Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 18 of 59
Found at i:6520165 original size:40 final size:39
Alignment explanation
Indices: 6520114--6520246 Score: 126
Period size: 40 Copynumber: 3.6 Consensus size: 39
6520104 AACTAATTAT
*
6520114 TAAAT-AA-AAAATTATTTTGAAAGCCATTAAAAATATA
1 TAAATAAATAAAATTATATTGAAAGCCATTAAAAATATA
* *
6520151 TATAATAAATAAAATTGTATTGAAA--C--T--AATTAT-
1 TA-AATAAATAAAATTATATTGAAAGCCATTAAAAATATA
*
6520184 TAAAT-AA-AAAATTATTTTGAAAGCCATTAAAAATATA
1 TAAATAAATAAAATTATATTGAAAGCCATTAAAAATATA
*
6520221 TACAATAAATAAAATTGTATTGAAAG
1 TA-AATAAATAAAATTATATTGAAAG
6520247 AAATACAATT
Statistics
Matches: 75, Mismatches: 8, Indels: 23
0.71 0.08 0.22
Matches are distributed among these distances:
30 13 0.17
31 2 0.03
32 4 0.05
33 2 0.03
34 6 0.08
36 6 0.08
37 4 0.05
38 7 0.09
39 4 0.05
40 27 0.36
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (39 bp):
TAAATAAATAAAATTATATTGAAAGCCATTAAAAATATA
Found at i:6520200 original size:70 final size:70
Alignment explanation
Indices: 6520103--6520245 Score: 277
Period size: 70 Copynumber: 2.0 Consensus size: 70
6520093 TTGAAGAATA
*
6520103 AAACTAATTATTAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATATAATAAATAAAATTG
1 AAACTAATTATTAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATACAATAAATAAAATTG
6520168 TATTG
66 TATTG
6520173 AAACTAATTATTAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATACAATAAATAAAATTG
1 AAACTAATTATTAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATACAATAAATAAAATTG
6520238 TATTG
66 TATTG
6520243 AAA
1 AAA
6520246 GAAATACAAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (70 bp):
AAACTAATTATTAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATACAATAAATAAAATTG
TATTG
Found at i:6520757 original size:21 final size:21
Alignment explanation
Indices: 6520727--6520776 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
6520717 GGCCATCAAG
*
6520727 AAAA-TTTATAAAAAATTTAA
1 AAAATTTTATAAAAAATATAA
* *
6520747 AAAATTTTATATAATATATAA
1 AAAATTTTATAAAAAATATAA
6520768 AAAATTTTA
1 AAAATTTTA
6520777 AAATTTTGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATTTTATAAAAAATATAA
Found at i:6525919 original size:2 final size:2
Alignment explanation
Indices: 6525912--6525970 Score: 64
Period size: 2 Copynumber: 29.5 Consensus size: 2
6525902 TTACCTAGTC
* * * * * *
6525912 TA TA TA TA TA CA TA TA TG TA TG TG TG TG 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
6525954 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
6525971 GCATCTTCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6529187 original size:2 final size:2
Alignment explanation
Indices: 6529180--6529212 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6529170 GTAAGCTGTT
6529180 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
6529213 CTTGTGAATC
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:6534635 original size:20 final size:20
Alignment explanation
Indices: 6534610--6534655 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
6534600 TTTTGACCCC
*
6534610 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGAAGTATA
*
6534630 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
6534650 ATTTGA
1 ATTTGA
6534656 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:6534731 original size:28 final size:27
Alignment explanation
Indices: 6534700--6534752 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
6534690 TTTGGAGTAT
*
6534700 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
6534728 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
6534753 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:6534758 original size:28 final size:28
Alignment explanation
Indices: 6534700--6534758 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
6534690 TTTGGAGTAT
* *
6534700 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
6534728 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
6534756 AGG
1 AGG
6534759 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:6535911 original size:13 final size:13
Alignment explanation
Indices: 6535893--6535917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6535883 AGGGAAATTG
6535893 TGATTTTATAAAA
1 TGATTTTATAAAA
6535906 TGATTTTATAAA
1 TGATTTTATAAA
6535918 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:6538851 original size:2 final size:2
Alignment explanation
Indices: 6538846--6538891 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
6538836 TTTTTCCATG
* *
6538846 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TC 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
6538888 TA TA
1 TA TA
6538892 AATTATGCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6544261 original size:19 final size:20
Alignment explanation
Indices: 6544239--6544292 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
6544229 TATTATTTTA
*
6544239 GTTTAATTTATGTTTA-AAT
1 GTTTAATTTATGTTAATAAT
* *
6544258 GTTTATTTTAAGTTAATAAT
1 GTTTAATTTATGTTAATAAT
6544278 G-TTAATTTTATGTTA
1 GTTTAA-TTTATGTTA
6544293 TTTATATTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (20 bp):
GTTTAATTTATGTTAATAAT
Found at i:6544280 original size:20 final size:20
Alignment explanation
Indices: 6544255--6544292 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6544245 TTTATGTTTA
*
6544255 AATGTTTATTTTAAGTTAAT
1 AATGTTAATTTTAAGTTAAT
*
6544275 AATGTTAATTTTATGTTA
1 AATGTTAATTTTAAGTTA
6544293 TTTATATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
AATGTTAATTTTAAGTTAAT
Found at i:6547872 original size:14 final size:14
Alignment explanation
Indices: 6547853--6547922 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
6547843 TTCCGTCACA
*
6547853 AATGTTAAATGATG
1 AATGTTAATTGATG
*
6547867 AATGTTAGTTGATG
1 AATGTTAATTGATG
* *
6547881 GATGTTAATTGATA
1 AATGTTAATTGATG
* *
6547895 AATGCTACTTGATG
1 AATGTTAATTGATG
*
6547909 TATGTTAATGTGAT
1 AATGTTAAT-TGAT
6547923 AGTTGATTAT
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
14 39 0.91
15 4 0.09
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (14 bp):
AATGTTAATTGATG
Found at i:6547898 original size:28 final size:28
Alignment explanation
Indices: 6547854--6547923 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
6547844 TCCGTCACAA
* * * *
6547854 ATGTTAAATGATGAATGTTAGTTGATGG
1 ATGTTAATTGATAAATGCTACTTGATGG
*
6547882 ATGTTAATTGATAAATGCTACTTGATGT
1 ATGTTAATTGATAAATGCTACTTGATGG
6547910 ATGTTAATGTGATA
1 ATGTTAAT-TGATA
6547924 GTTGATTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 31 0.86
29 5 0.14
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (28 bp):
ATGTTAATTGATAAATGCTACTTGATGG
Found at i:6559318 original size:20 final size:21
Alignment explanation
Indices: 6559295--6559333 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
6559285 AAGTGAGTTA
*
6559295 TTTTAATTTTG-TATTATTCT
1 TTTTAATTTGGTTATTATTCT
6559315 TTTTAATTTGGTTATTATT
1 TTTTAATTTGGTTATTATT
6559334 TATTAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (21 bp):
TTTTAATTTGGTTATTATTCT
Found at i:6564798 original size:36 final size:36
Alignment explanation
Indices: 6564749--6564823 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
6564739 TAGTGGTGCT
6564749 TGTAGTCTAGGAGTTTAATGCAAATGCAGTTGAGCA
1 TGTAGTCTAGGAGTTTAATGCAAATGCAGTTGAGCA
* *
6564785 TGTAGTTTGGGAGTTTAATGCAAATGCAGTTGAGCA
1 TGTAGTCTAGGAGTTTAATGCAAATGCAGTTGAGCA
6564821 TGT
1 TGT
6564824 TGATAGAGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.33
Consensus pattern (36 bp):
TGTAGTCTAGGAGTTTAATGCAAATGCAGTTGAGCA
Found at i:6568243 original size:14 final size:14
Alignment explanation
Indices: 6568224--6568250 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6568214 TTGGTTTAAA
6568224 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
6568238 TTTTAGTTAATTA
1 TTTTAGTTAATTA
