Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 138 of 186
Found at i:45617262 original size:15 final size:15
Alignment explanation
Indices: 45617242--45617271 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45617232 ATTATGAAAG
45617242 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
45617257 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
45617272 GAGTTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:45618251 original size:35 final size:35
Alignment explanation
Indices: 45618139--45618252 Score: 97
Period size: 35 Copynumber: 3.3 Consensus size: 35
45618129 GTATGTACAT
* * * *
45618139 ATGTGATG-ATATGTTGAACTTGTAAATTTGGCTAC
1 ATGTGATGAAT-TATTGAACTTGTATATTTGGCCAA
** * * * *
45618174 ATGTGATGTTTTATTTAACTTGTAT-TTTCTGTCAT
1 ATGTGATGAATTATTGAACTTGTATATTT-GGCCAA
*
45618209 ATATGATGAATTATTGAACTTGTATATTTGGCCAA
1 ATGTGATGAATTATTGAACTTGTATATTTGGCCAA
45618244 ATGTGATGA
1 ATGTGATGA
45618253 TATAACGAAC
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
34 3 0.05
35 53 0.88
36 4 0.07
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (35 bp):
ATGTGATGAATTATTGAACTTGTATATTTGGCCAA
Found at i:45621247 original size:45 final size:46
Alignment explanation
Indices: 45621147--45621371 Score: 266
Period size: 45 Copynumber: 4.9 Consensus size: 46
45621137 TTTTCTCAAA
* * * *
45621147 TCACCGGCATT-TTGCCTGCTAGGCTC-GAGGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAATC
*
45621189 TCACCGGCATTATAGCCTGTTAGGCTCGAAA-GCCCGAATAGT-ATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTAATC
*
45621234 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAATC
*
45621279 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATACTTGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA---G--T-A-ATC
45621332 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
45621372 ACATTTCACC
Statistics
Matches: 161, Mismatches: 8, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
42 11 0.07
43 13 0.08
44 8 0.05
45 85 0.53
46 1 0.01
50 1 0.01
53 42 0.26
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (46 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAATC
Found at i:45621349 original size:53 final size:53
Alignment explanation
Indices: 45621269--45621371 Score: 188
Period size: 53 Copynumber: 1.9 Consensus size: 53
45621259 TCAAAGGCCC
*
45621269 GAATAATATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATACTT
1 GAATAACATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATACTT
*
45621322 GAATAACATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 GAATAACATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
45621372 ACATTTCACC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (53 bp):
GAATAACATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATACTT
Found at i:45625010 original size:43 final size:43
Alignment explanation
Indices: 45624944--45625143 Score: 190
Period size: 43 Copynumber: 4.7 Consensus size: 43
45624934 TACTCGTACA
** * * *
45624944 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGACAGGGTCTTACACGAAATCAAATATCG
* * * * *
45624987 ATGCCACTATCCCAAACAGGGTCTTATACAAAATTAAAT-TCG
1 ATGCCAATATCCCAGACAGGGTCTTACACGAAATCAAATATCG
* * *
45625029 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAATATCCCAGACAGGGTCTTACACG-AAATC-AAATATCG
* *
45625073 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCATATATCG
1 ATGCCAATATCCCAGACAG-GGTCTTACACGAAATCAAATATCG
* * *
45625116 ATGCCACTATCCCAAATAGGGTCTTACA
1 ATGCCAATATCCCAGACAGGGTCTTACA
45625144 TGATATCTCA
Statistics
Matches: 126, Mismatches: 25, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
42 28 0.22
43 64 0.51
44 34 0.27
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:45625081 original size:44 final size:43
Alignment explanation
Indices: 45624944--45625121 Score: 193
Period size: 43 Copynumber: 4.1 Consensus size: 43
45624934 TACTCGTACA
* * *
45624944 ATGCCAACGTCCCAGACATGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTAA-ATCG
* * * * * *
45624987 ATGCCACTATCCCAAACAGGGTCTTATAC-AAAAT-TAAATTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTAAA-TCG
45625029 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCT-AAATCG
* *
45625073 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TAAATCG
45625116 ATGCCA
1 ATGCCA
45625122 CTATCCCAAA
Statistics
Matches: 112, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 29 0.26
43 45 0.40
44 34 0.30
45 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTAAATCG
Found at i:45628627 original size:54 final size:52
Alignment explanation
Indices: 45628556--45628716 Score: 175
Period size: 54 Copynumber: 3.1 Consensus size: 52
45628546 TTAAAAAAAT
* * * *
45628556 TATTTAAATCAAGAAATTTAAAATAAAAATAGAATTTAATTAGATGATAAATTA
1 TATTTAAAGCAATAAATTTAAAATAAAAAT-GAATTTAATTA-AAGATAATTTA
* * *
45628610 TATTTAAGGCAATAAA-TTAAAATTAAAAT-AA-TTAATTATAGATAATTTA
1 TATTTAAAGCAATAAATTTAAAATAAAAATGAATTTAATTAAAGATAATTTA
* * *
45628659 TATTTAAAGTAATAAATTTATATTAAAAATTGAATTTAATTAAAGGATAATTTA
1 TATTTAAAGCAATAAATTTAAAATAAAAA-TGAATTTAATTAAA-GATAATTTA
45628713 TATT
1 TATT
45628717 ATAATGGGAC
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
49 22 0.25
50 16 0.18
51 3 0.03
52 2 0.02
53 20 0.22
54 26 0.29
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (52 bp):
TATTTAAAGCAATAAATTTAAAATAAAAATGAATTTAATTAAAGATAATTTA
Found at i:45628673 original size:49 final size:52
Alignment explanation
Indices: 45628556--45628716 Score: 159
Period size: 49 Copynumber: 3.1 Consensus size: 52
45628546 TTAAAAAAAT
* * * * *
45628556 TATTTAAA-TCAAGAAATTTAAAATAAAAATAGAATTTAATTAGATGATAAATTA
1 TATTTAAAGT-AATAAA-TTAAAATTAAAAT-GAATTTAATTAAAGGATAATTTA
* * *
45628610 TATTTAAGGCAATAAATTAAAATTAAAAT-AA-TTAATTATA-GATAATTTA
1 TATTTAAAGTAATAAATTAAAATTAAAATGAATTTAATTAAAGGATAATTTA
* *
45628659 TATTTAAAGTAATAAATTTATATTAAAAATTGAATTTAATTAAAGGATAATTTA
1 TATTTAAAGTAATAAATTAAAATT-AAAA-TGAATTTAATTAAAGGATAATTTA
45628713 TATT
1 TATT
45628717 ATAATGGGAC
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
49 28 0.31
50 12 0.13
51 3 0.03
52 2 0.02
53 20 0.22
54 25 0.28
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (52 bp):
TATTTAAAGTAATAAATTAAAATTAAAATGAATTTAATTAAAGGATAATTTA
Found at i:45628780 original size:17 final size:17
Alignment explanation
Indices: 45628758--45628791 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45628748 AATTATATTA
45628758 TAATTAAAGGATAAATT
1 TAATTAAAGGATAAATT
* *
45628775 TAATTAGAGGCTAAATT
1 TAATTAAAGGATAAATT
45628792 AGATTTTAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (17 bp):
TAATTAAAGGATAAATT
Found at i:45659491 original size:31 final size:29
Alignment explanation
Indices: 45659427--45659495 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
45659417 ATAATAATAT
** *
45659427 AAGTGACTAAAACGTAACATTTTAAACAT
1 AAGTGACTAAAACGTAACATGGTAAACAA
45659456 AAGTGACTAAAACGTAACATGAGGTAAACAA
1 AAGTGACTAAAACGTAACAT--GGTAAACAA
45659487 AAGTGACTA
1 AAGTGACTA
45659496 TTTTTGTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 20 0.57
31 15 0.43
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACATGGTAAACAA
Found at i:45669300 original size:45 final size:45
Alignment explanation
Indices: 45669245--45669335 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
45669235 ATTTATACAT
*
45669245 GCTTTTTTTCTCTTTATGTATTTGGAATTATGGATCTATTTGCCA
1 GCTTTTTTTCTCTTTATGGATTTGGAATTATGGATCTATTTGCCA
45669290 GCTTTTTTTCTCTTTATGGATTTGGAATTATGGATCTATTTGCCA
1 GCTTTTTTTCTCTTTATGGATTTGGAATTATGGATCTATTTGCCA
45669335 G
1 G
45669336 AATTCATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.52
Consensus pattern (45 bp):
GCTTTTTTTCTCTTTATGGATTTGGAATTATGGATCTATTTGCCA
Found at i:45669733 original size:19 final size:19
Alignment explanation
Indices: 45669709--45669752 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
45669699 TTCAAACACT
*
45669709 AGAAAAGTAAATCATTTTC
1 AGAAAAATAAATCATTTTC
45669728 AGAAAAATAAATCATTTTC
1 AGAAAAATAAATCATTTTC
*
45669747 CGAAAA
1 AGAAAA
45669753 TCATTTTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.27
Consensus pattern (19 bp):
AGAAAAATAAATCATTTTC
Found at i:45674858 original size:11 final size:11
Alignment explanation
Indices: 45674842--45674866 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45674832 TATGTTTTAA
45674842 AAAAATAAAAT
1 AAAAATAAAAT
45674853 AAAAATAAAAT
1 AAAAATAAAAT
45674864 AAA
1 AAA
45674867 GAACACACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:45675495 original size:7 final size:7
Alignment explanation
Indices: 45675483--45675523 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
45675473 TAAACAAAAA
45675483 AATTTTG
1 AATTTTG
45675490 AATTTTG
1 AATTTTG
45675497 AATTTTG
1 AATTTTG
*
45675504 AATTTTA
1 AATTTTG
*
45675511 AATTTTA
1 AATTTTG
45675518 AATTTT
1 AATTTT
45675524 ATAACAAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (7 bp):
AATTTTG
Found at i:45683149 original size:32 final size:32
Alignment explanation
Indices: 45683108--45683177 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
45683098 ATTCTCACAA
*
45683108 TCATACCTACTTCACATTTCCAACCCTTATAT
1 TCATACCTACTTCACATTTCCAACCATTATAT
45683140 TCATACCTACTTCACATTTCCAACCATTATAT
1 TCATACCTACTTCACATTTCCAACCATTATAT
