Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 69 of 210
Found at i:24431464 original size:21 final size:21
Alignment explanation
Indices: 24431438--24431511 Score: 130
Period size: 21 Copynumber: 3.5 Consensus size: 21
24431428 TCGCATACGT
*
24431438 CCGTGTGAAAATTTCACACGC
1 CCGTGTGAAAATCTCACACGC
24431459 CCGTGTGAAAATCTCACACGC
1 CCGTGTGAAAATCTCACACGC
*
24431480 CCGTGTGGAAATCTCACACGC
1 CCGTGTGAAAATCTCACACGC
24431501 CCGTGTGAAAA
1 CCGTGTGAAAA
24431512 CACTGCACCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (21 bp):
CCGTGTGAAAATCTCACACGC
Found at i:24431810 original size:15 final size:15
Alignment explanation
Indices: 24431790--24431818 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24431780 ATGCCTCACA
24431790 CATCGTGTTATCAAT
1 CATCGTGTTATCAAT
24431805 CATCGTGTTATCAA
1 CATCGTGTTATCAA
24431819 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (15 bp):
CATCGTGTTATCAAT
Found at i:24437114 original size:21 final size:21
Alignment explanation
Indices: 24437075--24437116 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24437065 TTTGCCTAAG
*
24437075 ATATGAATTAAATTGAATTGA
1 ATATGAATTAAATTAAATTGA
**
24437096 ATATGAATTGTATTAAATTGA
1 ATATGAATTAAATTAAATTGA
24437117 GTTAAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGAATTAAATTAAATTGA
Found at i:24437512 original size:23 final size:23
Alignment explanation
Indices: 24437444--24437512 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 23
24437434 AAAGAGCGTC
*
24437444 CCGTTATTAGCTC-TCATGAGCTT
1 CCGTTAATAGCTCTTCA-GAGCTT
* *
24437467 CCTGTTATATGGTTCTTGC-GAGCTT
1 CC-GTTA-ATAGCTCTT-CAGAGCTT
24437492 CCGTTAATAGCTCTTCAGAGC
1 CCGTTAATAGCTCTTCAGAGC
24437513 ACCCCGATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
22 1 0.03
23 13 0.36
24 8 0.22
25 12 0.33
26 1 0.03
27 1 0.03
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (23 bp):
CCGTTAATAGCTCTTCAGAGCTT
Found at i:24437709 original size:24 final size:24
Alignment explanation
Indices: 24437682--24437774 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 24
24437672 TTCACGATAT
24437682 TAGCTCATATGAGCTTCTC-GTTAA
1 TAGCTCATATGAGCTTC-CAGTTAA
* *
24437706 TAGCTC-TCTGGAGCTTCCTGTTACA
1 TAGCTCATAT-GAGCTTCCAGTTA-A
* * *
24437731 TGGCTCACATGAGCTTCCAGTTTA
1 TAGCTCATATGAGCTTCCAGTTAA
*
24437755 TGTGCTCATATGAGCATTCC
1 T-AGCTCATATGAGC-TTCC
24437775 TGAATATGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
23 3 0.05
24 19 0.35
25 28 0.51
26 5 0.09
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
TAGCTCATATGAGCTTCCAGTTAA
Found at i:24445356 original size:27 final size:25
Alignment explanation
Indices: 24445317--24445367 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
24445307 CCTGATATAT
*
24445317 GGCTTTTCAGAGCTTCCCGATTAAA
1 GGCTTTTCAGAGCTTCCCAATTAAA
*
24445342 GGCTCTTTCATGAGCTTTCCAATTAA
1 GGCT-TTTCA-GAGCTTCCCAATTAA
24445368 TTGGGTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 5 0.23
27 13 0.59
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (25 bp):
GGCTTTTCAGAGCTTCCCAATTAAA
Found at i:24445437 original size:24 final size:24
Alignment explanation
Indices: 24445407--24445461 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
24445397 TCACTTGAAC
*
24445407 CTTCCTGATATTAGCTCGTAT-GAG
1 CTTCCTGATAATAGCTC-TATGGAG
* *
24445431 CTTCCTGTTAATAGCTCTCTGGAG
1 CTTCCTGATAATAGCTCTATGGAG
24445455 CTTCCTG
1 CTTCCTG
24445462 TTACATGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.38
Consensus pattern (24 bp):
CTTCCTGATAATAGCTCTATGGAG
Found at i:24445480 original size:25 final size:24
Alignment explanation
Indices: 24445426--24445510 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 24
24445416 ATTAGCTCGT
* *
24445426 ATGAGCTTCCTGTTAATAGCTCTC
1 ATGAGCTTCCTGTTAATGGCTCAC
24445450 -TGGAGCTTCCTGTTACATGGCTCAC
1 AT-GAGCTTCCTGTTA-ATGGCTCAC
* * *
24445475 ATGAGCTTCCCGTTTATGTGCTCAT
1 ATGAGCTTCCTGTTAATG-GCTCAC
24445500 ATGAGCATTCC
1 ATGAGC-TTCC
24445511 CAAATATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.02
24 16 0.31
25 29 0.57
26 5 0.10
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (24 bp):
ATGAGCTTCCTGTTAATGGCTCAC
Found at i:24451131 original size:20 final size:20
Alignment explanation
Indices: 24451090--24451136 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
24451080 GTGTAGTCAA
24451090 AGGCACCAAAGTGCAAACAG
1 AGGCACCAAAGTGCAAACAG
* * * *
24451110 AGTCACCAAAGTGTATATAG
1 AGGCACCAAAGTGCAAACAG
24451130 AGGCACC
1 AGGCACC
24451137 GAACTTCAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.13
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAACAG
Found at i:24452521 original size:19 final size:19
Alignment explanation
Indices: 24452483--24452522 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24452473 AAAATATCAT
* * *
24452483 ATTAATTTTAATTTATTTG
1 ATTAATTTAAATGTACTTG
24452502 ATTAATTTAAATGTACTTG
1 ATTAATTTAAATGTACTTG
24452521 AT
1 AT
24452523 AAAATTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATGTACTTG
Found at i:24456258 original size:86 final size:87
Alignment explanation
Indices: 24456159--24456337 Score: 288
Period size: 86 Copynumber: 2.1 Consensus size: 87
24456149 AGTGTTCCAA
24456159 CTTTCAAATTGCCATTAAGATGATATCATTCAACATTAAAAAATTTCACACACTTTTATGA-TTT
1 CTTTCAAATTGCCATTAAGATGATATCATTCAACATTAAAAAATTTCACACACTTTTATGATTTT
* *
24456223 TCCAATGTGCATGTATAGTAAC
66 TCCAATGTCCATGTATAGCAAC
* *
24456245 CTTTCAAATTGCCATTAAGATGATATCATTCAACATTAAACAATTTCACATACTTTTATGATTTT
1 CTTTCAAATTGCCATTAAGATGATATCATTCAACATTAAAAAATTTCACACACTTTTATGA-TTT
* *
24456310 TTGCATTGTCCATGTATAGCAAC
65 TTCCAATGTCCATGTATAGCAAC
24456333 CTTTC
1 CTTTC
24456338 CAATATAACA
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
86 59 0.69
88 26 0.31
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (87 bp):
CTTTCAAATTGCCATTAAGATGATATCATTCAACATTAAAAAATTTCACACACTTTTATGATTTT
TCCAATGTCCATGTATAGCAAC
Found at i:24473024 original size:14 final size:14
Alignment explanation
Indices: 24472995--24473031 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
24472985 AAAATATAAT
24472995 TTTAATTTTAATTAA
1 TTTAA-TTTAATTAA
*
24473010 TTTAATTTGATTAA
