Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 32 of 433
Found at i:8301702 original size:25 final size:24
Alignment explanation
Indices: 8301673--8301724 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
8301663 GTGAAATGGT
* * *
8301673 AAAAATAAAAAATAAAAATGAAAGA
1 AAAAAGAAAAAAGAAAAAAGAAA-A
8301698 AAAAAGAAAAAAGAAAAAAGAAAA
1 AAAAAGAAAAAAGAAAAAAGAAAA
8301722 AAA
1 AAA
8301725 CCAAATTACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.06
Consensus pattern (24 bp):
AAAAAGAAAAAAGAAAAAAGAAAA
Found at i:8301703 original size:7 final size:7
Alignment explanation
Indices: 8301693--8301723 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
8301683 AATAAAAATG
8301693 AAAGAAA
1 AAAGAAA
8301700 AAAGAAA
1 AAAGAAA
8301707 AAAGAAA
1 AAAGAAA
8301714 AAAGAAA
1 AAAGAAA
8301721 AAA
1 AAA
8301724 ACCAAATTAC
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:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:8301933 original size:18 final size:18
Alignment explanation
Indices: 8301910--8301944 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8301900 TTTTTGAATT
8301910 TAAAATTATA-AATTTATC
1 TAAAATT-TAGAATTTATC
8301928 TAAAATTTAGAATTTAT
1 TAAAATTTAGAATTTAT
8301945 TTATTATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAAATTTAGAATTTATC
Found at i:8303935 original size:10 final size:9
Alignment explanation
Indices: 8303918--8303946 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
8303908 ATGTATGTAT
8303918 ATAAAAAAA
1 ATAAAAAAA
8303927 ATAAAAAAA
1 ATAAAAAAA
8303936 ATAAAAAAA
1 ATAAAAAAA
8303945 AT
1 AT
8303947 GAATGCCAAA
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:8304360 original size:18 final size:20
Alignment explanation
Indices: 8304327--8304367 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
8304317 CTGTTTCAAC
*
8304327 TTTTTATTATTTAAATA-AT
1 TTTTTATTATTAAAATACAT
8304346 TTTTTATT-TTAAAATACAT
1 TTTTTATTATTAAAATACAT
8304365 TTT
1 TTT
8304368 AACCTTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTATTATTAAAATACAT
Found at i:8304616 original size:20 final size:22
Alignment explanation
Indices: 8304582--8304621 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
8304572 GTGTCGAAAT
8304582 AAAAACAGAATAATAAAATAAA
1 AAAAACAGAATAATAAAATAAA
8304604 AAAAACA-AA-AATAAAATA
1 AAAAACAGAATAATAAAATA
8304622 GTCACCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (22 bp):
AAAAACAGAATAATAAAATAAA
Found at i:8309270 original size:76 final size:76
Alignment explanation
Indices: 8309185--8309338 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
8309175 ATTCCATATA
8309185 GAGATTTATATAATGAAAAGATTGTTTATATTAAAGACTTGAATTTCAAAAATTGACTCAACAAC
1 GAGATTTATATAATGAAAAGATTGTTTATATTAAAGACTTGAATTTCAAAAATTGACTCAACAAC
8309250 CTAAATTAGTT
66 CTAAATTAGTT
8309261 GAGATTTATATAATGAAAAGATTGTTTATATTAAAGACTTGAATTTCAAAAATTGACTCAACAAC
1 GAGATTTATATAATGAAAAGATTGTTTATATTAAAGACTTGAATTTCAAAAATTGACTCAACAAC
8309326 CTAAATTAGTT
66 CTAAATTAGTT
8309337 GA
1 GA
8309339 AGTAAATTTG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (76 bp):
GAGATTTATATAATGAAAAGATTGTTTATATTAAAGACTTGAATTTCAAAAATTGACTCAACAAC
CTAAATTAGTT
Found at i:8310360 original size:20 final size:19
Alignment explanation
Indices: 8310313--8310361 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
8310303 GGATTCATGA
8310313 TTTAAGGTTTGGGTTCGAG
1 TTTAAGGTTTGGGTTCGAG
** *
8310332 TTTTGGGTTTAGGGTTTGAG
1 TTTAAGGTTT-GGGTTCGAG
8310352 TTTAAGGTTT
1 TTTAAGGTTT
8310362 TGAGTTCGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.14, C:0.02, G:0.35, T:0.49
Consensus pattern (19 bp):
TTTAAGGTTTGGGTTCGAG
Found at i:8311963 original size:348 final size:352
Alignment explanation
Indices: 8311307--8311997 Score: 1140
Period size: 348 Copynumber: 2.0 Consensus size: 352
8311297 TTGGTTATAT
** *
8311307 TTATTTTATTTTATTTTTTAAAAATTTTTCTCTCTCTTCCCAAAAATCTAACGTCAGTTTCTACC
1 TTATTTTATTTTATTTTTTAAAAAAATTTCTCTCTCTTCCCAAAAATCTAACATCAGTTTCTACC
8311372 TTTCCTCTATTTTTTTCTGTCGTTTTCATCTTTTTATCTCTCCTCTCCTCTACTTCTTTCTTCTC
66 TTTCCTCTATTTTTTTCTGTCGTTTTCATCTTTTTA---CTCCTCTCCTCTACTTCTTTCTTCTC
* *
8311437 TCTTTTTTTCGTTCCCCTTCAAGTCTGTTCACACTTTTTCTGTTCTTCGCGTTGCACTTCGGATT
128 TCTTTTTTTCGTTCCCCTTCAAGTATGTTCACACTTTTTCTGTTCTTCGCGTTGCACTTCAGATT
*
8311502 TTGGTGTTCTTCGTGTGATTTGGGTAAGAGTGGTTACTTTTGTCTTTAGGTAACGGTTTCGATAA
193 TTGGTGTTCTTCGTGTGATTTGGGTAAGAGTGGTTACTTTTGTCTTTAGGTAACAGTTTCGATAA
*
8311567 GCTGATTTGATTCATTTTCGTTGTTGTGGCATAATGGTGTTATAGGGAATTTGATTTCTACGAAC
258 GCTGATTTGATTCATTTTCGTTGTAGTGGCATAATGGTGTTATAGGGAATTTGATTTCTACGAAC
8311632 TTGTTGTATAGGAGAAGGTTGCGAAATTGG
323 TTGTTGTATAGGAGAAGGTTGCGAAATTGG
* *
8311662 TTATATTTATTTTATTTTTTAAAAAAATTTCTCTCTCTTTCCAAAAATCTAACATCAGTTTCTGC
1 TTAT-TTTATTTTATTTTTTAAAAAAATTTCTCTCTCTTCCCAAAAATCTAACATCAGTTTCTAC
*
8311727 CTTTCCTCTA-TTTTTT-TGTCGTTTTCATCTTTTTA-T-CTCTCCTCTACTTCTTTTTTCTCTC
65 CTTTCCTCTATTTTTTTCTGTCGTTTTCATCTTTTTACTCCTCTCCTCTACTTCTTTCTTCTCTC
* *
8311788 TTTTTTTCGTTTCCCTTCAAGTATGTTTACAC-TTTTCTGTTCTTCGCGTTGCACTTCAGATTTT
130 TTTTTTTCGTTCCCCTTCAAGTATGTTCACACTTTTTCTGTTCTTCGCGTTGCACTTCAGATTTT
* * *
8311852 GGTGTTTTTCGTGTGATTTGGGTAGGAGTGGTTACTTTTGTCTTTAGGTAACAGTTTCGCTAAGC
195 GGTGTTCTTCGTGTGATTTGGGTAAGAGTGGTTACTTTTGTCTTTAGGTAACAGTTTCGATAAGC
** * *
8311917 TGATTTGATTCATTTTTTTTGTAGTGGCATAATGGTGTTGTAGGGAATTTGATTTCTGCGAACTT
260 TGATTTGATTCATTTTCGTTGTAGTGGCATAATGGTGTTATAGGGAATTTGATTTCTACGAACTT
8311982 GTTGTATAGGAGAAGG
325 GTTGTATAGGAGAAGG
8311998 CTGGGAATAG
Statistics
Matches: 316, Mismatches: 19, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
348 168 0.53
349 53 0.17
350 1 0.00
354 19 0.06
355 10 0.03
356 65 0.21
ACGTcount: A:0.17, C:0.17, G:0.16, T:0.49
Consensus pattern (352 bp):
TTATTTTATTTTATTTTTTAAAAAAATTTCTCTCTCTTCCCAAAAATCTAACATCAGTTTCTACC
TTTCCTCTATTTTTTTCTGTCGTTTTCATCTTTTTACTCCTCTCCTCTACTTCTTTCTTCTCTCT
TTTTTTCGTTCCCCTTCAAGTATGTTCACACTTTTTCTGTTCTTCGCGTTGCACTTCAGATTTTG
GTGTTCTTCGTGTGATTTGGGTAAGAGTGGTTACTTTTGTCTTTAGGTAACAGTTTCGATAAGCT
GATTTGATTCATTTTCGTTGTAGTGGCATAATGGTGTTATAGGGAATTTGATTTCTACGAACTTG
TTGTATAGGAGAAGGTTGCGAAATTGG
Found at i:8312392 original size:17 final size:18
Alignment explanation
Indices: 8312366--8312410 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
8312356 GGCCAATCTG
* *
8312366 GGCATATGGGCC-ACACG
1 GGCATGTGGGCCAACACA
*
8312383 GGCGTGTGGGCCAACACA
1 GGCATGTGGGCCAACACA
8312401 GGCATGTGGG
1 GGCATGTGGG
8312411 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.20, C:0.24, G:0.42, T:0.13
Consensus pattern (18 bp):
GGCATGTGGGCCAACACA
Found at i:8315210 original size:15 final size:16
Alignment explanation
Indices: 8315190--8315228 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
8315180 TTTGGGGACC
8315190 ATAACCTT-AATATTT
1 ATAACCTTGAATATTT
*
8315205 ATAACCTTGGCATATTT
1 ATAACCTT-GAATATTT
8315222 ATAACCT
1 ATAACCT
8315229 CAATTACTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
17 13 0.62
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (16 bp):
ATAACCTTGAATATTT
Found at i:8321518 original size:26 final size:26
Alignment explanation
Indices: 8321481--8321565 Score: 143
Period size: 26 Copynumber: 3.3 Consensus size: 26
8321471 TGATAAAAAT
* * *
8321481 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8321507 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8321533 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
8321559 TGATAAT
1 TGATAAT
8321566 AATTTCATGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:8323078 original size:26 final size:26
Alignment explanation
Indices: 8323049--8323101 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8323039 TTTACAGTTT
*
8323049 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
8323075 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
8323101 T
1 T
8323102 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:8325985 original size:30 final size:30
Alignment explanation
Indices: 8325950--8326007 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
8325940 TAAACACTTC
8325950 CACACGGGT-GATCCACACGCTC-GTGTGTGA
1 CACACGGGTAGA-CCACACGC-CAGTGTGTGA
8325980 CACACGGGTAGACCACACGCCAGTGTGT
1 CACACGGGTAGACCACACGCCAGTGTGT
8326008 TATGGCCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 1 0.04
30 23 0.88
31 2 0.08
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.17