6568251 TTTAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:6569258 original size:14 final size:15
Alignment explanation
Indices: 6569239--6569267 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6569229 TTGCAAAGGT
6569239 TGTTTC-TTGACTAG
1 TGTTTCTTTGACTAG
6569253 TGTTTCTTTGACTAG
1 TGTTTCTTTGACTAG
6569268 ACTACCCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.52
Consensus pattern (15 bp):
TGTTTCTTTGACTAG
Found at i:6573951 original size:11 final size:11
Alignment explanation
Indices: 6573937--6573966 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
6573927 CTGAATAAAA
6573937 TATTAATATTT
1 TATTAATATTT
6573948 TATTAATATTT
1 TATTAATATTT
6573959 TATTAATA
1 TATTAATA
6573967 AAATATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTAATATTT
Found at i:6573988 original size:18 final size:19
Alignment explanation
Indices: 6573954--6573996 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
6573944 ATTTTATTAA
6573954 TATTTTATTAATAAAATAT
1 TATTTTATTAATAAAATAT
*
6573973 TATTTTATT-TTAAAATAT
1 TATTTTATTAATAAAATAT
*
6573991 TCTTTT
1 TATTTT
6573997 CACCCGTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTTATTAATAAAATAT
Found at i:6579394 original size:2 final size:2
Alignment explanation
Indices: 6579387--6579435 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
6579377 AGTTTAGTTA
* *
6579387 AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT TT AT 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 AT
6579429 AT AT AT A
1 AT AT AT A
6579436 AACAGTAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6580671 original size:18 final size:18
Alignment explanation
Indices: 6580648--6580690 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
6580638 AGACAAATAA
6580648 AATATTTTGA-AATAAAAT
1 AATATTTT-ATAATAAAAT
6580666 AATATTTTATTAATAAAAT
1 AATATTTTA-TAATAAAAT
6580685 AATATT
1 AATATT
6580691 AAAATATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.04
18 8 0.35
19 14 0.61
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATATTTTATAATAAAAT
Found at i:6581112 original size:19 final size:19
Alignment explanation
Indices: 6581088--6581127 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6581078 TCTCCTCCTC
6581088 CATGCTCCCACACCATTTT
1 CATGCTCCCACACCATTTT
* **
6581107 CATGCTTCCATGCCATTTT
1 CATGCTCCCACACCATTTT
6581126 CA
1 CA
6581128 CCTTGCCATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.38, G:0.07, T:0.35
Consensus pattern (19 bp):
CATGCTCCCACACCATTTT
Found at i:6581261 original size:21 final size:20
Alignment explanation
Indices: 6581216--6581270 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
6581206 GATTAGTTGG
* *
6581216 AAGAGAGGAGAAAGGAAAGA
1 AAGAAAGGAGAAAGAAAAGA
6581236 AAGAAAGGAGAAAGAAAAAGA
1 AAGAAAGGAGAAAG-AAAAGA
*
6581257 GAGAAAGGAAGAAA
1 AAGAAAGG-AGAAA
6581271 AGGCTTGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
AAGAAAGGAGAAAGAAAAGA
Found at i:6589599 original size:29 final size:29
Alignment explanation
Indices: 6589521--6589603 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
6589511 AGAGCAAGGA
*
6589521 TAACCCCTTGCCTTT-TCAAGGATTAAGCG
1 TAACCTCTTG-CTTTCTCAAGGATTAAGCG
* * *
6589550 TAACCTCTTTC-TTCTTAAAGGATTAAGTG
1 TAACCTCTTGCTTTC-TCAAGGATTAAGCG
*
6589579 TAACTTCTTGCTTTCTCAAGGATTA
1 TAACCTCTTGCTTTCTCAAGGATTA
6589604 GGCTTAACTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
27 2 0.05
28 1 0.02
29 38 0.86
30 3 0.07
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (29 bp):
TAACCTCTTGCTTTCTCAAGGATTAAGCG
Found at i:6589611 original size:29 final size:29
Alignment explanation
Indices: 6589527--6589621 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 29
6589517 AGGATAACCC
* *
6589527 CTTGCCTTT-TCAAGGATTAAGCGTAACCT
1 CTTG-CTTTCTCAAGGATTAAGCTTAACTT
* *
6589556 CTTTC-TTCTTAAAGGATTAAG-TGTAACTT
1 CTTGCTTTC-TCAAGGATTAAGCT-TAACTT
*
6589585 CTTGCTTTCTCAAGGATTAGGCTTAACTT
1 CTTGCTTTCTCAAGGATTAAGCTTAACTT
6589614 -TT-CTTTCT
1 CTTGCTTTCT
6589622 TACAAGGTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
27 8 0.15
28 3 0.06
29 39 0.72
30 4 0.07
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (29 bp):
CTTGCTTTCTCAAGGATTAAGCTTAACTT
Found at i:6589627 original size:29 final size:29
Alignment explanation
Indices: 6589537--6589628 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
6589527 CTTGCCTTTT
*
6589537 CAAGGATTAAGCGTAACCTCTTTC-TTCTTA
1 CAAGGATTAAGCTTAA-CT-TTTCTTTCTTA
6589567 -AAGGATTAAG-TGTAACTTCTTGCTTTC-T-
1 CAAGGATTAAGCT-TAACTT-TT-CTTTCTTA
*
6589595 CAAGGATTAGGCTTAACTTTTCTTTCTTA
1 CAAGGATTAAGCTTAACTTTTCTTTCTTA
6589624 CAAGG
1 CAAGG
6589629 TCAAAGCAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
27 6 0.12
28 7 0.13
29 35 0.67
30 4 0.08
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (29 bp):
CAAGGATTAAGCTTAACTTTTCTTTCTTA
Found at i:6591128 original size:13 final size:13
Alignment explanation
Indices: 6591110--6591134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6591100 TTTCAGAAAA
6591110 TTTATAAAATCAT
1 TTTATAAAATCAT
6591123 TTTATAAAATCA
1 TTTATAAAATCA
6591135 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:6601535 original size:28 final size:28
Alignment explanation
Indices: 6601492--6601556 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
6601482 CAATGCACAC
*
6601492 TGCCTTTT-ATGGATCAAGCATAACTAT
1 TGCCTTTTCATGGATCAAGCATAACCAT
*
6601519 TGCCTTTTCATGGATCAAGCATAGCCAT
1 TGCCTTTTCATGGATCAAGCATAACCAT
6601547 TGCCTTTTCA
1 TGCCTTTTCA
6601557 AGATTCTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 8 0.23
28 27 0.77
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (28 bp):
TGCCTTTTCATGGATCAAGCATAACCAT
Found at i:6602905 original size:34 final size:34
Alignment explanation
Indices: 6602866--6602938 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
6602856 GGTTTGGCAT
*
6602866 AACCTTTACAATACCTTTTCACAA-GATCAAGTAC
1 AACCTTTACAATACCTTTTC-CAAGGATCAAGCAC
*
6602900 AACCTTTTCAATACCTTTTCCAAGGATCAAGCAC
1 AACCTTTACAATACCTTTTCCAAGGATCAAGCAC
6602934 AACCT
1 AACCT
6602939 CACTACCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 3 0.08
34 33 0.92
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (34 bp):
AACCTTTACAATACCTTTTCCAAGGATCAAGCAC
Found at i:6602949 original size:31 final size:32
Alignment explanation
Indices: 6602874--6602949 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 32
6602864 ATAACCTTTA
*
6602874 CAATACCTTTTCACAAGATCAAGTACAACCTTTT
1 CAATACCTTTTCACAAGATCAAGCACAACC--TT
6602908 CAATACCTTTTC-CAAGGATCAAGCACAACC-T
1 CAATACCTTTTCACAA-GATCAAGCACAACCTT
*
6602939 CACTACCTTTT
1 CAATACCTTTT
6602950 ACTTAGGCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
31 11 0.28
33 3 0.08
34 25 0.64
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (32 bp):
CAATACCTTTTCACAAGATCAAGCACAACCTT
Found at i:6605451 original size:17 final size:19
Alignment explanation
Indices: 6605418--6605456 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6605408 AAACCAGTAT
*
6605418 AAATATCATTTTTATTA-A
1 AAATATCATTTTAATTAGA
6605436 AAATAT-ATTTTAATTAGA
1 AAATATCATTTTAATTAGA
6605454 AAA
1 AAA
6605457 CATAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
AAATATCATTTTAATTAGA
Found at i:6609304 original size:17 final size:17
Alignment explanation
Indices: 6609282--6609314 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6609272 TAAAAAACTA
6609282 TGAGAT-TTAATTAGTTG
1 TGAGATCTT-ATTAGTTG
6609299 TGAGATCTTATTAGTT
1 TGAGATCTTATTAGTT
6609315 TGAAAATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.48
Consensus pattern (17 bp):
TGAGATCTTATTAGTTG
Found at i:6623314 original size:2 final size:2
Alignment explanation
Indices: 6623307--6623332 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6623297 TAACCATTAA
6623307 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
6623333 GAAATCAATA
