Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 22 of 121
Found at i:3950613 original size:21 final size:22
Alignment explanation
Indices: 3950587--3950635 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
3950577 AGTTAATTAT
3950587 TGATAACTTAATAATAAATAAG
1 TGATAACTTAATAATAAATAAG
* * *
3950609 T-ATAATTTAATAGTAAATTAG
1 TGATAACTTAATAATAAATAAG
3950630 TGATAA
1 TGATAA
3950636 TGTGATAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (22 bp):
TGATAACTTAATAATAAATAAG
Found at i:3950643 original size:22 final size:21
Alignment explanation
Indices: 3950595--3950650 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
3950585 ATTGATAACT
* * *
3950595 TAATAATAAATAAGTATAATT
1 TAATAGTAAATTAGTATAATG
3950616 TAATAGTAAATTAGTGATAATG
1 TAATAGTAAATTAGT-ATAATG
*
3950638 TGATAGTAAATTA
1 TAATAGTAAATTA
3950651 ATTTTGGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (21 bp):
TAATAGTAAATTAGTATAATG
Found at i:3950648 original size:43 final size:43
Alignment explanation
Indices: 3950532--3950635 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 43
3950522 TATAATATTA
* * * * *
3950532 TAATAGTAAATCAATGATAACTTATTAAAAAATTA--ATAATT
1 TAATAGTAAATTAGTGATAACTTAATAATAAATAAGTATAATT
* * *
3950573 TAGTAGTTAATTATTGATAACTTAATAATAAATAAGTATAATT
1 TAATAGTAAATTAGTGATAACTTAATAATAAATAAGTATAATT
3950616 TAATAGTAAATTAGTGATAA
1 TAATAGTAAATTAGTGATAA
3950636 TGTGATAGTA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 28 0.55
43 23 0.45
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (43 bp):
TAATAGTAAATTAGTGATAACTTAATAATAAATAAGTATAATT
Found at i:3951547 original size:13 final size:14
Alignment explanation
Indices: 3951521--3951553 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3951511 AGTGAGAATA
*
3951521 AAAAATAATCAATT
1 AAAAATAATAAATT
3951535 AAAAAT-ATAAATT
1 AAAAATAATAAATT
3951548 AAAAAT
1 AAAAAT
3951554 TGTTTAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAATAATAAATT
Found at i:3951626 original size:20 final size:20
Alignment explanation
Indices: 3951601--3951651 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 20
3951591 TATTTTATGT
3951601 TAAAAATAGTTTTAAATTAA
1 TAAAAATAGTTTTAAATTAA
*
3951621 TAAAAATACTATTTTTAAATTAA
1 T-AAAA-A-TAGTTTTAAATTAA
*
3951644 TATAAATA
1 TAAAAATA
3951652 ATAGTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 5 0.19
22 4 0.15
23 14 0.54
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TAAAAATAGTTTTAAATTAA
Found at i:3952093 original size:22 final size:22
Alignment explanation
Indices: 3952031--3952608 Score: 158
Period size: 22 Copynumber: 26.5 Consensus size: 22
3952021 GATATCAAAA
* * *
3952031 GATAATTTCATAGTAACTAATT
1 GATAATTTAATAGTAAATTATT
* * *
3952053 AATAATTTTATAGTTAATTATT
1 GATAATTTAATAGTAAATTATT
* *
3952075 GATAATTTAAAAGTAAATTAAT
1 GATAATTTAATAGTAAATTATT
* *
3952097 -AGAA---AATAGTAAATTAGT
1 GATAATTTAATAGTAAATTATT
* *
3952115 GATAATTTAATAATAAATTATAA
1 GATAATTTAATAGTAAATTAT-T
* *
3952138 GATAATTTAGTAGTAAATTAAT
1 GATAATTTAATAGTAAATTATT
* * * *
3952160 AATAATTTTATATTAAATAATT
1 GATAATTTAATAGTAAATTATT
* * * * *
3952182 AAAAAATTAAGTAGTAAATCAAT
1 GATAATTTAA-TAGTAAATTATT
** *
3952205 GATAACAT-A-AGCTTAA-TATAT
1 GATAATTTAATAG-TAAATTAT-T
* ** *
3952226 AATAATAAAAT-GATAAATTCTT
1 GATAATTTAATAG-TAAATTATT
3952248 GATAATTTAATAGTAAATTATT
1 GATAATTTAATAGTAAATTATT
*
3952270 GATAATTTAATAG-CAA--ATT
1 GATAATTTAATAGTAAATTATT
* * **
3952289 -ATAACTTAATATTAAATTACAA
1 GATAATTTAATAGTAAATTA-TT
* ** *
3952311 AATAACGTAATACTAAATTATT
1 GATAATTTAATAGTAAATTATT
* *
3952333 GATAACTTTATTA-TAAA-TAAT
1 GATAA-TTTAATAGTAAATTATT
3952354 GATAATTTAATAGTAAATTAATT
1 GATAATTTAATAGTAAATT-ATT
* * * **
3952377 AATTACTGATAATTTTATAATAATCATT
1 GA-TAAT-TTAATAGTA-AAT--T-ATT
*
3952405 GATAAATTCT-ATAGTAAATCCATT
1 GATA-ATT-TAATAGTAAAT-TATT
* * *
3952429 -ATAACTT-ATAATAAATTATC
1 GATAATTTAATAGTAAATTATT
* * * *
3952449 AATAATTTAGTGGTAAATTATC
1 GATAATTTAATAGTAAATTATT
* *
3952471 AATAATTTAAT-GATAAATCATT
1 GATAATTTAATAG-TAAATTATT
* * * *
3952493 -ATAA-CTAATGGTAAGTCATT
1 GATAATTTAATAGTAAATTATT
* * * * *
3952513 AATAA-ATAGTA-TAAATCATA
1 GATAATTTAATAGTAAATTATT
*
3952533 GATAA-TTATTAGTAAATTATT
1 GATAATTTAATAGTAAATTATT
* * *
3952554 GATAAATTAATAGTAAATCACT
1 GATAATTTAATAGTAAATTATT
* * ** *
3952576 AATAATATAGCAGTAAATTAAT
1 GATAATTTAATAGTAAATTATT
*
3952598 GATAACTTAAT
1 GATAATTTAAT
3952609 TATTCATCAT
Statistics
Matches: 403, Mismatches: 118, Indels: 70
0.68 0.20 0.12
Matches are distributed among these distances:
18 22 0.05
19 8 0.02
20 38 0.09
21 67 0.17
22 176 0.44
23 61 0.15
24 6 0.01
25 6 0.01
26 6 0.01
27 6 0.01
28 7 0.02
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (22 bp):
GATAATTTAATAGTAAATTATT
Found at i:3952154 original size:45 final size:45
Alignment explanation
Indices: 3952103--3952209 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
3952093 TAATAGAAAA
* * * *
3952103 TAGTAAATTAGTGATAATTTAATAATAAATTA-TAAGATAATTTAG
1 TAGTAAATTAATGATAATTTAATAATAAATAATTAA-AAAATTAAG
* * *
3952148 TAGTAAATTAATAATAATTTTATATTAAATAATTAAAAAATTAAG
1 TAGTAAATTAATGATAATTTAATAATAAATAATTAAAAAATTAAG
*
3952193 TAGTAAATCAATGATAA
1 TAGTAAATTAATGATAA
3952210 CATAAGCTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 49 0.94
46 3 0.06
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.38
Consensus pattern (45 bp):
TAGTAAATTAATGATAATTTAATAATAAATAATTAAAAAATTAAG
Found at i:3952169 original size:23 final size:22
Alignment explanation
Indices: 3952103--3952167 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
3952093 TAATAGAAAA
* * *
3952103 TAGTAAATTAGTGATAATTTAA
1 TAGTAAATTAATAATAATTTAG
*
3952125 TAATAAATT-ATAAGATAATTTAG
1 TAGTAAATTAAT-A-ATAATTTAG
3952148 TAGTAAATTAATAATAATTT
1 TAGTAAATTAATAATAATTT
3952168 TATATTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.03
22 15 0.43
23 17 0.49
24 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (22 bp):
TAGTAAATTAATAATAATTTAG
Found at i:3952358 original size:21 final size:21
Alignment explanation
Indices: 3952318--3952371 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
3952308 CAAAATAACG
* *
3952318 TAATACTAAATTATTGATAACTT
1 TAATAGTAAA-TAATGATAA-TT
*
3952341 TATTA-TAAATAATGATAATT
1 TAATAGTAAATAATGATAATT
3952361 TAATAGTAAAT
1 TAATAGTAAAT
3952372 TAATTAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.22
21 13 0.48
22 4 0.15
23 4 0.15
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATAGTAAATAATGATAATT
Found at i:3952408 original size:51 final size:52
Alignment explanation
Indices: 3952326--3952423 Score: 121
Period size: 51 Copynumber: 1.9 Consensus size: 52
3952316 CGTAATACTA
* *
3952326 AATTATTGATAACTTTATTATAAATAATGAT-AATT-TAATAGTAAATTAATT
1 AATTACTGATAACTTTATAATAAATAATGATAAATTCT-ATAGTAAATTAATT
* *
3952377 AATTACTGATAATTTTATAAT-AATCATTGATAAATTCTATAGTAAAT
1 AATTACTGATAACTTTATAATAAAT-AATGATAAATTCTATAGTAAAT
3952424 CCATTATAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
50 3 0.08
51 23 0.57
52 13 0.32
53 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (52 bp):
AATTACTGATAACTTTATAATAAATAATGATAAATTCTATAGTAAATTAATT
Found at i:3952943 original size:42 final size:44
Alignment explanation
Indices: 3952903--3953026 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 44
3952893 ATGATAACTC
*
3952903 ATAGTTAATCATTGAAAAATTAAAAGTAAATCAAT-ATAACTTA
1 ATAGTAAATCATTGAAAAATTAAAAGTAAATCAATAATAACTTA
* * * * *
3952946 ATAGTAAATTATCGATAATTTAATAGT-AAT-AATAATAACTTA
1 ATAGTAAATCATTGAAAAATTAAAAGTAAATCAATAATAACTTA
* * *
3952988 ATAGTAAATCA-TGAAAAATTTAATGTAAATCAATGATAA
1 ATAGTAAATCATTGAAAAATTAAAAGTAAATCAATAATAA
3953027 ATTGGTAGTA
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 12 0.19
42 24 0.38
43 28 0.44
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (44 bp):
ATAGTAAATCATTGAAAAATTAAAAGTAAATCAATAATAACTTA
Found at i:3952968 original size:22 final size:21
Alignment explanation
Indices: 3952922--3953087 Score: 108
Period size: 22 Copynumber: 7.7 Consensus size: 21
3952912 CATTGAAAAA
* *
3952922 TTAAAAGTAAATCAAT-ATAAC
1 TTAATAGTAAAT-AATGATAAT
*
3952943 TTAATAGTAAATTATCGATAAT
1 TTAATAGTAAATAAT-GATAAT
* *
3952965 TTAATAGT-AATAATAATAAC
1 TTAATAGTAAATAATGATAAT
* *
3952985 TTAATAGTAAATCATGAAAAAT
1 TTAATAGTAAATAATG-ATAAT
*
3953007 TTAAT-GTAAATCAATGATAAA
1 TTAATAGTAAAT-AATGATAAT
**
3953028 TTGGTAGTAAAGT-ATGGATAAT
1 TTAATAGTAAA-TAAT-GATAAT
*
3953050 TTAATA-TAAAATCATATGATGAT
1 TTAATAGT-AAAT-A-ATGATAAT
*
3953073 TTTATAGTAAATAAT
1 TTAATAGTAAATAAT
3953088 TAAAAAAACT
Statistics
Matches: 112, Mismatches: 20, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
20 14 0.12
21 39 0.35
22 41 0.37
23 15 0.13
24 3 0.03
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.36
Consensus pattern (21 bp):
TTAATAGTAAATAATGATAAT
Found at i:3953016 original size:21 final size:23
Alignment explanation
Indices: 3952903--3953029 Score: 85
Period size: 22 Copynumber: 5.9 Consensus size: 23
3952893 ATGATAACTC
* *
3952903 ATAGTTAATCATTGAAAAA-TTA
1 ATAGTAAATCAATGAAAAATTTA
* * *
3952925 AAAGTAAATCAAT--ATAACTTA
1 ATAGTAAATCAATGAAAAATTTA
* *
3952946 ATAGTAAAT-TATCG-ATAATTTA
1 ATAGTAAATCAAT-GAAAAATTTA
* *
3952968 ATAGT-AAT-AAT-AATAACTTA
1 ATAGTAAATCAATGAAAAATTTA
3952988 ATAGTAAATC-ATGAAAAATTTA
1 ATAGTAAATCAATGAAAAATTTA
*
3953010 AT-GTAAATCAATGATAAATT
1 ATAGTAAATCAATGAAAAATT
3953030 GGTAGTAAAG
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
20 17 0.20
21 28 0.33
22 40 0.47
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.35
Consensus pattern (23 bp):
ATAGTAAATCAATGAAAAATTTA
Found at i:3953296 original size:22 final size:21
Alignment explanation
Indices: 3953262--3953330 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
3953252 AATTTTAAAG
3953262 TAAAT-ATCGATAAATTAATAA
1 TAAATAATC-ATAAATTAATAA
* * *
3953283 TAAATAAGTTATAACTTTATAA
1 TAAATAA-TCATAAATTAATAA
* *
3953305 TAAATAATCATTAACTAATAA
1 TAAATAATCATAAATTAATAA
3953326 TAAAT
1 TAAAT
3953331 CATTACATAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 19 0.50
22 18 0.47
23 1 0.03
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (21 bp):
TAAATAATCATAAATTAATAA
Found at i:3953651 original size:20 final size:22
Alignment explanation
Indices: 3953623--3953666 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
3953613 ATACAAATTT
3953623 TATCAAT-AATTACCAAAAATA
1 TATCAATAAATTACCAAAAATA
* *
3953644 TATC-ATAAATTGCCAAAATTA
1 TATCAATAAATTACCAAAAATA
3953665 TA
1 TA
