAATCATTGAAAACTTAA-AAGTAAATT-T
1 ATAAATTAATAGTAAATAATCGATAACATAATAGTTAATCAGTGAAAACTTAATAA-TAAATTAT
6302867 GT
65 GT
* * * * *
6302869 ATAACTTAGTAGTAAATCATCGATAACATAATAGTTAATGAGTGATAACTTAATAATAAATTATG
1 ATAAATTAATAGTAAATAATCGATAACATAATAGTTAATCAGTGAAAACTTAATAATAAATTATG
6302934 T
66 T
*
6302935 ATAATTTAATA-TAAAT
1 ATAAATTAATAGTAAAT
6302951 TTGTCATAAC
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 54 0.79
66 14 0.21
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (66 bp):
ATAAATTAATAGTAAATAATCGATAACATAATAGTTAATCAGTGAAAACTTAATAATAAATTATG
T
Found at i:6303130 original size:22 final size:22
Alignment explanation
Indices: 6303088--6303176 Score: 85
Period size: 22 Copynumber: 4.2 Consensus size: 22
6303078 TAAATATTTG
*
6303088 ATAAGTTAGTAGTAAAT---TA
1 ATAACTTAGTAGTAAATCACTA
*
6303107 ATAACTTAGCAGTAAATCACTA
1 ATAACTTAGTAGTAAATCACTA
* * *
6303129 ATAACATAATAGTAAATTACTA
1 ATAACTTAGTAGTAAATCACTA
* * *
6303151 ATAATTTAGTTGTAAATCAATA
1 ATAACTTAGTAGTAAATCACTA
6303173 ATAA
1 ATAA
6303177 TTTAATAATA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
19 15 0.27
22 40 0.73
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (22 bp):
ATAACTTAGTAGTAAATCACTA
Found at i:6303176 original size:44 final size:43
Alignment explanation
Indices: 6303032--6303176 Score: 125
Period size: 44 Copynumber: 3.4 Consensus size: 43
6303022 AAAATTAAGC
* * * *
6303032 AGTAAATCAATAATAGCATAATAGTAAATATATAAAAATATAAT
1 AGTAAATCAATAATAACATAATAGTAAAT-TATAATAATTTAGT
* * ** * * *
6303076 AGTAAAT-ATTTGATAAGTTAGTAGTAAA-T-TAATAACTTAGC
1 AGTAAATCA-ATAATAACATAATAGTAAATTATAATAATTTAGT
*
6303117 AGTAAATCACTAATAACATAATAGTAAATTACTAATAATTTAGT
1 AGTAAATCAATAATAACATAATAGTAAATTA-TAATAATTTAGT
*
6303161 TGTAAATCAATAATAA
1 AGTAAATCAATAATAA
6303177 TTTAATAATA
Statistics
Matches: 76, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
41 28 0.37
42 3 0.04
43 1 0.01
44 44 0.58
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (43 bp):
AGTAAATCAATAATAACATAATAGTAAATTATAATAATTTAGT
Found at i:6303339 original size:22 final size:22
Alignment explanation
Indices: 6303305--6303366 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
6303295 AATTTAATAG
* * * *
6303305 AAATTATTTATAATTTACTGAT
1 AAATCATTCATAACTTAATGAT
*
6303327 AAATCGTTCATAACTTAATGAT
1 AAATCATTCATAACTTAATGAT
* *
6303349 AAATTATTCATAAATTAA
1 AAATCATTCATAACTTAA
6303367 AAGTAAATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (22 bp):
AAATCATTCATAACTTAATGAT
Found at i:6303395 original size:44 final size:44
Alignment explanation
Indices: 6303347--6303431 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
6303337 TAACTTAATG
* *
6303347 ATAAATTATTCATAAATTAAAAGTAAATAATTGATAATTTAGTA
1 ATAAATTATTCATAAATTAAAAGTAAATAACTAATAATTTAGTA
* * **
6303391 ATAAATTATTGATAACTTAGTAGTAAATAACTAATAATTTA
1 ATAAATTATTCATAAATTAAAAGTAAATAACTAATAATTTA
6303432 ATTGTCAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.39
Consensus pattern (44 bp):
ATAAATTATTCATAAATTAAAAGTAAATAACTAATAATTTAGTA
Found at i:6303405 original size:11 final size:11
Alignment explanation
Indices: 6303305--6303405 Score: 51
Period size: 11 Copynumber: 9.2 Consensus size: 11
6303295 AATTTAATAG
*
6303305 AAATTATTTAT
1 AAATTATTGAT
* *
6303316 AATTTACTGAT
1 AAATTATTGAT
** *
6303327 AAATCGTTCAT
1 AAATTATTGAT
* *
6303338 AACTTAATGAT
1 AAATTATTGAT
*
6303349 AAATTATTCAT
1 AAATTATTGAT
**
6303360 AAATTA-AAAGT
1 AAATTATTGA-T
*
6303371 AAATAATTGAT
1 AAATTATTGAT
* * *
6303382 AATTTAGTAAT
1 AAATTATTGAT
6303393 AAATTATTGAT
1 AAATTATTGAT
6303404 AA
1 AA
6303406 CTTAGTAGTA
Statistics
Matches: 60, Mismatches: 28, Indels: 4
0.65 0.30 0.04
Matches are distributed among these distances:
10 1 0.02
11 58 0.97
12 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (11 bp):
AAATTATTGAT
Found at i:6303411 original size:22 final size:22
Alignment explanation
Indices: 6303336--6303418 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
6303326 TAAATCGTTC
* * *
6303336 ATAACTTAATGATAAATTATTC
1 ATAACTTAGTAATAAATTATTG
* * *
6303358 ATAAATTA-AAAGTAAATAATTG
1 ATAACTTAGTAA-TAAATTATTG
*
6303380 ATAATTTAGTAATAAATTATTG
1 ATAACTTAGTAATAAATTATTG
*
6303402 ATAACTTAGTAGTAAAT
1 ATAACTTAGTAATAAAT
6303419 AACTAATAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
21 1 0.02
22 46 0.94
23 2 0.04
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (22 bp):
ATAACTTAGTAATAAATTATTG
Found at i:6303427 original size:22 final size:22
Alignment explanation
Indices: 6303368--6303420 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
6303358 ATAAATTAAA
*
6303368 AGTAAATAATTGATAATTTAGT
1 AGTAAATAATTGATAACTTAGT
* *
6303390 AATAAATTATTGATAACTTAGT
1 AGTAAATAATTGATAACTTAGT
6303412 AGTAAATAA
1 AGTAAATAA
6303421 CTAATAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (22 bp):
AGTAAATAATTGATAACTTAGT
Found at i:6303792 original size:22 final size:22
Alignment explanation
Indices: 6303721--6303808 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
6303711 ATAAAAAACA
* * * *
6303721 AGTGACAACTTAGTAGTTAATA
1 AGTGATAACTTAATAGTAAATT
* * * *
6303743 ATTGATTACTTAATAATAAATC
1 AGTGATAACTTAATAGTAAATT
*
6303765 AATGATAACTTAATAGTAAATT
1 AGTGATAACTTAATAGTAAATT
*
6303787 AGTGATAATTTAATAGTAAATT
1 AGTGATAACTTAATAGTAAATT
6303809 CGTTTCAAAT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (22 bp):
AGTGATAACTTAATAGTAAATT
Found at i:6303800 original size:44 final size:45
Alignment explanation
Indices: 6303708--6303807 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 45
6303698 CAACGATACG
* * * * *
6303708 TTAATAA-AAAACAAGTGACAACTTAGTAGTTAATAATTGATTAC
1 TTAATAATAAATCAAGTGACAACTTAATAGTAAATAAGTGATAAC
* * *
6303752 TTAATAATAAATCAA-TGATAACTTAATAGTAAATTAGTGATAAT
1 TTAATAATAAATCAAGTGACAACTTAATAGTAAATAAGTGATAAC
*
6303796 TTAATAGTAAAT
1 TTAATAATAAAT
6303808 TCGTTTCAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
44 40 0.87
45 6 0.13
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (45 bp):
TTAATAATAAATCAAGTGACAACTTAATAGTAAATAAGTGATAAC
Found at i:6304126 original size:22 final size:23
Alignment explanation
Indices: 6304055--6304127 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 23
6304045 TGATACTTTT
* * *
6304055 TAGTAAAT-AATAAAAAATTAAA
1 TAGTAAATCAATGATAATTTAAA
* *
6304077 TAGTAAATCAATGATAGTAT-AA
1 TAGTAAATCAATGATAATTTAAA
*
6304099 TAGTAAATTAATGATAATTTAAA
1 TAGTAAATCAATGATAATTTAAA
6304122 T-GTAAA
1 TAGTAAA
6304128 ATTTTTATAG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 32 0.78
23 9 0.22
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.33
Consensus pattern (23 bp):
TAGTAAATCAATGATAATTTAAA
Found at i:6304164 original size:22 final size:21
Alignment explanation
Indices: 6304139--6304194 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
6304129 TTTTTATAGC
*
6304139 TTAGTAGTAAATCACTAATAAT
1 TTAGTAGTAAAT-AATAATAAT
* *
6304161 TTAGTTGTAAAGTAATGATAAT
1 TTAGTAGTAAA-TAATAATAAT
6304183 TTAGTAGTAAAT
1 TTAGTAGTAAAT
6304195 TAGTTAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.03
22 27 0.93
23 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (21 bp):
TTAGTAGTAAATAATAATAAT
Found at i:6304338 original size:22 final size:22
Alignment explanation
Indices: 6304276--6304423 Score: 111
Period size: 22 Copynumber: 6.7 Consensus size: 22
6304266 AATTATCAGC
* **
6304276 AACTTAGGAGTAAATCATCAAT
1 AACTTAGTAGTAAATCATTTAT
* *
6304298 AATTTAATAGTAAATCATTTAT
1 AACTTAGTAGTAAATCATTTAT
6304320 AACTTAGTAGTAAATCATTTAT
1 AACTTAGTAGTAAATCATTTAT
** * *
6304342 AAAGTAGTAGTAAATTAATGT-T
1 AACTTAGTAGTAAA-TCATTTAT
* * *
6304364 AATTTAGTAATAAAATCATTGAT
1 AACTTAGTAGT-AAATCATTTAT
* * * *
6304387 AATTTAG-AGTATATTATTAAT
1 AACTTAGTAGTAAATCATTTAT
*
6304408 AACTTAGTATTAAATC
1 AACTTAGTAGTAAATC
6304424 GTTGATAATA
Statistics
Matches: 97, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
21 14 0.14
22 68 0.70
23 15 0.15
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (22 bp):