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:6630785 original size:30 final size:30
Alignment explanation
Indices: 6630743--6630800 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
6630733 AATCATTAGT
6630743 TATAAGAGTTTATTTAACTCAAAATAAAAG
1 TATAAGAGTTTATTTAACTCAAAATAAAAG
*
6630773 TATAAG-GATTTATTTGACTCAAAATAAA
1 TATAAGAG-TTTATTTAACTCAAAATAAA
6630801 TTATAGGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (30 bp):
TATAAGAGTTTATTTAACTCAAAATAAAAG
Found at i:6654565 original size:30 final size:32
Alignment explanation
Indices: 6654524--6654596 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
6654514 GCTCCATTTT
6654524 TTCCTCTCTCTTTC-TT-CTTTTCT-TTCTTTCC
1 TTCC-CTCTCTTTCTTTGCTTTTCTCTTC-TTCC
*
6654555 TTCCCTCTCTTTCTTTGCTTTTTTCTTCTTCC
1 TTCCCTCTCTTTCTTTGCTTTTCTCTTCTTCC
*
6654587 TTTCCTCTCT
1 TTCCCTCTCT
6654597 CTCTCTGTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.24
31 6 0.16
32 19 0.51
33 3 0.08
ACGTcount: A:0.00, C:0.36, G:0.01, T:0.63
Consensus pattern (32 bp):
TTCCCTCTCTTTCTTTGCTTTTCTCTTCTTCC
Found at i:6656130 original size:18 final size:18
Alignment explanation
Indices: 6656107--6656141 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6656097 AACCGACTGC
*
6656107 TTCCTCTCTTTCTTTCTT
1 TTCCTCCCTTTCTTTCTT
6656125 TTCCTCCCTTTCTTTCT
1 TTCCTCCCTTTCTTTCT
6656142 CATTTCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (18 bp):
TTCCTCCCTTTCTTTCTT
Found at i:6662735 original size:15 final size:15
Alignment explanation
Indices: 6662710--6662749 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
6662700 CTTTCTTCCC
6662710 ATATA-TTTATAT-T
1 ATATATTTTATATAT
6662723 ATTATATTTTATATAT
1 A-TATATTTTATATAT
6662739 ATATATTTTAT
1 ATATATTTTAT
6662750 TAACTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 4 0.17
15 17 0.71
16 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATATTTTATATAT
Found at i:6667864 original size:2 final size:2
Alignment explanation
Indices: 6667859--6667891 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6667849 ATATATATAT
6667859 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
6667892 TATAGTAAAG
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:6667928 original size:22 final size:23
Alignment explanation
Indices: 6667885--6667929 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
6667875 ACACACACAC
6667885 ACACACATATAGTAAAGTAGTTT
1 ACACACATATAGTAAAGTAGTTT
6667908 ANCACACATAT-GTAAAG-AGTTT
1 A-CACACATATAGTAAAGTAGTTT
6667930 TAGAAATCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 7 0.33
24 9 0.43
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.29
Consensus pattern (23 bp):
ACACACATATAGTAAAGTAGTTT
Found at i:6675512 original size:118 final size:117
Alignment explanation
Indices: 6675304--6675541 Score: 413
Period size: 118 Copynumber: 2.0 Consensus size: 117
6675294 AGAGATTTGG
* * *
6675304 GAATCAAAGTCGACATTCCTGAGTTTGAAGGAAAAGTTCATCCTGATGACTTCCTTGATTGGCTC
1 GAATCAAACTCGACATTCCTAAGTTTGAAGGAAAACTTCATCCTGATGACTTCCTTGATTGGCTC
*
6675369 TACATAGTGGAAAGAGTTTTTGAGCTCAAAGATATTCCCGATGAAAAACGTGT
66 TACACAGTGGAAAGAGTTTTTGAGCTCAAAGATATTCCCGATG-AAAACGTGT
* *
6675422 GAATCAAACTCGACATTCCTAAGTTTGAAGGAAGACTTCATCCTGATGACTTCTTTGATTGGCTC
1 GAATCAAACTCGACATTCCTAAGTTTGAAGGAAAACTTCATCCTGATGACTTCCTTGATTGGCTC
6675487 TACACAGTGGAAAGAGTTTTTGAGCTCAAAGATATTCCCGATGAAAACGTGT
66 TACACAGTGGAAAGAGTTTTTGAGCTCAAAGATATTCCCGATGAAAACGTGT
6675539 GAA
1 GAA
6675542 GCTTGTGGCA
Statistics
Matches: 114, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
117 12 0.11
118 102 0.89
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (117 bp):
GAATCAAACTCGACATTCCTAAGTTTGAAGGAAAACTTCATCCTGATGACTTCCTTGATTGGCTC
TACACAGTGGAAAGAGTTTTTGAGCTCAAAGATATTCCCGATGAAAACGTGT
Found at i:6677650 original size:40 final size:40
Alignment explanation
Indices: 6677595--6677673 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
6677585 TTGGCTATTT
*
6677595 TTCACCTTAGTGGGGTTTTCAACCTTGCCAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
*
6677635 TTCACCTTAGTGGGGTTTTCAACCTCGCCACGATTGGTG
1 TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTG
6677674 TATCTTCCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTTCAACCTCGCCAAGATTGGTGA
Found at i:6680029 original size:40 final size:40
Alignment explanation
Indices: 6679971--6680049 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
6679961 TTGGCTATTT
**
6679971 TTCACCTTAGTGGCGTTTTCAACCTTGCCAAGATTGGTGA
1 TTCACCTTAGTGGCGTTTTCAACCTCACCAAGATTGGTGA
*
6680011 TTCACCTTAGTAGG-GTTTTCAACCTCACCACGATTGGTG
1 TTCACCTTAGT-GGCGTTTTCAACCTCACCAAGATTGGTG
6680050 TCTTTCATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 33 0.94
41 2 0.06
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (40 bp):
TTCACCTTAGTGGCGTTTTCAACCTCACCAAGATTGGTGA
Found at i:6680529 original size:40 final size:40
Alignment explanation
Indices: 6680471--6680549 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
6680461 TTATGAAAGA
**
6680471 CACCAATCGTGGTGAGGTTGAAAACCCCACTAAGGTGAAT
1 CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAAT
*
6680511 CACCAATCTTGGCAAGGTTGAAAACCCCACTAAGGTGAA
1 CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAA
6680550 AAATTAGCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (40 bp):
CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAAT
Found at i:6683024 original size:40 final size:40
Alignment explanation
Indices: 6682969--6683047 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
6682959 TTGGCTATTT
6682969 TTCACCTTAGTGGGGTTTTCAACCTTGCCAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTTCAACCTTGCCAAGATTGGTGA
*
6683009 TTCACCTTAGTGGGGTTTTCAACCTTGCCACGATTGGTG
1 TTCACCTTAGTGGGGTTTTCAACCTTGCCAAGATTGGTG
6683048 TCTTTCATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTTCAACCTTGCCAAGATTGGTGA
Found at i:6684827 original size:28 final size:29
Alignment explanation
Indices: 6684796--6684854 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
6684786 TTTCGAGCAT
* *
6684796 AGGGGTAAAATAGTCATTTT-ACCACCCA
1 AGGGGCAAAATAGTAATTTTAACCACCCA
*
6684824 AGGGGCAAAATTGTAATTTTACACCACCCA
1 AGGGGCAAAATAGTAATTTTA-ACCACCCA
6684854 A
1 A
6684855 CACTTGTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
30 9 0.35
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (29 bp):
AGGGGCAAAATAGTAATTTTAACCACCCA
Found at i:6685124 original size:21 final size:22
Alignment explanation
Indices: 6685099--6685139 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6685089 CCTAGGTGGA
*
6685099 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
6685120 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
6685140 AAAAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:6685140 original size:20 final size:21
Alignment explanation
Indices: 6685099--6685143 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
6685089 CCTAGGTGGA
*
6685099 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
6685120 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
6685140 AAAA
1 AAAA
6685144 AAAAGGTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:6685144 original size:21 final size:20
Alignment explanation
Indices: 6685097--6685144 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
6685087 ACCCTAGGTG
*
6685097 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
6685117 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
6685139 GAAAAA
1 GAAAAA
6685145 AAAGGTAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:6690241 original size:199 final size:199
Alignment explanation
Indices: 6689888--6690268 Score: 557
Period size: 199 Copynumber: 1.9 Consensus size: 199
6689878 CACGAGCATT
* * *
6689888 ATTTATTTCTCCACCAGTAGCTTTGCCCTAAGCATGATTTGACTCCTCCAATTGGCCTCCGTGCG
1 ATTTATTTCTCCACCAGTAGCTTTGCCCTAAGCATGATTTGACTCCACCAATTGGCCACCGTGCA