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCAGTGTGTGA
Found at i:8331297 original size:22 final size:22
Alignment explanation
Indices: 8331272--8331328 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
8331262 TTTCTTTTTG
*
8331272 TTTTCTTCTTATTTTGCTACCA
1 TTTTCTTATTATTTTGCTACCA
* *
8331294 TTTTAC-TATTATGTTGCTACTA
1 TTTT-CTTATTATTTTGCTACCA
* *
8331316 TTTTATTGTTATT
1 TTTTCTTATTATT
8331329 GTTTGGATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTTCTTATTATTTTGCTACCA
Found at i:8331393 original size:30 final size:30
Alignment explanation
Indices: 8331357--8331419 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
8331347 ACTTATTTTA
8331357 TTGTTAAATTTGTTATTATTTTAAAGGAAT
1 TTGTTAAATTTGTTATTATTTTAAAGGAAT
* *
8331387 TTGTTAAATTTGTTATTATTTTAGAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGAAT
8331417 TTG
1 TTG
8331420 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.54
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTTTAAAGGAAT
Found at i:8333681 original size:28 final size:28
Alignment explanation
Indices: 8333649--8333704 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
8333639 ACTTAAAATA
8333649 TGAAAGGGAATACTAATGAAAACCAAGT
1 TGAAAGGGAATACTAATGAAAACCAAGT
8333677 TGAAAGGGAATACTAATGAAAACCAAGT
1 TGAAAGGGAATACTAATGAAAACCAAGT
8333705 CAATTCAGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (28 bp):
TGAAAGGGAATACTAATGAAAACCAAGT
Found at i:8339209 original size:13 final size:13
Alignment explanation
Indices: 8339191--8339215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8339181 CGAAGACAGT
8339191 CACGGCCGTGTGA
1 CACGGCCGTGTGA
8339204 CACGGCCGTGTG
1 CACGGCCGTGTG
8339216 CACCCACACT
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:0.12, C:0.32, G:0.40, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTGA
Found at i:8342493 original size:3 final size:3
Alignment explanation
Indices: 8342485--8342525 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
8342475 CATTATTTAT
8342485 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
8342526 TAGTAGTAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:8342655 original size:47 final size:44
Alignment explanation
Indices: 8342603--8342774 Score: 139
Period size: 45 Copynumber: 3.9 Consensus size: 44
8342593 TTATTTCTAA
8342603 TATATATATATTATGTAAATATTTTAATATTATATTATATATATTT
1 TATATATATATTATGT--ATATTTTAATATTATATTATATATATTT
* *
8342649 T-CATATATGTTATGTATATTGTT--T-TTA-A-TAT-TATATTT
1 TATATATATATTATGTATATT-TTAATATTATATTATATATATTT
*
8342687 T-TATATATTATTATGTATATATTTTAATATTATTAGTTATATATCTTT
1 TATATATA-TATTATG--TATATTTTAATATTA-TA-TTATATATATTT
* *
8342735 TATAT-TAT-TGTATGTATATTTCTAATACTATATTGTATAT
1 TATATATATAT-TATGTATATTT-TAATATTATATTATATAT
8342775 TTCTAACACC
Statistics
Matches: 104, Mismatches: 7, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
38 13 0.12
39 9 0.09
40 3 0.03
41 9 0.09
42 2 0.02
43 8 0.08
44 9 0.09
45 22 0.21
46 9 0.09
47 8 0.08
48 9 0.09
49 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.58
Consensus pattern (44 bp):
TATATATATATTATGTATATTTTAATATTATATTATATATATTT
Found at i:8342666 original size:21 final size:21
Alignment explanation
Indices: 8342606--8342776 Score: 90
Period size: 21 Copynumber: 7.9 Consensus size: 21
8342596 TTTCTAATAT
8342606 ATATATATTATGTAAATATTTTA
1 ATATATATTATGT--ATATTTTA
* *
8342629 ATATTATATTATATATATTTTC
1 ATA-TATATTATGTATATTTTA
*
8342651 ATATATGTTATGTATATTGTT-
1 ATATATATTATGTATATT-TTA
* *
8342672 -T-T-TAATAT-TATATTTTT
1 ATATATATTATGTATATTTTA
8342689 ATATATTATTATGTATATATTTTA
1 ATATA-TATTATG--TATATTTTA
* *
8342713 ATAT-TATTAGTTATATATCTTTT
1 ATATATATTA--TGTATAT-TTTA
8342736 ATAT-TATTGTATGTATATTTCTA
1 ATATATA-T-TATGTATATTT-TA
8342759 ATACTATA-T-TGTATATTT
1 ATA-TATATTATGTATATTT
8342777 CTAACACCAT
Statistics
Matches: 118, Mismatches: 12, Indels: 38
0.70 0.07 0.23
Matches are distributed among these distances:
16 2 0.02
17 6 0.05
18 5 0.04
19 2 0.02
20 1 0.01
21 27 0.23
22 25 0.21
23 22 0.19
24 24 0.20
25 4 0.03
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
ATATATATTATGTATATTTTA
Found at i:8342896 original size:9 final size:9
Alignment explanation
Indices: 8342855--8342898 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
8342845 TCATTTCTAA
8342855 ATATATGTAT
1 ATATAT-TAT
8342865 ATAT-TGTAT
1 ATATAT-TAT
*
8342874 ATATTTTAT
1 ATATATTAT
8342883 ATATATTAT
1 ATATATTAT
8342892 ATATATT
1 ATATATT
8342899 TTAATGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 27 0.84
10 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (9 bp):
ATATATTAT
Found at i:8342909 original size:20 final size:20
Alignment explanation
Indices: 8342862--8342901 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8342852 TAAATATATG
*
8342862 TATATATTGTATATATTTTA
1 TATATATTATATATATTTTA
8342882 TATATATTATATATATTTTA
1 TATATATTATATATATTTTA
8342902 ATGTTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TATATATTATATATATTTTA
Found at i:8342991 original size:2 final size:2
Alignment explanation
Indices: 8342984--8343022 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8342974 AATACTATGT
8342984 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8343023 TTAATACCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8343287 original size:3 final size:3
Alignment explanation
Indices: 8343243--8343272 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
8343233 TACATACATC
8343243 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8343273 GTATATGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8343304 original size:21 final size:21
Alignment explanation
Indices: 8343261--8343320 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
8343251 ATTATTATTA
*
8343261 TTATTAT-TAT-TAGTATATGT
1 TTATTATATATGTA-TATATCT
8343281 TTATTATATATGTATATATCT
1 TTATTATATATGTATATATCT
8343302 TTAATATATATATGTATAT
1 TT-AT-TATATATGTATAT
8343321 GTTTATGCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 7 0.20
21 11 0.31
22 4 0.11
23 13 0.37
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATTATATATGTATATATCT
Found at i:8343325 original size:21 final size:21
Alignment explanation
Indices: 8343273--8343325 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
8343263 ATTATTATTA
* *
8343273 GTATATGTTTATTATATATGT
1 GTATATGTTTAATATATATAT
* *
8343294 ATATATCTTTAATATATATAT
1 GTATATGTTTAATATATATAT
8343315 GTATATGTTTA
1 GTATATGTTTA
8343326 TGCAGTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (21 bp):
GTATATGTTTAATATATATAT
Found at i:8343412 original size:25 final size:26
Alignment explanation
Indices: 8343371--8343466 Score: 78
Period size: 25 Copynumber: 3.9 Consensus size: 26
8343361 ATTATTTCTA
*
8343371 ATATGTATATATATA-TTTTAATAACT
1 ATAT-TATGTATATACTTTTAATAACT
* * *
8343397 ATATTATGTATGTATTTTTAA-CACT
1 ATATTATGTATATACTTTTAATAACT
* *
8343422 ATTTTATCTATATACTTTTAAT-A-T
1 ATATTATGTATATACTTTTAATAACT
*
8343446 -TATTATGTATTTA-TTTTAATA
1 ATATTATGTATATACTTTTAATA
8343467 TATATGTACA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
22 7 0.12
23 10 0.18
24 1 0.02
25 29 0.51
26 10 0.18
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.55
Consensus pattern (26 bp):
ATATTATGTATATACTTTTAATAACT
Found at i:8343480 original size:20 final size:22
Alignment explanation
Indices: 8343437--8343481 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
8343427 ATCTATATAC
**
8343437 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTATGTACATA
8343459 TTTTAATA-TA-TATGTACATA
1 TTTTAATATTATTATGTACATA
8343479 TTT
1 TTT
8343482 ATGTAGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 2 0.10
22 8 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTAATATTATTATGTACATA
Found at i:8343480 original size:24 final size:22
Alignment explanation
Indices: 8343437--8343499 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
8343427 ATCTATATAC
**
8343437 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
8343459 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
* *
8343483 -TGTAGTATTATTA-ATAT
1 TTTTAATATTATTACATAT
8343500 ATATATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 4 0.11
21 2 0.06
22 12 0.34
23 9 0.26
24 8 0.23
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:8343580 original size:17 final size:16
Alignment explanation
