Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 21 of 182
Found at i:8667900 original size:14 final size:14
Alignment explanation
Indices: 8667876--8667912 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
8667866 GATACAACCA
8667876 TAAACTT-TAAATCT
1 TAAACTTCTAAAT-T
8667890 TAAA-TTCTAAATT
1 TAAACTTCTAAATT
8667903 TAAACTTCTA
1 TAAACTTCTA
8667913 TCGATACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAACTTCTAAATT
Found at i:8672578 original size:20 final size:20
Alignment explanation
Indices: 8672553--8672593 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8672543 AAGGATGACA
* *
8672553 TAAAATATTAATTTATTTTT
1 TAAAATATCAATTAATTTTT
8672573 TAAAATATCAATTAATTTTT
1 TAAAATATCAATTAATTTTT
8672593 T
1 T
8672594 CGACAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAAATATCAATTAATTTTT
Found at i:8672614 original size:13 final size:13
Alignment explanation
Indices: 8672598--8672622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8672588 TTTTTTCGAC
8672598 AATAATTTTTAAA
1 AATAATTTTTAAA
8672611 AATAATTTTTAA
1 AATAATTTTTAA
8672623 TAAAACAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATAATTTTTAAA
Found at i:8687339 original size:80 final size:80
Alignment explanation
Indices: 8687248--8687402 Score: 240
Period size: 80 Copynumber: 1.9 Consensus size: 80
8687238 TTTGGCTCTC
* * ** *
8687248 CTAAAAATGATAAAATTGTT-ATTTAATCCTTTAAAAATTGTATTTTTACTATCATAAAAGCTAC
1 CTAAAAATGATAAAATT-TTGATTCAATCATTTAAAAATTACATTTTTACTATCATAAAAACTAC
8687312 AATTTAACTTCACTAT
65 AATTTAACTTCACTAT
*
8687328 CTAAAAATGATAAAATTTTGATTCAATCATTTAAAAATTACATTTTTACTATCATAAAAATTACA
1 CTAAAAATGATAAAATTTTGATTCAATCATTTAAAAATTACATTTTTACTATCATAAAAACTACA
8687393 ATTTAACTTC
66 ATTTAACTTC
8687403 GCCCTTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 2 0.03
80 66 0.97
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.41
Consensus pattern (80 bp):
CTAAAAATGATAAAATTTTGATTCAATCATTTAAAAATTACATTTTTACTATCATAAAAACTACA
ATTTAACTTCACTAT
Found at i:8688133 original size:34 final size:34
Alignment explanation
Indices: 8688090--8688160 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
8688080 AAAAAAATAA
8688090 TAACCAAAGTAAAAATTAAATAAATATTATGAAC
1 TAACCAAAGTAAAAATTAAATAAATATTATGAAC
8688124 TAACCAAAGTAAAAATTAAATAAATATTATGAAC
1 TAACCAAAGTAAAAATTAAATAAATATTATGAAC
8688158 TAA
1 TAA
8688161 ATTTATCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (34 bp):
TAACCAAAGTAAAAATTAAATAAATATTATGAAC
Found at i:8688993 original size:27 final size:25
Alignment explanation
Indices: 8688934--8688996 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
8688924 ATTTTTAATG
8688934 ATATTT-ATTAATTTTAAAATAAAA
1 ATATTTAATTAATTTTAAAATAAAA
* *
8688958 ATATTTTTAATTACTTTTAAACTAAATTA
1 ATA--TTTAATTAATTTTAAAATAAA--A
8688987 ATATTTAATT
1 ATATTTAATT
8688997 GAGTGATCGC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
24 3 0.09
26 3 0.09
27 22 0.69
29 4 0.12
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (25 bp):
ATATTTAATTAATTTTAAAATAAAA
Found at i:8689463 original size:23 final size:24
Alignment explanation
Indices: 8689413--8689463 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
8689403 ATTTATTATG
*
8689413 ATTATAAATATGATGCCATCATTTT
1 ATTATAAATATGAT-CCATAATTTT
*
8689438 ATTATAAATATGAT-TATAATTTT
1 ATTATAAATATGATCCATAATTTT
8689461 ATT
1 ATT
8689464 TCTGTCTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.42
25 14 0.58
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTATAAATATGATCCATAATTTT
Found at i:8697488 original size:21 final size:21
Alignment explanation
Indices: 8697458--8697497 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8697448 AATGACTCGA
8697458 CTTCAGCTTCGAT-TTCATCAT
1 CTTCAGCTTC-ATCTTCATCAT
*
8697479 CTTCATCTTCATCTTCATC
1 CTTCAGCTTCATCTTCATC
8697498 TGCACTACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.17, C:0.33, G:0.05, T:0.45
Consensus pattern (21 bp):
CTTCAGCTTCATCTTCATCAT
Found at i:8702989 original size:21 final size:21
Alignment explanation
Indices: 8702965--8703005 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8702955 ATAACTAATG
8702965 AATATTT-TAGAATTTTTTAAC
1 AATATTTCTA-AATTTTTTAAC
*
8702986 AATATTTCTAATTTTTTTAA
1 AATATTTCTAAATTTTTTAA
8703006 ATGTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
AATATTTCTAAATTTTTTAAC
Found at i:8704322 original size:13 final size:13
Alignment explanation
Indices: 8704304--8704339 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
8704294 ACAATTTTTA
8704304 TGAAATGAGAAAT
1 TGAAATGAGAAAT
8704317 TGAAATGAGAAAT
1 TGAAATGAGAAAT
8704330 TGAAATGAGA
1 TGAAATGAGA
8704340 TAAAATGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (13 bp):
TGAAATGAGAAAT
Found at i:8718489 original size:2 final size:2
Alignment explanation
Indices: 8718482--8718514 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8718472 AGCTTCTTCT
8718482 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8718515 TAATCTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8720508 original size:18 final size:18
Alignment explanation
Indices: 8720472--8720518 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
8720462 TTAAGAAAAC
* *
8720472 ATATT-TAAAATATTTAA
1 ATATTATAAAAAATTAAA
*
8720489 ATTTTATAAAAAATTAAA
1 ATATTATAAAAAATTAAA
8720507 ATATTATAAAAA
1 ATATTATAAAAA
8720519 TAATAAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATTATAAAAAATTAAA
Found at i:8720526 original size:9 final size:9
Alignment explanation
Indices: 8720492--8720583 Score: 73
Period size: 9 Copynumber: 10.0 Consensus size: 9
8720482 TATTTAAATT
8720492 TTATAAAAAA
1 TTAT-AAAAA
*
8720502 TTA-AAATA
1 TTATAAAAA
8720510 TTATAAAAA
1 TTATAAAAA
*
8720519 TAAT-AAAA
1 TTATAAAAA
*
8720527 GTATAAAAGTA
1 TTATAAAA--A
8720538 TTATAAAAA
1 TTATAAAAA
*
8720547 -TATTAAAA
1 TTATAAAAA
*
8720555 TTGATATAAAC
1 TT-ATA-AAAA
8720566 TTATAAAAA
1 TTATAAAAA
8720575 TTATAAAAA
1 TTATAAAAA
8720584 AAAATCATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
8 20 0.31
9 24 0.37
10 8 0.12
11 13 0.20
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (9 bp):
TTATAAAAA
Found at i:8721038 original size:9 final size:9
Alignment explanation
Indices: 8721026--8721266 Score: 56
Period size: 9 Copynumber: 26.6 Consensus size: 9
8721016 TTTTTATAAA
8721026 TTTTAATAT
1 TTTTAATAT
8721035 TTTT-ATAAT
1 TTTTAAT-AT
8721044 TCTTTACA-AT
1 T-TTTA-ATAT
*
8721054 TTTTATTA-
1 TTTTAATAT
*
8721062 TTTTAAGAT
1 TTTTAATAT
*
8721071 TTCTAATACT
1 TTTTAATA-T
*
8721081 TTTTTA-AT
1 TTTTAATAT
*
8721089 TTTAAATAT
1 TTTTAATAT
* *
8721098 TTTAAATAA
1 TTTTAATAT
* *
8721107 GTTTATTA-
1 TTTTAATAT
*
8721115 ATTTAATATTT
1 TTTTAATA--T
*
8721126 TTTTAAAAT
1 TTTTAATAT
8721135 TTATTAGA-ATT
1 TT-TTA-ATA-T
*
8721146 TTTATAATTT
1 TTT-TAATAT
* *
8721156 TTTTTATAA
1 TTTTAATAT
*
8721165 TTTT-ATAA
1 TTTTAATAT
* *
8721173 CTTTAATAA
1 TTTTAATAT
* *
8721182 GTTTATATAA
1 TTTTA-ATAT
8721192 TTTTAATAT
1 TTTTAATAT
*
8721201 TTTTAACA-
1 TTTTAATAT
*
8721209 -TATAATAT
1 TTTTAATAT
* *
8721217 ATTT-ATTT
1 TTTTAATAT
8721225 TTTTAAT-T
1 TTTTAATAT
*
8721233 TTTTTATAAT
1 TTTTAAT-AT
8721243 TTTT-ATGAT
1 TTTTAAT-AT
8721252 TTTTAATCAT
1 TTTTAAT-AT
8721262 TTTTA
1 TTTTA
8721267 TGAAAAAAAT
Statistics
Matches: 174, Mismatches: 34, Indels: 47
0.68 0.13 0.18
Matches are distributed among these distances:
7 5 0.03
8 39 0.22
9 74 0.43
10 43 0.25
11 12 0.07
12 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTAATAT
Found at i:8721105 original size:27 final size:26
Alignment explanation
Indices: 8721055--8721126 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 26
8721045 CTTTACAATT
* *
8721055 TTTATTATTTTAAGATTTCT-AAT-AC
1 TTTATTAATTTAATATTT-TAAATAAC
* *
8721080 TTTTTTAATTTTAAATATTTTAAATAAG
1 TTTATTAA-TTT-AATATTTTAAATAAC
8721108 TTTATTAATTTAATATTTT
1 TTTATTAATTTAATATTTT
8721127 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 6 0.16
26 12 0.32
27 12 0.32
28 8 0.21
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (26 bp):
TTTATTAATTTAATATTTTAAATAAC
Found at i:8721159 original size:12 final size:12
Alignment explanation
Indices: 8721144--8721168 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8721134 TTTATTAGAA
8721144 TTTTTATAATTT
1 TTTTTATAATTT
8721156 TTTTTATAATTT
1 TTTTTATAATTT
8721168 T
1 T
8721169 ATAACTTTAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTATAATTT
Found at i:8721196 original size:19 final size:17
Alignment explanation
Indices: 8721017--8721205 Score: 60
