Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 25 of 352
Found at i:8024207 original size:10 final size:10
Alignment explanation
Indices: 8024184--8024214 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
8024174 TTATTATTTC
8024184 ATTTTTTAACA
1 ATTTTTTAA-A
8024195 ATTTTTTAAA
1 ATTTTTTAAA
8024205 ATTTTTTAAA
1 ATTTTTTAAA
8024215 TTTATTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.55
11 9 0.45
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:8025164 original size:12 final size:12
Alignment explanation
Indices: 8025147--8025202 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
8025137 ATTAAATTAG
8025147 TATATTTTTGTA
1 TATATTTTTGTA
* *
8025159 TATATTTTTATG
1 TATATTTTTGTA
* *
8025171 TATATATTT-CA
1 TATATTTTTGTA
* *
8025182 TTTAATTTTGTA
1 TATATTTTTGTA
8025194 TATATTTTT
1 TATATTTTT
8025203 ATGTCTTGTT
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
11 6 0.19
12 26 0.81
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (12 bp):
TATATTTTTGTA
Found at i:8025174 original size:14 final size:13
Alignment explanation
Indices: 8025147--8025179 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
8025137 ATTAAATTAG
8025147 TATA-TTTTTGTA
1 TATATTTTTTGTA
8025159 TATATTTTTATGTA
1 TATATTTTT-TGTA
8025173 TATATTT
1 TATATTT
8025180 CATTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 4 0.21
14 11 0.58
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (13 bp):
TATATTTTTTGTA
Found at i:8026746 original size:18 final size:17
Alignment explanation
Indices: 8026729--8026795 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 17
8026719 AATTAATTTA
8026729 TATATTTTTTAA-TTTT
1 TATATTTTTTAATTTTT
8026745 TA-ATTTTTTATATATTTT
1 TATATTTTTTA-AT-TTTT
*
8026763 T-TAATTTTTAATTTTT
1 TATATTTTTTAATTTTT
8026779 TATATATTTTTAATTTT
1 TATAT-TTTTTAATTTT
8026796 AAAATAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
15 8 0.19
16 8 0.19
17 4 0.09
18 23 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATATTTTTTAATTTTT
Found at i:8026757 original size:26 final size:26
Alignment explanation
Indices: 8026725--8026795 Score: 135
Period size: 26 Copynumber: 2.8 Consensus size: 26
8026715 TATAAATTAA
8026725 TTTATATATTTTTTAATTTTTAATTT
1 TTTATATATTTTTTAATTTTTAATTT
8026751 TTTATATATTTTTTAATTTTTAATTT
1 TTTATATATTTTTTAATTTTTAATTT
8026777 TTTATATA-TTTTTAATTTT
1 TTTATATATTTTTTAATTTT
8026796 AAAATAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 11 0.24
26 34 0.76
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTATATATTTTTTAATTTTTAATTT
Found at i:8026806 original size:25 final size:26
Alignment explanation
Indices: 8026717--8026809 Score: 107
Period size: 26 Copynumber: 3.6 Consensus size: 26
8026707 GCATTATATA
8026717 TAAATTAATTTATATATTTTTTAATTT
1 TAAATTAA-TTATATATTTTTTAATTT
* **
8026744 TTAATTTTTTATATATTTTTTAATTT
1 TAAATTAATTATATATTTTTTAATTT
* **
8026770 TTAATTTTTTATATA-TTTTTAATTT
1 TAAATTAATTATATATTTTTTAATTT
*
8026795 TAAAATAATTATATA
1 TAAATTAATTATATA
8026810 AATAACCTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 21 0.36
26 33 0.56
27 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
TAAATTAATTATATATTTTTTAATTT
Found at i:8027149 original size:29 final size:31
Alignment explanation
Indices: 8027090--8027160 Score: 92
Period size: 29 Copynumber: 2.3 Consensus size: 31
8027080 AGTGCAGTGT
* *
8027090 TACCAACTTAGGTGACAGAATACAAGTTTAGG
1 TACCAAC-TAGGTCACAGAATAAAAGTTTAGG
8027122 TACCAACTAGGTCA-AGAA-AAAAGTTTAGG
1 TACCAACTAGGTCACAGAATAAAAGTTTAGG
*
8027151 TACGAACTAG
1 TACCAACTAG
8027161 ATAATTTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.53
30 4 0.11
31 6 0.17
32 7 0.19
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
TACCAACTAGGTCACAGAATAAAAGTTTAGG
Found at i:8028901 original size:20 final size:20
Alignment explanation
Indices: 8028872--8028923 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
8028862 GAGGCAATGC
*
8028872 ACACGTCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
8028892 ACACGCCCGTGTGCTTTGGG
1 ACACGCCCGTGTGCTTTGGG
*
8028912 ACACGCTCGTGT
1 ACACGCCCGTGT
8028924 CCCCTACTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.12, C:0.29, G:0.33, T:0.27
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTTGGG
Found at i:8029546 original size:21 final size:21
Alignment explanation
Indices: 8029522--8029583 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 21
8029512 CTCAATTAAG
8029522 ATTGGCTCTTTATCTTAACCC
1 ATTGGCTCTTTATCTTAACCC
* * * *
8029543 ATT-GC-CCTCA-ATTAA--G
1 ATTGGCTCTTTATCTTAACCC
8029559 ATTGGCTCTTTATCTTAACCC
1 ATTGGCTCTTTATCTTAACCC
8029580 ATTG
1 ATTG
8029584 CCAAAATTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
16 3 0.11
17 2 0.07
18 7 0.25
19 7 0.25
20 2 0.07
21 7 0.25
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (21 bp):
ATTGGCTCTTTATCTTAACCC
Found at i:8029562 original size:37 final size:37
Alignment explanation
Indices: 8029512--8029585 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
8029502 TGACTTGTGA
8029512 CTCAATTAAGATTGGCTCTTTATCTTAACCCATTGCC
1 CTCAATTAAGATTGGCTCTTTATCTTAACCCATTGCC
8029549 CTCAATTAAGATTGGCTCTTTATCTTAACCCATTGCC
1 CTCAATTAAGATTGGCTCTTTATCTTAACCCATTGCC
8029586 AAAATTATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (37 bp):
CTCAATTAAGATTGGCTCTTTATCTTAACCCATTGCC
Found at i:8031775 original size:18 final size:17
Alignment explanation
Indices: 8031748--8031784 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8031738 CCTTATGCAT
8031748 TATATTTTTTATATATA
1 TATATTTTTTATATATA
*
8031765 TATATTTTTT-TATTTA
1 TATATTTTTTATATATA
8031781 TATA
1 TATA
8031785 ACTTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATATTTTTTATATATA
Found at i:8032149 original size:2 final size:2
Alignment explanation
Indices: 8032142--8032169 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8032132 ATTTTGTTTC
8032142 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
8032170 CTTTTTTTAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8042371 original size:8 final size:9
Alignment explanation
Indices: 8042353--8042383 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
8042343 TCCCTCCATG
8042353 AAAAATAAA
1 AAAAATAAA
8042362 AAAAATAAAA
1 AAAAAT-AAA
8042372 AAAAATAAA
1 AAAAATAAA
8042381 AAA
1 AAA
8042384 GAAACCCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:8042372 original size:10 final size:10
Alignment explanation
Indices: 8042353--8042383 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
8042343 TCCCTCCATG
8042353 AAAAAT-AAA
1 AAAAATAAAA
8042362 AAAAATAAAA
1 AAAAATAAAA
8042372 AAAAATAAAA
1 AAAAATAAAA
8042382 AA
1 AA
8042384 GAAACCCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:8045602 original size:27 final size:27
Alignment explanation
Indices: 8045572--8045712 Score: 191
Period size: 27 Copynumber: 5.2 Consensus size: 27
8045562 GTGATGAAGT
8045572 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
8045599 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
8045626 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
8045653 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
8045680 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
8045707 CACCAG
1 CACCAG
8045713 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
26 10 0.10
27 88 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:8045647 original size:54 final size:54
Alignment explanation
Indices: 8045572--8045712 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
8045562 GTGATGAAGT
*
8045572 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
8045626 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
8045680 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
8045713 GACGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:8047365 original size:26 final size:26
