Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 139 of 163
Found at i:45427257 original size:5 final size:5
Alignment explanation
Indices: 45427247--45427272 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45427237 TGAGCATTCG
45427247 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
45427273 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:45428961 original size:43 final size:43
Alignment explanation
Indices: 45428886--45429043 Score: 208
Period size: 43 Copynumber: 3.7 Consensus size: 43
45428876 AAATATTTTT
* * * * *
45428886 TAAATGTCTTGTTCTTTAGCGGAGTTTGTGGGAAAAGCGCTGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTATGGGAAAAGCGCCGC
* *
45428929 TAAAGGTCTTGTTTTTTAGCGGCGTTTATGGGAAAAGCGCCGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTATGGGAAAAGCGCCGC
* * **
45428972 TAAAGGTCTTGTTCTATAACGGCGTTTGTATGAAAAGCGCCGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTATGGGAAAAGCGCCGC
*
45429015 TAAAGGTCTTGTTCTATAGCGACGTTTAT
1 TAAAGGTCTTGTTCTATAGCGGCGTTTAT
45429044 TTCTAAAAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTATAGCGGCGTTTATGGGAAAAGCGCCGC
Found at i:45429269 original size:47 final size:44
Alignment explanation
Indices: 45429177--45429288 Score: 118
Period size: 47 Copynumber: 2.5 Consensus size: 44
45429167 AAATATTTTT
* *
45429177 TAAATGTCTTGTTCTTTAGC-GGAGTTTGTGGGAAAAGCGCTGC
1 TAAAAGTCTTGTTCTTTAGCGGGAGTTTGTGGGAAAAGCGCCGC
* * **
45429220 TAAAGGTCTTGTTTTTTAGCGGAAGACGTTTGTGTTAAAAGCGCCGC
1 TAAAAGTCTTGTTCTTTAGCGG--GA-GTTTGTGGGAAAAGCGCCGC
* *
45429267 TAAAATTCTTGTTCTATAGCGG
1 TAAAAGTCTTGTTCTTTAGCGG
45429289 CGTTTATTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 18 0.32
44 1 0.02
46 2 0.04
47 35 0.62
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (44 bp):
TAAAAGTCTTGTTCTTTAGCGGGAGTTTGTGGGAAAAGCGCCGC
Found at i:45429352 original size:5 final size:5
Alignment explanation
Indices: 45429342--45429367 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45429332 TGAGCATTCG
45429342 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
45429368 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:45430405 original size:9 final size:9
Alignment explanation
Indices: 45430391--45430427 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
45430381 TATAGTTTGA
45430391 TATTCGAAT
1 TATTCGAAT
45430400 TATTCGAAT
1 TATTCGAAT
*
45430409 TATTCGAGT
1 TATTCGAAT
45430418 TATTCGAAT
1 TATTCGAAT
45430427 T
1 T
45430428 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:45430510 original size:9 final size:9
Alignment explanation
Indices: 45430493--45430523 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45430483 TCGAGTTGAT
45430493 TCGAATAAC
1 TCGAATAAC
*
45430502 TCGATTAAC
1 TCGAATAAC
45430511 TCGAATAAC
1 TCGAATAAC
45430520 TCGA
1 TCGA
45430524 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:45430720 original size:2 final size:2
Alignment explanation
Indices: 45430713--45430778 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
45430703 GAAAACAACA
45430713 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45430755 AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG
45430779 GGGGGGGGGG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45434353 original size:6 final size:6
Alignment explanation
Indices: 45434342--45434369 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45434332 GTATGGAAAG
45434342 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
45434370 TCGAGGGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:45435796 original size:27 final size:28
Alignment explanation
Indices: 45435750--45435872 Score: 151
Period size: 28 Copynumber: 4.5 Consensus size: 28
45435740 CGTGTGAGGT
* *
45435750 AGCCTTTGTGGCGATATATG-AAAAGGA
1 AGCCTTTGTGGCGATCTATGAAAAAAGA
* * *
45435777 AGCCTTTGTAGCAATTTATGAAAAAAGA
1 AGCCTTTGTGGCGATCTATGAAAAAAGA
*
45435805 AGTCTTTGTGGCGATCTATGAAAAAAGA
1 AGCCTTTGTGGCGATCTATGAAAAAAGA
* *
45435833 AGCCTTTGTGGTGATCTAT-AAAAAGGA
1 AGCCTTTGTGGCGATCTATGAAAAAAGA
*
45435860 AGCATTTGTGGCG
1 AGCCTTTGTGGCG
45435873 CACTCTAAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 35 0.43
28 47 0.57
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCCTTTGTGGCGATCTATGAAAAAAGA
Found at i:45435856 original size:55 final size:54
Alignment explanation
Indices: 45435753--45435872 Score: 143
Period size: 55 Copynumber: 2.2 Consensus size: 54
45435743 GTGAGGTAGC
* *
45435753 CTTTGTGGCGATATATGAAAAGGAAGCCTTTGTAGCAATTTATGAAAAAAGAAG
1 CTTTGTGGCGATATATGAAAAAGAAGCCTTTGTAGCAATCTATGAAAAAAGAAG
* * ** *
45435807 TCTTTGTGGCGATCTATGAAAAAAGAAGCCTTTGTGGTGATCTAT-AAAAAGGAAG
1 -CTTTGTGGCGATATATG-AAAAAGAAGCCTTTGTAGCAATCTATGAAAAAAGAAG
45435862 CATTTGTGGCG
1 C-TTTGTGGCG
45435873 CACTCTAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 1 0.02
55 34 0.61
56 21 0.38
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (54 bp):
CTTTGTGGCGATATATGAAAAAGAAGCCTTTGTAGCAATCTATGAAAAAAGAAG
Found at i:45440044 original size:11 final size:11
Alignment explanation
Indices: 45440017--45440055 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
45440007 ATTTTAAAAA
*
45440017 TAAAAAAATTT
1 TAAAAATATTT
*
45440028 AAAAAAGTATTT
1 TAAAAA-TATTT
45440040 TAAAAATATTT
1 TAAAAATATTT
45440051 TAAAA
1 TAAAA
45440056 TTAAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:45440069 original size:15 final size:17
Alignment explanation
Indices: 45440039--45440071 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
45440029 AAAAAGTATT
45440039 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
45440056 TTAAAAA-A-TTTAAAA
1 TTAAAAATATTTTAAAA
45440071 T
1 T
45440072 ATATATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:45444290 original size:676 final size:674
Alignment explanation
Indices: 45442993--45444347 Score: 2588
Period size: 677 Copynumber: 2.0 Consensus size: 674
45442983 AATAAAATTC
45442993 AACTCTTACAAGTGGAACATGATTGAATAACGATACATATAATGTAAAAGATAGATAACAATTTA
1 AACTCTTACAAGTGGAACATGATTGAATAACGATACATATAATGTAAAAGATAGATAACAATTTA
45443058 AACTTAAACTAAAAGCAATTTAACAAATAATAGGCAAATGCAAACATTGACTTTAATCATATTAT
66 AACTTAAACTAAAAGCAATTTAACAAATAATAGGCAAATGCAAACATTGACTTTAATCATATTAT
45443123 ACAAACATCCACATTAAAAATAAGCAACCCATAAATTCATAATTAATAAAAGAAATCGAAACAAT
131 ACAAACATCCACATTAAAAATAAGCAACCCATAAATTCATAATTAATAAAAGAAATCGAAACAAT
45443188 GAGTAAAAGAAAAAAACAGTAATAACAATAAATAATGCAAATATTTGATACAATTTGGTAAGGGA
196 GAGTAAAAGAAAAAAACAGTAATAACAATAAATAATGCAAATATTTGATACAATTTGGTAAGGGA
45443253 ATAAAAAAAAATAAAAGGTTCGAAAAAATTTTAATGAAAGATTTAAAAAAATAAAAAATGAAGTA
261 ATAAAAAAAAATAAAAGGTTCGAAAAAATTTTAATGAAAGATTT--AAAAATAAAAAATGAAGTA
45443318 AAATAAAAGTGAATAACTTAAAATTAATATCTACACTCTAATTTATATAAATAAAACCTAGTAAA
324 AAATAAAAGTGAATAACTTAAAATTAATATCTACACTCTAATTTATATAAATAAAACCTAGTAAA
45443383 AATAATAGTATAGACATAGTAATAATATATAAAAGTTAAATAAAATAAAATAACAAATTTAAGAG
389 AATAATAGTATAGACATAGTAATAATATATAAAAGTTAAATAAAATAAAATAACAAATTTAAGAG
45443448 GAATAAAGGTTTTTATGCATAAAATATATCATTAATAAAATATCATTATATATACGTATACATAT
454 GAATAAAGGTTTTTATGCATAAAATATATCATTAATAAAATATCATTATATATACGTATACATAT
45443513 ACTAAAGAAAGCTATATTATATATTCACATACACAAAAATAAAAATATGAGAGGTTATAAAAATT
519 ACTAAAGAAAGCTATATTATATATTCACATACACAAAAATAAAAATATGAGAGGTTATAAAAATT
45443578 TGGAATTTATTGCATATATATATACATACAAAAAAAATATAAATTACGCTGAAACGATTATATAA
584 TGGAATTTATTGCATATATATATACATACAAAAAAAATATAAATTACGCTGAAACGATTATATAA
45443643 AAAATGTATACAAAAAATATTTATGA
649 AAAATGTATACAAAAAATATTTATGA
45443669 AACTCTTACAAGTGGAACATGATTGAATAACGATACATATAATGTAAAAGATAGATAACAATTTA
1 AACTCTTACAAGTGGAACATGATTGAATAACGATACATATAATGTAAAAGATAGATAACAATTTA
45443734 AACTTAAACTAAAAGCAATTTAACAAATAATAGGCAAATGCAAACATTGACTTTAATCATATTAT
66 AACTTAAACTAAAAGCAATTTAACAAATAATAGGCAAATGCAAACATTGACTTTAATCATATTAT
45443799 ACAAACATCCACATTAAAAATAAGCAACCCATAAATTCATAATTAATAAAAGAAATCGAAACAAT
131 ACAAACATCCACATTAAAAATAAGCAACCCATAAATTCATAATTAATAAAAGAAATCGAAACAAT
45443864 GAGTAAAAGAAAAAAACAGTAATAACAATAAATAATGCAAATATTTGATACAATTTGGTAAGGGA
196 GAGTAAAAGAAAAAAACAGTAATAACAATAAATAATGCAAATATTTGATACAATTTGGTAAGGG-
* * ***
45443929 ATAATAAAAAAATAAATAAAAGGTTTGAATAAATTTTAATGAAAGATTT-TTTA-AAAAAATGAA
260 --AAT-AAAAAA-AAATAAAAGGTTCGAAAAAATTTTAATGAAAGATTTAAAAATAAAAAATGAA
45443992 GTAAAATAAAAGTGAATAACTTAAAATTAATATCTACACTCTAATTTATATAAATAAAACCTAGT
321 GTAAAATAAAAGTGAATAACTTAAAATTAATATCTACACTCTAATTTATATAAATAAAACCTAGT
45444057 AAAAATAATAGTATAGACATAGTAATAATATATAAAAGTTAAATAAAATAAAATAACAAATTTAA
386 AAAAATAATAGTATAGACATAGTAATAATATATAAAAGTTAAATAAAATAAAATAACAAATTTAA
45444122 GAGGAATAAAGGTTTTTATGCATAAAATATATCATTAATAAAATATCATTATATATACGTATACA
451 GAGGAATAAAGGTTTTTATGCATAAAATATATCATTAATAAAATATCATTATATATACGTATACA
