Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold145
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: 2608604
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 28749 characters in sequence are not A, C, G, or T
File 5 of 15
Found at i:947873 original size:12 final size:12
Alignment explanation
Indices: 947858--947888 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
947848 TCTCTCTTTT
947858 TCTCTCTCACTC
1 TCTCTCTCACTC
*
947870 TCTCTCTCCCTC
1 TCTCTCTCACTC
947882 TCTCTCT
1 TCTCTCT
947889 TTCTAGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.52, G:0.00, T:0.45
Consensus pattern (12 bp):
TCTCTCTCACTC
Found at i:956023 original size:16 final size:17
Alignment explanation
Indices: 956002--956035 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
955992 AGAAACAAAC
956002 AGAAAAA-AAAAAAAGA
1 AGAAAAAGAAAAAAAGA
*
956018 AGAAAAAGAAAAAGAGA
1 AGAAAAAGAAAAAAAGA
956035 A
1 A
956036 TAAGATGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AGAAAAAGAAAAAAAGA
Found at i:957073 original size:16 final size:16
Alignment explanation
Indices: 957042--957083 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
957032 GAATAAAATG
*
957042 ATTTTAATAATTTTATA
1 ATTTTAA-ATTTTTATA
*
957059 ATTTTAAATTTTTATT
1 ATTTTAAATTTTTATA
957075 ATTTTAAAT
1 ATTTTAAAT
957084 ATATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTAAATTTTTATA
Found at i:958290 original size:5 final size:5
Alignment explanation
Indices: 958272--958310 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
958262 AATATTATTT
* *
958272 TTAAA ATAAA TTAAT TTAAA TTAAA TTAAA TT-AA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA
958311 ATTGAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TTAAA
Found at i:958295 original size:20 final size:20
Alignment explanation
Indices: 958272--958313 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
958262 AATATTATTT
*
958272 TTAAAATAAATTAATTTAAA
1 TTAAAATAAATTAATTAAAA
*
958292 TTAAATTAAATTAATTAAAA
1 TTAAAATAAATTAATTAAAA
958312 TT
1 TT
958314 GAATAAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAATAAATTAATTAAAA
Found at i:963667 original size:18 final size:19
Alignment explanation
Indices: 963632--963668 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
963622 TGAGCGTGCA
963632 GGTATTAGACACATATAAT
1 GGTATTAGACACATATAAT
963651 GGTA-TAGA-ACATAATAAT
1 GGTATTAGACACAT-ATAAT
963669 CTTAGTGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 9 0.53
19 4 0.24
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (19 bp):
GGTATTAGACACATATAAT
Found at i:969699 original size:22 final size:22
Alignment explanation
Indices: 969674--969763 Score: 55
Period size: 22 Copynumber: 4.1 Consensus size: 22
969664 TATATAATTT
969674 TAAAAATTTTAATAAAATATTA
1 TAAAAATTTTAATAAAATATTA
* *
969696 T--AAATATT-ATAAATATATACA
1 TAAAAATTTTAATAAA-ATAT-TA
* *
969717 TAAAAATTATTAATATATTA-TA
1 TAAAAATT-TTAATAAAATATTA
* *
969739 TATAAATCTTTAA-AAAATTTTA
1 TAAAAAT-TTTAATAAAATATTA
969761 TAA
1 TAA
969764 TTTAAATTTA
Statistics
Matches: 49, Mismatches: 11, Indels: 16
0.64 0.14 0.21
Matches are distributed among these distances:
19 5 0.10
20 10 0.20
21 5 0.10
22 16 0.33
23 5 0.10
24 4 0.08
25 4 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAAAATTTTAATAAAATATTA
Found at i:969725 original size:21 final size:21
Alignment explanation
Indices: 969695--969734 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
969685 ATAAAATATT
*
969695 ATAAATATTATAAATATATAC
1 ATAAAAATTATAAATATATAC
*
969716 ATAAAAATTATTAATATAT
1 ATAAAAATTATAAATATAT
969735 TATATATAAA
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:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAAAATTATAAATATATAC
Found at i:969742 original size:30 final size:30
Alignment explanation
Indices: 969685--969742 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
969675 AAAAATTTTA
969685 ATAAAATATTATAAATATTATAAATATATAC
1 ATAAAATATTATAAATATTAT-AATATATAC
* *
969716 ATAAAA-ATTATTAATA-TATTATATATA
1 ATAAAATATTATAAATATTATAATATATA
969743 AATCTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
29 3 0.12
30 9 0.36
31 6 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (30 bp):
ATAAAATATTATAAATATTATAATATATAC
Found at i:971199 original size:20 final size:21
Alignment explanation
Indices: 971174--971218 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
971164 AATAAAAAAA
*
971174 TAAA-TTATAAATGTTAATTT
1 TAAATTTATAAATGATAATTT
* *
971194 TAAATTTATTAATGATATTTT
1 TAAATTTATAAATGATAATTT
971215 TAAA
1 TAAA
971219 AAATAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
TAAATTTATAAATGATAATTT
Found at i:972122 original size:4 final size:4
Alignment explanation
Indices: 972108--972155 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
972098 GATGTGTGTG
* * * * *
972108 TATA TACA TATA TATA TATA TATA TATG TATG TATG TATA TATT TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
972156 GATGGCTTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:972124 original size:6 final size:6
Alignment explanation
Indices: 972108--972155 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
972098 GATGTGTGTG
* * * * *
972108 TATATA CATATA TATATA TATATA TATGTA TGTATG TATATA TTTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
972156 GATGGCTTAG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (6 bp):
TATATA
Found at i:972441 original size:2 final size:2
Alignment explanation
Indices: 972434--972463 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
972424 TTCATAAGAA
972434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
972464 GAAGATGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:973094 original size:12 final size:14
Alignment explanation
Indices: 973025--973115 Score: 59
Period size: 14 Copynumber: 6.8 Consensus size: 14
973015 TTAAATATAA
* * *
973025 ATATAATATATATC
1 ATATTATATTTATT
973039 ATATTA-ATTATATT
1 ATATTATATT-TATT
*
973053 -TATTATATTTAAAT
1 ATATTATATTT-ATT
973067 ATATTATATTTATT
1 ATATTATATTTATT
973081 ATATTAT-TTT-TT
1 ATATTATATTTATT
* **
973093 AT-TAATAAAT-TT
1 ATATTATATTTATT
973105 ATATTATATTT
1 ATATTATATTT
973116 TCATATAATG
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
11 3 0.05
12 9 0.15
13 16 0.27
14 22 0.37
15 10 0.17
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTATATTTATT
Found at i:974636 original size:30 final size:30
Alignment explanation
Indices: 974601--974680 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
974591 ATATAAGTTA
*
974601 TAAAATTTTAATTTTATTAAATTATATTAT
1 TAAAATTTTAATTTTATTAAATTAAATTAT
* *
974631 TAAAATTTT-ATTATTAATAAAATAAATTAT
1 TAAAATTTTAATT-TTATTAAATTAAATTAT
* *
974661 T--TATGTTAATTTTATTAAAT
1 TAAAATTTTAATTTTATTAAAT
974681 AGTTTTAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
28 11 0.27
29 6 0.15
30 24 0.59
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
TAAAATTTTAATTTTATTAAATTAAATTAT
Found at i:974642 original size:14 final size:14
Alignment explanation
Indices: 974614--974647 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
974604 AATTTTAATT
974614 TTATT-AAATTATA
1 TTATTAAAATTATA
*
974627 TTATTAAAATTTTA
1 TTATTAAAATTATA
974641 TTATTAA
1 TTATTAA
974648 TAAAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTAAAATTATA
Found at i:978976 original size:2 final size:2
Alignment explanation
Indices: 978932--978960 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
978922 AAACTGGGTG
978932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
978961 GTAGTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:983609 original size:21 final size:20
Alignment explanation
Indices: 983585--983626 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
983575 TTTAAAAAAG
983585 ATAAAATTACATAAT-ATTAAA
1 ATAAAATTA-A-AATAATTAAA
*
983606 ATAATATTAAAATAATTAAA