Alignment explanation
Indices: 8047334--8047441 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
8047324 TGAAATGCCC
*
8047334 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
8047360 ATCATGGAACATTTAACTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8047386 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8047412 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8047438 ATCA
1 ATCA
8047442 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8052525 original size:26 final size:26
Alignment explanation
Indices: 8052476--8052525 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
8052466 CCCAATTCCG
* * * *
8052476 AACTCAAATCTTAAATTTTGAATCTA
1 AACTCAAACCCTAAATCTTAAATCTA
8052502 AACTCAAACCCTAAATCTTAAATC
1 AACTCAAACCCTAAATCTTAAATC
8052526 ACAAACCCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (26 bp):
AACTCAAACCCTAAATCTTAAATCTA
Found at i:8053472 original size:21 final size:22
Alignment explanation
Indices: 8053448--8053501 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
8053438 GATTTAGATG
8053448 AAATTAAATAGTT-AAAAATAA
1 AAATTAAATAGTTGAAAAATAA
* * *
8053469 AAATATAAAT-TTTGAATATTAA
1 AAAT-TAAATAGTTGAAAAATAA
8053491 AAATTAAATAG
1 AAATTAAATAG
8053502 AGCCGAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (22 bp):
AAATTAAATAGTTGAAAAATAA
Found at i:8054151 original size:30 final size:29
Alignment explanation
Indices: 8054103--8054166 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
8054093 AATTAATTTT
8054103 TAAAATTTTTTAAAAATTAAAAAAATT-A
1 TAAAATTTTTTAAAAATTAAAAAAATTAA
* **
8054131 TAAAATTTATTTTAAGAATTAGTAAAATTAA
1 TAAAA-TT-TTTTAAAAATTAAAAAAATTAA
8054162 TAAAA
1 TAAAA
8054167 AATATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 5 0.17
29 2 0.07
30 17 0.57
31 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAAATTTTTTAAAAATTAAAAAAATTAA
Found at i:8055601 original size:49 final size:49
Alignment explanation
Indices: 8055544--8055788 Score: 249
Period size: 49 Copynumber: 4.9 Consensus size: 49
8055534 TAGCCATAGC
* * * * * *
8055544 TATCTGGTACGCATAATAACCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
*
8055593 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
** * * *
8055642 TATCCAGTACACGTAGTAGCCTGCACTTAATACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * *
8055692 CATCTGATACACGTAGTAGCCTGCACTTAGTGCTACACATGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* * * * * *
8055743 TTTCGGGTA-AGCATAGTAACTTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACA-CGTAGTAGCCTGCACTTAGTACTACACATGTGACC
8055789 TCAAAATAGA
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
49 86 0.53
50 41 0.25
51 35 0.21
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:8057537 original size:17 final size:15
Alignment explanation
Indices: 8057515--8057550 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
8057505 AATCTCTAAG
8057515 CCCAATACACCCAATAA
1 CCCAATAC-CCCAA-AA
8057532 CCCAATACCCCAAAA
1 CCCAATACCCCAAAA
8057547 CCCA
1 CCCA
8057551 CCTAAACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 8 0.42
ACGTcount: A:0.44, C:0.47, G:0.00, T:0.08
Consensus pattern (15 bp):
CCCAATACCCCAAAA
Found at i:8058481 original size:15 final size:15
Alignment explanation
Indices: 8058461--8058494 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8058451 AAATTAATTG
*
8058461 TTTTTAGTATTATTA
1 TTTTTAGTATTACTA
*
8058476 TTTTTATTATTACTA
1 TTTTTAGTATTACTA
8058491 TTTT
1 TTTT
8058495 ATTATACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTTTAGTATTACTA
Found at i:8063090 original size:9 final size:10
Alignment explanation
Indices: 8063052--8063092 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
8063042 AGATAAATAT
*
8063052 TTAAAAATTA
1 TTAAGAATTA
8063062 TTAAGAATTA
1 TTAAGAATTA
8063072 -TAAGAGATTA
1 TTAAGA-ATTA
8063082 TTAA-AATTA
1 TTAAGAATTA
8063091 TT
1 TT
8063093 TTAAATTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 11 0.39
10 14 0.50
11 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
TTAAGAATTA
Found at i:8066163 original size:30 final size:29
Alignment explanation
Indices: 8066129--8066192 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
8066119 AATTTACAAT
* * *
8066129 AATTAGATCAAATGAAAATTTCGTATATAA
1 AATTAGATAAAATCAAAATTT-ATATATAA
* *
8066159 AATTATATAAAATCAAAATTTATATATAC
1 AATTAGATAAAATCAAAATTTATATATAA
8066188 AATTA
1 AATTA
8066193 CCGTAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (29 bp):
AATTAGATAAAATCAAAATTTATATATAA
Found at i:8072386 original size:38 final size:39
Alignment explanation
Indices: 8072327--8072404 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
8072317 TCAGATGGCC
*
8072327 AAACATTTACAACTTACAATAATCT-ACCATTTGCAGTG
1 AAACATTTACAACTTACAATAACCTCACCATTTGCAGTG
* * * *
8072365 AAACGTTTACAGCTTATAATAACCTCATCATTTGCAGTG
1 AAACATTTACAACTTACAATAACCTCACCATTTGCAGTG
8072404 A
1 A
8072405 GTACTGGTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
38 21 0.62
39 13 0.38
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (39 bp):
AAACATTTACAACTTACAATAACCTCACCATTTGCAGTG
Found at i:8082948 original size:3 final size:3
Alignment explanation
Indices: 8082940--8082978 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
8082930 AATCTAGTCC
*
8082940 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8082979 CCTTTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:8105843 original size:16 final size:15
Alignment explanation
Indices: 8105807--8105837 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8105797 CAAATAATTT
8105807 TAAAAATATTAAAAA
1 TAAAAATATTAAAAA
*
8105822 TAAAAATATTTAAAA
1 TAAAAATATTAAAAA
8105837 T
1 T
8105838 TCAAAAAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAATATTAAAAA
Found at i:8105848 original size:20 final size:21
Alignment explanation
Indices: 8105821--8105866 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
8105811 AATATTAAAA
*
8105821 ATAAAAATATT-T-AAAATTC
1 ATAAAAAAATTATAAAAATTC
8105840 A-AAAAAAATTATAAAAATTC
1 ATAAAAAAATTATAAAAATTC
8105860 ATAAAAA
1 ATAAAAA
8105867 TAGCATGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 8 0.35
21 5 0.22
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAAAAAAATTATAAAAATTC
Found at i:8106305 original size:25 final size:26
Alignment explanation
Indices: 8106253--8106306 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
8106243 ATTAAATTTT
8106253 TAATTTTTAAAAATTTTAAAAAGTTA
1 TAATTTTTAAAAATTTTAAAAAGTTA
* *
8106279 TAATTTTTAAAATTTTTAAGAAG-TA
1 TAATTTTTAAAAATTTTAAAAAGTTA
8106304 TAA
1 TAA
8106307 AAATTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (26 bp):
TAATTTTTAAAAATTTTAAAAAGTTA
Found at i:8110446 original size:2 final size:2
Alignment explanation
Indices: 8110441--8110483 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
8110431 AGCGTGTGTT
* *
8110441 AG AG AG AG AG AG AG AG AG AG AG AT AC AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8110483 A
1 A
8110484 AGTAAAAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.51, C:0.02, G:0.44, T:0.02
Consensus pattern (2 bp):
AG
Found at i:8111272 original size:81 final size:81
Alignment explanation
Indices: 8111137--8111304 Score: 336
Period size: 81 Copynumber: 2.1 Consensus size: 81
8111127 CCTGTCTCTG
8111137 AGGTGGATTAATAGTTCCAGTGTAAGATCCAGGGACACAGATGCTGGGTTGAAGCAAACTAAGAG
1 AGGTGGATTAATAGTTCCAGTGTAAGATCCAGGGACACAGATGCTGGGTTGAAGCAAACTAAGAG
8111202 CACCAATAGGGACAGA
66 CACCAATAGGGACAGA
8111218 AGGTGGATTAATAGTTCCAGTGTAAGATCCAGGGACACAGATGCTGGGTTGAAGCAAACTAAGAG
1 AGGTGGATTAATAGTTCCAGTGTAAGATCCAGGGACACAGATGCTGGGTTGAAGCAAACTAAGAG
8111283 CACCAATAGGGACAGA
66 CACCAATAGGGACAGA
8111299 AGGTGG
1 AGGTGG
8111305 TTGGCAGGAG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 87 1.00