Period size: 19 Copynumber: 10.3 Consensus size: 17
8721007 TTAATAAATT
*
8721017 TTTTATAAATTTTAATAT
1 TTTTAT-AATTTTAATAA
* *
8721035 TTTTATAATTCTTTACAA
1 TTTTATAATT-TTAATAA
* *
8721053 TTTTTATTATTTTAA-GA
1 -TTTTATAATTTTAATAA
* *
8721070 TTTCTAATACTTTT-TTAA
1 TTT-T-ATAATTTTAATAA
*
8721088 TTTTAAATATTTTAAATAA
1 TTTTATA-ATTTT-AATAA
* *
8721107 GTTTATTAA-TTTAATATTT
1 TTTTA-TAATTTTAATA--A
* * *
8721126 TTTTAAAATTTATTAGAA
1 TTTTATAATTT-TAATAA
*
8721144 TTTTTATAATTTTTTTTATAA
1 -TTTTATAA---TTTTAATAA
*
8721165 TTTTATAACTTTAATAA
1 TTTTATAATTTTAATAA
*
8721182 GTTTATATAATTTTAATAT
1 -TTT-TATAATTTTAATAA
8721201 TTTTA
1 TTTTA
8721206 ACATATAATA
Statistics
Matches: 125, Mismatches: 27, Indels: 39
0.65 0.14 0.20
Matches are distributed among these distances:
16 5 0.04
17 24 0.19
18 34 0.27
19 42 0.34
20 12 0.10
21 5 0.04
22 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTATAATTTTAATAA
Found at i:8721254 original size:19 final size:19
Alignment explanation
Indices: 8721232--8721269 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8721222 TTTTTTTAAT
*
8721232 TTTTTTATAATTTTTATGA
1 TTTTTAATAATTTTTATGA
*
8721251 TTTTTAATCATTTTTATGA
1 TTTTTAATAATTTTTATGA
8721270 AAAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTAATAATTTTTATGA
Found at i:8721798 original size:18 final size:19
Alignment explanation
Indices: 8721775--8721822 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
8721765 TGTAAAACTA
8721775 AAAAAAAAACAATTATTG-
1 AAAAAAAAACAATTATTGT
*
8721793 AAAAAAAAACCATTATTGT
1 AAAAAAAAACAATTATTGT
8721812 AAGAAAAAAAC
1 AA-AAAAAAAC
8721823 GGCCATTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 17 0.63
19 2 0.07
20 8 0.30
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (19 bp):
AAAAAAAAACAATTATTGT
Found at i:8729294 original size:20 final size:20
Alignment explanation
Indices: 8729271--8729313 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8729261 TTAAATAGTG
8729271 AAAATAAATTATTTTTTTTGA
1 AAAAT-AATTATTTTTTTTGA
* *
8729292 AAAATTATTATTTTTTTAGA
1 AAAATAATTATTTTTTTTGA
8729312 AA
1 AA
8729314 TATTTATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AAAATAATTATTTTTTTTGA
Found at i:8732139 original size:18 final size:17
Alignment explanation
Indices: 8732113--8732146 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8732103 AAAATTTTAA
8732113 TTTTTACTCAAAAATAT
1 TTTTTACTCAAAAATAT
*
8732130 TTTTTGACTCGAAAATA
1 TTTTT-ACTCAAAAATA
8732147 CTTCTGACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
TTTTTACTCAAAAATAT
Found at i:8740360 original size:5 final size:5
Alignment explanation
Indices: 8740350--8740387 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
8740340 CCCTCTTATT
8740350 TACTA TACTA TACTA TACTA TACTA TACTA TACTA TAC
1 TACTA TACTA TACTA TACTA TACTA TACTA TACTA TAC
8740388 AAATATGGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
TACTA
Found at i:8741005 original size:41 final size:41
Alignment explanation
Indices: 8740952--8741035 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
8740942 TTTATACATG
8740952 AAAATATGATTCAATACACAATGTGTAAATTAGAAAGTGAA
1 AAAATATGATTCAATACACAATGTGTAAATTAGAAAGTGAA
8740993 AAAATATGATTCAATACACAATGTGTAAATTAGAAAGTGAA
1 AAAATATGATTCAATACACAATGTGTAAATTAGAAAGTGAA
8741034 AA
1 AA
8741036 CACAATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.26
Consensus pattern (41 bp):
AAAATATGATTCAATACACAATGTGTAAATTAGAAAGTGAA
Found at i:8741737 original size:2 final size:2
Alignment explanation
Indices: 8741730--8741760 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8741720 GCTCATCTTC
8741730 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8741761 GCGATTCACT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8750530 original size:3 final size:3
Alignment explanation
Indices: 8750522--8750548 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8750512 CTGGTAGGAA
8750522 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
8750549 TAAAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8752492 original size:30 final size:30
Alignment explanation
Indices: 8752456--8752520 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
8752446 CAACTTAACA
* *
8752456 AACAAATGCCTCTAAAATAGTAACAAATTT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
8752486 AACAAATGTCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
8752516 AACAA
1 AACAA
8752521 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:8754692 original size:16 final size:17
Alignment explanation
Indices: 8754669--8754707 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
8754659 AATTGATTTA
*
8754669 TAATTTTTA-AAAGATT
1 TAATTTTTATAAACATT
*
8754685 TTATTTTTATAAACATT
1 TAATTTTTATAAACATT
8754702 TAATTT
1 TAATTT
8754708 AATTAAGAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
TAATTTTTATAAACATT
Found at i:8757222 original size:18 final size:18
Alignment explanation
Indices: 8757199--8757241 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8757189 GAATAATTTT
8757199 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
8757217 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
8757235 TTAATTA
1 TTAATTA
8757242 TAACTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:8765410 original size:19 final size:17
Alignment explanation
Indices: 8765373--8765407 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8765363 TTTTATAATA
8765373 ATAAAAATATAATTATT
1 ATAAAAATATAATTATT
8765390 ATAAAAATATAATT-TT
1 ATAAAAATATAATTATT
8765406 AT
1 AT
8765408 TATTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATAAAAATATAATTATT
Found at i:8769933 original size:25 final size:25
Alignment explanation
Indices: 8769904--8769953 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8769894 TTTTAATAAA
*
8769904 TAAATATAT-TAATTCATTTCTATAT
1 TAAATAAATATAATT-ATTTCTATAT
*
8769929 TAAATAAATATAATTATTTGTATAT
1 TAAATAAATATAATTATTTCTATAT
8769954 ATAATATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
TAAATAAATATAATTATTTCTATAT
Found at i:8770670 original size:10 final size:10
Alignment explanation
Indices: 8770647--8770711 Score: 53
Period size: 11 Copynumber: 6.3 Consensus size: 10
8770637 TTTAAAATTT
* *
8770647 AAAAATGATT
1 AAAAATTATA
*
8770657 AAAAATCATAA
1 AAAAATTAT-A
8770668 AAAAATTATAA
1 AAAAATTAT-A
8770679 ACAAAATTTATA
1 A-AAAA-TTATA
8770691 AAAAATTAT-
1 AAAAATTATA
8770700 -AAAATTATA
1 AAAAATTATA
8770709 AAA
1 AAA
8770712 TTGTATTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 8 0.17
10 14 0.30
11 15 0.32
12 6 0.13
13 4 0.09
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:8770689 original size:13 final size:11
Alignment explanation
Indices: 8770657--8770703 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
8770647 AAAAATGATT
*
8770657 AAAAATCATAA
1 AAAAATTATAA
8770668 AAAAATTATAA
1 AAAAATTATAA
8770679 ACAAAATT-TATA
1 A-AAAATTATA-A
8770691 AAAAATTATAA
1 AAAAATTATAA
8770702 AA
1 AA
8770704 TTATAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 22 0.69
12 10 0.31
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:8771545 original size:24 final size:25
Alignment explanation
Indices: 8771502--8771556 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
8771492 AACAATTTAA
*
8771502 TAATTTTTATTATAAGAATTA-ATT
1 TAATTTTTATTATAAAAATTATATT
* * *
8771526 TTATTTTTTTTCTAAAAATTATATT
1 TAATTTTTATTATAAAAATTATATT
8771551 TAATTT
1 TAATTT
8771557 AAATTCGAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
TAATTTTTATTATAAAAATTATATT
Found at i:8801840 original size:5 final size:5
Alignment explanation
Indices: 8801832--8801863 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
8801822 TGGGGTGGCT
*
8801832 TTTGG TTTGG TTTGG TTTGG TGTGG TTTGG TT
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TT
8801864 GGTGTTGCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.41, T:0.59
Consensus pattern (5 bp):
TTTGG
Found at i:8801850 original size:15 final size:15
Alignment explanation
Indices: 8801832--8801868 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8801822 TGGGGTGGCT
*
8801832 TTTGGTTTGGTTTGG
1 TTTGGTGTGGTTTGG
8801847 TTTGGTGTGGTTTGG
1 TTTGGTGTGGTTTGG
8801862 -TTGGTGT
1 TTTGGTGT
8801869 TGCAGCCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.00, C:0.00, G:0.43, T:0.57
Consensus pattern (15 bp):
TTTGGTGTGGTTTGG
Found at i:8802113 original size:19 final size:18
Alignment explanation
Indices: 8802074--8802131 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 18