3953667 AGAAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (22 bp):
TATCAATAAATTACCAAAAATA
Found at i:3953793 original size:21 final size:21
Alignment explanation
Indices: 3953769--3953809 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
3953759 ATCAAACTAA
*
3953769 TATTGAATATTATTAAAATTG
1 TATTGAAAATTATTAAAATTG
3953790 TATTGAAAATTATTAAAATT
1 TATTGAAAATTATTAAAATT
3953810 TTATCAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (21 bp):
TATTGAAAATTATTAAAATTG
Found at i:3958909 original size:9 final size:9
Alignment explanation
Indices: 3958867--3958915 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
3958857 ATTTGAGTAT
*
3958867 TTAATTGTG
1 TTAATCGTG
3958876 TCTAATCGTG
1 T-TAATCGTG
* *
3958886 TTATTCGTA
1 TTAATCGTG
3958895 TATAATCGTG
1 T-TAATCGTG
3958905 TTAATCGTG
1 TTAATCGTG
3958914 TT
1 TT
3958916 GTATCATGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 18 0.55
10 15 0.45
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.49
Consensus pattern (9 bp):
TTAATCGTG
Found at i:3960479 original size:18 final size:19
Alignment explanation
Indices: 3960441--3960482 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
3960431 TTTAAGAAAA
3960441 ATATTTATAGTAAAATACTC
1 ATATTTATAG-AAAATACTC
*
3960461 ATATTTATA-AAATTACTC
1 ATATTTATAGAAAATACTC
3960479 ATAT
1 ATAT
3960483 GATAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
20 9 0.43
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (19 bp):
ATATTTATAGAAAATACTC
Found at i:3963318 original size:2 final size:2
Alignment explanation
Indices: 3963311--3963353 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3963301 TTTTACATGT
3963311 TA 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 TA
3963353 T
1 T
3963354 GAGCAATGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3968258 original size:30 final size:30
Alignment explanation
Indices: 3968218--3968278 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
3968208 TTTGATGTTG
3968218 CAAATAGATAATTATATGAATTATTTTTTA
1 CAAATAGATAATTATATGAATTATTTTTTA
*
3968248 CAAATGGATAATTATATGAATTATTTTTTA
1 CAAATAGATAATTATATGAATTATTTTTTA
3968278 C
1 C
3968279 TTTCAATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (30 bp):
CAAATAGATAATTATATGAATTATTTTTTA
Found at i:3968383 original size:2 final size:2
Alignment explanation
Indices: 3968376--3968426 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
3968366 ATGCTATAAA
* *
3968376 AT AT AT AT AT AT AT AT GT AT AC 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
3968418 AT AT -T AT AT
1 AT AT AT AT AT
3968427 GGGATGGACC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3970017 original size:16 final size:16
Alignment explanation
Indices: 3969996--3970149 Score: 109
Period size: 16 Copynumber: 9.6 Consensus size: 16
3969986 GATTTAAGGG
3969996 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
*
3970012 TTTGGA-TTTAGGGGGT
1 TTTGGATTTTA-GGGAT
* * *
3970028 TTAGG-TTTAAGAG-T
1 TTTGGATTTTAGGGAT
*** *
3970042 TTAAAAGTTT-GGGAT
1 TTTGGATTTTAGGGAT
*
3970057 TTTGGATTTTAGGGGT
1 TTTGGATTTTAGGGAT
**
3970073 TTTGGATTTTAGGGGGGG
1 TTTGGATTTTA--GGGAT
* *
3970091 TTTAGATTTAAGGGAT
1 TTTGGATTTTAGGGAT
**
3970107 TTTGGATTTTTAGGGGG
1 TTTGGA-TTTTAGGGAT
3970124 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
3970140 TTTGGATTTT
1 TTTGGATTTT
3970150 TAAGGGTTTT
Statistics
Matches: 105, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
14 6 0.06
15 15 0.14
16 58 0.55
17 13 0.12
18 13 0.12
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:3970034 original size:51 final size:50
Alignment explanation
Indices: 3969912--3970059 Score: 122
Period size: 51 Copynumber: 2.9 Consensus size: 50
3969902 TTGAATTTTA
* * * *
3969912 GGATATGGAAGGTTTAGGGTTTTGGTTTTAGAGTTTGGAGATTTTATGGTTT
1 GGATTTGG-AGGTTTA-GGTTTTGATTTAAGAGTTTGGAGATTTTAGGGTTT
* *
3969964 GGATTTTGAGGTTTGAGGTTTTGATTTAAGGGTTT-G-GATTTTAGGGATTTT
1 GGATTTGGAGGTTT-AGGTTTTGATTTAAGAGTTTGGAGATTTTAGGG--TTT
* * *
3970015 GGATTTAGGGGGTTTAGGTTTAAGAGTTTAAAAGTTTGG-GATTTT
1 GGATTT-GGAGGTTTAGGTTT-TGA-TTTAAGAGTTTGGAGATTTT
3970060 GGATTTTAGG
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
49 9 0.12
50 1 0.01
51 37 0.47
52 15 0.19
53 9 0.12
54 7 0.09
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (50 bp):
GGATTTGGAGGTTTAGGTTTTGATTTAAGAGTTTGGAGATTTTAGGGTTT
Found at i:3970110 original size:34 final size:32
Alignment explanation
Indices: 3969993--3970149 Score: 140
Period size: 33 Copynumber: 4.9 Consensus size: 32
3969983 TTTGATTTAA
*
3969993 GGGTTTGGATTTTAGGGATTTTGGA-TTTAGG
1 GGGTTTAGATTTTAGGGATTTTGGATTTTAGG
* * * *** *
3970024 GGGTTTAGGTTTAAGAG-TTTAAAAGTTT-GG
1 GGGTTTAGATTTTAGGGATTTTGGATTTTAGG
** * *
3970054 GATTTTGGATTTTAGGGGTTTTGGATTTTAGGGG
1 GGGTTTAGATTTTAGGGATTTTGGATTTTA--GG
*
3970088 GGGTTTAGATTTAAGGGATTTTGGATTTTTAGG
1 GGGTTTAGATTTTAGGGATTTTGGA-TTTTAGG
*
3970121 GGGTTTGGATTTTAGGGATTTTGGATTTT
1 GGGTTTAGATTTTAGGGATTTTGGATTTT
3970150 TAAGGGTTTT
Statistics
Matches: 96, Mismatches: 24, Indels: 11
0.73 0.18 0.08
Matches are distributed among these distances:
30 17 0.18
31 23 0.24
32 4 0.04
33 25 0.26
34 22 0.23
35 5 0.05
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (32 bp):
GGGTTTAGATTTTAGGGATTTTGGATTTTAGG
Found at i:3972074 original size:110 final size:110
Alignment explanation
Indices: 3971881--3972211 Score: 403
Period size: 110 Copynumber: 3.0 Consensus size: 110
3971871 AAACACAAAA
* * * * * * *
3971881 CGATTGGGATGATACTGTAAGTTGAAAAATAATGAATTGATCGAGATAATATCGCGAATCGAATT
1 CGATTGGGATAATACTGTAAGTTAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCGAATT
*** * * * *
3971946 TATATTCGAAGATCTTACAAATCATACCCAGAGGTCTTACAGAGT
66 TATGCCCGAAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAAT
*
3971991 CGATTGGAATAATACTGTAAGTTAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCGAATT
1 CGATTGGGATAATACTGTAAGTTAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCGAATT
* *
3972056 TATGCCCGGAGGTCTTACAGAATCATGCCCGGAGATCTTACAGAAT
66 TATGCCCGAAGGTCTTACA-AATCATGCCCGGAGGTCTTACAGAAT
* * * * * * *
3972102 CGACTGGGATAACA-TCGCAAGTCAAAAGATAAAGAATCGATCGGGATAACACTGTGAATCGAAT
1 CGATTGGGATAATACT-GTAAGTTAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCGAAT
* *
3972166 TTATGCCCGAAGGTCTTAAAAATCATGTCCGGAGGTCTTACAGAAT
65 TTATGCCCGAAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAAT
3972212 TGTCCGAAAG
Statistics
Matches: 190, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
110 96 0.51
111 94 0.49
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (110 bp):
CGATTGGGATAATACTGTAAGTTAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCGAATT
TATGCCCGAAGGTCTTACAAATCATGCCCGGAGGTCTTACAGAAT
Found at i:3972078 original size:24 final size:24
Alignment explanation
Indices: 3972051--3972101 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
3972041 ACCGCGAATC
* *
3972051 GAATTTATGCCCGGAGGTCTTACA
1 GAATTCATGCCCGGAGATCTTACA
3972075 GAA-TCATGCCCGGAGATCTTACA
1 GAATTCATGCCCGGAGATCTTACA
3972098 GAAT
1 GAAT
3972102 CGACTGGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (24 bp):
GAATTCATGCCCGGAGATCTTACA
Found at i:3972083 original size:23 final size:23
Alignment explanation
Indices: 3972057--3972102 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
3972047 AATCGAATTT
*
3972057 ATGCCCGGAGGTCTTACAGAATC
1 ATGCCCGGAGATCTTACAGAATC
3972080 ATGCCCGGAGATCTTACAGAATC
1 ATGCCCGGAGATCTTACAGAATC
3972103 GACTGGGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
ATGCCCGGAGATCTTACAGAATC
Found at i:3972143 original size:111 final size:109
Alignment explanation
Indices: 3971905--3972211 Score: 364
Period size: 111 Copynumber: 2.8 Consensus size: 109
3971895 CTGTAAGTTG
* * * * * *** *
3971905 AAAAATAATGAATTGATCGAGATAATATCGCGAATCGAATTTATATTCGAAGATCTTACAAATCA
1 AAAAATAAAGAATCGATCGGGATAACACCGCGAATCGAATTTATGCCCGAAGGTCTTACAAATCA
* * * * * * *
3971970 TACCCAGAGGTCTTACAGAGTCGATTGGAATAATACTGTAAGTTA
66 TGCCCGGAGGTCTTACAGAATCGACTGGAATAACACTGCAAG-TC
*
3972015 AAAAATAAAGAATCGATCGGGATAACACCGCGAATCGAATTTATGCCCGGAGGTCTTACAGAATC
1 AAAAATAAAGAATCGATCGGGATAACACCGCGAATCGAATTTATGCCCGAAGGTCTTACA-AATC
* *
3972080 ATGCCCGGAGATCTTACAGAATCGACTGGGATAACA-TCGCAAGTC
65 ATGCCCGGAGGTCTTACAGAATCGACTGGAATAACACT-GCAAGTC
* * *
3972125 AAAAGATAAAGAATCGATCGGGATAACACTGTGAATCGAATTTATGCCCGAAGGTCTTAAAAATC
1 AAAA-ATAAAGAATCGATCGGGATAACACCGCGAATCGAATTTATGCCCGAAGGTCTTACAAATC
*
3972190 ATGTCCGGAGGTCTTACAGAAT
65 ATGCCCGGAGGTCTTACAGAAT
3972212 TGTCCGAAAG
Statistics
Matches: 169, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
110 80 0.47
111 89 0.53
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (109 bp):
AAAAATAAAGAATCGATCGGGATAACACCGCGAATCGAATTTATGCCCGAAGGTCTTACAAATCA
TGCCCGGAGGTCTTACAGAATCGACTGGAATAACACTGCAAGTC
Found at i:3972204 original size:22 final size:22
Alignment explanation
Indices: 3972176--3972248 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
3972166 TTATGCCCGA
3972176 AGGTCTTAAAAATCATGTCCGG
1 AGGTCTTAAAAATCATGTCCGG
* *
3972198 AGGTCTTACAGAAT--TGTCCGA
1 AGGTCTTA-AAAATCATGTCCGG
* * *
3972219 AAGTCTTAGAAATCATGCCCGG
1 AGGTCTTAAAAATCATGTCCGG
3972241 AGGTCTTA
1 AGGTCTTA
3972249 CAGAATTGAC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
20 3 0.08
21 13 0.32
22 20 0.50
23 4 0.10
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (22 bp):
AGGTCTTAAAAATCATGTCCGG
Found at i:3972217 original size:21 final size:21
Alignment explanation
Indices: 3972191--3972256 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
3972181 TTAAAAATCA
3972191 TGTCCGGAGGTCTTACAGAAT
1 TGTCCGGAGGTCTTACAGAAT
* * *
3972212 TGTCCGAAAGTCTTAGA-AAT
1 TGTCCGGAGGTCTTACAGAAT
*
3972232 CATGCCCGGAGGTCTTACAGAAT
1 --TGTCCGGAGGTCTTACAGAAT
3972255 TG
1 TG
3972257 ACTTGGATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 3 0.09
21 16 0.46
22 13 0.37
23 3 0.09
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (21 bp):
TGTCCGGAGGTCTTACAGAAT
Found at i:3972226 original size:43 final size:43
Alignment explanation
Indices: 3972172--3972256 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
3972162 GAATTTATGC
* *
3972172 CCGAAGGTCTTAAAAATCATGTCCGGAGGTCTTACAGAATTGT
1 CCGAAAGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTGT
*
3972215 CCGAAAGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATTG
1 CCGAAAGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTG
3972257 ACTTGGATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