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.18
Consensus pattern (81 bp):
AGGTGGATTAATAGTTCCAGTGTAAGATCCAGGGACACAGATGCTGGGTTGAAGCAAACTAAGAG
CACCAATAGGGACAGA
Found at i:8111295 original size:42 final size:42
Alignment explanation
Indices: 8111167--8111296 Score: 103
Period size: 40 Copynumber: 3.2 Consensus size: 42
8111157 TGTAAGATCC
8111167 AGGGACACAGATGCTGGGTTGAAGCAAACTAAGAGCACCAAT
1 AGGGACACAGATGCTGGGTTGAAGCAAACTAAGAGCACCAAT
* * * * *** *
8111209 AGGG--ACAGAAGGTGGATTAATAGTTCCAGTGTAAGA--TCC---
1 AGGGACACAGATGCTGGGTTGA-AG---CAAACTAAGAGCACCAAT
8111248 AGGGACACAGATGCTGGGTTGAAGCAAACTAAGAGCACCAAT
1 AGGGACACAGATGCTGGGTTGAAGCAAACTAAGAGCACCAAT
8111290 AGGGACA
1 AGGGACA
8111297 GAAGGTGGTT
Statistics
Matches: 61, Mismatches: 16, Indels: 22
0.62 0.16 0.22
Matches are distributed among these distances:
37 7 0.11
39 6 0.10
40 14 0.23
41 14 0.23
42 13 0.21
44 7 0.11
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.16
Consensus pattern (42 bp):
AGGGACACAGATGCTGGGTTGAAGCAAACTAAGAGCACCAAT
Found at i:8121466 original size:14 final size:15
Alignment explanation
Indices: 8121447--8121475 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8121437 TCATTAATTG
8121447 AAAAATAT-CAAATA
1 AAAAATATCCAAATA
8121461 AAAAATATCCAAATA
1 AAAAATATCCAAATA
8121476 TATAATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATATCCAAATA
Found at i:8156347 original size:19 final size:19
Alignment explanation
Indices: 8156323--8156359 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8156313 TATCCAATCC
8156323 AAGTTCAAGTGCCAAATTG
1 AAGTTCAAGTGCCAAATTG
*
8156342 AAGTTCAGGTGCCAAATT
1 AAGTTCAAGTGCCAAATT
8156360 CCGGGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (19 bp):
AAGTTCAAGTGCCAAATTG
Found at i:8162668 original size:6 final size:6
Alignment explanation
Indices: 8162633--8162671 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
8162623 AGAAAACAGG
* *
8162633 AAAAAC AAAAAGT AAAAGC AAAAAC AAAAAC AAAAAC AA
1 AAAAAC AAAAA-C AAAAAC AAAAAC AAAAAC AAAAAC AA
8162672 GAGACAGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.79, C:0.13, G:0.05, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:8162716 original size:18 final size:18
Alignment explanation
Indices: 8162682--8162717 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8162672 GAGACAGTGA
*
8162682 CCTTTAGTTTCTGCCTCT
1 CCTTTAGTTCCTGCCTCT
*
8162700 CCTTTAGTTCCTTCCTCT
1 CCTTTAGTTCCTGCCTCT
8162718 TTTTTGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.36, G:0.08, T:0.50
Consensus pattern (18 bp):
CCTTTAGTTCCTGCCTCT
Found at i:8166753 original size:12 final size:12
Alignment explanation
Indices: 8166727--8166761 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8166717 TAGGTGGTTC
*
8166727 TTTCTT-TTATT
1 TTTCTTATTTTT
8166738 TTTCTTATTTTT
1 TTTCTTATTTTT
8166750 TTTCTTATTTTT
1 TTTCTTATTTTT
8166762 CCATTTCCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTCTTATTTTT
Found at i:8167644 original size:6 final size:7
Alignment explanation
Indices: 8167629--8167653 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8167619 GATTATTTTA
8167629 TTTTGTT
1 TTTTGTT
8167636 TTTTGTT
1 TTTTGTT
8167643 TTTTGTT
1 TTTTGTT
8167650 TTTT
1 TTTT
8167654 AACTATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTGTT
Found at i:8169292 original size:29 final size:29
Alignment explanation
Indices: 8169259--8169332 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 29
8169249 CTTAATTAAT
8169259 TATTTTAAAATTTTAAAAATC-TAAAAAAA
1 TATTTTAAAATTTTAAAAATCAT-AAAAAA
*
8169288 TATTTTAATAA---TAAAAATCATTAAAAA
1 TATTTTAA-AATTTTAAAAATCATAAAAAA
8169315 TATTTCT-AAATTTTAAAA
1 TATTT-TAAAATTTTAAAA
8169333 TAATTAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
26 2 0.05
27 19 0.50
28 2 0.05
29 13 0.34
30 2 0.05
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (29 bp):
TATTTTAAAATTTTAAAAATCATAAAAAA
Found at i:8173413 original size:15 final size:16
Alignment explanation
Indices: 8173379--8173415 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
8173369 AAAACCCTAA
8173379 TTTTCTCATTCTTTTC
1 TTTTCTCATTCTTTTC
*
8173395 -TTTCTC-TTTTTTTC
1 TTTTCTCATTCTTTTC
8173409 TTTTCTC
1 TTTTCTC
8173416 CATTTTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTCTCATTCTTTTC
Found at i:8173458 original size:18 final size:19
Alignment explanation
Indices: 8173437--8173477 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
8173427 TCTGTTTCGT
8173437 TTTC-TATTCTGTTTG-TTC
1 TTTCTTATTCT-TTTGTTTC
*
8173455 TTTCTTCTTCTTTTGTTTC
1 TTTCTTATTCTTTTGTTTC
8173474 TTTC
1 TTTC
8173478 ATTTCATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTCTTATTCTTTTGTTTC
Found at i:8175463 original size:39 final size:39
Alignment explanation
Indices: 8175407--8175501 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 39
8175397 TATACGATAG
8175407 TTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAGGACAA
1 TTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAGGACAA
* * *
8175446 TTGAGAGTTTTTGACTCTCGTTAACTGTTTGGAGGACAA
1 TTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAGGACAA
*
8175485 TTGGGAGCTTTTAACTC
1 TTGAGAGCTTTTAACTC
8175502 ACCGCACCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (39 bp):
TTGAGAGCTTTTAACTCTCGCTAACTGTTTGGAGGACAA
Found at i:8182738 original size:21 final size:22
Alignment explanation
Indices: 8182700--8182740 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8182690 TTGTTTGCTA
*
8182700 TAAATAATTAAAACAAAAAAGT
1 TAAATAATAAAAACAAAAAAGT
*
8182722 TAAA-AATAAAAATAAAAAA
1 TAAATAATAAAAACAAAAAA
8182741 TTATTCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (22 bp):
TAAATAATAAAAACAAAAAAGT
Found at i:8182958 original size:24 final size:23
Alignment explanation
Indices: 8182910--8182958 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
8182900 TATAGAGAAA
* **
8182910 TTAAAATAAAATATTAATATTTT
1 TTAAAATAAAATAATAATAAATT
8182933 TTAAACATAAAATAATAATAAATT
1 TTAAA-ATAAAATAATAATAAATT
8182957 TT
1 TT
8182959 CGAACACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAAAATAAAATAATAATAAATT
Found at i:8183384 original size:13 final size:13
Alignment explanation
Indices: 8183366--8183390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8183356 CATGTTCATA
8183366 TTAAGATTTATAT
1 TTAAGATTTATAT
8183379 TTAAGATTTATA
1 TTAAGATTTATA
8183391 ATTATTTATT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TTAAGATTTATAT
Found at i:8186088 original size:28 final size:27
Alignment explanation
Indices: 8186021--8186119 Score: 139
Period size: 28 Copynumber: 3.7 Consensus size: 27
8186011 TTTGCGAGAT
8186021 TATCTTTCAAATAAGAGTTCGCATG--
1 TATCTTTCAAATAAGAGTTCGCATGAC
8186046 TATCTTTCAAATAAGAGTTCGCATGAAC
1 TATCTTTCAAATAAGAGTTCGCATG-AC
* *
8186074 TATCTTTCAAGTAAGAGTCCGCATGGAC
1 TATCTTTCAAATAAGAGTTCGCAT-GAC
*
8186102 TATCTTTCAAAAAAGAGT
1 TATCTTTCAAATAAGAGT
8186120 CCCCAAGAAC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
25 25 0.38
28 40 0.61
29 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (27 bp):
TATCTTTCAAATAAGAGTTCGCATGAC
Found at i:8186131 original size:28 final size:28
Alignment explanation
Indices: 8186021--8186131 Score: 138
Period size: 28 Copynumber: 4.1 Consensus size: 28
8186011 TTTGCGAGAT
*
8186021 TATCTTTCAAATAAGAGTTCGCATG---
1 TATCTTTCAAATAAGAGTCCGCATGAAC
*
8186046 TATCTTTCAAATAAGAGTTCGCATGAAC
1 TATCTTTCAAATAAGAGTCCGCATGAAC
* *
8186074 TATCTTTCAAGTAAGAGTCCGCATGGAC
1 TATCTTTCAAATAAGAGTCCGCATGAAC
* * *
8186102 TATCTTTCAAAAAAGAGTCCCCAAGAAC
1 TATCTTTCAAATAAGAGTCCGCATGAAC
8186130 TA
1 TA
8186132 ATTGATGAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
25 25 0.33
28 50 0.67
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (28 bp):
TATCTTTCAAATAAGAGTCCGCATGAAC
Found at i:8189672 original size:15 final size:15
Alignment explanation