8802064 ACCGATGGTG
*
8802074 TAATATTTTATTGAAATAT
1 TAATATTTTATAGAAA-AT
8802093 TAATAGTTTTATAGAAAAT
1 TAATA-TTTTATAGAAAAT
8802112 TAATAATTTTATAGATAAAT
1 TAAT-ATTTTATAGA-AAAT
8802132 AAATTTAGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (18 bp):
TAATATTTTATAGAAAAT
Found at i:8803828 original size:25 final size:23
Alignment explanation
Indices: 8803800--8803845 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
8803790 CAATTACACC
8803800 AATTTTTAACAATAAAAATTAATGA
1 AATTTTTAA-AA-AAAAATTAATGA
*
8803825 AATTTTTAATAAAAAATTAAT
1 AATTTTTAAAAAAAAATTAAT
8803846 TTACCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 1 0.05
25 9 0.45
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
AATTTTTAAAAAAAAATTAATGA
Found at i:8811481 original size:25 final size:23
Alignment explanation
Indices: 8811429--8811549 Score: 140
Period size: 23 Copynumber: 5.2 Consensus size: 23
8811419 ACACTAGCGC
*
8811429 GCTCTCTGATTAGCA-TTGTGTGT
1 GCTCTCTGATTAGCACTT-CGTGT
* *
8811452 GCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTTCGT-GT
8811475 GCTCTCTGTTATTAGCACTGT-GTGT
1 GCTCTCTG--ATTAGCACT-TCGTGT
8811500 GCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTGATTAGCACTTCGTGT
*
8811523 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTTCGTGT
8811546 GCTC
1 GCTC
8811550 AGTACTTTGT
Statistics
Matches: 85, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
22 2 0.02
23 63 0.74
24 1 0.01
25 17 0.20
26 2 0.02
ACGTcount: A:0.12, C:0.24, G:0.23, T:0.41
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTTCGTGT
Found at i:8811499 original size:48 final size:46
Alignment explanation
Indices: 8811429--8811549 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
8811419 ACACTAGCGC
* *
8811429 GCTCTCTGATTAGCATTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGT-GT
*
8811475 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGTGT
*
8811523 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
8811550 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.23, T:0.41
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGTGT
Found at i:8811578 original size:39 final size:39
Alignment explanation
Indices: 8811514--8811588 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
8811504 TCTGATTAGC
*
8811514 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
8811553 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
8811589 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:8811583 original size:23 final size:23
Alignment explanation
Indices: 8811548--8811641 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
8811538 CTTTGTGTGC
*
8811548 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
8811571 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
8811594 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
8811619 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
8811641 T
1 T
8811642 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:8817913 original size:23 final size:23
Alignment explanation
Indices: 8817887--8818006 Score: 163
Period size: 23 Copynumber: 5.1 Consensus size: 23
8817877 CACTAGCGCA
8817887 CTCTCTGATTAGCACTGTGTGTG
1 CTCTCTGATTAGCACTGTGTGTG
* *
8817910 CTCTCTGTTTAGCAC-GTCTCGTG
1 CTCTCTGATTAGCACTGTGT-GTG
8817933 CTCTCTGTTATTAGCACTGTGTGTG
1 CTCTCTG--ATTAGCACTGTGTGTG
8817958 CTCTCTGATTAGCACT-TCGTGTG
1 CTCTCTGATTAGCACTGT-GTGTG
*
8817981 CTCTCTGATTAGCACTTTGTGTG
1 CTCTCTGATTAGCACTGTGTGTG
8818004 CTC
1 CTC
8818007 AGTACTTTGT
Statistics
Matches: 87, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.71
24 1 0.01
25 17 0.20
26 3 0.03
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.41
Consensus pattern (23 bp):
CTCTCTGATTAGCACTGTGTGTG
Found at i:8817956 original size:48 final size:46
Alignment explanation
Indices: 8817887--8818006 Score: 179
Period size: 48 Copynumber: 2.6 Consensus size: 46
8817877 CACTAGCGCA
*
8817887 CTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGTG
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGT-GTG
*
8817933 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCGTGTG
1 CTCTCTG--ATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGTGTG
*
8817981 CTCTCTGATTAGCACTTTGTGTGCTC
1 CTCTCTGATTAGCACTGTGTGTGCTC
8818007 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 25 0.37
48 42 0.62
49 1 0.01
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.41
Consensus pattern (46 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGTGTG
Found at i:8818035 original size:39 final size:39
Alignment explanation
Indices: 8817971--8818045 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
8817961 TCTGATTAGC
*
8817971 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
8818010 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
8818046 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:8818040 original size:23 final size:23
Alignment explanation
Indices: 8818005--8818098 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
8817995 CTTTGTGTGC
*
8818005 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
8818028 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
8818051 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
8818076 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
8818098 T
1 T
8818099 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:8820795 original size:3 final size:3
Alignment explanation
Indices: 8820787--8820830 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
8820777 CAAATCATTT
* *
8820787 TTC TTC TTC TTC TTC TTC TTC TTC TCC TTC TTT TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
8820831 ATACCCTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8822649 original size:24 final size:25
Alignment explanation
Indices: 8822603--8822654 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
8822593 TAATTTTTTT
*
8822603 AATTTTAAATCATTAATTAAATTAA
1 AATTTTAAATAATTAATTAAATTAA
*
8822628 AATTTTAAA-AATTAATTTAATTAA
1 AATTTTAAATAATTAATTAAATTAA
8822652 AAT
1 AAT
8822655 ATTTCGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
AATTTTAAATAATTAATTAAATTAA
Found at i:8826413 original size:2 final size:2
Alignment explanation
Indices: 8826359--8826400 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
8826349 GTTTATTGGA
8826359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8826401 GCTCCAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8828604 original size:31 final size:29
Alignment explanation
Indices: 8828569--8828655 Score: 102
Period size: 31 Copynumber: 2.9 Consensus size: 29
8828559 AATTAAAATT
8828569 TACTAACATAAGTGACTAAAATGTAACAAAA
1 TACTAACATAAGTGACTAAAATGTAAC--AA
** *
8828600 TACTAACATAAGTGACTAAAACATAACAT
1 TACTAACATAAGTGACTAAAATGTAACAA
* * *
8828629 TTCAAACATAAGTGATTAAAATGTAAC
1 TACTAACATAAGTGACTAAAATGTAAC
8828656 CTGAGGCAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 23 0.48
31 25 0.52
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (29 bp):
TACTAACATAAGTGACTAAAATGTAACAA
Found at i:8828655 original size:29 final size:30
Alignment explanation
Indices: 8828573--8828655 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 30
8828563 AAAATTTACT
*
8828573 AACATAAGTGACTAAAATGTAACAAAATACT
1 AACATAAGTGACTAAAATGTAAC-AAATACA
** * *
8828604 AACATAAGTGACTAAAACATAAC-ATTTCA
1 AACATAAGTGACTAAAATGTAACAAATACA
*
8828633 AACATAAGTGATTAAAATGTAAC
1 AACATAAGTGACTAAAATGTAAC
8828656 CTGAGGCAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 23 0.52
31 21 0.48
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.24
Consensus pattern (30 bp):
AACATAAGTGACTAAAATGTAACAAATACA
Found at i:8835002 original size:21 final size:21
Alignment explanation
Indices: 8834972--8835011 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8834962 TATTACGTTT
*
8834972 AAAAAGGATAAAATAAGTAAA
1 AAAAAAGATAAAATAAGTAAA
8834993 AAAAAAGATAAAATAAGTA
1 AAAAAAGATAAAATAAGTA
8835012 GCACAGCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.15
Consensus pattern (21 bp):
AAAAAAGATAAAATAAGTAAA
Found at i:8844634 original size:16 final size:16
Alignment explanation
Indices: 8844615--8844654 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
8844605 CAATTAATTA
**
8844615 TAATTAAAAAGCTATT
1 TAATTAAAAAAATATT
8844631 TAATTATAAAAAATATT
1 TAATTA-AAAAAATATT
8844648 TAATTAA
1 TAATTAA
8844655 CTAGGTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
TAATTAAAAAAATATT