1 TTTAATTTAATTAA
24473024 TTTAATTT
1 TTTAATTT
24473032 TACTTGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTAATTTAATTAA
Found at i:24473030 original size:19 final size:18
Alignment explanation
Indices: 24473002--24473042 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
24472992 AATTTTAATT
*
24473002 TTAATTAATTTAATTTGA
1 TTAATTAATTTAACTTGA
*
24473020 TTAATTTAATTTTACTTGA
1 TTAA-TTAATTTAACTTGA
24473039 TTAA
1 TTAA
24473043 AATTAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (18 bp):
TTAATTAATTTAACTTGA
Found at i:24475543 original size:50 final size:50
Alignment explanation
Indices: 24475426--24475553 Score: 148
Period size: 50 Copynumber: 2.6 Consensus size: 50
24475416 AAGTTCATGA
* * * *
24475426 TTTAATTATGTCATGCATTATGTAACTCTCATAATAGTTATGTTTGCATC
1 TTTAATTATGTCATGCATTATGTAACTCCCATAATAGGTAAGTGTGCATC
* ** * *
24475476 TTAAATTATGAAATGCATTATGTAACTCCCATGATAGGTAAGTGTGCATT
1 TTTAATTATGTCATGCATTATGTAACTCCCATAATAGGTAAGTGTGCATC
* * *
24475526 TTTAATTAAGTCTTGCATTAAGTAACTC
1 TTTAATTATGTCATGCATTATGTAACTC
24475554 ATTTGTTCAT
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (50 bp):
TTTAATTATGTCATGCATTATGTAACTCCCATAATAGGTAAGTGTGCATC
Found at i:24476617 original size:23 final size:22
Alignment explanation
Indices: 24476567--24476616 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
24476557 GAAGATAATG
*
24476567 AAAAAAGGAGATTAGAATTATA
1 AAAAAAGGACATTAGAATTATA
*
24476589 AAAAAAGGAACATTCGAATT-TA
1 AAAAAAGG-ACATTAGAATTATA
24476611 AAAAAA
1 AAAAAA
24476617 AATGATTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.62, C:0.04, G:0.14, T:0.20
Consensus pattern (22 bp):
AAAAAAGGACATTAGAATTATA
Found at i:24477596 original size:21 final size:22
Alignment explanation
Indices: 24477557--24477623 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 22
24477547 ATATTTTTTT
24477557 ATAAAAGAAAATGAAAGAA-AA
1 ATAAAAGAAAATGAAAGAAGAA
* * *
24477578 ATAAAAGAGATTGAGAGAAGAA
1 ATAAAAGAAAATGAAAGAAGAA
*
24477600 A-AAAA-AAAA-GAAA-AGGAA
1 ATAAAAGAAAATGAAAGAAGAA
24477618 ATAAAA
1 ATAAAA
24477624 AGAGAGTGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 5 0.14
19 7 0.19
20 2 0.05
21 20 0.54
22 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (22 bp):
ATAAAAGAAAATGAAAGAAGAA
Found at i:24477656 original size:15 final size:17
Alignment explanation
Indices: 24477620--24477660 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
24477610 AAAAGGAAAT
24477620 AAAAAGAGAGTGTGTGA
1 AAAAAGAGAGTGTGTGA
*
24477637 GAAAAGA-AGT-TGTGA
1 AAAAAGAGAGTGTGTGA
24477652 AAAAAGAGA
1 AAAAAGAGA
24477661 ATGAAAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 11 0.52
16 4 0.19
17 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.32, T:0.15
Consensus pattern (17 bp):
AAAAAGAGAGTGTGTGA
Found at i:24483086 original size:16 final size:16
Alignment explanation
Indices: 24483065--24483098 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24483055 GTGCAATAAC
24483065 ATATTTGCCTATTAAG
1 ATATTTGCCTATTAAG
24483081 ATATTTGCCTATTAAG
1 ATATTTGCCTATTAAG
24483097 AT
1 AT
24483099 TTGTTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
ATATTTGCCTATTAAG
Found at i:24486456 original size:90 final size:91
Alignment explanation
Indices: 24486326--24486491 Score: 282
Period size: 90 Copynumber: 1.8 Consensus size: 91
24486316 ATTAAAAATC
*
24486326 GGGCTGGGCTCGGGCTTACTCTTTTTTTCTCGGGCCGGGCCTGGGCAAAATTTCAGGCCCATATT
1 GGGCTGGGCTCGGGCTTACTCTTTTTTTCCCGGGCCGGGCCTGGGCAAAATTTCAGGCCCAT-TT
24486391 TCGGCCCGGGCCAAAAAAATTTTCCGG
65 TCGGCCCGGGCCAAAAAAATTTTCCGG
*
24486418 GGGC-GGGCTCGGG-TTACTCTTTTTTTCCCGGTCCGGGCCTGGGCAAAATTTCAGGCCCATTTT
1 GGGCTGGGCTCGGGCTTACTCTTTTTTTCCCGGGCCGGGCCTGGGCAAAATTTCAGGCCCATTTT
*
24486481 CGGGCCGGGCC
66 CGGCCCGGGCC
24486492 GGGCCCGGGC
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
89 13 0.18
90 45 0.63
91 9 0.13
92 4 0.06
ACGTcount: A:0.13, C:0.28, G:0.31, T:0.27
Consensus pattern (91 bp):
GGGCTGGGCTCGGGCTTACTCTTTTTTTCCCGGGCCGGGCCTGGGCAAAATTTCAGGCCCATTTT
CGGCCCGGGCCAAAAAAATTTTCCGG
Found at i:24490262 original size:20 final size:22
Alignment explanation
Indices: 24490229--24490269 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24490219 AGACTAATTT
24490229 TTATCCTAAATTTT-AATTTAA
1 TTATCCTAAATTTTCAATTTAA
*
24490250 TTAT-CTAATTTTTCAATTTA
1 TTATCCTAAATTTTCAATTTA
24490270 TTGAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATCCTAAATTTTCAATTTAA
Found at i:24490301 original size:25 final size:25
Alignment explanation
Indices: 24490241--24490301 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
24490231 ATCCTAAATT
*
24490241 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
24490266 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
24490291 TTAATTAAATT
1 TTAATTAAATT
24490302 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:24497949 original size:27 final size:27
Alignment explanation
Indices: 24497919--24497978 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
24497909 AGCTAAAGTT
*
24497919 CACCAAAAGGCTTGGCGAGCTAGTATA
1 CACCAAAAGGCTTGGCGAGATAGTATA
** * *
24497946 CACCAGGAGGTTTGGCGAGATGGTATA
1 CACCAAAAGGCTTGGCGAGATAGTATA
*
24497973 CGCCAA
1 CACCAA
24497979 CAAGATCTGA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (27 bp):
CACCAAAAGGCTTGGCGAGATAGTATA
Found at i:24503793 original size:127 final size:128
Alignment explanation
Indices: 24503641--24503895 Score: 469
Period size: 127 Copynumber: 2.0 Consensus size: 128
24503631 TGTGGCACTG
24503641 TTATTGAATAGAAAAAAATATTTTTCGCAAAAAGATTAGTCGAAAAAGTCAAAAATCAAAAAAAG
1 TTATTGAATA-AAAAAAATATTTTTCGCAAAAAGATTAGTCGAAAAAGTCAAAAATCAAAAAAAG
*
24503706 ATGAAATCCAATAAAAATTTAGAAAAATAT-TCAGCGGGTTGAATTTGGTGCTCAAACTTTCCAT
65 ATGAAATCCAATAAAAATTTAGAAAAAAATAT-AGCGGGTTGAATTTGGTGCTCAAACTTTCCAT
24503770 TTATTGAAT-AAAAAAATATTTTTCGCAAAAAGATTAGTCGAAAAAGTCAAAAATCAAAAAAAGA
1 TTATTGAATAAAAAAAATATTTTTCGCAAAAAGATTAGTCGAAAAAGTCAAAAATCAAAAAAAGA
24503834 TGAAATCCAATAAAAATTTAGAAAAAAATATAGCGGGTTGAATTTGGTGCTCAAACTTTCCA
66 TGAAATCCAATAAAAATTTAGAAAAAAATATAGCGGGTTGAATTTGGTGCTCAAACTTTCCA
24503896 NNNNNNNNNN
Statistics