Indices: 8189652--8189685 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8189642 TGATATAAAA
8189652 TAAATATTTCATATT
1 TAAATATTTCATATT
**
8189667 TAAATATTTTGTATT
1 TAAATATTTCATATT
8189682 TAAA
1 TAAA
8189686 ATAGGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (15 bp):
TAAATATTTCATATT
Found at i:8195695 original size:9 final size:9
Alignment explanation
Indices: 8195673--8195711 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
8195663 TAATTAGATT
8195673 ATTAATTT-
1 ATTAATTTA
*
8195681 -TTAATTCA
1 ATTAATTTA
8195689 ATTAATTTA
1 ATTAATTTA
8195698 ATTAATTTA
1 ATTAATTTA
8195707 ATTAA
1 ATTAA
8195712 ATAAATCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 6 0.22
9 21 0.78
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTAATTTA
Found at i:8205116 original size:3 final size:3
Alignment explanation
Indices: 8205110--8205135 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8205100 GAAAAAAAAT
8205110 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
8205136 TGATTGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8212767 original size:16 final size:16
Alignment explanation
Indices: 8212746--8212781 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8212736 AATTCCTAAC
*
8212746 AATCTTCAAATCCCTA
1 AATCTTCAAATACCTA
*
8212762 AATCTTGAAATACCTA
1 AATCTTCAAATACCTA
8212778 AATC
1 AATC
8212782 GTTAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:8218354 original size:45 final size:43
Alignment explanation
Indices: 8218247--8218364 Score: 141
Period size: 45 Copynumber: 2.7 Consensus size: 43
8218237 CGGGCTTCGG
*
8218247 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
* * * *
8218290 G-CTCAGTAGGCCATGATGCCGATGAAAT-ATTATTCGAGCCTTTGA
1 GCCT-AGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GCCTTTGA
8218335 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
8218365 AATGTTATGT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
42 3 0.05
43 23 0.38
44 3 0.05
45 28 0.47
46 3 0.05
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (43 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGCCTTTGA
Found at i:8218819 original size:38 final size:38
Alignment explanation
Indices: 8218624--8218809 Score: 300
Period size: 38 Copynumber: 4.9 Consensus size: 38
8218614 ATGATATTTG
8218624 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
8218662 TATCCAGGTTAATTCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
8218700 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
8218738 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
8218776 TATTCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
8218810 GTTATATTCG
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 136 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:8218911 original size:45 final size:45
Alignment explanation
Indices: 8218823--8218937 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
8218813 ATATTCGAGC
* * * *
8218823 CTTT-GAGCCTAGCAGGCTATTATGCCGGTGAGATACTATTCGGG
1 CTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATACTAATCGGG
8218867 CTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA-TAATCGGG
1 CTTTCGAGCCTAGCAGGCTATAATGCCGATGAAAT-ACTAATCGGG
* * *
8218912 C-CTCGATCCTAGCAGGCGA-AATGCCG
1 CTTTCGAGCCTAGCAGGCTATAATGCCG
8218938 GTGATTTGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
43 7 0.11
44 19 0.31
45 35 0.56
46 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (45 bp):
CTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATACTAATCGGG
Found at i:8221459 original size:7 final size:6
Alignment explanation
Indices: 8221433--8221457 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8221423 TATATATTAA
8221433 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
8221458 TAAAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:8221560 original size:21 final size:20
Alignment explanation
Indices: 8221526--8221577 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
8221516 TGTTTTAAGA
*
8221526 ATTTTTTTAGTATTATTTTT
1 ATTTTTTTAATATTATTTTT
*
8221546 ATTTGTTTTAATATTTGTTTTT
1 ATTT-TTTTAATA-TTATTTTT
*
8221568 ATGTTTTTAA
1 ATTTTTTTAA
8221578 ATATATTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 13 0.48
22 10 0.37
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (20 bp):
ATTTTTTTAATATTATTTTT
Found at i:8221600 original size:26 final size:24
Alignment explanation
Indices: 8221556--8221605 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
8221546 ATTTGTTTTA
*
8221556 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
8221580 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
8221606 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:8222527 original size:51 final size:51
Alignment explanation
Indices: 8222466--8222615 Score: 210
Period size: 51 Copynumber: 2.9 Consensus size: 51
8222456 CGTGCAGCAG
* * * *
8222466 CAACATTATCCAGTCCATCAGATGCTGCAAAATCACTAGCATATTCATCAA
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAA
* * * * * *
8222517 CAACACTATCCATTCCATCTGATATTGCAAAATCACCAACACATTCATCAT
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAA
8222568 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
1 CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
8222616 TAGCAGCAAC
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 85 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.27
Consensus pattern (51 bp):
CAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAA
Found at i:8223659 original size:117 final size:117
Alignment explanation
Indices: 8223473--8223683 Score: 280
Period size: 117 Copynumber: 1.8 Consensus size: 117
8223463 GGTAACAGAA
* * * * * * *
8223473 ATCAACATCATCGAGACCACTGTCGCATAAAAAATAGACAAAACAAACCAATAGTTTTGGCATTG
1 ATCAACAACATCGAGACCACTATCGCATAAAAAATAGACAAAACAAACCAATAATTGTCGCACTA
*
8223538 AAATTGCAACAATAAATCACAATTAACCATCTACAATTTTTACAACAATTTT
66 AAATTGCAACAATAAATCACAAATAACCATCTACAATTTTTACAACAATTTT
* * * *
8223590 ATCAACAACATTGGGACCACTATCGCATAAAAAATCGACAAAACAAACC-CTACATTGTCGCACT
1 ATCAACAACATCGAGACCACTATCGCATAAAAAATAGACAAAACAAACCAATA-ATTGTCGCACT
* *
8223654 AAAATTGCAATAGTAAATCACAAATAACCA
65 AAAATTGCAACAATAAATCACAAATAACCA
8223684 ACAAATCAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
116 2 0.03
117 77 0.97
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.23
Consensus pattern (117 bp):
ATCAACAACATCGAGACCACTATCGCATAAAAAATAGACAAAACAAACCAATAATTGTCGCACTA
AAATTGCAACAATAAATCACAAATAACCATCTACAATTTTTACAACAATTTT
Found at i:8223889 original size:16 final size:16
Alignment explanation
Indices: 8223868--8223913 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
8223858 AAAAGCTAAT
*
8223868 GATTTAGGTATTTCAA
1 GATTTAGGGATTTCAA
*
8223884 GATTTAGGGATTTGAA
1 GATTTAGGGATTTCAA
8223900 GATTGTTAGGGATT
1 GA-T-TTAGGGATT
8223914 CAATGAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 16 0.62
17 1 0.04
18 9 0.35
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.41
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:8232095 original size:24 final size:24
Alignment explanation
Indices: 8232072--8232116 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8232062 ATCCATATAT
8232072 TAAT-ATAAATATTAAAAATAATA
1 TAATAATAAATATTAAAAATAATA
* *
8232095 TAATAATAAATTTTTAAAATAA
1 TAATAATAAATATTAAAAATAA
8232117 AAAAAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
TAATAATAAATATTAAAAATAATA
Found at i:8235113 original size:16 final size:16
Alignment explanation
Indices: 8235092--8235125 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
8235082 ATTAAATATA
8235092 ATTCTAACCTTATTTG
1 ATTCTAACCTTATTTG
8235108 ATTCTAACCTTATTTG
1 ATTCTAACCTTATTTG
8235124 AT
1 AT
8235126 CACAGATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTCTAACCTTATTTG
Found at i:8236213 original size:8 final size:8