CCGAAAGTCTTAAAAATCATGCCCGGAGGTCTTACAGAATTGT
Found at i:3972340 original size:23 final size:22
Alignment explanation
Indices: 3972320--3972367 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
3972310 AATCAAATTT
3972320 ATGCCCGAAGGTCTTAGAAATC
1 ATGCCCGAAGGTCTTAGAAATC
* *
3972342 ATGTCCGAAGGTCTTATAGAATC
1 ATGCCCGAAGGTCTTAGA-AATC
3972365 ATG
1 ATG
3972368 TCTGGAGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (22 bp):
ATGCCCGAAGGTCTTAGAAATC
Found at i:3972354 original size:152 final size:154
Alignment explanation
Indices: 3972067--3972363 Score: 429
Period size: 152 Copynumber: 1.9 Consensus size: 154
3972057 ATGCCCGGAG
*
3972067 GTCTTACAGAATCATGCCCGGAGATCTTACAGAATCGACTGGGATAACATCGCAAGTCAAAAGAT
1 GTCTTACAGAATCATGCCCGGAGATCTTACAGAATCGACTGGGATAACATCACAAGTCAAAAGAT
* *** *
3972132 AAAGAATCGATCGGGATAACACTGTGAATCGAATTTATGCCCGAAGGTCTTAAAAATCATGTCCG
66 AAAGAATCAATCGGGATAACACCACGAATCAAATTTATGCCCGAAGGTCTTAAAAATCATGTCCG
*
3972197 GAGGTCTTACAGAATTGTCCGAAA
131 AAGGTCTTACAGAATTGTCCGAAA
* * * * *
3972221 GTCTTAGA-AATCATGCCCGGAGGTCTTACAGAATTGACTTGGATAACA-CTACAAGTCAGAA-A
1 GTCTTACAGAATCATGCCCGGAGATCTTACAGAATCGACTGGGATAACATC-ACAAGTCAAAAGA
* *
3972283 TAAAGAATCAATTGGGATAACACCACGAATCAAATTTATGCCCGAAGGTCTTAGAAATCATGTCC
65 TAAAGAATCAATCGGGATAACACCACGAATCAAATTTATGCCCGAAGGTCTTAAAAATCATGTCC
*
3972348 GAAGGTCTTATAGAAT
130 GAAGGTCTTACAGAAT
3972364 CATGTCTGGA
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
152 74 0.58
153 46 0.36
154 7 0.06
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (154 bp):
GTCTTACAGAATCATGCCCGGAGATCTTACAGAATCGACTGGGATAACATCACAAGTCAAAAGAT
AAAGAATCAATCGGGATAACACCACGAATCAAATTTATGCCCGAAGGTCTTAAAAATCATGTCCG
AAGGTCTTACAGAATTGTCCGAAA
Found at i:3972368 original size:23 final size:23
Alignment explanation
Indices: 3972324--3972387 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
3972314 AAATTTATGC
*
3972324 CCGAAGGTCTTAGA-AATCATGT
1 CCGAAGGTCTTATAGAATCATGT
3972346 CCGAAGGTCTTATAGAATCATGT
1 CCGAAGGTCTTATAGAATCATGT
* * *
3972369 CTGGAGATCTTATAGAATC
1 CCGAAGGTCTTATAGAATC
3972388 GATTGGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 13 0.35
23 24 0.65
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (23 bp):
CCGAAGGTCTTATAGAATCATGT
Found at i:3972451 original size:133 final size:131
Alignment explanation
Indices: 3972198--3972520 Score: 409
Period size: 133 Copynumber: 2.5 Consensus size: 131
3972188 TCATGTCCGG
* * * * *
3972198 AGGTCTTACAGAAT--TGTCCGAAAGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATTGACTT
1 AGGTCTTACA-AATCATGTCCGAAGGTCTTACAAATCATGTCTGGAGGTCTTACAGAATCGACTT
* * *
3972261 GGATAACACTACAAGTCAGAAATAAAGAATCAATTGGGATAACACCACGAATCAAATTTATGCCC
65 GGATAACACCACAAGTCAAAAATAAAGAATCAATCGGGATAACACCACGAATCAAATTTATGCCC
3972326 GA
130 GA
* * * *
3972328 AGGTCTTAGAAATCATGTCCGAAGGTCTTATAGAATCATGTCTGGAGATCTTATAGAATCGA-TT
1 AGGTCTTACAAATCATGTCCGAAGGTCTTACA-AATCATGTCTGGAGGTCTTACAGAATCGACTT
* ** * *
3972392 GGGATAACACCATAAGTCAAAAGATAAAGAATTGATCGGGATAACACCGCGAATTAAATTTATGC
65 -GGATAACACCACAAGTCAAAA-ATAAAGAATCAATCGGGATAACACCACGAATCAAATTTATGC
*
3972457 CCGG
128 CCGA
*
3972461 AGGTCTTACAAATCATGTCTGAAGGTCTTACAAAATCATGTCTGGAGGTCTTACAGAATC
1 AGGTCTTACAAATCATGTCCGAAGGTCTTAC-AAATCATGTCTGGAGGTCTTACAGAATC
3972521 ATGTCTGGAG
Statistics
Matches: 165, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
129 3 0.02
130 9 0.05
131 17 0.10
132 42 0.25
133 93 0.56
134 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (131 bp):
AGGTCTTACAAATCATGTCCGAAGGTCTTACAAATCATGTCTGGAGGTCTTACAGAATCGACTTG
GATAACACCACAAGTCAAAAATAAAGAATCAATCGGGATAACACCACGAATCAAATTTATGCCCG
A
Found at i:3972500 original size:23 final size:23
Alignment explanation
Indices: 3972459--3972566 Score: 182
Period size: 23 Copynumber: 4.7 Consensus size: 23
3972449 ATTTATGCCC
3972459 GGAGGTCTTACA-AATCATGTCT
1 GGAGGTCTTACAGAATCATGTCT
* *
3972481 GAAGGTCTTACAAAATCATGTCT
1 GGAGGTCTTACAGAATCATGTCT
3972504 GGAGGTCTTACAGAATCATGTCT
1 GGAGGTCTTACAGAATCATGTCT
*
3972527 GGAGGTCTTACAGAATCATGCCT
1 GGAGGTCTTACAGAATCATGTCT
3972550 GGAGGTCTTACAGAATC
1 GGAGGTCTTACAGAATC
3972567 GACTGAGATA
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
22 11 0.14
23 70 0.86
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (23 bp):
GGAGGTCTTACAGAATCATGTCT
Found at i:3972655 original size:179 final size:178
Alignment explanation
Indices: 3972328--3972671 Score: 472
Period size: 179 Copynumber: 1.9 Consensus size: 178
3972318 TTATGCCCGA
* * * * *
3972328 AGGTCTTAGAAATCATGTCCGAAGGTCTTATAGAATCATGTCTGGAGATCTTATAGAATCGATTG
1 AGGTCTTACAAATCATGTCCGAAGGTCTTACAGAATCATGCCTGGAGATCTTACAGAATCGACTG
* * * * *
3972393 GGATAACACCATAAGTCAAAAGATAAAGAATTGATCGGGATAACACCGCGAATTAAATTTATGCC
66 AGATAACACCACAAGTCAAAAGATAAACAATTGATCGGGATAACACAGCGAATCAAATTTATGCC
* * * * *
3972458 CGGAGGTCTTACAAATCATGTCTGAAGGTCTTACAAAATCATGTCTGG
131 CGAAAGTCTTAAAAATCATGACCGAAGGTCTTACAAAATCATGTCTGG
* * *
3972506 AGGTCTTACAGAATCATGTCTGGAGGTCTTACAGAATCATGCCTGGAGGTCTTACAGAATCGACT
1 AGGTCTTACA-AATCATGTCCGAAGGTCTTACAGAATCATGCCTGGAGATCTTACAGAATCGACT
* * *
3972571 GAGATAATACCACAAGTTAAAAGATAAACAATTGATCGGGATAACACAGCGAATCAAATTTATGT
65 GAGATAACACCACAAGTCAAAAGATAAACAATTGATCGGGATAACACAGCGAATCAAATTTATGC
* *
3972636 TCGAAAGTCTTAAAAATCATGACCGGAGGTCTTACA
130 CCGAAAGTCTTAAAAATCATGACCGAAGGTCTTACA
3972672 GAATTGACTG
Statistics
Matches: 142, Mismatches: 23, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
178 9 0.06
179 133 0.94
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (178 bp):
AGGTCTTACAAATCATGTCCGAAGGTCTTACAGAATCATGCCTGGAGATCTTACAGAATCGACTG
AGATAACACCACAAGTCAAAAGATAAACAATTGATCGGGATAACACAGCGAATCAAATTTATGCC
CGAAAGTCTTAAAAATCATGACCGAAGGTCTTACAAAATCATGTCTGG
Found at i:3972733 original size:110 final size:110
Alignment explanation
Indices: 3972529--3972786 Score: 342
Period size: 110 Copynumber: 2.3 Consensus size: 110
3972519 TCATGTCTGG
* * *
3972529 AGGTCTTACAGAATCATG-CCTGGAGGTCTTACAGAATCGACTGAGATAATACCACAAGTTAAAA
1 AGGTCTTA-AAAATCATGACC-GGAGGTCTTACAGAATCGACTGAGATAACACCACAAGTCAAAA
* * *
3972593 GATAAACAATTGATCGGGATAACACAGCGAATCAAATTTATGTTCGAA
64 GATAAACAATTGATCGAGATAACACAGCGAATCAAATTTATG-CCCAA
* * **
3972641 A-GTCTTAAAAATCATGACCGGAGGTCTTACAGAATTGACTGGGATAACACTGCAAGTCAAAAGA
1 AGGTCTTAAAAATCATGACCGGAGGTCTTACAGAATCGACTGAGATAACACCACAAGTCAAAAGA
* *
3972705 TAAAGAATTGATCGAGATAACACTGCGAATCAAATTTATGCCCAA
66 TAAACAATTGATCGAGATAACACAGCGAATCAAATTTATGCCCAA
*
3972750 AGGTCTTAAAAATCAT-ACCCGGAGGTCTTACAAAATC
1 AGGTCTTAAAAATCATGA-CCGGAGGTCTTACAGAATC
3972787 ATGCTCGGAG
Statistics
Matches: 129, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
109 5 0.04
110 115 0.89
111 8 0.06
112 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.24
Consensus pattern (110 bp):
AGGTCTTAAAAATCATGACCGGAGGTCTTACAGAATCGACTGAGATAACACCACAAGTCAAAAGA
TAAACAATTGATCGAGATAACACAGCGAATCAAATTTATGCCCAA
Found at i:3972784 original size:23 final size:23
Alignment explanation
Indices: 3972750--3972825 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
3972740 TTATGCCCAA
3972750 AGGTCTTA-AAAATCATACCCGG
1 AGGTCTTACAAAATCATACCCGG
* *
3972772 AGGTCTTACAAAATCATGCTCGG
1 AGGTCTTACAAAATCATACCCGG
* * *
3972795 AGGTCTTATAGAAT--TACCTGG
1 AGGTCTTACAAAATCATACCCGG
3972816 AGGTCTTACA
1 AGGTCTTACA
3972826 GCATTTACTG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
21 13 0.29
22 8 0.18
23 24 0.53
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (23 bp):
AGGTCTTACAAAATCATACCCGG
Found at i:3972941 original size:154 final size:154
Alignment explanation
Indices: 3972660--3972956 Score: 477
Period size: 154 Copynumber: 1.9 Consensus size: 154
3972650 AATCATGACC
* *
3972660 GGAGGTCTTACAGAATTGACTGGGATAACACTGCAAGTCAAAAGATAAAGAATTGATCGAGATAA
1 GGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAGATAAAAAATTGATCGAGATAA
**
3972725 CACTGCGAATCAAATTTATGCCCAAAGGTCTTAAAAATCATACCCGGAGGTCTTACAAAATCATG
66 CACCACGAATCAAATTTATGCCCAAAGGTCTTAAAAATCATACCCGGAGGTCTTACAAAATCATG
*
3972790 CTCGGAGGTCTTATAGAATTACCT
131 CTCGAAGGTCTTATAGAATTACCT
* * *
3972814 GGAGGTCTTACAGCATTTACTGGGATAACACCGCAAGTTAAAAGATAAAAAATTGATCGAGATAA
1 GGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAGATAAAAAATTGATCGAGATAA
** * * *
3972879 CACCACGAATCAAATTTATGCCCGGAGGTCTTAGAAATCATGCCCGGAGGTCTTACAGAATCATG
66 CACCACGAATCAAATTTATGCCCAAAGGTCTTAAAAATCATACCCGGAGGTCTTACAAAATCATG
3972944 CTCGAAGGTCTTA
131 CTCGAAGGTCTTA
3972957 CAGATTATGT
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
154 130 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (154 bp):
GGAGGTCTTACAGAATTGACTGGGATAACACCGCAAGTCAAAAGATAAAAAATTGATCGAGATAA
CACCACGAATCAAATTTATGCCCAAAGGTCTTAAAAATCATACCCGGAGGTCTTACAAAATCATG
CTCGAAGGTCTTATAGAATTACCT
Found at i:3972944 original size:23 final size:22
Alignment explanation
Indices: 3972896--3972984 Score: 106
Period size: 22 Copynumber: 4.0 Consensus size: 22
3972886 AATCAAATTT
*
3972896 ATGCCCGGAGGTCTTAGAAATC
1 ATGCCCGGAGGTCTTACAAATC
3972918 ATGCCCGGAGGTCTTACAGAATC
1 ATGCCCGGAGGTCTTACA-AATC
* * * *
3972941 ATGCTCGAAGGTCTTACAGATT
1 ATGCCCGGAGGTCTTACAAATC
**
3972963 ATGTTCGGAGGTCTTACAAATC
1 ATGCCCGGAGGTCTTACAAATC
3972985 TCAAAATCTT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
22 37 0.65
23 20 0.35
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGCCCGGAGGTCTTACAAATC
Found at i:3973866 original size:33 final size:33
Alignment explanation
Indices: 3973762--3974688 Score: 821
Period size: 33 Copynumber: 28.5 Consensus size: 33
3973752 GATATTAATA
3973762 TCATTGATGGCCAGATAAACT-GGCTTAACAAGCT
1 TCATTGATGGCCAGATAAACTGGGCTT-A-AAGCT
* *
3973796 TCATTAATGGGCCAGACAAACTGGGCTTAAA--T
1 TCATTGAT-GGCCAGATAAACTGGGCTTAAAGCT
*
3973828 GTCATT-ATTGGTCAGATAAACTGGGCTTAAAGCT
1 -TCATTGA-TGGCCAGATAAACTGGGCTTAAAGCT
* *
3973862 TCATTGAGGGCAAGATAACAC----CTT-AAGCT
1 TCATTGATGGCCAGATAA-ACTGGGCTTAAAGCT
* * * *
3973891 TCATTG--GGTCAG-GAAATTGGGGTT--AGC-
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
*
3973918 TCATTGATGGCCAGAT-AACTGGGCTTAAAACCT
1 TCATTGATGGCCAGATAAACTGGGCTT-AAAGCT
*
3973951 TCA-TGATGGCCAGATAAGCTGGGC-TAAAG--
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
* *
3973980 TCATTGGTTGG-CAGAT-AACT-GGCCT-AAG-T
1 TCATT-GATGGCCAGATAAACTGGGCTTAAAGCT
* *
3974009 TCATTAAGA-AGTC-GAT--A-TGGGACTTAAAGCT
1 TCATT--GATGGCCAGATAAACTGGG-CTTAAAGCT
*
3974040 TCCATT-ATGGGCCAGATAAACTGGGCTTAAAGTT
1 T-CATTGAT-GGCCAGATAAACTGGGCTTAAAGCT