45683172 TCATAC
1 TCATAC
45683178 ATAAGGAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (32 bp):
TCATACCTACTTCACATTTCCAACCATTATAT
Found at i:45683441 original size:40 final size:40
Alignment explanation
Indices: 45683351--45683570 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
45683341 ACCCAAGTAT
* ** *
45683351 CTTCGGGATTTAG-CCGGATATAACCACT--CACACAAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACA-AATGC
* * * * *
45683389 CTTCGAGTCTTAGCCCGGATATGGTCACTAGCATAATTGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
45683429 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
45683469 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
45683509 CTTC-GGATCTTAGTCCGAATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
45683549 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
45683571 CATTCGAATA
Statistics
Matches: 149, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
38 10 0.07
39 15 0.10
40 117 0.79
41 7 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:45683537 original size:120 final size:118
Alignment explanation
Indices: 45683351--45683570 Score: 309
Period size: 120 Copynumber: 1.8 Consensus size: 118
45683341 ACCCAAGTAT
* * *
45683351 CTTCGGGATTTAGCCGGATATAACCACTCACACAAGGCCTTCGAGTCTTAGCCCGGATATGGTCA
1 CTTCGGGATTTAGCCGGATATAACAACTCACACAAGGCCTTCGAGTCTTAGCCCGAATATAGTCA
**
45683416 CTAGCATAATTGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
66 CTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
* * * *
45683469 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCG-GATCTTAGTCCGAATATA
1 CTTCGGGAT-TTAG-CCGGATATAACAACTCACAC-AAGGCCTTCGAG-TCTTAGCCCGAATATA
45683532 GTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
62 GTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
45683571 CATTCGAATA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
117 1 0.01
118 11 0.12
119 18 0.20
120 59 0.66
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (118 bp):
CTTCGGGATTTAGCCGGATATAACAACTCACACAAGGCCTTCGAGTCTTAGCCCGAATATAGTCA
CTAGCATAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
Found at i:45694479 original size:39 final size:39
Alignment explanation
Indices: 45694435--45694583 Score: 138
Period size: 39 Copynumber: 3.7 Consensus size: 39
45694425 TCATCACACA
45694435 AATTTAATTAGAGACTTAAAATATAATGTAACTTAATAT
1 AATTTAATTAGAGACTTAAAATATAATGTAACTTAATAT
** * * *
45694474 AATTTAATTAGAGGGTTCAACATAATTTAATTGTTAACTTAACAG
1 AATTTAATTAGAGACTT--A-A-AATATAA-TG-TAACTTAATAT
* * * *
45694519 AATTTACTTAGAGATTTAAAATATAATTTAACTTACTAT
1 AATTTAATTAGAGACTTAAAATATAATGTAACTTAATAT
* *
45694558 AATTTATTTAAAGACTT-AAATATAAT
1 AATTTAATTAGAGACTTAAAATATAAT
45694584 TTCAAACAAC
Statistics
Matches: 88, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
38 9 0.10
39 37 0.42
40 1 0.01
41 7 0.08
42 2 0.02
43 7 0.08
44 2 0.02
45 23 0.26
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (39 bp):
AATTTAATTAGAGACTTAAAATATAATGTAACTTAATAT
Found at i:45698872 original size:60 final size:60
Alignment explanation
Indices: 45698804--45698927 Score: 239
Period size: 60 Copynumber: 2.1 Consensus size: 60
45698794 ACTAAACGGT
*
45698804 GGGAAGGAGTTTAAATGAAATTCAAACTGTGCTAAGGGCTAAAATTAAGGAGCAAAATAA
1 GGGAAGGAGTTTAAATGAAATTCAAACTGTGCTAAGGGCTAAAATTAAGGAGCAAAACAA
45698864 GGGAAGGAGTTTAAATGAAATTCAAACTGTGCTAAGGGCTAAAATTAAGGAGCAAAACAA
1 GGGAAGGAGTTTAAATGAAATTCAAACTGTGCTAAGGGCTAAAATTAAGGAGCAAAACAA
45698924 GGGA
1 GGGA
45698928 TTCGAATATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.44, C:0.09, G:0.27, T:0.20
Consensus pattern (60 bp):
GGGAAGGAGTTTAAATGAAATTCAAACTGTGCTAAGGGCTAAAATTAAGGAGCAAAACAA
Found at i:45700450 original size:20 final size:21
Alignment explanation
Indices: 45700407--45700452 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
45700397 AACGTTTTGT
45700407 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
45700427 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
45700446 TATGGGC
1 TATGGGC
45700453 AAGGCCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:45700519 original size:60 final size:60
Alignment explanation
Indices: 45700445--45700581 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 60
45700435 AACTGTGTTA
* *
45700445 ATATGGGCAAGGCCCAACAT-ATCTCA-ACTTGTAATAGGGCTACGGCCAAGATTGATACTG
1 ATATGGGCTAGGCCCAACATAATCTCATAC-TGTAA-AGGGCTACGGCCAAGATTAATACTG
** * * * * * *
45700505 ATATGGGCTAGGCCCAGTATAATTTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAACATAATCTCATACTGTAAAGGGCTACGGCCAAGATTAATACTG
45700565 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
45700582 GTTAACTCTA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 46 0.72
61 16 0.25
62 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAACATAATCTCATACTGTAAAGGGCTACGGCCAAGATTAATACTG
Found at i:45700533 original size:32 final size:34
Alignment explanation
Indices: 45700495--45700567 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 34
45700485 TACGGCCAAG
*
45700495 ATTGATACTG-ATATGGGCTA-GGCCCAG-TATAAT
1 ATTGATACTGTA-AGGGGCTATGGCCCAGAT-TAAT
45700528 -TTGATACTGTAAGGGGCTATGGCCCAGATTAAT
1 ATTGATACTGTAAGGGGCTATGGCCCAGATTAAT
45700561 ATTGATA
1 ATTGATA
45700568 TGGGCTAAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
32 16 0.46
33 12 0.34
34 7 0.20
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (34 bp):
ATTGATACTGTAAGGGGCTATGGCCCAGATTAAT
Found at i:45702451 original size:92 final size:92
Alignment explanation
Indices: 45702294--45702479 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 92
45702284 ATTTATCTTG
* *
45702294 ATCTAGATAGGTAATTTCATTCAATTAAATACTTTAGTATTCAATTTAATCCACATTTCATATTT
1 ATCTAAATACGTAATTTCATTCAATTAAATACTTTAGTATTCAATTTAATCCACATTTCATATTT
*
45702359 ATGCAAAATTACAAATTCACCCCTAAC
66 ATGAAAAATTACAAATTCACCCCTAAC
45702386 ATCTAAATACGTAATTTCATTCAATTAAATACTTTAGTATTCAATTTAATCCACATTTCATATTT
1 ATCTAAATACGTAATTTCATTCAATTAAATACTTTAGTATTCAATTTAATCCACATTTCATATTT
45702451 ATGAAAAATTACAAATTCACCCCTAAC
66 ATGAAAAATTACAAATTCACCCCTAAC
45702478 AT
1 AT
45702480 TTTAACTTTT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.38
Consensus pattern (92 bp):
ATCTAAATACGTAATTTCATTCAATTAAATACTTTAGTATTCAATTTAATCCACATTTCATATTT
ATGAAAAATTACAAATTCACCCCTAAC
Found at i:45704838 original size:27 final size:27
Alignment explanation
Indices: 45704789--45704843 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
45704779 TACCTCCTCT
* * *
45704789 GATTCCTCAGTATGCTCCTGTAGTTCC
1 GATTCCTCAGTATGCCCCGGTAGCTCC
45704816 GATTCCTCAGTATGCCCCGGTAGCTCC
1 GATTCCTCAGTATGCCCCGGTAGCTCC
45704843 G
1 G
45704844 CAAGGCGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.33, G:0.22, T:0.31
Consensus pattern (27 bp):
GATTCCTCAGTATGCCCCGGTAGCTCC
Found at i:45706031 original size:19 final size:20
Alignment explanation
Indices: 45706007--45706044 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
45705997 GGTACCACCA
45706007 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
45706026 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
45706045 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:45706383 original size:93 final size:93
Alignment explanation
Indices: 45706275--45706444 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
45706265 CCCCTAAGTA
* * *
45706275 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
45706340 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
*
45706368 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
45706433 GAGTTCGGATGC
66 GAGTTCGGATGC
45706445 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:45706441 original size:46 final size:46
Alignment explanation
Indices: 45706269--45706441 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
45706259 AACCCGCCCC
* * * *
45706269 TAAGTAAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
45706315 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
45706363 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
45706408 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45706442 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:45706898 original size:30 final size:30
Alignment explanation
Indices: 45706864--45706923 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
45706854 ATTTAATACG
45706864 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
45706894 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
45706924 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:45713398 original size:46 final size:46
Alignment explanation
Indices: 45713246--45713514 Score: 161
Period size: 46 Copynumber: 5.7 Consensus size: 46
45713236 ACACTTGTGT
* * * **
45713246 GAGCTAGTGTAAGACATGACTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
* * * ** *
45713292 GAGCCAATGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGA
* ** * *
45713340 GTGTTAGAGTAAGACATGTCTGAGACATGCATCGGCCTCAAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-A
* * *
45713387 -AGCCAGTGTAAGACATGTCTGGGACATGTATC-GACT-ACGA-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
* ** * *
45713429 TGTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGG-CACAAGTATGATA
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAG-ATG--A
