Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 107 of 328
Found at i:29907391 original size:18 final size:18
Alignment explanation
Indices: 29907370--29907420 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
29907360 ACTGTATACG
29907370 TGAACAGTACCGTATATA
1 TGAACAGTACCGTATATA
* * *
29907388 TGAATAGTATCG--TAGA
1 TGAACAGTACCGTATATA
*
29907404 TGAACAATACCGTATAT
1 TGAACAGTACCGTATAT
29907421 CAAGTATGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 4
0.69 0.20 0.11
Matches are distributed among these distances:
16 12 0.50
18 12 0.50
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (18 bp):
TGAACAGTACCGTATATA
Found at i:29915346 original size:10 final size:10
Alignment explanation
Indices: 29915327--29915391 Score: 71
Period size: 10 Copynumber: 6.5 Consensus size: 10
29915317 GATTTAGAAT
*
29915327 ATTATAAAAA
1 ATTATTAAAA
29915337 ATTATTAAAA
1 ATTATTAAAA
**
29915347 A-TGGTAAAGA
1 ATTATTAAA-A
29915357 ATTATTAAAA
1 ATTATTAAAA
29915367 ATTATTTAAAA
1 ATTA-TTAAAA
29915378 ATTA-TAAAA
1 ATTATTAAAA
29915387 ATTAT
1 ATTAT
29915392 AAATTACAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
9 14 0.30
10 17 0.37
11 15 0.33
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (10 bp):
ATTATTAAAA
Found at i:29915361 original size:30 final size:30
Alignment explanation
Indices: 29915327--29915394 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
29915317 GATTTAGAAT
*
29915327 ATTATAAAAAATTA-TTAAAAATGGTAAAGA
1 ATTATAAAAAATTATTTAAAAATGATAAA-A
* *
29915357 ATTATTAAAAATTATTTAAAAATTATAAAA
1 ATTATAAAAAATTATTTAAAAATGATAAAA
29915387 ATTATAAA
1 ATTATAAA
29915395 TTACAAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (30 bp):
ATTATAAAAAATTATTTAAAAATGATAAAA
Found at i:29924409 original size:47 final size:47
Alignment explanation
Indices: 29924340--29924495 Score: 201
Period size: 47 Copynumber: 3.3 Consensus size: 47
29924330 AGCTTAAGAT
29924340 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** *
29924387 CGAATGGCCAATGTGATGAATGTGAAAGTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
29924434 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
29924479 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
29924496 AAAGTGTGCA
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
45 22 0.23
46 6 0.06
47 66 0.70
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:29924649 original size:40 final size:38
Alignment explanation
Indices: 29924566--29924649 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 38
29924556 AAATGAATTG
* * ** *
29924566 TGCTGAGATTGTATCCGGTTAGAGACCCGTTGGCTTCA
1 TGCTGGGATTGTATCCGGTTAAAGACCCGCAGGCTTAA
*
29924604 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCC-GG-TTAAAGACCCGCAGGCTTAA
29924644 TGCTGG
1 TGCTGG
29924650 TGAATTAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 15 0.39
39 2 0.05
40 21 0.55
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (38 bp):
TGCTGGGATTGTATCCGGTTAAAGACCCGCAGGCTTAA
Found at i:29928115 original size:13 final size:15
Alignment explanation
Indices: 29928081--29928118 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
29928071 ATATTATGAT
*
29928081 TTTTATTAATTCATA
1 TTTTAATAATTCATA
29928096 TTTTAATAATT-ATA
1 TTTTAATAATTCATA
29928110 -TTTAATAAT
1 TTTTAATAAT
29928119 AATTATGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 3 0.14
15 10 0.45
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAATAATTCATA
Found at i:29928118 original size:16 final size:14
Alignment explanation
Indices: 29928081--29928124 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
29928071 ATATTATGAT
*
29928081 TTTTATTAATTCATA
1 TTTTAATAATT-ATA
29928096 TTTTAATAATTATA
1 TTTTAATAATTATA
29928110 TTTAATAATAATTAT
1 TTT--TAATAATTAT
29928125 GTTAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.23
15 10 0.38
16 10 0.38
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAATAATTATA
Found at i:29931405 original size:19 final size:19
Alignment explanation
Indices: 29931381--29931420 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
29931371 TGATAAGTGA
*
29931381 AAATTTTATATTATAGATC
1 AAATTTGATATTATAGATC
29931400 AAATTTGATATTATAGATC
1 AAATTTGATATTATAGATC
29931419 AA
1 AA
29931421 GAAATTGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (19 bp):
AAATTTGATATTATAGATC
Found at i:29932891 original size:20 final size:20
Alignment explanation
Indices: 29932866--29932915 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 20
29932856 TATATATAAA
29932866 TTTTATTATATGTTA-TATAT
1 TTTTATTATATGTTACT-TAT
29932886 TTTTATTATA--TTACTTAT
1 TTTTATTATATGTTACTTAT
29932904 TTTT-TTATATGT
1 TTTTATTATATGT
29932916 AAAATATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 2 0.07
20 10 0.37
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTATTATATGTTACTTAT
Found at i:29932941 original size:37 final size:37
Alignment explanation
Indices: 29932842--29932941 Score: 87
Period size: 37 Copynumber: 2.6 Consensus size: 37
29932832 CTATTTCTAT
* * *
29932842 TATTTGTAACATTATATATATAAATTTTATTATATGTTATA
1 TATTTGTTACATTAT-TAT-T--ATTTTATTATATGTAAAA
* *
29932883 TATTT-TTA-TTATATTACTTATTTTTTTATATGTAAAA
1 TATTTGTTACAT-TATTA-TTATTTTATTATATGTAAAA
29932920 TATTTGTTACATTATTATTATT
1 TATTTGTTACATTATTATTATT
29932942 ATACATATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
37 25 0.51
38 8 0.16
39 5 0.10
40 6 0.12
41 5 0.10
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (37 bp):
TATTTGTTACATTATTATTATTTTATTATATGTAAAA
Found at i:29945267 original size:176 final size:177
Alignment explanation
Indices: 29944919--29945290 Score: 586
Period size: 176 Copynumber: 2.1 Consensus size: 177
29944909 CGACGGAGAG
* *
29944919 CAAATCGAAGACATAGCAGATCTAACTTTCAGATGTTCTCACATCAAAGCAGATCCAAGATAATA
1 CAAATCGAAGACATAGCAGATCTAACTTTCAGATATTCTCACATCAAAGCAGATCCAAGATAACA
* *
29944984 GATCTGGCATCTCCATATTCAAATGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGTTTTT
66 GATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
** *
29945049 ACTGAAGCAGATCCAAAATGATTTGGTGTTCTTGTGTTTACAAGGAGA
131 ACTGAAGCAGATCCAAAATGATTTGGCATCCTTGTGTTTACAAGGA-A
* * * *
29945097 -AAATCGAAGGCATAGCAGATCTGACTTTCAGATATTTTCATATCAAAGCAGATCCAAGATAACA
1 CAAATCGAAGACATAGCAGATCTAACTTTCAGATATTCTCACATCAAAGCAGATCCAAGATAACA
* * *
29945161 GATCTGGCGTCTCCATATTC-GATGGAGAGCAGACACATAGTAGATCTAACCTTCAGATGTTTAT
66 GATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
*
29945225 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAA
131 ACTGAAGCAGATCCAAAATGATTTGGCATCCTTGTGTTTACAAGGAA
29945272 CAAATCGAAGACATAGCAG
1 CAAATCGAAGACATAGCAG
29945291 GTTTGGCTTT
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
175 1 0.01
176 99 0.56
177 77 0.44
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (177 bp):
CAAATCGAAGACATAGCAGATCTAACTTTCAGATATTCTCACATCAAAGCAGATCCAAGATAACA
GATCTGGCATCTCCATATTCAAATGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
ACTGAAGCAGATCCAAAATGATTTGGCATCCTTGTGTTTACAAGGAA
Found at i:29947058 original size:20 final size:20
Alignment explanation
Indices: 29947033--29947082 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 20
29947023 TATATATAAA
29947033 TTTTATTATATGTTA-TATAT
1 TTTTATTATATGTTACT-TAT
29947053 TTTTATTATA--TTACTTAT
1 TTTTATTATATGTTACTTAT
29947071 TTTT-TTATATGT
1 TTTTATTATATGT
29947083 AAAATATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 2 0.07
20 10 0.37
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (20 bp):
TTTTATTATATGTTACTTAT
Found at i:29947108 original size:37 final size:37
Alignment explanation
Indices: 29947009--29947108 Score: 87
Period size: 37 Copynumber: 2.6 Consensus size: 37
29946999 CTATTTCTAT
* * *
29947009 TATTTGTAACATTATATATATAAATTTTATTATATGTTATA
1 TATTTGTTACATTAT-TAT-T--ATTTTATTATATGTAAAA
* *
29947050 TATTT-TTA-TTATATTACTTATTTTTTTATATGTAAAA
1 TATTTGTTACAT-TATTA-TTATTTTATTATATGTAAAA
29947087 TATTTGTTACATTATTATTATT
1 TATTTGTTACATTATTATTATT
29947109 ATACATATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
37 25 0.51
38 8 0.16
39 5 0.10
40 6 0.12
41 5 0.10
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (37 bp):
TATTTGTTACATTATTATTATTTTATTATATGTAAAA
Found at i:29952863 original size:13 final size:13
Alignment explanation
Indices: 29952809--29952878 Score: 54
Period size: 13 Copynumber: 5.4 Consensus size: 13
29952799 AACACAAAAT
29952809 TTTAAAACTTAAA
1 TTTAAAACTTAAA
* **
29952822 -TGAAAACCGAAA
1 TTTAAAACTTAAA
*
29952834 -TTAAAACTCCAAAA
1 TTTAAAACT--TAAA
29952848 TTTAAAACTTAAA
1 TTTAAAACTTAAA
* *
29952861 TTTGAAATTTAAA
1 TTTAAAACTTAAA
29952874 TTTAA
1 TTTAA
29952879 CTTTAAAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
12 15 0.34
13 18 0.41
14 3 0.07
15 8 0.18
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (13 bp):
TTTAAAACTTAAA
Found at i:29957402 original size:31 final size:31
Alignment explanation
Indices: 29957367--29957475 Score: 125
Period size: 31 Copynumber: 3.5 Consensus size: 31
29957357 ACACGTTTTC