1 ATAAAATTAAAATAATTAAA
983626 A
1 A
983627 ATTAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 8 0.42
21 8 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAATTAAAATAATTAAA
Found at i:983611 original size:11 final size:11
Alignment explanation
Indices: 983595--983621 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
983585 ATAAAATTAC
983595 ATAATATTAAA
1 ATAATATTAAA
983606 ATAATATTAAA
1 ATAATATTAAA
983617 ATAAT
1 ATAAT
983622 TAAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATATTAAA
Found at i:983779 original size:19 final size:18
Alignment explanation
Indices: 983749--983789 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
983739 TAAATATAAT
983749 TATAAAATAATAAAAATA
1 TATAAAATAATAAAAATA
* *
983767 TATAAATATAATATATATA
1 TATAAA-ATAATAAAAATA
983786 TATA
1 TATA
983790 CACAACATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TATAAAATAATAAAAATA
Found at i:983786 original size:11 final size:11
Alignment explanation
Indices: 983725--983787 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 11
983715 ATTTATATTA
983725 AATATAAA-AT
1 AATATAAATAT
* *
983735 ACTTTAAATAT
1 AATATAAATAT
983746 AATTATAAA-AT
1 AA-TATAAATAT
983757 AATA-AAA-AT
1 AATATAAATAT
983766 -ATATAAATAT
1 AATATAAATAT
*
983776 AATATATATAT
1 AATATAAATAT
983787 A
1 A
983788 TACACAACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 3 0.07
9 8 0.19
10 10 0.23
11 17 0.40
12 5 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
AATATAAATAT
Found at i:991915 original size:14 final size:13
Alignment explanation
Indices: 991898--991937 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
991888 AATGACAATT
991898 TTTAATTTATAAAA
1 TTTAATTT-TAAAA
*
991912 TTTAAATTTAAAA
1 TTTAATTTTAAAA
*
991925 TTTTATTTTAAAA
1 TTTAATTTTAAAA
991938 AATAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAATTTTAAAA
Found at i:992852 original size:24 final size:23
Alignment explanation
Indices: 992822--992867 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
992812 ACGCATAATA
992822 ATTTTTAATAAATTAATTTTTTTT
1 ATTTTTAATAAATT-ATTTTTTTT
992846 ATTTTTAATAAATTATTTTTTT
1 ATTTTTAATAAATTATTTTTTT
992868 AATACATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTTTAATAAATTATTTTTTTT
Found at i:1002517 original size:21 final size:22
Alignment explanation
Indices: 1002478--1002522 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
1002468 AGATAAAATA
*
1002478 ATTTATATATTTATGTTATATT
1 ATTTATATATTTATATTATATT
*
1002500 ATTTATA-ATTTTTATTATATT
1 ATTTATATATTTATATTATATT
1002521 AT
1 AT
1002523 AATTATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTATATATTTATATTATATT
Found at i:1002528 original size:23 final size:24
Alignment explanation
Indices: 1002475--1002530 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 24
1002465 ATAAGATAAA
*
1002475 ATAATTTATATATTTATGTTATATT
1 ATAA-TTATATATTTATATTATATT
*
1002500 AT--TTATA-ATTTTTATTATATT
1 ATAATTATATATTTATATTATATT
1002521 ATAATTATAT
1 ATAATTATAT
1002531 TTAAAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
21 14 0.54
22 5 0.19
23 5 0.19
25 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATAATTATATATTTATATTATATT
Found at i:1005044 original size:14 final size:14
Alignment explanation
Indices: 1005025--1005055 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1005015 AACTAATTAT
1005025 AATTGAATAAACCA
1 AATTGAATAAACCA
1005039 AATTGAATAAACCA
1 AATTGAATAAACCA
1005053 AAT
1 AAT
1005056 AACATCGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.13, G:0.06, T:0.23
Consensus pattern (14 bp):
AATTGAATAAACCA
Found at i:1005244 original size:16 final size:16
Alignment explanation
Indices: 1005220--1005250 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1005210 CATTTGATGT
1005220 ATTAAAATAAAATAAA
1 ATTAAAATAAAATAAA
*
1005236 ATTATAATAAAATAA
1 ATTAAAATAAAATAA
1005251 CTATTTTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATTAAAATAAAATAAA
Found at i:1005344 original size:22 final size:22
Alignment explanation
Indices: 1005319--1005365 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1005309 GATTTAGTGG
*
1005319 AATAAGATAATAATGAAATTTA
1 AATAAGATAATAACGAAATTTA
1005341 AATAAGATAATAACGAAATTTA
1 AATAAGATAATAACGAAATTTA
1005363 AAT
1 AAT
1005366 TCTCAATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (22 bp):
AATAAGATAATAACGAAATTTA
Found at i:1007165 original size:2 final size:2
Alignment explanation
Indices: 1007158--1007189 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1007148 ACTCTTGGAC
1007158 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
1007190 AAGTGATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1008046 original size:19 final size:20
Alignment explanation
Indices: 1008022--1008064 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1008012 CGAATTGATC
1008022 TAAAATAATA-ATTTTTAAT
1 TAAAATAATATATTTTTAAT
*
1008041 TAAAATAATATATTTTTATT
1 TAAAATAATATATTTTTAAT
1008061 TAAA
1 TAAA
1008065 TTTAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATAATATATTTTTAAT
Found at i:1009398 original size:22 final size:22
Alignment explanation
Indices: 1009358--1009409 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
1009348 TATTAAAAAT
*
1009358 TATTTTTATATCAATATTTATA
1 TATTTTTATATCAATATTTAAA
*
1009380 TATTTTTATAATTAA-ATTTAAA
1 TATTTTTAT-ATCAATATTTAAA
1009402 TAATTTTT
1 T-ATTTTT
1009410 TTATTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTATATCAATATTTAAA
Found at i:1009415 original size:22 final size:22
Alignment explanation
Indices: 1009345--1009415 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 22
1009335 TATTATATAA
1009345 AAATATTAAA-AATTATTTTTATAT
1 AAAT-TTAAATAATT-TTTTTAT-T
* *
1009369 CAATATTTATAT-ATTTTTATAATT
1 -AA-ATTTAAATAATTTTT-TTATT
1009393 AAATTTAAATAATTTTTTTATT
1 AAATTTAAATAATTTTTTTATT
1009415 A
1 A
1009416 TTAAATAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
22 12 0.32
23 8 0.21
24 4 0.11
25 12 0.32
26 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (22 bp):
AAATTTAAATAATTTTTTTATT
Found at i:1009425 original size:22 final size:24
Alignment explanation
Indices: 1009382--1009429 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
1009372 TATTTATATA
1009382 TTTTTATAATTAAATTTAAATAATT
1 TTTTTATAATTAAA-TTAAATAATT
*
1009407 TTTTTATTATTAAA-T-AATAATT
1 TTTTTATAATTAAATTAAATAATT
1009429 T
1 T
1009430 AAATTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 1 0.05
25 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTTATAATTAAATTAAATAATT
Found at i:1009445 original size:14 final size:15
Alignment explanation
Indices: 1009415--1009456 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
1009405 TTTTTTTATT
*
1009415 ATTAAATAATAATTTAA
1 ATTAAAT-A-AATTAAA
1009432 ATTAAATAAATTAAA
1 ATTAAATAAATTAAA
1009447 ATTAAA-AAAT
1 ATTAAATAAAT
1009457 ATTTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 12 0.50
16 1 0.04
17 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTAAATAAATTAAA
Found at i:1009784 original size:16 final size:15
Alignment explanation
Indices: 1009763--1009795 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
1009753 TAATTGGGTC
1009763 TTTTTCTTTCTTTTTT
1 TTTTTCTTT-TTTTTT
1009779 TTTTTCTTTTTTTTT
1 TTTTTCTTTTTTTTT
1009794 TT
1 TT
1009796 CTTCAGTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTTCTTTTTTTTT
Found at i:1009788 original size:11 final size:12
Alignment explanation
Indices: 1009763--1009798 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1009753 TAATTGGGTC
*
1009763 TTTTTCTTTCTT
1 TTTTTTTTTCTT
1009775 TTTTTTTTTCTT
1 TTTTTTTTTCTT
1009787 TTTTTTTTTCTT
1 TTTTTTTTTCTT
1009799 CAGTCAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:1009868 original size:1 final size:1
Alignment explanation
Indices: 1009862--1009894 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