* * * *
6689953 TGATTTGATTATTTTTAGGGGAAGATCACTCTATGATTGTGATTAGATTTGTGTGCATGACATGA
66 TGATTTGATTATGTCTAGGGGAAAACCACTCTATGATTGTGATTAGATTTGTGTGCATGACATGA
* * * * *
6690018 AATAGCCTCGAATAGGCCTAAATAAATTTCATCTGAATTTGATATGATACTCGCTTTGACACACT
131 AATAGCCTCGAATAAGCCTAAATAAACTTAATATGAATCTGATATGATACTCGCTTTGACACACT
6690083 TGTG
196 TGTG
* * ***
6690087 ATTTATTTCTTTC-CCAGTAGCTTTTCCCTAAGCATGATTTGACTCCACTGGTTGGCCACCGTGC
1 ATTTATTTC-TCCACCAGTAGCTTTGCCCTAAGCATGATTTGACTCCACCAATTGGCCACCGTGC
* *
6690151 ATGATTTGATTATGTCTAGGGGAAAACCACTCTATGTTTGTGATTCGATTTGTGTGCATGACATG
65 ATGATTTGATTATGTCTAGGGGAAAACCACTCTATGATTGTGATTAGATTTGTGTGCATGACATG
* *
6690216 AAATAGCCTCGGATAAGCTTAAATAAACTTAATATGAATCTGATATGATACTC
130 AAATAGCCTCGAATAAGCCTAAATAAACTTAATATGAATCTGATATGATACTC
6690269 TGATGACTAA
Statistics
Matches: 160, Mismatches: 21, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
199 158 0.99
200 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (199 bp):
ATTTATTTCTCCACCAGTAGCTTTGCCCTAAGCATGATTTGACTCCACCAATTGGCCACCGTGCA
TGATTTGATTATGTCTAGGGGAAAACCACTCTATGATTGTGATTAGATTTGTGTGCATGACATGA
AATAGCCTCGAATAAGCCTAAATAAACTTAATATGAATCTGATATGATACTCGCTTTGACACACT
TGTG
Found at i:6690517 original size:84 final size:84
Alignment explanation
Indices: 6690358--6690518 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 84
6690348 GACTCCTTAG
* * *
6690358 GGATGATGATTTCCCATGACATTGGAAATGTTTGCTAAAATGTTTGGTTGCATGGGTAATGCTTT
1 GGATGATGATTTCCCATAACATTGGAAATGTTTGCTAAAATGTTTGGTTGCATGAGTAATGCCTT
*
6690423 ATATAATTATTTTATGTAA
66 AAATAATTATTTTATGTAA
* * * *
6690442 GGATGATGATTTCCCCTAACATTGGAGATGTTTGCTAAAATGTTTTGTTGCACT-AGTAGTGCCT
1 GGATGATGATTTCCCATAACATTGGAAATGTTTGCTAAAATGTTTGGTTGCA-TGAGTAATGCCT
*
6690506 TAAATAGTTATTT
65 TAAATAATTATTT
6690519 GTGTATATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
84 66 0.99
85 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (84 bp):
GGATGATGATTTCCCATAACATTGGAAATGTTTGCTAAAATGTTTGGTTGCATGAGTAATGCCTT
AAATAATTATTTTATGTAA
Found at i:6702254 original size:13 final size:13
Alignment explanation
Indices: 6702236--6702260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6702226 ATTTTCAAAA
6702236 ATTTTATAAAATT
1 ATTTTATAAAATT
6702249 ATTTTATAAAAT
1 ATTTTATAAAAT
6702261 CTCATTTTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:6709723 original size:20 final size:20
Alignment explanation
Indices: 6709698--6709743 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
6709688 TTTTGACCCC
6709698 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
6709718 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
6709738 ATTTGA
1 ATTTGA
6709744 GATTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:6709819 original size:28 final size:27
Alignment explanation
Indices: 6709788--6709840 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
6709778 TTTGGAGTAA
*
6709788 AAGGGTAAAATGGTAATTTTGCCACCCC
1 AAGGGCAAAATGGTAATTTT-CCACCCC
*
6709816 AAGGGCAAAATTGTAATTTTCCACC
1 AAGGGCAAAATGGTAATTTTCCACC
6709841 ATCAGGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (27 bp):
AAGGGCAAAATGGTAATTTTCCACCCC
Found at i:6712842 original size:28 final size:28
Alignment explanation
Indices: 6712809--6712871 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
6712799 TAAATAAATT
6712809 ATAAAATTTAATGTCAATCCTAGACTAC
1 ATAAAATTTAATGTCAATCCTAGACTAC
6712837 ATAAAATTTAATGTCAATCCTAGACTAC
1 ATAAAATTTAATGTCAATCCTAGACTAC
6712865 ATAAAAT
1 ATAAAAT
6712872 GGTAATATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (28 bp):
ATAAAATTTAATGTCAATCCTAGACTAC
Found at i:6714090 original size:14 final size:14
Alignment explanation
Indices: 6714071--6714098 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6714061 TACTTTTAGC
6714071 ATATATATACATAT
1 ATATATATACATAT
6714085 ATATATATACATAT
1 ATATATATACATAT
6714099 TGTAATTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATATACATAT
Found at i:6714313 original size:2 final size:2
Alignment explanation
Indices: 6714302--6714341 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
6714292 TATGTAAACT
*
6714302 TA TA -A TA TA TA TA TA TC 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 TA TA TA TA T
6714342 CTTAAGGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6714889 original size:6 final size:6
Alignment explanation
Indices: 6714878--6714907 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
6714868 TGGGGATGCA
*
6714878 TTAGGG TTAGGG TTAAGG TTAGGG TTAGGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG
6714908 AAGTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (6 bp):
TTAGGG
Found at i:6722215 original size:2 final size:2
Alignment explanation
Indices: 6722203--6722233 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6722193 TACCCACTAA
6722203 AT AT A- 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
6722234 GAAATCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6726953 original size:43 final size:43
Alignment explanation
Indices: 6726905--6727036 Score: 156
Period size: 43 Copynumber: 3.1 Consensus size: 43
6726895 CACCATCCCA
* * *
6726905 TCATCATCAGCTCATGTGTAGTCCCTACTCGCACATGGCTGGG
1 TCATCATCAGCTTATGTGCACTCCCTACTCGCACATGGCTGGG
* * * * ** *
6726948 TCATCACCGGTTTATGTGCACTCCCTACTCGTACATAACCGGG
1 TCATCATCAGCTTATGTGCACTCCCTACTCGCACATGGCTGGG
* *
6726991 TCATCATCAGCTTATGCGCACTCCCTACTCGCACATGGCTGAG
1 TCATCATCAGCTTATGTGCACTCCCTACTCGCACATGGCTGGG
6727034 TCA
1 TCA
6727037 ATATCATTAC
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (43 bp):
TCATCATCAGCTTATGTGCACTCCCTACTCGCACATGGCTGGG
Found at i:6736671 original size:43 final size:43
Alignment explanation
Indices: 6736608--6736716 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 43
6736598 TATTGACTTG
* *
6736608 GCTATGTGCGAGTAGGGAGTGCGAATAAGCCGAG-GACGACCCG
1 GCTATGTGCGAGTAGGGAGTGCGAATAACCCG-GTGACGACCCA
* * *
6736651 GTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGAATAACCCGGTGACGACCCA
* *
6736694 GCCATGTGCTAGTAGGGAGTGCG
1 GCTATGTGCGAGTAGGGAGTGCG
6736717 TATGAGCTGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 56 0.98
ACGTcount: A:0.23, C:0.20, G:0.39, T:0.18
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGAATAACCCGGTGACGACCCA
Found at i:6737064 original size:22 final size:22
Alignment explanation
Indices: 6737033--6737090 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
6737023 GGTCAAAAAC
6737033 TCGCTACAGCGAGAGTGCATTT
1 TCGCTACAGCGAGAGTGCATTT
*
6737055 TCGCTGCAGCGAGAGTGCATTT
1 TCGCTACAGCGAGAGTGCATTT
*
6737077 TTGCTACAGCGAGA
1 TCGCTACAGCGAGA
6737091 ATGACATTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (22 bp):
TCGCTACAGCGAGAGTGCATTT
Found at i:6737229 original size:39 final size:39
Alignment explanation
Indices: 6737130--6737232 Score: 100
Period size: 39 Copynumber: 2.6 Consensus size: 39
6737120 ATTCATTCTC
* * * **
6737130 GCTGCAGCGAGAAACTTTCTGTTTTCTGGGTTGTAATTTT
1 GCTGCAGCGAAAAACATTCTG-TTTCTAGGTTACAATTTT
* *
6737170 GCTACAGC-AAGAAATATTCTGTTTCTAGGTTACAATTTT
1 GCTGCAGCGAA-AAACATTCTGTTTCTAGGTTACAATTTT
* *
6737209 GTTGCAGCGAAAAACCTTCTGTTT
1 GCTGCAGCGAAAAACATTCTGTTT
6737233 TTGTCTCCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
39 33 0.66
40 17 0.34
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (39 bp):
GCTGCAGCGAAAAACATTCTGTTTCTAGGTTACAATTTT
Found at i:6751351 original size:11 final size:11
Alignment explanation
Indices: 6751321--6751380 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
6751311 CAAAACCAAG
6751321 CTTT-TTTCTTC
1 CTTTCTTTC-TC
6751332 CTTTC--TCTC
1 CTTTCTTTCTC
*
6751341 TTTTCTTTCTC
1 CTTTCTTTCTC
6751352 CTTTCTTTCT-
1 CTTTCTTTCTC
*
6751362 -TTCCTTTCTC
1 CTTTCTTTCTC
6751372 CTTTCTTTC
1 CTTTCTTTC
6751381 AACTGATCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
9 14 0.35
10 2 0.05
11 24 0.60
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (11 bp):