Matches: 124, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
127 114 0.92
128 1 0.01
129 9 0.07
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (128 bp):
TTATTGAATAAAAAAAATATTTTTCGCAAAAAGATTAGTCGAAAAAGTCAAAAATCAAAAAAAGA
TGAAATCCAATAAAAATTTAGAAAAAAATATAGCGGGTTGAATTTGGTGCTCAAACTTTCCAT
Found at i:24510556 original size:21 final size:21
Alignment explanation
Indices: 24510530--24510577 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
24510520 CCTAGAAATT
24510530 ATGAAAGAGTAAAAATTTGCA
1 ATGAAAGAGTAAAAATTTGCA
24510551 ATGAAAGAGTAAAAATTTGCA
1 ATGAAAGAGTAAAAATTTGCA
24510572 ATGAAA
1 ATGAAA
24510578 CAGTTTTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.54, C:0.04, G:0.19, T:0.23
Consensus pattern (21 bp):
ATGAAAGAGTAAAAATTTGCA
Found at i:24513010 original size:14 final size:14
Alignment explanation
Indices: 24512974--24513007 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
24512964 TCATCATTTG
24512974 CCTATAACCAAAAC
1 CCTATAACCAAAAC
24512988 CCTATAACCAAAAC
1 CCTATAACCAAAAC
24513002 CC-ATAA
1 CCTATAA
24513008 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:24524153 original size:27 final size:27
Alignment explanation
Indices: 24524108--24524165 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
24524098 CTAACGGACT
* *
24524108 ATTCCTTCAGCGTTCGTCATATTTACC
1 ATTCCTTCAGAGTTCGTCACATTTACC
*
24524135 ATTCCTTCAGAGTTTGTCACATTTACC
1 ATTCCTTCAGAGTTCGTCACATTTACC
24524162 ATTC
1 ATTC
24524166 TTCCCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.28, G:0.10, T:0.41
Consensus pattern (27 bp):
ATTCCTTCAGAGTTCGTCACATTTACC
Found at i:24524325 original size:26 final size:28
Alignment explanation
Indices: 24524248--24524336 Score: 98
Period size: 27 Copynumber: 3.3 Consensus size: 28
24524238 CATAATGGCA
*
24524248 TTCC-TTTCTATAGA-TCGCCACAAAGGC
1 TTCCATTTC-ATAGATTTGCCACAAAGGC
*
24524275 TTCCATTTCATAGGTTT-CCACAAA-GC
1 TTCCATTTCATAGATTTGCCACAAAGGC
* *
24524301 TT-CATTTCATATATTTGCCATAAAGGC
1 TTCCATTTCATAGATTTGCCACAAAGGC
24524328 TTCCATTTC
1 TTCCATTTC
24524337 TTCAGTGTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
25 12 0.23
26 10 0.19
27 19 0.37
28 11 0.21
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (28 bp):
TTCCATTTCATAGATTTGCCACAAAGGC
Found at i:24529517 original size:102 final size:102
Alignment explanation
Indices: 24529336--24529536 Score: 312
Period size: 102 Copynumber: 2.0 Consensus size: 102
24529326 GAATATAAAG
* * * * *
24529336 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTACTGGTTCTACCGTATCTT
1 GGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCGTATCTT
*
24529401 AAATATGAAGGGGGTTGCTAAGTGCTAATTCCCCCGA
66 AAATATGAAAGGGGTTGCTAAGTGCTAATTCCCCCGA
**
24529438 GGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTGTTGATCCCACCGTATCTT
1 GGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCGTATCTT
* *
24529503 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 AAATATGAAAGGGGTTGCTAAGTGCTAATTCCCC
24529537 GATTCATTGG
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (102 bp):
GGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCGTATCTT
AAATATGAAAGGGGTTGCTAAGTGCTAATTCCCCCGA
Found at i:24536383 original size:34 final size:34
Alignment explanation
Indices: 24536340--24536459 Score: 125
Period size: 42 Copynumber: 3.3 Consensus size: 34
24536330 ATATAAAGGG
*
24536340 GGTTGCTAAGTGCTGATTCCCCGATTTCGTTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTTCATTGGT
* * *
24536374 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-AT-TT-CAT-TG---GT
24536416 GGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTTCATTGGT
24536449 GGTTGCTAAGT
1 GGTTGCTAAGT
24536460 NNNNNNNNNN
Statistics
Matches: 71, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
33 12 0.17
34 19 0.27
35 3 0.04
36 4 0.06
37 4 0.06
38 3 0.04
39 2 0.03
40 1 0.01
41 3 0.04
42 20 0.28
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.36
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCCCGATTTCATTGGT
Found at i:24537429 original size:33 final size:33
Alignment explanation
Indices: 24537392--24537701 Score: 141
Period size: 33 Copynumber: 8.8 Consensus size: 33
24537382 TCCCCCAAGA
*
24537392 GGTTGGTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
24537425 GGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
24537467 GGTTGCTAAGTGCTGATTCCCCAACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
24537500 GGTTGCTAAGTGCTGA-TCCCACTTATCTTAAATGTGAAGGT
1 GGTTGCTAAGTGCTGATTCCC-C-GA--TT-CAT-T---GGT
24537541 GGTTGCTAAGTGCTGA-TCCCC-A--CGA--GG-
1 GGTTGCTAAGTGCTGATTCCCCGATTC-ATTGGT
* * *
24537568 GGTTACTAAGTGCTGATTCCTCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
24537601 GGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
** *
24537643 GGTTGCTAAACGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
24537676 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
24537702 AACGGATTAC
Statistics
Matches: 210, Mismatches: 31, Indels: 71
0.67 0.10 0.23
Matches are distributed among these distances:
27 15 0.07
28 6 0.03
29 1 0.00
30 1 0.00
31 1 0.00
32 6 0.03
33 74 0.35
34 9 0.04
35 2 0.01
36 5 0.02
37 9 0.04
38 8 0.04
39 4 0.02
40 3 0.01
41 26 0.12
42 40 0.19
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:24537515 original size:75 final size:74
Alignment explanation
Indices: 24537392--24537562 Score: 274
Period size: 75 Copynumber: 2.3 Consensus size: 74
24537382 TCCCCCAAGA
* * * *
24537392 GGTTGGTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATCTTAA
1 GGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATCCCACT-TATCTTAA
24537457 ATGTGAAAGG-
65 ATGTG-AAGGT
24537467 GGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATCCCACTTATCTTAAA
1 GGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATCCCACTTATCTTAAA
24537532 TGTGAAGGT
66 TGTGAAGGT
24537541 GGTTGCTAAGTGCTGA-TCCCCA
1 GGTTGCTAAGTGCTGATTCCCCA
24537563 CGAGGGGTTA
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
73 10 0.11
74 29 0.32
75 52 0.57
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (74 bp):
GGTTGCTAAGTGCTGATTCCCCAACTCATTGGTGGTTGCTAAGTGCTGATCCCACTTATCTTAAA
TGTGAAGGT