45444187 TATACTAAAGAAAGCTATATTATATATTCACATACACAAAAATAAAAATATGAGAGGTTATAAAA
516 TATACTAAAGAAAGCTATATTATATATTCACATACACAAAAATAAAAATATGAGAGGTTATAAAA
45444252 ATTTGGAATTTATTGCATATATATATACATACAAAAAAAATATAAATTACGCTGAAACGATTATA
581 ATTTGGAATTTATTGCATATATATATACATACAAAAAAAATATAAATTACGCTGAAACGATTATA
45444317 TAAAAAATGTATACAAAAAATATTTATGA
646 TAAAAAATGTATACAAAAAATATTTATGA
45444346 AA
1 AA
45444348 TTAAATAATA
Statistics
Matches: 669, Mismatches: 5, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
676 259 0.39
677 366 0.55
678 1 0.00
679 3 0.00
680 6 0.01
681 34 0.05
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (674 bp):
AACTCTTACAAGTGGAACATGATTGAATAACGATACATATAATGTAAAAGATAGATAACAATTTA
AACTTAAACTAAAAGCAATTTAACAAATAATAGGCAAATGCAAACATTGACTTTAATCATATTAT
ACAAACATCCACATTAAAAATAAGCAACCCATAAATTCATAATTAATAAAAGAAATCGAAACAAT
GAGTAAAAGAAAAAAACAGTAATAACAATAAATAATGCAAATATTTGATACAATTTGGTAAGGGA
ATAAAAAAAAATAAAAGGTTCGAAAAAATTTTAATGAAAGATTTAAAAATAAAAAATGAAGTAAA
ATAAAAGTGAATAACTTAAAATTAATATCTACACTCTAATTTATATAAATAAAACCTAGTAAAAA
TAATAGTATAGACATAGTAATAATATATAAAAGTTAAATAAAATAAAATAACAAATTTAAGAGGA
ATAAAGGTTTTTATGCATAAAATATATCATTAATAAAATATCATTATATATACGTATACATATAC
TAAAGAAAGCTATATTATATATTCACATACACAAAAATAAAAATATGAGAGGTTATAAAAATTTG
GAATTTATTGCATATATATATACATACAAAAAAAATATAAATTACGCTGAAACGATTATATAAAA
AATGTATACAAAAAATATTTATGA
Found at i:45467736 original size:81 final size:81
Alignment explanation
Indices: 45467631--45467793 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 81
45467621 ATTTCTAAGC
* *
45467631 AGATTTGGATCTCACACTTGAAAGGAAACTTTTAAATTAGTTGAAACCATAACATAGGATGCCTT
1 AGATTTGAATCTCACACTTGAAAGGAAACTTTTAAATTAGTTGAAACCATAACATAGGATACCTT
45467696 CAGTTTGCCTTAGTTA
66 CAGTTTGCCTTAGTTA
*
45467712 AGATTTGAATCTCACACTTGAAAGGAAACTTTTAAATTTGTTGAAACCATAACATAGGATACCTT
1 AGATTTGAATCTCACACTTGAAAGGAAACTTTTAAATTAGTTGAAACCATAACATAGGATACCTT
45467777 CAGTTTGCCTTAGTTA
66 CAGTTTGCCTTAGTTA
45467793 A
1 A
45467794 TACTGTGTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (81 bp):
AGATTTGAATCTCACACTTGAAAGGAAACTTTTAAATTAGTTGAAACCATAACATAGGATACCTT
CAGTTTGCCTTAGTTA
Found at i:45493419 original size:6 final size:6
Alignment explanation
Indices: 45493408--45493435 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45493398 ATAAAAGGAC
45493408 TAAAAT TAAAAT TAAAAT TAAAAT TAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAA
45493436 GGTCATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAAAT
Found at i:45494676 original size:18 final size:18
Alignment explanation
Indices: 45494635--45494678 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
45494625 TATTAGAATT
*
45494635 TTTTTCATAATTATTAATG
1 TTTTT-ATAATTATTAAAG
* *
45494654 GTTTTATAATTTTTAAAG
1 TTTTTATAATTATTAAAG
45494672 TTTTTAT
1 TTTTTAT
45494679 TTTTATTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (18 bp):
TTTTTATAATTATTAAAG
Found at i:45498427 original size:17 final size:17
Alignment explanation
Indices: 45498391--45498424 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45498381 TAAATGAGCT
*
45498391 AATTAGGATTAAATTGG
1 AATTAAGATTAAATTGG
45498408 AATTAAGATATAAATTG
1 AATTAAGAT-TAAATTG
45498425 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (17 bp):
AATTAAGATTAAATTGG
Found at i:45498480 original size:3 final size:3
Alignment explanation
Indices: 45498472--45498708 Score: 474
Period size: 3 Copynumber: 79.0 Consensus size: 3
45498462 AATAGTGTAA
45498472 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
45498520 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
45498568 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
45498616 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
45498664 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
45498709 TTCGTAGCTA
Statistics
Matches: 234, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 234 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:45499385 original size:23 final size:22
Alignment explanation
Indices: 45499358--45499437 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 22
45499348 TTTACCAATC
45499358 AGGCACTTTATGTGTCGTATTTT
1 AGGCAC-TTATGTGTCGTATTTT
** * *
45499381 AGGCACCTCGTATGTCGTA--TC
1 AGGCA-CTTATGTGTCGTATTTT
*
45499402 AGGCACAT-TGTGT-GTCATTTT
1 AGGCACTTATGTGTCGT-ATTTT
45499423 AGGCACTTATGTGTC
1 AGGCACTTATGTGTC
45499438 ATATACTGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
18 2 0.05
19 5 0.12
20 1 0.02
21 14 0.33
22 5 0.12
23 14 0.33
24 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (22 bp):
AGGCACTTATGTGTCGTATTTT
Found at i:45499417 original size:21 final size:21
Alignment explanation
Indices: 45499355--45499417 Score: 54
Period size: 23 Copynumber: 2.9 Consensus size: 21
45499345 GGCTTTACCA
* *
45499355 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACATTGTGTGTCGT
* * * *
45499376 ATTTTAGGCACCTCGTATGTCGT
1 A--TCAGGCACATTGTGTGTCGT
45499399 ATCAGGCACATTGTGTGTC
1 ATCAGGCACATTGTGTGTC
45499418 ATTTTAGGCA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
21 15 0.48
23 16 0.52
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (21 bp):
ATCAGGCACATTGTGTGTCGT
Found at i:45499854 original size:25 final size:25
Alignment explanation
Indices: 45499826--45499876 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
45499816 AATGAAATTG
*
45499826 AGATAGTGAAATATTGCTTATTGAT
1 AGATAGTGAAATATTGCCTATTGAT
45499851 AGATAGTGAAATATTGCCTATTGAT
1 AGATAGTGAAATATTGCCTATTGAT
45499876 A
1 A
45499877 TTAATGATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (25 bp):
AGATAGTGAAATATTGCCTATTGAT
Found at i:45514182 original size:9 final size:9
Alignment explanation
Indices: 45514168--45514198 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45514158 GTTCAACGAA
45514168 TCGAGTTAT
1 TCGAGTTAT
*
45514177 TCGAGTTAA
1 TCGAGTTAT
45514186 TCGAGTTAT
1 TCGAGTTAT
45514195 TCGA
1 TCGA
45514199 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:45516755 original size:24 final size:24
Alignment explanation
Indices: 45516710--45516771 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
45516700 TCCGGGTTGT
*
45516710 ATAATGGGAAGCTCATAAGAGCC-
1 ATAATGGGAAGTTCATAAGAGCCA
**
45516733 ATAATTGGGAAGTTCATGCGAGCCA
1 ATAA-TGGGAAGTTCATAAGAGCCA
*
45516758 ATAATGGGTAGTTC
1 ATAATGGGAAGTTC
45516772 CGAAGAGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.12
24 25 0.76
25 4 0.12
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (24 bp):
ATAATGGGAAGTTCATAAGAGCCA
Found at i:45516919 original size:26 final size:25
Alignment explanation
Indices: 45516847--45516920 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
45516837 GAAGCTTCGG
*
45516847 AGAGCCATTAATGGGAAGCTCACAA
1 AGAGCCATTAACGGGAAGCTCACAA
* *
45516872 AGAGCCTTTAATCAGGAAGCTCACAA
1 AGAGCCATTAA-CGGGAAGCTCACAA
*
45516898 AGAGCCATATAACGGGACGCTCA
1 AGAGCCAT-TAACGGGAAGCTCA
45516921 TAGGAGTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 10 0.24
26 28 0.68
27 3 0.07
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (25 bp):
AGAGCCATTAACGGGAAGCTCACAA
Found at i:45522567 original size:14 final size:14
Alignment explanation
Indices: 45522548--45522578 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45522538 TGCTACCATT
45522548 TTACTATTATATTG
1 TTACTATTATATTG
*
45522562 TTACTATTTTATTG
1 TTACTATTATATTG
45522576 TTA
1 TTA
45522579 TTGCTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.61
Consensus pattern (14 bp):
TTACTATTATATTG
Found at i:45522643 original size:30 final size:30
Alignment explanation
Indices: 45522609--45522673 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
45522599 ACTTATTTTA
*
45522609 TTGTTAATTTTGTTATTATTTTAAAGTCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
45522639 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
45522669 TTGTT
1 TTGTT
45522674 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:45528352 original size:28 final size:26
Alignment explanation
Indices: 45528315--45528367 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
45528305 CTTTTGAATA
45528315 AATAAATTCTCTTTGAGTTTTTCTTTTC
1 AATAAATTCTC-TTGAG-TTTTCTTTTC
*
45528343 AATAATTTCTCTTGAGTTTTCTTTT
1 AATAAATTCTCTTGAGTTTTCTTTT
45528368 AAAAGAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 9 0.38
27 5 0.21
28 10 0.42
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (26 bp):
AATAAATTCTCTTGAGTTTTCTTTTC
Found at i:45528855 original size:20 final size:18
Alignment explanation
Indices: 45528822--45528858 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
45528812 ATCCTTAAAA
45528822 TAAAAGAATAATTTTTAG
1 TAAAAGAATAATTTTTAG
45528840 TAAATAGAAGTAATTTTTA