CTTTCTTTCTC
Found at i:6751378 original size:20 final size:20
Alignment explanation
Indices: 6751325--6751380 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
6751315 ACCAAGCTTT
* *
6751325 TTTCTTCCTTTCTCTCTTTTC
1 TTTC-TCCTTTCTTTCTTTCC
6751346 TTTCTCCTTTCTTTCTTTCC
1 TTTCTCCTTTCTTTCTTTCC
6751366 TTTCTCCTTTCTTTC
1 TTTCTCCTTTCTTTC
6751381 AACTGATCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 29 0.88
21 4 0.12
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTCTCCTTTCTTTCTTTCC
Found at i:6751947 original size:18 final size:19
Alignment explanation
Indices: 6751903--6751940 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6751893 TTTGACACTG
6751903 AATAAAATATTAATTTATT
1 AATAAAATATTAATTTATT
*
6751922 AATAAAATATTATTTTATT
1 AATAAAATATTAATTTATT
6751941 CTAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAAAATATTAATTTATT
Found at i:6774737 original size:13 final size:13
Alignment explanation
Indices: 6774719--6774743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6774709 GGAAAATGGG
6774719 ATTTTATAAAATA
1 ATTTTATAAAATA
6774732 ATTTTATAAAAT
1 ATTTTATAAAAT
6774744 TTTTAAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:6785339 original size:2 final size:2
Alignment explanation
Indices: 6785332--6785367 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6785322 GACTTTTAGC
*
6785332 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6785368 TTTGTAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6785602 original size:2 final size:2
Alignment explanation
Indices: 6785593--6785626 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6785583 TATATAAACT
6785593 TA TA -A 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 TA T
6785627 CTTAAAGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6785877 original size:10 final size:8
Alignment explanation
Indices: 6785811--6785887 Score: 50
Period size: 8 Copynumber: 9.5 Consensus size: 8
6785801 TTTTTAAGAA
*
6785811 ATATAACT
1 ATATAAAT
*
6785819 ACTATTAAT
1 A-TATAAAT
*
6785828 ATATATAT
1 ATATAAAT
6785836 ATAT-AAT
1 ATATAAAT
* *
6785843 AAAAAAAT
1 ATATAAAT
*
6785851 ATAT-TAT
1 ATATAAAT
*
6785858 ATATACAT
1 ATATAAAT
6785866 ATACTTAAAT
1 ATA--TAAAT
6785876 ATATAAAT
1 ATATAAAT
6785884 ATAT
1 ATAT
6785888 TTATTTTCTA
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
7 10 0.19
8 29 0.56
9 6 0.12
10 7 0.13
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:6786837 original size:20 final size:20
Alignment explanation
Indices: 6786812--6786851 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6786802 TTTTGGAAGT
6786812 TCACCTAACTTATAAATAAC
1 TCACCTAACTTATAAATAAC
6786832 TCACCTAACTTATAAATAAC
1 TCACCTAACTTATAAATAAC
6786852 ACTTCTGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
TCACCTAACTTATAAATAAC
Found at i:6791035 original size:14 final size:15
Alignment explanation
Indices: 6791005--6791039 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6790995 ATGATTGTTT
*
6791005 ATTATTTTAAGAGTG
1 ATTATATTAAGAGTG
6791020 ATTATATTAA-AGTG
1 ATTATATTAAGAGTG
6791034 ATTATA
1 ATTATA
6791040 AAAAAAATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (15 bp):
ATTATATTAAGAGTG
Found at i:6800393 original size:21 final size:21
Alignment explanation
Indices: 6800351--6800393 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6800341 CTTGTACCGG
*
6800351 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
6800372 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
6800393 T
1 T
6800394 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:6808573 original size:21 final size:21
Alignment explanation
Indices: 6808531--6808573 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6808521 CTTGTACCGG
*
6808531 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
6808552 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
6808573 T
1 T
6808574 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:6820692 original size:42 final size:42
Alignment explanation
Indices: 6820633--6820725 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
6820623 TTGGACCTGG
6820633 CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGA
1 CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGA
* * * *
6820675 CTATGTGTGAGTGGGAGTGCACATAAGTCGTTGCTGACCCGG
1 CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGA
*
6820717 CTATATGCG
1 CTATGTGCG
6820726 CATAAGCCGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.25
Consensus pattern (42 bp):
CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGA
Found at i:6830510 original size:43 final size:43
Alignment explanation
Indices: 6830446--6830554 Score: 141
Period size: 43 Copynumber: 2.5 Consensus size: 43
6830436 ATATTGACTA
* *
6830446 AGCTATGTGTGAGTAGGGAGTGCGCATAAGCC-GAGGATAACCC
1 AGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGA-GATAACCC
* *
6830489 -GATTATGTGCGAGTAGGGAGTGCGCATAACCCGGAGATGACCC
1 AG-CTATGTGCGAGTAGGGAGTGCGCATAACCCGGAGATAACCC
*
6830532 AGCCATGTGCGAGTAGGGAGTGC
1 AGCTATGTGCGAGTAGGGAGTGC
6830555 ACATGAGTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
42 1 0.02
43 53 0.93
44 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.37, T:0.18
Consensus pattern (43 bp):
AGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGAGATAACCC
Found at i:6830625 original size:23 final size:23
Alignment explanation
Indices: 6830566--6830627 Score: 88
Period size: 23 Copynumber: 2.6 Consensus size: 23
6830556 CATGAGTTGG
*
6830566 TGATGATGATGGTATGATGGTGTGTA
1 TGATGATGATGG---GATGGTGTGCA
6830592 TGATGATGATGGGATGGTGTGCA
1 TGATGATGATGGGATGGTGTGCA
6830615 TGATGATGATGGG
1 TGATGATGATGGG
6830628 CATACGTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 23 0.66
26 12 0.34
ACGTcount: A:0.23, C:0.02, G:0.42, T:0.34
Consensus pattern (23 bp):
TGATGATGATGGGATGGTGTGCA
Found at i:6839892 original size:2 final size:2
Alignment explanation
Indices: 6839887--6839935 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6839877 TATATATATA
6839887 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6839929 TG TG TG T
1 TG TG TG T
6839936 TGTTANAGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:6839986 original size:2 final size:2
Alignment explanation
Indices: 6839981--6840033 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
6839971 TATATATATA
6839981 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
6840023 CG TG TG TG TG T
1 TG TG TG TG TG T
6840034 TATTTGTATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.02, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:6846080 original size:35 final size:35
Alignment explanation
Indices: 6846036--6846166 Score: 124
Period size: 35 Copynumber: 3.8 Consensus size: 35
6846026 GTTAGTTTTG
*
6846036 GGTTTTGGTTGATCCTGGGAAAAACCATTGTTAAA
1 GGTTTTGGTTGATCCTGTGAAAAACCATTGTTAAA
* * * ** *
6846071 GGTTATGGTTGAGCCTTTGAAATGCCATT-TT--G
1 GGTTTTGGTTGATCCTGTGAAAAACCATTGTTAAA
*
6846103 GGTTTTGGTTGATCCAGTGAAAAACCATTGTTAAA
1 GGTTTTGGTTGATCCTGTGAAAAACCATTGTTAAA
* * * * *
6846138 GGTTGTGGCTGAGCTTGTGAAAAGCCATT
1 GGTTTTGGTTGATCCTGTGAAAAACCATT
6846167 ATAATAGCTT
Statistics
Matches: 73, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
32 23 0.32
33 2 0.03
34 2 0.03
35 46 0.63
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (35 bp):
GGTTTTGGTTGATCCTGTGAAAAACCATTGTTAAA
Found at i:6846108 original size:67 final size:67
Alignment explanation
Indices: 6846031--6846166 Score: 211
Period size: 67 Copynumber: 2.0 Consensus size: 67
6846021 GAAAAGTTAG
* * *
6846031 TTTTGGGTTTTGGTTGATCCTGGGAAAAACCATTGTTAAAGGTTATGGTTGAGCCTT-TGAAATG
1 TTTTGGGTTTTGGTTGATCCAGGGAAAAACCATTGTTAAAGGTTATGGCTGAG-CTTGTGAAAAG
6846095 CCA
65 CCA
* *
6846098 TTTTGGGTTTTGGTTGATCCAGTGAAAAACCATTGTTAAAGGTTGTGGCTGAGCTTGTGAAAAGC