1009852 GGCTCAATTG
1009862 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1009895 GGTAGAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1011089 original size:19 final size:21
Alignment explanation
Indices: 1011065--1011104 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1011055 GGAAAAGGTT
1011065 ATTAA-TGTTTTATT-TTTTA
1 ATTAATTGTTTTATTATTTTA
*
1011084 ATTAATTTTTTTATTATTTTA
1 ATTAATTGTTTTATTATTTTA
1011105 TTATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (21 bp):
ATTAATTGTTTTATTATTTTA
Found at i:1011097 original size:20 final size:21
Alignment explanation
Indices: 1011072--1011113 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
1011062 GTTATTAATG
1011072 TTTTATT-TTTTAATTA-ATTT
1 TTTTATTATTTT-ATTATATTT
1011092 TTTTATTATTTTATTATATTT
1 TTTTATTATTTTATTATATTT
1011113 T
1 T
1011114 AAGTTTTACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTATTATTTTATTATATTT
Found at i:1012219 original size:18 final size:19
Alignment explanation
Indices: 1012177--1012224 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
1012167 TTTAATTTAA
*
1012177 ATTTAATTATAAAAATATTT
1 ATTTAA-TATAAAAATATAT
1012197 ATTT-ATATAAAAATA-AT
1 ATTTAATATAAAAATATAT
1012214 ATTTTAATATA
1 A-TTTAATATA
1012225 TAACGAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 2 0.08
18 13 0.52
19 6 0.24
20 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTAATATAAAAATATAT
Found at i:1015010 original size:2 final size:2
Alignment explanation
Indices: 1015003--1015055 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1014993 TCTGGACACA
1015003 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1015045 AT AT AT AT AT A
1 AT AT AT AT AT A
1015056 AACATGAAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1015914 original size:2 final size:2
Alignment explanation
Indices: 1015873--1015900 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1015863 TATATATATG
1015873 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1015901 GCATTTATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1016489 original size:27 final size:26
Alignment explanation
Indices: 1016455--1016559 Score: 97
Period size: 27 Copynumber: 3.8 Consensus size: 26
1016445 TTTTAAAATT
1016455 AATATTATATAAATAATTAATATATTA
1 AATATTATATAAATAA-TAATATATTA
* *
1016482 AATTTTATATAAAT-ATAGATATTTTA
1 AATATTATATAAATAATA-ATATATTA
*
1016508 AATATTATTATAAAATAATAAAATATATA
1 AATATTA-TAT-AAATAATAATATAT-TA
1016537 AATATGTTATTATAAA-AATAATA
1 AATA--TTA-TATAAATAATAATA
1016560 GTAGCAACAA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
25 2 0.03
26 14 0.22
27 16 0.25
28 8 0.12
29 15 0.23
30 3 0.05
31 7 0.11
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
AATATTATATAAATAATAATATATTA
Found at i:1016503 original size:26 final size:27
Alignment explanation
Indices: 1016467--1016541 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 27
1016457 TATTATATAA
*
1016467 ATAATTAATATATTAAATTTTATATAA
1 ATAATTAATATATTAAATATTATATAA
*
1016494 AT-A-TAGATATTTTAAATATTATTATAAA
1 ATAATTA-ATATATTAAATATTA-TAT-AA
*
1016522 ATAA-TAAAATATATAAATAT
1 ATAATTAATATAT-TAAATAT
1016542 GTTATTATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 2 0.05
26 14 0.36
27 5 0.13
28 8 0.21
29 10 0.26
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
ATAATTAATATATTAAATATTATATAA
Found at i:1017579 original size:10 final size:10
Alignment explanation
Indices: 1017566--1017590 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1017556 ATTATTAAAT
1017566 ATTAATTTAA
1 ATTAATTTAA
1017576 ATTAATTTAA
1 ATTAATTTAA
1017586 ATTAA
1 ATTAA
1017591 CAAAATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTAATTTAA
Found at i:1024255 original size:32 final size:32
Alignment explanation
Indices: 1024206--1024283 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
1024196 AAAACTTATT
* *
1024206 TATTTTTTAAA--AA-TTTAATTAAAAATATA
1 TATTTTTTAAATTAATTTTAAATAAAAATAAA
1024235 TATTTTTTAAATTAATTTTAAATAAAAATAAA
1 TATTTTTTAAATTAATTTTAAATAAAAATAAA
* *
1024267 TATATTTTATATTAATT
1 TATTTTTTAAATTAATT
1024284 ATTTTTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 11 0.26
31 2 0.05
32 29 0.69
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
TATTTTTTAAATTAATTTTAAATAAAAATAAA
Found at i:1024435 original size:37 final size:37
Alignment explanation
Indices: 1024349--1024449 Score: 116
Period size: 37 Copynumber: 2.7 Consensus size: 37
1024339 AATGTAAAAA
*
1024349 TTATTTTTAATTATTAGTA-AATTAAATTATTATTAAG
1 TTATTTTTAATT-TAAGTATAATTAAATTATTATTAAG
* *
1024386 TTATATTTTAATTTAAGTATATATTAAA-TATTTTTAAT
1 TTAT-TTTTAATTTAAGTATA-ATTAAATTATTATTAAG
*
1024424 TTATTTTTAATTTAATTATAAATTAA
1 TTATTTTTAATTTAAGTAT-AATTAA
1024450 TTTTTAAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
37 28 0.50
38 22 0.39
39 6 0.11
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (37 bp):
TTATTTTTAATTTAAGTATAATTAAATTATTATTAAG
Found at i:1024475 original size:12 final size:12
Alignment explanation
Indices: 1024407--1024478 Score: 64
Period size: 11 Copynumber: 6.2 Consensus size: 12
1024397 TTTAAGTATA
1024407 TATTAAA-TATT
1 TATTAAATTATT
*
1024418 T-TTAATTTATT
1 TATTAAATTATT
* *
1024429 T-TTAATTTAAT
1 TATTAAATTATT
1024440 TA-TAAATTAATT
1 TATTAAATT-ATT
1024452 T-TTAAATATATT
1 TATTAAAT-TATT
1024464 TATTAAATTATT
1 TATTAAATTATT
1024476 TAT
1 TAT
1024479 ATTTATATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
10 4 0.08
11 21 0.41
12 19 0.37
13 7 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTAAATTATT
Found at i:1024480 original size:20 final size:19
Alignment explanation
Indices: 1024457--1024503 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1024447 TAATTTTTAA
*
1024457 ATATATTTATTAAATTATTT
1 ATATATTTATT-AATTAATT
1024477 ATAT-TTATATTAATTAATT
1 ATATATT-TATTAATTAATT
1024496 AT-TATTTA
1 ATATATTTA
1024504 AAAATTTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 3 0.12
19 13 0.54
20 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATATTTATTAATTAATT
Found at i:1024865 original size:111 final size:111
Alignment explanation
Indices: 1024749--1024973 Score: 441
Period size: 111 Copynumber: 2.0 Consensus size: 111
1024739 TCTCAAAGTT
*
1024749 AATATAAGATAAATTTAAATGCTTTTTATGTAAAAAATTTAAGTGAGAAAAAGTTGCTTAAATTC
1 AATATAAGATAAATTTAAATGCTTTTTATGTAAAAAATTTAAGTGAAAAAAAGTTGCTTAAATTC
1024814 AAAATTAAAACATTTCAATGTTATTTACAAATCATTTACTAAGTGA
66 AAAATTAAAACATTTCAATGTTATTTACAAATCATTTACTAAGTGA
1024860 AATATAAGATAAATTTAAATGCTTTTTATGTAAAAAATTTAAGTGAAAAAAAGTTGCTTAAATTC
1 AATATAAGATAAATTTAAATGCTTTTTATGTAAAAAATTTAAGTGAAAAAAAGTTGCTTAAATTC
1024925 AAAATTAAAACATTTCAATGTTATTTACAAATCATTTACTAAGTGA
66 AAAATTAAAACATTTCAATGTTATTTACAAATCATTTACTAAGTGA
1024971 AAT
1 AAT
1024974 TATTTATGAA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 113 1.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (111 bp):
AATATAAGATAAATTTAAATGCTTTTTATGTAAAAAATTTAAGTGAAAAAAAGTTGCTTAAATTC
AAAATTAAAACATTTCAATGTTATTTACAAATCATTTACTAAGTGA
Found at i:1025854 original size:16 final size:16
Alignment explanation
Indices: 1025833--1025865 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1025823 TAATATTGAT
1025833 ACAAATTATT-TTATCA
1 ACAAATT-TTATTATCA
1025849 ACAAATTTTATTATCA
1 ACAAATTTTATTATCA
1025865 A
1 A
1025866 TTATTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (16 bp):
ACAAATTTTATTATCA
Found at i:1026597 original size:15 final size:15
Alignment explanation
Indices: 1026557--1026611 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
1026547 CACGAAAGTT
1026557 TTTAATTTTATTATTTA
1 TTTAATTTTA--ATTTA
1026574 TTGTAATTTTAATTTA
1 TT-TAATTTTAATTTA
*
1026590 TTTAATTTTTATTTA
1 TTTAATTTTAATTTA
*
1026605 TATAATT
1 TTTAATT
1026612 AAAAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 18 0.51
16 7 0.20
17 2 0.06
18 8 0.23