Found at i:8849227 original size:43 final size:43
Alignment explanation
Indices: 8849158--8849383 Score: 323
Period size: 43 Copynumber: 5.3 Consensus size: 43
8849148 TTATGCGAAA
** **
8849158 AAGCGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTT-TCCCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCT-CCAC
* *
8849201 AAGCGTCGCTAAAGGCCATGTTCTTTAGCGGCACTTT-TCCCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCT-CCAC
*
8849244 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCAC
*
8849287 AAGCGCCGCTAAAGG-CATGTTTTTTAGCGGCGCTTTCTCCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCAC
* *
8849329 AAGTGCCGCTAAAGCCCATGTTCTTTAGCGGCGCTTTCTCCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCAC
8849372 AAGCGCCGCTAA
1 AAGCGCCGCTAA
8849384 TATAACAGAT
Statistics
Matches: 166, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
42 39 0.23
43 126 0.76
44 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCAC
Found at i:8849348 original size:85 final size:86
Alignment explanation
Indices: 8849161--8849383 Score: 317
Period size: 85 Copynumber: 2.6 Consensus size: 86
8849151 TGCGAAAAAG
* ** *
8849161 CGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTT-TCCCACAAGCGTCGCTAAAGGCCATGTTCT
1 CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTCT-CCACAAGCGCCGCTAAAGGCCATGTTCT
8849225 TTAGCGGCACTTTTCCCACAAA
65 TTAGCGGCACTTTTCCCACAAA
* *
8849247 CGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGG-CATGTTTTT
1 CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGGCCATGTTCTT
* *
8849311 TAGCGGCGC-TTTCTCCACAAG
66 TAGCGGCACTTTTC-CCACAAA
* *
8849332 TGCCGCTAAAGCCCATGTTCTTTAGCGGCGCTTTCTCCACAAGCGCCGCTAA
1 CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTCTCCACAAGCGCCGCTAA
8849384 TATAACAGAT
Statistics
Matches: 125, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
84 4 0.03
85 72 0.58
86 48 0.38
87 1 0.01
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.26
Consensus pattern (86 bp):
CGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTCTCCACAAGCGCCGCTAAAGGCCATGTTCTT
TAGCGGCACTTTTCCCACAAA
Found at i:8849471 original size:15 final size:15
Alignment explanation
Indices: 8849451--8849480 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8849441 CCTGTAAATT
8849451 CAAATCCAACCAATA
1 CAAATCCAACCAATA
8849466 CAAATCCAACCAATA
1 CAAATCCAACCAATA
8849481 ACTTCAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.13
Consensus pattern (15 bp):
CAAATCCAACCAATA
Found at i:8849488 original size:19 final size:17
Alignment explanation
Indices: 8849448--8849490 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 17
8849438 TTTCCTGTAA
8849448 ATTCAAATCCAACCAAT
1 ATTCAAATCCAACCAAT
8849465 A--CAAATCCAACCAAT
1 ATTCAAATCCAACCAAT
8849480 AACTTCAAATC
1 -A-TTCAAATC
8849491 TTAAAGGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 14 0.64
16 1 0.05
17 1 0.05
19 6 0.27
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (17 bp):
ATTCAAATCCAACCAAT
Found at i:8849716 original size:21 final size:21
Alignment explanation
Indices: 8849691--8849731 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8849681 GGTTCCTTCG
8849691 CTTGCCTCGCTGCTGCCTCCT
1 CTTGCCTCGCTGCTGCCTCCT
*
8849712 CTTGCCTCGCTGTTGCCTCC
1 CTTGCCTCGCTGCTGCCTCC
8849732 ACTTTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.46, G:0.20, T:0.34
Consensus pattern (21 bp):
CTTGCCTCGCTGCTGCCTCCT
Found at i:8849803 original size:66 final size:66
Alignment explanation
Indices: 8849726--8849874 Score: 253
Period size: 66 Copynumber: 2.3 Consensus size: 66
8849716 CCTCGCTGTT
* *
8849726 GCCTCCACTTTAAGTTGTAGATGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTGC
1 GCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGC
8849791 A
66 A
* * *
8849792 GCCTCCTCTTTAAGTTTTAGATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCTGC
1 GCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGC
8849857 A
66 A
8849858 GCCTCCTCTTTAAGTTG
1 GCCTCCTCTTTAAGTTG
8849875 AGCAATTTGC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (66 bp):
GCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGC
A
Found at i:8855349 original size:31 final size:33
Alignment explanation
Indices: 8855307--8855373 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
8855297 TTGATTTAAA
8855307 TTTAAAA-ATATATATTAGTGACAACATTTTAC
1 TTTAAAATATATATATTAGTGACAACATTTTAC
8855339 TTTAAAATATATATATTAGTGACAACATTTTAC
1 TTTAAAATATATATATTAGTGACAACATTTTAC
8855372 TT
1 TT
8855374 AAATATTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (33 bp):
TTTAAAATATATATATTAGTGACAACATTTTAC
Found at i:8855408 original size:8 final size:8
Alignment explanation
Indices: 8855395--8855482 Score: 83
Period size: 8 Copynumber: 10.8 Consensus size: 8
8855385 TAGTTTTCAT
8855395 TAATTAAA
1 TAATTAAA
8855403 TAATTAAA
1 TAATTAAA
*
8855411 T-ATTTAA
1 TAATTAAA
*
8855418 T--TTAGTA
1 TAATTA-AA
8855425 TAATTAAA
1 TAATTAAA
8855433 TAATTAAA
1 TAATTAAA
8855441 TAATTAAA
1 TAATTAAA
8855449 TAATTAATTA
1 TAATTAA--A
*
8855459 AAATTAAA
1 TAATTAAA
8855467 TAATTATATA
1 TAATTA-A-A
8855477 TAATTA
1 TAATTA
8855483 TTTACGAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
6 2 0.03
7 8 0.12
8 39 0.58
9 4 0.06
10 14 0.21
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (8 bp):
TAATTAAA
Found at i:8855446 original size:38 final size:34
Alignment explanation
Indices: 8855395--8855482 Score: 113
Period size: 38 Copynumber: 2.4 Consensus size: 34
8855385 TAGTTTTCAT
*
8855395 TAATTAAATAATTAAATATTTAATTTAGTATAATTAAA
1 TAATTAAATAATTAAATAATTAA-TTA--A-AATTAAA
8855433 TAATTAAATAATTAAATAATTAATTAAAATTAAA
1 TAATTAAATAATTAAATAATTAATTAAAATTAAA
8855467 TAATTATATATAATTA
1 TAATTA-A-ATAATTA
8855483 TTTACGAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
34 13 0.28
35 2 0.04
36 7 0.15
37 3 0.06
38 22 0.47
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (34 bp):
TAATTAAATAATTAAATAATTAATTAAAATTAAA
Found at i:8855458 original size:4 final size:4
Alignment explanation
Indices: 8855393--8855482 Score: 58
Period size: 4 Copynumber: 22.0 Consensus size: 4
8855383 GGTAGTTTTC
* * * * * *
8855393 ATTA ATTA AATA ATTA AATA TTTA ATTTA GTATA ATTA AATA ATTA AATA
1 ATTA ATTA ATTA ATTA ATTA ATTA A-TTA AT-TA ATTA ATTA ATTA ATTA
* *
8855443 ATTA AATA ATTA ATTA A--A ATTA AATA ATTA TATATA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA -AT-TA ATTA
8855483 TTTACGAAAA
Statistics
Matches: 64, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
2 2 0.03
4 50 0.78
5 10 0.16
6 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (4 bp):
ATTA
Found at i:8855521 original size:50 final size:49
Alignment explanation
Indices: 8855439--8855587 Score: 135
Period size: 50 Copynumber: 3.0 Consensus size: 49
8855429 TAAATAATTA
* * * *
8855439 AATAATTAAATAATTAATTAAAATTAAATAATTATATATAATTATTTAC
1 AATAAATACATAATTAAATATAATTAAATAATTATATATAATTATTTAC
* ** *
8855488 GA-AAATATTTTAAATTAAATATAATTAAATAATTA-AT-TGATATTGTTTAC
1 AATAAATA-CAT-AATTAAATATAATTAAATAATTATATAT-A-ATTATTTAC
*
8855538 AATTAAATACATAATTAAACATAATTAAATAATT-TAATATAATTATTTAC
1 AA-TAAATACATAATTAAATATAATTAAATAATTAT-ATATAATTATTTAC
8855588 TTTAATATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
48 5 0.06
49 5 0.06
50 59 0.75
51 4 0.05
52 6 0.08
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (49 bp):
AATAAATACATAATTAAATATAATTAAATAATTATATATAATTATTTAC
Found at i:8855654 original size:112 final size:112
Alignment explanation
Indices: 8855517--8856336 Score: 1222
Period size: 112 Copynumber: 7.4 Consensus size: 112
8855507 TATAATTAAA
*
8855517 TAATTAATTGATATTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
1 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
*
8855582 ATTTACTTTAATATAAATTAAATAATTAAATCTTTTAATTAAATAAT
66 ATTTACTTTAATATAAATTAAATAATTAAATCTTTTAATTAAATATT
8855629 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
1 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
8855694 ATTTACTTTAATATAAATTAAATAATTAAATCTTTTAATTAAATATT
66 ATTTACTTTAATATAAATTAAATAATTAAATCTTTTAATTAAATATT
* * * *
8855741 TAATTAATTTATACTGTTTACAATTAAATACATAATTAAACATGATTAATTGATTTAATATAATT
1 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
* * *
8855806 ATTGACTTTAATAT-AATTAAATAATTAAATATTTTAAATTAATTATT
66 ATTTACTTTAATATAAATTAAATAATTAAATCTTTT-AATTAAATATT
*
8855853 TAATTAATTGATACTGTTTATAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
1 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