*
3974074 TCATTGA-GAGTCAGATAAACTGGGCTTAAAGCT
1 TCATTGATG-GCCAGATAAACTGGGCTTAAAGCT
* *
3974107 TCATTAATGGCCAGATAAACTAGGCTTAAAGCT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
* * * * *
3974140 TTATTAATGGCCAAATAAATTAGGCTTAAAGCT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
* * * **
3974173 TTATTTGA-GGTCAGATAAATTAAGCTTAAAGCGT
1 TCA-TTGATGGCCAGATAAACTGGGCTTAAAGC-T
** * * *
3974207 T-ATTGATGGTTAAATAAATTGGGCTTAAAGTT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
* * *
3974239 TCATTAATGGTCAGATAAACTGGGCTTAAAGTT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
** * *
3974272 TCATTGATGATCAGATAAACTGGGTTTAAAACT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
* * * *
3974305 TTATTTGA-GGACAGATAAACTGAGCTTAAAGCG
1 TCA-TTGATGGCCAGATAAACTGGGCTTAAAGCT
3974338 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
* * * *
3974371 TCATTAATTGGCCAGATAAATTAGGCTTAAAGTT
1 TCATTGA-TGGCCAGATAAACTGGGCTTAAAGCT
* * *
3974405 TCATTGA-GAGCTAGATAAACTAGGCTTAAAACT
1 TCATTGATG-GCCAGATAAACTGGGCTTAAAGCT
*
3974438 TCATTGATGGCCAGATAAACTAGGCTTAAATGCT
1 TCATTGATGGCCAGATAAACTGGGCTTAAA-GCT
*
3974472 TCATTGATGGCCAGATAAACTGGGCTTAAAACT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
3974505 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
* *
3974538 TCATTCATGGCCAGATAAACTGGGCTTAAAGTT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
* *
3974571 TCATTAATGGCCAGATAAACTGGGCTTAAAGTT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
*
3974604 TCATTGATGGTCAGATAAACTGGGCTTAAAGCT
1 TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
* * * *
3974637 TCATTAATGACCAGATAAACTAGGCTTTAAAACT
1 TCATTGATGGCCAGATAAACTGGGC-TTAAAGCT
*
3974671 TCATTTGA-GGCTAGATAA
1 TCA-TTGATGGCCAGATAA
3974689 TTAGGCTTAA
Statistics
Matches: 748, Mismatches: 93, Indels: 104
0.79 0.10 0.11
Matches are distributed among these distances:
25 1 0.00
26 2 0.00
27 11 0.01
28 12 0.02
29 45 0.06
30 14 0.02
31 11 0.01
32 56 0.07
33 458 0.61
34 113 0.15
35 20 0.03
36 5 0.01
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (33 bp):
TCATTGATGGCCAGATAAACTGGGCTTAAAGCT
Found at i:3975947 original size:11 final size:11
Alignment explanation
Indices: 3975919--3975962 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
3975909 TCATAACCAA
*
3975919 TTTTTTCTTCT
1 TTTTTTTTTCT
3975930 TTTTTTTTTCT
1 TTTTTTTTTCT
*
3975941 TTTTTTTGTTGT
1 TTTTTTT-TTCT
3975953 TTTTATTTTT
1 TTTT-TTTTT
3975963 TTATACCCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 17 0.59
12 9 0.31
13 3 0.10
ACGTcount: A:0.02, C:0.07, G:0.05, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:3982697 original size:14 final size:14
Alignment explanation
Indices: 3982680--3982722 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
3982670 TTGAGGTTTG
3982680 GGGTTTTGATTTAA
1 GGGTTTTGATTTAA
* *
3982694 GGGTTTGGATTTTA
1 GGGTTTTGATTTAA
3982708 GGGATTTTGGATTTA
1 GGG-TTTT-GATTTA
3982723 GGGGGTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 15 0.65
15 3 0.13
16 5 0.22
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.49
Consensus pattern (14 bp):
GGGTTTTGATTTAA
Found at i:3982717 original size:51 final size:51
Alignment explanation
Indices: 3982622--3982760 Score: 124
Period size: 51 Copynumber: 2.7 Consensus size: 51
3982612 AGGATATGGA
* * *
3982622 AGGTTTAGGGTTTTGGTTTTAGAGTTTGGAGATTTTATGGTTTGGATTTTG
1 AGGTTTAGGGTTTTGATTTAAGAGTTTGGAGATTTTAGGGTTTGGATTTTG
* * *
3982673 AGGTTTGGGGTTTTGATTTAAGGGTTT-G-GATTTTAGGGATTTTGGATTTAGG
1 AGGTTTAGGGTTTTGATTTAAGAGTTTGGAGATTTTAGGG--TTTGGATTT-TG
* * *
3982725 GGGTTTA-GGTTTAAGAGTTTAAAAGTTTGG-GATTTT
1 AGGTTTAGGGTTT-TGA-TTTAAGAGTTTGGAGATTTT
3982761 GGATTTTGGG
Statistics
Matches: 71, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
49 9 0.13
50 1 0.01
51 37 0.52
52 8 0.11
53 9 0.13
54 7 0.10
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (51 bp):
AGGTTTAGGGTTTTGATTTAAGAGTTTGGAGATTTTAGGGTTTGGATTTTG
Found at i:3982718 original size:16 final size:16
Alignment explanation
Indices: 3982697--3982866 Score: 82
Period size: 16 Copynumber: 10.6 Consensus size: 16
3982687 GATTTAAGGG
3982697 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
*
3982713 TTTGGA-TTTAGGGGGT
1 TTTGGATTTTA-GGGAT
* * *
3982729 TTAGG-TTTAAGAG-T
1 TTTGGATTTTAGGGAT
*** *
3982743 TTAAAAGTTT-GGGAT
1 TTTGGATTTTAGGGAT
3982758 TTTGGATTTT-GGGAGGT
1 TTTGGATTTTAGGGA--T
**
3982775 TTTGGATTTTAGGGGC
1 TTTGGATTTTAGGGAT
* *
3982791 TTCGGATTTTATGAGG-G
1 TTTGGATTTTA-G-GGAT
* *
3982808 TTTGGATTTAAAGGAT
1 TTTGGATTTTAGGGAT
**
3982824 TTTGGATTTTTAGGGGG
1 TTTGGA-TTTTAGGGAT
*
3982841 TTTGGATTTTAGAGAT
1 TTTGGATTTTAGGGAT
*
3982857 TTTAGATTTT
1 TTTGGATTTT
3982867 TAGGAGTTTT
Statistics
Matches: 114, Mismatches: 29, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
14 6 0.05
15 21 0.18
16 49 0.43
17 33 0.29
18 5 0.04
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.46
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:3982779 original size:17 final size:17
Alignment explanation
Indices: 3982757--3982876 Score: 90
Period size: 17 Copynumber: 7.2 Consensus size: 17
3982747 AAGTTTGGGA
*
3982757 TTTTGGATTTTGGGAGG
1 TTTTGGATTTTAGGAGG
3982774 TTTTGGATTTTAGG-GG
1 TTTTGGATTTTAGGAGG
* * *
3982790 CTTCGGATTTTATGAGG
1 TTTTGGATTTTAGGAGG
* *
3982807 GTTTGGA-TTTA-AAGG
1 TTTTGGATTTTAGGAGG
3982822 ATTTTGGATTTTTAGG-GG
1 -TTTTGGA-TTTTAGGAGG
* *
3982840 GTTTGGATTTTA-GAGA
1 TTTTGGATTTTAGGAGG
*
3982856 TTTTAGATTTTTAGGA-G
1 TTTTGGA-TTTTAGGAGG
3982873 TTTT
1 TTTT
3982877 AAAAACTTAG
Statistics
Matches: 81, Mismatches: 14, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
15 4 0.05
16 34 0.42
17 35 0.43
18 8 0.10
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (17 bp):
TTTTGGATTTTAGGAGG
Found at i:3982858 original size:33 final size:32
Alignment explanation
Indices: 3982755--3982866 Score: 102
Period size: 33 Copynumber: 3.4 Consensus size: 32
3982745 AAAAGTTTGG
*
3982755 GATTTTGGATTTT-GGGAGGTTTTGGATTTTAGG
1 GATTTTGGATTTTAGGG-GG-TTTGGATTTTAGA
** * * *
3982788 GGCTTCGGATTTTATGAGGGTTTGGA-TTTAAA
1 GATTTTGGATTTTA-GGGGGTTTGGATTTTAGA
3982820 GGATTTTGGATTTTTAGGGGGTTTGGATTTTAGA
1 -GATTTTGGA-TTTTAGGGGGTTTGGATTTTAGA
*
3982854 GATTTTAGATTTT
1 GATTTTGGATTTT
3982867 TAGGAGTTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
32 8 0.13
33 40 0.65
34 12 0.19
35 2 0.03
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (32 bp):
GATTTTGGATTTTAGGGGGTTTGGATTTTAGA
Found at i:3986947 original size:2 final size:2
Alignment explanation
Indices: 3986940--3986972 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3986930 ATGCTATAAA
3986940 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3986973 GGGATGGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3989866 original size:15 final size:15
Alignment explanation
Indices: 3989846--3989876 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3989836 TTGACTTGGA
*
3989846 ATTAAATGTAACCCC
1 ATTAAACGTAACCCC
3989861 ATTAAACGTAACCCC
1 ATTAAACGTAACCCC
3989876 A
1 A
3989877 ATGGGGTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.29, G:0.06, T:0.23
Consensus pattern (15 bp):
ATTAAACGTAACCCC
Found at i:3990528 original size:2 final size:2
Alignment explanation
Indices: 3990521--3990557 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3990511 ATGCTATCTA
3990521 AT AT AT 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 AT AT AT A
3990558 AAGTTGGATT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3991117 original size:2 final size:2
Alignment explanation
Indices: 3991110--3991144 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3991100 TTTCTTCTTT
3991110 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3991145 CTAACGGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3991634 original size:14 final size:14
Alignment explanation
Indices: 3991615--3991653 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
3991605 TTCGAAGTGA
*
3991615 TTAATATTTAAATT
1 TTAATATTTAAAAT
*
3991629 TTAATAATTAAAAT
1 TTAATATTTAAAAT
*
3991643 TTAAAATTTAA
1 TTAATATTTAA
3991654 TACTCTAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAATATTTAAAAT
Found at i:3991644 original size:21 final size:21
Alignment explanation
Indices: 3991614--3991655 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
3991604 ATTCGAAGTG
* *
3991614 ATTAATATTTAAATTTTAATA
1 ATTAAAATTTAAAATTTAATA
3991635 ATTAAAATTTAAAATTTAATA
1 ATTAAAATTTAAAATTTAATA
3991656 CTCTAACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTAAAATTTAAAATTTAATA
Found at i:3994595 original size:27 final size:27
Alignment explanation
Indices: 3994562--3994620 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
3994552 AACTATTAAA
3994562 ATATTAAAAATGATTTATTATAAAAAT
1 ATATTAAAAATGATTTATTATAAAAAT
* *
3994589 ATATT-AAAATTATTTATTATTAAAAT
1 ATATTAAAAATGATTTATTATAAAAAT
3994615 -TATTAA
1 ATATTAA
3994621 TATTCAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 4 0.14
26 20 0.69
27 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (27 bp):
ATATTAAAAATGATTTATTATAAAAAT
Found at i:3994802 original size:21 final size:21
Alignment explanation
Indices: 3994776--3994815 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3994766 TTTTTATTAA
3994776 TATTAAAATAGTAATATTTAT
1 TATTAAAATAGTAATATTTAT
* *
3994797 TATTAAAATATTTATATTT
1 TATTAAAATAGTAATATTT
3994816 TATATTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TATTAAAATAGTAATATTTAT
Found at i:3994821 original size:21 final size:20
Alignment explanation
Indices: 3994770--3994821 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
3994760 ATATTATTTT
*
3994770 TATTAATATTAAAATAGTAA
1 TATTTATATTAAAATAGTAA
* *
3994790 TATTTATTATTAAAATATTTA
1 TATTTA-TATTAAAATAGTAA
3994811 TATTTTATATT
1 TA-TTTATATT
3994822 GAAAGTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 18 0.67
22 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTTATATTAAAATAGTAA
Found at i:3995233 original size:42 final size:42
Alignment explanation
Indices: 3995156--3995239 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
3995146 TTTTTAATGA
* * * *
3995156 TAATATATTAATTTTTAATTAAAATTAAGTAAAATATTTTAT
1 TAATATAATAATTTTTAAGTAAAATCAAGTAAAATATATTAT
* *
3995198 TAATATAATAATATTTTAAGTCAAATCAA-TCAAATATATTAT
1 TAATATAATAAT-TTTTAAGTAAAATCAAGTAAAATATATTAT
3995240 ATTCAAAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 22 0.63
43 13 0.37