Indices: 8343560--8343591 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8343550 ATGTTCATTT
8343560 TATATATATTATGTATA
1 TATATATATTA-GTATA
8343577 TATATATATTAGTAT
1 TATATATATTAGTAT
8343592 TATTATGTAT
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:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
TATATATATTAGTATA
Found at i:8345440 original size:46 final size:44
Alignment explanation
Indices: 8345336--8345443 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
8345326 TGTCTTTGAC
** * * *
8345336 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
8345380 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
8345426 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
8345444 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:8352809 original size:46 final size:44
Alignment explanation
Indices: 8352705--8352812 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
8352695 TGTCTTTGAC
** * * *
8352705 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
8352749 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
8352795 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
8352813 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:8357384 original size:22 final size:22
Alignment explanation
Indices: 8357359--8357403 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
8357349 ATTCATGACT
8357359 AACATTCATTCGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
*
8357381 AACATTCATTTGTCATTTATTC
1 AACATTCATTCGTCATTTATTC
8357403 A
1 A
8357404 TTGAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.47
Consensus pattern (22 bp):
AACATTCATTCGTCATTTATTC
Found at i:8357415 original size:34 final size:34
Alignment explanation
Indices: 8357375--8357439 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
8357365 CATTCGTCAT
8357375 TTATTCAACATTCATTTGTCATTTATTCATTGAA
1 TTATTCAACATTCATTTGTCATTTATTCATTGAA
8357409 TTATTCAACATTCATTTGTCATTTATTCATT
1 TTATTCAACATTCATTTGTCATTTATTCATT
8357440 CATTCATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.52
Consensus pattern (34 bp):
TTATTCAACATTCATTTGTCATTTATTCATTGAA
Found at i:8357449 original size:34 final size:33
Alignment explanation
Indices: 8357375--8357449 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 33
8357365 CATTCGTCAT
*
8357375 TTATTCAACATTCATTTGTCATTTATTCATTGAA
1 TTATTCAACATTCATTTGTCATTTATTCATT-CA
8357409 TTATTCAACATTCATTTGTCATTTATTCATTCA
1 TTATTCAACATTCATTTGTCATTTATTCATTCA
8357442 TTCATTCA
1 TT-ATTCA
8357450 TTGCATGTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 3 0.08
34 36 0.92
ACGTcount: A:0.28, C:0.17, G:0.04, T:0.51
Consensus pattern (33 bp):
TTATTCAACATTCATTTGTCATTTATTCATTCA
Found at i:8364921 original size:40 final size:40
Alignment explanation
Indices: 8364871--8364956 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
8364861 GAAATATTAT
* * *
8364871 TCTTGAAAAAAAGAAAATTAAGATGAAAACCCGAAAAGGGCA
1 TCTT-AAAAAAA-AAGATCAAGATGAAAAACCGAAAAGGGCA
* * *
8364913 TCTTAAAAAAAAAGATCAAGGTGAAAAATCGAAAAGGGCG
1 TCTTAAAAAAAAAGATCAAGATGAAAAACCGAAAAGGGCA
8364953 TCTT
1 TCTT
8364957 GATTAACACA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 27 0.71
41 7 0.18
42 4 0.11
ACGTcount: A:0.51, C:0.12, G:0.20, T:0.17
Consensus pattern (40 bp):
TCTTAAAAAAAAAGATCAAGATGAAAAACCGAAAAGGGCA
Found at i:8365999 original size:94 final size:88
Alignment explanation
Indices: 8365859--8366256 Score: 364
Period size: 88 Copynumber: 4.5 Consensus size: 88
8365849 TCTGATTGTC
* * *
8365859 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTGTATTTTTAA-T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-G-GTATTTTCAATT
*
8365923 TCTG-CTTTTCAATTTCTGCTTTTTAAAAAA
64 TCTGTCTTTTCAATTTATG-TTTTT-----A
*
8365953 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
8366018 TGTTTTTTCAATTTATGTTTTTC
66 TGTCTTTTCAATTTATGTTTTTA
* * * * **
8366041 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCACATGTTGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
* * * *
8366106 TCTAT-TTTTCAAATTCTG--TTTC
64 TCTGTCTTTTCAATTTATGTTTTTA
* * *
8366128 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTTCAAT
* * *
8366192 TTCTAT-TTTT-AATGTCTGTTTTTA
63 TTCTGTCTTTTCAATTTATGTTTTTA
* * * **
8366216 AAGAGTCAACTCATATTACGAGAAATGAGTTGAG-CTCAGGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
8366257 TTACATGCCG
Statistics
Matches: 260, Mismatches: 35, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
85 3 0.01
86 8 0.03
87 65 0.25
88 72 0.28
89 11 0.04
90 22 0.08
92 9 0.03
93 11 0.04
94 59 0.23
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTCTTTTCAATTTATGTTTTTA
Found at i:8366042 original size:14 final size:15
Alignment explanation
Indices: 8366007--8366039 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8365997 CGCTGAGGTA
*
8366007 TTTTCAATTTCTGTT
1 TTTTCAATTTATGTT
8366022 TTTTCAATTTATGTT
1 TTTTCAATTTATGTT
8366037 TTT
1 TTT
8366040 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.09, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATGTT
Found at i:8366154 original size:87 final size:88
Alignment explanation
Indices: 8365857--8366250 Score: 374
Period size: 87 Copynumber: 4.4 Consensus size: 88
8365847 TATCTGATTG
*
8365857 TCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGG-CAC--GCTGAGGTGTATTTT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGTCACATGCTGA-G-GTATTTT
* ** *
8365919 TAA-TTCTGCTTTTCAATTTCTGCTTTT
63 CAATTTCTATTTTTCAAATTCTG--TTT
* * * *
8365946 TAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGG--ACACGCTGAGGTATT
1 T-----CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATT
* * *
8366009 TTCAATTTCTGTTTTTTCAATTTATGTTTT
61 TTCAATTTCT-ATTTTTCAAATTCTG-TTT
* *
8366039 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCACATGTTGAGGTATTTTCAA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAA
**
8366104 AATCTATTTTTCAAATTCTG-TT
66 TTTCTATTTTTCAAATTCTGTTT
* * * *
8366126 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAA
8366191 TTTCTATTTTT--AATGTCTGTTT
66 TTTCTATTTTTCAAAT-TCTGTTT
* * * **
8366213 TTAAAGAGTCAACTCATATTACGAGAAATGAGTTGAGC
1 TCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
8366251 TCAGGATTAC
Statistics
Matches: 259, Mismatches: 32, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
85 3 0.01
86 4 0.02
87 76 0.29
88 66 0.25
89 13 0.05
90 21 0.08
92 11 0.04
93 12 0.05
94 53 0.20
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (88 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTCAA
TTTCTATTTTTCAAATTCTGTTT
Found at i:8367364 original size:15 final size:14
Alignment explanation
Indices: 8367344--8367378 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
8367334 ATACATATAT
8367344 TAAAAATATAAAAAA
1 TAAAAATA-AAAAAA
8367359 TAAAAATAAAAAAA
1 TAAAAATAAAAAAA
*
8367373 CAAAAA
1 TAAAAA
8367379 AATACACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Found at i:8368106 original size:3 final size:3
Alignment explanation
Indices: 8368021--8368094 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
8368011 CATCATCATC
8368021 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8368069 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
8368095 ATGTTTTATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8368191 original size:24 final size:24
Alignment explanation
Indices: 8368162--8368242 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 24
8368152 CTAATATGTA
8368162 TATATTATGTAAATATTTTAATAT
1 TATATTATGTAAATATTTTAATAT
* * *
8368186 TATATTATATATATATTTTTCATA-
1 TATATTATGTAAATA-TTTTAATAT
* *
8368210 TATGTTATGTATATATGTTTTTAATAT
1 TATATTATGTA-A-AT-ATTTTAATAT
8368237 TATATT
1 TATATT
8368243 TTTATATATT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
24 22 0.51
25 7 0.16
26 9 0.21
27 5 0.12
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (24 bp):
TATATTATGTAAATATTTTAATAT
Found at i:8368248 original size:24 final size:24
Alignment explanation
Indices: 8368147--8368252 Score: 88
Period size: 26 Copynumber: 4.2 Consensus size: 24
8368137 AGTCGTTTTT
* *
8368147 TATTTCTAATATGTATATATTATGTA
1 TATTTTTAATAT-TATAT-TTATATA
*
8368173 AATATTTTAATATTATATTATATATA
1 TAT-TTTTAATATTATATT-TATATA
*
8368199 TATTTTTCATATATGT-TATGTATATA
1 TATTTTT-A-ATAT-TATATTTATATA
* *
8368225 TGTTTTTAATATTATATTTTTATA
1 TATTTTTAATATTATATTTATATA
8368249 TATT
1 TATT