* * *
8855918 ATTTAGTTTAATAT-AATT--A-AA-T--AT-TTTAAATTAATTATT
66 ATTTACTTTAATATAAATTAAATAATTAAATCTTTTAATTAAATATT
* * * *
8855957 TAATTAATTGGTACTGTTTATATTTTAATACATAATTAAACATAATTAAATAATTTAATATAATT
1 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
8856022 ATTTACTTTAATATAAATTAAATAATTAAATCTTTTAAATTAAATATT
66 ATTTACTTTAATATAAATTAAATAATTAAATCTTTT-AATTAAATATT
* *
8856070 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAATTGATTTAATATAATT
1 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
*
8856135 ATTTACTTTAATATAAATTAAATAAATAAATCTTTTAAATTAAATATT
66 ATTTACTTTAATATAAATTAAATAATTAAATCTTTT-AATTAAATATT
* *
8856183 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAATTGATTTAATATAATT
1 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
* *
8856248 ATTTAGTTT-A-AT--ATT---TAATTAAATCTTTCAAATTAAATATT
66 ATTTACTTTAATATAAATTAAATAATTAAATCTTT-TAATTAAATATT
* * * * * *
8856289 TAATTAACTAATAATGTTTATAATTAAATATATAATTAAATATAATTA
1 TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTA
8856337 TTTACTTTAA
Statistics
Matches: 658, Mismatches: 39, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
104 86 0.13
105 7 0.01
106 67 0.10
107 1 0.00
108 3 0.00
109 6 0.01
110 1 0.00
111 24 0.04
112 274 0.42
113 189 0.29
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.46
Consensus pattern (112 bp):
TAATTAATTGATACTGTTTACAATTAAATACATAATTAAACATAATTAAATAATTTAATATAATT
ATTTACTTTAATATAAATTAAATAATTAAATCTTTTAATTAAATATT
Found at i:8855934 original size:36 final size:35
Alignment explanation
Indices: 8855894--8856048 Score: 115
Period size: 36 Copynumber: 4.4 Consensus size: 35
8855884 ATAATTAAAC
8855894 ATAATTAAATAATTTAATATAATTATTTAGTTTAAT
1 ATAATTAAATAATTTAATATAATTATTTA-TTTAAT
* *
8855930 ATAATTAAATATTTTAA-ATTAATTATTTAATTAATT
1 ATAATTAAATAATTTAATA-TAATTATTTATTTAA-T
* * ** * * * *
8855966 GGTACTGTTTATATTTTAATA-CA-TA---ATTAAAC
1 -ATAAT-TAAATAATTTAATATAATTATTTATTTAAT
8855998 ATAATTAAATAATTTAATATAATTATTTACTTTAAT
1 ATAATTAAATAATTTAATATAATTATTTA-TTTAAT
8856034 ATAAATTAAATAATT
1 AT-AATTAAATAATT
8856049 AAATCTTTTA
Statistics
Matches: 89, Mismatches: 18, Indels: 23
0.68 0.14 0.18
Matches are distributed among these distances:
30 11 0.12
31 4 0.04
32 2 0.02
33 4 0.04
35 6 0.07
36 35 0.39
37 16 0.18
38 10 0.11
39 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (35 bp):
ATAATTAAATAATTTAATATAATTATTTATTTAAT
Found at i:8856058 original size:113 final size:113
Alignment explanation
Indices: 8855925--8856349 Score: 614
Period size: 113 Copynumber: 3.8 Consensus size: 113
8855915 ATTATTTAGT
* * * * * *
8855925 TTAATATAATTAAATATTTTAAATTAATTATTTAATTAATTGGTACTGTTTATATTTTAATACAT
1 TTAA-ATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACAT
* *
8855990 AATTAAACATAATTAAATAATTTAATATAATTATTTACTTTAATATAAA
65 AATTAAACATAATTAATTGATTTAATATAATTATTTACTTTAATATAAA
8856039 TTAAATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
1 TTAAATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
8856104 ATTAAACATAATTAATTGATTTAATATAATTATTTACTTTAATATAAA
66 ATTAAACATAATTAATTGATTTAATATAATTATTTACTTTAATATAAA
*
8856152 TTAAATAAATAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
1 TTAAATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
*
8856217 ATTAAACATAATTAATTGATTTAATATAATTATTTAGTTT-A-AT--A
66 ATTAAACATAATTAATTGATTTAATATAATTATTTACTTTAATATAAA
* * * * * *
8856261 TT---TAATTAAATCTTTCAAATTAAATATTTAATTAACTAATAATGTTTATAATTAAATATATA
1 TTAAATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
* *
8856323 ATTAAATATAATT-ATTTACTTTAATAT
66 ATTAAACATAATTAATTGA-TTTAATAT
8856350 TTTAAATTAA
Statistics
Matches: 291, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
105 4 0.01
106 73 0.25
109 3 0.01
111 2 0.01
112 1 0.00
113 204 0.70
114 4 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (113 bp):
TTAAATAATTAAATCTTTTAAATTAAATATTTAATTAATTGATACTGTTTACAATTAAATACATA
ATTAAACATAATTAATTGATTTAATATAATTATTTACTTTAATATAAA
Found at i:8856070 original size:45 final size:48
Alignment explanation
Indices: 8855980--8856071 Score: 111
Period size: 45 Copynumber: 2.0 Consensus size: 48
8855970 CTGTTTATAT
*
8855980 TTTAATACATAATTAAACATAATTAAATAATTTAATATAATTATTTAC
1 TTTAATACATAATTAAACATAATTAAATAATTTAATATAAATATTTAC
* **
8856028 TTTAATATA-AATT-AA-ATAATTAAATCTTTTAA-ATTAAATATTTA
1 TTTAATACATAATTAAACATAATTAAATAATTTAATA-TAAATATTTA
8856072 ATTAATTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
44 1 0.03
45 24 0.62
46 2 0.05
47 4 0.10
48 8 0.21
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (48 bp):
TTTAATACATAATTAAACATAATTAAATAATTTAATATAAATATTTAC
Found at i:8856134 original size:18 final size:19
Alignment explanation
Indices: 8856111--8856155 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
8856101 ATAATTAAAC
8856111 ATAATTAATTGA-TTTAAT
1 ATAATTAATTGACTTTAAT
*
8856129 ATAATT-ATTTACTTTAAT
1 ATAATTAATTGACTTTAAT
8856147 ATAAATTAA
1 AT-AATTAA
8856156 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 4 0.17
20 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAATTAATTGACTTTAAT
Found at i:8856247 original size:18 final size:18
Alignment explanation
Indices: 8856224--8856261 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8856214 ATAATTAAAC
8856224 ATAATTAATTGA-TTTAAT
1 ATAATT-ATTGAGTTTAAT
*
8856242 ATAATTATTTAGTTTAAT
1 ATAATTATTGAGTTTAAT
8856260 AT
1 AT
8856262 TTAATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
ATAATTATTGAGTTTAAT
Found at i:8856251 original size:13 final size:12
Alignment explanation
Indices: 8856225--8856295 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 12
8856215 TAATTAAACA
8856225 TAATTAATTGATT
1 TAATTAATT-ATT
8856238 TAATATAATTATT
1 TAAT-TAATTATT
*
8856251 TAGTTTAA-TATT
1 TA-ATTAATTATT
* *
8856263 TAATTAAATCTT
1 TAATTAATTATT
*
8856275 TCAAATTAAATATT
1 T--AATTAATTATT
8856289 TAATTAA
1 TAATTAA
8856296 CTAATAATGT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
11 4 0.08
12 16 0.33
13 12 0.24
14 17 0.35
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (12 bp):
TAATTAATTATT
Found at i:8856295 original size:12 final size:12
Alignment explanation
Indices: 8856204--8856384 Score: 75
Period size: 12 Copynumber: 14.8 Consensus size: 12
8856194 TACTGTTTAC
**
8856204 AATTAAATACAT
1 AATTAAATATTT
*
8856216 AATTAAACA--T
1 AATTAAATATTT
*
8856226 AATTAATTGATTT
1 AATTAAAT-ATTT
*
8856239 AATATAATTATTT
1 AAT-TAAATATTT
* *
8856252 AGTTTAATATTT
1 AATTAAATATTT
*
8856264 AATTAAATCTTT
1 AATTAAATATTT
8856276 CAAATTAAATATTT
1 --AATTAAATATTT
* *
8856290 AATTAACTA-AT
1 AATTAAATATTT
** *
8856301 AATGTTTATAATT
1 AAT-TAAATATTT
* * *
8856314 AAATATATAATTA
1 AATTAAAT-ATTT
*
8856327 AATATAATTATTT
1 AAT-TAAATATTT
* *
8856340 ACTTTAATATTTT
1 AATTAAATA-TTT
8856353 AAATTAAATATTT
1 -AATTAAATATTT
8856366 AATTAAATA--T
1 AATTAAATATTT
8856376 AATTAAATA
1 AATTAAATA
8856385 ATAATTTCCT
Statistics
Matches: 128, Mismatches: 29, Indels: 26
0.70 0.16 0.14
Matches are distributed among these distances:
10 17 0.13
11 5 0.04
12 52 0.41
13 28 0.22
14 26 0.20
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (12 bp):
AATTAAATATTT
Found at i:8856328 original size:44 final size:42
Alignment explanation
Indices: 8856278--8856391 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 42
8856268 AAATCTTTCA
8856278 AATTAAATATTTAATTAACTAATAATGTTTATAATTAAATATAT
1 AATTAAATATTTAATTAACTAATAAT-TTTA-AATTAAATATAT
* *
8856322 AATTAAATATAATT-ATTTACTTTAAT-ATTTTAAATTAAATATTT
1 AATTAAATAT--TTAATTAAC--TAATAATTTTAAATTAAATATAT
*
8856366 AATTAAATA--TAATTAAATAATAATTT
1 AATTAAATATTTAATTAACTAATAATTT
8856392 CCTTTAAAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
39 4 0.07
40 5 0.08
41 4 0.07
44 30 0.50
45 9 0.15
46 4 0.07
47 4 0.07
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (42 bp):
AATTAAATATTTAATTAACTAATAATTTTAAATTAAATATAT
Found at i:8856366 original size:26 final size:27
Alignment explanation
Indices: 8856309--8856384 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 27
8856299 ATAATGTTTA
*
8856309 TAATTAAATATATAATTAAATATAATTATT
1 TAATTAAATAT-T--TTAAATATAAATATT
* *
8856339 TACTTTAATATTTTAAAT-TAAATATT
1 TAATTAAATATTTTAAATATAAATATT
*
8856365 TAATTAAATATAATTAAATA
1 TAATTAAATAT-TTTAAATA
8856385 ATAATTTCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 16 0.42
27 12 0.32
29 1 0.03
30 9 0.24
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATTAAATATTTTAAATATAAATATT
Found at i:8857566 original size:16 final size:18