Found at i:24537578 original size:101 final size:102
Alignment explanation
Indices: 24537464--24537651 Score: 310
Period size: 101 Copynumber: 1.9 Consensus size: 102
24537454 TAAATGTGAA
*
24537464 AGGGGTTGCTAAGTGCTGATTCC-CCAACTCATTGGTGGTTGCTAAGTGCTGATCCCACT-TATC
1 AGGGGTTACTAAGTGCTGATTCCTCCAA-TCATTGGTGGTTGCTAAGTGCTGATCCCACTGTATC
24537527 TTAAATGTG-AAGGTGGTTGCTAAGTGCTGATCCCCACG
65 TTAAATGTGAAAGG-GGTTGCTAAGTGCTGATCCCCACG
* *
24537565 AGGGGTTACTAAGTGCTGATTCCTCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATCT
1 AGGGGTTACTAAGTGCTGATTCCTCCAATCATTGGTGGTTGCTAAGTGCTGATCCCACTGTATCT
24537630 TAAATGTGAAAGGGGTTGCTAA
66 TAAATGTGAAAGGGGTTGCTAA
24537652 ACGCTGATTC
Statistics
Matches: 81, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
101 52 0.64
102 25 0.31
103 4 0.05
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (102 bp):
AGGGGTTACTAAGTGCTGATTCCTCCAATCATTGGTGGTTGCTAAGTGCTGATCCCACTGTATCT
TAAATGTGAAAGGGGTTGCTAAGTGCTGATCCCCACG
Found at i:24537660 original size:176 final size:176
Alignment explanation
Indices: 24537360--24537691 Score: 558
Period size: 176 Copynumber: 1.9 Consensus size: 176
24537350 ATTGAATATA
** *
24537360 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGAGGTTGGTAAGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGAGGTTACTAAGTGCTGATTCCCCGAATCATTGGT
**
24537425 GGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCA
66 GGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGGGGTTGCTAAACGCTGATTCCCCA
24537490 ACTCATTGGTGGTTGCTAAGTGCTGATCCCACTTATCTTAAATGTG
131 ACTCATTGGTGGTTGCTAAGTGCTGATCCCACTTATCTTAAATGTG
* * * *
24537536 AAGGTGGTTGCTAAGTGCTGA-TCCCCACGAGGGGTTACTAAGTGCTGATTCCTCGAATCATTGG
1 AAGGGGGTTGCTAAGTGCTGATTCCCC-CAAGAGGTTACTAAGTGCTGATTCCCCGAATCATTGG
24537600 TGGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGGGGTTGCTAAACGCTGATTCCCC
65 TGGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGGGGTTGCTAAACGCTGATTCCCC
*
24537665 GACTCATTGGTGGTTGCTAAGTGCTGA
130 AACTCATTGGTGGTTGCTAAGTGCTGA
24537692 ATCCACCGAT
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
175 5 0.03
176 140 0.97
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (176 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGAGGTTACTAAGTGCTGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGGGGTTGCTAAACGCTGATTCCCCA
ACTCATTGGTGGTTGCTAAGTGCTGATCCCACTTATCTTAAATGTG
Found at i:24539370 original size:51 final size:49
Alignment explanation
Indices: 24539242--24539426 Score: 201
Period size: 51 Copynumber: 3.7 Consensus size: 49
24539232 GAAGTTGCTA
* * *
24539242 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACTGGAAT-GAT
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC-CGAATAGAT
* * * *
24539291 AGGTCGCATGTGTAGTACCATGTGCAGGCTACTATGTGTACCGAATAGCTT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-AT
* * * * *
24539342 CGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT--AGAT
24539394 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTA
24539427 TGTGAATCGG
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
49 4 0.04
50 36 0.32
51 70 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGAT
Found at i:24539430 original size:26 final size:26
Alignment explanation
Indices: 24539350--24539430 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
24539340 TTCGATCACG
24539350 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ***
24539376 CGTGTA-T-CGGATGAAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTGCA-GGCT-ACTA
24539401 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
24539427 TGTG
1 TGTG
24539431 AATCGGGTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:24543929 original size:40 final size:40
Alignment explanation
Indices: 24543885--24543980 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
24543875 TTTGACGCCT
* *
24543885 AGCGCTAGTCGAATAAACCGACAATATTAAAGGAGTGTCC
1 AGCGCTAGTCGGATAAACCGACAATATTAAAGGAGTGCCC
* *
24543925 AGCGCTAGTCGGATAAACCGACGATATTAAAGGTGTGCCC
1 AGCGCTAGTCGGATAAACCGACAATATTAAAGGAGTGCCC
*
24543965 AGCACTAGTCGGATAA
1 AGCGCTAGTCGGATAA
24543981 CTAAAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (40 bp):
AGCGCTAGTCGGATAAACCGACAATATTAAAGGAGTGCCC
Found at i:24544008 original size:35 final size:35
Alignment explanation
Indices: 24543958--24544165 Score: 136
Period size: 35 Copynumber: 5.7 Consensus size: 35
24543948 ATATTAAAGG
24543958 TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
1 TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
* * * ** *
24543993 TGTGCCTAGCGCTAGTTGGATAAACTGGCTTTATTAAAG--G
1 TGTGCCCAGCACTAGTCGGAT-AA----C--TAAAAAAGATT
24544033 TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
1 TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
* * * ** *
24544068 TGTGCCTAGCGCTAGTTGGATAAACTGGCTTTATTAAAG--G
1 TGTGCCCAGCACTAGTCGGAT-AA----C--TAAAAAAGATT
24544108 TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
1 TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
* *
24544143 TGTGCCCAGCGCTAGTTGGATAA
1 TGTGCCCAGCACTAGTCGGATAA
24544166 ACTGGCTATA
Statistics
Matches: 129, Mismatches: 26, Indels: 36
0.68 0.14 0.19
Matches are distributed among these distances:
33 12 0.09
35 59 0.46
36 4 0.03
39 4 0.03
40 38 0.29
42 12 0.09
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (35 bp):
TGTGCCCAGCACTAGTCGGATAACTAAAAAAGATT
Found at i:24544048 original size:40 final size:39
Alignment explanation
Indices: 24543909--24544205 Score: 137
Period size: 40 Copynumber: 7.8 Consensus size: 39
24543899 AAACCGACAA
* * * * * * *
24543909 TATTAAAGGAGTGTCCAGCGCTAGTCGGATAAACCGACGA
1 TATTAAAGGTGTGCCCAGCACTAGTTGGATAAACTGGC-T
*
24543949 TATTAAAGGTGTGCCCAGCACTAGTCGGAT-AA----C-
1 TATTAAAGGTGTGCCCAGCACTAGTTGGATAAACTGGCT
** * * *
24543982 TAAAAAAGATTTGTGCCTAGCGCTAGTTGGATAAACTGGCTT
1 TATTAAAG--GTGTGCCCAGCACTAGTTGGATAAACTGGC-T
*
24544024 TATTAAAGGTGTGCCCAGCACTAGTCGGAT-AA----C-
1 TATTAAAGGTGTGCCCAGCACTAGTTGGATAAACTGGCT
** * * *
24544057 TAAAAAAGATTTGTGCCTAGCGCTAGTTGGATAAACTGGCTT
1 TATTAAAG--GTGTGCCCAGCACTAGTTGGATAAACTGGC-T
*
24544099 TATTAAAGGTGTGCCCAGCACTAGTCGGAT-AA----C-
1 TATTAAAGGTGTGCCCAGCACTAGTTGGATAAACTGGCT