8368253 ATTATGTATA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
23 1 0.02
24 15 0.23
25 6 0.09
26 27 0.42
27 15 0.23
28 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (24 bp):
TATTTTTAATATTATATTTATATA
Found at i:8368277 original size:11 final size:13
Alignment explanation
Indices: 8368155--8368287 Score: 68
Period size: 13 Copynumber: 10.5 Consensus size: 13
8368145 TTTATTTCTA
* *
8368155 ATATGTATATATT
1 ATATATATATTTT
* *
8368168 ATGTAAATATTTT
1 ATATATATATTTT
*
8368181 A-ATAT-TATATT
1 ATATATATATTTT
8368192 ATATATATATTTT
1 ATATATATATTTT
*
8368205 -TCATATATGTTATGT
1 AT-ATATATATT-T-T
*
8368220 ATATATGT-TTTT
1 ATATATATATTTT
8368232 A-ATATTATATTTT
1 ATATA-TATATTTT
*
8368245 -TATATAT-TATT
1 ATATATATATTTT
*
8368256 ATGTATATATTTT
1 ATATATATATTTT
8368269 A-ATAT-TATTAGTT
1 ATATATATATT--TT
8368282 ATATAT
1 ATATAT
8368288 CTTTTATACT
Statistics
Matches: 91, Mismatches: 15, Indels: 27
0.68 0.11 0.20
Matches are distributed among these distances:
11 16 0.18
12 23 0.25
13 38 0.42
14 7 0.08
15 6 0.07
16 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (13 bp):
ATATATATATTTT
Found at i:8368278 original size:40 final size:40
Alignment explanation
Indices: 8368192--8368278 Score: 106
Period size: 40 Copynumber: 2.1 Consensus size: 40
8368182 ATATTATATT
* *
8368192 ATATATATATTTTTCATATATGTTATGTATATATGTTTTTA
1 ATAT-TATATTTTTCATATATATTATGTATATATGTTTATA
8368233 ATATTATATTTTT-ATATATTATTATGTATATAT-TTTAATA
1 ATATTATATTTTTCATATA-TATTATGTATATATGTTT-ATA
*
8368273 TTATTA
1 ATATTA
8368279 GTTATATATC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
39 8 0.20
40 29 0.71
41 4 0.10
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (40 bp):
ATATTATATTTTTCATATATATTATGTATATATGTTTATA
Found at i:8368300 original size:26 final size:24
Alignment explanation
Indices: 8368237--8368310 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 24
8368227 TTTTTAATAT
8368237 TATATTTTTATATATTATTATGTA
1 TATATTTTTATATATTATTATGTA
8368261 TATA-TTTTA-ATATTATTA-GTTA
1 TATATTTTTATATATTATTATG-TA
*
8368283 TATATCTTTTATACTATT-GTATGTA
1 TATAT-TTTTATA-TATTATTATGTA
8368308 TAT
1 TAT
8368311 TTCTAATACT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
21 1 0.02
22 15 0.35
23 5 0.12
24 9 0.21
25 8 0.19
26 5 0.12
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (24 bp):
TATATTTTTATATATTATTATGTA
Found at i:8368319 original size:23 final size:21
Alignment explanation
Indices: 8368233--8368337 Score: 67
Period size: 23 Copynumber: 4.8 Consensus size: 21
8368223 TATGTTTTTA
*
8368233 ATATTATAT-TTT-TATATATT
1 ATATTATATATTTCTA-ATACT
*
8368253 ATTATGTATATATTT-TAATATT
1 A-TAT-TATATATTTCTAATACT
*
8368275 ATTAGTTATATATCTT-TTATACT
1 A-TA-TTATATAT-TTCTAATACT
8368298 AT-TGTATGTATATTTCTAATACT
1 ATAT-TA--TATATTTCTAATACT
8368321 ATATTATATATTTCTAA
1 ATATTATATATTTCTAA
8368338 CACCATTATT
Statistics
Matches: 72, Mismatches: 3, Indels: 19
0.77 0.03 0.20
Matches are distributed among these distances:
20 2 0.03
21 16 0.22
22 24 0.33
23 29 0.40
24 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (21 bp):
ATATTATATATTTCTAATACT
Found at i:8368422 original size:9 final size:9
Alignment explanation
Indices: 8368403--8368444 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
8368393 TCATTTCTAA
8368403 ATATA-TGT
1 ATATATTGT
8368411 ATATATTGT
1 ATATATTGT
*
8368420 ATATATTTT
1 ATATATTGT
8368429 ATATATAT-T
1 ATATAT-TGT
8368438 ATATATT
1 ATATATT
8368445 TTTAATGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 6 0.19
9 24 0.77
10 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (9 bp):
ATATATTGT
Found at i:8368433 original size:18 final size:18
Alignment explanation
Indices: 8368410--8368446 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8368400 TAAATATATG
8368410 TATATAT-TGTATATATTT
1 TATATATAT-TATATATTT
8368428 TATATATATTATATATTT
1 TATATATATTATATATTT
8368446 T
1 T
8368447 TAATGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATATATATTATATATTT
Found at i:8368538 original size:2 final size:2
Alignment explanation
Indices: 8368531--8368557 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8368521 AATACTATGT
8368531 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8368558 TTTTAATACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8368788 original size:3 final size:3
Alignment explanation
Indices: 8368780--8368855 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
8368770 TACATACATC
8368780 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8368828 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8368856 ATGTATATGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8368967 original size:23 final size:21
Alignment explanation
Indices: 8368920--8369030 Score: 71
Period size: 23 Copynumber: 4.9 Consensus size: 21
8368910 TCTAATATGT
* *
8368920 ATATATATATATATATATTAATA
1 ATATAT-TATGTATATATT-TTA
*
8368943 ACTATATTATGTATGTATTTTTA
1 A-TATATTATGTATATA-TTTTA
* *
8368966 ACACTGTTTTATGTATATACTTTTA
1 ATA-T-AT-TATGTATATA-TTTTA
*
8368991 ATATTATTATGTATTTATTTTA
1 ATA-TATTATGTATATATTTTA
*
8369013 ATATA-TATGTACATATTT
1 ATATATTATGTATATATTT
8369031 ATGTAGTATT
Statistics
Matches: 70, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
20 11 0.16
21 2 0.03
22 9 0.13
23 22 0.31
24 9 0.13
25 17 0.24
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (21 bp):
ATATATTATGTATATATTTTA
Found at i:8369029 original size:20 final size:22
Alignment explanation
Indices: 8368947--8369057 Score: 73
Period size: 25 Copynumber: 4.8 Consensus size: 22
8368937 TTAATAACTA
* *
8368947 TATTATGTATGTATTTTTAACACT
1 TATTATGTATATA-TTTTAATA-T
*
8368971 GTTTTATGTATATACTTTTAATAT
1 -TATTATGTATATA-TTTTAATAT
*
8368995 TATTATGTATTTATTTTAATA-
1 TATTATGTATATATTTTAATAT
* *
8369016 TA-TATGTACATATTTATGTAGTAT
1 TATTATGTATATA-TT-T-TAATAT
*
8369040 TATTAATATATATATTTT
1 TATT-ATGTATATATTTT
8369058 TTTATGTTAT
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
20 8 0.12
21 4 0.06
22 9 0.13
23 16 0.23
24 4 0.06
25 21 0.30
26 7 0.10
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (22 bp):
TATTATGTATATATTTTAATAT
Found at i:8369029 original size:24 final size:22
Alignment explanation
Indices: 8368986--8369057 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
8368976 ATGTATATAC
**
8368986 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
8369008 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
* *
8369032 -TGTAGTATTATTA-ATATATATA
1 TTTTAATATTATTACATAT-T-TA
8369054 TTTT
1 TTTT
8369058 TTTATGTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.10
21 3 0.08
22 14 0.35
23 11 0.28
24 8 0.20
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:8369134 original size:17 final size:17
Alignment explanation
Indices: 8369101--8369144 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
8369091 TATGTTCATT
8369101 TTATATATA-TTATGTA
1 TTATATATATTTATGTA
8369117 TATATATATATTTA-GTA
1 T-TATATATATTTATGTA
8369134 TTATTATATAT
1 TTA-TATATAT
8369145 ACACTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 19 0.76
18 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTATATATATTTATGTA
Found at i:8369141 original size:15 final size:19
Alignment explanation
Indices: 8369102--8369144 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
8369092 ATGTTCATTT
8369102 TATATATATTATGTATATA
1 TATATATATTATGTATATA
8369121 TATATAT-TTA-GTAT-TA
1 TATATATATTATGTATATA
8369137 T-TATATAT
1 TATATATAT
8369145 ACACTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 4 0.17
18 3 0.13
19 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TATATATATTATGTATATA
Found at i:8374034 original size:5 final size:5
Alignment explanation
Indices: 8374024--8374050 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
8374014 GACACAACAT
8374024 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
8374051 ACATTCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:8377545 original size:28 final size:28
Alignment explanation
Indices: 8377505--8377614 Score: 143
Period size: 28 Copynumber: 3.9 Consensus size: 28
8377495 GCAGTTAGAC
*
8377505 TGTCCCCCACTTT-AGCTTGTACTTGTAT
1 TGTCCACCACTTTGA-CTTGTACTTGTAT
8377533 TGTCCACCACTTTGACTTGTACTTGTAT
1 TGTCCACCACTTTGACTTGTACTTGTAT
*
8377561 TGTCCACCACTTTGACTTGTACTTTGGAT
1 TGTCCACCACTTTGACTTGTAC-TTGTAT
* *
8377590 TGTCCGCCA-TTTTAGCTTGTACTTG