** *
45713480 GAGCTTGTGTAAGACCATGTCTAGGACATGACATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG-CATC
45713515 AGCACCTGAC
Statistics
Matches: 167, Mismatches: 42, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 13 0.08
45 16 0.10
46 56 0.34
47 28 0.17
48 21 0.13
49 2 0.01
50 28 0.17
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
Found at i:45722085 original size:40 final size:40
Alignment explanation
Indices: 45722025--45722208 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
45722015 TATTCGAATG
* *
45722025 ATATCCAGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
45722065 ATATCCGGACTAAGATCCGAAGGCCTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
45722105 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
45722145 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
45722185 ATATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
45722209 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 117 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:45722158 original size:80 final size:80
Alignment explanation
Indices: 45722025--45722208 Score: 228
Period size: 80 Copynumber: 2.3 Consensus size: 80
45722015 TATTCGAATG
* * * *
45722025 ATATCCAGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* * *
45722089 CTTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
45722105 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
45722170 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
*
45722185 ATATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
45722209 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 3 0.03
80 86 0.97
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:45732649 original size:16 final size:16
Alignment explanation
Indices: 45732630--45732660 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45732620 CCCCAGGCAA
45732630 AATATTTACAATTTAC
1 AATATTTACAATTTAC
*
45732646 AATATTTATAATTTA
1 AATATTTACAATTTA
45732661 GTTCTAAGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATTTACAATTTAC
Found at i:45742288 original size:100 final size:100
Alignment explanation
Indices: 45742114--45742594 Score: 865
Period size: 100 Copynumber: 4.8 Consensus size: 100
45742104 TATTCACGAC
* * * * * ***
45742114 AGGTTTTAAACATTTATTATTAATCATTCTTGAAACTAACTATTATCACGATG-AAGGCAAGTGT
1 AGGTTTTCAATATTTATAATTACTCTTTCTTG-AACTAACTATTATTGTGATGTAA-GCAAGTGT
45742178 ACCTATCGAACAGTAGTTGAGCGCGAGATTTTGTGAT
64 ACCTATCGAACAGTAGTTGAGCGCGAGATTTTGTGAT
45742215 AGGTTTTCAATATTTATAATTACTCTTTCTTGAACTAACTATTATTGTGATGTAAGCAAGTGTAC
1 AGGTTTTCAATATTTATAATTACTCTTTCTTGAACTAACTATTATTGTGATGTAAGCAAGTGTAC
45742280 CTATCGAACAGTAGTTGAGCGCGAGATTTTGTGAT
66 CTATCGAACAGTAGTTGAGCGCGAGATTTTGTGAT
45742315 AGGTTTTCAATATTTATAATTACTCTTTCTTGAACTAACTATTATTGTGATGTAAGCAAGTGTAC
1 AGGTTTTCAATATTTATAATTACTCTTTCTTGAACTAACTATTATTGTGATGTAAGCAAGTGTAC
45742380 CTATCGAACAGTAGTTGAGCGCGAGATTTTGTGAT
66 CTATCGAACAGTAGTTGAGCGCGAGATTTTGTGAT
45742415 AGGTTTTCAATATTTATAATTACTCTTTCTTGAACTAACTATTATTGTGATGTAAGCAAGTGTAC
1 AGGTTTTCAATATTTATAATTACTCTTTCTTGAACTAACTATTATTGTGATGTAAGCAAGTGTAC
45742480 CTATCGAACAGTAGTTGAGCGCGAGATTTTGTGAT
66 CTATCGAACAGTAGTTGAGCGCGAGATTTTGTGAT
45742515 AGGTTTTCAATATTTATAATTACTCTTTCTTGAACTAACTATTATTGTGATGTAAGCAAGTGTAC
1 AGGTTTTCAATATTTATAATTACTCTTTCTTGAACTAACTATTATTGTGATGTAAGCAAGTGTAC
45742580 CTATCGAACAGTAGT
66 CTATCGAACAGTAGT
45742595 ATAGTTTTAG
Statistics
Matches: 371, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
100 342 0.92
101 29 0.08
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (100 bp):
AGGTTTTCAATATTTATAATTACTCTTTCTTGAACTAACTATTATTGTGATGTAAGCAAGTGTAC
CTATCGAACAGTAGTTGAGCGCGAGATTTTGTGAT
Found at i:45746303 original size:27 final size:27
Alignment explanation
Indices: 45746273--45746359 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
45746263 GTGATGAAGT
45746273 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
45746300 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
45746327 CACCAAAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
45746354 CACCAG
1 CACCAG
45746360 GACACTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
26 8 0.15
27 44 0.81
28 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:45746527 original size:28 final size:26
Alignment explanation
Indices: 45746465--45746527 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
45746455 AAAGTAACCC
** * *
45746465 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
45746491 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
45746519 TAGGGGTAT
1 TAGGGGTAT
45746528 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:45750844 original size:36 final size:36
Alignment explanation
Indices: 45750785--45750853 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
45750775 TACTCCTTAT
*
45750785 TCCTGCTATCATTCTAATCAAAATAAGGTTTTAGAC
1 TCCTGCTATCAGTCTAATCAAAATAAGGTTTTAGAC
* *
45750821 TCCTGCTATCAGTCTCATTAAAATAAGGTTTTA
1 TCCTGCTATCAGTCTAATCAAAATAAGGTTTTA
45750854 AACGGGTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.38
Consensus pattern (36 bp):
TCCTGCTATCAGTCTAATCAAAATAAGGTTTTAGAC
Found at i:45760849 original size:162 final size:162
Alignment explanation
Indices: 45760582--45760906 Score: 650
Period size: 162 Copynumber: 2.0 Consensus size: 162
45760572 TTAAAATTAA
45760582 ATCTAAACAATCACTACAGGAAAATAGGGTTTTAGCAGCGTTTTTAGCGGCGTTTTATCAAAAAA
1 ATCTAAACAATCACTACAGGAAAATAGGGTTTTAGCAGCGTTTTTAGCGGCGTTTTATCAAAAAA
45760647 GTCGCAAAAATTGAAAAACACAGAGCAATAGCGGCATTTTATAGCGGCGCTTTTGGCAAAACGCC
66 GTCGCAAAAATTGAAAAACACAGAGCAATAGCGGCATTTTATAGCGGCGCTTTTGGCAAAACGCC
45760712 GCTAAAAACCAGAGCATTAGTGGCGCTTTTGG
131 GCTAAAAACCAGAGCATTAGTGGCGCTTTTGG
45760744 ATCTAAACAATCACTACAGGAAAATAGGGTTTTAGCAGCGTTTTTAGCGGCGTTTTATCAAAAAA
1 ATCTAAACAATCACTACAGGAAAATAGGGTTTTAGCAGCGTTTTTAGCGGCGTTTTATCAAAAAA
45760809 GTCGCAAAAATTGAAAAACACAGAGCAATAGCGGCATTTTATAGCGGCGCTTTTGGCAAAACGCC
66 GTCGCAAAAATTGAAAAACACAGAGCAATAGCGGCATTTTATAGCGGCGCTTTTGGCAAAACGCC
45760874 GCTAAAAACCAGAGCATTAGTGGCGCTTTTGG
131 GCTAAAAACCAGAGCATTAGTGGCGCTTTTGG
45760906 A
1 A
45760907 AAAACGCCGC
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 163 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (162 bp):
ATCTAAACAATCACTACAGGAAAATAGGGTTTTAGCAGCGTTTTTAGCGGCGTTTTATCAAAAAA
GTCGCAAAAATTGAAAAACACAGAGCAATAGCGGCATTTTATAGCGGCGCTTTTGGCAAAACGCC
GCTAAAAACCAGAGCATTAGTGGCGCTTTTGG
Found at i:45760899 original size:41 final size:41
Alignment explanation
Indices: 45760850--45760962 Score: 181
Period size: 41 Copynumber: 2.8 Consensus size: 41
45760840 CGGCATTTTA
45760850 TAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCAT
1 TAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCAT
* *
45760891 TAGTGGCGCTTTTGGAAAAACGCCGCTAAAAACCAGAGCAT
1 TAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCAT
* * *
45760932 TAGCGGCGCTTTCGACAAAACGCCACTAAAA
1 TAGCGGCGCTTTTGGCAAAACGCCGCTAAAA
45760963 GTCATATAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.18
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGCAAAACGCCGCTAAAAACCAGAGCAT
Found at i:45761125 original size:25 final size:25
Alignment explanation
Indices: 45761091--45761140 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
45761081 AGAGATAGTA
45761091 TTGAATTTAAAATATCGAATTAATT
1 TTGAATTTAAAATATCGAATTAATT
45761116 TTGAATTTAAAATATCGAATTAATT
1 TTGAATTTAAAATATCGAATTAATT
45761141 ATCATTATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (25 bp):
TTGAATTTAAAATATCGAATTAATT
Found at i:45761184 original size:21 final size:22
Alignment explanation
Indices: 45761156--45761237 Score: 96
Period size: 21 Copynumber: 3.7 Consensus size: 22
45761146 TATAGTTTAA
45761156 AGTTTAGGGTTTAAGATATATG
1 AGTTTAGGGTTTAAGATATATG
* *
45761178 A-TTTAGGGTTTAAGGTTTATG
1 AGTTTAGGGTTTAAGATATATG
*
45761199 AGTTAACTATGGTTTAAGATATAT-
1 AGTT---TAGGGTTTAAGATATATG
45761223 AGTTTAGGGTTTAAG
1 AGTTTAGGGTTTAAG
45761238 GTTTAGGAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
21 29 0.58
22 3 0.06
24 4 0.08
25 14 0.28
ACGTcount: A:0.30, C:0.01, G:0.26, T:0.43
Consensus pattern (22 bp):
AGTTTAGGGTTTAAGATATATG
Found at i:45761216 original size:46 final size:46
Alignment explanation
Indices: 45761163--45761253 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
45761153 TAAAGTTTAG
*
45761163 GGTTTAAGATATAT-GATTTAGGGTTTAAGGTTTATGAGTTAACTAT
1 GGTTTAAGATATATAG-TTTAGGGTTTAAGGTTTAGGAGTTAACTAT
45761209 GGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
1 GGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
45761254 GTATTTGAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (46 bp):
GGTTTAAGATATATAGTTTAGGGTTTAAGGTTTAGGAGTTAACTAT
Found at i:45761318 original size:21 final size:20
Alignment explanation
Indices: 45761293--45761340 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
45761283 TTTAGGGGTT
*
45761293 AGGGTTGGAGTTTAAGGTGT-A
1 AGGGTTGG-GTTAAAGGT-TCA
45761314 AGGGTTTGGGTTAAAGGTTCA
1 AGGG-TTGGGTTAAAGGTTCA
45761335 AGGGTT
1 AGGGTT
45761341 AGTGTTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.12
21 17 0.71
22 4 0.17
ACGTcount: A:0.23, C:0.02, G:0.42, T:0.33
Consensus pattern (20 bp):
AGGGTTGGGTTAAAGGTTCA
Found at i:45765280 original size:17 final size:18