1 TTTTGGGTTTTGGTTGATCCAGGGAAAAACCATTGTTAAAGGTTATGGCTGAGCTTGTGAAAAGC
6846163 CA
66 CA
6846165 TT
1 TT
6846167 ATAATAGCTT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 3 0.05
67 60 0.95
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (67 bp):
TTTTGGGTTTTGGTTGATCCAGGGAAAAACCATTGTTAAAGGTTATGGCTGAGCTTGTGAAAAGC
CA
Found at i:6846124 original size:32 final size:32
Alignment explanation
Indices: 6846031--6846131 Score: 103
Period size: 32 Copynumber: 3.1 Consensus size: 32
6846021 GAAAAGTTAG
*
6846031 TTTTGGGTTTTGGTTGATCCTGGGAAAAACCA
1 TTTTGGGTTTTGGTTGATCCTGTGAAAAACCA
* * * * **
6846063 TTGTTAAAGGTTATGGTTGAGCCTTTGAAATGCCA
1 TT-TT--GGGTTTTGGTTGATCCTGTGAAAAACCA
*
6846098 TTTTGGGTTTTGGTTGATCCAGTGAAAAACCA
1 TTTTGGGTTTTGGTTGATCCTGTGAAAAACCA
6846130 TT
1 TT
6846132 GTTAAAGGTT
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
32 25 0.48
33 2 0.04
34 2 0.04
35 23 0.44
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.39
Consensus pattern (32 bp):
TTTTGGGTTTTGGTTGATCCTGTGAAAAACCA
Found at i:6847082 original size:21 final size:19
Alignment explanation
Indices: 6847051--6847091 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 19
6847041 TTGTGAACTT
6847051 AATTCATATGCTTTTGAGG
1 AATTCATATGCTTTTGAGG
6847070 AATTGCATGATGCTTTTGAGG
1 AATT-CAT-ATGCTTTTGAGG
6847091 A
1 A
6847092 TTTATCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 13 0.65
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (19 bp):
AATTCATATGCTTTTGAGG
Found at i:6852434 original size:14 final size:14
Alignment explanation
Indices: 6852415--6852441 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6852405 CAAAATTTAT
6852415 TAATTAACTAAAAC
1 TAATTAACTAAAAC
6852429 TAATTAACTAAAA
1 TAATTAACTAAAA
6852442 TTAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:6857449 original size:35 final size:35
Alignment explanation
Indices: 6857410--6857508 Score: 89
Period size: 35 Copynumber: 2.9 Consensus size: 35
6857400 TTTTGGGTTT
6857410 TGGTTGATCCTTGGAAAAACCATTGTTAAAGGCTC
1 TGGTTGATCCTTGGAAAAACCATTGTTAAAGGCTC
* * * * * * *
6857445 TGGTTAAGCCTTTGAAAAGCCATT-TT--GGGTTT
1 TGGTTGATCCTTGGAAAAACCATTGTTAAAGGCTC
*
6857477 TGGTTGAT-CTAGTGAAAAACCATTGTTAAAGG
1 TGGTTGATCCTTG-GAAAAACCATTGTTAAAGG
6857509 TTGTGGCTGA
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
31 2 0.04
32 19 0.40
33 2 0.04
34 2 0.04
35 22 0.47
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (35 bp):
TGGTTGATCCTTGGAAAAACCATTGTTAAAGGCTC
Found at i:6857480 original size:67 final size:68
Alignment explanation
Indices: 6857381--6857508 Score: 197
Period size: 67 Copynumber: 1.9 Consensus size: 68
6857371 AGGTTCTAAC
** *
6857381 TAAGCCTTAGAAAAGTTAGTTTTGGGTTTTGGTTGATCCTTG-GAAAAACCATTGTTAAAGGCTC
1 TAAGCCTTAGAAAAGCCAGTTTTGGGTTTTGGTTGAT-CTAGTGAAAAACCATTGTTAAAGGCTC
6857445 TGGT
65 TGGT
*
6857449 TAAGCCTTTGAAAAGCCA-TTTTGGGTTTTGGTTGATCTAGTGAAAAACCATTGTTAAAGG
1 TAAGCCTTAGAAAAGCCAGTTTTGGGTTTTGGTTGATCTAGTGAAAAACCATTGTTAAAGG
6857509 TTGTGGCTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
66 3 0.05
67 37 0.67
68 15 0.27
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (68 bp):
TAAGCCTTAGAAAAGCCAGTTTTGGGTTTTGGTTGATCTAGTGAAAAACCATTGTTAAAGGCTCT
GGT
Found at i:6857528 original size:67 final size:67
Alignment explanation
Indices: 6857400--6857535 Score: 186
Period size: 67 Copynumber: 2.0 Consensus size: 67
6857390 GAAAAGTTAG
* * *
6857400 TTTTGGGTTTTGGTTGATCCTTGGAAAAACCATTGTTAAAGGCTCTGGTTAAGCCTTTGAAAAGC
1 TTTTGGGTTTTGGTTGATCCTAGGAAAAACCATTGTTAAAGGCTCTGGCTAAGCATTTGAAAAGC
6857465 CA
66 CA
* * *
6857467 TTTTGGGTTTTGGTTGAT-CTAGTGAAAAACCATTGTTAAAGGTTGTGGCTGAG-ATTGTGAAAA
1 TTTTGGGTTTTGGTTGATCCTAG-GAAAAACCATTGTTAAAGGCTCTGGCTAAGCATT-TGAAAA
6857530 GCCA
64 GCCA
6857534 TT
1 TT
6857536 GTAAAAGCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
66 5 0.08
67 56 0.92
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.37
Consensus pattern (67 bp):
TTTTGGGTTTTGGTTGATCCTAGGAAAAACCATTGTTAAAGGCTCTGGCTAAGCATTTGAAAAGC
CA
Found at i:6861958 original size:31 final size:31
Alignment explanation
Indices: 6861920--6861981 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
6861910 GTATTAGCCA
6861920 AAGTATTGTCATTCATTGCCATCTCATAATG
1 AAGTATTGTCATTCATTGCCATCTCATAATG
6861951 AAGTATTGTCATTCATTGCCATCTCATAATG
1 AAGTATTGTCATTCATTGCCATCTCATAATG
6861982 GCATCATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (31 bp):
AAGTATTGTCATTCATTGCCATCTCATAATG
Found at i:6862967 original size:36 final size:36
Alignment explanation
Indices: 6862927--6863027 Score: 139
Period size: 36 Copynumber: 2.8 Consensus size: 36
6862917 TAACCAGAGT
*
6862927 CATCGTGTGCACCCCCACATCGTGCACAGCTAATGC
1 CATCGTGTGCTCCCCCACATCGTGCACAGCTAATGC
* *
6862963 CATCGTGTACTCCCCCACATCGCGCACAGCTAATGC
1 CATCGTGTGCTCCCCCACATCGTGCACAGCTAATGC
* ** *
6862999 CATTGTGTGCTCCCTGACATCGTCCACAG
1 CATCGTGTGCTCCCCCACATCGTGCACAG
6863028 GCAATATCAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.21, C:0.39, G:0.19, T:0.22
Consensus pattern (36 bp):
CATCGTGTGCTCCCCCACATCGTGCACAGCTAATGC
Found at i:6870861 original size:19 final size:17
Alignment explanation
Indices: 6870815--6870868 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 17
6870805 TTTATAATAT
*
6870815 AAATTAT-TATATTAAA
1 AAATTATATAAATTAAA
6870831 AAA-TATATAAATTAAA
1 AAATTATATAAATTAAA
*
6870847 AAATTATATAAAAATAAA
1 AAATTATAT-AAATTAAA
6870865 AAAT
1 AAAT
6870869 AATTAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 3 0.09
16 14 0.42
17 5 0.15
18 11 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTATATAAATTAAA
Found at i:6877251 original size:28 final size:27
Alignment explanation
Indices: 6877205--6877258 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
6877195 ATGTCCTGGT
** *
6877205 GGTGGAAAATTACTGTTTTGCCCCTAG
1 GGTGGAAAATTACCATTTTACCCCTAG
6877232 GGTGGTAAAATTACCATTTTACCCCTA
1 GGTGG-AAAATTACCATTTTACCCCTA
6877259 TGCTCTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACCATTTTACCCCTAG
Found at i:6890449 original size:2 final size:2
Alignment explanation
Indices: 6890392--6890431 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6890382 NNNNNNNNNN
6890392 TA TA TA TA 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 TA TA TA TA
6890432 CTTTTAACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6919922 original size:13 final size:13
Alignment explanation
Indices: 6919904--6919929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6919894 AAGAGAAATT
6919904 ATGATTTTATAAA
1 ATGATTTTATAAA
6919917 ATGATTTTATAAA
1 ATGATTTTATAAA
6919930 TTTTCTGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:6922207 original size:2 final size:2
Alignment explanation
Indices: 6922200--6922247 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
6922190 TACTTTTAGC
6922200 AT AT AT AT AT 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 AT AT AT AT AT
6922242 AT AT AT
1 AT AT AT
6922248 TGTAATAAGG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6922472 original size:2 final size:2
Alignment explanation
Indices: 6922463--6922492 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6922453 TATATAAACT
6922463 TA TA -A 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 T
6922493 CTTAAGGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6922785 original size:15 final size:17
Alignment explanation
Indices: 6922755--6922787 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
6922745 TATTTTGTGT
6922755 TAACATTACAAAAATTA
1 TAACATTACAAAAATTA
6922772 TAAC-TTAC-AAAATTA
1 TAACATTACAAAAATTA
6922787 T
1 T
6922788 TAATTATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 4 0.25
17 4 0.25
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (17 bp):
TAACATTACAAAAATTA
Found at i:6924024 original size:48 final size:47
Alignment explanation
Indices: 6923972--6924144 Score: 164