1 TGTCCACCACTTTGA-CTTGTACTTG
8377615 GACACTTTAG
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
28 54 0.72
29 21 0.28
ACGTcount: A:0.15, C:0.25, G:0.16, T:0.43
Consensus pattern (28 bp):
TGTCCACCACTTTGACTTGTACTTGTAT
Found at i:8385377 original size:3 final size:3
Alignment explanation
Indices: 8385365--8385639 Score: 115
Period size: 3 Copynumber: 93.0 Consensus size: 3
8385355 GTTACTTTGC
* * *
8385365 TAT T-T TAT TAT TAA AAT TGAT TAAT T-T TAT T-T TAT TGT TAAT T-T
1 TAT TAT TAT TAT TAT TAT T-AT T-AT TAT TAT TAT TAT TAT T-AT TAT
* * *
8385409 TAT TAT TAT TAC TAT TAT TAT TAT TACT T-T TAT TCT T-T TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * * * * * *
8385453 CAT TAT TGT TAC TGT T-T CTCT TGT TGT TTT TAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
8385498 TAT TGT TAG TAT TAT TAT CAT TCCT TAG T-T TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
8385543 T-T TAT TAT TAT TTT CTAC TAT TGT TAT TAT TAA TA- TAC TAT TAC
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
8385587 TAT TCT TAT TAA TA- TAT TAT TAT TAT TAT TAT TTT CTAC T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
8385631 TAT TAT TAT
1 TAT TAT TAT
8385640 ATCATTACCA
Statistics
Matches: 200, Mismatches: 53, Indels: 38
0.69 0.18 0.13
Matches are distributed among these distances:
2 21 0.10
3 164 0.82
4 15 0.08
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:8385407 original size:17 final size:19
Alignment explanation
Indices: 8385366--8385418 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 19
8385356 TTACTTTGCT
8385366 ATTTTATTATTAAAATTGATTA
1 ATTTTATTATT---ATTGATTA
8385388 ATTTTATT-TTATTG-TTA
1 ATTTTATTATTATTGATTA
8385405 ATTTTATTATTATT
1 ATTTTATTATTATT
8385419 ACTATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.37
18 9 0.30
21 2 0.07
22 8 0.27
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTATTATTATTGATTA
Found at i:8385599 original size:23 final size:23
Alignment explanation
Indices: 8385566--8385619 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
8385556 TCTACTATTG
8385566 TTATTATTAATATACTATTACTA
1 TTATTATTAATATACTATTACTA
* * *
8385589 TTCTTATTAATATATTATTATTA
1 TTATTATTAATATACTATTACTA
8385612 TTATTATT
1 TTATTATT
8385620 TTCTACTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (23 bp):
TTATTATTAATATACTATTACTA
Found at i:8385738 original size:3 final size:3
Alignment explanation
Indices: 8385730--8385767 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
8385720 ATTTATTTAC
*
8385730 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8385768 ATTTTTGAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:8389217 original size:24 final size:21
Alignment explanation
Indices: 8389189--8389277 Score: 81
Period size: 21 Copynumber: 4.1 Consensus size: 21
8389179 ACAAAAAAGA
*
8389189 TTTGTCTAAGTCACTTCATTTCTT
1 TTTGTCCAAGTCACTTC---TCTT
*
8389213 TTTGTCCAAGTTACTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
**
8389234 TTTGTCCAAGTTGCTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
* * *
8389255 TTTGTCTAACTCGCTTC-CTT
1 TTTGTCCAAGTCACTTCTCTT
8389275 TTT
1 TTT
8389278 TCTTAGAGTT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
20 6 0.10
21 38 0.64
24 15 0.25
ACGTcount: A:0.12, C:0.24, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTGTCCAAGTCACTTCTCTT
Found at i:8389235 original size:21 final size:21
Alignment explanation
Indices: 8389209--8389260 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
8389199 TCACTTCATT
8389209 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
8389230 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
8389251 TCTTTTTGTC
1 TCTTTTTGTC
8389261 TAACTCGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.23, G:0.12, T:0.56
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:8391900 original size:34 final size:35
Alignment explanation
Indices: 8391862--8391943 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 35
8391852 GAGCATGTTT
** * *
8391862 TTTGCTACTGAATCAATTTGTTATTAGCATAAT-A
1 TTTGCTACTGAATCAAACTATTATAAGCATAATGA
* *
8391896 TTTGCCATTGAATCAAACTATTATAAGCATAATGA
1 TTTGCTACTGAATCAAACTATTATAAGCATAATGA
8391931 -TTGCTACTAGAAT
1 TTTGCTACT-GAAT
8391944 TTTTTGTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
34 33 0.87
35 5 0.13
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.39
Consensus pattern (35 bp):
TTTGCTACTGAATCAAACTATTATAAGCATAATGA
Found at i:8392268 original size:21 final size:21
Alignment explanation
Indices: 8392211--8392271 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
8392201 CACCCTTTTT
*
8392211 ATTACCAGTGGTTTATCCAC-
1 ATTACAAGTGGTTTATCCACA
* * **
8392231 A--ACGATTGGTTCGTCCACA
1 ATTACAAGTGGTTTATCCACA
8392250 ATTACAAGTGGTTTATCCACA
1 ATTACAAGTGGTTTATCCACA
8392271 A
1 A
8392272 CGTTGTGTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
18 13 0.43
19 1 0.03
20 1 0.03
21 15 0.50
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (21 bp):
ATTACAAGTGGTTTATCCACA
Found at i:8393524 original size:33 final size:34
Alignment explanation
Indices: 8393472--8393535 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
8393462 TTCAGTCAAA
8393472 ATTTTATAATATTATAAATAA-TATATATTTTATT
1 ATTTTATAATATTATAAATAATTATA-ATTTTATT
8393506 ATTTTA-AATAATT-TAAATAATTATAATTTT
1 ATTTTATAAT-ATTATAAATAATTATAATTTT
8393536 TTACACGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (34 bp):
ATTTTATAATATTATAAATAATTATAATTTTATT
Found at i:8400544 original size:30 final size:30
Alignment explanation
Indices: 8400504--8400563 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
8400494 CATATATAAG
8400504 AAAACCCTACTTTAGCTTCATTTCCATGCT
1 AAAACCCTACTTTAGCTTCATTTCCATGCT
* *
8400534 AAAACTCTACTTTAGCTTCATTTCCGTGCT
1 AAAACCCTACTTTAGCTTCATTTCCATGCT
8400564 TTTTCAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.38
Consensus pattern (30 bp):
AAAACCCTACTTTAGCTTCATTTCCATGCT
Found at i:8404469 original size:29 final size:29
Alignment explanation
Indices: 8404437--8404507 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
8404427 TAAAAAAATT
* *
8404437 AAAATTGATATAAACTTATTAGA-ATTATAA
1 AAAATT-ATAAAAACTTA-TAAATATTATAA
*
8404467 AAAAATATAAAAACTTATAAATATTATAA
1 AAAATTATAAAAACTTATAAATATTATAA
*
8404496 AAATATAATAAA
1 AAA-ATTATAAA
8404508 TCCAAATAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
28 3 0.09
29 20 0.59
30 11 0.32
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAATTATAAAAACTTATAAATATTATAA
Found at i:8405181 original size:21 final size:22
Alignment explanation
Indices: 8405155--8405206 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
8405145 CATTTTAATC
*
8405155 ATTTTAAATA-ATTTTTATAGA
1 ATTTTAAATACATTTTTATAAA
8405176 ATTTT-AATACATTTTTATAAA
1 ATTTTAAATACATTTTTATAAA
*
8405197 ATCTTAAATA
1 ATTTTAAATA
8405207 TTCTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 4 0.15
21 19 0.70
22 4 0.15
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTTTAAATACATTTTTATAAA
Found at i:8405189 original size:10 final size:10
Alignment explanation
Indices: 8405113--8405190 Score: 53
Period size: 9 Copynumber: 8.3 Consensus size: 10
8405103 AGTACATTAA
8405113 TTTAATAC-T
1 TTTAATACAT
8405122 TTTAATAC-T
1 TTTAATACAT
**
8405131 TTT--TATTT
1 TTTAATACAT
8405139 TTTAAT-CAT
1 TTTAATACAT
8405148 TTTAAT-CAT
1 TTTAATACAT
8405157 TTTAAATA-AT
1 TTT-AATACAT
* *
8405167 TTTTATAGAAT
1 TTTAATA-CAT
8405178 TTTAATACAT
1 TTTAATACAT
8405188 TTT
1 TTT
8405191 TATAAAATCT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
7 2 0.04
8 4 0.07
9 28 0.50
10 14 0.25
11 8 0.14
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (10 bp):
TTTAATACAT
Found at i:8405281 original size:9 final size:10
Alignment explanation
Indices: 8405267--8405377 Score: 52
Period size: 10 Copynumber: 11.3 Consensus size: 10
8405257 TTATTAGAAT
8405267 TTTTTTAT-A
1 TTTTTTATCA
*
8405276 TTTTTTATAA
1 TTTTTTATCA
* *
8405286 GTTTATATCA
1 TTTTTTATCA
* *
8405296 ATTTTCAT-A
1 TTTTTTATCA
*
8405305 TTTTTTTTTCA
1 -TTTTTTATCA
8405316 TATTTTTAT-A
1 T-TTTTTATCA
* *
8405326 ATTTTTATGA
1 TTTTTTATCA
*
8405336 TTTTTTTATGA
1 -TTTTTTATCA
8405347 -TTTTTAT-A
1 TTTTTTATCA
* *
8405355 ATTTTTATGA
1 TTTTTTATCA
*
8405365 TTTTTAATCA
1 TTTTTTATCA
8405375 TTT
1 TTT
8405378 ATGAGAAAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