29957367 TTTTTCTTTTATTTTCATATTTCTTTTGTTT
1 TTTTTCTTTTATTTTCATATTTCTTTTGTTT
29957398 TTTTTCTTTTATTTTCATATTT-TTTT-TTACT
1 TTTTTCTTTTATTTTCATATTTCTTTTGTT--T
* *
29957429 TTTTTGATTTT-TTTTCTTATTTCATTTTGTTT
1 TTTTT-CTTTTATTTTCATATTTC-TTTTGTTT
* *
29957461 ATTTTGTTTTATTTT
1 TTTTTCTTTTATTTT
29957476 TTATTATTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
29 2 0.03
30 4 0.06
31 42 0.63
32 13 0.19
33 4 0.06
34 2 0.03
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (31 bp):
TTTTTCTTTTATTTTCATATTTCTTTTGTTT
Found at i:29957662 original size:14 final size:14
Alignment explanation
Indices: 29957645--29957671 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29957635 TTTTTTAAAA
29957645 TTTTAAATATTAAT
1 TTTTAAATATTAAT
29957659 TTTTAAATATTAA
1 TTTTAAATATTAA
29957672 CCATATTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAATATTAAT
Found at i:29957671 original size:37 final size:37
Alignment explanation
Indices: 29957529--29957671 Score: 129
Period size: 37 Copynumber: 4.0 Consensus size: 37
29957519 TTTATAATAC
* *
29957529 TTTTTTAAAATTTTAATTA-T-TATTTTTAAAAAT-A
1 TTTTTTAAAATTTTAAATATTATATTTTTAAAATTAA
* * * * *
29957563 TTTTTT-TAACTTTAGATA-TATATTTGTGAAATTAA
1 TTTTTTAAAATTTTAAATATTATATTTTTAAAATTAA
* * *
29957598 TTTTTTATATATTTTAAA-AATATATTTTTCAAATTAA
1 TTTTTTA-AAATTTTAAATATTATATTTTTAAAATTAA
29957635 TTTTTTAAAATTTTAAATATTA-ATTTTTAAATATTAA
1 TTTTTTAAAATTTTAAATATTATATTTTTAAA-ATTAA
29957672 CCATATTTTA
Statistics
Matches: 86, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
33 9 0.10
34 16 0.19
35 7 0.08
36 18 0.21
37 36 0.42
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (37 bp):
TTTTTTAAAATTTTAAATATTATATTTTTAAAATTAA
Found at i:29957678 original size:23 final size:23
Alignment explanation
Indices: 29957630--29957671 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
29957620 TATTTTTCAA
*
29957630 ATTAATTTTTTAAAATTTTAAAT
1 ATTAATTTTTTAAAATATTAAAT
29957653 ATTAA-TTTTT-AAATATTAA
1 ATTAATTTTTTAAAATATTAA
29957672 CCATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAATTTTTTAAAATATTAAAT
Found at i:29958087 original size:14 final size:14
Alignment explanation
Indices: 29958068--29958094 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29958058 AAAAATATGG
29958068 TTAATATTTAAAAA
1 TTAATATTTAAAAA
29958082 TTAATATTTAAAA
1 TTAATATTTAAAA
29958095 TTTTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAATATTTAAAAA
Found at i:29958118 original size:36 final size:34
Alignment explanation
Indices: 29958073--29958209 Score: 91
Period size: 36 Copynumber: 3.9 Consensus size: 34
29958063 TATGGTTAAT
29958073 ATTTAAAAATTA-ATATTTAAAATTTTAAAAAATTA
1 ATTTAAAAA-TACATATTTAAAA-TTTAAAAAATTA
* * *
29958108 ATTTGAAAAATACATTTTTAGAATATATAAAAATTA
1 ATTT-AAAAATACATATTTAAAATTTA-AAAAATTA
* * * * *
29958144 ATTTCACAAATATATATCT-AAAGTTAAAAAAATA
1 ATTT-AAAAATACATATTTAAAATTTAAAAAATTA
* * *
29958178 TTTTTTAAAATA-ATAATTAAAATTTTAAAAAA
1 -ATTTAAAAATACATATTTAAAA-TTTAAAAAA
29958210 GTATTATAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
33 4 0.05
34 15 0.19
35 24 0.31
36 35 0.45
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.39
Consensus pattern (34 bp):
ATTTAAAAATACATATTTAAAATTTAAAAAATTA
Found at i:29958380 original size:30 final size:32
Alignment explanation
Indices: 29958344--29958413 Score: 101
Period size: 29 Copynumber: 2.3 Consensus size: 32
29958334 ATTAAGGAAC
*
29958344 AAAATAAAAAAGTAAAAAA-AAAAG-AATATG
1 AAAATAAAAAAGAAAAAAATAAAAGAAATATG
*
29958374 AAAAT-AAAAGGAAAAAAATAAAAGAAATATG
1 AAAATAAAAAAGAAAAAAATAAAAGAAATATG
29958405 AAAATAAAA
1 AAAATAAAA
29958414 GAAAAAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 11 0.31
30 10 0.29
31 11 0.31
32 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (32 bp):
AAAATAAAAAAGAAAAAAATAAAAGAAATATG
Found at i:29958410 original size:17 final size:17
Alignment explanation
Indices: 29958358--29958417 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
29958348 TAAAAAAGTA
*
29958358 AAAAAAAAAG-AATATG
1 AAAATAAAAGAAATATG
*
29958374 AAAATAAAAGGAA-A--
1 AAAATAAAAGAAATATG
29958388 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
29958405 AAAATAAAAGAAA
1 AAAATAAAAGAAA
29958418 AAGAAAACGT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 12 0.32
15 1 0.03
16 10 0.26
17 15 0.39
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:29958418 original size:30 final size:28
Alignment explanation
Indices: 29958351--29958424 Score: 103
Period size: 31 Copynumber: 2.5 Consensus size: 28
29958341 AACAAAATAA
*
29958351 AAAAGTAAAAAAAAAAGAATATGAAAAT
1 AAAAGAAAAAAAAAAAGAATATGAAAAT
29958379 AAAAGGAAAAAAATAAAAGAAATATGAAAAT
1 AAAA-GAAAAAAA-AAAAG-AATATGAAAAT
*
29958410 AAAAGAAAAAGAAAA
1 AAAAGAAAAAAAAAA
29958425 CGTGTCAGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
28 4 0.10
29 10 0.24
30 12 0.29
31 15 0.37
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (28 bp):
AAAAGAAAAAAAAAAAGAATATGAAAAT
Found at i:29959427 original size:17 final size:17
Alignment explanation
Indices: 29959405--29959439 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
29959395 ATATAATTTT
29959405 ATTTTTACT-AAATTTAA
1 ATTTTTA-TAAAATTTAA
29959422 ATTTTTATAAAATTTAA
1 ATTTTTATAAAATTTAA
29959439 A
1 A
29959440 AGTATCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTTATAAAATTTAA
Found at i:29960901 original size:32 final size:31
Alignment explanation
Indices: 29960806--29960901 Score: 85
Period size: 32 Copynumber: 3.1 Consensus size: 31
29960796 AAACGAGTGG
*
29960806 TTTTGTGAAATAATAATAAATATC-A-T-CA
1 TTTTGTGAAATAATAACAAATATCAACTACA
* *
29960834 TGTTGTGAAATCATAACAAAT-TACAACATTA-A
1 TTTTGTGAAATAATAACAAATAT-CAAC--TACA
*
29960866 TTTTGTGAAATGATAACAAATATCAACTACCA
1 TTTTGTGAAATAATAACAAATATCAACTA-CA
29960898 TTTT
1 TTTT
29960902 CTTAGATACA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
27 1 0.02
28 19 0.35
29 1 0.02
30 2 0.04
32 30 0.56
33 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (31 bp):
TTTTGTGAAATAATAACAAATATCAACTACA
Found at i:29962270 original size:38 final size:38
Alignment explanation
Indices: 29962228--29962340 Score: 118
Period size: 38 Copynumber: 2.9 Consensus size: 38
29962218 AAAAAAGTGA
* * *
29962228 ACATGCTTAACATGTATTTGGTTCAACAGTAGCAGTAG
1 ACATGCTTAACATGTATTCGGTTCAACAGTAACAATAG
* * *
29962266 ACATGCTTAACCTGTATTCAGTTCAATAGTAACAATAG
1 ACATGCTTAACATGTATTCGGTTCAACAGTAACAATAG
* **
29962304 GCATATTTAACATGTATTCGGTTTTCAACTAGTAACA
1 ACATGCTTAACATGTATTCGG--TTCAAC-AGTAACA
29962341 TAGTGGTAAG
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
38 48 0.80
40 5 0.08
41 7 0.12
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (38 bp):
ACATGCTTAACATGTATTCGGTTCAACAGTAACAATAG
Found at i:29964852 original size:3 final size:3
Alignment explanation
Indices: 29964844--29964896 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
29964834 AAATCTTAAG
29964844 ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
29964890 ATT ATT A
1 ATT ATT A
29964897 ATAAGACCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:29967621 original size:6 final size:6
Alignment explanation
Indices: 29967610--29967658 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
29967600 ATGCAGGCCT
* * *
29967610 AGAAAA AGAAAA AGAAAA AGGAAA GGAAAA GGAAAA TA-AAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA -AGAAAA AGAAAA
29967658 A
1 A
29967659 AAGTTAACGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 1 0.03
6 36 0.97
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:29969313 original size:7 final size:7
Alignment explanation
Indices: 29969301--29969337 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
29969291 TTACAACATC
29969301 AATGAAA
1 AATGAAA
29969308 AATGAAA
1 AATGAAA
29969315 AATGAAA
1 AATGAAA
29969322 AATGAAA
1 AATGAAA
*
29969329 ATTGAAA
1 AATGAAA
29969336 AA
1 AA
29969338 AACACTTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (7 bp):
AATGAAA
Found at i:29972177 original size:12 final size:12
Alignment explanation
Indices: 29972160--29972185 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29972150 AAAACAGGGC
29972160 TTTAGCGGCGTT
1 TTTAGCGGCGTT
29972172 TTTAGCGGCGTT
1 TTTAGCGGCGTT
29972184 TT
1 TT
29972186 ACCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:29972325 original size:41 final size:41
Alignment explanation
Indices: 29972240--29972458 Score: 282
Period size: 41 Copynumber: 5.4 Consensus size: 41
29972230 CGTTTTACCA
* * ***
29972240 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCG-TTTTACCA
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTT-GGT
* *
29972280 AAAACGCTGCTAAAAACCGGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
* * *
29972321 AAAACGCCGTTAAAACCCGGGGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
*
29972362 AAAACGCTGCTAAAAACCAGG-GCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACC-GGAGCATTAGCGGCGCTTTTGGT
* *
29972403 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTCGAT
1 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