** * *
24544132 TAAAAAAGATTTGTGCCCAGCGCTAGTTGGATAAACTGGCT
1 TATTAAAG--GTGTGCCCAGCACTAGTTGGATAAACTGGCT
*
24544173 ATATTAAAGGTGTGCCCATCACTA-TTCGGATAA
1 -TATTAAAGGTGTGCCCAGCACTAGTT-GGATAA
24544206 CCGAAAAAGA
Statistics
Matches: 192, Mismatches: 37, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
33 18 0.09
35 58 0.30
36 6 0.03
39 8 0.04
40 84 0.44
42 18 0.09
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (39 bp):
TATTAAAGGTGTGCCCAGCACTAGTTGGATAAACTGGCT
Found at i:24544323 original size:75 final size:75
Alignment explanation
Indices: 24543923--24544321 Score: 537
Period size: 75 Copynumber: 5.3 Consensus size: 75
24543913 AAAGGAGTGT
* *
24543923 CCAGCGCTAGTCGGATAAACCGACGATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
1 CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
24543988 AGATTTGTGC
66 AGATTTGTGC
* * * *
24543998 CTAGCGCTAGTTGGATAAACTGGCTTTATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
1 CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
24544063 AGATTTGTGC
66 AGATTTGTGC
* * * *
24544073 CTAGCGCTAGTTGGATAAACTGGCTTTATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
1 CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
24544138 AGATTTGTGC
66 AGATTTGTGC
* * * * **
24544148 CCAGCGCTAGTTGGATAAACTGGCTATATTAAAGGTGTGCCCATCACTATTCGGATAACCGAAAA
1 CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
*
24544213 AGATTTGCGC
66 AGATTTGTGC
*** * * * * *
24544223 CCAGCGCTAACCGGATAAACCGACAATATTAAAGGTGTGACTAGCACTAGTCGGATAACTGACAA
1 CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
**
24544288 AGATTTGCAC
66 AGATTTGTGC
* *
24544298 CCAGCGCTAGTTAGATAAGCCGAC
1 CCAGCGCTAGTTGGATAAACCGAC
24544322 AAGCACATAC
Statistics
Matches: 293, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 293 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (75 bp):
CCAGCGCTAGTTGGATAAACCGACTATATTAAAGGTGTGCCCAGCACTAGTCGGATAACTAAAAA
AGATTTGTGC
Found at i:24547695 original size:22 final size:22
Alignment explanation
Indices: 24547670--24547711 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
24547660 TCATGCAACG
*
24547670 TGCACTCCTTATTTTACACACA
1 TGCACCCCTTATTTTACACACA
* *
24547692 TGCACCCCTTTTTTTCCACA
1 TGCACCCCTTATTTTACACA
24547712 TACTTCCCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
TGCACCCCTTATTTTACACACA
Found at i:24547795 original size:13 final size:12
Alignment explanation
Indices: 24547771--24547795 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24547761 TTTTCCTTTA
24547771 TGATCCTTTTTT
1 TGATCCTTTTTT
24547783 TGATCCTTTTTT
1 TGATCCTTTTTT
24547795 T
1 T
24547796 CCACTAGACT
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:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (12 bp):
TGATCCTTTTTT
Found at i:24551972 original size:23 final size:23
Alignment explanation
Indices: 24551946--24551990 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
24551936 ATAAAAGAAG
24551946 TAAGCATAAAGCTTAGTAAGTTA
1 TAAGCATAAAGCTTAGTAAGTTA
24551969 TAAGCATAAAGCTTAGTAAGTT
1 TAAGCATAAAGCTTAGTAAGTT
24551991 TACTAGCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (23 bp):
TAAGCATAAAGCTTAGTAAGTTA
Found at i:24552425 original size:50 final size:49
Alignment explanation
Indices: 24552312--24552545 Score: 261
Period size: 50 Copynumber: 4.7 Consensus size: 49
24552302 ATGCCAAATT
* ** * * * *
24552312 CATGTCCCAGACACGGTCTTACATGGGAAGTTCTCATATTGGTGCCTATGC
1 CATGTCCCAGACATGGTCTTACATGGG-ACCTCTCAT-CTCGTGCCAACGC
* ** * *
24552363 CATGTCCTAGACATGGTCTTACGGGGGACCTCTAATCTCAGCGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-GTGCCAACGC
* *
24552413 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGTTACCAACAC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG-TGCCAACGC
* * *
24552463 CATGTCCGAGACATGGTCTTATATGAGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-GTGCCAACGC
*
24552513 CATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCT
24552546 TTACCCAAAT
Statistics
Matches: 152, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.01
50 126 0.83
51 24 0.16
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (49 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGTGCCAACGC
Found at i:24552493 original size:100 final size:100
Alignment explanation
Indices: 24552312--24552545 Score: 288
Period size: 100 Copynumber: 2.3 Consensus size: 100
24552302 ATGCCAAATT
* ** * * * ** *
24552312 CATGTCCCAGACACGGTCTTACATGGGAAGTTCTCATATTGGTGCCTATGCCATGTCCTAGACAT
1 CATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATATCGGTACCAACACCATGTCCGAGACAT
* *
24552377 GGTCTTACGGGGGACCTCTAATCTCAGCGCCAACGC
65 GGTCTTACAGGAGACCTCTAATCTCAGCGCCAACGC
* *
24552413 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGTTACCAACACCATGTCCGAGACATG
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAACACCATGTCCGAGACATG
* * * * *
24552478 GTCTTATATGAGACCTCTCATCTCGGTGCCAACGC
66 GTCTTACAGGAGACCTCTAATCTCAGCGCCAACGC
*
24552513 CATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCT
24552546 TTACCCAAAT
Statistics
Matches: 114, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 88 0.77
101 26 0.23
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (100 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTACCAACACCATGTCCGAGACATG
GTCTTACAGGAGACCTCTAATCTCAGCGCCAACGC
Found at i:24553812 original size:18 final size:20
Alignment explanation
Indices: 24553776--24553812 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
24553766 TTCGAGTATT
*
24553776 GTTTCCTCATTGTCTCTTCA
1 GTTTCCTCATTGTCGCTTCA
24553796 GTTTCC-CA-TGTCGCTTC
1 GTTTCCTCATTGTCGCTTC
24553813 CTCAATCCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 2 0.12
20 6 0.38
ACGTcount: A:0.08, C:0.32, G:0.14, T:0.46
Consensus pattern (20 bp):
GTTTCCTCATTGTCGCTTCA
Found at i:24559923 original size:50 final size:50
Alignment explanation
Indices: 24559811--24559993 Score: 231
Period size: 50 Copynumber: 3.6 Consensus size: 50
24559801 GATAATAACA
* * * ** *
24559811 TGCCAAAGCCATGTCCAAGACATGGTCTTACATGGGAAATTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA-GGGGACCTCTCATCTCGG
* * * * *