1 TAAA-AGAA-TAATTTTTA
45528859 AATTAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (18 bp):
TAAAAGAATAATTTTTAG
Found at i:45532545 original size:25 final size:25
Alignment explanation
Indices: 45532517--45532578 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
45532507 GCTGAAGCTC
* *
45532517 TAGTTGCATTTCAAGAGGTGTTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
45532542 TAGTTGCAATTCAAGAGGTATTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
45532567 TAGTTGCAATTC
1 TAGTTGCAATTC
45532579 CAGTAAATTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (25 bp):
TAGTTGCAATTCAAGAGGTATTTTA
Found at i:45532745 original size:18 final size:19
Alignment explanation
Indices: 45532722--45532762 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
45532712 TAATGGGCTT
45532722 TATAGGATAA-TTTATTGG
1 TATAGGATAATTTTATTGG
45532740 TATAGGATAATTTTTATTGG
1 TATAGGATAA-TTTTATTGG
45532760 TAT
1 TAT
45532763 TTTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (19 bp):
TATAGGATAATTTTATTGG
Found at i:45554917 original size:381 final size:385
Alignment explanation
Indices: 45554200--45554966 Score: 1461
Period size: 381 Copynumber: 2.0 Consensus size: 385
45554190 ATTAATTAAA
45554200 TAAATATTAGTTTATTAGTATTTTAATTTAATTTTTAAATGATATTTTATTTTTTTATTTTTATT
1 TAAATATTAGTTTATTAGTATTTTAATTTAATTTTTAAATGATATTTTATTTTTTTATTTTTATT
45554265 TAATTTAGTATATATATAAGAAAAGGAAGATGAAGAAGCATGCAACCCACCATTTTTCCATGCAC
66 TAATTTAGTATATATATAAGAAAAGGAAGATGAAGAAGCATGCAACCCACCATTTTTCCATGCAC
* *
45554330 CAACGTCAGAAAAAGAGAGAAAGAGAAAAGAAAGTTTTGCTTTCATTACAATTTGGTCCTTCCAC
131 CAACGTCAGAAAAAGAGAGAAAGAGAAAAGAAAATTTTACTTTCATTACAATTTGGTCCTTCCAC
*
45554395 CAAAAATTCACCATTTTCATCTAGAAATCAAAAGAATTTTCATAGCCACCAAGAGAGAAAATTGA
196 CAAAAATTCACCATTTTCATCTAGAAATCAAAAGAATTTCCATAGCCACCAAGAGAGAAAATTGA
45554460 TAAGGAGACTATTGGGAGCTAGAATATCAAGTTAGATTCAAGAAATAAAGGCTGGAGGAGAGAGA
261 TAAGGAGACTATTGGGAGCTAGAATATCAAGTTAGATTCAAGAAATAAAGGCTGGAGGAGAGAGA
45554525 AAATCAAGTTAAAGATTGAAATCAATAGAGCAAGGTAAGAACATTAAGATTTCAATATAT
326 AAATCAAGTTAAAGATTGAAATCAATAGAGCAAGGTAAGAACATTAAGATTTCAATATAT
45554585 TAAATATTAG-TTATTAGTATTTTAATTTAATTTTTAAATGATATTTTATTTTTTTATTTTTATT
1 TAAATATTAGTTTATTAGTATTTTAATTTAATTTTTAAATGATATTTTATTTTTTTATTTTTATT
45554649 TAATTTAGTATATATATAAGAAAAGGAAGATGAAGAAGCATGCAACCCACCATTTTTCCATGCAC
66 TAATTTAGTATATATATAAGAAAAGGAAGATGAAGAAGCATGCAACCCACCATTTTTCCATGCAC
*
45554714 CAACGTCAGAAAAAGAGAG-AA-AG-AAAGAAAATTTTACTTTCTTTACAATTTGGTCCTTCCAC
131 CAACGTCAGAAAAAGAGAGAAAGAGAAAAGAAAATTTTACTTTCATTACAATTTGGTCCTTCCAC
45554776 CAAAAATTCACCATTTTCATCTAGAAATCAAAAGAATTTCCATAGCCACCAAGAGAGAAAATTGA
196 CAAAAATTCACCATTTTCATCTAGAAATCAAAAGAATTTCCATAGCCACCAAGAGAGAAAATTGA
*
45554841 TAAGGAGACTATTGGGAGCTAGAATATTAAGTTAGATTCAAGAAATAAAGGCTGGAGGAGAGAGA
261 TAAGGAGACTATTGGGAGCTAGAATATCAAGTTAGATTCAAGAAATAAAGGCTGGAGGAGAGAGA
45554906 AAATCAAGTTAAAGATTGAAATCAATAGAGCAAGGTAAGAACATTAAGATTTCAATATAT
326 AAATCAAGTTAAAGATTGAAATCAATAGAGCAAGGTAAGAACATTAAGATTTCAATATAT
45554966 T
1 T
45554967 TTTGAGTTTG
Statistics
Matches: 377, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
381 225 0.60
382 2 0.01
383 2 0.01
384 138 0.37
385 10 0.03
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (385 bp):
TAAATATTAGTTTATTAGTATTTTAATTTAATTTTTAAATGATATTTTATTTTTTTATTTTTATT
TAATTTAGTATATATATAAGAAAAGGAAGATGAAGAAGCATGCAACCCACCATTTTTCCATGCAC
CAACGTCAGAAAAAGAGAGAAAGAGAAAAGAAAATTTTACTTTCATTACAATTTGGTCCTTCCAC
CAAAAATTCACCATTTTCATCTAGAAATCAAAAGAATTTCCATAGCCACCAAGAGAGAAAATTGA
TAAGGAGACTATTGGGAGCTAGAATATCAAGTTAGATTCAAGAAATAAAGGCTGGAGGAGAGAGA
AAATCAAGTTAAAGATTGAAATCAATAGAGCAAGGTAAGAACATTAAGATTTCAATATAT
Found at i:45557834 original size:25 final size:26
Alignment explanation
Indices: 45557800--45557848 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
45557790 ACATATTTTC
45557800 TCAAAATTTTACT-AGGGTAAAATCA
1 TCAAAATTTTACTGAGGGTAAAATCA
*
45557825 TCAAAATTTTACTGGGGGTAAAAT
1 TCAAAATTTTACTGAGGGTAAAAT
45557849 AAGGATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACTGAGGGTAAAATCA
Found at i:45560380 original size:25 final size:26
Alignment explanation
Indices: 45560346--45560394 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
45560336 ACATATTTTC
45560346 TCAAAATTTTACT-AGGGTAAAATCA
1 TCAAAATTTTACTGAGGGTAAAATCA
*
45560371 TCAAAATTTTACTGGGGGTAAAAT
1 TCAAAATTTTACTGAGGGTAAAAT
45560395 AAGGATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACTGAGGGTAAAATCA
Found at i:45564593 original size:21 final size:21
Alignment explanation
Indices: 45564567--45564606 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
45564557 ATTTTAAAAT
*
45564567 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAATTTTTTTA
45564588 ATTTTTAAAATAATTTTTT
1 ATTTTTAAAATAATTTTTT
45564607 GGTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTAAAATAATTTTTTTA
Found at i:45564601 original size:12 final size:12
Alignment explanation
Indices: 45564558--45564605 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
45564548 ATTTTTTAAA
45564558 TTTTAAAAT-AT
1 TTTTAAAATAAT
*
45564569 TTTTAAAATACT
1 TTTTAAAATAAT
*
45564581 TTTT---TTAAT
1 TTTTAAAATAAT
45564590 TTTTAAAATAAT
1 TTTTAAAATAAT
45564602 TTTT
1 TTTT
45564606 TGGTATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
9 7 0.24
11 9 0.31
12 13 0.45
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:45576543 original size:15 final size:16
Alignment explanation
Indices: 45576502--45576552 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 16
45576492 CGTAAGTTCA
45576502 AATTGTTTCTTTAAGTT
1 AATTGTTT-TTTAAGTT
45576519 AATT-TATTTTTAA-TT
1 AATTGT-TTTTTAAGTT
45576534 AATTGTTTTTTGAAGTT
1 AATTGTTTTTT-AAGTT
45576551 AA
1 AA
45576553 AAATAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 11 0.37
16 9 0.30
17 10 0.33
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (16 bp):
AATTGTTTTTTAAGTT
Found at i:45587288 original size:42 final size:42
Alignment explanation
Indices: 45587229--45587353 Score: 241
Period size: 42 Copynumber: 3.0 Consensus size: 42
45587219 ATCAAATCCT
45587229 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
1 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
45587271 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
1 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
*
45587313 CAACAGCTGAAAATGGGTTCGAAAGCTCCGTACCGTCTACT
1 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACT
45587354 ACGTTACAGT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (42 bp):
CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
Found at i:45589058 original size:1 final size:1
Alignment explanation
Indices: 45589052--45589077 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
45589042 TGTTTGTTTG
45589052 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
45589078 AATTTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:45593145 original size:29 final size:27
Alignment explanation
Indices: 45593073--45593143 Score: 117
Period size: 27 Copynumber: 2.6 Consensus size: 27
45593063 AAAAGTATTT
*
45593073 TAAAAA-TATTTTAAAATTAAAAAAAT
1 TAAAAAGTATTTTAAAATTAAAAAAAA
45593099 TAAAAAGTATTTTAAAATTAAAAAATAA
1 TAAAAAGTATTTTAAAATTAAAAAA-AA
45593127 TAAAAAGTATTTTAAAA
1 TAAAAAGTATTTTAAAA
45593144 ATNNNNNNNN
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
26 6 0.14
27 18 0.43
28 18 0.43
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (27 bp):
TAAAAAGTATTTTAAAATTAAAAAAAA
Found at i:45599341 original size:17 final size:18
Alignment explanation
Indices: 45599309--45599344 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
45599299 GAAACCCTAA
45599309 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
45599328 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
45599345 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:45599445 original size:20 final size:20
Alignment explanation
Indices: 45599398--45599463 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
45599388 TTCTATTTCT
*
45599398 TTATTTGTTTTGTTTTAATTA
1 TTATTTATTTTGTTTT-ATTA
45599419 CTTATTTATTTTGTTTTATTA
1 -TTATTTATTTTGTTTTATTA
**
45599440 TTATTTCA-TTTACTTTATTA
1 TTATTT-ATTTTGTTTTATTA
45599460 TTAT
1 TTAT
45599464 AATAATATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
20 20 0.50
21 5 0.12
22 15 0.38
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (20 bp):
TTATTTATTTTGTTTTATTA
Found at i:45599539 original size:19 final size:20
Alignment explanation
Indices: 45599497--45599546 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
45599487 ATATTAAGTA
*
45599497 ATACATAT-TTTATTATTAT
1 ATACATATGTATATTATTAT