29972444 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
29972459 GTCATATAAC
Statistics
Matches: 159, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
40 17 0.11
41 136 0.86
42 6 0.04
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTTGGT
Found at i:29972572 original size:14 final size:14
Alignment explanation
Indices: 29972548--29972592 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
29972538 AATCTTAAAA
29972548 AAACT-TAACCCCT
1 AAACTATAACCCCT
29972561 AAACTATAACCCCT
1 AAACTATAACCCCT
* *
29972575 AAAATACTAAACCCT
1 AAACTA-TAACCCCT
29972590 AAA
1 AAA
29972593 AAACATCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 5 0.18
14 13 0.46
15 10 0.36
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACTATAACCCCT
Found at i:29972785 original size:15 final size:15
Alignment explanation
Indices: 29972762--29972815 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
29972752 TATTTTAAGT
*
29972762 TTTATGGATTATGGG
1 TTTAGGGATTATGGG
29972777 TTTAGGGATTAT-GG
1 TTTAGGGATTATGGG
*
29972791 TTTAAGGG-TTAGGGG
1 TTT-AGGGATTATGGG
*
29972806 TCTA-GGATTA
1 TTTAGGGATTA
29972816 AGAGTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 2 0.06
14 12 0.36
15 19 0.58
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (15 bp):
TTTAGGGATTATGGG
Found at i:29972788 original size:22 final size:21
Alignment explanation
Indices: 29972763--29972817 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
29972753 ATTTTAAGTT
*
29972763 TTATGGATTATGGGTTTAGGGA
1 TTATGGATTAAGGG-TTAGGGA
* *
29972785 TTATGGTTTAAGGGTTAGGGG
1 TTATGGATTAAGGGTTAGGGA
29972806 TCTA-GGATTAAG
1 T-TATGGATTAAG
29972818 AGTTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.24, C:0.02, G:0.36, T:0.38
Consensus pattern (21 bp):
TTATGGATTAAGGGTTAGGGA
Found at i:29972999 original size:14 final size:14
Alignment explanation
Indices: 29972980--29973018 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
29972970 ATCATTATAG
29972980 TTTAGGGTTTACGA
1 TTTAGGGTTTACGA
* *
29972994 TTTAGGGTATATGA
1 TTTAGGGTTTACGA
*
29973008 TTGAGGGTTTA
1 TTTAGGGTTTA
29973019 AGGTTTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.03, G:0.31, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTACGA
Found at i:29973475 original size:6 final size:6
Alignment explanation
Indices: 29973461--29973505 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
29973451 AACAATATTG
*
29973461 ATAACAA ATAAAA ATGAAAT ATAAAA ATAAAA ATAAAA TATAAAA
1 ATAA-AA ATAAAA AT-AAAA ATAAAA ATAAAA ATAAAA -ATAAAA
29973506 TAGTGATTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 19 0.56
7 15 0.44
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:29973484 original size:13 final size:12
Alignment explanation
Indices: 29973461--29973505 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
29973451 AACAATATTG
29973461 ATAACAAATAAAA
1 ATAA-AAATAAAA
*
29973474 ATGAAATATAAAA
1 AT-AAAAATAAAA
29973487 ATAAAAATAAAA
1 ATAAAAATAAAA
29973499 TATAAAA
1 -ATAAAA
29973506 TAGTGATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 9 0.32
13 17 0.61
14 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:29973488 original size:19 final size:19
Alignment explanation
Indices: 29973461--29973505 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
29973451 AACAATATTG
*
29973461 ATAACAAATAAAAATGAAAT
1 ATAA-AAATAAAAATAAAAT
29973481 ATAAAAATAAAAATAAAAT
1 ATAAAAATAAAAATAAAAT
29973500 ATAAAA
1 ATAAAA
29973506 TAGTGATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (19 bp):
ATAAAAATAAAAATAAAAT
Found at i:29978663 original size:43 final size:43
Alignment explanation
Indices: 29978590--29978739 Score: 196
Period size: 43 Copynumber: 3.5 Consensus size: 43
29978580 TTTTTGAATT
* *
29978590 TCATGA-CTTTTAGCAGCGTTTTTTA-GAAAAGCGCCGCTAAAGG
1 TCATGATC-TTTAGCGGCG-TTTGTAGGAAAAGCGCCGCTAAAGG
* * *
29978633 TCGTGATCTTTAGCGACGTTTGTAGTAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGG
* *
29978676 TCATGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTATAGA
1 TCATGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGG
*
29978719 TCTTGATCTTTAGCGGCGTTT
1 TCATGATCTTTAGCGGCGTTT
29978740 TTTCAAATAA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
42 5 0.05
43 88 0.94
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGG
Found at i:29983958 original size:22 final size:24
Alignment explanation
Indices: 29983932--29983976 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
29983922 GCTATCAAGA
29983932 AATCAAATC-TCT-AAGATTACAG
1 AATCAAATCTTCTAAAGATTACAG
*
29983954 AATCATATCTTCTAAAGATTACA
1 AATCAAATCTTCTAAAGATTACA
29983977 TTTAATATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 3 0.15
24 9 0.45
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (24 bp):
AATCAAATCTTCTAAAGATTACAG
Found at i:29987308 original size:5 final size:5
Alignment explanation
Indices: 29987298--29987328 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
29987288 TAACCTAAGT
29987298 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA A
1 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA A
29987329 TTACCCCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.58, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:29987408 original size:20 final size:20
Alignment explanation
Indices: 29987370--29987409 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29987360 ATTTAATAAA
* **
29987370 TAAAAATAAAAATCTAAAAC
1 TAAAAAGAAAAATAAAAAAC
29987390 TAAAAAGAAAAATAAAAAAC
1 TAAAAAGAAAAATAAAAAAC
29987410 AAATAATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (20 bp):
TAAAAAGAAAAATAAAAAAC
Found at i:29987441 original size:9 final size:9
Alignment explanation
Indices: 29987427--29987503 Score: 84
Period size: 9 Copynumber: 8.6 Consensus size: 9
29987417 TTTATACAAA
*
29987427 TAATTCAGT
1 TAATTCGGT
*
29987436 TAATTCAGT
1 TAATTCGGT
*
29987445 TAATTCAGT
1 TAATTCGGT
*
29987454 TAAATT-GGG
1 T-AATTCGGT
29987463 TAATTCGGT
1 TAATTCGGT
*
29987472 TAATTCGAT
1 TAATTCGGT
*
29987481 TAATTTGGT
1 TAATTCGGT
29987490 TAATTCGGT
1 TAATTCGGT
29987499 TAATT
1 TAATT
29987504 TTATACTTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 4 0.07
9 51 0.86
10 4 0.07
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (9 bp):
TAATTCGGT
Found at i:29987467 original size:27 final size:27
Alignment explanation
Indices: 29987436--29987503 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
29987426 ATAATTCAGT
*
29987436 TAATTCAGTTAATTC-AGTTAAATTGGG
1 TAATTCGGTTAATTCGA-TTAAATTGGG
* *
29987463 TAATTCGGTTAATTCGATTAATTTGGT
1 TAATTCGGTTAATTCGATTAAATTGGG
29987490 TAATTCGGTTAATT
1 TAATTCGGTTAATT
29987504 TTATACTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (27 bp):
TAATTCGGTTAATTCGATTAAATTGGG
Found at i:29995920 original size:16 final size:17
Alignment explanation
Indices: 29995899--29995931 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29995889 ATTCAATTGA
*
29995899 TAACTA-GTTATTTTTC
1 TAACTAGGTAATTTTTC
29995915 TAACTAGGTAATTTTTC
1 TAACTAGGTAATTTTTC
29995932 AATTCAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (17 bp):
TAACTAGGTAATTTTTC
Found at i:30001296 original size:19 final size:18
Alignment explanation
Indices: 30001274--30001340 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 18
30001264 TATTATACTC
*
30001274 TATAATATAATAATAGTTA
1 TATAATAT-ATAATACTTA
30001293 TAT-ATAT-TAATACTTA
1 TATAATATATAATACTTA
* *
30001309 TAAAATATATAATTTCATTA
1 TATAATATATAA-TAC-TTA
30001329 TATAATACTATA
1 TATAATA-TATA
30001341 TCACATACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 10 0.26
17 4 0.10
18 7 0.18
19 5 0.13
20 9 0.23
21 4 0.10
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (18 bp):
TATAATATATAATACTTA
Found at i:30001303 original size:16 final size:16
Alignment explanation
Indices: 30001268--30001310 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
30001258 ATCTCTTATT
30001268 ATACTCTATAATATAATA
1 ATACT-TAT-ATATAATA
* *
30001286 ATAGTTATATATATTA
1 ATACTTATATATAATA
30001302 ATACTTATA
1 ATACTTATA
30001311 AAATATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 15 0.68
17 3 0.14
18 4 0.18
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (16 bp):
ATACTTATATATAATA
Found at i:30001462 original size:13 final size:13
Alignment explanation
Indices: 30001444--30001486 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
30001434 TTTGACAATG
30001444 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
30001457 CTTTTAAAAAGTA
1 CTTTTAAAAAGTA
* *
30001470 CTGTGAAAAAGTA
1 CTTTTAAAAAGTA
30001483 -TTTT
1 CTTTT
30001487 TGAGAATTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 2 0.08
13 24 0.92
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (13 bp):
CTTTTAAAAAGTA
Found at i:30002383 original size:21 final size:21
Alignment explanation
Indices: 30002339--30002383 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
30002329 TATTGAAATT
**
30002339 TATTTTAAATATATAATATGA