Alignment explanation
Indices: 45765258--45765291 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
45765248 TACATGTGGG
45765258 GGAATATGGAG-TCAACT
1 GGAATATGGAGTTCAACT
45765275 GGAATATGGAGTTCAAC
1 GGAATATGGAGTTCAAC
45765292 ATTTTGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (18 bp):
GGAATATGGAGTTCAACT
Found at i:45765572 original size:24 final size:22
Alignment explanation
Indices: 45765545--45765595 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 22
45765535 AATTAAACAT
45765545 AATATAATATTTAACATATAAATA
1 AATATAATATTTAA-ATA-AAATA
*
45765569 AATAT--TATTTAATTAAAATA
1 AATATAATATTTAAATAAAATA
45765589 AA-ATAAT
1 AATATAAT
45765596 TTTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
19 2 0.08
20 7 0.29
21 3 0.12
22 7 0.29
24 5 0.21
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATAATATTTAAATAAAATA
Found at i:45765675 original size:43 final size:43
Alignment explanation
Indices: 45765614--45765841 Score: 244
Period size: 43 Copynumber: 5.3 Consensus size: 43
45765604 GATCATTATT
* * * * * *
45765614 TTTAGCGGCATCTGTGAAAAAAGCGCTGCTAAAGGTTATGATC
1 TTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGTCATGGTC
*
45765657 TTTAGCGGCGTTTTTGAAAAAAGCGTCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGTCATGGTC
** * *
45765700 TTTAGCGGCGTTTACGAAAAAAGCGCCACTAAAGGTCATGGTT
1 TTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGTCATGGTC
* * * * *
45765743 TTTAGCGGTGTTTTT--TAAAAGCGCCACTAAAAGTCCTGGTC
1 TTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGTCATGGTC
* * ** *
45765784 TTTAGCAGCATTTGCGAAAAAAGCGCCGCTAAAGTTCATGGTC
1 TTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGTCATGGTC
*
45765827 TTTAGCGGCCTTTTT
1 TTTAGCGGCGTTTTT
45765842 TTCAAAAAAA
Statistics
Matches: 150, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
41 32 0.21
43 118 0.79
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:45765807 original size:84 final size:85
Alignment explanation
Indices: 45765614--45765841 Score: 278
Period size: 84 Copynumber: 2.7 Consensus size: 85
45765604 GATCATTATT
* * * * *
45765614 TTTAGCGGCATCTGTGAAAAAAGCGCTGCTAAAGGTTATGATCTTTAGCGGCGTTTTTGAAAAAA
1 TTTAGCGGCATTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTT-AAAAAA
* * *
45765679 GCGTCGCTAAAGGTCATGGTC
65 GCGCCACTAAAAGTCATGGTC
* * * * * *
45765700 TTTAGCGGCGTTTACGAAAAAAGCGCCACTAAAGGTCATGGTTTTTAGCGGTGTTTTT-TAAAAG
1 TTTAGCGGCATTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTAAAAAAG
*
45765764 CGCCACTAAAAGTCCTGGTC
66 CGCCACTAAAAGTCATGGTC
* * *
45765784 TTTAGCAGCATTTGCGAAAAAAGCGCCGCTAAAGTTCATGGTCTTTAGCGGCCTTTTT
1 TTTAGCGGCATTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTT
45765842 TTCAAAAAAA
Statistics
Matches: 119, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
84 71 0.60
86 48 0.40
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCATTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTTAAAAAAG
CGCCACTAAAAGTCATGGTC
Found at i:45771543 original size:20 final size:20
Alignment explanation
Indices: 45771501--45771554 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
45771491 TCTCGCAATT
*
45771501 TTTATA-TTTTTAATTTCAT
1 TTTATATTTTTTAATTTCAC
45771520 TTTATATTTTTTAATTT-AGC
1 TTTATATTTTTTAATTTCA-C
*
45771540 TTTA-ATGTTTTAATT
1 TTTATATTTTTTAATT
45771555 CTGTTTCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTATATTTTTTAATTTCAC
Found at i:45771900 original size:16 final size:16
Alignment explanation
Indices: 45771776--45771901 Score: 77
Period size: 15 Copynumber: 8.1 Consensus size: 16
45771766 ACCTTATATG
*
45771776 TATATATGTTTATAAA
1 TATATATATTTATAAA
45771792 TACTAATTATATTTAGT-AA
1 TA-T-A-TATATTTA-TAAA
* **
45771811 TTTAT-TATTT-TATT
1 TATATATATTTATAAA
*
45771825 TATAT-TATTTGTAAA
1 TATATATATTTATAAA
*
45771840 TATATATATTTACAAA
1 TATATATATTTATAAA
**
45771856 TA-ATATATTT-TATT
1 TATATATATTTATAAA
*
45771870 TATAT-TATTTGTAAA
1 TATATATATTTATAAA
*
45771885 TATATATATTCATAAA
1 TATATATATTTATAAA
45771901 T
1 T
45771902 TTCAATATAT
Statistics
Matches: 84, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
13 1 0.01
14 17 0.20
15 29 0.35
16 22 0.26
17 2 0.02
18 2 0.02
19 10 0.12
20 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (16 bp):
TATATATATTTATAAA
Found at i:45772219 original size:20 final size:19
Alignment explanation
Indices: 45772169--45772220 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
45772159 CATATGCAAA
45772169 ATATTTATTATTTTATATT
1 ATATTTATTATTTTATATT
*
45772188 ATATTTCCTTATTTT-TATT
1 ATATTT-ATTATTTTATATT
45772207 CATATTATATTATT
1 -ATATT-TATTATT
45772221 ATACATAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 10 0.36
20 17 0.61
21 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (19 bp):
ATATTTATTATTTTATATT
Found at i:45784393 original size:205 final size:205
Alignment explanation
Indices: 45784040--45784550 Score: 851
Period size: 205 Copynumber: 2.5 Consensus size: 205
45784030 TAGGCCGCAG
* ** * *
45784040 CATAGCAGATTTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAAATGATTTGGCATCCTTGT
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAG-AAGATCCAAGATGATTTGGCATTCTTGT
*
45784105 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
65 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
* *
45784170 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTAGCATCTCCACTTTGACG
130 TAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCAAAGTCTAGCATCTCCACTTCGACG
45784235 GGGAGCAGATA
195 GGGAGCAGATA
*
45784246 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGGAGATCCAAGATGATTTGGCATTCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATTCTTGTG
* *
45784311 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* * * *
45784376 AAGATGATTTGGCATCTCTATATTTTCAGAGTACAAATCGAAGTCTGGCATCTCCACTTCGACGG
131 AAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCAAAGTCTAGCATCTCCACTTCGACGG
45784441 GGAGCAGATA
196 GGAGCAGATA
*
45784451 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATTCTTGTG
* *
45784516 CTTACAAGGAACAAATCGAGGACATAGCAGATTTG
66 CTTACAAGGAACAAATCGAAGACATAGCTGATTTG
45784551 ACTCTCAGAT
Statistics
Matches: 285, Mismatches: 20, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
205 252 0.88
206 33 0.12
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATTCTTGTG
CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATCAAAGTCTAGCATCTCCACTTCGACGG
GGAGCAGATA
Found at i:45784630 original size:288 final size:288
Alignment explanation
Indices: 45784283--45784995 Score: 1088
Period size: 289 Copynumber: 2.5 Consensus size: 288
45784273 ATACTGAAGG
* * *
45784283 AGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGC
1 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA-ACATAGCTGATTTGGC
* * *
45784348 TTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTATATTTTCAGAGTACAAA
65 TTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* * * * *
45784413 TCGAAGTCTGGCATCTCCA-CTTCGACGG-GGAGCAGATACATAGCAGATCTCACCTTCAGATGT
130 TCGAAGTCTGGCATCTCCATATTCGACGGAGG-GCAGACACATAGCAAATCTAACCTTCAGATAT
45784476 TTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAGGACAT
194 TTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAGGACAT
* *
45784541 AGCAGATTTGACTCTCAGATGTTCTCAAGC
259 AGAAGATTTGACTCTCAGATGTTCTCAAAC
* *
45784571 AGATCCAAGATGATTTGGTATCCTTGTGTTTACAAGGAACAAATCGAAACCATAGCTGATTTGGC
1 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAA-CATAGCTGATTTGGC
* * *
45784636 TTTCACGTGTTTACGTTGAAGTAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
65 TTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
* *
45784701 TCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAAATCTAACCTTTAGATATT
130 TCGAAGTCTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAAATCTAACCTTCAGATATT
* * *
45784766 TATACTGAAGTAGATCCAAGATGATTTGGCCTTCTTGTGTTTACAAGGAACAAATCGAGGACATA
195 TATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAGGACATA
* *
45784831 GAAGATTTGACTCTCAGATGTTCTTAAAT
260 GAAGATTTGACTCTCAGATGTTCTCAAAC
* *
45784860 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAAACATAGTTGATTTGGC
1 AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATC-GAAACATAGCTGATTTGGC
* * * *
45784925 TTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTCGCATCTCTGTATTGTCAGAGAACAAA
65 TTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
*
45784990 TTGAAG
130 TCGAAG
45784996 AAGTAGATTT
Statistics
Matches: 385, Mismatches: 36, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
287 1 0.00
288 135 0.35
289 244 0.63
290 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (288 bp):
AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAACATAGCTGATTTGGCT
TTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
CGAAGTCTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAAATCTAACCTTCAGATATTT
ATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAGGACATAG
AAGATTTGACTCTCAGATGTTCTCAAAC
Found at i:45790146 original size:20 final size:22
Alignment explanation
Indices: 45790112--45790152 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
45790102 TAATTTCAGC
*
45790112 ATATATAAGTAACATTTAATTA
1 ATATATAAGTAACATCTAATTA
45790134 ATAT-TAAGT-ACATCTAATT
1 ATATATAAGTAACATCTAATT