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTAATTTTAATTTA
Found at i:1028406 original size:25 final size:24
Alignment explanation
Indices: 1028378--1028424 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1028368 CTATATTTTT
1028378 TTTATATTGAATAAATATAAAATTA
1 TTTATATTGAAT-AATATAAAATTA
* *
1028403 TTTATATTTAATAATTTAAAAT
1 TTTATATTGAATAATATAAAAT
1028425 AATTCCGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTATATTGAATAATATAAAATTA
Found at i:1028848 original size:14 final size:14
Alignment explanation
Indices: 1028831--1028878 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
1028821 TATAATTATT
1028831 TTTAAAATATAATA
1 TTTAAAATATAATA
1028845 TTTAATAAATATAATA
1 TTT-A-AAATATAATA
* * *
1028861 TTTGAATTTTAATA
1 TTTAAAATATAATA
1028875 TTTA
1 TTTA
1028879 TATTATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 14 0.50
15 1 0.04
16 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TTTAAAATATAATA
Found at i:1028853 original size:17 final size:15
Alignment explanation
Indices: 1028820--1028863 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
1028810 TAATTAATTT
*
1028820 ATATAATTATTTTTAAA
1 ATATAA-TATTTAT-AA
1028837 ATATAATATTTAATAA
1 ATATAATATTT-ATAA
1028853 ATATAATATTT
1 ATATAATATTT
1028864 GAATTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAATATTTATAA
Found at i:1029308 original size:21 final size:21
Alignment explanation
Indices: 1029264--1029308 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
1029254 TTAATGCCCA
1029264 TTACTATTAATTAAATTTTAT
1 TTACTATTAATTAAATTTTAT
* *
1029285 TTACTTATTATTTTAATTTT-T
1 TTAC-TATTAATTAAATTTTAT
1029306 TTA
1 TTA
1029309 AATTTACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TTACTATTAATTAAATTTTAT
Found at i:1030969 original size:23 final size:24
Alignment explanation
Indices: 1030920--1030968 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1030910 CTGATAGATG
1030920 AATTTTTCACTCATTGCAATGTAA
1 AATTTTTCACTCATTGCAATGTAA
1030944 AATTTTTCACTCATTGCAATGTAA
1 AATTTTTCACTCATTGCAATGTAA
1030968 A
1 A
1030969 TCAATTTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (24 bp):
AATTTTTCACTCATTGCAATGTAA
Found at i:1034744 original size:15 final size:14
Alignment explanation
Indices: 1034708--1034794 Score: 58
Period size: 13 Copynumber: 6.4 Consensus size: 14
1034698 TTATTTATTT
1034708 TTAAAATATTTATA
1 TTAAAATATTTATA
*
1034722 TT-TAATATTTATA
1 TTAAAATATTTATA
1034735 TT-AAATA--TATA
1 TTAAAATATTTATA
* *
1034746 TTTAAATATGTATA
1 TTAAAATATTTATA
* * *
1034760 TAAAAATA-ATATT
1 TTAAAATATTTATA
1034773 TTAAATATATATTCATA
1 TTAAA-ATAT-TT-ATA
1034790 TTAAA
1 TTAAA
1034795 CATAAATACT
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
11 6 0.11
12 5 0.09
13 23 0.40
14 15 0.26
16 1 0.02
17 7 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (14 bp):
TTAAAATATTTATA
Found at i:1034759 original size:25 final size:24
Alignment explanation
Indices: 1034718--1034780 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 24
1034708 TTAAAATATT
* *
1034718 TATATTT-AATATTTATATTAAATA
1 TATATTTAAATATGTATA-TAAAAA
1034742 TATATTTAAATATGTATATAAAAA
1 TATATTTAAATATGTATATAAAAA
1034766 TAATATTTTAAATAT
1 T-ATA-TTTAAATAT
1034781 ATATTCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 13 0.38
25 12 0.35
26 9 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TATATTTAAATATGTATATAAAAA
Found at i:1034766 original size:26 final size:26
Alignment explanation
Indices: 1034709--1034780 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
1034699 TATTTATTTT
* *
1034709 TAAAATATTTATATTT-AATATTTATA
1 TAAAA-ATATATATTTAAATATGTATA
*
1034735 T-TAAATATATATTTAAATATGTATA
1 TAAAAATATATATTTAAATATGTATA
1034760 TAAAAATA-ATATTTTAAATAT
1 TAAAAATATATA-TTTAAATAT
1034781 ATATTCATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 9 0.23
25 15 0.38
26 15 0.38
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
TAAAAATATATATTTAAATATGTATA
Found at i:1035157 original size:2 final size:2
Alignment explanation
Indices: 1035150--1035181 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1035140 ATTTTCTTTA
1035150 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1035182 TGTAGGGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1036011 original size:20 final size:18
Alignment explanation
Indices: 1035961--1036034 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 18
1035951 AACTAGATCC
* *
1035961 TTATATAATATAAAAT-A
1 TTATATAAAATATAATAA
* *
1035978 TAATA-AAAAAATAATAA
1 TTATATAAAATATAATAA
1035995 TTATATAAAGATTATAA-AA
1 TTATATAAA-A-TATAATAA
1036014 TT-TATAAAATATAAATAA
1 TTATATAAAATAT-AATAA
1036032 TTA
1 TTA
1036035 ATTTATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
16 10 0.23
17 12 0.27
18 13 0.30
19 5 0.11
20 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (18 bp):
TTATATAAAATATAATAA
Found at i:1036023 original size:34 final size:33
Alignment explanation
Indices: 1035985--1036061 Score: 79
Period size: 32 Copynumber: 2.3 Consensus size: 33
1035975 ATATAATAAA
*
1035985 AAAATAATAATTATATAAAGATTA-TAAAATTTAT
1 AAAATAATAAATA-ATAAA-ATTATTAAAATTTAT
* *
1036019 AAAAT-ATAAATAATTAATTTATTAAAATTTAT
1 AAAATAATAAATAATAAAATTATTAAAATTTAT
1036051 ATAAAT-ATAAA
1 A-AAATAATAAA
1036062 ATATTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
31 3 0.08
32 15 0.39
33 15 0.39
34 5 0.13
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (33 bp):
AAAATAATAAATAATAAAATTATTAAAATTTAT
Found at i:1036519 original size:15 final size:15
Alignment explanation
Indices: 1036501--1036563 Score: 54
Period size: 16 Copynumber: 4.0 Consensus size: 15
1036491 TTAATTAATT
1036501 TTTTTAAAAATTTAA
1 TTTTTAAAAATTTAA
*
1036516 TTTTTAATAATTTTATA
1 TTTTTAA-AAATTTA-A
* **
1036533 TTTTTTAATTTTTAA
1 TTTTTAAAAATTTAA
*
1036548 ATTTTAAATAATTTAA
1 TTTTTAAA-AATTTAA
1036564 CATAATTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 14 0.37
16 17 0.45
17 7 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTAAAAATTTAA
Found at i:1036658 original size:7 final size:8
Alignment explanation
Indices: 1036617--1036666 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
1036607 ATCAAATAAA
1036617 AATTATAT
1 AATTATAT
1036625 AATTATAT
1 AATTATAT
* *
1036633 AAAATATAA
1 -AATTATAT
1036642 AATTAATAT
1 AATT-ATAT
1036651 ATATTATAT
1 A-ATTATAT
1036660 AATTATA
1 AATTATA
1036667 ATATAAATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 17 0.49
9 15 0.43
10 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AATTATAT
Found at i:1036668 original size:20 final size:19
Alignment explanation
Indices: 1036617--1036672 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 19
1036607 ATCAAATAAA
1036617 AATTATATAATTAT-ATA-
1 AATTATATAATTATAATAT
* *
1036634 AAATATA-AAAT-TAATAT
1 AATTATATAATTATAATAT
1036651 ATATTATATAATTATAATAT
1 A-ATTATATAATTATAATAT
1036671 AA
1 AA
1036673 ATTGAGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 1 0.03
16 6 0.20
17 7 0.23
18 5 0.17
19 4 0.13
20 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTATATAATTATAATAT
Found at i:1040326 original size:2 final size:2
Alignment explanation
Indices: 1040319--1040344 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1040309 TACATACATA
1040319 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1040345 TGTTTGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1041972 original size:29 final size:30
Alignment explanation
Indices: 1041940--1041997 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
1041930 AAAATAAATA
*
1041940 ATTATTATATTTAATATATTT-TTAATTTT
1 ATTATTATATTTAATAAATTTATTAATTTT
*
1041969 ATTATTATTTTTAATAAATTTATTAATTT
1 ATTATTATATTTAATAAATTTATTAATTT
1041998 AAAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTATTATATTTAATAAATTTATTAATTTT
Found at i:1043760 original size:29 final size:29
Alignment explanation