1 TATTTTAAATATATAATACAA
* *
30002360 TATTTTAAATTTATATTACAA
1 TATTTTAAATATATAATACAA
30002381 TAT
1 TAT
30002384 ATTTTGTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTTAAATATATAATACAA
Found at i:30003964 original size:47 final size:46
Alignment explanation
Indices: 30003911--30004049 Score: 138
Period size: 46 Copynumber: 3.0 Consensus size: 46
30003901 TTTAACAACA
*
30003911 TATCTGTTCTGGTAGCTTAACTGCAATTATAGTGG-TTCGACCACACG
1 TATCTGTTCTGGCAGCTTAACTGCAA-TATAGTGGCTT-GACCACACG
* * * *
30003958 TATCTGTTTTGGCAGCTTGACTGTAATATAGTGGCTTGACCACATG
1 TATCTGTTCTGGCAGCTTAACTGCAATATAGTGGCTTGACCACACG
* * * *
30004004 TATCTGATT-TGGCAGTTTAACTACAACTCTAGTGGCATTGTCCACA
1 TATCTG-TTCTGGCAGCTTAACTGCAA-TATAGTGGC-TTGACCACA
30004050 AATATCTTTG
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
46 35 0.45
47 34 0.44
48 8 0.10
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (46 bp):
TATCTGTTCTGGCAGCTTAACTGCAATATAGTGGCTTGACCACACG
Found at i:30003999 original size:46 final size:47
Alignment explanation
Indices: 30003911--30004025 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 47
30003901 TTTAACAACA
* *
30003911 TATCTGTTCTGGTAGCTTAACTGCAATTATAGTGGTTCGACCACACG
1 TATCTGTTTTGGCAGCTTAACTGCAATTATAGTGGTTCGACCACACG
* * *
30003958 TATCTGTTTTGGCAGCTTGACTGTAA-TATAGTGGCTT-GACCACATG
1 TATCTGTTTTGGCAGCTTAACTGCAATTATAGTGG-TTCGACCACACG
* *
30004004 TATCTGATTTGGCAGTTTAACT
1 TATCTGTTTTGGCAGCTTAACT
30004026 ACAACTCTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
46 35 0.59
47 24 0.41
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (47 bp):
TATCTGTTTTGGCAGCTTAACTGCAATTATAGTGGTTCGACCACACG
Found at i:30011808 original size:16 final size:16
Alignment explanation
Indices: 30011787--30011820 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30011777 AAGAGGATAT
30011787 TTCTTGGGTAAGTGCA
1 TTCTTGGGTAAGTGCA
30011803 TTCTTGGGTAAGTGCA
1 TTCTTGGGTAAGTGCA
30011819 TT
1 TT
30011821 GTAGTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (16 bp):
TTCTTGGGTAAGTGCA
Found at i:30013838 original size:158 final size:158
Alignment explanation
Indices: 30013550--30013848 Score: 499
Period size: 158 Copynumber: 1.9 Consensus size: 158
30013540 ATCGGATATT
*
30013550 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCC
1 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGACATGTCTAGGACATGCATTGGCC
* * *
30013615 ACATTATGAGAGCCAGTGCAAGACCATGTTTTGGACACGGTATCGGCATTGAGACGAGTGCTAGT
66 ACATTATGAGAGCCAGTGCAAGACCATGTTTGGGACACGGCATCGGCATTGAGACGAGCGCTAGT
30013680 GTAAGACATGTTTAGGGCAGGCATCGGC
131 GTAAGACATGTTTAGGGCAGGCATCGGC
* *
30013708 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGATATGTCTAGGGCATGCATTGGCC
1 CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGACATGTCTAGGACATGCATTGGCC
* * * * *
30013773 ACATTATGAGAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGTCATTGAGACTAGCGCTAGT
66 ACATTATGAGAGCCAGTGCAAGACCATGTTTGGGACACGGCATCGGCATTGAGACGAGCGCTAGT
30013838 GTAAGACATGT
131 GTAAGACATGT
30013849 CAGGGACATG
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
158 130 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (158 bp):
CATGCTATGACATTTGGGTCACTTGTGTGAGCTAGTCTAAGACATGTCTAGGACATGCATTGGCC
ACATTATGAGAGCCAGTGCAAGACCATGTTTGGGACACGGCATCGGCATTGAGACGAGCGCTAGT
GTAAGACATGTTTAGGGCAGGCATCGGC
Found at i:30013926 original size:44 final size:43
Alignment explanation
Indices: 30013786--30013952 Score: 140
Period size: 44 Copynumber: 3.7 Consensus size: 43
30013776 TTATGAGAGT
* * *
30013786 CAGTGTAAGACCATGTTTGGGACATGGCATCGTCATTGAGAC-TAGC
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATC--CCTCGAGACGTAGC
*
30013832 GCTAGTGTAAGACATGTCAGGGACATGCATCCCTCGAGACGTAAGC
1 -C-AGTGTAAGACATGTCTGGGACATGCATCCCTCGAGACGT-AGC
* ** * *
30013878 CAGTGTAAGACATGTTTGGGACATGCATTGGCTACGAGATGT-GT
1 CAGTGTAAGACATGTCTGGGACATGCA-TCCCT-CGAGACGTAGC
30013922 CAGTGTAAGACCATGTCTGGGACATGGCATC
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATC
30013953 GGTACAAATA
Statistics
Matches: 101, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
44 42 0.42
45 19 0.19
46 18 0.18
47 13 0.13
48 9 0.09
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
CAGTGTAAGACATGTCTGGGACATGCATCCCTCGAGACGTAGC
Found at i:30021532 original size:45 final size:45
Alignment explanation
Indices: 30021327--30021532 Score: 161
Period size: 46 Copynumber: 4.5 Consensus size: 45
30021317 TGTGTGAGCT
* * * *
30021327 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATGAG-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GA--AGTAGCC
* * *
30021373 AGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACG-AGCGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGAAGTAGC-C
* * * *
30021420 TAGTATAAGACATGTTTGGGACATGCATCGGCTTCTAGAAGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAAGT-AGCC
* * *
30021467 AGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGATGT-GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAAGTAGCC
30021511 AGTGTAAGACCATGTCTGGGAC
1 AGTGTAAGA-CATGTCTGGGAC
30021533 TTAGCATCAG
Statistics
Matches: 132, Mismatches: 18, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.08
45 12 0.09
46 60 0.45
47 28 0.21
48 20 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGAAGTAGCC
Found at i:30022618 original size:17 final size:16
Alignment explanation
Indices: 30022579--30022610 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30022569 GTGTCATGGC
30022579 CGTGTGAAAGACACGA
1 CGTGTGAAAGACACGA
30022595 CTGTGTGAAAGACACG
1 C-GTGTGAAAGACACG
30022611 GGCGTGTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (16 bp):
CGTGTGAAAGACACGA
Found at i:30025439 original size:21 final size:21
Alignment explanation
Indices: 30025413--30025460 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
30025403 GACAACATGA
30025413 GCATGTAGAGTAGCCACACAG
1 GCATGTAGAGTAGCCACACAG
* * *
30025434 GCATGTGGCGTAGCCACATAG
1 GCATGTAGAGTAGCCACACAG
*
30025455 CCATGT
1 GCATGT
30025461 TTGTTGCCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.29, T:0.19
Consensus pattern (21 bp):
GCATGTAGAGTAGCCACACAG
Found at i:30030348 original size:40 final size:40
Alignment explanation
Indices: 30030301--30030393 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
30030291 TCTCAGTATT
30030301 GCACACTTAGTGCT-TCATATAGCCAAAACTA-TTCCAATTC
1 GCACACTTAGTGCTAT-ATATAGCCAAAACTATTTCCAA-TC
* * **
30030341 GCACACTTAGTGCTATTTATAGCCGAAACTATTTTGAATC
1 GCACACTTAGTGCTATATATAGCCAAAACTATTTCCAATC
30030381 GCACACTTAGTGC
1 GCACACTTAGTGC
30030394 CGAACATGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 42 0.89
41 5 0.11
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (40 bp):
GCACACTTAGTGCTATATATAGCCAAAACTATTTCCAATC
Found at i:30031843 original size:8 final size:8
Alignment explanation
Indices: 30031830--30031860 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
30031820 CTTACTCGTA
30031830 CTAACAAG
1 CTAACAAG
*
30031838 CTAACAGG
1 CTAACAAG
30031846 CTAACAAG
1 CTAACAAG
30031854 CTAACAA
1 CTAACAA
30031861 ACTTAACTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (8 bp):
CTAACAAG
Found at i:30032398 original size:3 final size:3
Alignment explanation
Indices: 30032390--30032420 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
30032380 TCAGATTTGG
30032390 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30032421 ACCATTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:30041730 original size:30 final size:30
Alignment explanation
Indices: 30041689--30041758 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
30041679 CCGTGTGCTA
*
30041689 GACCATGTCTTTCACACGGATGAAACACAC
1 GACCGTGTCTTTCACACGGATGAAACACAC
* *
30041719 GACCGTGTCTTTCACACGGCTGAAACACAT
1 GACCGTGTCTTTCACACGGATGAAACACAC
*
30041749 GGCCGTGTCT
1 GACCGTGTCT
30041759 CTGCCCGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (30 bp):
GACCGTGTCTTTCACACGGATGAAACACAC
Found at i:30042614 original size:20 final size:20
Alignment explanation
Indices: 30042589--30042630 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
30042579 GAAAGGAAGG
30042589 AGTAAGCTTTACGCTTAGTA
1 AGTAAGCTTTACGCTTAGTA
30042609 AGTAAGCTTTACGCTTAGTA
1 AGTAAGCTTTACGCTTAGTA
30042629 AG
1 AG
30042631 CTCACATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (20 bp):
AGTAAGCTTTACGCTTAGTA
Found at i:30045589 original size:21 final size:21
Alignment explanation
Indices: 30045565--30045606 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
30045555 TAGAACCTAT
30045565 GCACAAGAATAAACAACCTTA
1 GCACAAGAATAAACAACCTTA
*
30045586 GCACGAGAATAAACAACCTTA
1 GCACAAGAATAAACAACCTTA
30045607 CGCTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.24, G:0.12, T:0.14
Consensus pattern (21 bp):
GCACAAGAATAAACAACCTTA
Found at i:30057869 original size:2 final size:2
Alignment explanation
Indices: 30057864--30057888 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30057854 ACACACACAC
30057864 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