8 1 0.01
9 30 0.38
10 32 0.41
11 16 0.20
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (10 bp):
TTTTTTATCA
Found at i:8405308 original size:70 final size:70
Alignment explanation
Indices: 8405225--8405355 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 70
8405215 ATGCTTTATT
8405225 AATTTTATAATTTTTTTGTCAT-TTATTAGAATTTATTA-GAATTTTTTTAT-ATTTTTTATAAG
1 AATTTTATAATTTTTTTGTCATATTATTAGAATTT-TTATG-ATTTTTTTATGA-TTTTTATAAG
8405287 TTTATATC
63 TTTATATC
* * *
8405295 AATTTTCAT-ATTTTTTTTTCATATTTTTATAATTTTTATGATTTTTTTATGATTTTTATAA
1 AATTTT-ATAATTTTTTTGTCATATTATTAGAATTTTTATGATTTTTTTATGATTTTTATAA
8405356 TTTTTATGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
70 40 0.74
71 14 0.26
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (70 bp):
AATTTTATAATTTTTTTGTCATATTATTAGAATTTTTATGATTTTTTTATGATTTTTATAAGTTT
ATATC
Found at i:8405313 original size:33 final size:31
Alignment explanation
Indices: 8405287--8405369 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 31
8405277 TTTTTATAAG
8405287 TTTATATCAATTTTCAT-ATTTTTTTTTCATA
1 TTTATAT-AATTTTCATGATTTTTTTTTCATA
* * * *
8405318 TTTTTATAATTTTTATGATTTTTTTATGAT-
1 TTTATATAATTTTCATGATTTTTTTTTCATA
*
8405348 TTT-TATAATTTTTATGATTTTT
1 TTTATATAATTTTCATGATTTTT
8405370 AATCATTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
29 19 0.40
30 11 0.23
31 17 0.36
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (31 bp):
TTTATATAATTTTCATGATTTTTTTTTCATA
Found at i:8405315 original size:13 final size:13
Alignment explanation
Indices: 8405297--8405322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8405287 TTTATATCAA
8405297 TTTTCATATTTTT
1 TTTTCATATTTTT
8405310 TTTTCATATTTTT
1 TTTTCATATTTTT
8405323 ATAATTTTTA
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:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCATATTTTT
Found at i:8405338 original size:18 final size:20
Alignment explanation
Indices: 8405315--8405370 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
8405305 TTTTTTTTTC
*
8405315 ATATTTTTATAATTTTTATG
1 ATATTTTTATGATTTTTATG
*
8405335 ATTTTTTTATGATTTTTAT-
1 ATATTTTTATGATTTTTATG
8405354 A-ATTTTTATGATTTTTA
1 ATATTTTTATGATTTTTA
8405371 ATCATTTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 15 0.45
19 1 0.03
20 17 0.52
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
ATATTTTTATGATTTTTATG
Found at i:8405339 original size:8 final size:9
Alignment explanation
Indices: 8405317--8405370 Score: 72
Period size: 9 Copynumber: 5.8 Consensus size: 9
8405307 TTTTTTTCAT
*
8405317 ATTTTTATA
1 ATTTTTATG
8405326 ATTTTTATG
1 ATTTTTATG
8405335 ATTTTTTTATG
1 A--TTTTTATG
*
8405346 ATTTTTATA
1 ATTTTTATG
8405355 ATTTTTATG
1 ATTTTTATG
8405364 ATTTTTA
1 ATTTTTA
8405371 ATCATTTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
9 31 0.77
11 9 0.22
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (9 bp):
ATTTTTATG
Found at i:8405341 original size:11 final size:11
Alignment explanation
Indices: 8405327--8405351 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8405317 ATTTTTATAA
8405327 TTTTTATGATT
1 TTTTTATGATT
8405338 TTTTTATGATT
1 TTTTTATGATT
8405349 TTT
1 TTT
8405352 ATAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTATGATT
Found at i:8405349 original size:29 final size:29
Alignment explanation
Indices: 8405307--8405369 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
8405297 TTTTCATATT
8405307 TTTTTTTCATATTTTTATAATTTTTATGA
1 TTTTTTTCATATTTTTATAATTTTTATGA
8405336 TTTTTTT-ATGATTTTTATAATTTTTATGA
1 TTTTTTTCAT-ATTTTTATAATTTTTATGA
8405365 TTTTT
1 TTTTT
8405370 AATCATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 2 0.06
29 31 0.94
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (29 bp):
TTTTTTTCATATTTTTATAATTTTTATGA
Found at i:8405377 original size:10 final size:9
Alignment explanation
Indices: 8405268--8405370 Score: 71
Period size: 9 Copynumber: 10.7 Consensus size: 9
8405258 TATTAGAATT
*
8405268 TTTTTATAT
1 TTTTTATAA
8405277 TTTTTATAA
1 TTTTTATAA
*
8405286 GTTTATATCAA
1 -TTTTTAT-AA
* *
8405297 TTTTCATATT
1 TTTTTATA-A
*
8405307 TTTTTTTCATA
1 TTTTTAT-A-A
8405318 TTTTTATAA
1 TTTTTATAA
*
8405327 TTTTTATGATT
1 TTTTTAT-A-A
*
8405338 TTTTTATGA
1 TTTTTATAA
8405347 TTTTTATAA
1 TTTTTATAA
*
8405356 TTTTTATGA
1 TTTTTATAA
8405365 TTTTTA
1 TTTTTA
8405371 ATCATTTATG
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
9 39 0.53
10 18 0.24
11 17 0.23
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.68
Consensus pattern (9 bp):
TTTTTATAA
Found at i:8405554 original size:29 final size:29
Alignment explanation
Indices: 8405514--8405583 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
8405504 TTAATTAATG
* *
8405514 ACAGGG-CTTAATAGGGTACGGATTTTAT
1 ACAGGGACTTAATAGAGTACGAATTTTAT
*
8405542 ACAGGGACTTAATAGAGTTCGAATTTTAT
1 ACAGGGACTTAATAGAGTACGAATTTTAT
* *
8405571 ACAAGAACTTAAT
1 ACAGGGACTTAAT
8405584 TGATTTGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (29 bp):
ACAGGGACTTAATAGAGTACGAATTTTAT
Found at i:8409028 original size:20 final size:20
Alignment explanation
Indices: 8408998--8409042 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
8408988 CTGTTTTATT
8408998 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
8409017 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
8409037 ATGGGC
1 ATGGGC
8409043 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:8409183 original size:27 final size:28
Alignment explanation
Indices: 8409131--8409183 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
8409121 TTACTGTAAG
* *
8409131 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
8409159 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
8409184 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:8414485 original size:20 final size:20
Alignment explanation
Indices: 8414455--8414499 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
8414445 CTGTTTTATT
8414455 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
8414474 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
8414494 ATGGGC
1 ATGGGC
8414500 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:8414640 original size:27 final size:28
Alignment explanation
Indices: 8414588--8414640 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
8414578 TTACTGTAAG
* *
8414588 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
8414616 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
8414641 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:8433593 original size:30 final size:30
Alignment explanation
Indices: 8433558--8433625 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
8433548 TAGGCACTTC
*
8433558 CACACGGGTGATCCACAAGCCAGTGTATGA
1 CACACGGGTAATCCACAAGCCAGTGTATGA
* * * *
8433588 CACACGAGTAATCCACATGCCCGTGTGTGA
1 CACACGGGTAATCCACAAGCCAGTGTATGA
8433618 CACACGGG
1 CACACGGG
8433626 CAGACCACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.16
Consensus pattern (30 bp):
CACACGGGTAATCCACAAGCCAGTGTATGA
Found at i:8434353 original size:7 final size:7
Alignment explanation
Indices: 8434341--8434424 Score: 50
Period size: 7 Copynumber: 11.6 Consensus size: 7
8434331 GATATAAAAA
8434341 TATATAT
1 TATATAT
8434348 TATATAT
1 TATATAT
8434355 TATATTAACT
1 TATA-T-A-T
8434365 TA-ATAT
1 TATATAT
8434371 T-TAAGTAT
1 TAT-A-TAT
8434379 TAATATAT
1 T-ATATAT
*
8434387 AATATA-
1 TATATAT
8434393 T-TATAT
1 TATATAT
8434399 TATTATAT
1 TA-TATAT
8434407 TATATAT
1 TATATAT
* *
8434414 AATATAA
1 TATATAT
8434421 TATA
1 TATA
8434425 GAAAACATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
5 4 0.07
6 3 0.05
7 31 0.51
8 16 0.26
9 3 0.05
10 4 0.07
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (7 bp):
TATATAT
Found at i:8435636 original size:22 final size:22
Alignment explanation
Indices: 8435607--8435663 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
8435597 TAGCACGTTA
8435607 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
8435630 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
8435651 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
8435664 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Found at i:8438804 original size:13 final size:13
Alignment explanation
Indices: 8438786--8438811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8438776 GGGTCGTCAC
8438786 ATTCTTATGTTAA