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (42 bp):
TAATATAATAATTTTTAAGTAAAATCAAGTAAAATATATTAT
Found at i:3995293 original size:23 final size:24
Alignment explanation
Indices: 3995259--3995308 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
3995249 TTTATTTGAG
*
3995259 TAAAATTATAAAATA-TTTAAAAT
1 TAAAATTATAAAAAATTTTAAAAT
*
3995282 TAAAA-TATTAAAAAATTTTAATAT
1 TAAAATTA-TAAAAAATTTTAAAAT
3995306 TAA
1 TAA
3995309 TATCCTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 2 0.09
23 11 0.48
24 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAATTATAAAAAATTTTAAAAT
Found at i:3995298 original size:16 final size:16
Alignment explanation
Indices: 3995267--3995308 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
3995257 AGTAAAATTA
*
3995267 TAAAATATT-TAAAAT
1 TAAAATATTAAAAAAT
3995282 TAAAATATTAAAAAAT
1 TAAAATATTAAAAAAT
**
3995298 TTTAATATTAA
1 TAAAATATTAA
3995309 TATCCTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAATATTAAAAAAT
Found at i:4009201 original size:423 final size:423
Alignment explanation
Indices: 4008707--4009555 Score: 1601
Period size: 423 Copynumber: 2.0 Consensus size: 423
4008697 TCCTAAATAT
* * *
4008707 TTTCAAAATTTTATTTTATGAAAAAATTAATATTTAAACTTTTGGTTAGCATTTTTCTAAATTTA
1 TTTCAAAATTTTATTTTAAGAAAAAATTAATATTTAAACTCTTGGTTAGCATTTTTCTAAAATTA
4008772 TTTTGTTTA-TTTATTTTTTATTTTTCAAAGAATTTAGGAAAAATGATATTTCAACTTTTTCTTA
66 TTTTGTTTATTTTATTTTTTATTTTTCAAAGAATTTAGGAAAAATGATATTTCAACTTTTTCTTA
4008836 AATATTTTCAAAATTTTATTCTAAAGAAAATAGATATTTCAACTTTTTTTTAGAGTTGTTGAAAC
131 AATATTTTCAAAATTTTATTCTAAAGAAAATAGATATTTCAACTTTTTTTTAGAGTTGTTGAAAC
4008901 GAAGATTTTTATTTGTTTTATTTTTATTTTTAAAGAATTGAAAAATTGATATTTCAATTTTTTTC
196 GAAGATTTTTATTTGTTTTATTTTTATTTTTAAAGAATTGAAAAATTGATATTTCAATTTTTTTC
*
4008966 TTTAGCTTTTAAAATTTTTTTTTGTTTATTTTATTTTTTATATTTCAAAGAATTTAAGAAAAATT
261 TTTAGCTTTTAAAA-TTTTTTTTGTTTATTTTATTTTTTATATTTCAAAGAATTTAAGAAAAATC
*
4009031 GATATTTCAGTTTTTTCTTAAATATTTTCAAAATTTGATTCTATGAAAAAAAATGATATTTCAAT
325 AATATTTCAGTTTTTTCTTAAATATTTTCAAAATTTGATTCTATGAAAAAAAATGATATTTCAAT
4009096 TATTTCCTTAGTGTTTTTGAAACAAAGATTTTTA
390 TATTTCCTTAGTGTTTTTGAAACAAAGATTTTTA
*
4009130 TTTCAAAATTTTATTTTAAGAAAAAATTAATATTTAAACTCTTGGTTAGCATTTTTCTAAAATTG
1 TTTCAAAATTTTATTTTAAGAAAAAATTAATATTTAAACTCTTGGTTAGCATTTTTCTAAAATTA
4009195 TTTTGTTTATTTTATTTTTTATTTTTCAAAGAATTTAGGAAAAATGATATTTCAACTTTTTCTTA
66 TTTTGTTTATTTTATTTTTTATTTTTCAAAGAATTTAGGAAAAATGATATTTCAACTTTTTCTTA
*
4009260 AATATTTTCAAAATTTTATTCTAAAGAAAATAGATATTTCAACTTTTTTTTAGATTTGTTGAAAC
131 AATATTTTCAAAATTTTATTCTAAAGAAAATAGATATTTCAACTTTTTTTTAGAGTTGTTGAAAC
4009325 GAAGATTTTTATTTGTTTTATTTTTATTTTTAAAGAATTGAAAAATTGATATTTCAATTTTTTTC
196 GAAGATTTTTATTTGTTTTATTTTTATTTTTAAAGAATTGAAAAATTGATATTTCAATTTTTTTC
4009390 TTTAGCTTTTAAAATTTTTTTTGTTTATTTTATTTTTTATATTTCAAAGAATTTAAGAAAAATCA
261 TTTAGCTTTTAAAATTTTTTTTGTTTATTTTATTTTTTATATTTCAAAGAATTTAAGAAAAATCA
* *
4009455 ATATTTCAGTTTTTTCTTAAATGTTTTCAAAATTTTATTCTATGAAAAAAAATGATATTTCAATT
326 ATATTTCAGTTTTTTCTTAAATATTTTCAAAATTTGATTCTATGAAAAAAAATGATATTTCAATT
4009520 ATTTCCTTAGTGTTTTTGAAACAAAGATTTTTA
391 ATTTCCTTAGTGTTTTTGAAACAAAGATTTTTA
4009553 TTT
1 TTT
4009556 ATTTTGTTTT
Statistics
Matches: 416, Mismatches: 9, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
423 218 0.52
424 198 0.48
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (423 bp):
TTTCAAAATTTTATTTTAAGAAAAAATTAATATTTAAACTCTTGGTTAGCATTTTTCTAAAATTA
TTTTGTTTATTTTATTTTTTATTTTTCAAAGAATTTAGGAAAAATGATATTTCAACTTTTTCTTA
AATATTTTCAAAATTTTATTCTAAAGAAAATAGATATTTCAACTTTTTTTTAGAGTTGTTGAAAC
GAAGATTTTTATTTGTTTTATTTTTATTTTTAAAGAATTGAAAAATTGATATTTCAATTTTTTTC
TTTAGCTTTTAAAATTTTTTTTGTTTATTTTATTTTTTATATTTCAAAGAATTTAAGAAAAATCA
ATATTTCAGTTTTTTCTTAAATATTTTCAAAATTTGATTCTATGAAAAAAAATGATATTTCAATT
ATTTCCTTAGTGTTTTTGAAACAAAGATTTTTA
Found at i:4009651 original size:217 final size:211
Alignment explanation
Indices: 4008794--4009652 Score: 683
Period size: 214 Copynumber: 4.0 Consensus size: 211
4008784 ATTTTTTATT
* *
4008794 TTTCAAAGAATTTAGGAAAAATGATATTTCAACTTTTTCTTAAATATTTTCAAAATTTTATTCTA
1 TTTCAAAGAATTTAAGAAAAATAATATTTCAACTTTTTCTTAAATATTTTCAAAATTTTATTCTA
* * * * *
4008859 AAGAAAATAGATATTTCAACTTTTTTTTAGAGTTGTTGAAACGAAGATTTTTATTTGTTTTATTT
66 AAAAAAATAGATATTTCAACTTTTTCTTAGATTTGTTGAAACAAAGATTTTTATTTATTTTATTT
* * * ** * *
4008924 TTATTTTTAAAGAATTGAAAAATTGATATTTCAATTTTTTTCTTTAGCTTTTAAAATTTTTTTTT
131 TTATTTTCAAAGAATTGAAAAATTGATATTTCAACTCTTTTCTAAAGATTTTAAAA---TTTTAT
* **** * * *
4008989 GTTTATTTTATTTTTTATA
193 GTCTAAGAAAATGTTGATA
* ** *
4009008 TTTCAAAGAATTTAAGAAAAATTGATATTTCAGTTTTTTCTTAAATATTTTCAAAATTTGATTCT
1 TTTCAAAGAATTTAAGAAAAA-TAATATTTCAACTTTTTCTTAAATATTTTCAAAATTTTATTCT
*
4009073 ATGAAAAAAA-ATGATATTTCAA-TTATTTCCTTAG-TGTTTTTGAAACAAAGATTTTTATTTCA
65 A--AAAAAAATA-GATATTTCAACTT-TTT-CTTAGAT-TTGTTGAAACAAAGATTTTTATTT-A
* * * * * * **
4009135 ---AAATTTTATTTT--AAG-A---AAAAATTAATATTTAAACTCTTGGT-TAGCATTTTTCTAA
123 TTTTATTTTTATTTTCAAAGAATTGAAAAATTGATATTTCAACTCTT-TTCTA-AAGATTT-TAA
* * **** * * * *
4009190 AATTGTTTTGTTTATTTTATTTTTTATT
185 AATT-TTATGTCTAAGAAAATGTTGATA
* *
4009218 TTTCAAAGAATTTAGGAAAAATGATATTTCAACTTTTTCTTAAATATTTTCAAAATTTTATTCTA
1 TTTCAAAGAATTTAAGAAAAATAATATTTCAACTTTTTCTTAAATATTTTCAAAATTTTATTCTA
* * * *
4009283 AAGAAAATAGATATTTCAACTTTTTTTTAGATTTGTTGAAACGAAGATTTTTATTTGTTTTATTT
66 AAAAAAATAGATATTTCAACTTTTTCTTAGATTTGTTGAAACAAAGATTTTTATTTATTTTATTT
* * * ** * *
4009348 TTATTTTTAAAGAATTGAAAAATTGATATTTCAATTTTTTTCTTTAGCTTTTAAAATTTTTTTTG
131 TTATTTTCAAAGAATTGAAAAATTGATATTTCAACTCTTTTCTAAAGATTTTAAAA--TTTTATG
* **** * * *
4009413 TTTATTTTATTTTTTATA
194 TCTAAGAAAATGTTGATA
** *
4009431 TTTCAAAGAATTTAAGAAAAATCAATATTTCAGTTTTTTCTTAAATGTTTTCAAAATTTTATTCT
1 TTTCAAAGAATTTAAGAAAAAT-AATATTTCAACTTTTTCTTAAATATTTTCAAAATTTTATTCT
*
4009496 ATGAAAAAAA-ATGATATTTCAA-TTATTTCCTTAG-TGTTTTTGAAACAAAGATTTTTATTTAT
65 A--AAAAAAATA-GATATTTCAACTT-TTT-CTTAGAT-TTGTTGAAACAAAGATTTTTATTTAT
* * *
4009558 TTTGTTTTTATTTTCAAAGAATTTAAGAAAAATTGATATTTTAACTCTTTTCTAAATATTTTCAA
124 TTTATTTTTATTTTCAAAGAA-TT--GAAAAATTGATATTTCAACTCTTTTCTAAAGATTTT-AA
4009623 AA-TTTAT-TCTAAGAAAATGTTGATA
185 AATTTTATGTCTAAGAAAATGTTGATA
4009648 TTTCA
1 TTTCA
4009653 GCATTTTCCT
Statistics
Matches: 536, Mismatches: 71, Indels: 73
0.79 0.10 0.11
Matches are distributed among these distances:
206 26 0.05
207 20 0.04
208 13 0.02
209 43 0.08
210 64 0.12
211 6 0.01
212 10 0.02
213 49 0.09
214 83 0.15
215 44 0.08
216 33 0.06
217 80 0.15
218 32 0.06
220 29 0.05
221 4 0.01
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.51
Consensus pattern (211 bp):
TTTCAAAGAATTTAAGAAAAATAATATTTCAACTTTTTCTTAAATATTTTCAAAATTTTATTCTA
AAAAAAATAGATATTTCAACTTTTTCTTAGATTTGTTGAAACAAAGATTTTTATTTATTTTATTT
TTATTTTCAAAGAATTGAAAAATTGATATTTCAACTCTTTTCTAAAGATTTTAAAATTTTATGTC
TAAGAAAATGTTGATA
Found at i:4010968 original size:17 final size:17
Alignment explanation
Indices: 4010933--4010964 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4010923 GATCGATTGT
4010933 TTTGTTTTTTATTTTTA
1 TTTGTTTTTTATTTTTA
4010950 TTTG-TTTTTATTTTT
1 TTTGTTTTTTATTTTT
4010965 TATTGACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.84
Consensus pattern (17 bp):
TTTGTTTTTTATTTTTA
Found at i:4010987 original size:10 final size:10
Alignment explanation
Indices: 4010970--4011006 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
4010960 TTTTTTATTG
4010970 ACAAAATAAA
1 ACAAAATAAA
*
4010980 ATAAAATAAA
1 ACAAAATAAA
*
4010990 ACAAAAGAAA
1 ACAAAATAAA
4011000 ACAAAAT
1 ACAAAAT
4011007 GGTTTTGGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.11
Consensus pattern (10 bp):
ACAAAATAAA
Found at i:4011441 original size:10 final size:11
Alignment explanation
Indices: 4011414--4011442 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4011404 TAATTTTAAT
4011414 TTTAAAATCTA
1 TTTAAAATCTA
4011425 TTTAAAATCTA
1 TTTAAAATCTA
4011436 -TTAAAAT
1 TTTAAAAT
4011443 ATTAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAAATCTA
Found at i:4014039 original size:18 final size:19
Alignment explanation
Indices: 4014006--4014089 Score: 68
Period size: 18 Copynumber: 4.5 Consensus size: 19
4013996 GCTAGAGCAG
* *
4014006 AAAATTTTATTTTATTAT-
1 AAAATTTTAATATATTATA
4014024 AAAATTTTAATATATT-TA
1 AAAATTTTAATATATTATA
* **
4014042 AATAGTTTTAGATATAAAATA
1 AA-AATTTTA-ATATATTATA
*
4014063 AAAATTTT--TATTTTATA
1 AAAATTTTAATATATTATA
4014080 AAAATTTTAA
1 AAAATTTTAA
4014090 AAATATATAG
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
17 15 0.29
18 16 0.31
19 6 0.12
20 10 0.20
21 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AAAATTTTAATATATTATA
Found at i:4014214 original size:24 final size:23
Alignment explanation
Indices: 4014160--4014215 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
4014150 TTTACTATCT
4014160 AAATTT-AATCAAAATTAAATAA
1 AAATTTCAATCAAAATTAAATAA
** *
4014182 AAAAATCAATCCAAATTAAATTAA
1 AAATTTCAATCAAAATTAAA-TAA
*
4014206 ACATTTCAAT
1 AAATTTCAAT
4014216 TTTTTCATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 4 0.15
23 12 0.46
24 10 0.38
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATTTCAATCAAAATTAAATAA
Found at i:4015054 original size:2 final size:2
Alignment explanation
Indices: 4015036--4015073 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
4015026 AACAATCTAA
*
4015036 AT AT A- AT AT AT AA 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 AT AT AT AT A
4015074 AATGTATAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4016006 original size:2 final size:2
Alignment explanation
Indices: 4015999--4016029 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4015989 GTTGCAAGAC
4015999 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
4016030 AGTTGGAAAA
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:4017165 original size:24 final size:26
Alignment explanation
Indices: 4017117--4017178 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 26
4017107 AAAAATATTG
*
4017117 AAATAATTTTTGTTGATATAAAATAAT
1 AAATAATTTTTATTGATAT-AAATAAT
*
4017144 AAATAATTTTTATTATATAATAAATTAAT
1 AAATAATTTTTATT-GAT-ATAAA-TAAT
4017173 AAATAA
1 AAATAA
4017179 ATTATATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 13 0.43
28 5 0.17
29 12 0.40
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
AAATAATTTTTATTGATATAAATAAT
Found at i:4017174 original size:29 final size:29
Alignment explanation
Indices: 4017117--4017205 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 29