30057889 AAGTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30061285 original size:30 final size:30
Alignment explanation
Indices: 30061237--30061297 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30061227 TTATCGTCAA
* * * *
30061237 ATTAATCTATTTTTAATTAAATCATTTAAT
1 ATTAATCTAGTTTAAATTAAATAAATTAAT
*
30061267 ATTAATTTAGTTTAAATTAAATAAATTAAT
1 ATTAATCTAGTTTAAATTAAATAAATTAAT
30061297 A
1 A
30061298 AAAAAGATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (30 bp):
ATTAATCTAGTTTAAATTAAATAAATTAAT
Found at i:30068224 original size:71 final size:67
Alignment explanation
Indices: 30068147--30068277 Score: 154
Period size: 71 Copynumber: 1.9 Consensus size: 67
30068137 GAATAAGAAA
* * * * *
30068147 AGGCAAAATTACGCCGTTTTGATAAATATTTACCTTTTCTAAAGTTAAAAAGTCAAAACCATTAA
1 AGGCAAAACTACGACGTTTTCATAAATATTTA-CTTAT-T-AAGTT-AAAAGGCAAAACCATTAA
30068212 GTTAAG
62 GTTAAG
* * *
30068218 AGGCAAAACTATGATGTTTTCATAAATGTTTACTTATTAAGTTAAAAGGCAAAACCATTA
1 AGGCAAAACTACGACGTTTTCATAAATATTTACTTATTAAGTTAAAAGGCAAAACCATTA
30068278 TATTGTTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
67 16 0.31
68 5 0.10
69 1 0.02
70 4 0.08
71 26 0.50
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (67 bp):
AGGCAAAACTACGACGTTTTCATAAATATTTACTTATTAAGTTAAAAGGCAAAACCATTAAGTTA
AG
Found at i:30076102 original size:39 final size:39
Alignment explanation
Indices: 30076021--30076222 Score: 323
Period size: 39 Copynumber: 5.2 Consensus size: 39
30076011 TATGGTAACC
* *
30076021 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
30076061 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
30076100 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
30076139 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
30076178 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
30076217 CGCACA
1 CGCACA
30076223 TTCATACACA
Statistics
Matches: 148, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 131 0.89
40 17 0.11
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:30076145 original size:78 final size:78
Alignment explanation
Indices: 30076029--30076222 Score: 370
Period size: 78 Copynumber: 2.5 Consensus size: 78
30076019 CCCGCACAAA
*
30076029 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
30076094 ATAGCTCGCACCAT
65 ATAGCTCGCACCAT
30076108 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
30076173 TAGCTCGCACCAT
66 TAGCTCGCACCAT
30076186 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
30076223 TTCATACACA
Statistics
Matches: 114, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
78 104 0.91
79 10 0.09
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.24
Consensus pattern (78 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
TAGCTCGCACCAT
Found at i:30084157 original size:39 final size:39
Alignment explanation
Indices: 30084076--30084277 Score: 323
Period size: 39 Copynumber: 5.2 Consensus size: 39
30084066 TATGGTAACC
* *
30084076 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
30084116 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
30084155 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
30084194 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
30084233 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
30084272 CGCACA
1 CGCACA
30084278 TTCATACACA
Statistics
Matches: 148, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 131 0.89
40 17 0.11
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:30084200 original size:78 final size:78
Alignment explanation
Indices: 30084084--30084277 Score: 370
Period size: 78 Copynumber: 2.5 Consensus size: 78
30084074 CCCGCACAAA
*
30084084 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
30084149 ATAGCTCGCACCAT
65 ATAGCTCGCACCAT
30084163 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
30084228 TAGCTCGCACCAT
66 TAGCTCGCACCAT
30084241 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
30084278 TTCATACACA
Statistics
Matches: 114, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
78 104 0.91
79 10 0.09
ACGTcount: A:0.22, C:0.34, G:0.21, T:0.24
Consensus pattern (78 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
TAGCTCGCACCAT
Found at i:30091386 original size:42 final size:44
Alignment explanation
Indices: 30091328--30091435 Score: 123
Period size: 44 Copynumber: 2.5 Consensus size: 44
30091318 TCAATGCCAC
* **
30091328 TGTCCCAGACAGGGTCTTACACG-AAATCA-AA-TACGATACTGA
1 TGTCCCAGACATGGTCTTACACGTAAATCATAAGT-CGATACCAA
* *
30091370 TGTCCCAGACATGGTCTTACATGTAAATCATAAGTCGATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAAATCATAAGTCGATACCAA
* *
30091414 CGTCCCAGACGTGGTCTTACAC
1 TGTCCCAGACATGGTCTTACAC
30091436 AAAAACACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 21 0.38
43 6 0.11
44 27 0.49
45 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (44 bp):
TGTCCCAGACATGGTCTTACACGTAAATCATAAGTCGATACCAA
Found at i:30098876 original size:31 final size:31
Alignment explanation
Indices: 30098841--30098903 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
30098831 ACATGTACTT
30098841 ACCTTTCATTCTCAAACATGGTATACATTTC
1 ACCTTTCATTCTCAAACATGGTATACATTTC
30098872 ACCTTTCATTCTCAAACATGGTATACATTTC
1 ACCTTTCATTCTCAAACATGGTATACATTTC
30098903 A
1 A
30098904 AACGTACTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.38
Consensus pattern (31 bp):
ACCTTTCATTCTCAAACATGGTATACATTTC
Found at i:30098906 original size:18 final size:19
Alignment explanation
Indices: 30098847--30098906 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 19
30098837 ACTTACCTTT
30098847 CATTCTCAAACATGGTATA
1 CATTCTCAAACATGGTATA
*
30098866 CATT-TC--ACCT--T-T-
1 CATTCTCAAACATGGTATA
30098878 CATTCTCAAACATGGTATA
1 CATTCTCAAACATGGTATA
30098897 CATT-TCAAAC
1 CATTCTCAAAC
30098907 GTACTTGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 15
0.65 0.04 0.31
Matches are distributed among these distances:
12 4 0.12
13 3 0.09
14 1 0.03
15 3 0.09
16 3 0.09
17 1 0.03
18 9 0.28
19 8 0.25
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (19 bp):
CATTCTCAAACATGGTATA
Found at i:30099120 original size:42 final size:42
Alignment explanation
Indices: 30099012--30099173 Score: 173
Period size: 43 Copynumber: 3.8 Consensus size: 42
30099002 AGCTCGTACA
* * *
30099012 ATGCCAATGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGATATGGTCTTACACGAAATCAAATA-CG
* *
30099055 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGATATGGTCTTACACGAAATCAAATACG
* * *
30099097 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCATAAGT-TG
1 ATGCCAATGTCCCAGATATGGTCTTACACG-AAATCA-AA-TACG
* ** *
30099141 ATGCCAACGTCCCAGAGGTGATCTTACACGAAA
1 ATGCCAATGTCCCAGATATGGTCTTACACGAAA
30099174 ACACATATTG
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.28
43 44 0.44
44 28 0.28
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGATATGGTCTTACACGAAATCAAATACG
Found at i:30099166 original size:86 final size:84
Alignment explanation
Indices: 30099012--30099173 Score: 197
Period size: 86 Copynumber: 1.9 Consensus size: 84
30099002 AGCTCGTACA
** *
30099012 ATGCCAATGTCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGATAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGA-AGGGT
30099077 CTTACACGAAATCAAATACG
65 CTTACACGAAATCAAATACG
*
30099097 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCATAAGT-T-GATGCCAAC-GTCCCAG-AG
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATCA-AA-TATCGATGCC-ACTGTCCCAGAAG
30099158 GTGATCTTACACGAAA
62 G-G-TCTTACACGAAA
30099174 ACACATATTG
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
84 3 0.04
85 28 0.42
86 30 0.45
87 5 0.07
88 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (84 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGAAGGGTC
TTACACGAAATCAAATACG
Found at i:30114954 original size:43 final size:42
Alignment explanation
Indices: 30114884--30115005 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
30114874 GAAAAGCTCG
* *
30114884 TACAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAA-A
1 TACAATGCC-ACTGTCCTAGACAG-GGTCTTACACGTAAT-AATA
**
30114926 TATCAATGCCACTGTCCTAGACAGGGTCTTACACAAAATAATA
1 TA-CAATGCCACTGTCCTAGACAGGGTCTTACACGTAATAATA
* * *
30114969 TACGATGCCAATGTCCTAGACATGGTCTTACACGTAA
1 TACAATGCCACTGTCCTAGACAGGGTCTTACACGTAA
30115006 ATCTCAAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 36 0.54
43 30 0.45
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
TACAATGCCACTGTCCTAGACAGGGTCTTACACGTAATAATA
Found at i:30124118 original size:40 final size:40
Alignment explanation
Indices: 30124063--30124272 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
30124053 AACATTGGAA
30124063 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
30124103 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
30124143 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
30124183 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
30124222 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
30124263 CTATATCCGG
1 ATATATCCGG