AACTTAGTAGTAAATCATTTAT
Found at i:6304353 original size:44 final size:44
Alignment explanation
Indices: 6304276--6304432 Score: 129
Period size: 44 Copynumber: 3.6 Consensus size: 44
6304266 AATTATCAGC
* * * *
6304276 AACTTAGGAGTAAATCATCAATAATTTAATAGTAAATCATTTAT
1 AACTTAGTAGTAAATCATTAATAATTTAGTAGTAAATAATTTAT
* ** *
6304320 AACTTAGTAGTAAATCATTTATAAAGTAGTAGTAAATTAATGT-T
1 AACTTAGTAGTAAATCATTAATAATTTAGTAGTAAA-TAATTTAT
* * * * * *
6304364 AATTTAGTAATAAAATCATTGATAATTTAG-AGTATATTATTAAT
1 AACTTAGTAGT-AAATCATTAATAATTTAGTAGTAAATAATTTAT
* * *
6304408 AACTTAGTATTAAATCGTTGATAAT
1 AACTTAGTAGTAAATCATTAATAAT
6304433 ATAATAATAA
Statistics
Matches: 90, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
43 16 0.18
44 55 0.61
45 19 0.21
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (44 bp):
AACTTAGTAGTAAATCATTAATAATTTAGTAGTAAATAATTTAT
Found at i:6304791 original size:22 final size:21
Alignment explanation
Indices: 6304766--6304824 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
6304756 TAGAAAGTTA
6304766 ATTACAAAAATTATATAAAGAG
1 ATTACAAAAATTATATAAA-AG
* * * *
6304788 ATTACTAAAATTTTATCAATG
1 ATTACAAAAATTATATAAAAG
*
6304809 ATTACCAAAATTATAT
1 ATTACAAAAATTATAT
6304825 GATAAGTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (21 bp):
ATTACAAAAATTATATAAAAG
Found at i:6304834 original size:21 final size:20
Alignment explanation
Indices: 6304767--6304896 Score: 98
Period size: 21 Copynumber: 6.2 Consensus size: 20
6304757 AGAAAGTTAA
* *
6304767 TTACAAAAATTATATAAAGAG
1 TTACCAAAATTATATCAA-AG
* * *
6304788 ATTACTAAAATTTTATCAATG
1 -TTACCAAAATTATATCAAAG
*
6304809 ATTACCAAAATTATATGATAAG
1 -TTACCAAAATTATATCA-AAG
* * *
6304831 TTACCAAACTAATATTAAACG
1 TTACCAAAATTATATCAAA-G
*
6304852 TTACCAAAATTATATCCAATG
1 TTACCAAAATTATAT-CAAAG
*
6304873 TTACCAAAATTTTATCAATAG
1 TTACCAAAATTATATCAA-AG
6304894 TTA
1 TTA
6304897 TTAAAATTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
20 5 0.06
21 63 0.72
22 19 0.22
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (20 bp):
TTACCAAAATTATATCAAAG
Found at i:6305223 original size:22 final size:22
Alignment explanation
Indices: 6305128--6305219 Score: 114
Period size: 22 Copynumber: 4.2 Consensus size: 22
6305118 CGTTAATAAA
6305128 AAATAAGTGATAACTTAATAGT
1 AAATAAGTGATAACTTAATAGT
* * * *
6305150 TAATAATTGATTACTTAATAAT
1 AAATAAGTGATAACTTAATAGT
6305172 AAATCAA-TGATAACTTAATAGT
1 AAAT-AAGTGATAACTTAATAGT
* *
6305194 AAATTAGTGATAATTTAATAGT
1 AAATAAGTGATAACTTAATAGT
6305216 AAAT
1 AAAT
6305220 TAGTTTCATT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 1 0.02
22 56 0.95
23 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (22 bp):
AAATAAGTGATAACTTAATAGT
Found at i:6305405 original size:22 final size:21
Alignment explanation
Indices: 6305380--6305609 Score: 81
Period size: 22 Copynumber: 10.6 Consensus size: 21
6305370 TAAATAACTC
6305380 AATAGTAAATTATGAATAATTT
1 AATAGTAAATTATG-ATAATTT
* *
6305402 AATA-TAAATTTGTGATAACTT
1 AATAGTAAA-TTATGATAATTT
* * *
6305423 GATAATGAATCT-TGATTAATTT
1 AATAGTAAAT-TATGA-TAATTT
* * * *
6305445 ATTAATAAATCCATGATACTTT
1 AATAGTAAAT-TATGATAATTT
* * * * * *
6305467 -TTAGTAAATAATAAAAAACTA
1 AATAGTAAATTAT-GATAATTT
* * *
6305488 AATAGTAAATCAATGATAGTAT
1 AATAGTAAAT-TATGATAATTT
6305510 AATAGTAAATTAATGATAATTT
1 AATAGTAAATT-ATGATAATTT
* * *
6305532 AA-ATGTAAATTTTTTATAGTTT
1 AATA-GTAAA-TTATGATAATTT
* *
6305554 AGTAGTAAATTATTAATAATTT
1 AATAGTAAATTA-TGATAATTT
* *
6305576 AGTTGTAAATTAATGATAATTT
1 AATAGTAAATT-ATGATAATTT
* *
6305598 AGTAATAAATTA
1 AATAGTAAATTA
6305610 ATTAATCATT
Statistics
Matches: 156, Mismatches: 38, Indels: 29
0.70 0.17 0.13
Matches are distributed among these distances:
20 2 0.01
21 32 0.21
22 112 0.72
23 10 0.06
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (21 bp):
AATAGTAAATTATGATAATTT
Found at i:6305540 original size:44 final size:44
Alignment explanation
Indices: 6305468--6305611 Score: 137
Period size: 44 Copynumber: 3.3 Consensus size: 44
6305458 TGATACTTTT
* ** * * *
6305468 TAGTAAA-TAATAAAAAACTAAATAGTAAATCAATGATAGTATAA
1 TAGTAAATTAATAATAATTTAAAT-GTAAATTAATGATAGTTTAG
* ** *
6305512 TAGTAAATTAATGATAATTTAAATGTAAATTTTTTATAGTTTAG
1 TAGTAAATTAATAATAATTTAAATGTAAATTAATGATAGTTTAG
* ** *
6305556 TAGTAAATTATTAATAATTTAGTTGTAAATTAATGATAATTTAG
1 TAGTAAATTAATAATAATTTAAATGTAAATTAATGATAGTTTAG
*
6305600 TAATAAATTAAT
1 TAGTAAATTAAT
6305612 TAATCATTGA
Statistics
Matches: 79, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
44 67 0.85
45 12 0.15
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (44 bp):
TAGTAAATTAATAATAATTTAAATGTAAATTAATGATAGTTTAG
Found at i:6305638 original size:52 final size:52
Alignment explanation
Indices: 6305581--6305680 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
6305571 AATTTAGTTG
* * **
6305581 TAAATTAATGATAATTTAGTAATAAATTAATTAATCATTGATAACTTTGTAA
1 TAAATTAACGATAAATTAACAATAAATTAATTAATCATTGATAACTTTGTAA
* * *
6305633 TAAATTACCGATAAATTAACAGTAAATTAGTTAATCATTGATAACTTT
1 TAAATTAACGATAAATTAACAATAAATTAATTAATCATTGATAACTTT
6305681 ATTACTAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (52 bp):
TAAATTAACGATAAATTAACAATAAATTAATTAATCATTGATAACTTTGTAA
Found at i:6305999 original size:21 final size:21
Alignment explanation
Indices: 6305975--6306049 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
6305965 ATTATAAATG
*
6305975 GTTACCAAAATTATATGATAA-
1 GTTACCAAAATTATATTA-AAC
* *
6305996 GTTACCAAACTAATATTAAAC
1 GTTACCAAAATTATATTAAAC
*
6306017 GTTACCAAAATTATATTAAAT
1 GTTACCAAAATTATATTAAAC
*
6306038 GTTATCAAAATT
1 GTTACCAAAATT
6306050 TTATCAATAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
20 2 0.04
21 44 0.96
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.35
Consensus pattern (21 bp):
GTTACCAAAATTATATTAAAC
Found at i:6316512 original size:10 final size:10
Alignment explanation
Indices: 6316494--6316568 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
6316484 GTATTAATAG
*
6316494 AAAATTTTAA
1 AAAAATTTAA
6316504 AAAAATTTAA
1 AAAAATTTAA
** *
6316514 AAATTTTCTTA
1 AAAAATT-TAA
*
6316525 AAAAATCTAA
1 AAAAATTTAA
* * *
6316535 AATATTTTTA
1 AAAAATTTAA
6316545 AAAAATTATAA
1 AAAAATT-TAA
*
6316556 AAAAAATTAA
1 AAAAATTTAA
6316566 AAA
1 AAA
6316569 TTATGAAATA
Statistics
Matches: 47, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
10 33 0.70
11 14 0.30
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:6316529 original size:21 final size:21
Alignment explanation
Indices: 6316497--6316558 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
6316487 TTAATAGAAA
*
6316497 ATTTTAAAAAAATTTAAAAAT
1 ATTTTTAAAAAATTTAAAAAT
*
6316518 -TTTCTTAAAAAATCT-AAAAT
1 ATTT-TTAAAAAATTTAAAAAT
6316538 ATTTTTAAAAAATTATAAAAA
1 ATTTTTAAAAAATT-TAAAAA
6316559 AAATTAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 17 0.50
21 13 0.38
22 4 0.12
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTTTAAAAAATTTAAAAAT
Found at i:6316621 original size:10 final size:9
Alignment explanation
Indices: 6316503--6316663 Score: 56
Period size: 9 Copynumber: 16.7 Consensus size: 9
6316493 GAAAATTTTA
6316503 AAAAAATTT
1 AAAAAATTT
*
6316512 AAAAATTTTCTT
1 AAAAA--AT-TT
*
6316524 AAAAAATCT
1 AAAAAATTT
*
6316533 AAAATATTTTT
1 AAAA-A-ATTT
6316544 AAAAAATTAT
1 AAAAAATT-T
*
6316554 AAAAAAAATT
1 -AAAAAATTT
6316564 -AAAAATTAT
1 AAAAAATT-T
* *
6316573 GAAATATTTT
1 -AAAAAATTT
* *
6316583 TAGAAA-TT
1 AAAAAATTT
* *
6316591 ATAAAACTT
1 AAAAAATTT
*
6316600 AATAAATTT
1 AAAAAATTT
6316609 AAAAAATTCT
1 AAAAAATT-T
6316619 AAAAAATTAAAT
1 AAAAAATT---T
**
6316631 AAAAAATAA
1 AAAAAATTT
6316640 AAAAAATTT
1 AAAAAATTT
* *
6316649 AACAAATTC
1 AAAAAATTT
6316658 AAAAAA
1 AAAAAA
6316664 AATGAAAATT
Statistics
Matches: 109, Mismatches: 29, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
8 11 0.10
9 49 0.45
10 15 0.14
11 19 0.17
12 15 0.14
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAAATTT
Found at i:6316656 original size:30 final size:30
Alignment explanation
Indices: 6316609--6316692 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 30
6316599 TAATAAATTT
6316609 AAAAAATTCTAAAAAATTAAATAAAAAATAA
1 AAAAAATTCTAAAAAATTAAA-AAAAAATAA
* *
6316640 AAAAAATT-TAACAAATTCAAAAAAAAT--
1 AAAAAATTCTAAAAAATTAAAAAAAAATAA
* * *
6316667 GAAAATTTCT-TAAAATTAAAAAAAAA
1 AAAAAATTCTAAAAAATTAAAAAAAAA
6316693 GATTCTCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 19 0.42
28 1 0.02
29 7 0.16
30 10 0.22
31 8 0.18
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.24
Consensus pattern (30 bp):
AAAAAATTCTAAAAAATTAAAAAAAAATAA
Found at i:6317122 original size:20 final size:20
Alignment explanation
Indices: 6317064--6317139 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 20
6317054 AAAATTTTAA
*
6317064 TTTTTTTGAATTTTTTGGGAT
1 TTTTTTTGAA-TTTTTGAGAT
*
6317085 TTTTTTT-AA-ATTTGAGAT
1 TTTTTTTGAATTTTTGAGAT
*
6317103 TTTTTTTGAATTTTTAAGAT
1 TTTTTTTGAATTTTTGAGAT
*
6317123 TTCATTTTCGAATTTTT
1 TT--TTTTTGAATTTTT
6317140 TTAAAATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 14 0.30
19 2 0.04
20 11 0.24
21 7 0.15
22 12 0.26
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.64
Consensus pattern (20 bp):
TTTTTTTGAATTTTTGAGAT
Found at i:6317154 original size:25 final size:24
Alignment explanation
Indices: 6317113--6317165 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
6317103 TTTTTTTGAA
* *
6317113 TTTTTAAGATTTCATTTTCGAATT
1 TTTTTAAAATTTAATTTTCGAATT
**
6317137 TTTTTAAAATTTTAATTTTTTAATT
1 TTTTTAAAA-TTTAATTTTCGAATT
6317162 TTTT
1 TTTT
6317166 ACTTTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTTTAAAATTTAATTTTCGAATT
Found at i:6320426 original size:26 final size:27
Alignment explanation
Indices: 6320373--6320428 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
6320363 AGATTTTTTA
* *
6320373 TTATTTTATTTAAAAAAATTAATGCTT
1 TTATTTTATTTAAAAAAATGAATACTT
* *
6320400 TTATTTT-TTTTAAAAAATGGATACTT
1 TTATTTTATTTAAAAAAATGAATACTT
6320426 TTA
1 TTA
6320429 ACTTTTTTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (27 bp):
TTATTTTATTTAAAAAAATGAATACTT
Found at i:6320650 original size:14 final size:13
Alignment explanation
Indices: 6320633--6320662 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
6320623 TCCTTAAACG
6320633 TTTTTTAAATATTT
1 TTTTTTAAA-ATTT
6320647 TTTTTTAAAATTT
1 TTTTTTAAAATTT
6320660 TTT
1 TTT
6320663 ATTTTTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTTAAAATTT
Found at i:6320651 original size:15 final size:16
Alignment explanation
Indices: 6320633--6320671 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
6320623 TCCTTAAACG
6320633 TTTTTTAAATATTTT-
1 TTTTTTAAATATTTTA
* *
6320648 TTTTTAAAATTTTTTA
1 TTTTTTAAATATTTTA
6320664 TTTTTTAA
1 TTTTTTAA
6320672 GGAAATTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTAAATATTTTA
Found at i:6320718 original size:45 final size:46
Alignment explanation
Indices: 6320645--6320747 Score: 129
Period size: 45 Copynumber: 2.2 Consensus size: 46
6320635 TTTTAAATAT
* * * *
6320645 TTTTTTTTAAAATTTTTTATTTTTTAAGG-AAATTTGATACTTTCAAC
1 TTTTCTTT-AAATTTTTTATTATTTAAGGAAAATTAG-TACTTTCAAA
6320692 TTTTCTTTAAATTTTTT-TTATTTAAGGAAAATTAGTACTTTCAAA
1 TTTTCTTTAAATTTTTTATTATTTAAGGAAAATTAGTACTTTCAAA
*
6320737 TTTTCCTTAAA
1 TTTTCTTTAAA
6320748 AATGTTTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 28 0.56
46 15 0.30
47 7 0.14
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (46 bp):
TTTTCTTTAAATTTTTTATTATTTAAGGAAAATTAGTACTTTCAAA
Found at i:6321004 original size:27 final size:26
Alignment explanation
Indices: 6320973--6321048 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 26
6320963 TTATTTTCAA
6320973 AAAAAATTAAAACTTTTAACTTTTTCC
1 AAAAAATTAAAACTTTTAA-TTTTTCC
* * *
6321000 AAAAAAATAAAAATTTT-ATTTTT-A
1 AAAAAATTAAAACTTTTAATTTTTCC
* *
6321024 AGAAAAATTGATACTTTTAATTTTT
1 A-AAAAATTAAAACTTTTAATTTTT
6321049 TTCTCAAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 7 0.17
27 15 0.38
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (26 bp):
AAAAAATTAAAACTTTTAATTTTTCC
Found at i:6321029 original size:26 final size:25
Alignment explanation
Indices: 6320956--6321030 Score: 69
Period size: 27 Copynumber: 2.9 Consensus size: 25
6320946 ATATTTTTTG
* * *
6320956 AAAATTTTTATTTTCAAAAAAAATT
1 AAAAATTTTATTTTTAAAAAAAAAT
* **
6320981 AAAACTTTTAACTTTTTCCAAAAAAAT
1 AAAAATTTT-A-TTTTTAAAAAAAAAT
*
6321008 AAAAATTTTATTTTTAAGAAAAA
1 AAAAATTTTATTTTTAAAAAAAA
6321031 TTGATACTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 18 0.46
26 2 0.05
27 19 0.49
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.40
Consensus pattern (25 bp):
AAAAATTTTATTTTTAAAAAAAAAT
Found at i:6321030 original size:52 final size:54
Alignment explanation
Indices: 6320956--6321060 Score: 142
Period size: 52 Copynumber: 2.0 Consensus size: 54
6320946 ATATTTTTTG
*
6320956 AAAATTTTTATTTTCAAAAAAAATTAAAACTTTTAA-CTTTTTC-CAAAAAAAT
1 AAAAATTTTATTTTCAAAAAAAATTAAAACTTTTAATCTTTTTCTCAAAAAAAT
* * * * *
6321008 AAAAATTTTATTTTTAAGAAAAATTGATACTTTTAATTTTTTTCTCAAAAAAA
1 AAAAATTTTATTTTCAAAAAAAATTAAAACTTTTAATCTTTTTCTCAAAAAAA
6321061 ATATTTTGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 31 0.69
53 6 0.13
54 8 0.18
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (54 bp):
AAAAATTTTATTTTCAAAAAAAATTAAAACTTTTAATCTTTTTCTCAAAAAAAT
Found at i:6321169 original size:73 final size:71
Alignment explanation
Indices: 6321090--6321237 Score: 212
Period size: 73 Copynumber: 2.1 Consensus size: 71
6321080 CTTCAAGAAA
*
6321090 AATTGATACTTTCAAC-TTTTCTTTAAAATATATTATTTTAAAATTTTTTA-TTTTTAAAGAAAA
1 AATTGATACTTTCAACTTTTTCTTAAAAATATATT-TTTTAAAA--TTTTACTTTTT--AGAAAA
*
6321153 TTG-ATACTTT
61 ATGAATACTTT
6321163 AATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTAAAATTTTACTTTTTAGAAAAATGAA
1 AATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTAAAATTTTACTTTTTAGAAAAATGAA
6321228 TACTTT
66 TACTTT
6321234 AATT
1 AATT
6321238 TCCCTAAAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 8
0.88 0.03 0.10
Matches are distributed among these distances:
70 8 0.11
71 16 0.23
72 5 0.07
73 24 0.34
74 17 0.24
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (71 bp):
AATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTAAAATTTTACTTTTTAGAAAAATGAA
TACTTT
Found at i:6321254 original size:71 final size:71
Alignment explanation
Indices: 6321106--6321254 Score: 153
Period size: 71 Copynumber: 2.1 Consensus size: 71
6321096 TACTTTCAAC
* *
6321106 TTTTCTTTAAAATATATTATTTTAAAATTTTTTATTTTTAAAGAAAATTGATACTTTAATTGATA
1 TTTTCTTAAAAATATATTATTTTAAAA-TTTTTATTTTT-AAGAAAAATGATACTTTAATT-ATA
***
6321171 CTTTCAACT
63 CTAAAAACT
*
6321180 TTTTCTTAAAAATATATT-TTTTAAAA-TTTTACTTTTT-AGAAAAATGAATACTTTAATT-TCC
1 TTTTCTTAAAAATATATTATTTTAAAATTTTTA-TTTTTAAGAAAAATG-ATACTTTAATTAT-A
6321241 CTAAAAACAT
63 CTAAAAAC-T
6321251 TTTT
1 TTTT
6321255 TTGAATTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
69 1 0.02
70 13 0.20
71 21 0.32
72 5 0.08
73 8 0.12
74 17 0.26
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (71 bp):
TTTTCTTAAAAATATATTATTTTAAAATTTTTATTTTTAAGAAAAATGATACTTTAATTATACTA
AAAACT
Found at i:6328900 original size:10 final size:10
Alignment explanation
Indices: 6328867--6328910 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
6328857 TATTTTATTT
6328867 TATAAAAA-A
1 TATAAAAATA
*
6328876 TTTAAAAATA
1 TATAAAAATA
6328886 TATAAAAACTA
1 TATAAAAA-TA
6328897 -ATAAAAATA
1 TATAAAAATA
6328906 TATAA
1 TATAA
6328911 TTTGGTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.30
10 19 0.63
11 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
TATAAAAATA
Found at i:6329996 original size:2 final size:2
Alignment explanation
Indices: 6329989--6330019 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6329979 CCTTAGAAAC