45599516 ATACATATGTATATTATT-T
1 ATACATATGTATATTATTAT
* *
45599535 TTACACATGTAT
1 ATACATATGTAT
45599547 TCACCAACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (20 bp):
ATACATATGTATATTATTAT
Found at i:45600259 original size:18 final size:17
Alignment explanation
Indices: 45600236--45600271 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
45600226 AAAATAAACA
45600236 TAATTAATTAATTTAAAT
1 TAATTAATTAA-TTAAAT
45600254 TAATTAATTAATTAAAT
1 TAATTAATTAATTAAAT
45600271 T
1 T
45600272 CTTAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTAATTAATTAAAT
Found at i:45601796 original size:3 final size:3
Alignment explanation
Indices: 45601775--45601855 Score: 74
Period size: 3 Copynumber: 26.7 Consensus size: 3
45601765 CAGAACAATG
* * *
45601775 ATA ATA ATGA A-A ATG ATA ATA ATA ATA GTA ATA ATA ATA TTA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
45601820 ATA ACA AAA ATA ATA AAA ATA ATA CTA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
45601856 TTTTAGAGTT
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
2 2 0.03
3 55 0.89
4 5 0.08
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:45603436 original size:23 final size:23
Alignment explanation
Indices: 45603409--45603459 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
45603399 GGGCTAGGGT
*
45603409 TTTTTATTTTAGGTTTGT-AATAA
1 TTTTTATTTTAGGCTTGTAAAT-A
* *
45603432 TTTTTCTTTTGGGCTTGTAAATA
1 TTTTTATTTTAGGCTTGTAAATA
45603455 TTTTT
1 TTTTT
45603460 GGACTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.20, C:0.04, G:0.14, T:0.63
Consensus pattern (23 bp):
TTTTTATTTTAGGCTTGTAAATA
Found at i:45604575 original size:33 final size:32
Alignment explanation
Indices: 45604511--45604584 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
45604501 AGGCTCACCC
*
45604511 ATATTATTTTTAAAATTTTTAAATATTTATATT
1 ATATTA-TTTTAAAATTTATAAATATTTATATT
*
45604544 ATATTATTTTAATATTTAATAAA-ATTATATATT
1 ATATTATTTTAAAATTT-ATAAATATT-TATATT
*
45604577 -TTTTATTT
1 ATATTATTT
45604585 ATTGAAAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 20 0.56
33 16 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
ATATTATTTTAAAATTTATAAATATTTATATT
Found at i:45615481 original size:14 final size:15
Alignment explanation
Indices: 45615457--45615487 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
45615447 GCCCACCCAT
45615457 ATTATTATTTTTTAC
1 ATTATTATTTTTTAC
45615472 ATTA-TATTTTTTAC
1 ATTATTATTTTTTAC
45615486 AT
1 AT
45615488 AATTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTATTATTTTTTAC
Found at i:45615494 original size:13 final size:14
Alignment explanation
Indices: 45615462--45615494 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
45615452 CCCATATTAT
*
45615462 TATTTTTTACATTA
1 TATTTTTTACATAA
45615476 TATTTTTTACATAA
1 TATTTTTTACATAA
45615490 T-TTTT
1 TATTTT
45615495 AAATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTTTACATAA
Found at i:45621653 original size:15 final size:16
Alignment explanation
Indices: 45621635--45621664 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45621625 TATAAATTGT
45621635 TAAAAAATA-AAATTA
1 TAAAAAATACAAATTA
45621650 TAAAAAATACAAATT
1 TAAAAAATACAAATT
45621665 TATTCAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAAAATACAAATTA
Found at i:45621667 original size:17 final size:16
Alignment explanation
Indices: 45621622--45621667 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
45621612 TGATAAAATT
45621622 AAATATAAATTGT-TAAA
1 AAATA-AAATT-TATAAA
45621639 AAATAAAA-TTATAAA
1 AAATAAAATTTATAAA
45621654 AAATACAAATTTAT
1 AAATA-AAATTTAT
45621668 TCAAATCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.04
15 10 0.38
16 6 0.23
17 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AAATAAAATTTATAAA
Found at i:45626237 original size:43 final size:43
Alignment explanation
Indices: 45626189--45626271 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
45626179 TTTCTTCTGT
45626189 TTTGTAGTCTATTGGAAGCTCGATCAGTTGGAACCCTATCAGA
1 TTTGTAGTCTATTGGAAGCTCGATCAGTTGGAACCCTATCAGA
45626232 TTTGTAGTCTATTGGAAGCTCGATCAGTTGGAACCCTATC
1 TTTGTAGTCTATTGGAAGCTCGATCAGTTGGAACCCTATC
45626272 GGAGTCTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (43 bp):
TTTGTAGTCTATTGGAAGCTCGATCAGTTGGAACCCTATCAGA
Found at i:45627587 original size:18 final size:19
Alignment explanation
Indices: 45627542--45627587 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
45627532 CATTATATTA
*
45627542 ATAATA-AATAATTGAATG
1 ATAATATAATAATTAAATG
45627560 ATACATTATAA-AATTAAATG
1 ATA-A-TATAATAATTAAATG
45627580 ATAATATA
1 ATAATATA
45627588 TGATAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 7 0.29
19 2 0.08
20 13 0.54
21 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (19 bp):
ATAATATAATAATTAAATG
Found at i:45628177 original size:2 final size:2
Alignment explanation
Indices: 45628170--45628199 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45628160 TTTTTATTTA
45628170 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45628200 GCTAAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45639639 original size:6 final size:6
Alignment explanation
Indices: 45639628--45639657 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
45639618 AAGGAGCTAG
45639628 AATTTT AATTTT AATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT
45639658 TGCATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
AATTTT
Found at i:45640728 original size:17 final size:18
Alignment explanation
Indices: 45640706--45640746 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
45640696 TTTATAAGAC
*
45640706 AAATT-AATTGTTTTATA
1 AAATTAAATTCTTTTATA
45640723 AAATTAAAATTCTTTTATA
1 AAATT-AAATTCTTTTATA
45640742 AAATT
1 AAATT
45640747 TAATACTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
19 16 0.76
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
AAATTAAATTCTTTTATA
Found at i:45644583 original size:24 final size:24
Alignment explanation
Indices: 45644534--45644583 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
45644524 AGAAGAAGAT
* * * *
45644534 GATGATGATGATGACAACGACGAC
1 GATGATGACGACGACAACAACAAC
45644558 GATGATGACGACGACAACAACAAC
1 GATGATGACGACGACAACAACAAC
45644582 GA
1 GA
45644584 CGACAACGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.12
Consensus pattern (24 bp):
GATGATGACGACGACAACAACAAC
Found at i:45644597 original size:3 final size:3
Alignment explanation
Indices: 45644591--45644625 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
45644581 CGACGACAAC
45644591 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
45644626 CGACGACGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:45644711 original size:3 final size:3
Alignment explanation
Indices: 45644705--45644740 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
45644695 AGAAGAAGAA
45644705 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
45644741 AACAGCAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:45644972 original size:3 final size:3
Alignment explanation
Indices: 45644966--45645036 Score: 79
Period size: 3 Copynumber: 23.7 Consensus size: 3
45644956 AGAAGAAGAA
* * * * * *
45644966 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAC GAC GAC AAC GAT GAC
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
45645014 GAC GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GA
45645037 CAAATATTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.35, C:0.08, G:0.32, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:45645313 original size:3 final size:3
Alignment explanation
Indices: 45645307--45645349 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
45645297 CATTTTCAAC
45645307 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
45645350 AGCAAAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:45646003 original size:65 final size:65
Alignment explanation
Indices: 45645856--45645989 Score: 268
Period size: 65 Copynumber: 2.1 Consensus size: 65
45645846 AAATAGTCAT
45645856 TTATGTATGGTTTAAATTACATTTTAGTCACTAAACTTTAATTTGTTATGAAATGGTCACTAATA
1 TTATGTATGGTTTAAATTACATTTTAGTCACTAAACTTTAATTTGTTATGAAATGGTCACTAATA
45645921 TTATGTATGGTTTAAATTACATTTTAGTCACTAAACTTTAATTTGTTATGAAATGGTCACTAATA
1 TTATGTATGGTTTAAATTACATTTTAGTCACTAAACTTTAATTTGTTATGAAATGGTCACTAATA
45645986 TTAT
1 TTAT
45645990 CGATTTGTTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.46
Consensus pattern (65 bp):
TTATGTATGGTTTAAATTACATTTTAGTCACTAAACTTTAATTTGTTATGAAATGGTCACTAATA
Found at i:45647228 original size:16 final size:16
Alignment explanation
Indices: 45647204--45647238 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45647194 TAATACCCGA