30124273 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:30131982 original size:12 final size:13
Alignment explanation
Indices: 30131965--30132002 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
30131955 ATCCTGGAAT
30131965 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
30131977 ATTAAGAACACATA
1 ATTAAGAACA-AGA
30131991 ATTAAGAACAAG
1 ATTAAGAACAAG
30132003 TTAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:30137469 original size:42 final size:43
Alignment explanation
Indices: 30137408--30137517 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
30137398 AAAATGAGAT
* *
30137408 TTACGTGTAAGACCATGTCTGGGACATTGGCATC-GTA-TATGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCATCGGTACT-TGA
* * *
30137450 TTTCATGTAAGACCTTGTCTGGGATAGTGGCATCGGTACTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCATCGGTACTTGA
* *
30137493 TTACATGTAAGACCACGTTTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
30137518 GTTTGCATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
42 29 0.52
43 26 0.46
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCATCGGTACTTGA
Found at i:30140380 original size:29 final size:29
Alignment explanation
Indices: 30140347--30140478 Score: 122
Period size: 29 Copynumber: 4.6 Consensus size: 29
30140337 GTGACGAGAT
30140347 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30140376 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
30140405 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
30140434 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
30140463 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30140479 AAATCGAGTA
Statistics
Matches: 83, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 2 0.02
29 81 0.98
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30147492 original size:29 final size:29
Alignment explanation
Indices: 30147459--30147619 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
30147449 GTGACGAGAT
30147459 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30147488 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
30147517 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
30147546 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
30147575 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
30147604 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30147620 AAATCGAGTA
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 110 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:30155427 original size:44 final size:44
Alignment explanation
Indices: 30155373--30155535 Score: 151
Period size: 43 Copynumber: 3.8 Consensus size: 44
30155363 CCGATATGTA
* *
30155373 ATTTCGTGTAAGACCACT-TCTGGGACATTGACATCGGTTTGA-G
1 ATTTCGTGTAAGACCACTGTCTGGGACATTGGCATCGGTAT-ATG
* *
30155416 ATTTACGTGTAAGACCA-TGTCTAGGATATTGGCATC-GTATATG
1 ATTT-CGTGTAAGACCACTGTCTGGGACATTGGCATCGGTATATG
* *
30155459 ATTTCGTGTAAGACC-CTGTCTGGGAGATTGGCATCGATAGT-TG
1 ATTTCGTGTAAGACCACTGTCTGGGACATTGGCATCGGTA-TATG
* * * * *
30155502 ATTACATGTAAGACCGC-ATCTGGGACGTTGGCAT
1 ATTTCGTGTAAGACCACTGTCTGGGACATTGGCAT
30155536 TGTATGAGCT
Statistics
Matches: 101, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
42 29 0.29
43 44 0.44
44 28 0.28
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (44 bp):
ATTTCGTGTAAGACCACTGTCTGGGACATTGGCATCGGTATATG
Found at i:30158089 original size:53 final size:54
Alignment explanation
Indices: 30158004--30158211 Score: 184
Period size: 53 Copynumber: 3.9 Consensus size: 54
30157994 TTTCTTTTTA
* * *
30158004 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTACCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
* * * * * * *
30158057 AACTCACCATTGTCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
** * * * * * * * *
30158111 TAGTTTATCAATGCCAGGTCTTGACACGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
* * * *
30158166 AACTTACCAATGTCATGCTTTGGCATGGTCTTACTTGGTATCCTTA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
30158212 AACCTTAATG
Statistics
Matches: 117, Mismatches: 36, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
53 44 0.38
54 34 0.29
55 39 0.33
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
Found at i:30168648 original size:14 final size:15
Alignment explanation
Indices: 30168631--30168659 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30168621 GAGTATGGTA
30168631 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
30168645 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
30168660 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:30178946 original size:18 final size:19
Alignment explanation
Indices: 30178925--30178964 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
30178915 ATAAAAATTC
* *
30178925 AGATTCATATTTAGATT-T
1 AGATCCATATTCAGATTAT
30178943 AGATCCATATTCAGATTAT
1 AGATCCATATTCAGATTAT
30178962 AGA
1 AGA
30178965 AACGAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (19 bp):
AGATCCATATTCAGATTAT
Found at i:30182822 original size:50 final size:48
Alignment explanation
Indices: 30182716--30182810 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 48
30182706 AAGTAACTTC
30182716 TCATGAAGCTCTACTTAAGTTAGAATGATGGCCAAACATTAAATGATTAT
1 TCATGAAGCTCTACTTAAGTTAGAATGA--GCCAAACATTAAATGATTAT
30182766 TCATGAAGCTCTACTTAA-TT-G-ATGA-CCAAACATTAAATGATTAT
1 TCATGAAGCTCTACTTAAGTTAGAATGAGCCAAACATTAAATGATTAT
30182810 T
1 T
30182811 AGTACTTATG
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
44 20 0.44
47 4 0.09
48 1 0.02
49 2 0.04
50 18 0.40
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (48 bp):
TCATGAAGCTCTACTTAAGTTAGAATGAGCCAAACATTAAATGATTAT
Found at i:30190512 original size:25 final size:25
Alignment explanation
Indices: 30190483--30190557 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
30190473 TTCCCACCCT
30190483 AATTTTACCCCAATAAAATTTTGAC
1 AATTTTACCCCAATAAAATTTTGAC
*** *
30190508 AATTTTACTTTATTAAAATTTTGAC
1 AATTTTACCCCAATAAAATTTTGAC
* *
30190533 GATTTTACCCCTGATAAAATTTTGA
1 AATTTTACCCC-AATAAAATTTTGA
30190558 GAAAATTCAT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
25 28 0.72
26 11 0.28
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.43
Consensus pattern (25 bp):
AATTTTACCCCAATAAAATTTTGAC
Found at i:30205583 original size:16 final size:16
Alignment explanation
Indices: 30205562--30205604 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
30205552 GTAGATCGAC
30205562 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
*
30205578 AAAAGCCGAAATGTCG
1 AAAAGCCGAAATGCCG
*
30205594 AAAAGCTGAAA
1 AAAAGCCGAAA
30205605 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:30205604 original size:8 final size:8
Alignment explanation
Indices: 30205562--30205604 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
30205552 GTAGATCGAC
30205562 AAAAGCCG
1 AAAAGCCG
*
30205570 AAATGCCG
1 AAAAGCCG
30205578 AAAAGCCG
1 AAAAGCCG
* *
30205586 AAATGTCG
1 AAAAGCCG
*
30205594 AAAAGCTG
1 AAAAGCCG
30205602 AAA
1 AAA
30205605 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (8 bp):
AAAAGCCG
Found at i:30205897 original size:29 final size:28
Alignment explanation
Indices: 30205836--30205949 Score: 113
Period size: 29 Copynumber: 4.0 Consensus size: 28
30205826 ATTTGGTTCG
*
30205836 GATGGACCATATAAATGAGATTGGGCCT
1 GATGGGCCATATAAATGAGATTGGGCCT
* * * *
30205864 AATGGGCCATATGAATGTGAATTGGGGCT
1 GATGGGCCATATAAATGAG-ATTGGGCCT
* * *
30205893 GATGGGCCATATGAACGTGA-ATTAGGCCG
1 GATGGGCCATAT-AA-ATGAGATTGGGCCT
*
30205922 GATAGGCCATATAAATGAGATTGGGCCT
1 GATGGGCCATATAAATGAGATTGGGCCT
30205950 AGTGGACCAT
Statistics
Matches: 66, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
27 3 0.05
28 24 0.36
29 36 0.55
30 1 0.02
31 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.25
Consensus pattern (28 bp):
GATGGGCCATATAAATGAGATTGGGCCT
Found at i:30212727 original size:45 final size:45
Alignment explanation
Indices: 30212669--30212841 Score: 292
Period size: 45 Copynumber: 3.8 Consensus size: 45
30212659 TCATTTCAAT
* * *
30212669 GGCATTATAGCCTGCTAGGCTCGAAGTCCCGAATAGTATATCACT
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
*
30212714 GACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
30212759 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
* *
30212804 GGCATTATAGCCTACTAGGCTCAAAGGCCTGAATAGTA
1 GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
30212842 CTGTATGATA
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 121 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (45 bp):
GGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATATCACC
Found at i:30213668 original size:47 final size:47
Alignment explanation
Indices: 30213597--30213738 Score: 232
Period size: 47 Copynumber: 3.0 Consensus size: 47
30213587 CTAGTATCAA
*
30213597 TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
30213644 TTAACTACGTAACTTACCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
30213691 TTAACTAAGTAACTTATCCGGAATTATTAAGAGC-AATTTATCAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