Period size: 48 Copynumber: 3.8 Consensus size: 47
6923962 CTGTTTATTT
* *
6923972 GGCATTAGGTGCCTGAATATTTGTTGAGCATTGCATGAGTTCTTTATA
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCATGAG-TCTTTATA
* * * * **
6924020 GGCATTATGTGACTGAATATATGTTGAGCGTTGCGTGA--CAGT-TA
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCATGAGTCTTTATA
* *
6924064 --C--TACGTGACTGAATATTTGTTGAGCATTGCGTTAGATCTTTATA
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCATGAG-TCTTTATA
* *
6924108 GGCGTTACGTGACTGAATATTTGTT-AGCGTTGCATGA
1 GGCATTACGTGACTGAATATTTGTTGAGCATTGCATGA
6924145 CAGGCGTTAC
Statistics
Matches: 101, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
40 29 0.29
42 1 0.01
43 2 0.02
44 4 0.04
45 2 0.02
46 1 0.01
47 9 0.09
48 53 0.52
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.38
Consensus pattern (47 bp):
GGCATTACGTGACTGAATATTTGTTGAGCATTGCATGAGTCTTTATA
Found at i:6924089 original size:88 final size:87
Alignment explanation
Indices: 6923984--6924147 Score: 256
Period size: 88 Copynumber: 1.9 Consensus size: 87
6923974 CATTAGGTGC
* *
6923984 CTGAATATTTGTTGAGCATTGCATGAGTTCTTTATAGGCATTATGTGACTGAATATATGTTGAGC
1 CTGAATATTTGTTGAGCATTGCATGAGATCTTTATAGGCATTACGTGACTGAATATATGTT-AGC
*
6924049 GTTGCGTGACAGTTACTACGTGA
65 GTTGCATGACAGTTACTACGTGA
* * * *
6924072 CTGAATATTTGTTGAGCATTGCGTTAGATCTTTATAGGCGTTACGTGACTGAATATTTGTTAGCG
1 CTGAATATTTGTTGAGCATTGCATGAGATCTTTATAGGCATTACGTGACTGAATATATGTTAGCG
6924137 TTGCATGACAG
66 TTGCATGACAG
6924148 GCGTTACGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 14 0.20
88 55 0.80
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (87 bp):
CTGAATATTTGTTGAGCATTGCATGAGATCTTTATAGGCATTACGTGACTGAATATATGTTAGCG
TTGCATGACAGTTACTACGTGA
Found at i:6924786 original size:30 final size:30
Alignment explanation
Indices: 6924750--6924839 Score: 144
Period size: 30 Copynumber: 3.0 Consensus size: 30
6924740 GGAGGTGCCT
*
6924750 TTGAGTGTAAGGGACCAGTTGCACATATTC
1 TTGAGTGTGAGGGACCAGTTGCACATATTC
* * *
6924780 TTGAGTGTGAGGGACAAATTACACATATTC
1 TTGAGTGTGAGGGACCAGTTGCACATATTC
6924810 TTGAGTGTGAGGGACCAGTTGCACATATTC
1 TTGAGTGTGAGGGACCAGTTGCACATATTC
6924840 CAGCAGGAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (30 bp):
TTGAGTGTGAGGGACCAGTTGCACATATTC
Found at i:6925697 original size:110 final size:109
Alignment explanation
Indices: 6925475--6925906 Score: 442
Period size: 110 Copynumber: 3.8 Consensus size: 109
6925465 GGTGCGTGAC
* *
6925475 TGACTTATGCAATTCATGTGTTGCTTT-GAGGCTCTTGTTCAGTAGTTTTTTAGGTAGTGCGTGA
1 TGACTTGTGCAATTCATGTGTTG-TTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGT--TGCGTGA
* * * * *
6925539 CTGGTTTTTATATATTGCATTAGC-TGTTGTAGCTAGAGTGGTGGCGCG
63 CTGATTTTTATATATTACGTGA-CTTGTTGTAGGT-GAGTGGTGGCGCG
* * * *
6925587 TGATTTGTGCAATTTATGTGTTGTTTTGAGGCTTTTGTTTAGTAG-TTTTTAGGCTTGCGTGACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGG-TTGCGTGACT
*
6925651 GATTTTTATATATTACGTTACTTGTTGTAGAGTGAGTGGTGGCGCG
65 GATTTTTATATATTACGTGACTTGTTGTAG-GTGAGTGGTGGCGCG
* *
6925697 TGACTTGTGCAATCCATGTGTTGTTTAGGGGCTTTTGTTCAGTAG-TTTTTAGGGTTGCGTGA-T
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTA-GGTTGCGTGACT
* * ** *
6925760 CGAATTTTATATATTACGTGACGTGTTGTTATGTATTGCGAGAGTGGTTACACG
65 -GATTTTTATATATTACGTGAC---TTG-T-TGTA--G-GTGAGTGGTGGCGCG
* * *
6925814 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGAATTGTGTTACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAG-GTTGCGTGACT
* * *
6925879 GGTTTTTATGTATTACGTGACCTGTTGT
65 GATTTTTATATATTACGTGACTTGTTGT
6925907 TATATATTGC
Statistics
Matches: 273, Mismatches: 31, Indels: 31
0.81 0.09 0.09
Matches are distributed among these distances:
109 2 0.01
110 119 0.44
111 14 0.05
112 37 0.14
113 6 0.02
114 2 0.01
115 6 0.02
117 56 0.21
118 30 0.11
119 1 0.00
ACGTcount: A:0.17, C:0.10, G:0.27, T:0.45
Consensus pattern (109 bp):
TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGTTGCGTGACTG
ATTTTTATATATTACGTGACTTGTTGTAGGTGAGTGGTGGCGCG
Found at i:6925936 original size:118 final size:117
Alignment explanation
Indices: 6925689--6925945 Score: 336
Period size: 118 Copynumber: 2.2 Consensus size: 117
6925679 AGAGTGAGTG
* * **
6925689 GTGGCGCGTGACTTGTGCAATCCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTTTTTAGGGTTG
1 GTGGCGCGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGAATTG
* * ***
6925754 CGTGATCGAATTTTATATATTACGTGACGTGTTGTTATGTATTGCGAGAGTG
66 CGTGATCGAATTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAACC
** *
6925806 GTTACACGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGAATT
1 GTGGCGCGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAG-TTTTTAGAATT
* * ** *
6925871 GTGTTA-CTGGTTTTTATGTATTACGTGACCTGTTGTTATATATTGCGAGAACC
65 GCGTGATC-GAATTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAACC
6925924 GTGGCGCGTGACTTGTGCAATT
1 GTGGCGCGTGACTTGTGCAATT
6925946 TGCCTCTTGT
Statistics
Matches: 118, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
117 49 0.42
118 69 0.58
ACGTcount: A:0.18, C:0.12, G:0.28, T:0.42
Consensus pattern (117 bp):
GTGGCGCGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTAGAATTG
CGTGATCGAATTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAACC
Found at i:6925956 original size:118 final size:116
Alignment explanation
Indices: 6925689--6925978 Score: 323
Period size: 118 Copynumber: 2.5 Consensus size: 116
6925679 AGAGTGAGTG
* **
6925689 GTGGCGCGTGACTTGTGCAATCCATGTGTTGTTTAGGGGCTTTTGTTCAGTAG-TTTTTAGGGTT
1 GTGGCGCGTGACTTGTGCAAT--TTGTGTTGTTTAGGGGCTTTTGTTCAGTAGTTTTTTAGAATT
* * ***
6925753 GCGTGATCGAATTTTATATATTACGTGACGTGTTGTTATGTATTGCGAGAGTG
64 GCGTGATCGAATTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAACC
** * *
6925806 GTTACACGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGAATT
1 GTGGCGCGTGACTTGTGCAATT--TGTGTTGTTTAGGGGCTTTTGTTCAGTAGTTTTTTAGAATT
* * ** *
6925871 GTGTTA-CTGGTTTTTATGTATTACGTGACCTGTTGTTATATATTGCGAGAACC
64 GCGTGATC-GAATTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAACC
* * *
6925924 GTGGCGCGTGACTTGTGCAATTTGCCTCTTGTTTAGGGGCGTTTGTTCACTAGTT
1 GTGGCGCGTGACTTGTGCAATTTG--TGTTGTTTAGGGGCTTTTGTTCAGTAGTT
6925979 ATTAGGCATT
Statistics
Matches: 143, Mismatches: 24, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
116 2 0.01
117 47 0.33
118 94 0.66
ACGTcount: A:0.17, C:0.13, G:0.28, T:0.42
Consensus pattern (116 bp):
GTGGCGCGTGACTTGTGCAATTTGTGTTGTTTAGGGGCTTTTGTTCAGTAGTTTTTTAGAATTGC
GTGATCGAATTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAACC
Found at i:6935315 original size:26 final size:26
Alignment explanation
Indices: 6935284--6935335 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
6935274 ATGAATGAAT
* * *
6935284 ACAAAGAATTATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATAATACA
6935310 ACAAAGAATAATATGGAAATAATACA
1 ACAAAGAATAATATGGAAATAATACA
6935336 GAATAATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.23
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATAATACA
Found at i:6939464 original size:24 final size:24
Alignment explanation
Indices: 6939437--6939484 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6939427 GCATCGCCCC
6939437 CTGGATCTCCAACTGCATTGACTG
1 CTGGATCTCCAACTGCATTGACTG
*
6939461 CTGGATTTCCAACTGCATTGACTG
1 CTGGATCTCCAACTGCATTGACTG
6939485 TATCTGCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (24 bp):
CTGGATCTCCAACTGCATTGACTG
Found at i:6939681 original size:24 final size:24
Alignment explanation
Indices: 6939652--6939701 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
6939642 GGCTCAACAT
**
6939652 GAGGGGCAACACCCGAAGCAGGAG
1 GAGGGGCAACACCAAAAGCAGGAG
* *
6939676 GAGGGGCAGCAGCAAAAGCAGGAG
1 GAGGGGCAACACCAAAAGCAGGAG
6939700 GA
1 GA
6939702 TCAGCAGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.20, G:0.44, T:0.00
Consensus pattern (24 bp):
GAGGGGCAACACCAAAAGCAGGAG