Alignment explanation
Indices: 8236202--8236241 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
8236192 TAATATTTTA
8236202 AAAATTAT
1 AAAATTAT
8236210 AAAATTAT
1 AAAATTAT
*
8236218 AAAAATAT
1 AAAATTAT
8236226 -AAATTAT
1 AAAATTAT
8236233 AAAATTAT
1 AAAATTAT
8236241 A
1 A
8236242 TTTTTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATTAT
Found at i:8236231 original size:15 final size:15
Alignment explanation
Indices: 8236200--8236241 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
8236190 TTTAATATTT
8236200 TAAAAATTATAAAATTA
1 TAAAAA-TAT-AAATTA
8236217 TAAAAATATAAATTA
1 TAAAAATATAAATTA
*
8236232 TAAAATTATA
1 TAAAAATATA
8236242 TTTTTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 15 0.62
16 3 0.12
17 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAAATATAAATTA
Found at i:8239415 original size:6 final size:6
Alignment explanation
Indices: 8239404--8239441 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
8239394 TAATACATAC
*
8239404 ATTTAT ATTTAT ATTTAT ATTTAT GTTTAT ATTTAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT
8239442 ATATGTGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (6 bp):
ATTTAT
Found at i:8239446 original size:18 final size:18
Alignment explanation
Indices: 8239411--8239447 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
8239401 TACATTTATA
*
8239411 TTTATATTTATATTTATG
1 TTTATATTTATATATATG
8239429 TTTATATTTATATATATG
1 TTTATATTTATATATATG
8239447 T
1 T
8239448 GGAACATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTATATTTATATATATG
Found at i:8244683 original size:16 final size:16
Alignment explanation
Indices: 8244664--8244694 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8244654 ATTTTTTGAA
8244664 TTTTGATTGTTTTAAT
1 TTTTGATTGTTTTAAT
*
8244680 TTTTGATTTTTTTAA
1 TTTTGATTGTTTTAA
8244695 ATTTAAAATT
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:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (16 bp):
TTTTGATTGTTTTAAT
Found at i:8252401 original size:3 final size:3
Alignment explanation
Indices: 8252393--8252506 Score: 90
Period size: 3 Copynumber: 38.3 Consensus size: 3
8252383 GGAAAGAGCG
8252393 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TATA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA
** * * * ** * *
8252439 CCA TTA TTT TTT TTA TTA GTA ACA -TA TTG TTA TTT TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
8252485 TTA TTT TTA TTT TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
8252507 CATGGTTCTA
Statistics
Matches: 88, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
2 5 0.06
3 78 0.89
4 4 0.05
5 1 0.01
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8254182 original size:21 final size:19
Alignment explanation
Indices: 8254153--8254191 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
8254143 ATTTAATTTA
8254153 ATAATAATTAAAATATTTTT
1 ATAATAATT-AAATATTTTT
*
8254173 ATAATAAATTATATATTTT
1 ATAAT-AATTAAATATTTT
8254192 AATTATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATAATTAAATATTTTT
Found at i:8254582 original size:130 final size:130
Alignment explanation
Indices: 8254345--8255006 Score: 670
Period size: 130 Copynumber: 5.1 Consensus size: 130
8254335 AAAAGAATCT
* * * * **
8254345 AAATTTAATTGCGTAAGTTTGAGGTAATCTGAATCGAGTGATAGATGAATTTACTAAATGAGTGA
1 AAATTTGATTGCGTAAGTTTGAGGTAACCTGAATCGAGTGATTGATAAATTTACTAAAAAAGTGA
* **
8254410 CTACGCGTTCATACCAAAT-TCTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAGTT
66 CTACGTGTTCATATTAAATCT-TAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAGTT
8254474 A
130 A
* * ** * * * *
8254475 TAATTTGATTGCGTAAGTTTGAGGCAACCCCAAACAAGTAATTGATAAATTTACTAAAAAAGTGG
1 AAATTTGATTGCGTAAGTTTGAGGTAACCTGAATCGAGTGATTGATAAATTTACTAAAAAAGTGA
* * * **
8254540 CTACGTGTTTATATTAAATCTTAAGAGAATTTGAATATTTTTTCAATTAAAGCAA-CTTGAGATT
66 CTACGTGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAG-TT
8254604 A
130 A
* * * *
8254605 AAATTTGATTGCGTAAGTTTGAGGCAACCTAAATCGAGTGATGATTGATAAATTTACTAAAAGAC
1 AAATTTGATTGCGTAAGTTTGAGGTAACCTGAATCGA--G-TGATTGATAAATTTACTAAAAAAG
* * * * * **
8254670 TGACTATGTGTTCATATTAAATCCTAAGAGAATTTAAATACTTTTTCAGTTAGAGTAACCTATGG
63 TGACTACGTGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAG
8254735 TTA
128 TTA
* * * * * * *
8254738 AAATTTGATTTCGTAAGTTTGAGATAACCTGAATTGAGGGGTTGATAAATTTATTAAAAAAATGA
1 AAATTTGATTGCGTAAGTTTGAGGTAACCTGAATCGAGTGATTGATAAATTTACTAAAAAAGTGA
* * ** *
8254803 CTACATGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGTGATATAAGGTTA
66 CTACGTGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAGTTA
** * * *
8254868 AAA-TCAAGTTGCGTAAATTTGAGGTAACCTGAATCAAGTGATTGATAAATTTACT-AATAAGTG
1 AAATTTGA-TTGCGTAAGTTTGAGGTAACCTGAATCGAGTGATTGATAAATTTACTAAAAAAGTG
* * * * * * ** *
8254931 ACTACATGTTTATATCAAA-CATTAAGAGAATCTGAATA-ATTTTCTATTTAAAACAACTTAAAA
65 ACTACGTGTTCATATTAAATC-TTAAGAGAATTTGAATACTTTTTC-AATTAAAGTAACCT-AAA
8254994 GTTA
127 GTTA
8254998 AAATTTGAT
1 AAATTTGAT
8255007 AGTGAAATAA
Statistics
Matches: 434, Mismatches: 87, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
128 6 0.01
129 53 0.12
130 262 0.60
131 4 0.01
132 1 0.00
133 105 0.24
134 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (130 bp):
AAATTTGATTGCGTAAGTTTGAGGTAACCTGAATCGAGTGATTGATAAATTTACTAAAAAAGTGA
CTACGTGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAGTTA
Found at i:8254819 original size:263 final size:260
Alignment explanation
Indices: 8254345--8254924 Score: 696
Period size: 263 Copynumber: 2.2 Consensus size: 260
8254335 AAAAGAATCT
* * * * * *
8254345 AAATTTAATTGCGTAAGTTTGAGGTAATCTGAATCGAGTGATAGATGAATTTACTAAATGAGTGA
1 AAATTTAATTGCGTAAGTTTGAGGCAACCTAAATCGAGTGATAGATAAATTTACTAAAAGACTGA
* *
8254410 CTACGCGTTCATACCAAATTCTAAGAGAATTTGAATACTTTTTCAATTAAAGTAACCTAAAGTTA
66 CTACGCGTTCATACCAAATCCTAAGAGAATTTAAATACTTTTTCAATTAAAGTAACCTAAAGTTA
* * * * *
8254475 TAATTTGATTGCGTAAGTTTGAGGCAACCCCAAACAAGTAATTGATAAATTTACTAAAAAAGTGG
131 AAATTTGATTGCGTAAGTTTGAGACAACCCCAAACAAGGAATTGATAAATTTACTAAAAAAATGA
* * *
8254540 CTACGTGTTTATATTAAATCTTAAGAGAATTTGAATATTTTTTCAATTAAAGCAACTTGAGATTA
196 CTACATGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGCAACTTGAGATTA
*
8254605 AAATTTGATTGCGTAAGTTTGAGGCAACCTAAATCGAGTGATGATTGATAAATTTACTAAAAGAC
1 AAATTTAATTGCGTAAGTTTGAGGCAACCTAAATCGAGTGAT-A--GATAAATTTACTAAAAGAC
* * ** * * **
8254670 TGACTATGTGTTCATATTAAATCCTAAGAGAATTTAAATACTTTTTCAGTTAGAGTAACCTATGG
63 TGACTACGCGTTCATACCAAATCCTAAGAGAATTTAAATACTTTTTCAATTAAAGTAACCTAAAG
* * ** *** ** *
8254735 TTAAAATTTGATTTCGTAAGTTTGAGATAACCTGAATTGAGGGGTTGATAAATTTATTAAAAAAA
128 TTAAAATTTGATTGCGTAAGTTTGAGACAACCCCAAACAAGGAATTGATAAATTTACTAAAAAAA
** *
8254800 TGACTACATGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGTGA-TATAAG
193 TGACTACATGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGCAACT-TGAG
*
8254864 GTTA
257 ATTA
* * * * * *
8254868 AAA-TCAAGTTGCGTAAATTTGAGGTAACCTGAATCAAGTGATTGATAAATTTACTAA
1 AAATTTAA-TTGCGTAAGTTTGAGGCAACCTAAATCGAGTGATAGATAAATTTACTAA
8254925 TAAGTGACTA
Statistics
Matches: 269, Mismatches: 46, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
260 52 0.19
261 1 0.00
262 3 0.01
263 213 0.79
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (260 bp):
AAATTTAATTGCGTAAGTTTGAGGCAACCTAAATCGAGTGATAGATAAATTTACTAAAAGACTGA
CTACGCGTTCATACCAAATCCTAAGAGAATTTAAATACTTTTTCAATTAAAGTAACCTAAAGTTA
AAATTTGATTGCGTAAGTTTGAGACAACCCCAAACAAGGAATTGATAAATTTACTAAAAAAATGA
CTACATGTTCATATTAAATCTTAAGAGAATTTGAATACTTTTTCAATTAAAGCAACTTGAGATTA
Found at i:8256377 original size:9 final size:9
Alignment explanation
Indices: 8256363--8256412 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
8256353 TGATTCGGTG
8256363 CAGCAGCAA
1 CAGCAGCAA
8256372 CAGCAGCAA
1 CAGCAGCAA
* *
8256381 CAACAACAA
1 CAGCAGCAA
* *
8256390 CAACAACAA