24559862 TGCCCATGCCATGTCCCAGACATGTTGTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
24559912 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
24559962 TGCCAACGCCATGTCCTAGACATGGTCTTACA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACA
24559994 CAGGATCTCT
Statistics
Matches: 114, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
50 88 0.77
51 26 0.23
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:24564827 original size:22 final size:21
Alignment explanation
Indices: 24564802--24564848 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
24564792 ATTATAAATT
*
24564802 ATATAAATTATAATTATTGTTA
1 ATATAAATTATAAATATT-TTA
*
24564824 ATATTAATTATAAATATTTTA
1 ATATAAATTATAAATATTTTA
24564845 ATAT
1 ATAT
24564849 TTCTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATAAATTATAAATATTTTA
Found at i:24573054 original size:19 final size:19
Alignment explanation
Indices: 24573032--24573076 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24573022 ATTTTTTTTA
*
24573032 TTTTTTATTAACTTTTGTC
1 TTTTTTATTAAATTTTGTC
*
24573051 TTTTTCT-TTAAATTTTTTC
1 TTTTT-TATTAAATTTTGTC
24573070 TTTTTTA
1 TTTTTTA
24573077 AGTTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.05
19 20 0.91
20 1 0.05
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTTATTAAATTTTGTC
Found at i:24573537 original size:20 final size:19
Alignment explanation
Indices: 24573482--24573539 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
24573472 TTTGAATTAA
*
24573482 TTAAAAAATAAAAAATATTT
1 TTAAAAAAT-AAAATTATTT
* *
24573502 TTAAAAAA-AGATTTATTT
1 TTAAAAAATAAAATTATTT
*
24573520 GTTAAAAAATAAAGTTATTT
1 -TTAAAAAATAAAATTATTT
24573540 AAATATATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 7 0.23
19 8 0.26
20 16 0.52
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
TTAAAAAATAAAATTATTT
Found at i:24574017 original size:20 final size:20
Alignment explanation
Indices: 24573994--24574049 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
24573984 ATAATTTTTT
24573994 AATTTTAGTACACATTTCTA
1 AATTTTAGTACACATTTCTA
* * *
24574014 AATTTATA-TATTA-ATTTTTT
1 AATTT-TAGTA-CACATTTCTA
24574034 AATTTTAGTACACATT
1 AATTTTAGTACACATT
24574050 CATGAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.52
Consensus pattern (20 bp):
AATTTTAGTACACATTTCTA
Found at i:24574058 original size:40 final size:41
Alignment explanation
Indices: 24573985--24574069 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 41
24573975 GTGTTGGTTA
24573985 TAATTTTTTAATTTTAGTACACATTTCTAAATTTATATA-T
1 TAATTTTTTAATTTTAGTACACATTTCTAAATTTATATACT
* *
24574025 TAATTTTTTAATTTTAGTACACA-TTCATGAATTTATGTACT
1 TAATTTTTTAATTTTAGTACACATTTC-TAAATTTATATACT
24574066 TAAT
1 TAAT
24574070 ATATATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
39 3 0.07
40 33 0.80
41 5 0.12
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTTCTAAATTTATATACT
Found at i:24574080 original size:40 final size:40
Alignment explanation
Indices: 24573993--24574080 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
24573983 TATAATTTTT
* *
24573993 TAATTTTAGTACACATTTCTAAATTTATATATTAATTTTT
1 TAATTTTAGTACACATTTCTAAATTTATATATTAATTATA
* *
24574033 TAATTTTAGTACACA-TTCATGAATTTATGTACTTAA-TATA
1 TAATTTTAGTACACATTTC-TAAATTTATATA-TTAATTATA
*
24574073 TATTTTTA
1 TAATTTTA
24574081 ATAGATAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.07
40 34 0.83
41 4 0.10
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (40 bp):
TAATTTTAGTACACATTTCTAAATTTATATATTAATTATA
Found at i:24576449 original size:30 final size:30
Alignment explanation
Indices: 24576415--24576519 Score: 93
Period size: 30 Copynumber: 3.5 Consensus size: 30
24576405 GTTGCAGAGC
* * *
24576415 AGTTCATATCACTCGGACATTGCCGATTCA
1 AGTTCATATCACCCAGACATAGCCGATTCA
* * *
24576445 AGTTCATACCACCCAGACATAGGCGGTTCA
1 AGTTCATATCACCCAGACATAGCCGATTCA
* * ** * *
24576475 AGTTCATATCACCTAAACATAGGTGGTTCG
1 AGTTCATATCACCCAGACATAGCCGATTCA
*
24576505 AGTTCATTTCACCCA
1 AGTTCATATCACCCA
24576520 AAGCAACCAC
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATAGCCGATTCA
Found at i:24581929 original size:15 final size:15
Alignment explanation
Indices: 24581909--24581938 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24581899 AATTCATTAT
24581909 ATTTCATAACTTACA
1 ATTTCATAACTTACA
*
24581924 ATTTCATTACTTACA
1 ATTTCATAACTTACA
24581939 CTGTTTCTTC
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:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTTCATAACTTACA
Found at i:24590006 original size:47 final size:48
Alignment explanation
Indices: 24589927--24590027 Score: 168
Period size: 47 Copynumber: 2.1 Consensus size: 48
24589917 AAAATCAGCT
* * *
24589927 GCAGCAAAGACAAGTTTAATGTCTAGATTCGGCTGGACAAATTAAATA
1 GCAGCAAAGACAAGATTAATGACTAAATTCGGCTGGACAAATTAAATA
24589975 GCAGCAAAGACAA-ATTAATGACTAAATTCGGCTGGACAAATTAAATA
1 GCAGCAAAGACAAGATTAATGACTAAATTCGGCTGGACAAATTAAATA
24590022 GCAGCA
1 GCAGCA
24590028 GCTAATAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
47 37 0.74
48 13 0.26
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.22
Consensus pattern (48 bp):
GCAGCAAAGACAAGATTAATGACTAAATTCGGCTGGACAAATTAAATA
Found at i:24591425 original size:46 final size:46
Alignment explanation
Indices: 24591374--24591467 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
24591364 ATAGTGTGGC
24591374 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
*
24591420 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
24591466 GT
1 GT
24591468 CTTTTCTTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:24598679 original size:19 final size:18
Alignment explanation
Indices: 24598634--24598673 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
24598624 TTTTATTCTA
24598634 TTTTGTATTGTTATTTTT
1 TTTTGTATTGTTATTTTT
24598652 TTTTGTATTGTTATTTTT
1 TTTTGTATTGTTATTTTT
24598670 TTTT
1 TTTT
24598674 TATATTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (18 bp):
TTTTGTATTGTTATTTTT
Found at i:24598722 original size:15 final size:16
Alignment explanation
Indices: 24598704--24598733 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24598694 TATAATATAC