*
45647204 ATAAATAAAAAATATC
1 ATAAATAAAAAATAAC
*
45647220 ATAATTAAAAAATAAC
1 ATAAATAAAAAATAAC
45647236 ATA
1 ATA
45647239 TATTTATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAATAAAAAATAAC
Found at i:45647749 original size:28 final size:28
Alignment explanation
Indices: 45647707--45647761 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
45647697 CCGATTTGCT
*
45647707 CCCTCCGTTTCTTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTTTTCTTTTCTG
*
45647735 CCCTCTGTTTATTTTCTTTTCTTTTCT
1 CCCTCCGTTTATTTTCTTTTCTTTTCT
45647762 ACCGATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.64
Consensus pattern (28 bp):
CCCTCCGTTTATTTTCTTTTCTTTTCTG
Found at i:45647782 original size:38 final size:37
Alignment explanation
Indices: 45647735--45647806 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 37
45647725 TTCTTTTCTG
* *
45647735 CCCTCTGTTTATTTTCTTTTCTTTTCTACCGATTTGCT
1 CCCTCTGTTTATTCTCATTT-TTTTCTACCGATTTGCT
* * *
45647773 CCCTTTGTTTCTTCTCATTTTTTTCTGCCGATTT
1 CCCTCTGTTTATTCTCATTTTTTTCTACCGATTT
45647807 CCGAGTTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 13 0.45
38 16 0.55
ACGTcount: A:0.07, C:0.26, G:0.08, T:0.58
Consensus pattern (37 bp):
CCCTCTGTTTATTCTCATTTTTTTCTACCGATTTGCT
Found at i:45654156 original size:18 final size:19
Alignment explanation
Indices: 45654122--45654158 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
45654112 TGTGCAAAAC
45654122 AAAATTCGGGTAAAACCGAA
1 AAAATTCGGGT-AAACCGAA
45654142 AAAATTCGGGT-AACCGA
1 AAAATTCGGGTAAACCGA
45654159 CCGAATTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (19 bp):
AAAATTCGGGTAAACCGAA
Found at i:45654381 original size:13 final size:13
Alignment explanation
Indices: 45654365--45654389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45654355 CAAGTATTCA
45654365 ACCCAACCCAATT
1 ACCCAACCCAATT
45654378 ACCCAACCCAAT
1 ACCCAACCCAAT
45654390 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:45654506 original size:9 final size:9
Alignment explanation
Indices: 45654492--45654593 Score: 98
Period size: 9 Copynumber: 11.4 Consensus size: 9
45654482 GTAGTGATTC
45654492 AATTCGGTT
1 AATTCGGTT
*
45654501 AATTCGGGT
1 AATTCGGTT
* *
45654510 AATCCGATT
1 AATTCGGTT
45654519 AATTCGGTT
1 AATTCGGTT
*
45654528 AATTCGGGT
1 AATTCGGTT
*
45654537 AATT-GGGT
1 AATTCGGTT
* *
45654545 AATCCGATT
1 AATTCGGTT
*
45654554 AATTCAGTT
1 AATTCGGTT
*
45654563 AATTCGGGT
1 AATTCGGTT
*
45654572 AATTCGGGT
1 AATTCGGTT
*
45654581 AATTCAGTT
1 AATTCGGTT
45654590 AATT
1 AATT
45654594 TTTAACCAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
8 7 0.09
9 68 0.91
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (9 bp):
AATTCGGTT
Found at i:45654552 original size:35 final size:36
Alignment explanation
Indices: 45654492--45654583 Score: 159
Period size: 35 Copynumber: 2.6 Consensus size: 36
45654482 GTAGTGATTC
* *
45654492 AATTCGGTTAATTCGGGTAATCCGATTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATCCGATTAATTCAGTT
45654528 AATTCGGGTAATT-GGGTAATCCGATTAATTCAGTT
1 AATTCGGGTAATTCGGGTAATCCGATTAATTCAGTT
45654563 AATTCGGGTAATTCGGGTAAT
1 AATTCGGGTAATTCGGGTAAT
45654584 TCAGTTAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
35 34 0.64
36 19 0.36
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (36 bp):
AATTCGGGTAATTCGGGTAATCCGATTAATTCAGTT
Found at i:45657329 original size:46 final size:46
Alignment explanation
Indices: 45657276--45657371 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
45657266 TGAAACAAAC
45657276 AAGAATGCACATTGTATGCAAAATAAAGCACAAGCTTTGAAGAGTT
1 AAGAATGCACATTGTATGCAAAATAAAGCACAAGCTTTGAAGAGTT
45657322 AAGAATGCACATTGTATGCAAAATAAAGCACAAGCTTTGAAGAGTT
1 AAGAATGCACATTGTATGCAAAATAAAGCACAAGCTTTGAAGAGTT
45657368 AAGA
1 AAGA
45657372 GAAAACAAGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (46 bp):
AAGAATGCACATTGTATGCAAAATAAAGCACAAGCTTTGAAGAGTT
Found at i:45661640 original size:21 final size:21
Alignment explanation
Indices: 45661594--45661640 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
45661584 AATTTAATTT
45661594 TTTTCTTTTATGTTCTTTTGA
1 TTTTCTTTTATGTTCTTTTGA
* * *
45661615 CTTTCTTTT-TTTTCTTCTTTA
1 TTTTCTTTTATGTTCTT-TTGA
45661636 TTTTC
1 TTTTC
45661641 CATTCTCTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTCTTTTATGTTCTTTTGA
Found at i:45663451 original size:17 final size:18
Alignment explanation
Indices: 45663418--45663452 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
45663408 TTTAAATGAA
45663418 AACATATTTAACTTTTTT
1 AACATATTTAACTTTTTT
*
45663436 AACATA-TTAGCTTTTTT
1 AACATATTTAACTTTTTT
45663453 GGTCAAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (18 bp):
AACATATTTAACTTTTTT
Found at i:45663586 original size:16 final size:16
Alignment explanation
Indices: 45663563--45663598 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45663553 CAAAAATATA
*
45663563 TTTT-TTTTTAAATTT
1 TTTTATTTTTAAATCT
45663578 TTTTATTTTTAAATCT
1 TTTTATTTTTAAATCT
45663594 TTTTA
1 TTTTA
45663599 ATTAATAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTTTAAATCT
Found at i:45664153 original size:34 final size:36
Alignment explanation
Indices: 45664083--45664154 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
45664073 TTGATTTTAT
*
45664083 AAATAAAATAATTATTAATTAAAAATAAAAATTTGA
1 AAATAAAATAATTATTAATTAAAAATAAAAACTTGA
* *
45664119 AAATAATATATTTATTAATT-AAAA-AAAAACTTGA
1 AAATAAAATAATTATTAATTAAAAATAAAAACTTGA
45664153 AA
1 AA
45664155 CAACTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 11 0.33
35 4 0.12
36 18 0.55
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (36 bp):
AAATAAAATAATTATTAATTAAAAATAAAAACTTGA
Found at i:45669696 original size:24 final size:24
Alignment explanation
Indices: 45669664--45669713 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
45669654 NNNNNNNNNN
45669664 TTATTTAAATATTGATCTAATTAA
1 TTATTTAAATATTGATCTAATTAA
45669688 TTATTTAAATATTGATCTAATTAA
1 TTATTTAAATATTGATCTAATTAA
45669712 TT
1 TT
45669714 GTTTTAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (24 bp):
TTATTTAAATATTGATCTAATTAA
Found at i:45671294 original size:16 final size:16
Alignment explanation
Indices: 45671262--45671296 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
45671252 TAAGTTATAG
45671262 TTTTAATTTCAATATT
1 TTTTAATTTCAATATT
45671278 TTTTGAATTTCAA-ATT
1 TTTT-AATTTCAATATT
45671294 TTT
1 TTT
45671297 AATCCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTAATTTCAATATT
Found at i:45679531 original size:30 final size:32
Alignment explanation
Indices: 45679478--45679541 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 32
45679468 ACTAAGTTTC
*
45679478 TAATCAATCTTAATTTCTTCAAGTGTTTGTAT
1 TAATCAATCTTAATTTCTTCAAGTATTTGTAT
45679510 TAATCAATCTTAA-TT-TTCAAGTATTTGTAT
1 TAATCAATCTTAATTTCTTCAAGTATTTGTAT
45679540 TA
1 TA
45679542 TTTATCCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 16 0.52
31 2 0.06
32 13 0.42
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (32 bp):
TAATCAATCTTAATTTCTTCAAGTATTTGTAT
Found at i:45692161 original size:134 final size:135
Alignment explanation
Indices: 45692012--45692280 Score: 531
Period size: 134 Copynumber: 2.0 Consensus size: 135
45692002 TTTAAAAGGA
45692012 ATAAAAAAATATTTTATATTAATATTAATATATTTTTATACTTCAGTTTAAATAGAAAGTAGTTT
1 ATAAAAAAATATTTTATATTAATATTAATATATTTTTATACTTCAGTTTAAATAGAAAGTAGTTT
45692077 TTATTATTTCTAAAAAGTAATATAGGCCATTTGGGCCCAACCGAGCTTGAAACTTTTTGAAATCA
66 TTATTATTTCTAAAAAGTAATATAGGCCATTTGGGCCCAACCGAGCTTGAAACTTTTTGAAATCA
45692142 AGCCT
131 AGCCT
45692147 ATAAAAAAAT-TTTTATATTAATATTAATATATTTTTATACTTCAGTTTAAATAGAAAGTAGTTT
1 ATAAAAAAATATTTTATATTAATATTAATATATTTTTATACTTCAGTTTAAATAGAAAGTAGTTT
45692211 TTATTATTTCTAAAAAGTAATATAGGCCATTTGGGCCCAACCGAGCTTGAAACTTTTTGAAATCA
66 TTATTATTTCTAAAAAGTAATATAGGCCATTTGGGCCCAACCGAGCTTGAAACTTTTTGAAATCA
45692276 AGCCT
131 AGCCT
45692281 CTGCCCAGCA
Statistics
Matches: 134, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
134 124 0.93
135 10 0.07
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (135 bp):
ATAAAAAAATATTTTATATTAATATTAATATATTTTTATACTTCAGTTTAAATAGAAAGTAGTTT
TTATTATTTCTAAAAAGTAATATAGGCCATTTGGGCCCAACCGAGCTTGAAACTTTTTGAAATCA
AGCCT
Found at i:45693993 original size:17 final size:19
Alignment explanation
Indices: 45693957--45693993 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
45693947 GAATGGCTAT
*
45693957 TAAAAGATATGTTTTGATA
1 TAAAAGATATGTTTTAATA
45693976 TAAAA-ATA-GTTTTAATA
1 TAAAAGATATGTTTTAATA
45693993 T
1 T
45693994 GCTTTATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (19 bp):
TAAAAGATATGTTTTAATA