1 CAGCAGCAA
*
8256399 CAGCAGCAG
1 CAGCAGCAA
8256408 CAGCA
1 CAGCA
8256413 AATAGCGTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (9 bp):
CAGCAGCAA
Found at i:8262400 original size:34 final size:34
Alignment explanation
Indices: 8262357--8262423 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
8262347 TAATAATCAC
*
8262357 TTATCATACTGCTGTTTGTAATGATGTTATTTCG
1 TTATCATACTGCTATTTGTAATGATGTTATTTCG
*
8262391 TTATCATACTGCTATTTGTAATGGTGTTATTTC
1 TTATCATACTGCTATTTGTAATGATGTTATTTC
8262424 ATTGGCTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.51
Consensus pattern (34 bp):
TTATCATACTGCTATTTGTAATGATGTTATTTCG
Found at i:8267339 original size:55 final size:55
Alignment explanation
Indices: 8267257--8267367 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 55
8267247 AAACATTGTA
* * *
8267257 ATGTTCACTTAGTGATAGCATTCTTAGCAATTATATTCTATTCAAATCTCAACAT
1 ATGTTCACTTAGTAAGAACATTCTTAGCAATTATATTCTATTCAAATCTCAACAT
* *
8267312 ATGTTCACTTAGTAAGAACATTTTTAGCAGTTATATTCTATTCAAATCTCAACAT
1 ATGTTCACTTAGTAAGAACATTCTTAGCAATTATATTCTATTCAAATCTCAACAT
8267367 A
1 A
8267368 GGAAAATACC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (55 bp):
ATGTTCACTTAGTAAGAACATTCTTAGCAATTATATTCTATTCAAATCTCAACAT
Found at i:8269325 original size:8 final size:9
Alignment explanation
Indices: 8269294--8269322 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
8269284 ATTTAAGCCC
8269294 TTTAAAATT
1 TTTAAAATT
8269303 TTTAAAATT
1 TTTAAAATT
8269312 TTTAAAATT
1 TTTAAAATT
8269321 TT
1 TT
8269323 AAACTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTAAAATT
Found at i:8274510 original size:37 final size:37
Alignment explanation
Indices: 8274454--8274528 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
8274444 CTAACTCCAT
* *
8274454 CACCTTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTAACTCCATCACCCCCA
*
8274491 CACCCTACTAAACCGTCCACTAACTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTAACTCCATCACCCCCA
8274528 C
1 C
8274529 TACCTCCATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.52, G:0.01, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTAACTCCATCACCCCCA
Found at i:8274530 original size:18 final size:18
Alignment explanation
Indices: 8274507--8274541 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8274497 ACTAAACCGT
8274507 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
*
8274525 CCACTACCTCCATCACC
1 CCACTAACTCCATCACC
8274542 TTACTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.57, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:8274619 original size:11 final size:11
Alignment explanation
Indices: 8274603--8274630 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
8274593 TGTATGAGGG
8274603 GGATTTGGAGA
1 GGATTTGGAGA
8274614 GGATTTGGAGA
1 GGATTTGGAGA
8274625 GGATTT
1 GGATTT
8274631 TTGGGGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.43, T:0.32
Consensus pattern (11 bp):
GGATTTGGAGA
Found at i:8274980 original size:19 final size:18
Alignment explanation
Indices: 8274956--8274992 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
8274946 TTATGTTTCA
8274956 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
8274975 TATTATTATATATTTATT
1 TATTATTATATATTTATT
8274993 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:8275004 original size:17 final size:14
Alignment explanation
Indices: 8274964--8274994 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8274954 CATATTATTA
*
8274964 TATTATTTATTTAT
1 TATTATATATTTAT
8274978 TATTATATATTTAT
1 TATTATATATTTAT
8274992 TAT
1 TAT
8274995 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:8284920 original size:21 final size:22
Alignment explanation
Indices: 8284885--8284928 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
8284875 GTCTTCAAAG
8284885 TAATATATATTTATATAAATTT
1 TAATATATATTTATATAAATTT
* *
8284907 TAATAT-TTTTTATATAGATTT
1 TAATATATATTTATATAAATTT
8284928 T
1 T
8284929 CACTTCTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TAATATATATTTATATAAATTT
Found at i:8285526 original size:15 final size:15
Alignment explanation
Indices: 8285490--8285519 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8285480 CAATCAATAA
*
8285490 TCATAAATTTGAAAT
1 TCATAATTTTGAAAT
8285505 TCATAATTTTGAAAT
1 TCATAATTTTGAAAT
8285520 ATATAATCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (15 bp):
TCATAATTTTGAAAT
Found at i:8286356 original size:21 final size:20
Alignment explanation
Indices: 8286331--8286369 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8286321 TAATCAAATT
8286331 TAATTAGTTTAATAATTAAGA
1 TAATTAGTTTAAT-ATTAAGA
*
8286352 TAATTATTTTAATATTAA
1 TAATTAGTTTAATATTAA
8286370 ATTAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TAATTAGTTTAATATTAAGA
Found at i:8295640 original size:99 final size:99
Alignment explanation
Indices: 8295469--8295679 Score: 386
Period size: 99 Copynumber: 2.1 Consensus size: 99
8295459 CTAAATTTCT
* *
8295469 ACCGTTCATTTCATTCTATGTCGGCTTTGGTCTCGTATAACGGTCTTCCCCGCAGTCTCTGATCC
1 ACCGTCCATTTCATTCTATGTCGGCTTTGGTCTCGTATAACGGTCTTCCCCGCAGCCTCTGATCC
*
8295534 TATGCATTCGGAATGCGGTACTCCTTTGATCTCC
66 TATGCATTCGAAATGCGGTACTCCTTTGATCTCC
*
8295568 ACCGTCCATTTCATTCTATGTCGGCTTTGGTCTCGTATAACGGTCTTCCCCGCAGCCTCTGATTC
1 ACCGTCCATTTCATTCTATGTCGGCTTTGGTCTCGTATAACGGTCTTCCCCGCAGCCTCTGATCC
8295633 TATGCATTCGAAATGCGGTACTCCTTTGATCTCC
66 TATGCATTCGAAATGCGGTACTCCTTTGATCTCC
8295667 ACCGTCCATTTCA
1 ACCGTCCATTTCA
8295680 AACGACAGTT
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 108 1.00
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (99 bp):
ACCGTCCATTTCATTCTATGTCGGCTTTGGTCTCGTATAACGGTCTTCCCCGCAGCCTCTGATCC
TATGCATTCGAAATGCGGTACTCCTTTGATCTCC
Found at i:8304880 original size:21 final size:23
Alignment explanation
Indices: 8304854--8304906 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
8304844 AAAATAGCAG
8304854 CATCTG-AT-ATCACATCCCCAC
1 CATCTGAATAATCACATCCCCAC
8304875 CATCTGGCAAATAATCACATCCCCAC
1 CATCT-G--AATAATCACATCCCCAC
8304901 CATCTG
1 CATCTG
8304907 GCAAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.19
22 1 0.04
25 3 0.11
26 18 0.67
ACGTcount: A:0.30, C:0.40, G:0.08, T:0.23
Consensus pattern (23 bp):
CATCTGAATAATCACATCCCCAC
Found at i:8304898 original size:26 final size:26
Alignment explanation
Indices: 8304862--8304915 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
8304852 AGCATCTGAT
8304862 ATCACATCCCCACCATCTGGCAAATA
1 ATCACATCCCCACCATCTGGCAAATA
8304888 ATCACATCCCCACCATCTGGCAAATA
1 ATCACATCCCCACCATCTGGCAAATA
8304914 AT
1 AT
8304916 AGGATTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.37, G:0.07, T:0.20
Consensus pattern (26 bp):
ATCACATCCCCACCATCTGGCAAATA
Found at i:8322335 original size:3 final size:3
Alignment explanation
Indices: 8322321--8322351 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
8322311 TTCTATACTT
*
8322321 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8322352 ATTGTGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8326607 original size:7 final size:7
Alignment explanation
Indices: 8326597--8326627 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
8326587 AAGGGTAGGA
8326597 TGAAAGT
1 TGAAAGT
8326604 TGAAAGT
1 TGAAAGT
8326611 TGAAAGT
1 TGAAAGT
8326618 TGAAAGT
1 TGAAAGT
8326625 TGA
1 TGA
8326628 GGTGTTGCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
TGAAAGT
Found at i:8329797 original size:18 final size:19
Alignment explanation
Indices: 8329774--8329812 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
8329764 GTAAAAAATA
8329774 TATTTTTAAAC-ATTTTTT
1 TATTTTTAAACAATTTTTT
**
8329792 TATTTTTTTACAATTTTTT
1 TATTTTTAAACAATTTTTT
8329811 TA
1 TA
8329813 CATTTTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTTTTAAACAATTTTTT
Found at i:8329808 original size:10 final size:10