4017107 AAAAATATTG
*
4017117 AAATAATTTTTGTTGATAT-A-AAA-TAAT
1 AAATAATTTTTATT-ATATAATAAATTAAT
4017144 AAATAATTTTTATTATATAATAAATTAAT
1 AAATAATTTTTATTATATAATAAATTAAT
* * *
4017173 AAATAAATTATATGTAT-TAATATATTAAT
1 AAATAATTTTTAT-TATATAATAAATTAAT
4017202 AAAT
1 AAAT
4017206 GTTATAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
26 4 0.07
27 14 0.26
28 3 0.06
29 30 0.56
30 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATAATTTTTATTATATAATAAATTAAT
Found at i:4022441 original size:3 final size:3
Alignment explanation
Indices: 4022433--4022466 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4022423 ATTTTGTTTA
4022433 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4022467 CTTTAAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4023296 original size:3 final size:3
Alignment explanation
Indices: 4023283--4023324 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
4023273 TTGTTTATGA
* *
4023283 TAT TGT TAT TAT TAT TAT TAT TAT TGT TAT T-T TA- TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4023325 CTAGTAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4023387 original size:16 final size:16
Alignment explanation
Indices: 4023352--4023406 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
4023342 AGAAACAAAT
* *
4023352 AAATAAATA-TAATAA
1 AAATAAAGACTAAAAA
4023367 AAATAAA-ACTAAAATA
1 AAATAAAGACTAAAA-A
4023383 AAATAAAGACTAAAAA
1 AAATAAAGACTAAAAA
4023399 AATATAAA
1 AA-ATAAA
4023407 TAAAAAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 1 0.03
15 11 0.31
16 11 0.31
17 12 0.34
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (16 bp):
AAATAAAGACTAAAAA
Found at i:4023389 original size:31 final size:30
Alignment explanation
Indices: 4023348--4023411 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
4023338 TTTTAGAAAC
*
4023348 AAATAAATAAATA-TAATAAAAATA-AAACTA
1 AAATAAATAAAGACTAA-AAAAATATAAA-TA
4023378 AAATAAAATAAAGACTAAAAAAATATAAATA
1 AAAT-AAATAAAGACTAAAAAAATATAAATA
4023409 AAA
1 AAA
4023412 AATTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 4 0.13
31 20 0.67
32 6 0.20
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (30 bp):
AAATAAATAAAGACTAAAAAAATATAAATA
Found at i:4023402 original size:15 final size:14
Alignment explanation
Indices: 4023352--4023413 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 14
4023342 AGAAACAAAT
4023352 AAATAAATA-TAATAA
1 AAATAAA-ACTAA-AA
4023367 AAATAAAACTAAAATA
1 AAATAAAACT-AAA-A
4023383 AAATAAAGACTAAAA
1 AAATAAA-ACTAAAA
4023398 AAATATAAA-TAAAA
1 AAATA-AAACTAAAA
4023412 AA
1 AA
4023414 TTTAATAATA
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
14 8 0.19
15 16 0.38
16 15 0.36
17 3 0.07
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (14 bp):
AAATAAAACTAAAA
Found at i:4023890 original size:7 final size:7
Alignment explanation
Indices: 4023871--4023902 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
4023861 TTTTTTTTAA
4023871 AAATAATT
1 AAATAA-T
4023879 AAATAAT
1 AAATAAT
4023886 AAATAAT
1 AAATAAT
4023893 AAATAAT
1 AAATAAT
4023900 AAA
1 AAA
4023903 ATTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:4035948 original size:33 final size:33
Alignment explanation
Indices: 4035906--4035970 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
4035896 AGATTTTTTA
4035906 ATTTAAAGTTTGTTACCTTTGGATAAAAGAGCC
1 ATTTAAAGTTTGTTACCTTTGGATAAAAGAGCC
* * *
4035939 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGC
1 ATTTAAAGTTTGTTACCTTTGGATAAAAGAGC
4035971 TTTTGGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (33 bp):
ATTTAAAGTTTGTTACCTTTGGATAAAAGAGCC
Found at i:4035997 original size:39 final size:38
Alignment explanation
Indices: 4035939--4036379 Score: 384
Period size: 39 Copynumber: 11.3 Consensus size: 38
4035929 TAAAAGAGCC
*
4035939 ATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTGGA
1 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGCTTTT-GA
* *
4035978 ATTTAAAGTTTGTTACCTTTGGTTAAATGAGCTTTTTGA
1 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGC-TTTTGA
* * * * *
4036017 ATTTAAAGTCTATTGCCTTTAGTTAAATGAGCTTTTTGG
1 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGC-TTTTGA
* * *** * * *
4036056 ATTTAAAGTTTGTTACCTCTAGTGGGAGGAACTTTTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGC-TTTTGA
4036095 CATTTAAAGTTTGTTGCCTCTGG-TAAGATGAGCCTTTTGA
1 -ATTTAAAGTTTGTTGCCTCTGGTTAA-ATGAG-CTTTTGA
*
4036135 ATTTAAAGTTTGTTGCCTCTGGTTAAA-GAAGCTTTTTA
1 ATTTAAAGTTTGTTGCCTCTGGTTAAATG-AGCTTTTGA
* * * * * *
4036173 GATTTAAAGTTTGTTACCTCTAGTGAGATAAGCTTTTTAA
1 -ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGC-TTTTGA
* * * * *
4036213 CAATTAAAGTTAGTTACCTCTGGTGAGA-GAAGCCTTTTGA
1 -ATTTAAAGTTTGTTGCCTCTGGTTAAATG-AG-CTTTTGA
* * * *
4036253 ATTTAAAGTTTGTTGCTTCTGATGAAAGGAGTCTTTTGA
1 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAG-CTTTTGA
* *
4036292 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTGA
1 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGCTTTTGA
* * * *
4036330 ATTTAAAGTTTGTTGCCTATGGTGAGAGGAGCTTTTTGA
1 ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGC-TTTTGA
4036369 ATTTAAAGTTT
1 ATTTAAAGTTT
4036380 TATAACCTCT
Statistics
Matches: 337, Mismatches: 52, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
38 43 0.13
39 220 0.65
40 72 0.21
41 2 0.01
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (38 bp):
ATTTAAAGTTTGTTGCCTCTGGTTAAATGAGCTTTTGA
Found at i:4036127 original size:118 final size:116
Alignment explanation
Indices: 4035978--4036379 Score: 422
Period size: 118 Copynumber: 3.4 Consensus size: 116
4035968 AGCTTTTGGA
* * * *
4035978 ATTTAAAGTTTGTTACCTTTGGTTAA-ATGAGCTTTTTGAATTTAAAGTCTATTGCCTTTAGTTA
1 ATTTAAAGTTTGTTACCTCTGG-TAAGATGAGCCTTTTGAATTTAAAGTTTGTTGCCTTT-GTTA
*
4036042 AATGAGCTTTTTGGATTTAAAGTTTGTTACCTCTAGTGGGAGGAACTTTTTAAC
64 AA-GAGCTTTTTGGATTTAAAGTTTGTTACCTCTAGTGAGAGGAACTTTTTAAC
* *
4036096 ATTTAAAGTTTGTTGCCTCTGGTAAGATGAGCCTTTTGAATTTAAAGTTTGTTGCCTCTGGTTAA
1 ATTTAAAGTTTGTTACCTCTGGTAAGATGAGCCTTTTGAATTTAAAGTTTGTTGCCT-TTGTTAA
* *
4036161 AGAAGCTTTTTAGATTTAAAGTTTGTTACCTCTAGTGAGA-TAAGCTTTTTAAC
65 AG-AGCTTTTTGGATTTAAAGTTTGTTACCTCTAGTGAGAGGAA-CTTTTTAAC
* * * *
4036214 AATTAAAGTTAGTTACCTCTGGTGAGA-GAAGCCTTTTGAATTTAAAGTTTGTTG-CTTCTGATG
1 ATTTAAAGTTTGTTACCTCTGGTAAGATG-AGCCTTTTGAATTTAAAGTTTGTTGCCTT-TG-TT
* * * * * * * *
4036277 AAAGGAG-TCTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGC-TTTTGA-
63 AAA-GAGCT-TTTTGGATTTAAAGTTTGTTACCTCTAGTGAGAGGAACTTTTTAAC
* * * * *
4036330 ATTTAAAGTTTGTTGCCTATGGTGAGAGGAGCTTTTTGAATTTAAAGTTT
1 ATTTAAAGTTTGTTACCTCTGGTAAGATGAGCCTTTTGAATTTAAAGTTT
4036380 TATAACCTCT
Statistics
Matches: 243, Mismatches: 30, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
116 44 0.18
117 17 0.07
118 179 0.74
119 3 0.01
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (116 bp):
ATTTAAAGTTTGTTACCTCTGGTAAGATGAGCCTTTTGAATTTAAAGTTTGTTGCCTTTGTTAAA
GAGCTTTTTGGATTTAAAGTTTGTTACCTCTAGTGAGAGGAACTTTTTAAC
Found at i:4036178 original size:157 final size:154
Alignment explanation
Indices: 4035938--4036379 Score: 523
Period size: 157 Copynumber: 2.8 Consensus size: 154
4035928 ATAAAAGAGC
* *
4035938 CATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTGGAATTTAAAGTTTGTTACCTTTGGTTA
1 CATTTAAAGTTTGTTGCCTCTGG-TAAATGAGCTTTT-GAATTTAAAGTTTGTTGCCTTTGGTTA
* * * * * *
4036003 AATGAGCTTTTT-GAATTTAAAGTCTATTGCCTTTAGTTAAATGAGCTTTTTGGATTTAAAGTTT
64 AA-GAGCTTTTTAG-ATTTAAAGTTTGTTGCCTATAGTGAGATGAGCTTTTTGAATTTAAAGTTT
* *
4036067 GTTACCTCTAGTGGGAGGAA-CTTTTTAA
127 GTTACCTCTAGTGAGA-GAAGCCTTTTAA
*
4036095 CATTTAAAGTTTGTTGCCTCTGGTAAGATGAGCCTTTTGAATTTAAAGTTTGTTGCCTCTGGTTA
1 CATTTAAAGTTTGTTGCCTCTGGTAA-ATGAG-CTTTTGAATTTAAAGTTTGTTGCCTTTGGTTA
* * * * * *
4036160 AAGAAGCTTTTTAGATTTAAAGTTTGTTACCTCTAGTGAGATAAGCTTTTTAACAATTAAAGTTA
64 AAG-AGCTTTTTAGATTTAAAGTTTGTTGCCTATAGTGAGATGAGCTTTTTGA-ATTTAAAGTTT
* *
4036225 GTTACCTCTGGTGAGAGAAGCCTTTTGA
127 GTTACCTCTAGTGAGAGAAGCCTTTTAA
* * *
4036253 -ATTTAAAGTTTGTTGCTTCTGATGAAAGGAGTCTTTTGAATTTAAAGTTTGTTGCCTTTGGTTA
1 CATTTAAAGTTTGTTGCCTCTGGT-AAATGAG-CTTTTGAATTTAAAGTTTGTTGCCTTTGGTTA
* * *
4036317 AAGGAGCTTTTGA-ATTTAAAGTTTGTTGCCTATGGTGAGAGGAGCTTTTTGAATTTAAAGTTT
64 AA-GAGCTTTTTAGATTTAAAGTTTGTTGCCTATAGTGAGATGAGCTTTTTGAATTTAAAGTTT
4036380 TATAACCTCT
Statistics
Matches: 245, Mismatches: 32, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
155 9 0.04
156 37 0.15
157 161 0.66
158 38 0.16
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (154 bp):
CATTTAAAGTTTGTTGCCTCTGGTAAATGAGCTTTTGAATTTAAAGTTTGTTGCCTTTGGTTAAA
GAGCTTTTTAGATTTAAAGTTTGTTGCCTATAGTGAGATGAGCTTTTTGAATTTAAAGTTTGTTA
CCTCTAGTGAGAGAAGCCTTTTAA
Found at i:4038108 original size:25 final size:26
Alignment explanation
Indices: 4038047--4038108 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
4038037 AAATTTTAAA
*
4038047 AAAAAATAATT-AAAGAATACATAAT
1 AAAAATTAATTAAAAGAATACATAAT
** *
4038072 -AAAATTTTTTAAAATAAT-CATAAT
1 AAAAATTAATTAAAAGAATACATAAT
4038096 AAAAATTAATTAA
1 AAAAATTAATTAA
4038109 TTAATTCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (26 bp):
AAAAATTAATTAAAAGAATACATAAT
Found at i:4040317 original size:2 final size:2
Alignment explanation
Indices: 4040305--4040335 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4040295 GATTTCTCGT
*
4040305 TA TA AA 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
4040336 GACCATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4040678 original size:23 final size:22
Alignment explanation
Indices: 4040644--4040686 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
4040634 ATATTTATAT
*
4040644 ATAAATTTTAATTTTAAAAATA
1 ATAAATTTTAATATTAAAAATA
4040666 ATAAATATTTAATATTAAAAA
1 ATAAAT-TTTAATATTAAAAA
4040687 ATATTATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAAATTTTAATATTAAAAATA
Found at i:4040686 original size:24 final size:22
Alignment explanation
Indices: 4040644--4040689 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
4040634 ATATTTATAT
*
4040644 ATAAATTTTAATTTTAAAAATA
1 ATAAATTTTAATTTAAAAAATA
4040666 ATAAATATTTAATATTAAAAAATA
1 ATAAAT-TTTAAT-TTAAAAAATA
4040690 TTATGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 6 0.29
24 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAAATTTTAATTTAAAAAATA
Found at i:4041804 original size:22 final size:21
Alignment explanation
Indices: 4041758--4041811 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