6329989 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6330020 GACGAGCGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6330393 original size:22 final size:23
Alignment explanation
Indices: 6330344--6330398 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
6330334 TTTTTATGAG
* * *
6330344 ATAATATTATTATATGATTTATTG
1 ATAATA-TATGATATGATATATTA
6330368 ATAATATATGATAT-ATATATTA
1 ATAATATATGATATGATATATTA
6330390 ATAATATAT
1 ATAATATAT
6330399 CAAATATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 15 0.54
23 7 0.25
24 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
ATAATATATGATATGATATATTA
Found at i:6330405 original size:22 final size:22
Alignment explanation
Indices: 6330363--6330406 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6330353 TTATATGATT
* * *
6330363 TATTGATAATATATGATATATA
1 TATTAATAATATATCAAATATA
6330385 TATTAATAATATATCAAATATA
1 TATTAATAATATATCAAATATA
6330407 AATTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (22 bp):
TATTAATAATATATCAAATATA
Found at i:6332961 original size:26 final size:26
Alignment explanation
Indices: 6332905--6332993 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 26
6332895 TTTTAATCTA
*
6332905 ATTTTTATATAAAA-AT-ATATTTT-T
1 ATTTTTATA-AAAATTTAATATTTTAT
**
6332929 A-TTTTATAAAAATTTTTTATTTTAT
1 ATTTTTATAAAAATTTAATATTTTAT
** *
6332954 ATTTTTATAAGTATTTAATATTATAT
1 ATTTTTATAAAAATTTAATATTTTAT
*
6332980 ATTTTAATAAAAAT
1 ATTTTTATAAAAAT
6332994 CATTTTTAGT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
22 4 0.08
23 8 0.16
24 7 0.14
25 2 0.04
26 30 0.59
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (26 bp):
ATTTTTATAAAAATTTAATATTTTAT
Found at i:6338472 original size:187 final size:188
Alignment explanation
Indices: 6338264--6338639 Score: 632
Period size: 187 Copynumber: 2.0 Consensus size: 188
6338254 TAATAGGATA
6338264 TGTAAGTTCAATTTCGTGGATTTAAAATAATATTCTTTAATTTTG-GAGGATTAAATCATCTTAT
1 TGTAAGTTCAATTTCGTGGATTTAAAATAATATTCTTTAA-TTTGAGAGGATTAAATCATCTTAT
* *
6338328 ATCAAGACGATGATTAATTTTTCTTTAGATATAAATTAAACATAATAGATAATGATTATCATCTT
65 ATCAAGACGATGATTAATTTTTCTTTAGATATAAATCAAACATAATAGACAATGATTATCATCTT
6338393 ATGCATCAAACATCACCC-AAGTAGAATTGGAATTCAAAACCC-GTGATAGCTTCTCATG
130 ATGCATCAAACATCACCCTAAGTAGAATTGGAATTC-AAACCCTGTGATAGCTTCTCATG
* * * *
6338451 TGTAAGTTCAATTTTGTGGATTTAAAATAATTTTCTTTAATTTGAGATGATTAAATCTTCTTATA
1 TGTAAGTTCAATTTCGTGGATTTAAAATAATATTCTTTAATTTGAGAGGATTAAATCATCTTATA
* *
6338516 TCAAGACGATGATTAATTTTTCTTTAGATATAAATCAAATATAATATACAATGATTATCATCTTA
66 TCAAGACGATGATTAATTTTTCTTTAGATATAAATCAAACATAATAGACAATGATTATCATCTTA
*
6338581 TGCATCAAACATCACCCTAAGTATAATTGGAATTCAAACCCTGTGATAGCTTCTCATG
131 TGCATCAAACATCACCCTAAGTAGAATTGGAATTCAAACCCTGTGATAGCTTCTCATG
6338639 T
1 T
6338640 ATTCTTCACA
Statistics
Matches: 177, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
186 4 0.02
187 140 0.79
188 33 0.19
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (188 bp):
TGTAAGTTCAATTTCGTGGATTTAAAATAATATTCTTTAATTTGAGAGGATTAAATCATCTTATA
TCAAGACGATGATTAATTTTTCTTTAGATATAAATCAAACATAATAGACAATGATTATCATCTTA
TGCATCAAACATCACCCTAAGTAGAATTGGAATTCAAACCCTGTGATAGCTTCTCATG
Found at i:6339364 original size:2 final size:2
Alignment explanation
Indices: 6339357--6339388 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6339347 AATACCATCC
6339357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6339389 GATCTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6343348 original size:42 final size:42
Alignment explanation
Indices: 6343301--6343395 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 42
6343291 AAATTAATTT
* * *
6343301 TTATTTAAAAATCTTAA-GATTTTTCAATATGTTGGTAAAATC
1 TTATTTAAAAAT-TAAACGACTTTCCAATATGTTGGTAAAATC
* * *
6343343 TTATTTTAAAAATTAAACTACTTTCCAATATGTTGGTAAGATT
1 TTA-TTTAAAAATTAAACGACTTTCCAATATGTTGGTAAAATC
6343386 TTA-TTAAAAA
1 TTATTTAAAAA
6343396 CTATTTTTTC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 7 0.16
42 6 0.13
43 32 0.71
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (42 bp):
TTATTTAAAAATTAAACGACTTTCCAATATGTTGGTAAAATC
Found at i:6343468 original size:122 final size:119
Alignment explanation
Indices: 6343247--6343475 Score: 286
Period size: 120 Copynumber: 1.9 Consensus size: 119
6343237 AAAATTATCC
* * *
6343247 TCCAATATGTTGGTAGGATTTTATGAAAATTATTTCTTTTCTAAAAATTAATTTTTATTTAAAAA
1 TCCAATATGTTGGTAAGATTTTATAAAAACTATTTCTTTTCTAAAAATTAATTTTTATTTAAAAA
* * *
6343312 TCTTAAGATTTTTCAATATGTTGGTAAAATCTTATTTTAAAAATTAAACTACTT
66 TCTTAAGATTTCTCAATATGTTGCTAAAACCTTATTTTAAAAATTAAACTACTT
* *
6343366 TCCAATATGTTGGTAAGATTTTATTAAAAACTATTT-TTTCTCTTAAAATTTATTTTT-TTATAA
1 TCCAATATGTTGGTAAGATTTTA-TAAAAACTATTTCTTT-TCTAAAAATTAATTTTTATT-TAA
*
6343429 ACAAT-TAATAAG-GTTCTCTAATATGTTGCTAAAACCTTATTTTAAAA
63 A-AATCT--TAAGATTTCTC-AATATGTTGCTAAAACCTTATTTTAAAA
6343476 TAATTACCTT
Statistics
Matches: 94, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
119 27 0.29
120 30 0.32
121 7 0.07
122 30 0.32
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.47
Consensus pattern (119 bp):
TCCAATATGTTGGTAAGATTTTATAAAAACTATTTCTTTTCTAAAAATTAATTTTTATTTAAAAA
TCTTAAGATTTCTCAATATGTTGCTAAAACCTTATTTTAAAAATTAAACTACTT
Found at i:6343685 original size:4 final size:4
Alignment explanation
Indices: 6343676--6343745 Score: 70
Period size: 4 Copynumber: 17.2 Consensus size: 4
6343666 AAATATTTAC
** * * *
6343676 AAAT AAAT AAAT ACCT AAAT -AGT CAAAT AAAT AAAAT AAAC AAAT AAAC
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT
6343725 AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT A
6343746 GACAATTATG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
3 2 0.04
4 45 0.85
5 6 0.11
ACGTcount: A:0.70, C:0.07, G:0.01, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:6344923 original size:17 final size:18
Alignment explanation
Indices: 6344887--6344936 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
6344877 AAAGATTCAC
*
6344887 AAAAG-TTTAAGGTTCGT
1 AAAAGATTTAAGATTCGT
6344904 AAAAGATTTAAGATTC-T
1 AAAAGATTTAAGATTCGT
* *
6344921 AAAAAATTCAAGATTC
1 AAAAGATTTAAGATTC
6344937 ATTTAAGATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (18 bp):
AAAAGATTTAAGATTCGT
Found at i:6344925 original size:18 final size:18
Alignment explanation
Indices: 6344878--6344936 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
6344868 ATTGAATTCA
6344878 AAGATTC-ACAAAAG-TTT
1 AAGATTCTA-AAAAGATTT
*
6344895 AAGGTTCGT-AAAAGATTT
1 AAGATTC-TAAAAAGATTT
*
6344913 AAGATTCTAAAAA-ATTC
1 AAGATTCTAAAAAGATTT
6344930 AAGATTC
1 AAGATTC
6344937 ATTTAAGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 22 0.63
18 13 0.37
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.31
Consensus pattern (18 bp):
AAGATTCTAAAAAGATTT
Found at i:6345062 original size:18 final size:19
Alignment explanation
Indices: 6344984--6345126 Score: 89
Period size: 18 Copynumber: 7.6 Consensus size: 19
6344974 TCAAAAATTC
*
6344984 AAAGATTCGTAAGAGATTT
1 AAAGATTCATAAGAGATTT
* *
6345003 CAAAAATTCGTAAGAGA-TT
1 -AAAGATTCATAAGAGATTT
* * **
6345022 CAAGATCTGCA-AAAATTTTT
1 AAAGAT-T-CATAAGAGATTT
6345042 AAA-ATTCATAAGAGATTT
1 AAAGATTCATAAGAGATTT
** *
6345060 AAAGATTTGTAAGTGATTT
1 AAAGATTCATAAGAGATTT
*
6345079 AAAGATTCATAA-AGATTC
1 AAAGATTCATAAGAGATTT
***
6345097 AAAGATTTGCAA-AGATTT
1 AAAGATTCATAAGAGATTT
*
6345115 CAAGATTCATAA
1 AAAGATTCATAA
6345127 AATTTTCAAA
Statistics
Matches: 92, Mismatches: 26, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
17 2 0.02
18 40 0.43
19 30 0.33
20 20 0.22
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (19 bp):
AAAGATTCATAAGAGATTT
Found at i:6345109 original size:10 final size:9
Alignment explanation
Indices: 6345089--6345178 Score: 62
Period size: 10 Copynumber: 9.9 Consensus size: 9
6345079 AAAGATTCAT
6345089 AAAGA-TTC
1 AAAGATTTC
6345097 AAAGATTTGC
1 AAAGATTT-C
6345107 AAAGATTTC
1 AAAGATTTC
6345116 -AAGA-TTC
1 AAAGATTTC
*
6345123 ATAAAATTTTC
1 A-AAGA-TTTC
6345134 AAAGATTTAC