Alignment explanation
Indices: 8857532--8857566 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
8857522 ATTATTTGTT
8857532 TTTTTCTTTTAAATCTAA
1 TTTTTCTTTTAAATCTAA
8857550 TTTTT-TTTTAAAT-TAA
1 TTTTTCTTTTAAATCTAA
8857566 T
1 T
8857567 CAAACTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTCTTTTAAATCTAA
Found at i:8858761 original size:41 final size:42
Alignment explanation
Indices: 8858666--8858782 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 42
8858656 CGCTTATGGG
* * *
8858666 AAAGCGCCGCTAAT-TC-ACACCTTTAGTGGCGCTTATTATA
1 AAAGCGCCGCTAATGACAAGACCTTTAGCGGCGCTTATTATA
*
8858706 AAAGCGCCACTAATGACAAGACCTTTAGCGGCGCATT-TT-TA
1 AAAGCGCCGCTAATGACAAGACCTTTAGCGGCGC-TTATTATA
*
8858747 TAAGCGCCGCTAATGACAAGACCTTTAGCGGCGCTT
1 AAAGCGCCGCTAATGACAAGACCTTTAGCGGCGCTT
8858783 TGTGAAAAGC
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
40 15 0.22
41 35 0.51
42 16 0.24
43 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (42 bp):
AAAGCGCCGCTAATGACAAGACCTTTAGCGGCGCTTATTATA
Found at i:8864015 original size:18 final size:17
Alignment explanation
Indices: 8863994--8864037 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
8863984 AATGTAGCAG
*
8863994 AAAATAATAAAACAAAGA
1 AAAATAAAAAAAC-AAGA
*
8864012 AAAACTAAAAAAACTAGA
1 AAAA-TAAAAAAACAAGA
8864030 AAAATAAA
1 AAAATAAA
8864038 TATCAGACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 11 0.48
19 8 0.35
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAAACAAGA
Found at i:8865425 original size:14 final size:14
Alignment explanation
Indices: 8865408--8865437 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8865398 TCAAATATTT
*
8865408 TTTTTGTAAAATTA
1 TTTTTGAAAAATTA
8865422 TTTTTGAAAAATTA
1 TTTTTGAAAAATTA
8865436 TT
1 TT
8865438 CCAATTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTTTGAAAAATTA
Found at i:8866925 original size:17 final size:17
Alignment explanation
Indices: 8866885--8866926 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
8866875 TTTAAAGAAT
* *
8866885 CAAATATTTTAATATTA
1 CAAATCTTTTAAGATTA
8866902 CAAATCTTTTAAGATTA
1 CAAATCTTTTAAGATTA
*
8866919 CATATCTT
1 CAAATCTT
8866927 CAAAGATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (17 bp):
CAAATCTTTTAAGATTA
Found at i:8868190 original size:35 final size:35
Alignment explanation
Indices: 8868131--8868208 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
8868121 ATGTTCAAAC
* * *
8868131 CTGAGACCCTTAAGATGGACAATATTTTTTTTCCA
1 CTGAAACCCCTAAGATGAACAATATTTTTTTTCCA
*
8868166 CTGAAACCCCTAAGATGAATAATATTTTTTTTCCA
1 CTGAAACCCCTAAGATGAACAATATTTTTTTTCCA
*
8868201 CTAAAACC
1 CTGAAACC
8868209 ACTTATTAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (35 bp):
CTGAAACCCCTAAGATGAACAATATTTTTTTTCCA
Found at i:8873200 original size:21 final size:21
Alignment explanation
Indices: 8873162--8873202 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8873152 CAACTACAGA
* * *
8873162 AGGAGGTTACCCATCTTCAAC
1 AGGAGGTGACCAAGCTTCAAC
8873183 AGGAGGTGACCAAGCTTCAA
1 AGGAGGTGACCAAGCTTCAA
8873203 ACTGAGTTAC
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:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (21 bp):
AGGAGGTGACCAAGCTTCAAC
Found at i:8881237 original size:31 final size:31
Alignment explanation
Indices: 8881169--8881239 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
8881159 ACTTAAAATC
* **
8881169 TCAATGATTTAAATAAAAATTTTCAAATGGT
1 TCAATAATTTAAATAAAAATTTTCAAATAAT
* * *
8881200 TCAATAATTTTAATGAAAATTTTCGAATAAT
1 TCAATAATTTAAATAAAAATTTTCAAATAAT
*
8881231 TTAATAATT
1 TCAATAATT
8881240 ATTTTAATCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (31 bp):
TCAATAATTTAAATAAAAATTTTCAAATAAT
Found at i:8904237 original size:8 final size:8
Alignment explanation
Indices: 8904224--8904270 Score: 76
Period size: 8 Copynumber: 5.8 Consensus size: 8
8904214 TTTTATTAGG
8904224 AATTTTAT
1 AATTTTAT
8904232 AATTTTAT
1 AATTTTAT
8904240 AATTTTAT
1 AATTTTAT
*
8904248 GATTTTAT
1 AATTTTAT
8904256 AATTTTAT
1 AATTTTAT
8904264 AACTTTT
1 AA-TTTT
8904271 TTGTTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
8 32 0.89
9 4 0.11
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (8 bp):
AATTTTAT
Found at i:8908184 original size:10 final size:9
Alignment explanation
Indices: 8908126--8908345 Score: 105
Period size: 9 Copynumber: 23.6 Consensus size: 9
8908116 CCAATTCAAG
8908126 TTTTTATAA
1 TTTTTATAA
8908135 TTTTTATAA
1 TTTTTATAA
* *
8908144 GTGTATATTAA
1 -TTTTTA-TAA
* *
8908155 TTTTAATAC
1 TTTTTATAA
*
8908164 TTTTAATAA
1 TTTTTATAA
8908173 TTTTCTATAA
1 TTTT-TATAA
*
8908183 TTTTTATGA
1 TTTTTATAA
8908192 TTTTTATAGA
1 TTTTTATA-A
* * *
8908202 ATTTAATACG
1 TTTTTATA-A
*
8908212 CTTTTATAA
1 TTTTTATAA
8908221 TATTTTA-AA
1 T-TTTTATAA
8908230 TATGTTTATTAA
1 T-T-TTTA-TAA
8908242 -TTTTATAA
1 TTTTTATAA
8908250 TTTTTTTATAA
1 --TTTTTATAA
8908261 TTTTT-TAAA
1 TTTTTAT-AA
8908270 TTTTTTATAA
1 -TTTTTATAA
* * *
8908280 TATCTATAT
1 TTTTTATAA
8908289 TTTTTATAA
1 TTTTTATAA
8908298 GTTTTTATCAA
1 -TTTTTAT-AA
*
8908309 -TTTT-CAA
1 TTTTTATAA
8908316 TTTTT-TAA
1 TTTTTATAA
*
8908324 --TTAATAA
1 TTTTTATAA
8908331 TTTTTATAA
1 TTTTTATAA
8908340 GTTTTT
1 -TTTTT
8908346 TTTCTGATTT
Statistics
Matches: 162, Mismatches: 28, Indels: 41
0.70 0.12 0.18
Matches are distributed among these distances:
6 2 0.01
7 5 0.03
8 10 0.06
9 72 0.44
10 57 0.35
11 14 0.09
12 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:8908273 original size:19 final size:19
Alignment explanation
Indices: 8908213--8908304 Score: 87
Period size: 19 Copynumber: 4.8 Consensus size: 19
8908203 TTTAATACGC
*
8908213 TTTTATAATATTTTAAATAT
1 TTTTATAATTTTTTAAAT-T
* * *
8908233 GTTTATTAATTTTATAATTT
1 TTTTA-TAATTTTTTAAATT
8908253 TTTTATAATTTTTTAAATT
1 TTTTATAATTTTTTAAATT
* * *
8908272 TTTTATAA-TATCTATATT
1 TTTTATAATTTTTTAAATT
*
8908290 TTTTATAAGTTTTTA
1 TTTTATAATTTTTTA
8908305 TCAATTTTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
18 15 0.26
19 24 0.41
20 9 0.16
21 10 0.17
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTAAATT
Found at i:8908389 original size:21 final size:20
Alignment explanation
Indices: 8908343--8908393 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
8908333 TTTATAAGTT
* *
8908343 TTTTTTCTGATTTTTTATAA
1 TTTTTTATGATTTTTAATAA
*
8908363 TATTTTTATGATATTTTAATCA
1 T-TTTTTATGAT-TTTTAATAA
8908385 -TTTTTATGA
1 TTTTTTATGA
8908394 GAAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.38
21 9 0.35
22 7 0.27
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTTTTATGATTTTTAATAA
Found at i:8919371 original size:23 final size:22
Alignment explanation
Indices: 8919341--8919497 Score: 127
Period size: 23 Copynumber: 6.7 Consensus size: 22
8919331 ACACTAGCGC
*
8919341 GCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGTTTAGCACGTGT-GT
8919364 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCAC-GTGTGT
* *
8919389 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGTTTAGCAC-GTGTGT
* * *
8919412 GCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGTTTAGCAC-GTGTGT
*
8919435 ACTCTCTGTTTAGCACTGTGTGT
1 GCTCTCTGTTTAGCAC-GTGTGT
* * *
8919458 GCTCTCTATTGCCTAGCACTTATGT
1 GCTCTCTGTT---TAGCACGTGTGT
8919483 GCTCTCTG-TTAGCAC
1 GCTCTCTGTTTAGCAC
8919498 TTTGGTACTC
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
21 6 0.05
23 70 0.61
24 2 0.02
25 28 0.24
26 9 0.08
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42
Consensus pattern (22 bp):
GCTCTCTGTTTAGCACGTGTGT
Found at i:8919441 original size:46 final size:47
Alignment explanation
Indices: 8919342--8919464 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 47
8919332 CACTAGCGCG
* * *
8919342 CTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGTTATTAGCACTGTGTGTG
1 CTCTCTGATTAGCACTGTGT-GTGCTCTCTG-TATTAGCACTGTGTGTA
* * *
8919390 CTCTCTGATTAGCACTTTGTGTGCTCTCTG-ATTAGTACTTTGTGTA
1 CTCTCTGATTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGTA
*
8919436 CTCTCTGTTTAGCACTGTGTGTGCTCTCT
1 CTCTCTGATTAGCACTGTGTGTGCTCTCT
8919465 ATTGCCTAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 40 0.61
48 24 0.36
49 2 0.03
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (47 bp):
CTCTCTGATTAGCACTGTGTGTGCTCTCTGTATTAGCACTGTGTGTA
Found at i:8919509 original size:46 final size:44
Alignment explanation
Indices: 8919375--8919514 Score: 142
Period size: 46 Copynumber: 3.0 Consensus size: 44
8919365 CTCTCTGTTA
8919375 TTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGA-