45790153 GCTTATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (22 bp):
ATATATAAGTAACATCTAATTA
Found at i:45803534 original size:43 final size:42
Alignment explanation
Indices: 45803486--45803573 Score: 131
Period size: 43 Copynumber: 2.1 Consensus size: 42
45803476 ATAAGCCTCG
*
45803486 CATCCACAATGAACTCGAATCACTCAACAAGCTCGGATGCTCA
1 CATCCACAATGAACTCGAACCACTCAACAAGCTCGGATGC-CA
* * *
45803529 CATCCATAATGAACTCGAACCACTCAACGAGCTTGGATGCCA
1 CATCCACAATGAACTCGAACCACTCAACAAGCTCGGATGCCA
45803571 CAT
1 CAT
45803574 ATTTCACGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.19
Consensus pattern (42 bp):
CATCCACAATGAACTCGAACCACTCAACAAGCTCGGATGCCA
Found at i:45803593 original size:42 final size:42
Alignment explanation
Indices: 45803547--45803651 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 42
45803537 ATGAACTCGA
* *
45803547 ACCACTCAACGAGCTTGGATGC-CACATATTTCACGAACTTGG
1 ACCACTCAACGAGCTTGGAT-CTCACACATATCACGAACTTGG
* *
45803589 ACCACTCAACAAG-TTCGGAATCTCATACATATCACGAACTTGG
1 ACCACTCAACGAGCTT-GG-ATCTCACACATATCACGAACTTGG
* *
45803632 ACCGCTCAACGAGCTCGGAT
1 ACCACTCAACGAGCTTGGAT
45803652 TGCTTAATTC
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
41 2 0.04
42 17 0.33
43 32 0.62
44 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (42 bp):
ACCACTCAACGAGCTTGGATCTCACACATATCACGAACTTGG
Found at i:45804950 original size:13 final size:13
Alignment explanation
Indices: 45804929--45804965 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
45804919 GCACTTTTCA
*
45804929 CATAAAATTTCCT
1 CATAGAATTTCCT
45804942 CATAGAATTTTCCT
1 CATAGAA-TTTCCT
45804956 CATAGAATTT
1 CATAGAATTT
45804966 TCACACAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (13 bp):
CATAGAATTTCCT
Found at i:45804955 original size:14 final size:14
Alignment explanation
Indices: 45804936--45804967 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
45804926 TCACATAAAA
45804936 TTTCCTCATAGAAT
1 TTTCCTCATAGAAT
45804950 TTTCCTCATAGAAT
1 TTTCCTCATAGAAT
45804964 TTTC
1 TTTC
45804968 ACACAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (14 bp):
TTTCCTCATAGAAT
Found at i:45822498 original size:37 final size:37
Alignment explanation
Indices: 45822448--45822526 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
45822438 TTATTACGAA
* * * *
45822448 GTCTTACCTGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
45822485 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
45822522 GTCTT
1 GTCTT
45822527 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:45822804 original size:47 final size:47
Alignment explanation
Indices: 45822649--45823103 Score: 748
Period size: 47 Copynumber: 9.6 Consensus size: 47
45822639 TCGGGACTTA
* *
45822649 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACCCTT
* * *
45822698 TCACATTCATCACATCGGCCATTAGCCCCTATCACATATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACCCTT
*
45822747 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACCCTT
* *
45822794 TCGCATTCATCACATCGGCCAGTAGGCCTTATCACATATATACCCTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACCCTT
*
45822841 TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACCCTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACCCTT
*
45822888 TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACCCTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACCCTT
*
45822935 TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACCCTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACCCTT
*
45822982 TCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACCCTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACCCTT
* *
45823029 TCACATTCATCACATCGGCCATTAGGCATTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACCCTT
45823076 TCACATTCATCACATCGGCCATTAGGCC
1 TCACATTCATCACATCGGCCATTAGGCC
45823104 ATACTATCAT
Statistics
Matches: 393, Mismatches: 13, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
47 312 0.79
49 81 0.21
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACCCTT
Found at i:45823088 original size:25 final size:25
Alignment explanation
Indices: 45823012--45823090 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
45823002 ATTAGGCCTT
*
45823012 ATCACATATATACCCTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
45823037 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
45823059 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
45823084 ATCACAT
1 ATCACAT
45823091 CGGCCATTAG
Statistics
Matches: 36, Mismatches: 15, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 7 0.19
25 14 0.39
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:45825648 original size:20 final size:20
Alignment explanation
Indices: 45825623--45825662 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45825613 TTTTTGTTGA
45825623 AATGAAAAGACTAAAATATC
1 AATGAAAAGACTAAAATATC
45825643 AATGAAAAGACTAAAATATC
1 AATGAAAAGACTAAAATATC
45825663 CTTAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (20 bp):
AATGAAAAGACTAAAATATC
Found at i:45826210 original size:17 final size:17
Alignment explanation
Indices: 45826188--45826220 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45826178 GGTTTAGTAA
45826188 AAGAAGAAAAGAAAAAG
1 AAGAAGAAAAGAAAAAG
*
45826205 AAGAAGAAGAGAAAAA
1 AAGAAGAAAAGAAAAA
45826221 AAATAGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAGAAAAAG
Found at i:45827114 original size:3 final size:3
Alignment explanation
Indices: 45827101--45827171 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
45827091 TTTTACAGTC
45827101 TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
45827148 TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT
45827172 GTTGTTAGGG
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:45827721 original size:17 final size:19
Alignment explanation
Indices: 45827680--45827725 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
45827670 TCCCTTCGGC
45827680 TTTTATTT-TTCCTCTTCT
1 TTTTATTTCTTCCTCTTCT
*
45827698 ATTTATTTCTT-CTC-TCT
1 TTTTATTTCTTCCTCTTCT
45827715 TTTTATTTCTT
1 TTTTATTTCTT
45827726 TCTATACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 13 0.52
18 10 0.40
19 2 0.08
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTATTTCTTCCTCTTCT
Found at i:45827728 original size:18 final size:19
Alignment explanation
Indices: 45827648--45827728 Score: 62
Period size: 18 Copynumber: 4.4 Consensus size: 19
45827638 CCCAACTTCC
*
45827648 TCTTTCTC-TCTTTTCATT
1 TCTTTCTCTTCTTTTTATT
* * *
45827666 TTTTTCCCTTCGGCTTTTATT
1 TCTTTCTCTTC--TTTTTATT
* *
45827687 T-TTCCTCTTCTATTTATT
1 TCTTTCTCTTCTTTTTATT
45827705 TC-TTCTC-TCTTTTTATT
1 TCTTTCTCTTCTTTTTATT
45827722 TCTTTCT
1 TCTTTCT
45827729 ATACGTCCGT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
17 11 0.23
18 21 0.44
19 2 0.04
20 7 0.15
21 7 0.15
ACGTcount: A:0.06, C:0.25, G:0.02, T:0.67
Consensus pattern (19 bp):
TCTTTCTCTTCTTTTTATT
Found at i:45831753 original size:16 final size:16
Alignment explanation
Indices: 45831733--45831788 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
45831723 TGTTTGGTTG
*
45831733 GCTGTAATTGAATAGG
1 GCTGTAATTGAATAGA
45831749 GCTGTAATTGAATAGA
1 GCTGTAATTGAATAGA
*
45831765 GCTGTAATGGAATAGA
1 GCTGTAATTGAATAGA
45831781 GCTGTAAT
1 GCTGTAAT
45831789 AAGTAATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (16 bp):
GCTGTAATTGAATAGA
Found at i:45831863 original size:44 final size:45
Alignment explanation
Indices: 45831770--45831863 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
45831760 ATAGAGCTGT
*
45831770 AATGGAATAGAGCTGTAATAAGTAATTTAATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTT-ATTGTTTGGTTGAATGG
45831816 AATGGAATAGAACTGTAAT-AGT-ATTCT-TGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATT-TAT-TGTTTGGTTGAATGG
45831860 AATG
1 AATG
45831864 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 4 0.09
46 18 0.40
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (45 bp):
AATGGAATAGAACTGTAATAAGTAATTTATTGTTTGGTTGAATGG
Found at i:45831919 original size:17 final size:18
Alignment explanation
Indices: 45831889--45831934 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
45831879 ATTTAAATTG
45831889 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
45831907 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
45831923 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
45831935 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:45833748 original size:14 final size:14
Alignment explanation
Indices: 45833710--45833752 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
45833700 TAAAATGTAC
45833710 AATATAATTAAA-T
1 AATATAATTAAATT
45833723 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
45833738 AA-ATAATTTAATT
1 AATATAATTAAATT
45833751 AA
1 AA
45833753 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:45836239 original size:3 final size:3
Alignment explanation
Indices: 45836233--45836297 Score: 112
Period size: 3 Copynumber: 21.3 Consensus size: 3
45836223 TAAAAAAATT
*
45836233 TAA TAA TAA TAA TAA TAA TGA TAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
45836279 TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
45836298 CATGATGATG
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:45838051 original size:17 final size:17