1 AAAGATTT-C
* *
6345144 AAAAAATTC
1 AAAGATTTC
*
6345153 -AAGATTCGC
1 AAAGATT-TC
*
6345162 AAGGATTTC
1 AAAGATTTC
6345171 AAAGATTT
1 AAAGATTT
6345179 GTTAGAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
7 3 0.05
8 13 0.21
9 19 0.30
10 24 0.38
11 4 0.06
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (9 bp):
AAAGATTTC
Found at i:6345133 original size:18 final size:18
Alignment explanation
Indices: 6345075--6345248 Score: 61
Period size: 18 Copynumber: 9.5 Consensus size: 18
6345065 TTTGTAAGTG
* * *
6345075 ATTTAAAGATTCATAAAG
1 ATTTCAAGATTCACAAAA
** *
6345093 A-TTCAAAGATTTGCAAAG
1 ATTTC-AAGATTCACAAAA
*
6345111 ATTTCAAGATTCATAAAA
1 ATTTCAAGATTCACAAAA
* *
6345129 TTTTCAAAGATTTACAAAA
1 ATTTC-AAGATTCACAAAA
* * **
6345148 AATTCAAGATTCGCAAGG
1 ATTTCAAGATTCACAAAA
***
6345166 ATTTCAAAGATTTGTTAGAAA
1 ATTTC-AAGA-TTCACA-AAA
6345187 A--TCAAGATTCACAAAA
1 ATTTCAAGATTCACAAAA
*
6345203 ATTATCAA-ATTCATAAGAA
1 ATT-TCAAGATTCACAA-AA
* **
6345222 TTTTCAA-ATTCGTAAAA
1 ATTTCAAGATTCACAAAA
6345239 ATTTGCAAGA
1 ATTT-CAAGA
6345249 CTTTCAAGAT
Statistics
Matches: 114, Mismatches: 30, Indels: 23
0.68 0.18 0.14
Matches are distributed among these distances:
16 4 0.04
17 10 0.09
18 63 0.55
19 32 0.28
20 3 0.03
21 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
ATTTCAAGATTCACAAAA
Found at i:6345135 original size:37 final size:36
Alignment explanation
Indices: 6344973--6345179 Score: 143
Period size: 37 Copynumber: 5.6 Consensus size: 36
6344963 ACTTAAGATT
* * *
6344973 TTCA-AAA-ATTCAAAGATTCGTAAGAGATTTCAAAAA
1 TTCATAAAGATTCAAAGATTTGCAA-AGATTTC-AAGA
* * * * *
6345009 TTCGTAAGAGATTC-AAGATCTGCAAAAATTTTTAAAA
1 TTCATAA-AGATTCAAAGATTTGCAAAGA-TTTCAAGA
* * * *
6345046 TTCATAAGAGATTTAAAGATTTGTAAGTGATTTAAAGA
1 TTCATAA-AGATTCAAAGATTTGCAA-AGATTTCAAGA
6345084 TTCATAAAGATTCAAAGATTTGCAAAGATTTCAAGA
1 TTCATAAAGATTCAAAGATTTGCAAAGATTTCAAGA
* * *
6345120 TTCATAAA-ATTTTCAAAGATTTACAAAAAATTCAAGA
1 TTCATAAAGA--TTCAAAGATTTGCAAAGATTTCAAGA
** *
6345157 TTCGCAAGGATTTCAAAGATTTG
1 TTCATAAAGA-TTCAAAGATTTG
6345180 TTAGAAAATC
Statistics
Matches: 137, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
35 1 0.01
36 20 0.15
37 76 0.55
38 35 0.26
39 5 0.04
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (36 bp):
TTCATAAAGATTCAAAGATTTGCAAAGATTTCAAGA
Found at i:6345371 original size:42 final size:43
Alignment explanation
Indices: 6345319--6345409 Score: 114
Period size: 42 Copynumber: 2.1 Consensus size: 43
6345309 ATTTGCAAGT
* * *
6345319 GAAACTCTTAAAGATTCAAATCCAAGATT-AAGGTTCTCATTC
1 GAAAATCTTAAAAATTCAAATCCAAGATTAAAGGTTCGCATTC
* *
6345361 GAAAATCTTAAAAATTCACATCTAAGATTGAAAGGTTCGCATTC
1 GAAAATCTTAAAAATTCAAATCCAAGATT-AAAGGTTCGCATTC
6345405 -AAAAT
1 GAAAAT
6345410 TTTTTTGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 25 0.60
43 5 0.12
44 12 0.29
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (43 bp):
GAAAATCTTAAAAATTCAAATCCAAGATTAAAGGTTCGCATTC
Found at i:6347093 original size:19 final size:19
Alignment explanation
Indices: 6347069--6347105 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6347059 TTATTTCTCT
*
6347069 TTTTTTTTTCTTTTCATTA
1 TTTTTTTTTCATTTCATTA
6347088 TTTTTTTTTCATTTCATT
1 TTTTTTTTTCATTTCATT
6347106 CATTATTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTTTCATTTCATTA
Found at i:6350048 original size:29 final size:29
Alignment explanation
Indices: 6350006--6350069 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
6349996 TGAATGGATG
* *
6350006 AATAC-ATATGTTAGTGATGTTAGATTAA
1 AATACAATATATTAGTGATGCTAGATTAA
6350034 AATACAATATATTAGTGATGCTAGATTAA
1 AATACAATATATTAGTGATGCTAGATTAA
6350063 AATACAA
1 AATACAA
6350070 CATGCAACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.34
Consensus pattern (29 bp):
AATACAATATATTAGTGATGCTAGATTAA
Found at i:6352238 original size:10 final size:10
Alignment explanation
Indices: 6352223--6352266 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
6352213 GCCAAATCAG
*
6352223 TTTTTTTTTT
1 TTTTTTTTTC
6352233 TTTTTTTGTTC
1 TTTTTTT-TTC
*
6352244 TTTTTCTTTC
1 TTTTTTTTTC
*
6352254 TTTTTTTTCC
1 TTTTTTTTTC
6352264 TTT
1 TTT
6352267 CAAACACTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:6353152 original size:49 final size:49
Alignment explanation
Indices: 6352968--6353156 Score: 195
Period size: 50 Copynumber: 3.8 Consensus size: 49
6352958 TTGAAAATTT
* * * *
6352968 AAAAAGCTCCTCTAA-TAAGAAGTTCAACAATTTTAAAGATTCATCTTGAA
1 AAAAAGCTCCTCTAAGT-AGAGGCTCAACAACTTTAAAAATTCATCTTG-A
* * *
6353018 AAAAAGCTCATTTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGA
1 AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGA
* * * * *
6353067 AAAGAAGACT-TTTTAAGTAGAGGCTCAACAATTTTAAAAATTTATTTTGA
1 AAA-AAG-CTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGA
*
6353117 AAAACGCTCCTCTAAGTAGAGGCTTC-ACAACTTTAAAAAT
1 AAAAAGCTCCTCTAAGTAGAGGC-TCAACAACTTTAAAAAT
6353157 CTTATCTTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
48 2 0.02
49 31 0.26
50 83 0.70
51 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (49 bp):
AAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGA
Found at i:6358850 original size:20 final size:20
Alignment explanation
Indices: 6358827--6358864 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6358817 TTATTTTGAC
6358827 TTTTCTCTTCT-TTTTTTATT
1 TTTTCT-TTCTCTTTTTTATT
6358847 TTTTCTTTCTCTTTTTTA
1 TTTTCTTTCTCTTTTTTA
6358865 GCTTTCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTCTTTCTCTTTTTTATT
Found at i:6358854 original size:25 final size:23
Alignment explanation
Indices: 6358817--6358863 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
6358807 TACAACAAGA
6358817 TTATTTTGACTTTTCTCTTCTTTTT
1 TTATTTTGAC-TTTCTCTT-TTTTT
**
6358842 TTATTTTTTCTTTCTCTTTTTT
1 TTATTTTGACTTTCTCTTTTTT
6358864 AGCTTTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 8 0.40
25 8 0.40
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (23 bp):
TTATTTTGACTTTCTCTTTTTTT
Found at i:6360008 original size:10 final size:10
Alignment explanation
Indices: 6359993--6360018 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6359983 CTATTTAGGC
6359993 TTCATTTTCT
1 TTCATTTTCT
6360003 TTCATTTTCT
1 TTCATTTTCT
6360013 TTCATT
1 TTCATT
6360019 GTCAATGCAG
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:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (10 bp):
TTCATTTTCT
Found at i:6364139 original size:20 final size:20
Alignment explanation
Indices: 6364112--6364160 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
6364102 GCGTATGAAA
*
6364112 TTTTTTTTCATTT-TTTGG-
1 TTTTTTTTTATTTGTTTGGC
6364130 TTTGTTTTTTATTTGTTTGGC
1 TTT-TTTTTTATTTGTTTGGC
6364151 TTTTTTTTTA
1 TTTTTTTTTA
6364161 AGTAAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 9 0.33
20 12 0.44
21 3 0.11
ACGTcount: A:0.06, C:0.04, G:0.12, T:0.78
Consensus pattern (20 bp):
TTTTTTTTTATTTGTTTGGC
Found at i:6369074 original size:16 final size:16
Alignment explanation
Indices: 6369048--6369086 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
6369038 AGAAAACTTT
6369048 AATAGTTTTCGAAAATA
1 AATA-TTTTCGAAAATA
6369065 AATATTTTCGAAAATA
1 AATATTTTCGAAAATA
6369081 AATATT
1 AATATT
6369087 CAAAAGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (16 bp):
AATATTTTCGAAAATA
Found at i:6369078 original size:35 final size:36
Alignment explanation
Indices: 6368986--6369078 Score: 99
Period size: 34 Copynumber: 2.7 Consensus size: 36
6368976 CGATTCGAAA
*
6368986 TTTTCAAAAAT--ATATTTTC-ACAACTTTCAAAGC
1 TTTTCAAAAATAAATATTTTCGAAAACTTTCAAAGC
* *
6369019 TTTTCAAAAATAAAT-GTTTAGAAAACTTT-AATAG-
1 TTTTCAAAAATAAATATTTTCGAAAACTTTCAA-AGC
*
6369053 TTTTCGAAAATAAATATTTTCGAAAA
1 TTTTCAAAAATAAATATTTTCGAAAA
6369079 TAAATATTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
33 11 0.22
34 19 0.39
35 19 0.39
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (36 bp):
TTTTCAAAAATAAATATTTTCGAAAACTTTCAAAGC