24598704 TATTTTAT-TATATTT
1 TATTTTATATATATTT
24598719 TATTTTATATATATT
1 TATTTTATATATATT
24598734 AATTCAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTTTATATATATTT
Found at i:24600462 original size:16 final size:16
Alignment explanation
Indices: 24600441--24600475 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24600431 ACTCATTGTG
*
24600441 TTTTGATTGCATAACA
1 TTTTGACTGCATAACA
*
24600457 TTTTGACTGCATGACA
1 TTTTGACTGCATAACA
24600473 TTT
1 TTT
24600476 CATCTTAAAA
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:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (16 bp):
TTTTGACTGCATAACA
Found at i:24603296 original size:16 final size:16
Alignment explanation
Indices: 24603273--24603314 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
24603263 AATGATGAAA
24603273 AAAAGAAAAGA-AAAAG
1 AAAAGAAAA-ATAAAAG
*
24603289 AGAAGAAAAATAAAAG
1 AAAAGAAAAATAAAAG
24603305 AAAAGAAAAA
1 AAAAGAAAAA
24603315 GGAGAGACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAATAAAAG
Found at i:24603461 original size:56 final size:54
Alignment explanation
Indices: 24603361--24603505 Score: 161
Period size: 56 Copynumber: 2.7 Consensus size: 54
24603351 TGAGTCCTAA
* ** * * *
24603361 AAGGACTAAGGTGAAAACCCGCAAAGGATGCCTTAAGTTCTAAAAATAAATAAAT
1 AAGGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTTCTAAAAA-AAAGAAAG
* **
24603416 AAGGGACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG-TCATAAAAAAAAGGGAG
1 AA-GGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTTC-TAAAAAAAAGAAAG
24603471 AA-G-CCAAGGTGAAAACCCGCAAAGGGCGCCTTGAG
1 AAGGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGAG
24603506 ACCAAAGGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
52 31 0.40
53 1 0.01
55 10 0.13
56 36 0.46
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (54 bp):
AAGGACCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGTTCTAAAAAAAAGAAAG
Found at i:24604779 original size:89 final size:89
Alignment explanation
Indices: 24604625--24605753 Score: 1180
Period size: 89 Copynumber: 12.8 Consensus size: 89
24604615 ACGGATTGAA
* * * *
24604625 GAAGATAACAGATCTTGTCTTCTTGTATTGGCAGGGAAGCAGATTGAAGACACCAGCC-TGACCT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTG-CCT
* **
24604689 CCCTGAGTTTGCAGTGAAATAGACT
65 CCCTGAGTTTGCAGCGAAGCAGACT
* * *
24604714 GAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAACAGATCAAAGACACCAGCCTTGCCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* * *
24604779 CCTGAGTTCGTAGCAAAGCAGACT
66 CCTGAGTTTGCAGCGAAGCAGACT
* * * * * *
24604803 GAAGATAGCATATCTTGTCTTCCTATATTGGCAGTGAATCAGATCGAAGATACCAGCCTTACCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* *
24604868 CCTGAGTTTGTAGCGGAGCAGACT
66 CCTGAGTTTGCAGCGAAGCAGACT
* * * * * *
24604892 AAAGATAGCAGATCTTATCTTCCTGTATTGGCAGTGAAGCAGATCAAAGACACCAGCCTTACTTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
24604957 CCTGAGTTTGCAGCAGAA-CAGACT
66 CCTGAGTTTGCAGC-GAAGCAGACT
* ** * * *
24604981 GAAGATAGCAGATCTTGTCTTTCTGTATTGGCAGTAAAACAGATCGAAGACACCAACCTGGCCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* *
24605046 CTTAAGTTTGCAGCGAAGCAGACT
66 CCTGAGTTTGCAGCGAAGCAGACT
* * * *
24605070 GAAGATAGGAGATCTTGTCTTCTTGTATTGGCAACGAAGTAGATCGAAGACACCAGCCTTGCCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* * * *
24605135 CCTAAGTTTGCAGCGGAGTACACT
66 CCTGAGTTTGCAGCGAAGCAGACT
* * ** * * *
24605159 GAAGATAGTAGATCTTGTCTTCCTGTATTTGCAGTAAAGCAGATCAAAGACACCAACCTGGCCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
*
24605224 CCTGAGTTTGCAGC-AGAGTAGACT
66 CCTGAGTTTGCAGCGA-AGCAGACT
* * * * * *
24605248 GAAGATAGCAGATCTTGTGTTCCTGTATTAGCAACGAAGCAGATCGAAGACACCAACCTTCCCGC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* * *
24605313 CTTGAGTTTGCAGCGGAGAAGACT
66 CCTGAGTTTGCAGCGAAGCAGACT
* * *
24605337 ---G--A--AGA---TGTCTTCCTGTATTGACAACGAAGCAGATCGAAGACATCAGCCTT--CTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* *
24605390 ACCTTGAGTTTGTAGCGGAGCAGACT
66 -CC-TGAGTTTGCAGCGAAGCAGACT
* * * *
24605416 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAAACCAAAGATACCAGCC-TGACCT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTG-CCT
* * *
24605480 CCCTAAGTTTGCAGCGGAGCAGATT
65 CCCTGAGTTTGCAGCGAAGCAGACT
* * * * *
24605505 GAATATAGCAGATCTTGTCTTCTTGTATTAGCAGCGAAGTAGATCAAAGACACCAGCCTTGCCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* * *
24605570 CCTGAGTTTACAGCGGAGTAGACT
66 CCTGAGTTTGCAGCGAAGCAGACT
* * * * * * *
24605594 AGAA-ACAACAAATCTTGTCTTCCTATTTTGGCAGCGAAGCAGATCGAAGAAACCAGCTTTGCCT
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
24605658 CCCTGAGTTTGTAGCGGAA-TAGATT
65 CCCTGAGTTTGCAGC-GAAGCAGACT
* * * * * *
24605683 GAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGTCC-TGTCT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAG-CCTTGCCT
24605747 CCCTGAG
65 CCCTGAG
24605754 CAACAGGGGA
Statistics
Matches: 874, Mismatches: 141, Indels: 50
0.82 0.13 0.05
Matches are distributed among these distances:
77 2 0.00
78 1 0.00
79 60 0.07
82 4 0.00
84 2 0.00
86 4 0.00
88 7 0.01
89 777 0.89
90 14 0.02
91 3 0.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (89 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
CCTGAGTTTGCAGCGAAGCAGACT
Found at i:24605398 original size:79 final size:79
Alignment explanation
Indices: 24605267--24605421 Score: 240
Period size: 79 Copynumber: 2.0 Consensus size: 79
24605257 AGATCTTGTG
*
24605267 TTCCTGTATTAGCAACGAAGCAGATCGAAGACACCAACCTTCCCGCCTTGAGTTTGCAGCGGAGA
1 TTCCTGTATTAGCAACGAAGCAGATCGAAGACACCAACCTTCCCACCTTGAGTTTGCAGCGGAGA
24605332 AGACTGAAGATGTC
66 AGACTGAAGATGTC
* * * *
24605346 TTCCTGTATT-GACAACGAAGCAGATCGAAGACATCAGCCTTCTCACCTTGAGTTTGTAGCGGAG
1 TTCCTGTATTAG-CAACGAAGCAGATCGAAGACACCAACCTTCCCACCTTGAGTTTGCAGCGGAG
*
24605410 CAGACTGAAGAT
65 AAGACTGAAGAT
24605422 AGCAGATCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
78 1 0.01
79 68 0.99
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (79 bp):
TTCCTGTATTAGCAACGAAGCAGATCGAAGACACCAACCTTCCCACCTTGAGTTTGCAGCGGAGA
AGACTGAAGATGTC
Found at i:24605995 original size:51 final size:50
Alignment explanation