1 ATTCTTATGTTAA
8438799 ATTCTTATGTTAA
1 ATTCTTATGTTAA
8438812 TACAAAATTA
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:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
ATTCTTATGTTAA
Found at i:8443154 original size:2 final size:2
Alignment explanation
Indices: 8443147--8443187 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8443137 TTGCATTTAT
8443147 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8443188 GGTAAGTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8446511 original size:26 final size:26
Alignment explanation
Indices: 8446473--8446582 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
8446463 CATGTAATTC
8446473 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
8446499 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
8446525 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
8446551 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
8446577 TTATCA
1 TTATCA
8446583 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8446551 original size:52 final size:52
Alignment explanation
Indices: 8446473--8446582 Score: 220
Period size: 52 Copynumber: 2.1 Consensus size: 52
8446463 CATGTAATTC
8446473 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
8446525 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
8446577 TTATCA
1 TTATCA
8446583 ATTTGTATCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
Found at i:8448100 original size:16 final size:16
Alignment explanation
Indices: 8448079--8448109 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8448069 ACCTGTGTTA
8448079 TTGTGTGAACTCATGC
1 TTGTGTGAACTCATGC
8448095 TTGTGTGAACTCATG
1 TTGTGTGAACTCATG
8448110 TTTTACGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (16 bp):
TTGTGTGAACTCATGC
Found at i:8450137 original size:46 final size:46
Alignment explanation
Indices: 8450084--8450334 Score: 387
Period size: 46 Copynumber: 5.5 Consensus size: 46
8450074 TATTCATTTA
*
8450084 TATCTTTCAACCATGGTCTTATTTATTTCCTATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGG
* *
8450130 TATCTTTCAGCCATGGTCTTATTCACTTCCTATCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGG
* * *
8450176 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTTCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGG
*
8450222 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGG
* *
8450268 TATCTTTCAACCATGGTCTTATTCATTT-CTCATCATATTGCCATAG
1 TATCTTTCAACCATGGTCTTATTCATTTCCT-ATCATGTTGCCATGG
* *
8450314 TATCTTTAAACTATGGTCTTA
1 TATCTTTCAACCATGGTCTTA
8450335 CATATCTGAA
Statistics
Matches: 189, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 2 0.01
46 187 0.99
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.45
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTATCATGTTGCCATGG
Found at i:8450373 original size:45 final size:44
Alignment explanation
Indices: 8450306--8450425 Score: 127
Period size: 43 Copynumber: 2.7 Consensus size: 44
8450296 CTCATCATAT
* * * * **
8450306 TGCCATAGTATCTTTAAACTATGGTCTTACAT-ATCTGAATCGTGA
1 TGCCATAATGTCTTTCAGCTATGG-CTTAC-TCATCTGAATCACGA
*
8450351 TGCCATAATGTCTTTCAGCTATGG-TTACTCGTCTGAATCACGA
1 TGCCATAATGTCTTTCAGCTATGGCTTACTCATCTGAATCACGA
*
8450394 TGCCATAACGTCTTTCAGCTATGGCCTTACTC
1 TGCCATAATGTCTTTCAGCTATGG-CTTACTC
8450426 GTTTCTGGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 37 0.58
45 26 0.41
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (44 bp):
TGCCATAATGTCTTTCAGCTATGGCTTACTCATCTGAATCACGA
Found at i:8450400 original size:43 final size:44
Alignment explanation
Indices: 8450339--8450427 Score: 135
Period size: 43 Copynumber: 2.0 Consensus size: 44
8450329 GTCTTACATA
** *
8450339 TCTGAATCGTGATGCCATAATGTCTTTCAGCTATGG-TTACTCG
1 TCTGAATCACGATGCCATAACGTCTTTCAGCTATGGCTTACTCG
8450382 TCTGAATCACGATGCCATAACGTCTTTCAGCTATGGCCTTACTCG
1 TCTGAATCACGATGCCATAACGTCTTTCAGCTATGG-CTTACTCG
8450427 T
1 T
8450428 TTCTGGTATG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 33 0.80
45 8 0.20
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (44 bp):
TCTGAATCACGATGCCATAACGTCTTTCAGCTATGGCTTACTCG
Found at i:8452199 original size:11 final size:11
Alignment explanation
Indices: 8452183--8452230 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
8452173 CTTTATATAC
8452183 TAATAAAATAA
1 TAATAAAATAA
*
8452194 TAATAAAATATCT
1 TAATAAAATA--A
* *
8452207 TATTAAAATAT
1 TAATAAAATAA
8452218 TAATAAAATAA
1 TAATAAAATAA
8452229 TA
1 TA
8452231 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:8461700 original size:9 final size:9
Alignment explanation
Indices: 8461688--8461797 Score: 60
Period size: 9 Copynumber: 11.4 Consensus size: 9
8461678 ATTTTAAATA
8461688 TTTTTATAT
1 TTTTTATAT
8461697 TTTTGTA-ATT
1 TTTT-TATA-T
*
8461707 TTTTTACGAT
1 TTTTTA-TAT
*
8461717 TTTTATATTT
1 TTTT-TATAT
8461727 TTTTTATAT
1 TTTTTATAT
**
8461736 TTTCTTGCACT
1 TTT-TTATA-T
*
8461747 TTTCTATAT
1 TTTTTATAT
*
8461756 TTTTTACAT
1 TTTTTATAT
*
8461765 TTGTTATGAT
1 TTTTTAT-AT
* *
8461775 TTTCTATAA
1 TTTTTATAT
8461784 TTTTTATGAT
1 TTTTTAT-AT
8461794 TTTT
1 TTTT
8461798 AACAATTTTA
Statistics
Matches: 75, Mismatches: 17, Indels: 17
0.69 0.16 0.16
Matches are distributed among these distances:
9 34 0.45
10 34 0.45
11 7 0.09
ACGTcount: A:0.20, C:0.06, G:0.05, T:0.68
Consensus pattern (9 bp):
TTTTTATAT
Found at i:8461712 original size:19 final size:19
Alignment explanation
Indices: 8461679--8461738 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 19
8461669 ATATATAAAA
*
8461679 TTTTA-AATATTTTTATAT
1 TTTTATAATTTTTTTATAT
* *
8461697 TTTTGTAATTTTTTTACGAT
1 TTTTATAATTTTTTTA-TAT
*
8461717 TTTTATATTTTTTTTATAT
1 TTTTATAATTTTTTTATAT
8461736 TTT
1 TTT
8461739 CTTGCACTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 4 0.12
19 14 0.41
20 16 0.47
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTATAATTTTTTTATAT
Found at i:8461749 original size:20 final size:19
Alignment explanation
Indices: 8461726--8461788 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
8461716 TTTTTATATT
*
8461726 TTTTTTATATTTTCTTGCA
1 TTTTTTATATTTTCTTACA
*
8461745 CTTTTCTATATTTT-TTACA
1 -TTTTTTATATTTTCTTACA
*
8461764 TTTGTTATGATTTTCTATA-A
1 TTTTTTAT-ATTTTCT-TACA
8461784 TTTTT
1 TTTTT
8461789 ATGATTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 6 0.17
19 9 0.26
20 18 0.51
21 2 0.06
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTTATATTTTCTTACA
Found at i:8461761 original size:29 final size:27
Alignment explanation
Indices: 8461687--8461798 Score: 86
Period size: 28 Copynumber: 3.9 Consensus size: 27
8461677 AATTTTAAAT
* *
8461687 ATTTT-TATATTTTTGTAATTTTTTTACG
1 ATTTTCTATATTTTT-T-ATATTTTTATG
8461715 ATTTT-TATATTTTTTTTATATTTTCT-TG
1 ATTTTCTATA--TTTTTTATATTTT-TATG
*
8461743 CACTTTTCTATATTTTTTACATTTGTTATG
1 -A-TTTTCTATATTTTTTATATTT-TTATG
*
8461773 ATTTTCTATAATTTTTATGATTTTTA
1 ATTTTCTATATTTTTTAT-ATTTTTA
8461799 ACAATTTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
28 34 0.49
29 20 0.29
30 12 0.17
31 4 0.06
ACGTcount: A:0.21, C:0.06, G:0.05, T:0.67
Consensus pattern (27 bp):
ATTTTCTATATTTTTTATATTTTTATG
Found at i:8461804 original size:19 final size:18
Alignment explanation
Indices: 8461756--8461806 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
8461746 TTTTCTATAT
8461756 TTTTTAC-ATTTGTTATGA
1 TTTTTACAATTT-TTATGA
*
8461774 TTTTCTATAATTTTTATGA
1 TTTT-TACAATTTTTATGA
8461793 TTTTTAACAATTTT
1 TTTTT-ACAATTTT
8461807 AAATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 5 0.18
19 19 0.68
20 4 0.14
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (18 bp):
TTTTTACAATTTTTATGA
Found at i:8462375 original size:27 final size:27
Alignment explanation
Indices: 8462345--8462418 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 27
8462335 ATCGACTCAA
8462345 ATTTTAAATAATTTAAAAAATAAATAT
1 ATTTTAAATAATTTAAAAAATAAATAT
*
8462372 A-TTTATTATATATTATAAAAAATAAATAT
1 ATTTTA-AATA-ATT-TAAAAAATAAATAT
8462401 ATTTTAAATAA-TTAAAAA
1 ATTTTAAATAATTTAAAAA
8462419 TGATATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
26 10 0.24
27 5 0.12
28 4 0.10
29 18 0.44
30 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTTTAAATAATTTAAAAAATAAATAT
Found at i:8467407 original size:18 final size:18
Alignment explanation
Indices: 8467384--8467501 Score: 60
Period size: 18 Copynumber: 6.6 Consensus size: 18