Found at i:6370962 original size:21 final size:20
Alignment explanation
Indices: 6370937--6371002 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 20
6370927 TTTCAGTATA
6370937 AAATATAAATATTTTAATAAT
1 AAATAT-AATATTTTAATAAT
*
6370958 AAATATTATTATTTTATTATAAAT
1 AAATA-TAATATTTTA--AT-AAT
* *
6370982 AAAAATAATATTTTAAGAAT
1 AAATATAATATTTTAATAAT
6371002 A
1 A
6371003 GTACTACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
20 4 0.11
21 14 0.38
22 1 0.03
23 11 0.30
24 7 0.19
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AAATATAATATTTTAATAAT
Found at i:6370993 original size:23 final size:20
Alignment explanation
Indices: 6370934--6371002 Score: 57
Period size: 23 Copynumber: 3.1 Consensus size: 20
6370924 TACTTTCAGT
6370934 ATAAAATATAAATATTTTAATA
1 ATAAAA-AT-AATATTTTAATA
* *
6370956 ATAAATATTATTATTTTATTATAA
1 ATAAA-AATAATATTTTA--AT-A
*
6370980 ATAAAAATAATATTTTAAGA
1 ATAAAAATAATATTTTAATA
6371000 ATA
1 ATA
6371003 GTACTACTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.11
21 9 0.24
22 6 0.16
23 13 0.34
24 6 0.16
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (20 bp):
ATAAAAATAATATTTTAATA
Found at i:6371105 original size:33 final size:34
Alignment explanation
Indices: 6371068--6371208 Score: 94
Period size: 33 Copynumber: 4.4 Consensus size: 34
6371058 TTTTAAGTTT
6371068 TTTTATATTAATATAA-TATTTTAATATTAA-ATA
1 TTTTATATTAATATAATTATTTTAATATTAATA-A
*
6371101 TTTTAT-TAAAATATAATTATTCTTCAATATTAATAA
1 TTTTATAT-TAATATAATTATT-TT-AATATTAATAA
*
6371137 TTTTA-A-TAATA-AATTA-TTTAA-A-T-ATAC
1 TTTTATATTAATATAATTATTTTAATATTAATAA
* * *
6371164 TTTAATAATAA-ATAA-T-TTTTAATATT-TTAA
1 TTTTATATTAATATAATTATTTTAATATTAATAA
6371194 TATTTATATTAATAT
1 T-TTTATATTAATAT
6371209 TATTTGAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 29
0.70 0.07 0.24
Matches are distributed among these distances:
27 7 0.08
28 9 0.10
29 7 0.08
30 6 0.07
31 10 0.12
32 4 0.05
33 18 0.21
34 8 0.09
35 2 0.02
36 14 0.16
37 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (34 bp):
TTTTATATTAATATAATTATTTTAATATTAATAA
Found at i:6371160 original size:25 final size:26
Alignment explanation
Indices: 6371132--6371195 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
6371122 CTTCAATATT
*
6371132 AATAATTTTAATAATAAATTA-TTTA
1 AATAATTTTAATAATAAATAATTTTA
* *
6371157 AATATACTTTAATAATAAATAATTTTT
1 AATA-ATTTTAATAATAAATAATTTTA
6371184 AAT-ATTTTAATA
1 AATAATTTTAATA
6371196 TTTATATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.36
26 15 0.45
27 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATAATTTTAATAATAAATAATTTTA
Found at i:6377158 original size:2 final size:2
Alignment explanation
Indices: 6377151--6377193 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
6377141 ATAATGAATG
* *
6377151 TA TA TA TA TA TA TA TA CA TA TA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6377193 T
1 T
6377194 GCCTTGGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6377376 original size:2 final size:2
Alignment explanation
Indices: 6377369--6377405 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6377359 AATAATCGAC
6377369 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6377406 ATAGTCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:6381396 original size:3 final size:3
Alignment explanation
Indices: 6381383--6381418 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
6381373 AAATCGTTTT
*
6381383 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6381419 CAATTTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6382042 original size:3 final size:3
Alignment explanation
Indices: 6382034--6382058 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6382024 TTAACCTCTC
6382034 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
6382059 ACAGGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6388404 original size:23 final size:23
Alignment explanation
Indices: 6388370--6388429 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
6388360 AGATGACTGA
*
6388370 ATGAATCACTTGCAAATCATGTG
1 ATGAATCCCTTGCAAATCATGTG
6388393 ATGAATCCCTTGCAAATCATGTG
1 ATGAATCCCTTGCAAATCATGTG
6388416 ATGAATCCCTTGCA
1 ATGAATCCCTTGCA
6388430 TACTTTTGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (23 bp):
ATGAATCCCTTGCAAATCATGTG
Found at i:6389172 original size:2 final size:2
Alignment explanation
Indices: 6389165--6389212 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
6389155 CCTACTTATT
6389165 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6389207 TC TC TC
1 TC TC TC
6389213 CAGTTAGTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6396858 original size:2 final size:2
Alignment explanation
Indices: 6396851--6396876 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6396841 GGATTACCTG
6396851 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6396877 TTTGCTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6401295 original size:3 final size:3
Alignment explanation
Indices: 6401282--6401314 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
6401272 GTTTAAGTGT
*
6401282 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6401315 GCAATACTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6405880 original size:2 final size:2
Alignment explanation
Indices: 6405873--6405904 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6405863 AAATGTTTAT
6405873 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6405905 GACACACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6422818 original size:2 final size:2
Alignment explanation
Indices: 6422813--6422845 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6422803 AAAAATATGG
6422813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6422846 TGGAATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6423742 original size:47 final size:47
Alignment explanation
Indices: 6423691--6423792 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 47
6423681 GTAAGGGTTA
* *
6423691 TTTTGAGATATCGATACAGCAA-CAATCCAAGATA-AAAGTAAATTCTG
1 TTTTGAGATATCGATACAG-AAGCAACCCAAGACAGAAA-TAAATTCTG
* *
6423738 TTTTGAGACATCGATATAGAAGCAACCCAAGACAGAAATAAATTCTG
1 TTTTGAGATATCGATACAGAAGCAACCCAAGACAGAAATAAATTCTG
6423785 -TTTGAGAT
1 TTTTGAGAT
6423793 TATGAAGGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
46 9 0.19
47 36 0.75
48 3 0.06
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (47 bp):
TTTTGAGATATCGATACAGAAGCAACCCAAGACAGAAATAAATTCTG
Found at i:6429993 original size:12 final size:12
Alignment explanation
Indices: 6429959--6429993 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6429949 CAAAATTTAG
*
6429959 TCTTTGCTCACT
1 TCTTTGCTCATT
*
6429971 TCTTTGGTCATT
1 TCTTTGCTCATT
6429983 TCTTTGCTCAT
1 TCTTTGCTCAT
6429994 CATTGCCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.26, G:0.11, T:0.54
Consensus pattern (12 bp):
TCTTTGCTCATT
Found at i:6433178 original size:28 final size:28
Alignment explanation
Indices: 6433147--6433205 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
6433137 AAATAATTTA
* *
6433147 TTTAATAAAAT-TTTAATAATTTATTAAT
1 TTTAATAAAATATTAAATAATTTA-AAAT
*
6433175 TTT-ATGAAATATTAAATAATTTAAAAT
1 TTTAATAAAATATTAAATAATTTAAAAT
6433202 TTTA
1 TTTA
6433206 TTACATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TTTAATAAAATATTAAATAATTTAAAAT
Found at i:6434905 original size:24 final size:24
Alignment explanation
Indices: 6434840--6434919 Score: 67
Period size: 24 Copynumber: 3.2 Consensus size: 24
6434830 GACAATAAAC
*
6434840 AAAATTATTAAAA-TTTTA-AATT
1 AAAATTATTAAAATTTTTATATTT
*
6434862 AAAATAAATGTATAATATTTTTATATTT
1 AAAAT-TAT-TA-AA-ATTTTTATATTT
*
6434890 AAAATTATTAAAATTTTAAT-TTT
1 AAAATTATTAAAATTTTTATATTT
6434913 AATAATT
1 AA-AATT
6434920 TAAATTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
22 5 0.11
23 7 0.15
24 13 0.28
25 4 0.09
26 3 0.06
27 7 0.15
28 8 0.17
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