1 TTAGCACT-T-TGTGCTCTCTGATTAGCACTTTGTGTGCTCTCT-AT
* * *
8919421 TTAGTACTTTGTGTACTCTCTGTTTAGCACTGTGTGTGCTCTCTAT
1 TTAGCACTTTGTG--CTCTCTGATTAGCACTTTGTGTGCTCTCTAT
*
8919467 TGCCTAGCACTTATGTGCTCTCTG-TTAGCACTTTG-GTACTCTCTAT
1 T---TAGCACTT-TGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTAT
8919513 TT
1 TT
8919515 GTTCCGTATA
Statistics
Matches: 81, Mismatches: 6, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
43 1 0.01
44 4 0.05
45 2 0.02
46 46 0.57
47 10 0.12
48 7 0.09
49 7 0.09
50 4 0.05
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (44 bp):
TTAGCACTTTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTAT
Found at i:8921140 original size:16 final size:17
Alignment explanation
Indices: 8921121--8921155 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
8921111 TCAGTTTATA
8921121 ATTTTTTTAAT-ATTTT
1 ATTTTTTTAATAATTTT
*
8921137 ATTTTTTTATTAATTTT
1 ATTTTTTTAATAATTTT
8921154 AT
1 AT
8921156 GAATATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTTAATAATTTT
Found at i:8925993 original size:19 final size:19
Alignment explanation
Indices: 8925971--8926009 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8925961 TGATATAAGC
* *
8925971 TTATAAATCTTATAAAATA
1 TTATAAATATTAAAAAATA
8925990 TTATAAATATTAAAAAATA
1 TTATAAATATTAAAAAATA
8926009 T
1 T
8926010 AAAAAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TTATAAATATTAAAAAATA
Found at i:8925998 original size:9 final size:9
Alignment explanation
Indices: 8925926--8926001 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
8925916 TAAGTAGAAA
*
8925926 ATTAAAAAT
1 ATTATAAAT
8925935 ATTATTAAAT
1 ATTA-TAAAT
*
8925945 ATTA-AAAA
1 ATTATAAAT
8925953 ATTA-AAAT
1 ATTATAAAT
* *
8925961 -TGATATAAG
1 ATTATA-AAT
*
8925970 CTTATAAAT
1 ATTATAAAT
*
8925979 CTTATAAAAT
1 ATTAT-AAAT
8925989 ATTATAAAT
1 ATTATAAAT
8925998 ATTA
1 ATTA
8926002 AAAAATATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
7 2 0.04
8 11 0.20
9 21 0.39
10 20 0.37
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (9 bp):
ATTATAAAT
Found at i:8926679 original size:21 final size:22
Alignment explanation
Indices: 8926654--8926694 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8926644 GATTATATTG
8926654 TTATTTTAG-TGCTGTTTTTTA
1 TTATTTTAGTTGCTGTTTTTTA
*
8926675 TTATTTTTGTTGCTGTTTTT
1 TTATTTTAGTTGCTGTTTTT
8926695 ACTGTTTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.10, C:0.05, G:0.15, T:0.71
Consensus pattern (22 bp):
TTATTTTAGTTGCTGTTTTTTA
Found at i:8926742 original size:11 final size:11
Alignment explanation
Indices: 8926728--8926767 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
8926718 CGTTTTAATT
8926728 TTTTTGTGTTG
1 TTTTTGTGTTG
* *
8926739 TTTTTTTATTG
1 TTTTTGTGTTG
*
8926750 TTTTGGTGTTG
1 TTTTTGTGTTG
8926761 TTTTTGT
1 TTTTTGT
8926768 TGCTATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.23, T:0.75
Consensus pattern (11 bp):
TTTTTGTGTTG
Found at i:8926744 original size:21 final size:22
Alignment explanation
Indices: 8926720--8926765 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8926710 TTTTTCAACG
*
8926720 TTTTAATT-TTTTTGTGTTGTT
1 TTTTAATTGTTTTGGTGTTGTT
*
8926741 TTTTTATTGTTTTGGTGTTGTT
1 TTTTAATTGTTTTGGTGTTGTT
8926763 TTT
1 TTT
8926766 GTTGCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.07, C:0.00, G:0.17, T:0.76
Consensus pattern (22 bp):
TTTTAATTGTTTTGGTGTTGTT
Found at i:8926780 original size:21 final size:21
Alignment explanation
Indices: 8926756--8926833 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
8926746 ATTGTTTTGG
8926756 TGTTGTTTTTGTTGCTATTTT
1 TGTTGTTTTTGTTGCTATTTT
* *
8926777 TGTTGTTTTCGTTGTTATTTT
1 TGTTGTTTTTGTTGCTATTTT
*
8926798 GCTGTTCTTTTT-TCTGCTA-TTT
1 --TGTTGTTTTTGT-TGCTATTTT
*
8926820 GGTTGTTTTTGTTG
1 TGTTGTTTTTGTTG
8926834 TTGTTTTGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 10 0.22
21 20 0.43
22 4 0.09
23 12 0.26
ACGTcount: A:0.04, C:0.08, G:0.21, T:0.68
Consensus pattern (21 bp):
TGTTGTTTTTGTTGCTATTTT
Found at i:8926783 original size:43 final size:43
Alignment explanation
Indices: 8926729--8926852 Score: 126
Period size: 43 Copynumber: 2.8 Consensus size: 43
8926719 GTTTTAATTT
* * *
8926729 TTTTGTGTTGTTTTTTTATTGTTTTGGTGTTGTTTTTGT-TGCTA
1 TTTT-TGTTGTTTTTTTGTTGTTTTGATGTTATTTTT-TCTGCTA
* * * *
8926773 TTTTTGTTGTTTTCGTTGTTATTTTGCTGTTCTTTTTTCTGCTA
1 TTTTTGTTGTTTT-TTTGTTGTTTTGATGTTATTTTTTCTGCTA
*
8926817 -TTTGGTTGTTTTTGTTGTTGTTTTGATGTTATTTTT
1 TTTTTGTTGTTTTT-TTGTTGTTTTGATGTTATTTTT
8926853 ATACGTTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
43 40 0.60
44 27 0.40
ACGTcount: A:0.05, C:0.05, G:0.20, T:0.70
Consensus pattern (43 bp):
TTTTTGTTGTTTTTTTGTTGTTTTGATGTTATTTTTTCTGCTA
Found at i:8927075 original size:13 final size:13
Alignment explanation
Indices: 8927057--8927086 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8927047 AATTTGTTGT
*
8927057 ATATAATAAATTA
1 ATATAAAAAATTA
8927070 ATATAAAAAATTA
1 ATATAAAAAATTA
8927083 ATAT
1 ATAT
8927087 GGGATGGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:8930522 original size:17 final size:16
Alignment explanation
Indices: 8930502--8930533 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8930492 AAGACTTCAT
8930502 AAAAATAAAAATATTTA
1 AAAAATAAAAA-ATTTA
8930519 AAAAATAAAAAATTT
1 AAAAATAAAAAATTT
8930534 GATTCAGTCA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATAAAAAATTTA
Found at i:8936803 original size:22 final size:22
Alignment explanation
Indices: 8936778--8936837 Score: 120
Period size: 22 Copynumber: 2.7 Consensus size: 22
8936768 ATTACCAGTG
8936778 GAAATTAGAGATGAATCATGAT
1 GAAATTAGAGATGAATCATGAT
8936800 GAAATTAGAGATGAATCATGAT
1 GAAATTAGAGATGAATCATGAT
8936822 GAAATTAGAGATGAAT
1 GAAATTAGAGATGAAT
8936838 ACTCTAATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.23, T:0.27
Consensus pattern (22 bp):
GAAATTAGAGATGAATCATGAT
Found at i:8936814 original size:12 final size:12
Alignment explanation
Indices: 8936778--8936836 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 12
8936768 ATTACCAGTG
8936778 GAAATTAGAGAT
1 GAAATTAGAGAT
* *
8936790 G-AATCA-TGAT
1 GAAATTAGAGAT
8936800 GAAATTAGAGAT
1 GAAATTAGAGAT
* *
8936812 G-AATCA-TGAT
1 GAAATTAGAGAT
8936822 GAAATTAGAGAT
1 GAAATTAGAGAT
8936834 GAA
1 GAA
8936837 TACTCTAATG
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
10 8 0.23
11 16 0.46
12 11 0.31
ACGTcount: A:0.47, C:0.03, G:0.24, T:0.25
Consensus pattern (12 bp):
GAAATTAGAGAT
Found at i:8942758 original size:6 final size:6
Alignment explanation
Indices: 8942747--8942780 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
8942737 GCCATCATCA
*
8942747 CCACCT CCACCT CCACCT CCACC- CCCCCT CCACC
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACC
8942781 GCCTCCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.15, C:0.74, G:0.00, T:0.12
Consensus pattern (6 bp):
CCACCT
Found at i:8951427 original size:9 final size:9
Alignment explanation
Indices: 8951409--8951462 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
8951399 TTCAGCAAAT
8951409 AATT-TTAA
1 AATTATTAA
8951417 AATTATTAA
1 AATTATTAA
8951426 AATTATT--
1 AATTATTAA
8951433 --TT-TTAA
1 AATTATTAA
*
8951439 AAATA-TAA
1 AATTATTAA
8951447 AATTATTAA
1 AATTATTAA
8951456 AATTATT
1 AATTATT
8951463 TTAATATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
4 2 0.05
5 2 0.05
8 12 0.32
9 21 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AATTATTAA
Found at i:8951447 original size:21 final size:22
Alignment explanation
Indices: 8951411--8951453 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
8951401 CAGCAAATAA
*
8951411 TTTTAAAATTATTAAAATTATT
1 TTTTAAAAATATTAAAATTATT
8951433 TTTTAAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAATTATT
8951454 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAAATATTAAAATTATT
Found at i:8952234 original size:99 final size:99
Alignment explanation
Indices: 8952052--8952249 Score: 306
Period size: 99 Copynumber: 2.0 Consensus size: 99
8952042 TTCCTAAGAA
* * *
8952052 ATGAGATTGAAATAGAGAACCTTGAAGGGTTAAGAGAGTGATGGAAGAAGAAGAAGTCATGGTTT
1 ATGAGATTAAAATAGAGAACCTTGAAGGGTTAAGAGAGTGATGGAAAAAGAAGAAGCCATGGTTT
*
8952117 GATTCAAAATTCAAGTGGAGAAGTAGCCATGGTT
66 GATTCAAAATCCAAGTGGAGAAGTAGCCATGGTT
**
8952151 ATGAGATTAAAATAGAGAACCTTGAAGGGTTGGGAGAGTGATGGAAAAAGAAGAAGCCATGGTTT
1 ATGAGATTAAAATAGAGAACCTTGAAGGGTTAAGAGAGTGATGGAAAAAGAAGAAGCCATGGTTT
* * * *
8952216 GGTTTAGAATCCACGTGGAGAAGTAGCCATGGTT