Alignment explanation
Indices: 8329783--8329819 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 10
8329773 ATATTTTTAA
8329783 ACATTTTTTT
1 ACATTTTTTT
8329793 --ATTTTTTT
1 ACATTTTTTT
8329801 ACAATTTTTTT
1 AC-ATTTTTTT
8329812 ACATTTTT
1 ACATTTTT
8329820 GTAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
8 8 0.33
10 6 0.25
11 10 0.42
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (10 bp):
ACATTTTTTT
Found at i:8329818 original size:19 final size:20
Alignment explanation
Indices: 8329775--8329819 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
8329765 TAAAAAATAT
*
8329775 ATTTTTAAACATTTTTTTAT
1 ATTTTTAAACATTTTTTTAC
* *
8329795 TTTTTTACA-ATTTTTTTAC
1 ATTTTTAAACATTTTTTTAC
8329814 ATTTTT
1 ATTTTT
8329820 GTAATAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTAAACATTTTTTTAC
Found at i:8329936 original size:17 final size:17
Alignment explanation
Indices: 8329914--8329956 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
8329904 TTCTAGATTA
8329914 TATATATTTTGAATTTT
1 TATATATTTTGAATTTT
**
8329931 TATATATTTTTCATTTT
1 TATATATTTTGAATTTT
8329948 T-TATATTTT
1 TATATATTTT
8329957 TTAATGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATATATTTTGAATTTT
Found at i:8329948 original size:18 final size:18
Alignment explanation
Indices: 8329911--8329957 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
8329901 TCTTTCTAGA
*
8329911 TTATATATATTTTGAATTT
1 TTATATAT-TTTTCAATTT
8329930 TTATATATTTTTC-ATTT
1 TTATATATTTTTCAATTT
8329947 TT-TATATTTTT
1 TTATATATTTTT
8329958 TAATGTGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
18 4 0.15
19 8 0.30
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATATATTTTTCAATTT
Found at i:8334141 original size:30 final size:30
Alignment explanation
Indices: 8334092--8334174 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
8334082 TTTACAATTG
*
8334092 TATACATG-AACTTTAATTTTGTGC-AAT-
1 TATACTTGAAACTTTAATTTTGTGCAAATA
* *
8334119 TATACATGTGAAACTCTAATTTTGGTTCAAATA
1 TATAC-T-TGAAACTTTAATTTT-GTGCAAATA
8334152 TATACTTGAAACTTTAATTTTGT
1 TATACTTGAAACTTTAATTTTGT
8334175 TTTAACCATA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
27 5 0.11
29 2 0.04
30 13 0.28
31 17 0.37
32 4 0.09
33 5 0.11
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (30 bp):
TATACTTGAAACTTTAATTTTGTGCAAATA
Found at i:8339725 original size:15 final size:16
Alignment explanation
Indices: 8339705--8339739 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
8339695 AAAAATGGAG
8339705 AAAGAAAAGA-ATATA
1 AAAGAAAAGAGATATA
*
8339720 AAAGAAAAGAGCTATA
1 AAAGAAAAGAGATATA
8339736 AAAG
1 AAAG
8339740 CCATGGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.69, C:0.03, G:0.17, T:0.11
Consensus pattern (16 bp):
AAAGAAAAGAGATATA
Found at i:8341083 original size:25 final size:25
Alignment explanation
Indices: 8341055--8341114 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
8341045 CCTTAGCGCA
*
8341055 CTCTCTGATTATTAGCACGTTAGTG
1 CTCTCTGATTATTAGCACGTCAGTG
*
8341080 CTCTTTGATTATTAGCACGTCAGTG
1 CTCTCTGATTATTAGCACGTCAGTG
8341105 CTCTCTGATT
1 CTCTCTGATT
8341115 CGCACATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (25 bp):
CTCTCTGATTATTAGCACGTCAGTG
Found at i:8342088 original size:12 final size:12
Alignment explanation
Indices: 8342071--8342095 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8342061 GCCGACTACT
8342071 GTTACTGTTACC
1 GTTACTGTTACC
8342083 GTTACTGTTACC
1 GTTACTGTTACC
8342095 G
1 G
8342096 ATTCGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:8342143 original size:45 final size:45
Alignment explanation
Indices: 8342073--8342177 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
8342063 CGACTACTGT
* * **
8342073 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGTTACCGATTCAACACTTTGTGTGTCGAA
* * *
8342118 TATTGTTACTGTTACCGTTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTGTTACCGTTACCGATTCAACACTTTGTGTGTCGAA
8342163 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
8342178 TGTTCCGGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACCGTTACCGATTCAACACTTTGTGTGTCGAA
Found at i:8342178 original size:51 final size:51
Alignment explanation
Indices: 8342058--8342181 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 51
8342048 CAGGCACTTA
* * * * **
8342058 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCGATTCGGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
*
8342109 TGTGTCGAATA----T--TGTTACTGTTACCGTTATCGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
*
8342154 TGTGTTGAATACTGTTACTGTTACTGTT
1 TGTGTCGAATACTGTTACTGTTACTGTT
8342182 CCGGATTTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
45 38 0.64
47 1 0.02
49 1 0.02
51 19 0.32
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (51 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAACACTTTG
Found at i:8342626 original size:18 final size:18
Alignment explanation
Indices: 8342421--8342630 Score: 84
Period size: 18 Copynumber: 11.3 Consensus size: 18
8342411 TTATTGAATA
* **
8342421 ACTGAATAATTGATCATT
1 ACTGAATAAATGATTGTT
* *
8342439 ACTGAATAACTGATTGTC
1 ACTGAATAAATGATTGTT
*
8342457 ACTGAATAAATGACTGTT
1 ACTGAATAAATGATTGTT
* * *
8342475 ACTGAATAACTTAATTGCT
1 ACTGAATAA-ATGATTGTT
* **
8342494 ATTGAATATCTGATT-TT
1 ACTGAATAAATGATTGTT
* * *
8342511 ACTAAATAATTGACTGTT
1 ACTGAATAAATGATTGTT
*
8342529 ACT-AGATAACCGATCAATTGATCGAT
1 ACTGA-ATAA---AT-GATTG-T---T
* * *
8342555 ACTGAATAACTGGTTATT
1 ACTGAATAAATGATTGTT
* *
8342573 ATTGAATAATTGATTGTT
1 ACTGAATAAATGATTGTT
* * *
8342591 ACCGAATAAGTGACTGTT
1 ACTGAATAAATGATTGTT
*
8342609 ACTGAATAAATAATTGTT
1 ACTGAATAAATGATTGTT
8342627 -CTGA
1 ACTGA
8342631 TTGTTAATGA
Statistics
Matches: 140, Mismatches: 40, Indels: 25
0.68 0.20 0.12
Matches are distributed among these distances:
17 16 0.11
18 94 0.67
19 12 0.09
21 2 0.01
22 5 0.04
23 2 0.01
26 8 0.06
27 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
ACTGAATAAATGATTGTT
Found at i:8346417 original size:21 final size:21
Alignment explanation
Indices: 8346383--8346423 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8346373 ATGTTTACTT
*
8346383 ATTATATAAGTATATTATTAA
1 ATTATATAAGTATAATATTAA
* *
8346404 ATTATATTATTATAATATTA
1 ATTATATAAGTATAATATTA
8346424 TTATAAATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTATATAAGTATAATATTAA
Found at i:8346458 original size:15 final size:14
Alignment explanation
Indices: 8346438--8346467 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
8346428 AAATCAAATG
8346438 AAACAAATGAAATAA
1 AAACAAAT-AAATAA
8346453 AAACAAATAAATAA
1 AAACAAATAAATAA
8346467 A
1 A
8346468 TAGAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (14 bp):
AAACAAATAAATAA
Found at i:8346524 original size:21 final size:19
Alignment explanation
Indices: 8346508--8346546 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
8346498 ATGAAAATAG
*
8346508 GGGAGAAAAGAAGGAAAGAAA
1 GGGA-AAAAGAAAGAAA-AAA
8346529 GGGAAAAAGAAAGAAAAA
1 GGGAAAAAGAAAGAAAAA
8346547 GGAGAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 11 0.65
21 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
GGGAAAAAGAAAGAAAAAA
Found at i:8347298 original size:27 final size:27
Alignment explanation
Indices: 8347268--8347323 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
8347258 ATCGAGCCTT
* *
8347268 TCTCTGAGGCGCAAATGATTGTACCTA
1 TCTCAGAGGCACAAATGATTGTACCTA
* *
8347295 TCTCAGAGGCACAAATGGTTGTGCCTA
1 TCTCAGAGGCACAAATGATTGTACCTA
8347322 TC
1 TC
8347324 CCAAAGGCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (27 bp):
TCTCAGAGGCACAAATGATTGTACCTA
Found at i:8347331 original size:27 final size:27
Alignment explanation
Indices: 8347274--8347339 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
8347264 CCTTTCTCTG
* * *
8347274 AGGCGCAAATGATTGTACCTATCTCAG