AAAATTATTAAAATTTTTATATTT
Found at i:6434919 original size:15 final size:15
Alignment explanation
Indices: 6434841--6434926 Score: 50
Period size: 16 Copynumber: 5.4 Consensus size: 15
6434831 ACAATAAACA
6434841 AAATTATTAAAATTTT
1 AAATTATTAAAA-TTT
**
6434857 AAATTAAAATAAATGTAT
1 AAATTATTA-AAAT-T-T
* *
6434875 AATATT-TTTATATTT
1 AA-ATTATTAAAATTT
6434890 AAAATTATTAAAATTT
1 -AAATTATTAAAATTT
*
6434906 TAATT-TTAATAATTT
1 AAATTATTAA-AATTT
6434921 AAATTA
1 AAATTA
6434927 AAAATATAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 16
0.67 0.13 0.21
Matches are distributed among these distances:
14 4 0.08
15 17 0.33
16 18 0.35
17 7 0.13
18 3 0.06
19 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
AAATTATTAAAATTT
Found at i:6448651 original size:4 final size:4
Alignment explanation
Indices: 6448642--6448668 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6448632 TCCGAAGCGC
6448642 ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT
6448669 GTCGTTTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:6457174 original size:3 final size:3
Alignment explanation
Indices: 6457166--6457197 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6457156 GCTTATTTTC
6457166 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6457198 TTCAAGCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6462157 original size:276 final size:276
Alignment explanation
Indices: 6461664--6462218 Score: 1092
Period size: 276 Copynumber: 2.0 Consensus size: 276
6461654 CTATATATTC
6461664 AGGGGTAGATGATGATATTGGTTATGTTCAGGGTGAGTAGCAGCTGTTGATTGCATTATTTATTA
1 AGGGGTAGATGATGATATTGGTTATGTTCAGGGTGAGTAGCAGCTGTTGATTGCATTATTTATTA
6461729 CCAAGCTGAAGCTTTTTTTGTTCTCCAACACTTTGGGCTTATTCTTTGATGACCGGAATGAATGA
66 CCAAGCTGAAGCTTTTTTTGTTCTCCAACACTTTGGGCTTATTCTTTGATGACCGGAATGAATGA
* *
6461794 CATATGCTATCCAATTGTAATTCTTCTTGAAAATGAAGTAGACGCATTTTGCTGGTTTGAGCGTG
131 CATATGCTATCCAATTGTAATTCTTCTTGAAAATGAAGCAGACGCATTTTGCTGGTTTGAGCATG
6461859 CAATGCGAAGAATGGTATAATTTTGCTTGAACTGCTTCAGATTGTTGTTCTATATGATGATTTTA
196 CAATGCGAAGAATGGTATAATTTTGCTTGAACTGCTTCAGATTGTTGTTCTATATGATGATTTTA
6461924 AATGTATATTCATGAA
261 AATGTATATTCATGAA
6461940 AGGGGTAGATGATGATATTGGTTATGTTCAGGGTGAGTAGCAGCTGTTGATTGCATTATTTATTA
1 AGGGGTAGATGATGATATTGGTTATGTTCAGGGTGAGTAGCAGCTGTTGATTGCATTATTTATTA
6462005 CCAAGCTGAAGCTTTTTTTGTTCTCCAACACTTTGGGCTTATTCTTTGATGACCGGAATGAATGA
66 CCAAGCTGAAGCTTTTTTTGTTCTCCAACACTTTGGGCTTATTCTTTGATGACCGGAATGAATGA
6462070 CATATGCTATCCAATTGTAATTCTTCTTGAAAATGAAGCAGACGCATTTTGCTGGTTTGAGCATG
131 CATATGCTATCCAATTGTAATTCTTCTTGAAAATGAAGCAGACGCATTTTGCTGGTTTGAGCATG
6462135 CAATGCGAAGAATGGTATAATTTTGCTTGAACTGCTTCAGATTGTTGTTCTATATGATGATTTTA
196 CAATGCGAAGAATGGTATAATTTTGCTTGAACTGCTTCAGATTGTTGTTCTATATGATGATTTTA
6462200 AATGTATATTCATGAA
261 AATGTATATTCATGAA
6462216 AGG
1 AGG
6462219 ATAATCCATT
Statistics
Matches: 277, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
276 277 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.38
Consensus pattern (276 bp):
AGGGGTAGATGATGATATTGGTTATGTTCAGGGTGAGTAGCAGCTGTTGATTGCATTATTTATTA
CCAAGCTGAAGCTTTTTTTGTTCTCCAACACTTTGGGCTTATTCTTTGATGACCGGAATGAATGA
CATATGCTATCCAATTGTAATTCTTCTTGAAAATGAAGCAGACGCATTTTGCTGGTTTGAGCATG
CAATGCGAAGAATGGTATAATTTTGCTTGAACTGCTTCAGATTGTTGTTCTATATGATGATTTTA
AATGTATATTCATGAA
Found at i:6463372 original size:19 final size:21
Alignment explanation
Indices: 6463348--6463387 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6463338 TAAATTTGAA
*
6463348 AGAAAAA-A-TGTACTTGCGG
1 AGAAAAACAGTGTACTCGCGG
6463367 AGAAAAACAGTGTACTCGCGG
1 AGAAAAACAGTGTACTCGCGG
6463388 TTTTCCTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.17
Consensus pattern (21 bp):
AGAAAAACAGTGTACTCGCGG
Found at i:6467219 original size:24 final size:24
Alignment explanation
Indices: 6467191--6467236 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
6467181 CTACTCATCA
6467191 GTAGTATATATATCCTGACTCACT
1 GTAGTATATATATCCTGACTCACT
6467215 GTAGTATATATATCCTGACTCA
1 GTAGTATATATATCCTGACTCA
6467237 TTTCTATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (24 bp):
GTAGTATATATATCCTGACTCACT
Found at i:6471486 original size:3 final size:3
Alignment explanation
Indices: 6471478--6471515 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6471468 ACATCACTCA
6471478 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6471516 ACAATCAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6475079 original size:17 final size:18
Alignment explanation
Indices: 6475038--6475090 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 18
6475028 ATTTATTTTA
6475038 TAATAAATATAATTAATT
1 TAATAAATATAATTAATT
6475056 TAATAAATATAATT-ATT
1 TAATAAATATAATTAATT
* *
6475073 TATTAAATA-ACTTAATT
1 TAATAAATATAATTAATT
6475090 T
1 T
6475091 TTGTAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 3 0.09
17 15 0.47
18 14 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATAAATATAATTAATT
Found at i:6475565 original size:16 final size:16
Alignment explanation
Indices: 6475535--6475578 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
6475525 TTAATTTGAA
*
6475535 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
6475550 AATATAAAATAATTAT
1 AATATAAAATAATTAT
*
6475566 AATTTTAAAATAA
1 AA-TATAAAATAA
6475579 ATCAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.36
16 7 0.28
17 9 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:6485034 original size:3 final size:3
Alignment explanation
Indices: 6485026--6485073 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
6485016 TTTTAATTAT
6485026 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
6485074 TTAAAAGGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:6485859 original size:23 final size:22
Alignment explanation
Indices: 6485821--6485864 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6485811 TGTATTTGAT
6485821 AATTAAAAATAAAAATATAAAAG
1 AATTAAAAATAAAAAT-TAAAAG
6485844 AATT-AAAATATAAAATTAAAA
1 AATTAAAAATA-AAAATTAAAA
6485865 ATATTCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
AATTAAAAATAAAAATTAAAAG
Found at i:6486071 original size:13 final size:13
Alignment explanation
Indices: 6486055--6486079 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6486045 AACTATTTTA
6486055 TAAAAAATAAAAC
1 TAAAAAATAAAAC
6486068 TAAAAAATAAAA
1 TAAAAAATAAAA
6486080 AAATATATTT
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAAATAAAAC
Found at i:6498629 original size:163 final size:165
Alignment explanation
Indices: 6498359--6498689 Score: 621
Period size: 163 Copynumber: 2.0 Consensus size: 165
6498349 CCTTCAACAA
*
6498359 TGCTATATTAAGTTTTCATGACCTTTGTTTATGGCTCTAGTCGACTCTATCAACTCTTGAAGGTT
1 TGCTATATTAAGTTTTCATGACCTTTGTTTATGGCTCTAGTCGACTCTATCAACTCTTGAAGATT
6498424 TATTTGTATACGTTGATGCTAACGAAACATATGGCTTCTCCTTGATTGATAGCTACCTATTTGGT
66 TATTTGTATACGTTGATGCTAACGAAACATATGGCTTCTCCTTGATTGATAGCTACCTATTTGGT
6498489 GGCTCCCAATTCATTTTGGCATTTAA-TATACT-T
131 GGCTCCCAATTCATTTTGGCATTTAATTATACTCT
*
6498522 TGCTATATTAAGTTTTCATGACCTTTGTTTATGGCTTTAGTCGACTCTATCAACTCTTGAAGATT
1 TGCTATATTAAGTTTTCATGACCTTTGTTTATGGCTCTAGTCGACTCTATCAACTCTTGAAGATT
*
6498587 TATTTGTATACGTTGATGCTAACGAAACATATGGCTTCTCCTTGATTGATAGCTGCCTATTTGGT
66 TATTTGTATACGTTGATGCTAACGAAACATATGGCTTCTCCTTGATTGATAGCTACCTATTTGGT
6498652 GGCTCCCAATTCATTTTGGCATTTAATTATACTCT
131 GGCTCCCAATTCATTTTGGCATTTAATTATACTCT
6498687 TGC
1 TGC
6498690 AGGATGATGA
Statistics
Matches: 163, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
163 153 0.94
164 6 0.04
165 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (165 bp):
TGCTATATTAAGTTTTCATGACCTTTGTTTATGGCTCTAGTCGACTCTATCAACTCTTGAAGATT
TATTTGTATACGTTGATGCTAACGAAACATATGGCTTCTCCTTGATTGATAGCTACCTATTTGGT
GGCTCCCAATTCATTTTGGCATTTAATTATACTCT
Found at i:6500976 original size:2 final size:2
Alignment explanation
Indices: 6500969--6501004 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6500959 GCACCCTGGA