66 GATTCAAAATCCAAGTGGAGAAGTAGCCATGGTT
8952250 TGGTTCAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.37, C:0.08, G:0.31, T:0.24
Consensus pattern (99 bp):
ATGAGATTAAAATAGAGAACCTTGAAGGGTTAAGAGAGTGATGGAAAAAGAAGAAGCCATGGTTT
GATTCAAAATCCAAGTGGAGAAGTAGCCATGGTT
Found at i:8952453 original size:27 final size:28
Alignment explanation
Indices: 8952418--8952474 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
8952408 ATTTTAAATT
*
8952418 TATTTT-AAAATAATTTTAGTAATTTTA
1 TATTTTAAAAATAATTTTAATAATTTTA
8952445 TATTTTAAAAAAATAATTTTAATAATTTTA
1 TATTTT--AAAAATAATTTTAATAATTTTA
8952475 AAATTATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 6 0.23
30 20 0.77
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TATTTTAAAAATAATTTTAATAATTTTA
Found at i:8957266 original size:30 final size:28
Alignment explanation
Indices: 8957207--8957287 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 28
8957197 TTTGCCATAC
*
8957207 AACTTT-TATTTTATTGAATTTTATCATT
1 AACTTTGTATTTTATTAAATTTTA-CATT
8957235 AAACTTTGTATTTTACTTAAATTTT-CAATT
1 -AACTTTGTATTTTA-TTAAATTTTAC-ATT
*
8957265 AATTTTG-ATTTTTAATTAAATTT
1 AACTTTGTA-TTTT-ATTAAATTT
8957288 ATCATTTATG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
28 1 0.02
29 25 0.56
30 11 0.24
31 8 0.18
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (28 bp):
AACTTTGTATTTTATTAAATTTTACATT
Found at i:8961920 original size:90 final size:91
Alignment explanation
Indices: 8961766--8961943 Score: 295
Period size: 90 Copynumber: 2.0 Consensus size: 91
8961756 GGGAATTATG
* * *
8961766 GATACTTTGGTTGCGAAGATAAGAAGTTTTTGGTTGGAGAGCAAGAAGCAGTGGAGGGGATGGGC
1 GATACCTTGGTTGCGAAGATAAGAAGTTTTTGGTGGGAGAGCAAGAAGCAGGGGAGGGGATGGGC
*
8961831 TATGTTAAGATTGGAAAGTCTGTATA
66 TATGTTAAGATGGGAAAGTCTGTATA
* *
8961857 GATACCTTGGTTGTGAAGATAAGAA-TTTTTTGTGGGAGAGCAAGAAGCAGGGGAGGGGATGGGC
1 GATACCTTGGTTGCGAAGATAAGAAGTTTTTGGTGGGAGAGCAAGAAGCAGGGGAGGGGATGGGC
8961921 TATGTTAAGATGGGAAAGTCTGT
66 TATGTTAAGATGGGAAAGTCTGT
8961944 GCACTCCAAA
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
90 58 0.72
91 23 0.28
ACGTcount: A:0.29, C:0.07, G:0.37, T:0.28
Consensus pattern (91 bp):
GATACCTTGGTTGCGAAGATAAGAAGTTTTTGGTGGGAGAGCAAGAAGCAGGGGAGGGGATGGGC
TATGTTAAGATGGGAAAGTCTGTATA
Found at i:8970176 original size:2 final size:2
Alignment explanation
Indices: 8970169--8970214 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
8970159 AAATACATAC
8970169 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8970211 AT AT
1 AT AT
8970215 GCAATTAAGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8982579 original size:21 final size:21
Alignment explanation
Indices: 8982533--8982579 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
8982523 TATTTAATAT
8982533 AAAA-TATAATTAGTTGAATC
1 AAAATTATAATTAGTTGAATC
**
8982553 GTAATTATAATTA-TTCGAATC
1 AAAATTATAATTAGTT-GAATC
8982574 AAAATT
1 AAAATT
8982580 CAAATAGAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (21 bp):
AAAATTATAATTAGTTGAATC
Found at i:8997769 original size:80 final size:80
Alignment explanation
Indices: 8997636--8997799 Score: 247
Period size: 80 Copynumber: 2.0 Consensus size: 80
8997626 GTTGTGGGAC
* * *
8997636 GAGGATGATTTTGGGTTTTGTACCCGTTGCGGGTTGCGAGGAGATTATAAGGATAAAAATTCTTG
1 GAGGATGATTTTGGGTTTTGTACCCGGTGCAGGTTGCGAGGAGATGATAAGGATAAAAATTCTTG
* *
8997701 GTGGGGATGGGTGTG
66 GCGAGGATGGGTGTG
* * * *
8997716 GAGGATGGTTTTGGGTTTTGTACTCGGTGCAGGTTGCGGGGCGATGATAAGGATAAAAATTCTTG
1 GAGGATGATTTTGGGTTTTGTACCCGGTGCAGGTTGCGAGGAGATGATAAGGATAAAAATTCTTG
8997781 GCGAGGATGGGTGTG
66 GCGAGGATGGGTGTG
8997796 GAGG
1 GAGG
8997800 GAGCATTCTT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.21, C:0.08, G:0.41, T:0.30
Consensus pattern (80 bp):
GAGGATGATTTTGGGTTTTGTACCCGGTGCAGGTTGCGAGGAGATGATAAGGATAAAAATTCTTG
GCGAGGATGGGTGTG
Found at i:9000463 original size:9 final size:9
Alignment explanation
Indices: 9000449--9000478 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
9000439 AGTTTATATC
9000449 TTCTTCCTT
1 TTCTTCCTT
9000458 TTCTTCCTT
1 TTCTTCCTT
9000467 TTCTTCACTT
1 TTCTTC-CTT
9000477 TT
1 TT
9000479 TTAGTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (9 bp):
TTCTTCCTT
Found at i:9007508 original size:27 final size:27
Alignment explanation
Indices: 9007419--9007493 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
9007409 TGGTACAAGG
*
9007419 GTGGTGCCTACCTGACATGCGGCACTA
1 GTGGTGCCTACCTGACAGGCGGCACTA
*
9007446 GTGGTGTCTACCTGACAGGCGGCACTA
1 GTGGTGCCTACCTGACAGGCGGCACTA
*
9007473 GTGGTGCCTACCTGTCAGGCG
1 GTGGTGCCTACCTGACAGGCG
9007494 ACACCAACGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.16, C:0.28, G:0.33, T:0.23
Consensus pattern (27 bp):
GTGGTGCCTACCTGACAGGCGGCACTA
Found at i:9007528 original size:27 final size:27
Alignment explanation
Indices: 9007421--9007518 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 27
9007411 GTACAAGGGT
* * * * **
9007421 GGTGCCTACCTGACATGCGGCACTAGT
1 GGTGCCTACCTGTCAGGCGACACCAAC
* * * * **
9007448 GGTGTCTACCTGACAGGCGGCACTAGT
1 GGTGCCTACCTGTCAGGCGACACCAAC
9007475 GGTGCCTACCTGTCAGGCGACACCAAC
1 GGTGCCTACCTGTCAGGCGACACCAAC
*
9007502 GGTGCCTTCCTGTCAGG
1 GGTGCCTACCTGTCAGG
9007519 TGGCATCAAC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.21
Consensus pattern (27 bp):
GGTGCCTACCTGTCAGGCGACACCAAC
Found at i:9008753 original size:28 final size:29
Alignment explanation
Indices: 9008699--9008753 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
9008689 ATTTTTTTAA
**
9008699 TTTTATATTATTATTTTAGTATTAAATTT
1 TTTTATATTATTATTTTAGTAAAAAATTT
9008728 TTTTATA-TATTATTATT-GTAAAAAAT
1 TTTTATATTATTATT-TTAGTAAAAAAT
9008754 CCACATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (29 bp):
TTTTATATTATTATTTTAGTAAAAAATTT
Found at i:9008848 original size:15 final size:14
Alignment explanation
Indices: 9008822--9008851 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
9008812 ATATTTTTAT
9008822 ATTAAAAAAATTAA
1 ATTAAAAAAATTAA
9008836 ATTAAATAAAATTAA
1 ATTAAA-AAAATTAA
9008851 A
1 A
9008852 ATTTGACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATTAAAAAAATTAA
Found at i:9008903 original size:27 final size:27
Alignment explanation
Indices: 9008860--9008921 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
9008850 AAATTTGACA
*
9008860 AGTGGTGCCTTTAGGGTAGGCGGCACC
1 AGTGGTGCCTCTAGGGTAGGCGGCACC
*
9008887 AGTGGTGCCTACT-GGGTAGGCGGCACT
1 AGTGGTGCCT-CTAGGGTAGGCGGCACC
9008914 AGTGGTGC
1 AGTGGTGC
9008922 TTTTGTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.15, C:0.21, G:0.42, T:0.23
Consensus pattern (27 bp):
AGTGGTGCCTCTAGGGTAGGCGGCACC
Found at i:9011996 original size:6 final size:6
Alignment explanation
Indices: 9011985--9012025 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
9011975 ATATTTGCAT
*
9011985 ACATAA ACATAA ATA-AGA ACATAA ACATAA ACATAA ACATA
1 ACATAA ACATAA ACATA-A ACATAA ACATAA ACATAA ACATA
9012026 TTTAATTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 1 0.03
6 29 0.94
7 1 0.03
ACGTcount: A:0.66, C:0.15, G:0.02, T:0.17
Consensus pattern (6 bp):
ACATAA
Found at i:9014270 original size:35 final size:33
Alignment explanation
Indices: 9014192--9014275 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
9014182 AAATATATAA
9014192 TTTCAAATTTTTAA-AAAAATTAATAATTTAAT
1 TTTCAAATTTTTAATAAAAATTAATAATTTAAT
* **
9014224 TTT-AAGCATTTTTAATACAAATTTTTAACTTTAAT
1 TTTCAA--ATTTTTAATAAAAATTAATAA-TTTAAT
9014259 TCTTCAAATTTTATAAT
1 T-TTCAAATTTT-TAAT
9014276 CTTATCTCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
31 2 0.05
32 3 0.07
33 8 0.19
34 9 0.21
35 12 0.29
36 6 0.14
37 2 0.05
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (33 bp):
TTTCAAATTTTTAATAAAAATTAATAATTTAAT
Found at i:9014624 original size:22 final size:22
Alignment explanation
Indices: 9014581--9014624 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9014571 AATATAATTG
* * *
9014581 TATTTTAAAAAAAAATATTTTA
1 TATTTCAAAAAAAAACAATTTA
*
9014603 TATTTCAAATAAAAACAATTTA
1 TATTTCAAAAAAAAACAATTTA
9014625 GTTAAACAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TATTTCAAAAAAAAACAATTTA
Found at i:9014816 original size:17 final size:17
Alignment explanation
Indices: 9014794--9014827 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9014784 CTTACAATAA
*
9014794 TTAAATAATATTTAAAT
1 TTAAATAACATTTAAAT
9014811 TTAAATAACATTTAAAT
1 TTAAATAACATTTAAAT
9014828 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATAACATTTAAAT
Done.