Alignment explanation
Indices: 45838029--45838061 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45838019 AATTATTATT
*
45838029 AAATATATTTTAATAAA
1 AAATATAATTTAATAAA
45838046 AAATATAATTTAATAA
1 AAATATAATTTAATAA
45838062 CATTCATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:45838607 original size:18 final size:18
Alignment explanation
Indices: 45838581--45838615 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45838571 ATGTGGTAGT
*
45838581 CCAATTAGATTTTAAGTG
1 CCAACTAGATTTTAAGTG
45838599 CCAACTAGATTTTAAGT
1 CCAACTAGATTTTAAGT
45838616 ATATCTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (18 bp):
CCAACTAGATTTTAAGTG
Found at i:45838674 original size:40 final size:40
Alignment explanation
Indices: 45838619--45838715 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
45838609 TTTAAGTATA
*
45838619 TCTGTTAATACATACTTCATCCGGTTAAATTATACAGTTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
*
45838659 TCTGTTATTACATACTTCATCCGGATAAATTATACAGTTT
1 TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
*
45838699 TCTATTAATACATACTT
1 TCTGTTAATACATACTT
45838716 TATTCGGGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (40 bp):
TCTGTTAATACATACTTCATCCGGATAAATTATACAGTTT
Found at i:45839808 original size:46 final size:46
Alignment explanation
Indices: 45839741--45839833 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
45839731 ATTCCATAGT
45839741 GGTGTCTGGCATTTCCAATGTGAAAGAAAGAGCCTGCCCCAACCTA
1 GGTGTCTGGCATTTCCAATGTGAAAGAAAGAGCCTGCCCCAACCTA
45839787 GGTGTCTGGCATTTCCAATGTGAAAGAAAGAGCCTGCCCCAACCTA
1 GGTGTCTGGCATTTCCAATGTGAAAGAAAGAGCCTGCCCCAACCTA
45839833 G
1 G
45839834 AGGGAAGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.22
Consensus pattern (46 bp):
GGTGTCTGGCATTTCCAATGTGAAAGAAAGAGCCTGCCCCAACCTA
Found at i:45840667 original size:15 final size:16
Alignment explanation
Indices: 45840642--45840671 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45840632 TTCAAGTTAA
45840642 GATGATGAAGGAAGAT
1 GATGATGAAGGAAGAT
45840658 GATG-TGAAGGAAGA
1 GATGATGAAGGAAGA
45840672 AGAAGCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (16 bp):
GATGATGAAGGAAGAT
Found at i:45843826 original size:26 final size:27
Alignment explanation
Indices: 45843797--45843852 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
45843787 TTATTTTTAT
45843797 ACAATCTAAAAAAAA-ATTATAAATTA
1 ACAATCTAAAAAAAATATTATAAATTA
* *
45843823 ACAATTTAAAAAAAATATTATAAGTTA
1 ACAATCTAAAAAAAATATTATAAATTA
45843850 ACA
1 ACA
45843853 CTTTTAGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (27 bp):
ACAATCTAAAAAAAATATTATAAATTA
Found at i:45847853 original size:19 final size:18
Alignment explanation
Indices: 45847818--45847861 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
45847808 TTTAGCAATT
*
45847818 ATTTTTATCATACTAATA
1 ATTTTTATAATACTAATA
*
45847836 ATTTTTATAATAATTAATA
1 ATTTTTATAAT-ACTAATA
*
45847855 GTTTTTA
1 ATTTTTA
45847862 AAAATATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (18 bp):
ATTTTTATAATACTAATA
Found at i:45848341 original size:20 final size:23
Alignment explanation
Indices: 45848316--45848365 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
45848306 TAAAAATGAT
45848316 ATAAATATT-TTTA-T-TTAAAA
1 ATAAATATTATTTATTATTAAAA
*
45848336 ATAAATATTATTTATTATTAAAT
1 ATAAATATTATTTATTATTAAAA
45848359 ATAAATA
1 ATAAATA
45848366 AATACAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 4 0.15
22 1 0.04
23 12 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAATATTATTTATTATTAAAA
Found at i:45848942 original size:24 final size:25
Alignment explanation
Indices: 45848901--45848950 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
45848891 TTAGTAATTA
*
45848901 ATTTTTATAATATAAAAATATGAAT
1 ATTTTAATAATATAAAAATATGAAT
* *
45848926 ATTTTAATAGTAT-AAAATATTAAT
1 ATTTTAATAATATAAAAATATGAAT
45848950 A
1 A
45848951 AAAATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
ATTTTAATAATATAAAAATATGAAT
Found at i:45848985 original size:32 final size:35
Alignment explanation
Indices: 45848905--45848987 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 35
45848895 TAATTAATTT
*
45848905 TTATA-ATATAAAAATATGAATATTTTAATAGTATA
1 TTATATATATTAAAA-ATGAATATTTTAATAGTATA
** *
45848940 AAATAT-TAATAAAAAT-AATA-TTTAATA-TATA
1 TTATATATATTAAAAATGAATATTTTAATAGTATA
45848971 TTATATATATTAAAAAT
1 TTATATATATTAAAAAT
45848988 TACTATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
31 8 0.21
32 16 0.41
33 4 0.10
34 2 0.05
35 9 0.23
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.42
Consensus pattern (35 bp):
TTATATATATTAAAAATGAATATTTTAATAGTATA
Found at i:45849861 original size:21 final size:19
Alignment explanation
Indices: 45849822--45849871 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 19
45849812 AAAAAAAAGC
45849822 AAGAAAAAAA-AGGAAAAA
1 AAGAAAAAAATAGGAAAAA
*
45849840 AAGAAAAAAATGAGAGAGAAA
1 AAGAAAAAAAT-AG-GAAAAA
45849861 AAGAAAAAAAT
1 AAGAAAAAAAT
45849872 TAAAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.36
20 2 0.07
21 16 0.57
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (19 bp):
AAGAAAAAAATAGGAAAAA
Found at i:45851672 original size:8 final size:8
Alignment explanation
Indices: 45851647--45851680 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
45851637 AAGAAAATAA
45851647 TATTATAT
1 TATTATAT
* *
45851655 TATAACAT
1 TATTATAT
45851663 TATTATAT
1 TATTATAT
45851671 TATTATAT
1 TATTATAT
45851679 TA
1 TA
45851681 AATAAAAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (8 bp):
TATTATAT
Found at i:45855191 original size:26 final size:26
Alignment explanation
Indices: 45855160--45855267 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
45855150 TGAAATGCCC
*
45855160 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
45855186 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
45855212 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
45855238 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
45855264 ATCA
1 ATCA
45855268 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:45867084 original size:33 final size:33
Alignment explanation
Indices: 45867042--45867109 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
45867032 GTAAAAATGA
45867042 TAAAAATATAAAAAGTACTTGACTGACAGAACC
1 TAAAAATATAAAAAGTACTTGACTGACAGAACC
45867075 TAAAAATATAAAAAGTACTTGACTGACAGAACC
1 TAAAAATATAAAAAGTACTTGACTGACAGAACC
45867108 TA
1 TA
45867110 TTCTTGGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (33 bp):
TAAAAATATAAAAAGTACTTGACTGACAGAACC
Found at i:45869474 original size:12 final size:12
Alignment explanation
Indices: 45869420--45869495 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 12
45869410 TAAAATTTTA
45869420 AAAAATATATAT
1 AAAAATATATAT
*
45869432 -AAAATA-ACAT
1 AAAAATATATAT
45869442 AAAAATTTTATATAT
1 AAAAA---TATATAT
45869457 AAAAATATA-AT
1 AAAAATATATAT
45869468 AATAAAT-T-TA-
1 AA-AAATATATAT
*
45869478 AAAAATATATAA
1 AAAAATATATAT
45869490 AAAAAT
1 AAAAAT
45869496 TGTTGAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
9 4 0.08
10 6 0.12
11 18 0.35
12 14 0.27
14 2 0.04
15 8 0.15
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATATATAT
Found at i:45869477 original size:26 final size:27
Alignment explanation
Indices: 45869424--45869476 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
45869414 ATTTTAAAAA
45869424 ATATATATAAAATAACATAAAAATTTT
1 ATATATATAAAATAACATAAAAATTTT
45869451 ATATATA-AAAATATA-ATAATAAATTT
1 ATATATATAAAATA-ACATAA-AAATTT
45869477 AAAAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
ATATATATAAAATAACATAAAAATTTT
Found at i:45869487 original size:23 final size:23
Alignment explanation
Indices: 45869457--45869575 Score: 84
Period size: 22 Copynumber: 5.0 Consensus size: 23
45869447 TTTTATATAT
*
45869457 AAAA-ATATAATAATAAATTTAA
1 AAAATATATAATAATAAATTTTA
*
45869479 AAAATATATAA-AA-AAATTGTTG
1 AAAATATATAATAATAAATT-TTA
*
45869501 AAAATA-ATAATATATAAAATTGTA
1 AAAATATATAATA-AT-AAATTTTA
* *
45869525 AATATATAAGAATACATAATTATTTTA
1 AAAATAT-ATAATA-ATAA--ATTTTA
* *
45869552 AATATATATACTAATAAATTTTA
1 AAAATATATAATAATAAATTTTA
45869575 A
1 A
45869576 TTTTATATTA
Statistics
Matches: 77, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
21 9 0.12
22 14 0.18
23 14 0.18
24 6 0.08
25 11 0.14
26 11 0.14
27 12 0.16
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (23 bp):
AAAATATATAATAATAAATTTTA
Found at i:45869533 original size:26 final size:27
Alignment explanation
Indices: 45869504--45869559 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
45869494 ATTGTTGAAA
* *
45869504 ATAATAATATATAA-AATTGTAAATAT
1 ATAAGAATACATAATAATTGTAAATAT
* *
45869530 ATAAGAATACATAATTATTTTAAATAT
1 ATAAGAATACATAATAATTGTAAATAT
45869557 ATA
1 ATA
45869560 TACTAATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (27 bp):
ATAAGAATACATAATAATTGTAAATAT
Found at i:45869579 original size:6 final size:6
Alignment explanation
Indices: 45869580--45869644 Score: 84
Period size: 6 Copynumber: 11.5 Consensus size: 6
45869570 TTTTAATTTT
* *
45869580 ATATTA ATATTA ATATTA ATA--A ATTTTA AT-TTT ATATTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
45869625 ATATTA ATATTA A-ATTA ATA
1 ATATTA ATATTA ATATTA ATA