Indices: 1043728--1043785 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
1043718 ATTATCCAAA
1043728 CCAACCGAACTAAGCTCTTACTTCAAAAG
1 CCAACCGAACTAAGCTCTTACTTCAAAAG
*
1043757 CCAACTGAACTAAGCTCTTACTTCAAAAG
1 CCAACCGAACTAAGCTCTTACTTCAAAAG
1043786 TCTTTACTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.22
Consensus pattern (29 bp):
CCAACCGAACTAAGCTCTTACTTCAAAAG
Found at i:1046861 original size:20 final size:20
Alignment explanation
Indices: 1046836--1046875 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1046826 GCAGTATAAT
1046836 GGTGTCCCCTTTAATTATTA
1 GGTGTCCCCTTTAATTATTA
1046856 GGTGTCCCCTTTAATTATTA
1 GGTGTCCCCTTTAATTATTA
1046876 TCACGTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (20 bp):
GGTGTCCCCTTTAATTATTA
Found at i:1047514 original size:32 final size:34
Alignment explanation
Indices: 1047478--1047544 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
1047468 AATATAAATT
1047478 AATTTAA-TTT-A-AATATATTTATAAAAATAAAA
1 AATTTAACTTTAATAATATATTTA-AAAAATAAAA
*
1047510 AATTTAACTTTTAATAATATATTTAAATAATAAAA
1 AATTTAAC-TTTAATAATATATTTAAAAAATAAAA
1047545 TTAATTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 7 0.23
34 3 0.10
35 10 0.33
36 10 0.33
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (34 bp):
AATTTAACTTTAATAATATATTTAAAAAATAAAA
Found at i:1047809 original size:19 final size:20
Alignment explanation
Indices: 1047787--1047835 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
1047777 TATTTTTATT
1047787 TATTATAATA-ATATATAAA
1 TATTATAATATATATATAAA
*
1047806 TATTAT-ATATTTATATAAA
1 TATTATAATATATATATAAA
1047825 -ATT-TAATATAT
1 TATTATAATATAT
1047836 TAATAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 11 0.42
19 14 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTATAATATATATATAAA
Found at i:1047833 original size:20 final size:21
Alignment explanation
Indices: 1047797--1047879 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 21
1047787 TATTATAATA
1047797 ATATATAAATATTATATATTT
1 ATATATAAATATTATATATTT
*
1047818 ATATA-AAAT-TTAATATATTA
1 ATATATAAATATT-ATATATTT
* *
1047838 ATAATTTATATTATTTATAATATTT
1 AT-ATATA-AATA-TTAT-ATATTT
* *
1047863 TTATATTAATATTATAT
1 ATATATAAATATTATAT
1047880 TTATTTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
19 2 0.04
20 13 0.28
21 9 0.19
22 5 0.11
23 5 0.11
24 5 0.11
25 8 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATATAAATATTATATATTT
Found at i:1047835 original size:27 final size:28
Alignment explanation
Indices: 1047783--1047848 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 28
1047773 ATATTATTTT
1047783 TATTTATTATAATAATATATAAATATTATA
1 TATTTA-TATAATAATATATAAATATTA-A
1047813 TATTTATATAA-AAT-T-TAATATATTAA
1 TATTTATATAATAATATATAA-ATATTAA
1047839 TAATTTATAT
1 T-ATTTATAT
1047849 TATTTATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
26 5 0.15
27 15 0.44
28 3 0.09
29 5 0.15
30 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TATTTATATAATAATATATAAATATTAA
Found at i:1047848 original size:33 final size:32
Alignment explanation
Indices: 1047795--1047883 Score: 101
Period size: 33 Copynumber: 2.8 Consensus size: 32
1047785 TTTATTATAA
*
1047795 TAATATATAAATATTATATATTTATATAAAATT
1 TAATATATTAATATT-TATATTTATATAAAATT
* *
1047828 TAATATATTAATAATTTATATTATTTATAATATT
1 TAATATATTAAT-ATTTATATT-TATATAAAATT
*
1047862 T-TTATATTAATA-TTATATTTAT
1 TAATATATTAATATTTATATTTAT
1047884 TTTTTTTACG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
30 2 0.04
31 7 0.14
32 1 0.02
33 26 0.53
34 13 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TAATATATTAATATTTATATTTATATAAAATT
Found at i:1049082 original size:2 final size:2
Alignment explanation
Indices: 1049075--1049106 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1049065 ACTGAGATAA
1049075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1049107 TAAAGTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1051617 original size:19 final size:20
Alignment explanation
Indices: 1051590--1051635 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
1051580 TTTTTAATGT
*
1051590 ATTAAAAATAATTA-AATTA
1 ATTATAAATAATTATAATTA
* *
1051609 ATTATAAATTATTATATTTA
1 ATTATAAATAATTATAATTA
1051629 A-TATAAA
1 ATTATAAA
1051636 AGTATTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTATAAATAATTATAATTA
Found at i:1051793 original size:21 final size:21
Alignment explanation
Indices: 1051768--1051809 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1051758 GGACAGTTTG
1051768 ATTAAAAAGAAATAATAATAA
1 ATTAAAAAGAAATAATAATAA
* **
1051789 ATTAAAATGGTATAATAATAA
1 ATTAAAAAGAAATAATAATAA
1051810 TGTGGGGGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
ATTAAAAAGAAATAATAATAA
Found at i:1052055 original size:16 final size:19
Alignment explanation
Indices: 1052021--1052056 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1052011 TCTTCTCTCC
1052021 TTCTTTCTTGTTTTCTTAA
1 TTCTTTCTTGTTTTCTTAA
1052040 TTCTTT-TT-TTTT-TTAA
1 TTCTTTCTTGTTTTCTTAA
1052056 T
1 T
1052057 GTTTTCCCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.29
17 4 0.24
18 2 0.12
19 6 0.35
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.75
Consensus pattern (19 bp):
TTCTTTCTTGTTTTCTTAA
Found at i:1058075 original size:97 final size:97
Alignment explanation
Indices: 1057895--1058089 Score: 315
Period size: 97 Copynumber: 2.0 Consensus size: 97
1057885 CATAACAAAC
*
1057895 CTAAAATTTTACATCTTACAGTTGCATTGATGATTGTACAAGGTAAAATCAATTTTCTGTCTGCA
1 CTAAAATTTTACATCTTACAGTTGCATTGATGATTGTACAAGGTAAAATCAATTTTCTGACTGCA
*
1057960 TACTATCATAAACCAACACCCTGTGACTGACT
66 TACTACCATAAACCAACACCCTGTGACTGACT
*
1057992 CTAAAATTTTACATCCTTAGAGTTGCATTGATGATTGTA-AATGGT-AAATCAATTTTCT-ACTG
1 CTAAAATTTTACAT-CTTACAGTTGCATTGATGATTGTACAA-GGTAAAATCAATTTTCTGACTG
1058054 CATACTACCATAAACCAAACACCCTGTGACTGACT
64 CATACTACCATAAACC-AACACCCTGTGACTGACT
1058089 C
1 C
1058090 CAAAGTGCTT
Statistics
Matches: 92, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
96 18 0.20
97 48 0.52
98 26 0.28
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (97 bp):
CTAAAATTTTACATCTTACAGTTGCATTGATGATTGTACAAGGTAAAATCAATTTTCTGACTGCA
TACTACCATAAACCAACACCCTGTGACTGACT
Found at i:1060785 original size:17 final size:16
Alignment explanation
Indices: 1060759--1060790 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1060749 AATAATATAT
1060759 TAAAAAAATATAAAAA
1 TAAAAAAATATAAAAA
1060775 TAAATAAAATATAAAA
1 TAAA-AAAATATAAAA
1060791 TATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAAAATATAAAAA
Found at i:1060791 original size:16 final size:16
Alignment explanation
Indices: 1060743--1060792 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
1060733 TAAATTTTAC
* *
1060743 AAATAAAATAATATATT
1 AAATAAAAT-ATAAAAT
1060760 AAA-AAAATATAAAAAT
1 AAATAAAATAT-AAAAT
1060776 AAATAAAATATAAAAT
1 AAATAAAATATAAAAT
1060792 A
1 A
1060793 TATTTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 2 0.07
16 17 0.59
17 10 0.34
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAAAATATAAAAT
Found at i:1071264 original size:21 final size:21
Alignment explanation
Indices: 1071227--1071266 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1071217 ATCTGAACTA
**
1071227 TCACTCTCCTCTTCCTCCTCC
1 TCACTCTCCTCCGCCTCCTCC
1071248 TCACTCTCCTCCGCCTCCT
1 TCACTCTCCTCCGCCTCCT
1071267 TCTTCCCATT
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:0.05, C:0.57, G:0.03, T:0.35
Consensus pattern (21 bp):
TCACTCTCCTCCGCCTCCTCC
Found at i:1076751 original size:16 final size:17
Alignment explanation
Indices: 1076722--1076754 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1076712 TTTTATAATA
1076722 ATTTTAATAAATTTATT
1 ATTTTAATAAATTTATT
1076739 ATTTTAA-AAATTTATT
1 ATTTTAATAAATTTATT
1076755 TTAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTAATAAATTTATT
Found at i:1076873 original size:215 final size:215