8467374 TTTATTAGTT
8467384 TCATTCAGTAACATTCAA
1 TCATTCAGTAACATTCAA
* *
8467402 TCATTCAATAACAATT-AG
1 TCATTCAGTAAC-ATTCAA
* * * *
8467420 TCGTTCAATAATATTCAG
1 TCATTCAGTAACATTCAA
* ** * *
8467438 TCACTCTTTAACAGTCAG
1 TCATTCAGTAACATTCAA
* *
8467456 TTATTCAGTAACGA-TAAA
1 TCATTCAGTAAC-ATTCAA
* *
8467474 TTATTCAGTAACAGTCAA
1 TCATTCAGTAACATTCAA
*
8467492 TTATTCAGTA
1 TCATTCAGTA
8467502 GTAGTCAGTT
Statistics
Matches: 79, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
17 4 0.05
18 71 0.90
19 4 0.05
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (18 bp):
TCATTCAGTAACATTCAA
Found at i:8467513 original size:18 final size:18
Alignment explanation
Indices: 8467446--8467501 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
8467436 AGTCACTCTT
*
8467446 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
*
8467464 TAAC-GATAAATTATTCAG
1 TAACAG-TCAATTATTCAG
8467482 TAACAGTCAATTATTCAG
1 TAACAGTCAATTATTCAG
8467500 TA
1 TA
8467502 GTAGTCAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (18 bp):
TAACAGTCAATTATTCAG
Found at i:8467753 original size:57 final size:59
Alignment explanation
Indices: 8467633--8467759 Score: 150
Period size: 57 Copynumber: 2.2 Consensus size: 59
8467623 CACCGTAACG
* * **
8467633 GTAACAGTAACAGTAACAGTAGCGGTACATAGAGTACCTCATCGAAACAAATCTGGAACA
1 GTAACAGTAACAGTAACAATAGAGGTACA-AGAGTACCTCATCGAAACAAATCCAGAACA
* * * *
8467693 GTAACAGTAACAGTAACAATA-AGGTAC-GGAGTACCTCTTCGGAACGAATCCAGAACA
1 GTAACAGTAACAGTAACAATAGAGGTACAAGAGTACCTCATCGAAACAAATCCAGAACA
*
8467750 GTAATAGTAA
1 GTAACAGTAA
8467760 GGCGACACTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 33 0.57
59 5 0.09
60 20 0.34
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.19
Consensus pattern (59 bp):
GTAACAGTAACAGTAACAATAGAGGTACAAGAGTACCTCATCGAAACAAATCCAGAACA
Found at i:8468828 original size:149 final size:148
Alignment explanation
Indices: 8468585--8468858 Score: 329
Period size: 149 Copynumber: 1.8 Consensus size: 148
8468575 ATATAAAAAT
* *
8468585 ATATTTACTTAAATAAAAAGCAATTAAATAAAATATATTACAATTGTATAAATATATGTATTACA
1 ATATTTACTTAAATAAAAAGCAAATAAATAAAATATATTACAAATGTATAAATATATGTATTACA
* * ***
8468650 CTTGTAAATTTTATTTACCATACATTTGTCTTTATTTAATTTATTTCATAATAT-AATATCAATT
66 C-TGTAAATTTTATTTACCACACACTTGTCACAATTTAATTTATTT-ATAATATAAATATCAATT
8468714 TAATAATAACAATAACATTA
129 TAATAATAACAATAACATTA
* * * * ** *
8468734 ATATTTACTTAAATAATAAGTAAATACAT-ACATATATTACAAATGTATGTATAATATTTATTAC
1 ATATTTACTTAAATAAAAAGCAAATAAATAAAATATATTACAAATGTATAAAT-ATATGTATTAC
* * *
8468798 AC-GTATATTTTATTTTTATCACACACTTGTCACAATTTAATTTATTTATCATATAAATATC
65 ACTGTAAATTTTA--TTTACCACACACTTGTCACAATTTAATTTATTTATAATATAAATATC
8468859 CTATAATATA
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
147 9 0.09
148 25 0.24
149 70 0.67
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (148 bp):
ATATTTACTTAAATAAAAAGCAAATAAATAAAATATATTACAAATGTATAAATATATGTATTACA
CTGTAAATTTTATTTACCACACACTTGTCACAATTTAATTTATTTATAATATAAATATCAATTTA
ATAATAACAATAACATTA
Found at i:8470155 original size:49 final size:49
Alignment explanation
Indices: 8470099--8470193 Score: 190
Period size: 49 Copynumber: 1.9 Consensus size: 49
8470089 GACTTGCTCA
8470099 TTTCCAATTAGACTAAGGACATATTTAGGTTCGTCTACTAATATAAGCT
1 TTTCCAATTAGACTAAGGACATATTTAGGTTCGTCTACTAATATAAGCT
8470148 TTTCCAATTAGACTAAGGACATATTTAGGTTCGTCTACTAATATAA
1 TTTCCAATTAGACTAAGGACATATTTAGGTTCGTCTACTAATATAA
8470194 ACTATCTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.37
Consensus pattern (49 bp):
TTTCCAATTAGACTAAGGACATATTTAGGTTCGTCTACTAATATAAGCT
Found at i:8472104 original size:26 final size:26
Alignment explanation
Indices: 8472073--8472180 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8472063 TGAAATGCCC
*
8472073 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8472099 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8472125 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8472151 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8472177 ATCA
1 ATCA
8472181 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8473572 original size:24 final size:24
Alignment explanation
Indices: 8473532--8473593 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
8473522 GATTATGTAG
8473532 AAAGAATAAAGAAATGAA-AAAAAA
1 AAAGAA-AAAGAAATGAAGAAAAAA
* *
8473556 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAGAAAAAA
*
8473581 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
8473594 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 5 0.16
24 12 0.38
25 15 0.47
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAGAAAAAA
Found at i:8474791 original size:29 final size:29
Alignment explanation
Indices: 8474758--8474822 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
8474748 GTGACGAGAT
*
8474758 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
8474787 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
8474816 CGGCACT
1 TGGCACT
8474823 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:8481469 original size:25 final size:24
Alignment explanation
Indices: 8481428--8481490 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
8481418 GATTATGTAG
8481428 AAAGAATAAAGAAATGAAAAAAAAA
1 AAAGAA-AAAGAAATGAAAAAAAAA
* * *
8481453 AAAGAAAGAGAATATGAAGAAAAAC
1 AAAGAAAAAGAA-ATGAAAAAAAAA
*
8481478 AAAGAAAAGGAAA
1 AAAGAAAAAGAAA
8481491 AAAAAAGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAGAAAAAGAAATGAAAAAAAAA
Found at i:8482688 original size:29 final size:29
Alignment explanation
Indices: 8482655--8482719 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
8482645 GTGACGAGAT
*
8482655 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
8482684 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
8482713 CGGCACT
1 TGGCACT
8482720 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:8488794 original size:13 final size:13
Alignment explanation
Indices: 8488769--8488802 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
8488759 GTAAATATAT
8488769 AATGTAT-AATAA
1 AATGTATAAATAA
*
8488781 AATTTATAAATAA
1 AATGTATAAATAA
8488794 AATGTATAA
1 AATGTATAA
8488803 TAATATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:8488804 original size:12 final size:12
Alignment explanation
Indices: 8488769--8488805 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
8488759 GTAAATATAT
8488769 AATGTATAATAA
1 AATGTATAATAA
*
8488781 AATTTATAAATAA
1 AATGTAT-AATAA
8488794 AATGTATAATAA
1 AATGTATAATAA
8488806 TATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:8488814 original size:25 final size:26
Alignment explanation
Indices: 8488747--8488823 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 26
8488737 AATGTAGGGA
*
8488747 ATAAT-ATATATAGTAAATATATAATGT
1 ATAATAATATA-AATAAATA-ATAATGT
* **
8488774 ATAATAAAATTTATAAATAA-AATGT
1 ATAATAATATAAATAAATAATAATGT
8488799 ATAATAATATAAATAATATAATAAT
1 ATAATAATATAAATAA-ATAATAAT
8488824 AAAAATAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
25 18 0.45
26 5 0.12
27 14 0.35
28 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (26 bp):
ATAATAATATAAATAAATAATAATGT
Found at i:8488818 original size:17 final size:17
Alignment explanation
Indices: 8488798--8488832 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8488788 AAATAAAATG
*
8488798 TATAATAATATAAATAA
1 TATAATAATAAAAATAA
8488815 TATAATAATAAAAATAA
1 TATAATAATAAAAATAA
8488832 T
1 T
8488833 TTGATATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAATAATAAAAATAA
Found at i:8491329 original size:18 final size:18
Alignment explanation
Indices: 8491306--8491341 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
8491296 TGTGATATTT
8491306 TATTTAATTAG-TAAAATA
1 TATTT-ATTAGATAAAATA
8491324 TATTTATTAGATAAAATA
1 TATTTATTAGATAAAATA
8491342 ATTAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TATTTATTAGATAAAATA
Found at i:8493183 original size:26 final size:26
Alignment explanation
Indices: 8493154--8493229 Score: 134
Period size: 26 Copynumber: 2.9 Consensus size: 26
8493144 ACAAATTGAT
8493154 AATGGGTTAGGTAAATGTTTCATGAC
1 AATGGGTTAGGTAAATGTTTCATGAC
* *
8493180 AATGGATTAGGTAAATGTTTCATGAT
1 AATGGGTTAGGTAAATGTTTCATGAC
8493206 AATGGGTTAGGTAAATGTTTCATG
1 AATGGGTTAGGTAAATGTTTCATG
8493230 CTAAGAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
AATGGGTTAGGTAAATGTTTCATGAC
Done.