1 AGGCGCAAATGGTTGTACCTATCCCAA
* *
8347301 AGGCACAAATGGTTGTGCCTATCCCAA
1 AGGCGCAAATGGTTGTACCTATCCCAA
8347328 AGGCGC-AATGGT
1 AGGCGCAAATGGT
8347340 GGGGCCTACA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (27 bp):
AGGCGCAAATGGTTGTACCTATCCCAA
Found at i:8350197 original size:71 final size:72
Alignment explanation
Indices: 8350071--8350208 Score: 165
Period size: 71 Copynumber: 1.9 Consensus size: 72
8350061 AAAAACCATA
* *
8350071 AAATTGATAAATAAAATGGCAAAAAAGTCATTACATAAATATAAAGTTAACTATTTAAATTGCAA
1 AAATTGATAAATAAAATGGCAAAAAAGTCATTACATAAATATAAAGTGAACTATTTAAATTACAA
8350136 AAAAATT
66 AAAAATT
* * * * * *
8350143 AAATTGTTAATTAAAAT-GCTAAAAATTCATTACATAAATA-AATA-TGAAGTTATTTATATTAC
1 AAATTGATAAATAAAATGGCAAAAAAGTCATTACATAAATATAA-AGTGAA-CTATTTAAATTAC
8350205 AAAA
64 AAAA
8350209 CCCCCTAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
70 5 0.09
71 36 0.64
72 15 0.27
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.33
Consensus pattern (72 bp):
AAATTGATAAATAAAATGGCAAAAAAGTCATTACATAAATATAAAGTGAACTATTTAAATTACAA
AAAAATT
Found at i:8350441 original size:33 final size:33
Alignment explanation
Indices: 8350380--8350454 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 33
8350370 GATCTTGAGT
* *
8350380 CGGGAGGAGTGGAGTACGGCGATTGATACGAGC
1 CGGGAGGAGTGGAGTACGACGATGGATACGAGC
* * *
8350413 CGGGAGGAGTGGAGTACGATGGTGGATACGGGC
1 CGGGAGGAGTGGAGTACGACGATGGATACGAGC
*
8350446 CGGAAGGAG
1 CGGGAGGAG
8350455 CAAAGTACTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.24, C:0.13, G:0.49, T:0.13
Consensus pattern (33 bp):
CGGGAGGAGTGGAGTACGACGATGGATACGAGC
Found at i:8353749 original size:60 final size:60
Alignment explanation
Indices: 8353665--8353783 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
8353655 ATACTAAACT
* * *
8353665 AAACACAACAATTTATAACTTAATCCTAAATTACTAATACATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
8353725 AAACACAA-AATTTTTTAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAA-TTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
8353784 TAAAAAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 2 0.04
60 52 0.96
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.35
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:8354395 original size:26 final size:27
Alignment explanation
Indices: 8354366--8354425 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
8354356 TATATATTTA
*
8354366 AATATT-TTTAATAAAA-ATTAAAAAAT
1 AATATTATTTAA-AAAACATAAAAAAAT
8354392 AATATTTTATTTAAAAAACATAAAAAAAT
1 AATA--TTATTTAAAAAACATAAAAAAAT
8354421 AATAT
1 AATAT
8354426 AAAATAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
26 4 0.14
27 1 0.03
28 6 0.21
29 18 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (27 bp):
AATATTATTTAAAAAACATAAAAAAAT
Found at i:8355024 original size:23 final size:22
Alignment explanation
Indices: 8354988--8355034 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
8354978 ATTAATTATG
8354988 AATATGTGATTATTGTAAAATGTA
1 AATATGTGATTATTG-AAAA-GTA
*
8355012 AATATTTG-TTATTGAAAAGTA
1 AATATGTGATTATTGAAAAGTA
8355033 AA
1 AA
8355035 GTGAATTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 5 0.23
22 4 0.18
23 6 0.27
24 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (22 bp):
AATATGTGATTATTGAAAAGTA
Found at i:8355283 original size:44 final size:44
Alignment explanation
Indices: 8355183--8355272 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 44
8355173 TGTTCAGGGA
*
8355183 TACTTCGACCTT-GAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCGATGAGGCACTATAAGTGCCGTACTGT
**
8355227 TACTTCGACTTCGAGTCGATGAGGCACCT-TGTGTGCCGTACTGT
1 TACTTCGACTTCGAGTCGATGAGGCA-CTATAAGTGCCGTACTGT
8355271 TA
1 TA
8355273 TTGTTACTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
43 3 0.07
44 36 0.88
45 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGGCACTATAAGTGCCGTACTGT
Found at i:8355472 original size:36 final size:35
Alignment explanation
Indices: 8355432--8355543 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 35
8355422 TAAATAAAAG
* * *
8355432 TACTGAATGACTGACTGTTACTGAATAATTGATCGT
1 TACTGAATAACTGAATGCTACTGAATAATTGAT-GT
** *
8355468 TACTGAATAACTGAATGCTACTGAGCAAATGATTGT
1 TACTGAATAACTGAATGCTACTGAATAATTGA-TGT
*
8355504 TACTGAATAACT-AATTGCTACTAAATAATTGAATGT
1 TACTGAATAACTGAA-TGCTACTGAATAATTG-ATGT
8355540 TACT
1 TACT
8355544 AAATGAAACT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
35 2 0.03
36 59 0.94
37 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (35 bp):
TACTGAATAACTGAATGCTACTGAATAATTGATGT
Found at i:8355547 original size:18 final size:18
Alignment explanation
Indices: 8355432--8355543 Score: 93
Period size: 18 Copynumber: 6.2 Consensus size: 18
8355422 TAAATAAAAG
* *
8355432 TACTGAATGACTGACTGT
1 TACTGAATAACTGAATGT
*
8355450 TACTGAATAATTG-ATCGT
1 TACTGAATAACTGAAT-GT
*
8355468 TACTGAATAACTGAATGC
1 TACTGAATAACTGAATGT
** * *
8355486 TACTGAGCAAATGATTGT
1 TACTGAATAACTGAATGT
*
8355504 TACTGAATAACT-AATTGC
1 TACTGAATAACTGAA-TGT
* *
8355522 TACTAAATAATTGAATGT
1 TACTGAATAACTGAATGT
8355540 TACT
1 TACT
8355544 AAATGAAACT
Statistics
Matches: 72, Mismatches: 18, Indels: 8
0.73 0.18 0.08
Matches are distributed among these distances:
17 2 0.03
18 66 0.92
19 4 0.06
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGAATGT
Found at i:8356718 original size:12 final size:12
Alignment explanation
Indices: 8356701--8356727 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8356691 TGTTACAGAA
8356701 ATAATGAAGAGT
1 ATAATGAAGAGT
8356713 ATAATGAAGAGT
1 ATAATGAAGAGT
8356725 ATA
1 ATA
8356728 TTCAGGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (12 bp):
ATAATGAAGAGT
Found at i:8358130 original size:20 final size:18
Alignment explanation
Indices: 8358102--8358140 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8358092 AAGTTGACTT
8358102 TAAACTTAAAGTTGTTAGAA
1 TAAACTT-AA-TTGTTAGAA
*
8358122 TAAAGTTAATTGTTAGAA
1 TAAACTTAATTGTTAGAA
8358140 T
1 T
8358141 GAATATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (18 bp):
TAAACTTAATTGTTAGAA
Found at i:8359245 original size:25 final size:25
Alignment explanation
Indices: 8359217--8359276 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
8359207 CCTTAGCGCA
*
8359217 CTCTCTGATTATTAGCACGTTAGTG
1 CTCTCTGATTATTAGCACGTCAGTG
*
8359242 CTCTTTGATTATTAGCACGTCAGTG
1 CTCTCTGATTATTAGCACGTCAGTG
8359267 CTCTCTGATT
1 CTCTCTGATT
8359277 CGCACATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (25 bp):
CTCTCTGATTATTAGCACGTCAGTG
Found at i:8362630 original size:17 final size:19
Alignment explanation
Indices: 8362595--8362639 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
8362585 GAAAATAAAT
8362595 ATATATAAAATTCAGAAAA
1 ATATATAAAATTCAGAAAA
* *
8362614 ATATATATAATT-AAAAAA
1 ATATATAAAATTCAGAAAA
8362632 AT-TATAAA
1 ATATATAAA
8362640 TCATAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 5 0.22
18 7 0.30
19 11 0.48
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATATATAAAATTCAGAAAA
Found at i:8363034 original size:25 final size:25
Alignment explanation
Indices: 8363004--8363051 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
8362994 TATAATTATT
8363004 TATTTTAGAA-TTTTATAAAAAAAGG
1 TATTTTAGAACTTTT-TAAAAAAAGG
*
8363029 TATTTTTGAACTTTTTAAAAAAA
1 TATTTTAGAACTTTTTAAAAAAA
8363052 TTATGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (25 bp):
TATTTTAGAACTTTTTAAAAAAAGG
Found at i:8363138 original size:15 final size:16
Alignment explanation
Indices: 8363120--8363158 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
8363110 TTTCAATTAT
8363120 AATTTTTTTTTTGTA-
1 AATTTTTTTTTTGTAC
**
8363135 AATTTCATTTTTGTAC
1 AATTTTTTTTTTGTAC
8363151 AATTTTTT
1 AATTTTTT
8363159 GTAATTTATC
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (16 bp):
AATTTTTTTTTTGTAC
Done.