30213737 TT
1 TT
30213739 TAAATTTAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 13 0.15
47 75 0.85
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:30214759 original size:13 final size:13
Alignment explanation
Indices: 30214741--30214767 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30214731 GCTCAGCAGG
30214741 GACACGCCCGTGT
1 GACACGCCCGTGT
30214754 GACACGCCCGTGT
1 GACACGCCCGTGT
30214767 G
1 G
30214768 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:30216774 original size:32 final size:33
Alignment explanation
Indices: 30216727--30216828 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 33
30216717 TACCCAAGTG
*
30216727 GTACAACTTGAAAAGGTTATGTACACTTCGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTCGTGT
* * *
30216760 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGAAAAGGTTAGGTACACTTCGTGT
* * ** * *
30216792 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACT-TGAAAAGGTTAGGTACACTTCGTGT
30216825 GTAC
1 GTAC
30216829 CATTTGGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
32 28 0.48
33 30 0.52
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (33 bp):
GTACAACTTGAAAAGGTTAGGTACACTTCGTGT
Found at i:30217729 original size:237 final size:235
Alignment explanation
Indices: 30217315--30217790 Score: 720
Period size: 237 Copynumber: 2.0 Consensus size: 235
30217305 GTAAAACCAT
* * * * *
30217315 CCATGTAACACCCCTAACTCGTGACCGTCGCCGGTGTCGGACACGAGGGGTTAACGGCCAAATCC
1 CCATGTAACACCCCAAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAACAGCCAAAT-C
*
30217380 TCTCAAGGTACCAACCAATTTGACATTTCCAGTCAGGCTGGAAAACTGCGTCACCGTCACCTTAA
65 TCACAAGGTACCAACCAATTTGACATTTCCAGTCAGGCTGGAAAACTGCGTCACCGTCACCTTAA
*
30217445 AAATCATATCTCGAGTTTCAAAACTCGGAAACTAGTTTTGTAAATTTTCCCTGAATTTAGACTCA
130 AAATCATATCTCGAGTTTCAAAACTCGGAAACTAGTTTCGTAAATTTTCCCTGAATTTAGACTCA
*
30217510 CATACCCATCCATGGATTTATTTCTAGAATTTTTGGTCGGG
195 CATACCCATCCATGGATTTATTTCTAGAATTTTTGGTCAGG
* *
30217551 CCATGTAACACCCCAAACCCGAGACCATCGCCGGTGTCGGACCCGAGGGGTTAACAAGCCAAGT-
1 CCATGTAACACCCCAAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAAC-AGCCAAATC
* * * * * *
30217615 TCACATGTTTTGCCCACCAATTTGACATTTCCAGTCAGGCTGGAAAACTGCGTCACTGTCGCCTT
65 TCACAAG--GTACCAACCAATTTGACATTTCCAGTCAGGCTGGAAAACTGCGTCACCGTCACCTT
*
30217680 AAAAATCATATCTCGAGTTTCAAAACTCGGAAACTGGTTTCGTAAATTTTCCCTGAATTTAGACT
128 AAAAATCATATCTCGAGTTTCAAAACTCGGAAACTAGTTTCGTAAATTTTCCCTGAATTTAGACT
* * * *
30217745 CATATATCCATCCATGTATTTATTTCTAGGATTTTTGGTCAGG
193 CACATACCCATCCATGGATTTATTTCTAGAATTTTTGGTCAGG
30217788 CCA
1 CCA
30217791 ATTGGTACAG
Statistics
Matches: 216, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
235 5 0.02
236 50 0.23
237 161 0.75
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (235 bp):
CCATGTAACACCCCAAACCCGAGACCATCGCCGGTGTCGGACACGAGGGGTTAACAGCCAAATCT
CACAAGGTACCAACCAATTTGACATTTCCAGTCAGGCTGGAAAACTGCGTCACCGTCACCTTAAA
AATCATATCTCGAGTTTCAAAACTCGGAAACTAGTTTCGTAAATTTTCCCTGAATTTAGACTCAC
ATACCCATCCATGGATTTATTTCTAGAATTTTTGGTCAGG
Found at i:30218955 original size:40 final size:40
Alignment explanation
Indices: 30218910--30219077 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
30218900 CGGAATATAA
30218910 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
30218950 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
30218990 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
30219030 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
30219070 CCGGATAT
1 CCGGATAT
30219078 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30231779 original size:40 final size:40
Alignment explanation
Indices: 30231734--30231901 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
30231724 CGGAATATAA
30231734 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
30231774 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
30231814 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
30231854 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
30231894 CCGGATAT
1 CCGGATAT
30231902 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30234842 original size:29 final size:29
Alignment explanation
Indices: 30234809--30234940 Score: 219
Period size: 29 Copynumber: 4.6 Consensus size: 29
30234799 CCTTCGAGCT
** * *
30234809 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
30234838 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30234867 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30234896 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30234925 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30234941 ATCTCGTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 97 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:30234843 original size:58 final size:58
Alignment explanation
Indices: 30234780--30234940 Score: 187
Period size: 58 Copynumber: 2.8 Consensus size: 58
30234770 AATTTAAGCC
* * * * * *
30234780 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
30234838 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
30234896 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
30234941 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 91 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:30234871 original size:87 final size:87
Alignment explanation
Indices: 30234780--30234940 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 87
30234770 AATTTAAGCC
* * * * * *
30234780 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCATGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
30234845 TTAGTGCCATATATTTCCAGCA
66 TTAGTGCCATATATTTCCAGCA
* * * **
30234867 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
30234932 TTAGTGCCA
66 TTAGTGCCA
30234941 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
TTAGTGCCATATATTTCCAGCA
Found at i:30242895 original size:29 final size:29
Alignment explanation
Indices: 30242862--30242993 Score: 219
Period size: 29 Copynumber: 4.6 Consensus size: 29
30242852 CCTTCGAGCT
** * *
30242862 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
30242891 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30242920 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30242949 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
30242978 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
30242994 ATCTCGTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 97 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:30242896 original size:58 final size:58
Alignment explanation
Indices: 30242833--30242993 Score: 187
Period size: 58 Copynumber: 2.8 Consensus size: 58
30242823 AATTTAAGCC
* * * * * *
30242833 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
30242891 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
30242949 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
30242994 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 91 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:30242924 original size:87 final size:87
Alignment explanation
Indices: 30242833--30242993 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 87
30242823 AATTTAAGCC
* * * * * *
30242833 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCATGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
30242898 TTAGTGCCATATATTTCCAGCA
66 TTAGTGCCATATATTTCCAGCA
* * * **
30242920 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
30242985 TTAGTGCCA
66 TTAGTGCCA
30242994 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
TTAGTGCCATATATTTCCAGCA
Found at i:30246586 original size:19 final size:22
Alignment explanation
Indices: 30246553--30246592 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
30246543 AGTTTATTTA
30246553 TGTTATAATTGTTGC-AAAATG
1 TGTTATAATTGTTGCTAAAATG
30246574 TGTT-TAATT-TTGCTAAAAT
1 TGTTATAATTGTTGCTAAAAT
30246593 CTATTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (22 bp):
TGTTATAATTGTTGCTAAAATG
Found at i:30247601 original size:55 final size:55
Alignment explanation
Indices: 30247541--30247646 Score: 124
Period size: 55 Copynumber: 1.9 Consensus size: 55
30247531 ACCGTGGCCA
*
30247541 AAACTGAC-TTATCAACACGGCCATGGCACATGCCAGTGCTTCCAACCCGTGGATG
1 AAACTGACATT-TCAACACGGCCATGGCACATGCCAGTGCTACCAACCCGTGGATG
* * * ** * *
30247596 AAACTGTCATTTTAACACTGCCATGGCGGATGCCCGTGCTACCTACCCGTG
1 AAACTGACATTTCAACACGGCCATGGCACATGCCAGTGCTACCAACCCGTG
30247647 TACAACTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
55 40 0.95
56 2 0.05
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.23
Consensus pattern (55 bp):
AAACTGACATTTCAACACGGCCATGGCACATGCCAGTGCTACCAACCCGTGGATG
Found at i:30250451 original size:12 final size:12
Alignment explanation
Indices: 30250429--30250457 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
30250419 CACTCCACAA
30250429 CAATCTCCACTC
1 CAATCTCCACTC
30250441 CAATCTCCACTC
1 CAATCTCCACTC
30250453 CAATC
1 CAATC
30250458 CCCTATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.48, G:0.00, T:0.24