Alignment explanation
Indices: 1076639--1077069 Score: 738
Period size: 215 Copynumber: 2.0 Consensus size: 215
1076629 ACGACAGCTT
* * * *
1076639 GCTTCAACAATTGTTATACAATTTTAATAATTTTTGAGGTAGTTTTAATATTGTTTAATATGATT
1 GCTTCAACAAGTGTTATACAATTTTAATAATATTTGAGATAGTTTTAATATTATTTAATATGATT
*
1076704 TGAATAATTTTTATAATAATTTTAATAAATTTATTATTTTAAAAATTTATTTTAAATGTATTGAA
66 TGAATAATTTTTATAATAATTTTAATAAATTTATTATTTTAAAAATTTATTTTAAATGTATTAAA
* *
1076769 AAAATAAAATATTTTAATTTAATATGATACTTTTTAGGACGTAGTA-GATTATTGTCCGTTACTT
131 AAAATAAAATATTTTAATTTAATATGATACTTTTTAGCACGTAG-AGGATTATTGTCCATTACTT
1076833 TTATTTTGGGGTCCAATCTTC
195 TTATTTTGGGGTCCAATCTTC
*
1076854 GCTTCAACAAGTGTTATACAATTTTAATAATATTTGAGATAGTTTTAATATTATTTAATATGTTT
1 GCTTCAACAAGTGTTATACAATTTTAATAATATTTGAGATAGTTTTAATATTATTTAATATGATT
* * *
1076919 TTAATAATTTTTGTAATAATTTTAATAAATTTATTATTTTAAAATTTTATTTTAAATGTATTAAA
66 TGAATAATTTTTATAATAATTTTAATAAATTTATTATTTTAAAAATTTATTTTAAATGTATTAAA
*
1076984 AAAATAAATTATTTTAATTTAATATGATACTTTTTAGCACGTAGAGGATTATTGTCCATTACTTT
131 AAAATAAAATATTTTAATTTAATATGATACTTTTTAGCACGTAGAGGATTATTGTCCATTACTTT
1077049 TATTTTGGGGTCCAATCTTC
196 TATTTTGGGGTCCAATCTTC
1077069 G
1 G
1077070 TTCTCGGAAA
Statistics
Matches: 203, Mismatches: 12, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
214 1 0.00
215 202 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (215 bp):
GCTTCAACAAGTGTTATACAATTTTAATAATATTTGAGATAGTTTTAATATTATTTAATATGATT
TGAATAATTTTTATAATAATTTTAATAAATTTATTATTTTAAAAATTTATTTTAAATGTATTAAA
AAAATAAAATATTTTAATTTAATATGATACTTTTTAGCACGTAGAGGATTATTGTCCATTACTTT
TATTTTGGGGTCCAATCTTC
Found at i:1076901 original size:21 final size:20
Alignment explanation
Indices: 1076875--1076950 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 20
1076865 TGTTATACAA
1076875 TTTTAATAATATTTGAGATAG
1 TTTTAATAATATTTGA-ATAG
*
1076896 TTTTAATATTATTT-AATATG
1 TTTTAATAATATTTGAATA-G
* *
1076916 TTTTTAATAATTTTTGTAATAA
1 -TTTTAATAATATTTG-AATAG
1076938 TTTTAATAA-ATTT
1 TTTTAATAATATTT
1076951 ATTATTTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.07
20 5 0.11
21 34 0.74
23 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTAATAATATTTGAATAG
Found at i:1076937 original size:12 final size:11
Alignment explanation
Indices: 1076896--1076941 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
1076886 TTTGAGATAG
1076896 TTTTAAT-ATT
1 TTTTAATAATT
*
1076906 ATTTAAT-ATGT
1 TTTTAATAAT-T
1076917 TTTTAATAATT
1 TTTTAATAATT
1076928 TTTGTAATAATT
1 TTT-TAATAATT
1076940 TT
1 TT
1076942 AATAAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 8 0.26
11 11 0.35
12 12 0.39
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (11 bp):
TTTTAATAATT
Found at i:1076944 original size:9 final size:9
Alignment explanation
Indices: 1076873--1076967 Score: 50
Period size: 9 Copynumber: 9.8 Consensus size: 9
1076863 AGTGTTATAC
1076873 AATTTTAAT
1 AATTTTAAT
1076882 AATATTTGAGAT
1 AAT-TTT-A-AT
*
1076894 AGTTTTAAT
1 AATTTTAAT
*
1076903 ATTATTTAAT
1 AAT-TTTAAT
*
1076913 ATGTTTTTAAT
1 A--ATTTTAAT
1076924 AATTTTTGTAAT
1 AA--TTT-TAAT
1076936 AATTTTAAT
1 AATTTTAAT
*
1076945 AAATTT-AT
1 AATTTTAAT
*
1076953 TATTTTAA-
1 AATTTTAAT
1076961 AATTTTA
1 AATTTTA
1076968 TTTTAAATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
8 12 0.17
9 17 0.25
10 14 0.20
11 14 0.20
12 12 0.17
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (9 bp):
AATTTTAAT
Found at i:1076969 original size:16 final size:17
Alignment explanation
Indices: 1076937--1076969 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1076927 TTTTGTAATA
1076937 ATTTTAATAAATTTATT
1 ATTTTAATAAATTTATT
*
1076954 ATTTTAA-AATTTTATT
1 ATTTTAATAAATTTATT
1076970 TTAAATGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTAATAAATTTATT
Found at i:1077311 original size:13 final size:12
Alignment explanation
Indices: 1077278--1077318 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
1077268 ATTTTAAGAG
1077278 TTATAAAATTTT
1 TTATAAAATTTT
*
1077290 TTAT-TAATTATT
1 TTATAAAATT-TT
1077302 TTATAAAA-TTT
1 TTATAAAATTTT
1077313 TTATAA
1 TTATAA
1077319 TAAATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 12 0.48
12 11 0.44
13 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATAAAATTTT
Found at i:1077328 original size:23 final size:23
Alignment explanation
Indices: 1077278--1077333 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
1077268 ATTTTAAGAG
* *
1077278 TTATAAAATTTTTTATTAATTATT
1 TTATAAAA-TTTTTATTAATAATA
1077302 TTATAAAATTTTTA-TAATAAATA
1 TTATAAAATTTTTATTAAT-AATA
*
1077325 TTATGAAAT
1 TTATAAAAT
1077334 ATCTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 16 0.57
24 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTATAAAATTTTTATTAATAATA
Found at i:1077763 original size:20 final size:21
Alignment explanation
Indices: 1077729--1077769 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1077719 AAATAATTAA
1077729 AATATAATAAAATATAAATAT
1 AATATAATAAAATATAAATAT
*
1077750 AATAT-ATAATATATAAATAT
1 AATATAATAAAATATAAATAT
1077770 TTTAAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATATAATAAAATATAAATAT
Found at i:1077783 original size:39 final size:39
Alignment explanation
Indices: 1077740--1077889 Score: 129
Period size: 40 Copynumber: 3.9 Consensus size: 39
1077730 ATATAATAAA
1077740 ATATAAATATAATATATAATATATAAATAT-TTTAAATT
1 ATATAAATATAATATATAATATATAAATATATTTAAATT
* *
1077778 -TATATAATATAA-ATTAATAATGTATTAAA-ATATTTAAAAT
1 ATATA-AATATAATA-T-ATAATATA-TAAATATATTTAAATT
* *
1077818 ATA-AAATAT-TTATAT-ATA-AT-AATATATTTATATT
1 ATATAAATATAATATATAATATATAAATATATTTAAATT
* * *
1077852 ATATTAATATATTTTATAATATTATAAATATATTTAAA
1 ATATAAATATAATATATAATA-TATAAATATATTTAAA
1077890 ATATTTTATG
Statistics
Matches: 89, Mismatches: 9, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
33 2 0.02
34 13 0.15
35 6 0.07
36 7 0.08
37 10 0.11
38 9 0.10
39 17 0.19
40 23 0.26
41 2 0.02
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.47
Consensus pattern (39 bp):
ATATAAATATAATATATAATATATAAATATATTTAAATT
Found at i:1077788 original size:7 final size:7
Alignment explanation
Indices: 1077729--1077769 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
1077719 AAATAATTAA
1077729 AATATAAT
1 AATAT-AT
*
1077737 AAAATAT
1 AATATAT
1077744 AA-ATAT
1 AATATAT
1077750 AATATAT
1 AATATAT
1077757 AATATAT
1 AATATAT
1077764 AA-ATAT
1 AATATAT
1077770 TTTAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 10 0.32
7 17 0.55
8 4 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
AATATAT
Found at i:1077845 original size:34 final size:37
Alignment explanation
Indices: 1077728--1077893 Score: 112
Period size: 39 Copynumber: 4.5 Consensus size: 37
1077718 AAAATAATTA
* * *
1077728 AAATATA-ATAAAATATAAATATAATATATAATAT-AT
1 AAATATATTTAAAATATAAA-ATATTTTATAATATAAT
* * * * *
1077764 AAATAT-TTTAAATTTATATAATATAAATTAATAATGTATT
1 AAATATATTTAAA---ATATAAAAT-ATTTTATAATATAAT
1077804 AAA-ATATTTAAAATATAAAATA-TTTAT-ATATAAT
1 AAATATATTTAAAATATAAAATATTTTATAATATAAT
* * *
1077838 -AATATATTTATATTATATTAATATATTTTATAATATTAT
1 AAATATATTTA-A-AATA-TAAAATATTTTATAATATAAT
1077877 AAATATATTTAAAATAT
1 AAATATATTTAAAATAT
1077894 TTTATGTTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
33 2 0.02
34 12 0.12
35 5 0.05
36 14 0.14
37 15 0.15
38 10 0.10
39 24 0.24
40 20 0.20
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (37 bp):
AAATATATTTAAAATATAAAATATTTTATAATATAAT
Found at i:1077855 original size:5 final size:5
Alignment explanation
Indices: 1077830--1077996 Score: 56
Period size: 5 Copynumber: 32.6 Consensus size: 5
1077820 AAAATATTTA
* * * * *
1077830 TATAT AATAA TATATT TATAT TATAT TA-A- TATAT TTTAT AATAT TATAAA
1 TATAT TATAT TATA-T TATAT TATAT TATAT TATAT TATAT TATAT TAT-AT
* * * * * * * *
1077880 TATATT TAAAA TATTT TATGTT TATAT AAAAT T-TAA TATAT TA-AT AAT-T