Found at i:45697158 original size:7 final size:6
Alignment explanation
Indices: 45697142--45697193 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
45697132 ATTTTCCAGC
* *
45697142 AAAAAT AAAAAT GAAAAT -AAAAT AAAATAGT AAAAAT AAATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT AAAAAT
45697192 AA
1 AA
45697194 TAGGAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 5 0.12
6 23 0.57
7 7 0.17
8 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:45697177 original size:25 final size:25
Alignment explanation
Indices: 45697147--45697201 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
45697137 CCAGCAAAAA
45697147 TAAAAATGAAAATAA-AATAA-AATAG
1 TAAAAAT--AAATAATAATAATAATAG
45697172 TAAAAATAAATAATAATAATAATAG
1 TAAAAATAAATAATAATAATAATAG
*
45697197 GAAAA
1 TAAAA
45697202 TTAATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 6 0.22
24 5 0.19
25 16 0.59
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (25 bp):
TAAAAATAAATAATAATAATAATAG
Found at i:45704392 original size:34 final size:35
Alignment explanation
Indices: 45704337--45704403 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
45704327 CAAACACCAA
*
45704337 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
45704372 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
45704404 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45706537 original size:14 final size:14
Alignment explanation
Indices: 45706518--45706547 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45706508 TATACAAATT
*
45706518 AAAGAATTATTAGA
1 AAAGAATTAATAGA
45706532 AAAGAATTAATAGA
1 AAAGAATTAATAGA
45706546 AA
1 AA
45706548 CAACTAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (14 bp):
AAAGAATTAATAGA
Found at i:45712152 original size:19 final size:19
Alignment explanation
Indices: 45712130--45712168 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45712120 AAACTTTGTT
45712130 TCTAGTTTCTCACTTAAAC
1 TCTAGTTTCTCACTTAAAC
45712149 TCTAGTTTCTCACTTAAAC
1 TCTAGTTTCTCACTTAAAC
45712168 T
1 T
45712169 TTCAGAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (19 bp):
TCTAGTTTCTCACTTAAAC
Found at i:45727588 original size:23 final size:23
Alignment explanation
Indices: 45727562--45727612 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
45727552 TAAGTTTTAA
*
45727562 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
45727585 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
45727608 ATTTA
1 ATTTA
45727613 AGAAAAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:45727589 original size:13 final size:13
Alignment explanation
Indices: 45727571--45727612 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
45727561 AATTTAGGAT
45727571 TATTTAGTGATAA
1 TATTTAGTGATAA
*
45727584 TATTTA--GA-AT
1 TATTTAGTGATAA
45727594 TATTTAGTGATAA
1 TATTTAGTGATAA
45727607 TATTTA
1 TATTTA
45727613 AGAAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 7 0.29
11 2 0.08
12 2 0.08
13 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:45730187 original size:26 final size:25
Alignment explanation
Indices: 45730129--45730194 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
45730119 AAGCAAGCAC
*
45730129 TAACGGGAAGCTCACAAAGAACCTT
1 TAACGGGAAGCTCACAAAGAACCTA
*
45730154 TAATCGGGAAGCTCACGAAA-ATCCATA
1 TAA-CGGGAAGCTCAC-AAAGAACC-TA
*
45730181 TAACGGGACGCTCA
1 TAACGGGAAGCTCA
45730195 TAAGAGCTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 3 0.09
26 25 0.71
27 7 0.20
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAACCTA
Found at i:45734170 original size:20 final size:20
Alignment explanation
Indices: 45734145--45734189 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
45734135 TAAGTATTCA
45734145 TTTATATATATT-TATGTATT
1 TTTATA-ATATTATATGTATT
*
45734165 TTTATAATTTTATATGTATT
1 TTTATAATATTATATGTATT
45734185 TTTAT
1 TTTAT
45734190 CGAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTATAATATTATATGTATT
Found at i:45734240 original size:19 final size:19
Alignment explanation
Indices: 45734202--45734242 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
45734192 AAAAATAAAC
* **
45734202 TTTTAAATTTTTTTTTATT
1 TTTTAAAGTTTTTTGAATT
45734221 TTTTAAAGTTTTTTGAATT
1 TTTTAAAGTTTTTTGAATT
45734240 TTT
1 TTT
45734243 AATTTTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTAAAGTTTTTTGAATT
Found at i:45735359 original size:3 final size:3
Alignment explanation
Indices: 45735351--45735400 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
45735341 TGGGTAGTTA
*
45735351 AAG AAG AAG AAG AAG AAG AGG AAG AAG AAG AAG AAG AAG AAG AAG -AG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
45735398 AAG
1 AAG
45735401 GAAAGTAGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:45745444 original size:2 final size:2
Alignment explanation
Indices: 45745437--45745467 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
45745427 ATCCAAAACC
45745437 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
45745468 CCCTTAGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:45751766 original size:254 final size:254
Alignment explanation
Indices: 45751316--45751801 Score: 900
Period size: 254 Copynumber: 1.9 Consensus size: 254
45751306 ATTGAAAATT
*
45751316 GAGATAATATTGTTGTGGGGTAGTTGGCTCGAGGTTGAGGGTGAAGTTAATTGTATACTATTATT
1 GAGATAATATTGTTGTGGGGTAGTTGGCTCGAGGTTGAGGGTGAAGTTAATCGTATACTATTATT
*
45751381 ATCAGGTCGGTGAGTAATAGGCCAGTAGAAAGCTAGAGTGTTGGTGAGTCGATTGGACTTCTCTT
66 ATCAGGTCGGTGAGTAATAGGCCAGTAGAAAGCTAGAGTGTTGGTGAGTCGACTGGACTTCTCTT
* * *
45751446 CTGTATGACATTTGGCATTGGCAGTTAGTTTCTTTTCTTTTGCGTGTCATTCAGCAGCCTTGACG
131 CTGTATGACATTTGGCATTGGCAGTTAGTTTCTTTTCTTTTGCATGTCATTCAACAGCCATGACG
45751511 CTGGCGTACATACAAATGAATCACAGTGCTTAAACTAGATCCAGAAAATGGTGTCAACA
196 CTGGCGTACATACAAATGAATCACAGTGCTTAAACTAGATCCAGAAAATGGTGTCAACA
*
45751570 GAGATAATATTTTTGTGGGGTAGTTGGCTCGAGGTTGAGGGTGAAGTTAATCGTATACTATTATT
1 GAGATAATATTGTTGTGGGGTAGTTGGCTCGAGGTTGAGGGTGAAGTTAATCGTATACTATTATT
*
45751635 ATCAGGTCGGTGAGTAATAGGCTAGTAGAAAGCTAGAGTGTTGGTGAGTCGACTGGACTTCTCTT
66 ATCAGGTCGGTGAGTAATAGGCCAGTAGAAAGCTAGAGTGTTGGTGAGTCGACTGGACTTCTCTT
*
45751700 CTGTATGGCATTTGGCATTGGCAGTTAGTTTCTTTTCTTTTGCATGTCATTCAACAGCCATGACG
131 CTGTATGACATTTGGCATTGGCAGTTAGTTTCTTTTCTTTTGCATGTCATTCAACAGCCATGACG
45751765 CTGGCGTACATACAAATGAATCACAGTGCTTAAACTA
196 CTGGCGTACATACAAATGAATCACAGTGCTTAAACTA
45751802 AAAAAAATCT
Statistics
Matches: 224, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
254 224 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (254 bp):
GAGATAATATTGTTGTGGGGTAGTTGGCTCGAGGTTGAGGGTGAAGTTAATCGTATACTATTATT
ATCAGGTCGGTGAGTAATAGGCCAGTAGAAAGCTAGAGTGTTGGTGAGTCGACTGGACTTCTCTT
CTGTATGACATTTGGCATTGGCAGTTAGTTTCTTTTCTTTTGCATGTCATTCAACAGCCATGACG
CTGGCGTACATACAAATGAATCACAGTGCTTAAACTAGATCCAGAAAATGGTGTCAACA
Found at i:45760479 original size:18 final size:18
Alignment explanation
Indices: 45760456--45760498 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
45760446 AAATAGGTTT
45760456 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
45760474 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
45760492 TTAATTA
1 TTAATTA
45760499 CACCTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:45778771 original size:29 final size:30
Alignment explanation
Indices: 45778712--45778772 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
45778702 AAATTTAATA
*
45778712 ATTTATATATAAAAATTAGTAAAAACTAATC
1 ATTTATATAGAAAAATTAGTAAAAAC-AATC
*
45778743 ATTTATATAGAATAAATTCG-AAAAA-AATC
1 ATTTATATAGAA-AAATTAGTAAAAACAATC
45778772 A
1 A
45778773 ACATTTCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.19
31 16 0.59
32 6 0.22
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (30 bp):
ATTTATATAGAAAAATTAGTAAAAACAATC
Found at i:45778778 original size:32 final size:31
Alignment explanation
Indices: 45778707--45778778 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 31
45778697 AATTTAAATT
* * * *
45778707 TAATAATTTATATATAAAAATTAGTAAAAAC
1 TAATCATTTATATAGAAAAATTAGAAAAAAA
*
45778738 TAATCATTTATATAGAATAAATTCGAAAAAAA
1 TAATCATTTATATAGAA-AAATTAGAAAAAAA
45778770 TCAA-CATTT
1 T-AATCATTT
45778779 CAAGTTATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 15 0.44
32 17 0.50
33 2 0.06
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (31 bp):
TAATCATTTATATAGAAAAATTAGAAAAAAA
Found at i:45779571 original size:23 final size:24
Alignment explanation
Indices: 45779534--45779578 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
45779524 TTTTGTTTAA
*
45779534 ATTTTTTATAGAAATACATAAATT
1 ATTTTTTATAGAAATAAATAAATT
*
45779558 ATTTTTTA-ATAAATAAATAAA
1 ATTTTTTATAGAAATAAATAAA