Consensus pattern (12 bp):
CAATCTCCACTC
Found at i:30254903 original size:40 final size:42
Alignment explanation
Indices: 30254826--30254904 Score: 117
Period size: 40 Copynumber: 1.9 Consensus size: 42
30254816 AGGGGTTTTT
30254826 ACACGGCCAAGCACACACCCGTGTCAATAGCCCGTGTCCCTC
1 ACACGGCCAAGCACACACCCGTGTCAATAGCCCGTGTCCCTC
* * *
30254868 ACACGGCCTAG-ACACGCCCGTGTC-ATTGCCCGTGTCC
1 ACACGGCCAAGCACACACCCGTGTCAATAGCCCGTGTCC
30254905 AAAAACTCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 12 0.35
41 12 0.35
42 10 0.29
ACGTcount: A:0.20, C:0.42, G:0.22, T:0.16
Consensus pattern (42 bp):
ACACGGCCAAGCACACACCCGTGTCAATAGCCCGTGTCCCTC
Found at i:30267023 original size:123 final size:123
Alignment explanation
Indices: 30266804--30267142 Score: 579
Period size: 123 Copynumber: 2.8 Consensus size: 123
30266794 GAATTATGTG
*
30266804 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
30266869 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAATGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
30266927 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
30266992 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
30267050 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* * *
30267115 GCTAAGTCCCAAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
30267143 AATTATATCC
Statistics
Matches: 205, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 205 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:30267032 original size:64 final size:64
Alignment explanation
Indices: 30266841--30267032 Score: 155
Period size: 64 Copynumber: 3.1 Consensus size: 64
30266831 TTGACATATG
30266841 TGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTT
1 TGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTT
* ** * **** * *** * * * * *
30266905 TGTGTTTGAGCCTTAGTAAT-G-A-AAATG--AAATATGGATGTGTAATGAT--TATTGATATAT
1 TGTGTATGAGTATTTG-AATGGTACCCGGGCTAAGTCCCGAAG-GCAATTATGCTAGTGATATGT
*
30266963 G
64 T
30266964 TGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTT
1 TGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTT
30267028 TGTGT
1 TGTGT
30267033 TCGAGCCTTA
Statistics
Matches: 83, Mismatches: 36, Indels: 18
0.61 0.26 0.13
Matches are distributed among these distances:
58 3 0.04
59 22 0.27
60 7 0.08
61 7 0.08
62 7 0.08
63 7 0.08
64 27 0.33
65 3 0.04
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.35
Consensus pattern (64 bp):
TGTGTATGAGTATTTGAATGGTACCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTT
Found at i:30267180 original size:40 final size:40
Alignment explanation
Indices: 30267145--30267354 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
30267135 ATGCTAGTAA
* * * *
30267145 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TG
1 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
*
30267184 ACTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
1 -TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
30267225 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
1 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
*
30267265 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCG
1 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
* * * ** *
30267305 TTATATCCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGG
1 TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
30267345 TTATATCCGG
1 TTATATCCGG
30267355 TTGTATTCCG
Statistics
Matches: 156, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 154 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TTATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG
Found at i:30283868 original size:20 final size:20
Alignment explanation
Indices: 30283839--30283879 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
30283829 AATGTACCTA
30283839 TCCCCATATCATCAGTCACC
1 TCCCCATATCATCAGTCACC
*
30283859 TCCCCGTATCATCAGTCACC
1 TCCCCATATCATCAGTCACC
30283879 T
1 T
30283880 TGACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.44, G:0.07, T:0.27
Consensus pattern (20 bp):
TCCCCATATCATCAGTCACC
Found at i:30285798 original size:12 final size:11
Alignment explanation
Indices: 30285758--30285798 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
30285748 AGTTGAGCTA
30285758 TTTTTAA-AAT
1 TTTTTAATAAT
30285768 ATTTTT-ATAAT
1 -TTTTTAATAAT
30285779 TTTTTAATAAT
1 TTTTTAATAAT
30285790 TTATTTAAT
1 TT-TTTAAT
30285799 TGAACCAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.22
11 15 0.56
12 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:30292541 original size:60 final size:60
Alignment explanation
Indices: 30292419--30292542 Score: 135
Period size: 61 Copynumber: 2.0 Consensus size: 60
30292409 TCTTTTCAAC
* *
30292419 TTTTAGAATTAGAACTAAACTGAAAAATTTTATAAATGATCAAGGTTAAATCTATTGAATT
1 TTTTAGAATTAGAACTAAACTGAAAAATTTTATAAAT-ATCAAGGATAAATCTATTAAATT
* * * * * *
30292480 TTTTAGAATTAGATCTAAA-TGATAAATTTTGTATACAT-TGAAGGATAAATTTGTTAAATT
1 TTTTAGAATTAGAACTAAACTGA-AAAATTT-TATAAATATCAAGGATAAATCTATTAAATT
30292540 TTT
1 TTT
30292543 AAATTTAAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
60 23 0.43
61 24 0.45
62 6 0.11
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (60 bp):
TTTTAGAATTAGAACTAAACTGAAAAATTTTATAAATATCAAGGATAAATCTATTAAATT
Found at i:30298681 original size:46 final size:46
Alignment explanation
Indices: 30298624--30298796 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
30298614 TTGGGCATCC
30298624 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTCT
* * * ** *
30298670 GAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA--AGG--TCT
* ***
30298717 GAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTCT
* *
30298763 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30298797 GCAGGTTACA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 5 0.05
45 5 0.05
46 57 0.56
47 26 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTCT
Found at i:30298776 original size:93 final size:93
Alignment explanation
Indices: 30298617--30298789 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
30298607 GGGATATTTG
* ***
30298617 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGGTCTGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCTGAACTCATTGAG
30298682 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
30298710 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCTGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCTGAACTCATTGAG
30298775 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
30298790 CTTATGGGCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACACCTGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:30303313 original size:15 final size:15
Alignment explanation
Indices: 30303295--30303345 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
30303285 TTATAGTGTA
30303295 TTTAATTGTATATAT
1 TTTAATTGTATATAT
*
30303310 TTTAAATT-TTTATA-
1 TTT-AATTGTATATAT
*
30303324 TTTAATTGTGTAATAT
1 TTTAATTGTAT-ATAT
30303340 TTTAAT
1 TTTAAT
30303346 AGTGTGCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 4 0.13
14 5 0.17
15 11 0.37
16 10 0.33
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTAATTGTATATAT
Found at i:30306126 original size:23 final size:22
Alignment explanation
Indices: 30306087--30306138 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 22
30306077 AAGTATTTTA
30306087 AAAGACATGATACAAAAATATT
1 AAAGACATGATACAAAAATATT
30306109 AAAGACATTG-TACAAAAATATT
1 AAAGACA-TGATACAAAAATATT
30306131 AAATGACA
1 AAA-GACA
30306139 ATATTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (22 bp):
AAAGACATGATACAAAAATATT
Found at i:30311899 original size:3 final size:3
Alignment explanation
Indices: 30311891--30311994 Score: 199
Period size: 3 Copynumber: 34.7 Consensus size: 3
30311881 TCCTCATTCC
30311891 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
30311939 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
*
30311987 GTT ATT AT
1 ATT ATT AT
30311995 CTACTTATTC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 99 1.00
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:30313327 original size:5 final size:6
Alignment explanation
Indices: 30313278--30313337 Score: 79
Period size: 6 Copynumber: 9.8 Consensus size: 6
30313268 TTGAGTCCAA
30313278 TTATTT TTATGTT TATATTT TTA--T TTATTT TTATCTT TTATTT TTATTT
1 TTATTT TTAT-TT T-TATTT TTATTT TTATTT TTAT-TT TTATTT TTATTT
30313327 TTATTT TTATT
1 TTATTT TTATT
30313338 CTTCTTGTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.08
6 30 0.61
7 12 0.24
8 3 0.06
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:30313348 original size:18 final size:19
Alignment explanation
Indices: 30313302--30313348 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
30313292 ATATTTTTAT
* *
30313302 TTATTTTTATCTTTTATTT
1 TTATTGTTATCTTTTATTC
*
30313321 TTATTTTTAT-TTTTATTC
1 TTATTGTTATCTTTTATTC
*
30313339 TTCTTGTTAT
1 TTATTGTTAT
30313349 GTCTATTTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (19 bp):
TTATTGTTATCTTTTATTC
Done.