4041748 ATAATTTTTG
4041758 TATTATATAATAAATTAATAAA
1 TATTATA-AATAAATTAATAAA
4041780 TATTATAAATAACATT-A-AAA
1 TATTATAAATAA-ATTAATAAA
4041800 TA-TATAAA-AAAT
1 TATTATAAATAAAT
4041812 AATTTATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 6 0.19
20 5 0.16
21 6 0.19
22 10 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
TATTATAAATAAATTAATAAA
Found at i:4045220 original size:14 final size:15
Alignment explanation
Indices: 4045195--4045223 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4045185 TGGCCTAAGC
4045195 TCATTGTTTTTATTT
1 TCATTGTTTTTATTT
4045210 TCATT-TTTTTATTT
1 TCATTGTTTTTATTT
4045224 ATTTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (15 bp):
TCATTGTTTTTATTT
Found at i:4045226 original size:18 final size:18
Alignment explanation
Indices: 4045203--4045243 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4045193 GCTCATTGTT
* *
4045203 TTTATTTTCATTTTTTTA
1 TTTATTTTCATTATATTA
*
4045221 TTTATTTTTATTATATTA
1 TTTATTTTCATTATATTA
4045239 TTTAT
1 TTTAT
4045244 ATAGTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTCATTATATTA
Found at i:4045853 original size:20 final size:20
Alignment explanation
Indices: 4045830--4045883 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
4045820 ATTCCAATTA
4045830 AAAACAAAATCGTAAAAAAC-
1 AAAACAAAATC-TAAAAAACT
*
4045850 AAAACAAAAACTAAAAAACT
1 AAAACAAAATCTAAAAAACT
*
4045870 AAAA-AAAATTTAAA
1 AAAACAAAATCTAAA
4045884 CACAGAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.74, C:0.11, G:0.02, T:0.13
Consensus pattern (20 bp):
AAAACAAAATCTAAAAAACT
Found at i:4045866 original size:19 final size:21
Alignment explanation
Indices: 4045830--4045877 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
4045820 ATTCCAATTA
*
4045830 AAAACAAAATCGTAAAAAAC-
1 AAAACAAAAACGTAAAAAACT
4045850 AAAACAAAAAC-TAAAAAACT
1 AAAACAAAAACGTAAAAAACT
4045870 AAAA-AAAA
1 AAAACAAAA
4045878 TTTAAACACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.77, C:0.12, G:0.02, T:0.08
Consensus pattern (21 bp):
AAAACAAAAACGTAAAAAACT
Found at i:4047022 original size:11 final size:10
Alignment explanation
Indices: 4047006--4047077 Score: 58
Period size: 10 Copynumber: 6.9 Consensus size: 10
4046996 GATAAAATAA
4047006 AATAAAAATT
1 AATAAAAATT
4047016 AACTAAAAATT
1 AA-TAAAAATT
*
4047027 ATTAATAAA--
1 AATAA-AAATT
*
4047036 AATAAAATTT
1 AATAAAAATT
4047046 AACTAAAATTATT
1 AA-TAAAA--ATT
*
4047059 AATAAAAAAT
1 AATAAAAATT
4047069 AATAAAAAT
1 AATAAAAAT
4047078 GAAGGAAAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
8 2 0.04
9 4 0.08
10 17 0.35
11 17 0.35
12 5 0.10
13 4 0.08
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (10 bp):
AATAAAAATT
Found at i:4047067 original size:30 final size:31
Alignment explanation
Indices: 4046974--4047070 Score: 130
Period size: 30 Copynumber: 3.2 Consensus size: 31
4046964 TTTATAAAAT
* *
4046974 AAAATAAATTTTAACTAAAAATGA-TAA-AA
1 AAAATAAAATTTAACTAAAAATTATTAATAA
*
4047003 TAAAATAAAAATTAACTAAAAATTATTAAT-A
1 -AAAATAAAATTTAACTAAAAATTATTAATAA
4047034 AAAATAAAATTTAACT-AAAATTATTAATAA
1 AAAATAAAATTTAACTAAAAATTATTAATAA
4047064 AAAATAA
1 AAAATAA
4047071 TAAAAATGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
29 12 0.20
30 44 0.73
31 4 0.07
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (31 bp):
AAAATAAAATTTAACTAAAAATTATTAATAA
Found at i:4047248 original size:7 final size:7
Alignment explanation
Indices: 4047236--4047270 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
4047226 TTTTTTTTCA
4047236 AAAAAAT
1 AAAAAAT
4047243 AAAAAAT
1 AAAAAAT
4047250 AAAAAAT
1 AAAAAAT
*
4047257 AATAAAT
1 AAAAAAT
*
4047264 AATAAAT
1 AAAAAAT
4047271 TTTTTAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAAAAT
Found at i:4047260 original size:17 final size:16
Alignment explanation
Indices: 4047235--4047269 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4047225 TTTTTTTTTC
4047235 AAAAAAATAAAAAATA
1 AAAAAAATAAAAAATA
*
4047251 AAAAATAATAAATAATA
1 AAAAA-AATAAAAAATA
4047268 AA
1 AA
4047270 TTTTTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAAAATAAAAAATA
Found at i:4047532 original size:18 final size:18
Alignment explanation
Indices: 4047504--4047547 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4047494 TTTCACGAAT
* *
4047504 AAATGAAATAACAATAAAA
1 AAAT-AAATAAAAAGAAAA
4047523 AAATAAATAAAAAGAAAA
1 AAATAAATAAAAAGAAAA
*
4047541 AACTAAA
1 AAATAAA
4047548 ATTACGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (18 bp):
AAATAAATAAAAAGAAAA
Found at i:4047786 original size:19 final size:18
Alignment explanation
Indices: 4047742--4047790 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
4047732 TATCTTTTTA
*
4047742 GTAAATTTTAA-TAAATT
1 GTAAATTTTAATTAAATG
*
4047759 TTAAGATTTTAATTAAAATG
1 GTAA-ATTTTAATT-AAATG
4047779 GTAAATTTTAAT
1 GTAAATTTTAAT
4047791 AGGTGGTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.12
18 7 0.27
19 9 0.35
20 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (18 bp):
GTAAATTTTAATTAAATG
Found at i:4055706 original size:21 final size:21
Alignment explanation
Indices: 4055682--4055722 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
4055672 AAAAGGAAGA
4055682 TCATATAGTCAATCTTAAAAG
1 TCATATAGTCAATCTTAAAAG
4055703 TCATATAGTCAATCTTAAAA
1 TCATATAGTCAATCTTAAAA
4055723 AATTGTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (21 bp):
TCATATAGTCAATCTTAAAAG
Found at i:4057374 original size:35 final size:35
Alignment explanation
Indices: 4057335--4057408 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
4057325 ATGCTAAAAG
*
4057335 ATGCCTTAAATGTCAGATTTATTCTGATAAGATTC
1 ATGCCTTAAATGTCAGATTTATTCTGATAAAATTC
* *
4057370 ATGCCTTAAATGTCATATTTATTTTGATAAAATTC
1 ATGCCTTAAATGTCAGATTTATTCTGATAAAATTC
4057405 ATGC
1 ATGC
4057409 TCTTTCATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (35 bp):
ATGCCTTAAATGTCAGATTTATTCTGATAAAATTC
Found at i:4058317 original size:8 final size:8
Alignment explanation
Indices: 4058304--4058333 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
4058294 ATACTTTGCT
4058304 TAAAAAAA
1 TAAAAAAA
4058312 T-AAAAAA
1 TAAAAAAA
4058319 TAAAAAAA
1 TAAAAAAA
4058327 TAAAAAA
1 TAAAAAA
4058334 GGATATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:4058324 original size:15 final size:15
Alignment explanation
Indices: 4058304--4058333 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4058294 ATACTTTGCT
4058304 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
4058319 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
4058334 GGATATATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
TAAAAAAATAAAAAA
Found at i:4059223 original size:51 final size:51
Alignment explanation
Indices: 4059164--4059284 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
4059154 ACTTTTGAGA
* * *
4059164 AAAGATGAAAATTTTTAAAATTGTTAAACCTCTGCTTAGATGAACTTTTTT
1 AAAGATGAAAATTTTTAAAATTATTAAACCTCTGCTTAGAGGAACCTTTTT
* * **
4059215 AAAGATGAAAATTTTTAAAGTTATTGAGTCTCTGCTTAGAGGAACCTTTTT
1 AAAGATGAAAATTTTTAAAATTATTAAACCTCTGCTTAGAGGAACCTTTTT
* * *
4059266 CAAGATGAGAATTGTTAAA
1 AAAGATGAAAATTTTTAAA
4059285 GGTAGCGAGC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (51 bp):
AAAGATGAAAATTTTTAAAATTATTAAACCTCTGCTTAGAGGAACCTTTTT
Found at i:4059285 original size:51 final size:51
Alignment explanation
Indices: 4059192--4059308 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
4059182 AATTGTTAAA
* * * * **
4059192 CCTCTGCTTAGATGAACTTTTTTAAAGATGAAAATTTTTAAAGTTATTGAG
1 CCTCTGCTTAGAGGAACCTTTTTAAAGATGAAAATTGTTAAAGGTAGCGAG
* * *
4059243 TCTCTGCTTAGAGGAACCTTTTTCAAGATGAGAATTGTTAAAGGTAGCGAG
1 CCTCTGCTTAGAGGAACCTTTTTAAAGATGAAAATTGTTAAAGGTAGCGAG
*
4059294 CCTCTGTTTAGAGGA
1 CCTCTGCTTAGAGGA
4059309 GCTTTCCTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (51 bp):
CCTCTGCTTAGAGGAACCTTTTTAAAGATGAAAATTGTTAAAGGTAGCGAG
Found at i:4059469 original size:43 final size:43
Alignment explanation
Indices: 4059391--4059477 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
4059381 GATATGAACT
* * *
4059391 TTTTAAAGTTTTAAAAGTTGTTGAGTTTCAACTTAGAGGAGCC
1 TTTTAAAATTTTAAAAGTTATTGAGTTTCAACTTAGAAGAGCC
* ***
4059434 TTTTAAAATTTTGAAAGTTATTGAGTTTTTGCTTAGAAGAGCC
1 TTTTAAAATTTTAAAAGTTATTGAGTTTCAACTTAGAAGAGCC
4059477 T
1 T
4059478 AGAAGTTTTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (43 bp):
TTTTAAAATTTTAAAAGTTATTGAGTTTCAACTTAGAAGAGCC
Found at i:4061138 original size:17 final size:17
Alignment explanation
Indices: 4061116--4061151 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4061106 AGTGATTTAG
* *
4061116 ATTTTTTTATTTTTTTT
1 ATTTTTTGATTTTCTTT
4061133 ATTTTTTGATTTTCTTT
1 ATTTTTTGATTTTCTTT
4061150 AT
1 AT
4061152 CATTTTAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (17 bp):
ATTTTTTGATTTTCTTT
Found at i:4061364 original size:14 final size:13
Alignment explanation
Indices: 4061291--4061367 Score: 57
Period size: 14 Copynumber: 5.4 Consensus size: 13
4061281 TAAACTTTAT
4061291 AAAATAATAAAATA
1 AAAATAATAAAA-A
*
4061305 AAAATAACTAAATA
1 AAAATAA-TAAAAA
*
4061319 ATAATAATGATAAAA
1 AAAATAAT-A-AAAA
4061334 AAAATAGA-AGAAGAA
1 AAAATA-ATA-AA-AA
4061349 AAAATCAATAAAAA
1 AAAAT-AATAAAAA
4061363 AAAAT
1 AAAAT
4061368 TTTGAAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
13 1 0.02
14 25 0.49
15 22 0.43
16 3 0.06
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (13 bp):
AAAATAATAAAAA
Found at i:4061676 original size:28 final size:30
Alignment explanation
Indices: 4061607--4061676 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 30
4061597 TCCTTTTTTC
*
4061607 TATTAA-ATAAAATAAAAATTATCTAAAAAT
1 TATTAATA-AAAATAAAAATTAACTAAAAAT
*
4061637 TATTAATAAAAAT-AAAATTAACT-AAAGT
1 TATTAATAAAAATAAAAATTAACTAAAAAT
*
4061665 TATTTATAAAAA
1 TATTAATAAAAA
4061677 ATAATAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 15 0.42
29 9 0.25
30 11 0.31
31 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (30 bp):
TATTAATAAAAATAAAAATTAACTAAAAAT
Found at i:4065020 original size:8 final size:8
Alignment explanation
Indices: 4065009--4065068 Score: 57
Period size: 9 Copynumber: 6.9 Consensus size: 8
4064999 TTCTTTTATT
4065009 TTTTTGTA
1 TTTTTGTA
*
4065017 TTTTTTTA
1 TTTTTGTA
4065025 GTTTTTAGTA
1 -TTTTT-GTA
4065035 TTTTTGTA
1 TTTTTGTA
*
4065043 TTTTTTTTGA
1 -TTTTTGT-A
4065053 TATTTTGTA
1 T-TTTTGTA
4065062 TTTTTGT
1 TTTTTGT
4065069 TTAATTTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 16 0.37