1 TATA-T TATAT TATAT TAT-AT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * *
1077929 TATAT TATAT AAATTT TAAAAT TATATT TATGT TATTTT TATAT TATAT
1 TATAT TATAT -TATAT T-ATAT TATA-T TATAT TA-TAT TATAT TATAT
1077978 TATAT TATAT TATAAT TAT
1 TATAT TATAT TAT-AT TAT
1077997 TTTTTAAATA
Statistics
Matches: 115, Mismatches: 33, Indels: 27
0.66 0.19 0.15
Matches are distributed among these distances:
3 2 0.02
4 10 0.09
5 68 0.59
6 35 0.30
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (5 bp):
TATAT
Found at i:1077887 original size:20 final size:20
Alignment explanation
Indices: 1077741--1077894 Score: 100
Period size: 20 Copynumber: 8.1 Consensus size: 20
1077731 TATAATAAAA
*
1077741 TATAAATATAATATATAATA-
1 TATAAATAT-ATTTATAATAT
1077761 TATAAATAT-TTTA-AAT-T
1 TATAAATATATTTATAATAT
* *
1077778 TATATAATATAAATTAATAAT-G
1 TATA-AATAT--ATTTATAATAT
1077800 TATTAAA-ATATTTA-AA-A-
1 TA-TAAATATATTTATAATAT
1077817 TATAAA-ATATTTAT-ATAT
1 TATAAATATATTTATAATAT
* *
1077835 AAT-AATATATTTATATTA-
1 TATAAATATATTTATAATAT
*
1077853 TATTAATATATTTTATAATAT
1 TATAAATATA-TTTATAATAT
*
1077874 TATAAATATATTTAAAATAT
1 TATAAATATATTTATAATAT
1077894 T
1 T
1077895 TTATGTTTAT
Statistics
Matches: 108, Mismatches: 10, Indels: 32
0.72 0.07 0.21
Matches are distributed among these distances:
16 12 0.11
17 12 0.11
18 22 0.20
19 12 0.11
20 27 0.25
21 14 0.13
22 7 0.06
23 2 0.02
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (20 bp):
TATAAATATATTTATAATAT
Found at i:1077904 original size:74 final size:75
Alignment explanation
Indices: 1077717--1077954 Score: 188
Period size: 74 Copynumber: 3.1 Consensus size: 75
1077707 ACACGAGATA
* * * * *
1077717 TAAAATAATTAAAATATAATAAAATAT-AAATATAATATATAATATATAA-ATATT-TTAAATTT
1 TAAAATTA-TAAAATAT-TTAAAATATAAAATAT-TTATATAAAAT-TAATATATTAAT-AATTT
*
1077779 ATATAATATAAA--T
61 ATATTATATAAATTT
* *
1077792 TAATAATGTATTAAAATATTTAAAATATAAAATATTTATATATAA-TAATATATTTAT-A-TTAT
1 TAA-AAT-TA-TAAAATATTTAAAATATAAAATATTTATATAAAATTAATATATTAATAATTTAT
*
1077854 ATTA-ATATATTT
63 ATTATATAAATTT
*** *
1077866 TATAATATTATAAATATATTTAAAATATTTTATGTTTATATAAAATTTAATATATTAATAATTTA
1 TA-AA-ATTATAAA-ATATTTAAAATATAAAATATTTATATAAAA-TTAATATATTAATAATTTA
1077931 TATTATATAAATTT
62 TATTATATAAATTT
1077945 TAAAATTATA
1 TAAAATTATA
1077955 TTTATGTTAT
Statistics
Matches: 133, Mismatches: 15, Indels: 28
0.76 0.09 0.16
Matches are distributed among these distances:
72 4 0.03
73 11 0.08
74 35 0.26
75 11 0.08
76 30 0.23
77 23 0.17
78 10 0.08
79 9 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.47
Consensus pattern (75 bp):
TAAAATTATAAAATATTTAAAATATAAAATATTTATATAAAATTAATATATTAATAATTTATATT
ATATAAATTT
Found at i:1077937 original size:18 final size:18
Alignment explanation
Indices: 1077825--1077938 Score: 77
Period size: 18 Copynumber: 6.7 Consensus size: 18
1077815 AATATAAAAT
*
1077825 ATTTATA-TATAATAATA
1 ATTTATATTATATTAATA
1077842 TATTTATATTATATTAATA
1 -ATTTATATTATATTAATA
*
1077861 TATTT-TATAATATT-ATA
1 -ATTTATATTATATTAATA
* *
1077878 A-ATATATT-TA-AAATA
1 ATTTATATTATATTAATA
* *
1077893 TTTTATGTT-TATATAA-A
1 ATTTATATTATAT-TAATA
1077910 ATTTA-A-TATATTAATA
1 ATTTATATTATATTAATA
1077926 ATTTATATTATAT
1 ATTTATATTATAT
1077939 AAATTTTAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
15 10 0.13
16 20 0.27
17 9 0.12
18 22 0.29
19 14 0.19
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.54
Consensus pattern (18 bp):
ATTTATATTATATTAATA
Found at i:1077954 original size:22 final size:23
Alignment explanation
Indices: 1077928--1077982 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
1077918 TATTAATAAT
1077928 TTATATTATAT-AAATTTTAAAA
1 TTATATTATATGAAATTTTAAAA
** * *
1077950 TTATATT-TATGTTATTTTTATA
1 TTATATTATATGAAATTTTAAAA
1077972 TTATATTATAT
1 TTATATTATAT
1077983 TATATTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.11
22 21 0.78
23 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATATTATATGAAATTTTAAAA
Found at i:1078449 original size:2 final size:2
Alignment explanation
Indices: 1078403--1078431 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1078393 TCAGCTTTTA
1078403 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1078432 ACTTTCTCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1080251 original size:18 final size:20
Alignment explanation
Indices: 1080213--1080251 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1080203 TTTGATGCAT
1080213 TATTAATATATAAATTTATA
1 TATTAATATATAAATTTATA
1080233 TATTAATA-ATAAA-TTATA
1 TATTAATATATAAATTTATA
1080251 T
1 T
1080252 TATAATACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTAATATATAAATTTATA
Found at i:1080257 original size:18 final size:19
Alignment explanation
Indices: 1080211--1080258 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
1080201 TATTTGATGC
1080211 ATTATTAATATATAAATTT
1 ATTATTAATATATAAATTT
1080230 ATATATTAATA-ATAAATTAT
1 AT-TATTAATATATAAATT-T
1080250 ATTA-TAATA
1 ATTATTAATA
1080259 CTTATAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTATTAATATATAAATTT
Found at i:1080986 original size:4 final size:4
Alignment explanation
Indices: 1080979--1081003 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1080969 TTAATTTGTT
1080979 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
1081004 ATATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:1083507 original size:28 final size:28
Alignment explanation
Indices: 1083426--1083507 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1083416 TTTTGGAGAT
*
1083426 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
1083454 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
1083482 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
1083508 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:1083650 original size:51 final size:51
Alignment explanation
Indices: 1083490--1083660 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1083480 GAAATAACGA
* * *
1083490 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
1083542 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
1083595 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
1083646 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1083661 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:1083706 original size:27 final size:28
Alignment explanation
Indices: 1083643--1083718 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 28
1083633 AAAATAAAGT
*
1083643 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
* *
1083671 CAGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1083698 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1083719 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1086195 original size:13 final size:13
Alignment explanation
Indices: 1086177--1086202 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1086167 ACAAAGATCC
1086177 ATGTATCGATACA
1 ATGTATCGATACA
1086190 ATGTATCGATACA
1 ATGTATCGATACA
1086203 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1086198 original size:33 final size:33
Alignment explanation
Indices: 1086156--1086222 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1086146 AAAATTTCCA
***
1086156 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1086189 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1086222 A
1 A
1086223 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1086266 original size:19 final size:18
Alignment explanation
Indices: 1086242--1086309 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1086232 CAGTAGCTAA
1086242 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1086261 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1086276 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1086293 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1086310 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1086282 original size:13 final size:13