6500969 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6501005 CAGACATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6502699 original size:39 final size:39
Alignment explanation
Indices: 6502645--6502721 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
6502635 AACTCTAAAA
6502645 CAAGTGAATATTATAGGGAACATTAACAAATTTATCAAG
1 CAAGTGAATATTATAGGGAACATTAACAAATTTATCAAG
*
6502684 CAAGTGAATATTATAGTGAACATTAACAAATTTATCAA
1 CAAGTGAATATTATAGGGAACATTAACAAATTTATCAA
6502722 ACTCTGGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (39 bp):
CAAGTGAATATTATAGGGAACATTAACAAATTTATCAAG
Found at i:6505931 original size:31 final size:28
Alignment explanation
Indices: 6505839--6505935 Score: 106
Period size: 29 Copynumber: 3.3 Consensus size: 28
6505829 CATTAAGAAC
*
6505839 CTATCATAGATTGTTAAAAATATTTGAAAG
1 CTATCATAGCTTG-TAAAAATATTT-AAAG
*
6505869 -TATCATAGCTTGTAAGAAAAATTTAAAG
1 CTATCATAGCTTGTAA-AAATATTTAAAG
*
6505897 CTATGATAGCTTGTGAAAAATATTTCCAAAG
1 CTATCATAGCTTGT-AAAAATATTT--AAAG
6505928 CTATCATA
1 CTATCATA
6505936 ACTGGAGTGA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
28 7 0.12
29 37 0.65
30 2 0.04
31 11 0.19
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (28 bp):
CTATCATAGCTTGTAAAAATATTTAAAG
Found at i:6511718 original size:23 final size:23
Alignment explanation
Indices: 6511692--6511735 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
6511682 TTTTTAATTA
6511692 ATTATTTAATTTTATATTTATAT
1 ATTATTTAATTTTATATTTATAT
6511715 ATTATTTAATTTTATATTTAT
1 ATTATTTAATTTTATATTTAT
6511736 TTAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTATTTAATTTTATATTTATAT
Found at i:6511726 original size:16 final size:15
Alignment explanation
Indices: 6511702--6511749 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 15
6511692 ATTATTTAAT
6511702 TTTATATTTATATATTA
1 TTTA-ATTT-TATATTA
6511719 TTTAATTTTATATTTA
1 TTTAATTTTATA-TTA
6511735 TTTAATTTTATATTA
1 TTTAATTTTATATTA
6511750 AAAATAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.23
16 19 0.63
17 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTAATTTTATATTA
Found at i:6511748 original size:12 final size:12
Alignment explanation
Indices: 6511694--6511734 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
6511684 TTTAATTAAT
6511694 TATTTAATTTTA
1 TATTTAATTTTA
*
6511706 TATTT-A-TATA
1 TATTTAATTTTA
6511716 TTATTTAATTTTA
1 -TATTTAATTTTA
6511729 TATTTA
1 TATTTA
6511735 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 3 0.12
11 6 0.25
12 12 0.50
13 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTTAATTTTA
Found at i:6511776 original size:16 final size:18
Alignment explanation
Indices: 6511739--6511780 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
6511729 TATTTATTTA
6511739 ATTTTATATTAAAAATAAT
1 ATTTTATATT-AAAATAAT
6511758 ATTTTATATT-AAA-AAT
1 ATTTTATATTAAAATAAT
6511774 ATTTTAT
1 ATTTTAT
6511781 TAATTCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.43
17 3 0.13
19 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTTATATTAAAATAAT
Found at i:6517423 original size:125 final size:125
Alignment explanation
Indices: 6517201--6517442 Score: 448
Period size: 125 Copynumber: 1.9 Consensus size: 125
6517191 GAAACCAAGG
* *
6517201 ATAACAGAAGATATAGCCAAACGAATCAAAGCTTTTAGTCAAGCAAATGGCAAAGTCTGTGATCT
1 ATAACAGAAGATATAGCCAAACAAATCAAAGCATTTAGTCAAGCAAATGGCAAAGTCTGTGATCT
*
6517266 GTGAAGGACTCAGTTTGTTCTGCTTCTTCTCAAATATTGTCTAGCTCAATTTGTTTGGCT
66 GTGAAGGACTCAGTTTGCTCTGCTTCTTCTCAAATATTGTCTAGCTCAATTTGTTTGGCT
6517326 ATAACAGAAGATATAGCCAAACAAATCAAAGCATTTAGTCAAGCAAATGGCAAAGTCTGTGATCT
1 ATAACAGAAGATATAGCCAAACAAATCAAAGCATTTAGTCAAGCAAATGGCAAAGTCTGTGATCT
*
6517391 GTGAAGGAGTCAGTTTGCTCTGCTTCTTCTCAAATATTGTCTAGCTCAATTT
66 GTGAAGGACTCAGTTTGCTCTGCTTCTTCTCAAATATTGTCTAGCTCAATTT
6517443 TTTATTCAGT
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 113 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (125 bp):
ATAACAGAAGATATAGCCAAACAAATCAAAGCATTTAGTCAAGCAAATGGCAAAGTCTGTGATCT
GTGAAGGACTCAGTTTGCTCTGCTTCTTCTCAAATATTGTCTAGCTCAATTTGTTTGGCT
Found at i:6518697 original size:2 final size:2
Alignment explanation
Indices: 6518690--6518729 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
6518680 AAGCTTTATC
* *
6518690 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6518730 TAGTGGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6524840 original size:63 final size:64
Alignment explanation
Indices: 6524773--6524959 Score: 184
Period size: 64 Copynumber: 3.0 Consensus size: 64
6524763 ACAAAAAATG
* * *
6524773 CCTTAAATAATTCTCTCATATTTTTTGAAGGGGATTATTTAAGATATTTTTTATTTGAAAA-AA
1 CCTTAAATAATTCTATCATATTTTTTAAAGGGGATTATTTAAGATATTTTTTATTTCAAAATAA
* * * * * * *
6524836 CCTTAAATAATCTTTTTTATTTTTTTTAAAGGAGATTATTTAAGATATTTTTGA--TCAAAATCA
1 CCTTAAATAAT-TCTATCATATTTTTTAAAGGGGATTATTTAAGATATTTTTTATTTCAAAATAA
* * * * ** *
6524899 CCTTAAATAATCCAATCATA-TTTTTAAAGAGAATTATTTAAGACGTTTTTTATTTTAAAAT
1 CCTTAAATAATTCTATCATATTTTTTAAAGGGGATTATTTAAGATATTTTTTATTTCAAAAT
6524960 GCTTTAAATA
Statistics
Matches: 98, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
61 26 0.27
62 8 0.08
63 29 0.30
64 35 0.36
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (64 bp):
CCTTAAATAATTCTATCATATTTTTTAAAGGGGATTATTTAAGATATTTTTTATTTCAAAATAA
Found at i:6524921 original size:64 final size:62
Alignment explanation
Indices: 6524740--6524923 Score: 165
Period size: 63 Copynumber: 2.9 Consensus size: 62
6524730 AAAAATATTA
* * * * *
6524740 GAGATTATTTAAGACATTTTTCAACAAAAAATGCCTTAAATAATTCTCTCATA--TTTTTTGAAG
1 GAGATTATTTAAGATATTTTTCATC--AAAATACCTTAAATAA-TCTATCATATTTTTTTTAAAG
* * * * * **
6524803 GGGATTATTTAAGATATTTTTTATTTGAAAAAACCTTAAATAATCTTTTTTATTTTTTTTAAAG
1 GAGATTATTTAAGATATTTTTCA--TCAAAATACCTTAAATAATCTATCATATTTTTTTTAAAG
* *
6524867 GAGATTATTTAAGATATTTTTGATCAAAATCACCTTAAATAATCCAATCATATTTTT
1 GAGATTATTTAAGATATTTTTCATCAAAAT-ACCTTAAATAAT-CTATCATATTTTT
6524924 AAAGAGAATT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 11 0.11
63 46 0.48
64 39 0.41
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.45
Consensus pattern (62 bp):
GAGATTATTTAAGATATTTTTCATCAAAATACCTTAAATAATCTATCATATTTTTTTTAAAG
Found at i:6525117 original size:57 final size:57
Alignment explanation
Indices: 6525056--6525196 Score: 273
Period size: 57 Copynumber: 2.5 Consensus size: 57
6525046 TTTTAAAGAC
6525056 TAAAAATGCCTTAAATAATCCCCTTTATTTTTTTAAAATGCATTATTTAAGACATCA
1 TAAAAATGCCTTAAATAATCCCCTTTATTTTTTTAAAATGCATTATTTAAGACATCA
*
6525113 TAAAAATGTCTTAAATAATCCCCTTTATTTTTTTAAAATGCATTATTTAAGACATCA
1 TAAAAATGCCTTAAATAATCCCCTTTATTTTTTTAAAATGCATTATTTAAGACATCA
6525170 TAAAAATGCCTTAAATAATCCCCTTTA
1 TAAAAATGCCTTAAATAATCCCCTTTA
6525197 AAAAGAATGA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 82 1.00
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (57 bp):
TAAAAATGCCTTAAATAATCCCCTTTATTTTTTTAAAATGCATTATTTAAGACATCA
Found at i:6539947 original size:21 final size:21
Alignment explanation
Indices: 6539923--6539962 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6539913 TTTATTTTTT
*
6539923 AAAATTTAATTATTTATTTAA
1 AAAATCTAATTATTTATTTAA
* *
6539944 AAAATCTATTTTTTTATTT
1 AAAATCTAATTATTTATTT
6539963 TTCACTTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
AAAATCTAATTATTTATTTAA
Found at i:6541294 original size:2 final size:2
Alignment explanation
Indices: 6541287--6541312 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6541277 CAATCACCAC
6541287 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6541313 GTTTAATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6556428 original size:2 final size:2
Alignment explanation
Indices: 6556421--6556447 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6556411 GAATTTAAAT
6556421 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6556448 GCAAGTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.