45779579 CAGCAACAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
ATTTTTTATAGAAATAAATAAATT
Found at i:45794932 original size:12 final size:12
Alignment explanation
Indices: 45794910--45794953 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
45794900 ATCTCTCTCA
*
45794910 AGAAGCAGAAGC
1 AGAAGCCGAAGC
* *
45794922 CGAAGCCGAAGT
1 AGAAGCCGAAGC
45794934 AGAAGCCGAAGC
1 AGAAGCCGAAGC
45794946 AGAAGCCG
1 AGAAGCCG
45794954 TGGTCGGAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.41, C:0.23, G:0.34, T:0.02
Consensus pattern (12 bp):
AGAAGCCGAAGC
Found at i:45794937 original size:18 final size:18
Alignment explanation
Indices: 45794910--45794951 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
45794900 ATCTCTCTCA
45794910 AGAAGCAGAAGCCGAAGC
1 AGAAGCAGAAGCCGAAGC
* *
45794928 CGAAGTAGAAGCCGAAGC
1 AGAAGCAGAAGCCGAAGC
45794946 AGAAGC
1 AGAAGC
45794952 CGTGGTCGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.33, T:0.02
Consensus pattern (18 bp):
AGAAGCAGAAGCCGAAGC
Found at i:45797367 original size:12 final size:12
Alignment explanation
Indices: 45797350--45797374 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45797340 GGTGTTCATT
45797350 CGGTTAACCGAC
1 CGGTTAACCGAC
45797362 CGGTTAACCGAC
1 CGGTTAACCGAC
45797374 C
1 C
45797375 CGAAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:45797705 original size:13 final size:13
Alignment explanation
Indices: 45797687--45797728 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
45797677 TTTTAGTTTT
45797687 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
45797700 ATTGGGTTGAGG--
1 ATTGGGTTG-GGTA
45797712 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
45797725 ATTG
1 ATTG
45797729 AGTTTGGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.35
13 13 0.50
14 2 0.08
ACGTcount: A:0.17, C:0.00, G:0.45, T:0.38
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:45797718 original size:25 final size:25
Alignment explanation
Indices: 45797687--45797751 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
45797677 TTTTAGTTTT
45797687 ATTGGGTTGGGTAATTG-GGTTGAGG
1 ATTGGGTTGGGTAATTGAGGTTG-GG
*
45797712 ATTGGGTTGGGTAATTGAGTTTGGG
1 ATTGGGTTGGGTAATTGAGGTTGGG
*
45797737 -TTGGGTTGGATAATT
1 ATTGGGTTGGGTAATT
45797752 TTATTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 14 0.38
25 19 0.51
26 4 0.11
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (25 bp):
ATTGGGTTGGGTAATTGAGGTTGGG
Found at i:45801236 original size:89 final size:89
Alignment explanation
Indices: 45801143--45801559 Score: 342
Period size: 89 Copynumber: 4.7 Consensus size: 89
45801133 TTTGATCTGG
* * *
45801143 TGTTGCAATAAATTTTTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATAATTTCAT
1 TGTTGCAATAAATTTTTTTT-ATTTTTCGGAATAATTATAATAATTACAATTTATTTCATTTCAT
* * *
45801208 TTTC-ATGGCACTTGGACTTGA-ATA
65 TTTCGA-GGCACTAGGGCTTGAGCTA
* * * * **
45801232 TGTTGTTGCAAT-AATTTTTCTTATTTCT-GAAATAATTATAATAATTATAATTTCCTTCATTTC
1 ---TGTTGCAATAAATTTTTTTTATTTTTCGGAATAATTATAATAATTACAATTTATTTCATTTC
**
45801295 ATTTTCG-GG-ACATTTGGCTTGAGTCTGA
63 ATTTTCGAGGCAC-TAGGGCTTGAG-CT-A
* *
45801323 TGTTGCAAT-AA--GTTTTTATTTTTCGGAATAGTTATAATAATTACAATTTATTTCATTAT-AT
1 TGTTGCAATAAATTTTTTTTATTTTTCGGAATAATTATAATAATTACAATTTATTTCATT-TCAT
45801384 TTTCGAGGCACTAGGGCTTGAGCT-
65 TTTCGAGGCACTAGGGCTTGAGCTA
* * * * * * * *
45801408 TGGTGCTACAATATATTTTTTATTTTCCGAAATAATTATAACAATTACTATTTATTTCATTTCAT
1 TGTTGCAATAA-ATTTTTTTTATTTTTCGGAATAATTATAATAATTACAATTTATTTCATTTCAT
*
45801473 TTTCGAGGCACTAGGGCTTGAG-TT
65 TTTCGAGGCACTAGGGCTTGAGCTA
* * *
45801497 TGGTGCTACA-AGAATTTTTTTTAATTTTT-GGAATAATTATAATATTTA-ATATTCATTTCATT
1 TGTTGC-A-ATA-AATTTTTTTT-ATTTTTCGGAATAATTATAATAATTACA-ATTTATTTCATT
45801559 T
61 T
45801560 TCGGGGAATA
Statistics
Matches: 266, Mismatches: 39, Indels: 42
0.77 0.11 0.12
Matches are distributed among these distances:
85 6 0.02
86 10 0.04
87 40 0.15
88 35 0.13
89 106 0.40
90 43 0.16
91 17 0.06
92 9 0.03
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.47
Consensus pattern (89 bp):
TGTTGCAATAAATTTTTTTTATTTTTCGGAATAATTATAATAATTACAATTTATTTCATTTCATT
TTCGAGGCACTAGGGCTTGAGCTA
Found at i:45801373 original size:176 final size:177
Alignment explanation
Indices: 45801158--45801538 Score: 411
Period size: 176 Copynumber: 2.1 Consensus size: 177
45801148 CAATAAATTT
*
45801158 TTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATAATT-TCATTTTC-ATGGCACTT
1 TTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATAATTAT-ATTTTCGA-GGCACTA
* * * * *
45801221 GGACTTGA-ATATGTTGTTGCAATA-ATTTTTCT-TATTTCTGAAATAATTATAATAATTA-TAA
64 GGACTTGAGAT-TGGTGCTACAATATATTTTT-TAT-TTTCCGAAATAATTATAACAATTACT-A
*
45801282 TTTCCTTCATTTCATTTTCGGGACATTTGGCTTGAGTCTGATGTTGCAATAAG
125 TTTACTTCATTTCATTTTCGGGACATTTGGCTTGAGTCTGATGTTGCAATAAG
* * * *
45801335 TTTTT-ATTTTTCGGAATAGTTATAATAATTACAATTTATTTCATTATATTTTCGAGGCACTAGG
1 TTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATAATTATATTTTCGAGGCACTAGG
* * *
45801399 GCTTGAGCTTGGTGCTACAATATATTTTTTATTTTCCGAAATAATTATAACAATTACTATTTATT
66 ACTTGAGATTGGTGCTACAATATATTTTTTATTTTCCGAAATAATTATAACAATTACTATTTACT
** * * * * * *
45801464 TCATTTCATTTTCGAGG-CACTAGGGCTTGAGTTTGGTGCTACAAGAATTT
131 TCATTTCATTTTCG-GGACA-TTTGGCTTGAGTCTGATGTTGCAATAA--G
45801514 TTTTTAATTTTT-GGAATAATTATAA
1 TTTTTAATTTTTCGGAATAATTATAA
45801539 TATTTAATAT
Statistics
Matches: 170, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
176 109 0.64
177 38 0.22
179 17 0.10
180 6 0.04
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (177 bp):
TTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATAATTATATTTTCGAGGCACTAGG
ACTTGAGATTGGTGCTACAATATATTTTTTATTTTCCGAAATAATTATAACAATTACTATTTACT
TCATTTCATTTTCGGGACATTTGGCTTGAGTCTGATGTTGCAATAAG
Found at i:45801690 original size:88 final size:88
Alignment explanation
Indices: 45801157--45801766 Score: 305
Period size: 89 Copynumber: 7.0 Consensus size: 88
45801147 GCAATAAATT
* * * * * * * **
45801157 TTTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATAATTTCATTTTCATGGCACTTG
1 TTTTTTACTTTTT-AGAATAATTATAATAACTACTATTTATTTCATTTCATTTTCGGGGCACTTG
* * * * * *
45801222 GACTTGAATAT-GTTGTTGCAATAA
65 GGCTTGATTCTAG-AGCTACAATAA
* * ** *
45801246 -TTTTT-CTTATTTCTGAAATAATTATAATAATTA-TAATTTCCTTCATTTCATTTTCGGGACA-
1 TTTTTTACTT-TTT-AG-AATAATTATAATAACTACT-ATTTATTTCATTTCATTTTCGGGGCAC
* * * *
45801307 TTTGGCTTGAGTCT-GATGTTGCAATAA
62 TTGGGCTTGATTCTAGA-GCTACAATAA
* * * * * * *
45801334 GTTTTTA-TTTTTCGGAATAGTTATAATAATTACAATTTATTTCATTAT-ATTTTCGAGGCACTA
1 TTTTTTACTTTTT-AGAATAATTATAATAACTACTATTTATTTCATT-TCATTTTCGGGGCACTT
* * *
45801397 GGGCTTGA-GCTTGGTGCTACAATATA
64 GGGCTTGATTC-TAGAGCTACAATA-A
** * * * *
45801423 TTTTTTA-TTTTCCGAAATAATTATAACAATTACTATTTATTTCATTTCATTTTCGAGGCACTAG
1 TTTTTTACTTTTTAG-AATAATTATAATAACTACTATTTATTTCATTTCATTTTCGGGGCACTTG
* * *
45801487 GGCTTGAGTT-TGGTGCTACAAGAA
65 GGCTTGA-TTCTAGAGCTACAATAA
* * * * *
45801511 TTTTTTTTAATTTTTGGAATAATTATAAT-A-T-TTA-ATA-TTCATTTCATTTTCGGGG-AATA
1 --TTTTTTACTTTTTAGAATAATTATAATAACTACTATTTATTTCATTTCATTTTCGGGGCACT-
* * * * * * *
45801570 TAGACTTGAGTCTGGTGTTGCAATAA
63 TGGGCTTGATTCTAGAGCTACAATAA
* * * *
45801596 ---ATT--TTTTTGGAATAATTTTAATAACTACTATTTATTTCATTTCATTTT-TGGGCACTTGG
1 TTTTTTACTTTTTAGAATAATTATAATAACTACTATTTATTTCATTTCATTTTCGGGGCACTTGG
45801655 GCTTGATTCT-GAAGCTACAATAA
66 GCTTGATTCTAG-AGCTACAATAA
* * ** *
45801678 TTTTTTACTTTTTAGAATAGTTATAGTAGTTACTATTTGTTTCATTTCATTTTCGGGGCACTTGG
1 TTTTTTACTTTTTAGAATAATTATAATAACTACTATTTATTTCATTTCATTTTCGGGGCACTTGG
* *
45801743 TCTTTATTCTAGAGCTACAATAA
66 GCTTGATTCTAGAGCTACAATAA
45801766 T
1 T
45801767 GATTATAATA
Statistics
Matches: 412, Mismatches: 74, Indels: 71
0.74 0.13 0.13
Matches are distributed among these distances:
78 18 0.04
79 1 0.00
80 3 0.01
81 3 0.01
82 23 0.06
83 15 0.04
84 3 0.01
85 36 0.09
86 2 0.00
87 79 0.19
88 87 0.21
89 119 0.29
90 18 0.04
91 5 0.01
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.46
Consensus pattern (88 bp):
TTTTTTACTTTTTAGAATAATTATAATAACTACTATTTATTTCATTTCATTTTCGGGGCACTTGG
GCTTGATTCTAGAGCTACAATAA
Found at i:45802906 original size:21 final size:21
Alignment explanation
Indices: 45802882--45802922 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45802872 AAAATCGATA
*
45802882 TAATTTTA-TTAATTATTAATT
1 TAATATTACTTAA-TATTAATT
45802903 TAATATTACTTAATATTAAT
1 TAATATTACTTAATATTAAT
45802923 ACGTTAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTACTTAATATTAATT
Found at i:45805398 original size:21 final size:21
Alignment explanation
Indices: 45805374--45805414 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45805364 AAAATCGATA
*