9 19 0.44
10 8 0.19
ACGTcount: A:0.13, C:0.00, G:0.12, T:0.75
Consensus pattern (8 bp):
TTTTTGTA
Found at i:4065049 original size:20 final size:20
Alignment explanation
Indices: 4065026--4065071 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
4065016 ATTTTTTTAG
4065026 TTTTTAG-TATTTTTGTATTT
1 TTTTTAGATA-TTTTGTATTT
4065046 TTTTT-GATATTTTGTATTT
1 TTTTTAGATATTTTGTATTT
4065065 TTGTTTA
1 TT-TTTA
4065072 ATTTAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (20 bp):
TTTTTAGATATTTTGTATTT
Found at i:4065065 original size:18 final size:18
Alignment explanation
Indices: 4064993--4065066 Score: 73
Period size: 18 Copynumber: 4.1 Consensus size: 18
4064983 AGCCCCTCCC
4064993 TTTTGT-TTCTTT-TATTT
1 TTTTGTATT-TTTGTATTT
* *
4065010 TTTTGTATTTTTTTAGTT
1 TTTTGTATTTTTGTATTT
*
4065028 TTTAGTATTTTTGTATTT
1 TTTTGTATTTTTGTATTT
4065046 TTTT-TGATATTTTGTATTT
1 TTTTGT-AT-TTTTGTATTT
4065065 TT
1 TT
4065067 GTTTAATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
17 10 0.21
18 26 0.54
19 12 0.25
ACGTcount: A:0.12, C:0.01, G:0.09, T:0.77
Consensus pattern (18 bp):
TTTTGTATTTTTGTATTT
Found at i:4065067 original size:27 final size:26
Alignment explanation
Indices: 4065009--4065068 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
4064999 TTCTTTTATT
4065009 TTTTTGTATTTTTTTAGTTTTTAGTA
1 TTTTTGTATTTTTTTAGTTTTTAGTA
*
4065035 TTTTTGTATTTTTTTTGATATTTT-GTA
1 TTTTTGTATTTTTTTAG-T-TTTTAGTA
4065062 TTTTTGT
1 TTTTTGT
4065069 TTAATTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
26 16 0.52
27 11 0.35
28 4 0.13
ACGTcount: A:0.13, C:0.00, G:0.12, T:0.75
Consensus pattern (26 bp):
TTTTTGTATTTTTTTAGTTTTTAGTA
Found at i:4065183 original size:28 final size:27
Alignment explanation
Indices: 4065139--4065228 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 27
4065129 GAGCTCAATC
*
4065139 GAAATCAGACTTTAAGCCCAGTTGAATT
1 GAAATCAG-CTTGAAGCCCAGTTGAATT
*
4065167 GAAATCGAGCTTGAAGCCCAATTGAATT
1 GAAATC-AGCTTGAAGCCCAGTTGAATT
4065195 GAAATCAGGCTTGAAGCCCAGTTGAATT
1 GAAATCA-GCTTGAAGCCCAGTTGAATT
4065223 GAAATC
1 GAAATC
4065229 GGGTATCGAC
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
27 1 0.02
28 54 0.95
29 2 0.04
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATCAGCTTGAAGCCCAGTTGAATT
Found at i:4065586 original size:96 final size:95
Alignment explanation
Indices: 4065479--4065797 Score: 327
Period size: 98 Copynumber: 3.3 Consensus size: 95
4065469 AAGAAACTAT
* * *
4065479 TCTCAGCAGAGGCTCAACAAATTTAAAATTTTGTCTTGAAAAAGTTTCATTAAGCAAAGTCTCAA
1 TCTCAGCAGAGGCTCAACAACTTTAAAATTTTGTCTTGAAAAAGTTTC-TTCAGCAAAGGCTCAA
*
4065544 AACTTTAAAAATCTCATCTGGAAAAAGTTCC
65 AACTTTAAAAATCTCATCTGGAAAAAGCTCC
* * ** *
4065575 TCTCAGTAGAGGCTCAACAACTTTAAAAATCCTCATCTTGAAAAAGCTCTTC-TCAGCAGAGGCT
1 TCTCAGCAGAGGCTCAACAACTTT-AAAAT-TTTGTCTTGAAAAAG-T-TTCTTCAGCAAAGGCT
* * *
4065639 TAACAACTTT-AAAATCTCATTTGGAAAAAGCTCA
62 CAA-AACTTTAAAAATCTCATCTGGAAAAAGCTCC
* * * * * * * * *
4065673 TTTCAACAGAGGCTCAATAACTTTAGAATTCTGTCTCGAAAAAGCTCCTCTCAGCAAAGGCTTGA
1 TCTCAGCAGAGGCTCAACAACTTTAAAATTTTGTCTTGAAAAAGTTTCT-TCAGCAAAGGC-TCA
* *
4065738 CAACTTTAAAAATCTCATCTGAAAAAAGCTCC
64 AAACTTTAAAAATCTCATCTGGAAAAAGCTCC
* *
4065770 TCTCAGTAGAGGCTCAATAACTTTAAAA
1 TCTCAGCAGAGGCTCAACAACTTTAAAA
4065798 ATCTCATATG
Statistics
Matches: 180, Mismatches: 34, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
94 2 0.01
96 48 0.27
97 56 0.31
98 64 0.36
99 7 0.04
100 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (95 bp):
TCTCAGCAGAGGCTCAACAACTTTAAAATTTTGTCTTGAAAAAGTTTCTTCAGCAAAGGCTCAAA
ACTTTAAAAATCTCATCTGGAAAAAGCTCC
Found at i:4065666 original size:146 final size:145
Alignment explanation
Indices: 4065478--4065804 Score: 376
Period size: 146 Copynumber: 2.2 Consensus size: 145
4065468 AAAGAAACTA
* * ** * *
4065478 TTCTCAGCAGAGGCTCAACAAATTTAAAATTTTGTCTTGAAAAAGTTTCA-TT-AAGCAAAGTCT
1 TTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAG-CTCATTTCAA-CAAAGGCT
* * * *
4065541 CAA-AACTTTAAAAATCTCATCTGGAAAAAGTTCCTCTCAGTAGAGGCTCAACAACTTTAAAAAT
64 CAATAACTTTAAAAATCT-ATCTCGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAAT
4065605 CCTCATCTTG-AAAAAGCTC
128 -CTCATC-TGAAAAAAGCTC
* *
4065624 TTCTCAGCAGAGGCTTAACAACTTTAAAATCTCAT-TTGGAAAAAGCTCATTTCAACAGAGGCTC
1 TTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-GAAAAAGCTCATTTCAACAAAGGCTC
* * * **
4065688 AATAACTTTAGAATTCTGTCTCGAAAAAGCTCCTCTCAGCAAAGGCTTGACAACTTTAAAAATCT
65 AATAACTTTAAAAATCTATCTCGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCT
4065753 CATCTGAAAAAAGCTC
130 CATCTGAAAAAAGCTC
* * *
4065769 CTCTCAGTAGAGGCTCAATAACTTTAAAAATCTCAT
1 TTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCAT
4065805 ATGTTCTCTA
Statistics
Matches: 154, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
144 2 0.01
145 41 0.27
146 97 0.63
147 14 0.09
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (145 bp):
TTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGCTCATTTCAACAAAGGCTCA
ATAACTTTAAAAATCTATCTCGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATCTC
ATCTGAAAAAAGCTC
Found at i:4065798 original size:49 final size:48
Alignment explanation
Indices: 4065479--4065804 Score: 311
Period size: 48 Copynumber: 6.7 Consensus size: 48
4065469 AAGAAACTAT
* * ** * *
4065479 TCTCAGCAGAGGCTCAACAAATTT-AAAATTTTGTCTTGAAAAAGTTTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATC-TGAAAAAG-CTCC
* * * *
4065528 T-TAAGCAAAGTCTCAA-AACTTTAAAAATCTCATCTGGAAAAAGTTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT-GAAAAAGCTCC
* *
4065575 TCTCAGTAGAGGCTCAACAACTTTAAAAATCCTCATCTTGAAAAAGCTCT
1 TCTCAGCAGAGGCTCAACAACTTTAAAAAT-CTCATC-TGAAAAAGCTCC
* * *
4065625 TCTCAGCAGAGGCTTAACAACTTT-AAAATCTCATTTGGAAAAAGCTCA
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT-GAAAAAGCTCC
* * * * * *
4065673 TTTCAACAGAGGCTCAATAACTTTAGAATTCT-GTCTCGAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCT-GAAAAAGCTCC
* **
4065721 TCTCAGCAAAGGCTTGACAACTTTAAAAATCTCATCTGAAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTG-AAAAAGCTCC
* *
4065770 TCTCAGTAGAGGCTCAATAACTTTAAAAATCTCAT
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCAT
4065805 ATGTTCTCTA
Statistics
Matches: 225, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
47 11 0.05
48 110 0.49
49 66 0.29
50 37 0.16
51 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (48 bp):
TCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAGCTCC
Found at i:4066615 original size:19 final size:19
Alignment explanation
Indices: 4066591--4066630 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4066581 CTTAGATATG
4066591 TCATTTTTTTCACTTTTTT
1 TCATTTTTTTCACTTTTTT
* *
4066610 TCATTTTTTTTATTTTTTT
1 TCATTTTTTTCACTTTTTT
4066629 TC
1 TC
4066631 TATAAGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (19 bp):
TCATTTTTTTCACTTTTTT
Found at i:4066629 original size:10 final size:9
Alignment explanation
Indices: 4066591--4066628 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
4066581 CTTAGATATG
4066591 TCATTTTTT
1 TCATTTTTT
4066600 TCACTTTTTT
1 TCA-TTTTTT
4066610 TCATTTTTT
1 TCATTTTTT
*
4066619 TTATTTTTT
1 TCATTTTTT
4066628 T
1 T
4066629 TCTATAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (9 bp):
TCATTTTTT
Found at i:4075529 original size:60 final size:59
Alignment explanation
Indices: 4075397--4075622 Score: 311
Period size: 60 Copynumber: 3.9 Consensus size: 59
4075387 TTTTGTGTAG
* *
4075397 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTT-AA
4075456 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATCTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGAT-TTTAA
* ***
4075516 GGAAAATTAATACTTTCAACTTTT-CCTCAAAAA-CCCTTTTT-GAAA-TTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTGGAAATTTTGA-TTTTAA
*
4075572 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTT
4075623 TTATTTTTAT
Statistics
Matches: 149, Mismatches: 10, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
56 34 0.23
57 12 0.08
58 8 0.05
59 45 0.30
60 47 0.32
61 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATTTTAA
Found at i:4075596 original size:116 final size:118
Alignment explanation
Indices: 4075397--4075622 Score: 366
Period size: 116 Copynumber: 1.9 Consensus size: 118
4075387 TTTTGTGTAG
* * *
4075397 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTCAAGGAAAA
1 GGAAAATTAATACTTTCAACTTTTCCCCAAAAACACTTTTTGGAAATTTC-ATTTTCAAGGAAAA
4075462 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATCTTTAA
65 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATCTTTAA
* * *
4075516 GGAAAATTAATACTTTCAACTTTTCCTCAAAAACCCTTTTT-GAAATTT-ATTTTTAAGGAAAAT
1 GGAAAATTAATACTTTCAACTTTTCCCCAAAAACACTTTTTGGAAATTTCATTTTCAAGGAAAAT
*
4075579 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTT
66 TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTT
4075623 TTATTTTTAT
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
116 57 0.57
118 7 0.07
119 36 0.36
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (118 bp):
GGAAAATTAATACTTTCAACTTTTCCCCAAAAACACTTTTTGGAAATTTCATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTTGATCTTTAA
Found at i:4075670 original size:6 final size:6
Alignment explanation
Indices: 4075639--4075729 Score: 80
Period size: 6 Copynumber: 14.7 Consensus size: 6
4075629 TTATTTAAAG
*
4075639 AAAATA GAATAATA AATAATA TAAATA AAAATA AAAATA AAAATA AATAA-A
1 AAAATA -AA-AATA AA-AATA AAAATA AAAATA AAAATA AAAATA AA-AATA
* *
4075690 GAAAAGT- AAAACA AAAATA AAAAT- AAAATA AAGATA AAAA
1 -AAAA-TA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
4075730 AGAATATTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
5 5 0.07
6 48 0.68
7 14 0.20
8 4 0.06
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:4075672 original size:22 final size:22
Alignment explanation
Indices: 4075646--4075744 Score: 73
Period size: 22 Copynumber: 4.5 Consensus size: 22
4075636 AAGAAAATAG
*
4075646 AATAATAAAT-AATATAAATAAA
1 AATAA-AAATAAAAATAAATAAA
4075668 AATAAAAATAAAAATAAAT--A
1 AATAAAAATAAAAATAAATAAA
* * *
4075688 AAGAAAAGTAAAACAAAAATAAA
1 AATAAAAATAAAA-ATAAATAAA
*
4075711 AAT-AAAATAAAGATAAA-AAA
1 AATAAAAATAAAAATAAATAAA
*
4075731 GAATATTAAATAAA
1 -AATA-AAAATAAA
4075745 CCTAATCTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 15 0.25
21 16 0.26
22 20 0.33
23 10 0.16
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (22 bp):
AATAAAAATAAAAATAAATAAA
Done.