Found at i:6940093 original size:16 final size:16
Alignment explanation
Indices: 6940063--6940092 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6940053 TACCCTATGA
6940063 TAATCAAAATAAAAAT
1 TAATCAAAATAAAAAT
6940079 TAAT-AAAATAAAAA
1 TAATCAAAATAAAAA
6940093 AAATATGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
TAATCAAAATAAAAAT
Found at i:6942665 original size:61 final size:61
Alignment explanation
Indices: 6942573--6942695 Score: 219
Period size: 61 Copynumber: 2.0 Consensus size: 61
6942563 CAATGTTCAA
*
6942573 TTTTAACTTCACTCAATCACATAGAAAAGCTCCACGTCTGAACTCCATTTACTTAACAATT
1 TTTTAACTTCACTCAATCACATAGAAAAGCTCCAAGTCTGAACTCCATTTACTTAACAATT
* *
6942634 TTTTAACTTCACTCAATCACATAGAAGAGCTCCAAGTCTGAACTCCATTTACTTAACCATT
1 TTTTAACTTCACTCAATCACATAGAAAAGCTCCAAGTCTGAACTCCATTTACTTAACAATT
6942695 T
1 T
6942696 GCAAAAGTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.33
Consensus pattern (61 bp):
TTTTAACTTCACTCAATCACATAGAAAAGCTCCAAGTCTGAACTCCATTTACTTAACAATT
Found at i:6946720 original size:28 final size:28
Alignment explanation
Indices: 6946679--6946742 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
6946669 TATAAATATA
6946679 AACATAACACGGACTGACTCGTCAGCAG
1 AACATAACACGGACTGACTCGTCAGCAG
* *
6946707 AACATAACATGGACTGACTCGTCAGCGG
1 AACATAACACGGACTGACTCGTCAGCAG
6946735 AACATAAC
1 AACATAAC
6946743 CCGACTCACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.16
Consensus pattern (28 bp):
AACATAACACGGACTGACTCGTCAGCAG
Found at i:6947156 original size:20 final size:20
Alignment explanation
Indices: 6947131--6947203 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
6947121 GCAACAATCC
6947131 TATCGATACATTATGGAATG
1 TATCGATACATTATGGAATG
* * *
6947151 TATCGATACATGCAGGGAATC
1 TATCGATACAT-TATGGAATG
**
6947172 TATCGATACCCT-TGGTAATG
1 TATCGATACATTATGG-AATG
*
6947192 TATTGATACATT
1 TATCGATACATT
6947204 TCATATAAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 2 0.05
20 23 0.57
21 15 0.38
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (20 bp):
TATCGATACATTATGGAATG
Found at i:6947175 original size:21 final size:20
Alignment explanation
Indices: 6947130--6947180 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
6947120 TGCAACAATC
* *
6947130 CTATCGATACATTATGGAAT
1 CTATCGATACATCAGGGAAT
*
6947150 GTATCGATACATGCAGGGAAT
1 CTATCGATACAT-CAGGGAAT
6947171 CTATCGATAC
1 CTATCGATAC
6947181 CCTTGGTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (20 bp):
CTATCGATACATCAGGGAAT
Found at i:6949866 original size:21 final size:21
Alignment explanation
Indices: 6949836--6949915 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
6949826 CTAGGAAAAT
* *
6949836 TGTATTGATACATTATGAACA
1 TGTATCGATACATTATGAATA
*
6949857 TGTATCGATACATGACT--ATA
1 TGTATCGATACATTA-TGAATA
* * *
6949877 TATATCAATACATCATGAATA
1 TGTATCGATACATTATGAATA
6949898 TGTATCGATACATT-TGAA
1 TGTATCGATACATTATGAA
6949916 ATATAATGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.38
21 27 0.57
22 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTATGAATA
Found at i:6951082 original size:68 final size:68
Alignment explanation
Indices: 6950927--6951088 Score: 202
Period size: 68 Copynumber: 2.4 Consensus size: 68
6950917 GCCCAACTTT
* * *
6950927 ACCTTGTGGTATTCTTACCACCACACTGGGATTCATGAAGGAAAAAAATGGCCTGTTCACTAATC
1 ACCTTGTGGTATTCTTACCCCCACACTGGGATTCATGAAGGAAAAAAATGGCCTATTCACTAACC
6950992 TTG
66 TTG
* * * * * *
6950995 ATCATGTGGTATTCTTACCCCCATATTGGGATTCAT-AAGGGAAAAAGATGGCAC-ATTCACTAG
1 ACCTTGTGGTATTCTTACCCCCACACTGGGATTCATGAA-GGAAAAAAATGGC-CTATTCACTAA
6951058 CCTTG
64 CCTTG
*
6951063 ACCTTGTGGTATTCTTACCCTCACAC
1 ACCTTGTGGTATTCTTACCCCCACAC
6951089 CGAGCTAAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
67 2 0.03
68 75 0.96
69 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (68 bp):
ACCTTGTGGTATTCTTACCCCCACACTGGGATTCATGAAGGAAAAAAATGGCCTATTCACTAACC
TTG
Found at i:6953335 original size:10 final size:11
Alignment explanation
Indices: 6953312--6953353 Score: 52
Period size: 10 Copynumber: 4.0 Consensus size: 11
6953302 ATTTAAGTTG
*
6953312 TTTTATTTTAA
1 TTTTACTTTAA
6953323 TTTTACTTT-A
1 TTTTACTTTAA
*
6953333 TTTTTCTTTAA
1 TTTTACTTTAA
6953344 TTTT-CTTTAA
1 TTTTACTTTAA
6953354 AAAGAGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 15 0.54
11 13 0.46
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTTACTTTAA
Found at i:6954672 original size:11 final size:11
Alignment explanation
Indices: 6954651--6954680 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
6954641 TATTAGTTAA
6954651 TTTAATGTTTAT
1 TTTAAT-TTTAT
6954663 TTTAATTTTAT
1 TTTAATTTTAT
6954674 TTTAATT
1 TTTAATT
6954681 AATTTTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (11 bp):
TTTAATTTTAT
Found at i:6960950 original size:2 final size:2
Alignment explanation
Indices: 6960938--6960987 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
6960928 TTAATTAACC
*
6960938 AT AT GT AT AT 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 AT AT AT AT AT
6960980 AT AT AT AT
1 AT AT AT AT
6960988 TAAAGAATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6961998 original size:24 final size:24
Alignment explanation
Indices: 6961971--6962050 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
6961961 CAGCTCATCC
6961971 TTTTCTTCTTTCTTCTTTTTTTTA
1 TTTTCTTCTTTCTTCTTTTTTTTA
* *
6961995 TTTTCTT-TTTTTTCTCTTTTTTTC
1 TTTTCTTCTTTCTTCT-TTTTTTTA
*
6962019 TTTCTTTTCTTTTCTCTCTTCTTTTTTA
1 TTT-TCTTC-TTTCT-TCTT-TTTTTTA
6962047 TTTT
1 TTTT
6962051 TTGATTTTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
23 7 0.16
24 17 0.38
25 3 0.07
27 6 0.13
28 12 0.27
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTCTTCTTTCTTCTTTTTTTTA
Found at i:6962002 original size:14 final size:14
Alignment explanation
Indices: 6961983--6962031 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
6961973 TTCTTCTTTC
*
6961983 TTCTTTTTTTTATT
1 TTCTTTTTTTTCTT
6961997 TTCTTTTTTTTCTCT
1 TTCTTTTTTTTCT-T
*
6962012 TT-TTTTCTTTCTT
1 TTCTTTTTTTTCTT
6962025 TTCTTTT
1 TTCTTTT
6962032 CTCTCTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 3 0.10
14 25 0.81
15 3 0.10
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (14 bp):
TTCTTTTTTTTCTT
Found at i:6962008 original size:33 final size:33
Alignment explanation
Indices: 6961971--6962033 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
6961961 CAGCTCATCC
*
6961971 TTTTCT-TCTTTCTTCTTTTTTTTATTTTCTTTT
1 TTTTCTCT-TTTCTTCTTTCTTTTATTTTCTTTT
* *
6962004 TTTTCTCTTTTTTTCTTTCTTTTCTTTTCT
1 TTTTCTCTTTTCTTCTTTCTTTTATTTTCT
6962034 CTCTTCTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (33 bp):
TTTTCTCTTTTCTTCTTTCTTTTATTTTCTTTT
Found at i:6962026 original size:28 final size:28
Alignment explanation
Indices: 6961970--6962050 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 28
6961960 CCAGCTCATC
6961970 CTTTTCT-TCTTTCTTCTTTTTTTTATTTT
1 CTTTTCTCTC-TTCTT-TTTTTTTTATTTT
* * *
6961999 CTTTTTTTTC-TCTTTTTTTCTTTCTTTT
1 CTTTTCTCTCTTCTTTTTTT-TTTATTTT
6962027 CTTTTCTCTCTTCTTTTTTATTTT
1 CTTTTCTCTCTTCTTTTTT-TTTT
6962051 TTGATTTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.11
28 19 0.43
29 17 0.39
30 3 0.07
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (28 bp):
CTTTTCTCTCTTCTTTTTTTTTTATTTT
Found at i:6962032 original size:14 final size:14
Alignment explanation
Indices: 6961970--6962038 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
6961960 CCAGCTCATC
6961970 CTTTTC-TTCTTTCTT
1 CTTTTCTTTC-TT-TT
* *
6961985 CTTTTTTTTATTTT
1 CTTTTCTTTCTTTT
*
6961999 CTTTTTTTTCTCTTT
1 CTTTTCTTTCT-TTT
6962014 -TTTTCTTTCTTTT
1 CTTTTCTTTCTTTT
*
6962027 CTTTTCTCTCTT
1 CTTTTCTTTCTT
6962039 CTTTTTTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 3 0.07
14 31 0.67
15 10 0.22
16 2 0.04
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTTTCTTTCTTTT
Done.