45805374 TAATTTTA-TTAATTATTAATT
1 TAATATTACTTAA-TATTAATT
45805395 TAATATTACTTAATATTAAT
1 TAATATTACTTAATATTAAT
45805415 ACGTTAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTACTTAATATTAATT
Found at i:45805614 original size:136 final size:137
Alignment explanation
Indices: 45805458--45805734 Score: 529
Period size: 136 Copynumber: 2.0 Consensus size: 137
45805448 TAGATGAATA
45805458 AAAAATATTTTTTTATGTCAATTTAATAATATAATGAACAATAAAAAGATTTACTTTGATTCAAA
1 AAAAATA-TTTTTTATGTCAATTTAATAATATAATGAACAATAAAAAGATTTACTTTGATTCAAA
*
45805523 AGTTTCTTCAATGATTAATTTTGATAATATTTTAATTATTTTATGTTTTTATATAAAAAAAACAC
65 AGTTTCTTCAATGATTAATTTTGATAATATATTAATTATTTTATGTTTTTATATAAAAAAAACAC
45805588 GTACAGAT
130 GTACAGAT
45805596 AAAAATA-TTTTTATGTCAATTTAATAATATAATGAACAATAAAAAGATTTACTTTGATTCAAAA
1 AAAAATATTTTTTATGTCAATTTAATAATATAATGAACAATAAAAAGATTTACTTTGATTCAAAA
45805660 GTTTCTTCAATGATTAATTTTGATAATATATTAATTATTTTATGTTTTTATATAAAAAAAACACG
66 GTTTCTTCAATGATTAATTTTGATAATATATTAATTATTTTATGTTTTTATATAAAAAAAACACG
45805725 TACAGAT
131 TACAGAT
45805732 AAA
1 AAA
45805735 GAAATTTAAA
Statistics
Matches: 138, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
136 131 0.95
138 7 0.05
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.42
Consensus pattern (137 bp):
AAAAATATTTTTTATGTCAATTTAATAATATAATGAACAATAAAAAGATTTACTTTGATTCAAAA
GTTTCTTCAATGATTAATTTTGATAATATATTAATTATTTTATGTTTTTATATAAAAAAAACACG
TACAGAT
Found at i:45809204 original size:75 final size:75
Alignment explanation
Indices: 45809081--45809233 Score: 270
Period size: 75 Copynumber: 2.0 Consensus size: 75
45809071 TCACCAGAAT
* *
45809081 AAGAGGGAACACTATGAGAACTAGTATTTGTTGGACTAATATCTACTCCATTCTGAGGAATCGAA
1 AAGAGGGAACACTATGAGAACTAGTATTTGTTAGACTAATATCTACTCCATTCTAAGGAATCGAA
45809146 GACCCATTCA
66 GACCCATTCA
* *
45809156 AAGAGGGAATACTATGAGAATTAGTATTTGTTAGACTAATATCTACTCCATTCTAAGGAATCGAA
1 AAGAGGGAACACTATGAGAACTAGTATTTGTTAGACTAATATCTACTCCATTCTAAGGAATCGAA
45809221 GACCCATTCA
66 GACCCATTCA
45809231 AAG
1 AAG
45809234 TACTCGGGCA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (75 bp):
AAGAGGGAACACTATGAGAACTAGTATTTGTTAGACTAATATCTACTCCATTCTAAGGAATCGAA
GACCCATTCA
Found at i:45818079 original size:24 final size:24
Alignment explanation
Indices: 45818029--45818080 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
45818019 AATTAAAGTC
* **
45818029 AAATATATTATGTTAATAAATGTT
1 AAATATATTATCTTAATAAATACT
45818053 AAATATATTATACTT-ATAAATACT
1 AAATATATTAT-CTTAATAAATACT
45818077 AAAT
1 AAAT
45818081 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATATATTATCTTAATAAATACT
Found at i:45832672 original size:18 final size:17
Alignment explanation
Indices: 45832639--45832677 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
45832629 TTTTATAAAT
45832639 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
45832657 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
45832674 TGTG
1 TGTG
45832678 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:45832934 original size:23 final size:23
Alignment explanation
Indices: 45832903--45832975 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
45832893 AATGTTATTG
*
45832903 ATCAATGGTAGCTACGGCTACAT
1 ATCAATGGTAGCTTCGGCTACAT
*
45832926 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAATGGTAGCTTCGGCTACAT
*
45832949 TTCAATGGTAGCTTCGGCTACAT
1 ATCAATGGTAGCTTCGGCTACAT
45832972 ATCA
1 ATCA
45832976 GTGTGGCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
ATCAATGGTAGCTTCGGCTACAT
Found at i:45833466 original size:16 final size:16
Alignment explanation
Indices: 45833445--45833486 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
45833435 CGTTTGGTTC
45833445 GCTGTAATAGAATAGA
1 GCTGTAATAGAATAGA
*
45833461 GCTGTAATGGAATAGA
1 GCTGTAATAGAATAGA
*
45833477 ACTGTAATAG
1 GCTGTAATAG
45833487 TAATTCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.26, T:0.26
Consensus pattern (16 bp):
GCTGTAATAGAATAGA
Found at i:45833530 original size:45 final size:43
Alignment explanation
Indices: 45833466--45833558 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 43
45833456 ATAGAGCTGT
45833466 AATGGAATAGAACTGTAATAGTAATTCAATTG-TTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC--TTGATTTGGTTGAATGG
45833511 AATGGAATAGAACTGTAATAGTATTCTTGTATTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCTTG-ATTTGGTTGAATGG
45833555 AATG
1 AATG
45833559 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
42 3 0.07
44 21 0.46
45 22 0.48
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (43 bp):
AATGGAATAGAACTGTAATAGTATTCTTGATTTGGTTGAATGG
Found at i:45835282 original size:38 final size:38
Alignment explanation
Indices: 45835219--45835295 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
45835209 GGTTGAGGAA
* *
45835219 AGGGAAAAAAAAGCAATTACTTTACCAAAATGGATCCC
1 AGGGAAAAAAAAGCAACTACGTTACCAAAATGGATCCC
45835257 AGGG-AAAAAAAGACAACTACGTTACCAAAATGGATCCC
1 AGGGAAAAAAAAG-CAACTACGTTACCAAAATGGATCCC
45835295 A
1 A
45835296 ATACAAGAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 8 0.22
38 28 0.78
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.16
Consensus pattern (38 bp):
AGGGAAAAAAAAGCAACTACGTTACCAAAATGGATCCC
Found at i:45838064 original size:49 final size:49
Alignment explanation
Indices: 45838009--45838148 Score: 226
Period size: 49 Copynumber: 2.9 Consensus size: 49
45837999 CAATAAGTGA
* * *
45838009 TATGTGATTCCGTGTAAGACCAGAGTTGGGCTATGGCATCGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
* *
45838058 TATGTGATTACGTGTAAGACTATAGCTGGGCTATGGCATCGATATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
*
45838107 TATGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
45838149 GAAAATATGT
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 83 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
Found at i:45856909 original size:41 final size:41
Alignment explanation
Indices: 45856847--45856966 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
45856837 TCAGATTTAT
* * * *
45856847 TGCCAGTGAAATAATTCAGACTTTAGGTCTAGCAGGCTTGA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
*
45856888 TGCCGGTGAAATTATTCAGACTATACGTCTAGCAGGCTTAA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
* *** * *
45856929 TGCCGGTGATACGTTTCGGACTATAAGTCTAGCAGGCT
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCT
45856967 AAAAGTCGGT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (41 bp):
TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
Found at i:45860782 original size:25 final size:26
Alignment explanation
Indices: 45860740--45860790 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
45860730 CTTTTTTATT
*
45860740 TAAAAAGGTAAATTAAAA-TTTGAAAA
1 TAAAAAGGTAAATAAAAAGTTT-AAAA
*
45860766 TAAAAAGG-CAATAAAAAGTTTAAAA
1 TAAAAAGGTAAATAAAAAGTTTAAAA
45860791 GAGAGAGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.24
Consensus pattern (26 bp):
TAAAAAGGTAAATAAAAAGTTTAAAA
Found at i:45863232 original size:18 final size:18
Alignment explanation
Indices: 45863211--45863248 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
45863201 CCTTTTATAC
45863211 CTCTTTTTTCTTT-TTTTT
1 CTCTTTTTT-TTTCTTTTT
45863229 CTCTTTTTTTTTCTTTTT
1 CTCTTTTTTTTTCTTTTT
45863247 CT
1 CT
45863249 TTTCTACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
CTCTTTTTTTTTCTTTTT
Found at i:45863235 original size:10 final size:10
Alignment explanation
Indices: 45863214--45863246 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
45863204 TTTATACCTC
45863214 TTTTTTCT-T
1 TTTTTTCTCT
45863223 TTTTTTCTCT
1 TTTTTTCTCT
*
45863233 TTTTTTTTCT
1 TTTTTTCTCT
45863243 TTTT
1 TTTT
45863247 CTTTTCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:45863236 original size:12 final size:11
Alignment explanation
Indices: 45863214--45863253 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
45863204 TTTATACCTC
45863214 TTTTTTCTTTT
1 TTTTTTCTTTT
*
45863225 TTTTCTC-TTT
1 TTTTTTCTTTT
45863235 TTTTTTCTTTT
1 TTTTTTCTTTT
*
45863246 TCTTTTCT
1 TTTTTTCT
45863254 ACATTTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:45863265 original size:27 final size:23
Alignment explanation
Indices: 45863214--45863277 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 23
45863204 TTTATACCTC
45863214 TTTTTTC-TTTT-TTTTCTCTTT
1 TTTTTTCTTTTTCTTTTCTCTTT
45863235 TTTTTTCTTTTTCTTTTCTACATTT
1 TTTTTTCTTTTTCTTTTCT-C-TTT
*
45863260 CATTTTTCTTCTTTCTTT
1 -TTTTTTCTT-TTTCTTT
45863278 CCCCCGTCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 7 0.19
22 4 0.11
23 6 0.17
24 1 0.03
25 3 0.08
26 8 0.22
27 7 0.19
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTCTTTTTCTTTTCTCTTT
Done.