45869645 ATAAAAATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
4 3 0.06
5 9 0.17
6 40 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:45869583 original size:27 final size:31
Alignment explanation
Indices: 45869546--45869633 Score: 99
Period size: 33 Copynumber: 2.8 Consensus size: 31
45869536 ATACATAATT
*
45869546 ATTTTAAATATA-T-ATACTAATAAATTTTA
1 ATTTTATATATATTAATACTAATAAATTTTA
*
45869575 ATTTTATATTAATATTAATATTAATAAATTTTA
1 ATTTTATA-T-ATATTAATACTAATAAATTTTA
*
45869608 ATTTTATATTAATATTAATATTAATA
1 ATTTTATA-T-ATATTAATACTAATA
45869634 TTAAATTAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
29 7 0.13
30 1 0.02
31 3 0.06
32 1 0.02
33 41 0.77
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTTTATATATATTAATACTAATAAATTTTA
Found at i:45869600 original size:33 final size:33
Alignment explanation
Indices: 45869563--45869633 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
45869553 ATATATATAC
45869563 TAATAAATTTTAATTTTATATTAATATTAATAT
1 TAATAAATTTTAATTTTATATTAATATTAATAT
45869596 TAATAAATTTTAATTTTATATTAATATTAATAT
1 TAATAAATTTTAATTTTATATTAATATTAATAT
45869629 TAATA
1 TAATA
45869634 TTAAATTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
TAATAAATTTTAATTTTATATTAATATTAATAT
Found at i:45874950 original size:23 final size:24
Alignment explanation
Indices: 45874915--45874962 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
45874905 TTTTTTATGT
* *
45874915 TTATATATATTTT-AAATTTTTTA
1 TTATACATATTTTGAAATTATTTA
*
45874938 TTATACATTTTTTGAAATTATTTA
1 TTATACATATTTTGAAATTATTTA
45874962 T
1 T
45874963 GCATTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
TTATACATATTTTGAAATTATTTA
Found at i:45875236 original size:38 final size:37
Alignment explanation
Indices: 45875160--45875244 Score: 170
Period size: 37 Copynumber: 2.3 Consensus size: 37
45875150 TTGACAAAAG
45875160 AAAAAACAATCTTGATTAGTTTGGTGAGCAATTTAAA
1 AAAAAACAATCTTGATTAGTTTGGTGAGCAATTTAAA
45875197 AAAAAACAATCTTGATTAGTTTGGTGAGCAATTTAAA
1 AAAAAACAATCTTGATTAGTTTGGTGAGCAATTTAAA
45875234 AAAAAACAATC
1 AAAAAACAATC
45875245 ATAGTTAGGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.29
Consensus pattern (37 bp):
AAAAAACAATCTTGATTAGTTTGGTGAGCAATTTAAA
Found at i:45875898 original size:23 final size:24
Alignment explanation
Indices: 45875871--45875917 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
45875861 ATAAAAAATT
45875871 AAATTATAATTAT-AATATTTAAA
1 AAATTATAATTATAAATATTTAAA
*
45875894 AAATTATAATTTTAAATATTTAAA
1 AAATTATAATTATAAATATTTAAA
45875918 TATTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATTATAATTATAAATATTTAAA
Found at i:45876108 original size:15 final size:15
Alignment explanation
Indices: 45876088--45876130 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
45876078 AAATAATTTA
*
45876088 AAAAATTTTAAAATT
1 AAAAATTTTAAAAGT
* *
45876103 AAAAATTATATAAGT
1 AAAAATTTTAAAAGT
*
45876118 ACAAATTTTAAAA
1 AAAAATTTTAAAA
45876131 ATTCAAAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AAAAATTTTAAAAGT
Found at i:45876163 original size:18 final size:20
Alignment explanation
Indices: 45876126--45876166 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
45876116 GTACAAATTT
45876126 TAAAAATTCAAAATAATATA
1 TAAAAATTCAAAATAATATA
45876146 TAAAAATT-AAAA-AATATA
1 TAAAAATTCAAAATAATATA
45876164 TAA
1 TAA
45876167 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.43
19 4 0.19
20 8 0.38
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAAATTCAAAATAATATA
Found at i:45876318 original size:29 final size:29
Alignment explanation
Indices: 45876258--45876320 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
45876248 TATTTTTGAC
* * *
45876258 AATTTAAGTATCCTTTTTTCAAATTTTTA
1 AATTTAAATATCCTTTTTTCAAATTATAA
*
45876287 AATTTAAATA-CCTTTTTTTTAAATTATAA
1 AATTTAAATATCC-TTTTTTCAAATTATAA
45876316 AATTT
1 AATTT
45876321 TACAATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (29 bp):
AATTTAAATATCCTTTTTTCAAATTATAA
Found at i:45876349 original size:28 final size:30
Alignment explanation
Indices: 45876316--45876380 Score: 98
Period size: 28 Copynumber: 2.2 Consensus size: 30
45876306 TAAATTATAA
*
45876316 AATTTTACAATTTATATATAT-TATTTT-G
1 AATTTTAAAATTTATATATATATATTTTAG
*
45876344 AATTTTAAAATTTATATTTATATATTTTAG
1 AATTTTAAAATTTATATATATATATTTTAG
45876374 AATTTTA
1 AATTTTA
45876381 TAAAAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 19 0.58
29 6 0.18
30 8 0.24
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (30 bp):
AATTTTAAAATTTATATATATATATTTTAG
Found at i:45876392 original size:30 final size:29
Alignment explanation
Indices: 45876327--45876392 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
45876317 ATTTTACAAT
* **
45876327 TTATATATATTATTTTGAATTTTAAAATT
1 TTATTTATATTATTTTGAATTTTAAAAAA
45876356 TATATTTATA-TATTTTAGAATTTTATAAAAA
1 T-TATTTATATTATTTT-GAATTTTA-AAAAA
45876387 TTATTT
1 TTATTT
45876393 TTTAAACATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 7 0.23
30 20 0.65
31 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
TTATTTATATTATTTTGAATTTTAAAAAA
Found at i:45876421 original size:10 final size:11
Alignment explanation
Indices: 45876404--45876434 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
45876394 TTAAACATTT
45876404 TTATTTTTAAA
1 TTATTTTTAAA
45876415 TTATTTTTAAA
1 TTATTTTTAAA
45876426 TTATATTTT
1 TTAT-TTTT
45876435 TTTTACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTTTTAAA
Found at i:45886787 original size:24 final size:24
Alignment explanation
Indices: 45886760--45886806 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
45886750 TTGCAAATAA
*
45886760 GAAA-AATATCTTTAGAAAATTTTT
1 GAAATAAT-TCTTCAGAAAATTTTT
*
45886784 GAAATAATTCTTCAGAGAATTTT
1 GAAATAATTCTTCAGAAAATTTT
45886807 CTCTCTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (24 bp):
GAAATAATTCTTCAGAAAATTTTT
Found at i:45886985 original size:59 final size:59
Alignment explanation
Indices: 45886914--45887048 Score: 166
Period size: 62 Copynumber: 2.3 Consensus size: 59
45886904 AATCACTTTA
* * *
45886914 ATATTAAATTAATATAGTATTTA-GTAAGATAAGTATTAGA-TTAAATTTAATATTAAAT
1 ATATTAAATTAATATAATATTTATCTAAGATAACTATTA-ACTTAAATTTAATATTAAAT
* *
45886972 CTTATTAAATTAATAGAATATTTATCTCTAAGATAACTATTAACTTAAATTTAATATTAAAT
1 -ATATTAAATTAATATAATATTTA--TCTAAGATAACTATTAACTTAAATTTAATATTAAAT
*
45887034 ATATTAAAATAATAT
1 ATATTAAATTAATAT
45887049 TATTTTTGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 20 0.31
61 13 0.20
62 31 0.48
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (59 bp):
ATATTAAATTAATATAATATTTATCTAAGATAACTATTAACTTAAATTTAATATTAAAT
Found at i:45892383 original size:42 final size:42
Alignment explanation
Indices: 45892336--45892420 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
45892326 GGTTTCAAAG
45892336 TGTTTTTCAACTTGTATTACATTATTAGAAGGTTTCTAAACT
1 TGTTTTTCAACTTGTATTACATTATTAGAAGGTTTCTAAACT
45892378 TGTTTTTCAACTTGTATTACATTATTAGAAGGTTTCTAAACT
1 TGTTTTTCAACTTGTATTACATTATTAGAAGGTTTCTAAACT
45892420 T
1 T
45892421 ACTTTAATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (42 bp):
TGTTTTTCAACTTGTATTACATTATTAGAAGGTTTCTAAACT
Found at i:45893420 original size:42 final size:42
Alignment explanation
Indices: 45893373--45893457 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
45893363 GGTTTCAAAG
45893373 TGTTTTTCAACTTGTATTACATTATTAGAAGGTTTCTAAACT
1 TGTTTTTCAACTTGTATTACATTATTAGAAGGTTTCTAAACT
45893415 TGTTTTTCAACTTGTATTACATTATTAGAAGGTTTCTAAACT
1 TGTTTTTCAACTTGTATTACATTATTAGAAGGTTTCTAAACT
45893457 T
1 T
45893458 ACTTTAATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (42 bp):
TGTTTTTCAACTTGTATTACATTATTAGAAGGTTTCTAAACT
Found at i:45900631 original size:22 final size:22
Alignment explanation
Indices: 45900606--45900659 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
45900596 TCTTTTAACA
*
45900606 CATAAACATTTAATTATATTGG
1 CATAAACATTCAATTATATTGG
* *
45900628 CATAATCAATCAATTATATTGG
1 CATAAACATTCAATTATATTGG
45900650 CATAATACAT
1 CATAA-ACAT
45900660 CCATGGCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (22 bp):
CATAAACATTCAATTATATTGG
Found at i:45906965 original size:43 final size:42
Alignment explanation
Indices: 45906912--45907084 Score: 127
Period size: 43 Copynumber: 4.0 Consensus size: 42
45906902 ACATAGGATT
45906912 TCGATATGAGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
1 TCGATAT-AGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
* * * * * *
45906955 TCGATTTGAGATTTATGTGT-AGAACCATATCTGAGACATGGGCA
1 TCGATAT-AGATTT-CGTGTAAG-ACCATGTCTGGGACGTTGGCA
* * *
45906999 TCG-TATATGATCTCGTGTAAGGCCCTGTCTGGGACAG-TGGCA
1 TCGATATA-GATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCA
* * * ** *
45907041 TCGATATTTGATTACATGTAAGACCGCGTCTGGGACTTTGGCA
1 TCGATA-TAGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
45907084 T
1 T
45907085 TGTACTAGCT
Statistics
Matches: 99, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
42 22 0.22
43 52 0.53
44 25 0.25
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
TCGATATAGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:45909483 original size:12 final size:12
Alignment explanation
Indices: 45909466--45909498 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
45909456 TATGTACCGC