Alignment explanation
Indices: 1086264--1086288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1086254 ACAATACTTA
1086264 TGTATCGATACAT
1 TGTATCGATACAT
1086277 TGTATCGATACA
1 TGTATCGATACA
1086289 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1086286 original size:32 final size:32
Alignment explanation
Indices: 1086245--1086307 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1086235 TAGCTAATTA
*
1086245 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1086277 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1086308 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1086389 original size:21 final size:21
Alignment explanation
Indices: 1086365--1086421 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
1086355 CATTTGTAGG
1086365 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
1086386 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
1086407 ATGTATCGATACATT
1 ATGTATCGATACATT
1086422 TGGAATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1091387 original size:52 final size:52
Alignment explanation
Indices: 1091317--1091437 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1091307 GAAAATTTAT
*
1091317 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1091369 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1091421 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1091438 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1091450 original size:52 final size:51
Alignment explanation
Indices: 1091317--1091457 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1091307 GAAAATTTAT
1091317 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1091369 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1091421 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1091458 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1091464 original size:13 final size:13
Alignment explanation
Indices: 1091446--1091470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1091436 CAAAGATCAG
1091446 TGTATCGATACAA
1 TGTATCGATACAA
1091459 TGTATCGATACA
1 TGTATCGATACA
1091471 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1091555 original size:13 final size:13
Alignment explanation
Indices: 1091537--1091561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1091527 CAAAAAAATA
1091537 TGTATCGATACAT
1 TGTATCGATACAT
1091550 TGTATCGATACA
1 TGTATCGATACA
1091562 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1091557 original size:33 final size:33
Alignment explanation
Indices: 1091515--1091581 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1091505 AGTAGCTTAA
1091515 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1091548 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1091581 A
1 A
1091582 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1092587 original size:49 final size:49
Alignment explanation
Indices: 1092508--1093862 Score: 1879
Period size: 49 Copynumber: 27.4 Consensus size: 49
1092498 GATGTCAACG
* *
1092508 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
1092557 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
1092606 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * * *
1092655 TGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
1092704 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
* *
1092756 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
1092805 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
* * * *
1092857 TGTTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
1092906 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
1092955 TGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
1092998 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
1093047 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
1093096 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
* *
1093148 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
1093197 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
* * *
1093249 TGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
1093298 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
1093347 TGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
1093390 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
1093439 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
1093488 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
* *
1093540 TGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
1093589 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
* * *
1093641 TGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
1093690 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
* * *
1093742 TGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
1093791 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAAGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
1093843 TGCTGATTCAAGGCCAGCTA
1 TGCTGATTCAAGGCCAGCTA
1093863 TATTTGGCTT
Statistics
Matches: 1155, Mismatches: 115, Indels: 69
0.86 0.09 0.05
Matches are distributed among these distances:
43 74 0.06
45 2 0.00
47 2 0.00
49 723 0.63
50 8 0.01
51 7 0.01
52 339 0.29
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
Found at i:1092822 original size:101 final size:101
Alignment explanation
Indices: 1092507--1093866 Score: 2321
Period size: 101 Copynumber: 13.8 Consensus size: 101
1092497 GGATGTCAAC
* * *
1092507 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
1092569 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1092605 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGTTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
1092667 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1092703 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1092768 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
*
1092804 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGTTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
1092869 GCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
*
1092905 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
1092967 GCCAGCGATATTGGACTT----A--AAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
*
1092997 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
1093059 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1093095 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1093160 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1093196 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
1093261 GCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
*
1093297 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
1093359 GCCAGCGATATTGGACTT----A--AAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
*
1093389 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
1093451 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1093487 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1093552 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1093588 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
1093653 GCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1093689 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
*
1093754 GCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAAT
66 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
*
1093790 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAAGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1093855 GCCAGCTATATT
66 GCCAGCTATATT
1093867 TGGCTTAGAG
Statistics
Matches: 1219, Mismatches: 22, Indels: 39
0.95 0.02 0.03
Matches are distributed among these distances:
92 182 0.15
94 2 0.00
96 2 0.00
98 305 0.25
99 3 0.00
100 2 0.00
101 723 0.59
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (101 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
Done.