45909466 TACTGTTACTAT
1 TACTGTTACTAT
45909478 TACTGTTACTAT
1 TACTGTTACTAT
*
45909490 TACCGTTAC
1 TACTGTTAC
45909499 GACATAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.45
Consensus pattern (12 bp):
TACTGTTACTAT
Found at i:45909645 original size:18 final size:17
Alignment explanation
Indices: 45909622--45909678 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
45909612 TATTAAAGAC
*
45909622 TGACTACTACTGAATAAT
1 TGACTA-TACTGAATAAA
*
45909640 TGACTATTACTAAATAAA
1 TGACTA-TACTGAATAAA
*
45909658 CGACTGATACTGAATAAA
1 TGACT-ATACTGAATAAA
45909676 TGA
1 TGA
45909679 TTGTTACTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 31 0.97
19 1 0.03
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (17 bp):
TGACTATACTGAATAAA
Found at i:45909686 original size:18 final size:18
Alignment explanation
Indices: 45909629--45909688 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
45909619 GACTGACTAC
* *
45909629 TACTGAATAATTGACTAT
1 TACTGAATAAATGACTGT
* * *
45909647 TACTAAATAAACGACTGA
1 TACTGAATAAATGACTGT
*
45909665 TACTGAATAAATGATTGT
1 TACTGAATAAATGACTGT
45909683 TACTGA
1 TACTGA
45909689 TTAACCAATT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:45913732 original size:41 final size:40
Alignment explanation
Indices: 45913605--45913737 Score: 121
Period size: 40 Copynumber: 3.3 Consensus size: 40
45913595 GATTATGTTT
* * *
45913605 GGCACTTAGTGTGC-ATATCGAGAA-AGCTTCGGCCATATAA
1 GGCACTTAGTGTGCGA-ATCGA-AATAGCTTCAGCTATATAG
* *
45913645 AGCACTTAGTGTGCGAATCGAAATAGCTTCAGCTATATAT
1 GGCACTTAGTGTGCGAATCGAAATAGCTTCAGCTATATAG
* * *
45913685 GACACTTAGTGTGCGAGA-CTAAGATAGCTTCGGCTATGA-AG
1 GGCACTTAGTGTGCGA-ATCGAA-ATAGCTTCAGCTAT-ATAG
45913726 GGCACTTAGTGT
1 GGCACTTAGTGT
45913738 TATGATAACT
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
39 2 0.03
40 48 0.62
41 27 0.35
42 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (40 bp):
GGCACTTAGTGTGCGAATCGAAATAGCTTCAGCTATATAG
Found at i:45916742 original size:17 final size:16
Alignment explanation
Indices: 45916720--45916812 Score: 78
Period size: 17 Copynumber: 5.5 Consensus size: 16
45916710 TAAAAAGTAT
45916720 GAGCTCACCCAAACTGC
1 GAGCTCA-CCAAACTGC
*
45916737 GAGCTCACCAATCCTGC
1 GAGCTCACCAA-ACTGC
* **
45916754 AAGCTCACCAAACATAT
1 GAGCTCACCAAAC-TGC
* *
45916771 GAGCTCGCCAAGACTAC
1 GAGCTCACCAA-ACTGC
*
45916788 GAGCTCACCAAACTTGA
1 GAGCTCACCAAAC-TGC
45916805 GAGCTCAC
1 GAGCTCAC
45916813 ATGCGCACTC
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
16 7 0.11
17 52 0.85
18 2 0.03
ACGTcount: A:0.32, C:0.35, G:0.17, T:0.15
Consensus pattern (16 bp):
GAGCTCACCAAACTGC
Found at i:45916809 original size:34 final size:33
Alignment explanation
Indices: 45916720--45916812 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 33
45916710 TAAAAAGTAT
* ** *
45916720 GAGCTCACCCAAACTGCGAGCTCACCAATCCTGC
1 GAGCTCA-CCAAACTGAGAGCTCACCAAGACTAC
* *
45916754 AAGCTCACCAAACAT-ATGAGCTCGCCAAGACTAC
1 GAGCTCACCAAAC-TGA-GAGCTCACCAAGACTAC
45916788 GAGCTCACCAAACTTGAGAGCTCAC
1 GAGCTCACCAAAC-TGAGAGCTCAC
45916813 ATGCGCACTC
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
33 6 0.13
34 40 0.85
35 1 0.02
ACGTcount: A:0.32, C:0.35, G:0.17, T:0.15
Consensus pattern (33 bp):
GAGCTCACCAAACTGAGAGCTCACCAAGACTAC
Found at i:45924636 original size:6 final size:6
Alignment explanation
Indices: 45924627--45924673 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
45924617 AATATGTATA
45924627 TAATTG TAATTG TAATTG TAATTG TAATTG TAATTG TAATTG TAATT
1 TAATTG TAATTG TAATTG TAATTG TAATTG TAATTG TAATTG TAATT
45924674 TAAGGTATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (6 bp):
TAATTG
Found at i:45925900 original size:3 final size:3
Alignment explanation
Indices: 45925892--45925946 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
45925882 CCGTTAACAA
45925892 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
45925940 AAT AAT A
1 AAT AAT A
45925947 TAAAAGGAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45926752 original size:10 final size:11
Alignment explanation
Indices: 45926738--45926766 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
45926728 ATATAATCCA
45926738 ATATATTAATT
1 ATATATTAATT
45926749 -TATATTAATT
1 ATATATTAATT
45926759 ATATATTA
1 ATATATTA
45926767 TCTACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATATTAATT
Found at i:45931189 original size:35 final size:37
Alignment explanation
Indices: 45931125--45931194 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 37
45931115 AATAATTATT
*
45931125 TATGTGTTTGTAGTTTGTCTATATTGTTTTGTATATCA
1 TATGTGTTTG-AGTTTGTCTATATCGTTTTGTATATCA
* *
45931163 TATGTGTTTG-G-TTGTCTTTATCGTTTTTTATA
1 TATGTGTTTGAGTTTGTCTATATCGTTTTGTATA
45931195 GGTTATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 18 0.62
36 1 0.03
38 10 0.34
ACGTcount: A:0.16, C:0.06, G:0.19, T:0.60
Consensus pattern (37 bp):
TATGTGTTTGAGTTTGTCTATATCGTTTTGTATATCA
Found at i:45931758 original size:127 final size:127
Alignment explanation
Indices: 45931586--45931900 Score: 388
Period size: 127 Copynumber: 2.5 Consensus size: 127
45931576 TTGAAAATTC
** *
45931586 TTTAAAACAAAGGCAATGTTTGATGTTTGGGAAA-TC-AGGAAATCGTGCCCTATCGTGCTGGGT
1 TTTAAAAC-AAGGCAATGTTCAATGTTT-AGAAACTCGAGG-AATCGTGCCCTATCGTGCTGGGT
* **
45931649 TTCGATTTT-GTGTTTGTTCAAAATAGTCGAATATTCCTTTAGAATTTCACTCGT-GTTTCCCAA
63 TTCG-TTTTCCTGTTTGTTCAAAATAACCGAATATTCCTTTAGAATTTCACTC-TAGTTTCCCAA
45931712 AT
126 AT
* * *
45931714 TTTAAAACAAGGCTATGTTCAATTTTTTGAAACTCG-GAGAATCGTGCCCTATCGTGCTGGGTTT
1 TTTAAAACAAGGCAATGTTCAATGTTTAGAAACTCGAG-GAATCGTGCCCTATCGTGCTGGGTTT
* * * *
45931778 TGTTTTCCTGTTTGTTCAAAATAACCGAATATTCCTTTTGAATTTCACTCTAGTTTTCTAAAT
65 CGTTTTCCTGTTTGTTCAAAATAACCGAATATTCCTTTAGAATTTCACTCTAGTTTCCCAAAT
* * * *
45931841 TTTAAAGCAAGGCAATGTTCAATGTTTAGAAATTCGAGGGATCGTGCCCTACCGTGCTGG
1 TTTAAAACAAGGCAATGTTCAATGTTTAGAAACTCGAGGAATCGTGCCCTATCGTGCTGG
45931901 ATTCTGATTT
Statistics
Matches: 162, Mismatches: 19, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
126 9 0.06
127 143 0.88
128 10 0.06
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (127 bp):
TTTAAAACAAGGCAATGTTCAATGTTTAGAAACTCGAGGAATCGTGCCCTATCGTGCTGGGTTTC
GTTTTCCTGTTTGTTCAAAATAACCGAATATTCCTTTAGAATTTCACTCTAGTTTCCCAAAT
Found at i:45935191 original size:19 final size:19
Alignment explanation
Indices: 45935167--45935206 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45935157 GATGTCTCCT
*
45935167 TTGCATT-CATGCATTTGCA
1 TTGCATTACAT-CATATGCA
45935186 TTGCATTACATCATATGCA
1 TTGCATTACATCATATGCA
45935205 TT
1 TT
45935207 AAAGGTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (19 bp):
TTGCATTACATCATATGCA
Found at i:45943547 original size:88 final size:88
Alignment explanation
Indices: 45943398--45943589 Score: 296
Period size: 88 Copynumber: 2.2 Consensus size: 88
45943388 AGAGAGTTCG
** *
45943398 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCAAAGACGGTGAGCCTTAACCCCCTAAGTA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGTGAGCCTTAACCCCCTAAGCA
45943463 GTAGGGTAACAGGCCAAAAATTA
66 GTAGGGTAACAGGCCAAAAATTA
* * *
45943486 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAGCCTTAACCTCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGTGAGCCTTAACCCCCTAAGCA
**
45943551 GTAGGGTAACAGGCTGAAAATTA
66 GTAGGGTAACAGGCCAAAAATTA
45943574 CA-AGTCTTATCTCCCT
1 CAGA-TCTTATCTCCCT
45943590 GAAGTTGCAG
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
87 1 0.01
88 93 0.99
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (88 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGTGAGCCTTAACCCCCTAAGCA
GTAGGGTAACAGGCCAAAAATTA
Found at i:45943629 original size:45 final size:43
Alignment explanation
Indices: 45943567--45943737 Score: 184
Period size: 45 Copynumber: 3.9 Consensus size: 43
45943557 TAACAGGCTG
45943567 AAAA-TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
1 AAAAGTTACAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T
*
45943611 -AAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGAT
1 AAAAGTTA-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
** * ** * *
45943655 CGAAGTCACAATCCTTATCTCTGTGAAGTTGCAGTAGATCAGGAT
1 AAAAGTTACAAT-CTTATCTCCCTGAAGTTGCAGTGGAGCA-GAT
*
45943700 AAAAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGA
1 AAAAGTTACAA-TCTTATCTCCCTGAAGTTGCAGTGGA
45943738 CAGTTGTAGT
Statistics
Matches: 105, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
44 29 0.28
45 69 0.66
46 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
AAAAGTTACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
Found at i:45943807 original size:45 final size:44
Alignment explanation
Indices: 45943739--45943843 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
45943729 TGCAGTGGAC
*
45943739 AGTTGTAGTGGAGCAGACTAAAGTTAGCAGAT-CTTATCTC-CTTGA
1 AGTTGTAGTGGAGCAGACTAAAGTCA-CA-ATCCTTATCTCTC-TGA
45943784 AGTTGTAGTGGAGCAGA-TCAAAGTCACAATCCTTATCTCTCTGA
1 AGTTGTAGTGGAGCAGACT-AAAGTCACAATCCTTATCTCTCTGA
* *
45943828 AGTTGCAGTAGAGCAG
1 AGTTGTAGTGGAGCAG
45943844 GATAAAAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
43 2 0.04
44 28 0.52
45 24 0.44
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (44 bp):
AGTTGTAGTGGAGCAGACTAAAGTCACAATCCTTATCTCTCTGA
Done.