Indices: 24605929--24606203 Score: 212
Period size: 51 Copynumber: 5.6 Consensus size: 50
24605919 AGTGGAGCGA
24605929 ATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTGCAGTGGAACAG
1 ATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTGCAGT-GAACAG
* * * * *
24605980 ATTAAAGCTGAAGGCAGCGAATCTTATTTCCCCTGGCA-T-C---GCACGG
1 ATTAAAGCTGAAGGCAGCGAATCCTATCT-CCTTGGCATTGCAGTGAACAG
* * * * * *
24606026 ATTAAAGCTGAAGGCAGCGAAT-CTCATTTTCTTGGCGTTGTAATAGAGCAG
1 ATTAAAGCTGAAGGCAGCGAATCCT-ATCTCCTTGGCATTGCAGT-GAACAG
* * ** * * *
24606077 ATTAAAGCTGAAGGCAACAAATGTTATCTCCCTGGCGTCGCAGT----AG
1 ATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTGCAGTGAACAG
* * * *
24606123 ATTAAAGCTGAAGGCAGCAAAT-CTCATTTCCTTGGCATTACAGTGGAGCAG
1 ATTAAAGCTGAAGGCAGCGAATCCT-ATCTCCTTGGCATTGCAGT-GAACAG
*
24606174 ATTAAAGCTGAAGGCAGCGAATCTTATCTC
1 ATTAAAGCTGAAGGCAGCGAATCCTATCTC
24606204 TCTGGCGTTA
Statistics
Matches: 176, Mismatches: 32, Indels: 32
0.73 0.13 0.13
Matches are distributed among these distances:
45 7 0.04
46 68 0.39
50 1 0.01
51 91 0.52
52 9 0.05
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (50 bp):
ATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCATTGCAGTGAACAG
Found at i:24606126 original size:97 final size:96
Alignment explanation
Indices: 24605929--24606211 Score: 381
Period size: 97 Copynumber: 2.9 Consensus size: 96
24605919 AGTGGAGCGA
* *
24605929 ATTAAAGCTGAAGGCAGCGAATC-CTATCTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAG
1 ATTAAAGCTGAAGGCAGCGAATCTC-ATTTCCTTGGCATTGCAGTGGAGCAGATTAAAGCTGAAG
* *
24605993 GCAGCGAATCTTATTTCCCCTGGCATCGCACGG
65 GCAGCGAATCTTATCT-CCCTGGCGTCGCACGG
* * * * *
24606026 ATTAAAGCTGAAGGCAGCGAATCTCATTTTCTTGGCGTTGTAATAGAGCAGATTAAAGCTGAAGG
1 ATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCATTGCAGTGGAGCAGATTAAAGCTGAAGG
* * *
24606091 CAACAAATGTTATCTCCCTGGCGTCGCA-GTAG
66 CAGCGAATCTTATCTCCCTGGCGTCGCACG--G
* *
24606123 ATTAAAGCTGAAGGCAGCAAATCTCATTTCCTTGGCATTACAGTGGAGCAGATTAAAGCTGAAGG
1 ATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCATTGCAGTGGAGCAGATTAAAGCTGAAGG
*
24606188 CAGCGAATCTTATCTCTCTGGCGT
66 CAGCGAATCTTATCTCCCTGGCGT
24606212 TAAGATTGAA
Statistics
Matches: 160, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
95 1 0.01
96 12 0.08
97 146 0.91
98 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (96 bp):
ATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCATTGCAGTGGAGCAGATTAAAGCTGAAGG
CAGCGAATCTTATCTCCCTGGCGTCGCACGG
Found at i:24606281 original size:44 final size:44
Alignment explanation
Indices: 24606214--24606306 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
24606204 TCTGGCGTTA
* * *
24606214 AGATTGAAGACACCAGTCTTATCTCCCTGAAGTTACAGTGGAGC
1 AGATTGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGC
* **
24606258 AGATTGAAGAAACCAATCCTATCTCTCTGAAGTTGTAGTGGAGC
1 AGATTGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGC
24606302 AGATT
1 AGATT
24606307 AAAATGATGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATTGAAGAAACCAATCCTATCTCCCTGAAGTTACAGTGGAGC
Found at i:24607863 original size:30 final size:30
Alignment explanation
Indices: 24607828--24607904 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
24607818 ATGGTTAACG
* * *
24607828 CATCCCTTTTCGTAATTCGATAATCGAAGT
1 CATCCCTTTTCGTAATTCGACAACCGAAGC
* * * *
24607858 TATCCCTTTTCATAGTTCGACAGCCGAAGC
1 CATCCCTTTTCGTAATTCGACAACCGAAGC
24607888 CATCCCTTTTCGTAATT
1 CATCCCTTTTCGTAATT
24607905 TGATGGTCAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.36
Consensus pattern (30 bp):
CATCCCTTTTCGTAATTCGACAACCGAAGC
Found at i:24607921 original size:30 final size:30
Alignment explanation
Indices: 24607887--24607961 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
24607877 ACAGCCGAAG
* *
24607887 CCATCCCTTTTCGTAATTTGATGGTCATCA
1 CCATCCCTTTTCATAAGTTGATGGTCATCA
* *
24607917 CCATCCCTTCTCATAAGTTGATGGTCGTCA
1 CCATCCCTTTTCATAAGTTGATGGTCATCA
24607947 CCATCCCTTTTCATA
1 CCATCCCTTTTCATA
24607962 GATCAATAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.37
Consensus pattern (30 bp):
CCATCCCTTTTCATAAGTTGATGGTCATCA
Found at i:24607923 original size:60 final size:59
Alignment explanation
Indices: 24607859--24608079 Score: 187
Period size: 60 Copynumber: 3.7 Consensus size: 59
24607849 AATCGAAGTT
* * *
24607859 ATCCCTTTTCATAGTTCGACAGCCGAAGCCATCCCTTTTCGTAATTTGATGGTCATCACC
1 ATCCCTTTTCATAGTT-GATAGCCGAAGCCATCCCTTTTCATAATTTGATGGCCATCACC
* * * * ** * *
24607919 ATCCCTTCTCATAAGTTGATGGTCGTCA-CCATCCCTTTTCATAGA-TCAATAGCCA-AAGCC
1 ATCCCTTTTCAT-AGTTGATAGCCG-AAGCCATCCCTTTTCATA-ATTTGATGGCCATCA-CC
* * * * * *
24607979 ATCCCTTTTCATAGTACGATAACTGAAGCCATCACTTTTCATAATTTGATGGGCGTCACC
1 ATCCCTTTTCATAGT-TGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGCCATCACC
* * *
24608039 ATCCCTTTTCACAATTGATAGCCGAAGCTATCCCTTTTCAT
1 ATCCCTTTTCATAGTTGATAGCCGAAGCCATCCCTTTTCAT
24608080 TTGTCGATGA
Statistics
Matches: 121, Mismatches: 32, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
59 27 0.22
60 87 0.72
61 7 0.06
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (59 bp):
ATCCCTTTTCATAGTTGATAGCCGAAGCCATCCCTTTTCATAATTTGATGGCCATCACC
Found at i:24607957 original size:90 final size:90
Alignment explanation
Indices: 24607859--24608079 Score: 241
Period size: 90 Copynumber: 2.5 Consensus size: 90
24607849 AATCGAAGTT
* * ** ** *
24607859 ATCCCTTTTCATAGTTCGACAGCCGAAGCCATCCCTTTTCGTAATTTGATGGTCAT-CA-CCATC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATACGAT-AAC-TGAAGCCATC
* *
24607922 CCTTCTCATAAGTTGATGGTCGTCACC
64 ACTTCTCATAAGTTGATGGGCGTCACC
* * * *
24607949 ATCCCTTTTCATAGATCAATAGCCAAAGCCATCCCTTTTCATAGTACGATAACTGAAGCCATCAC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATACGATAACTGAAGCCATCAC
* *
24608014 TTTTCATAATTTGATGGGCGTCACC
66 TTCTCATAAGTTGATGGGCGTCACC
* * *
24608039 ATCCCTTTTCACAATT-GATAGCCGAAGCTATCCCTTTTCAT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCAT
24608080 TTGTCGATGA
Statistics
Matches: 108, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
88 1 0.01
89 24 0.22
90 83 0.77
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (90 bp):
ATCCCTTTTCATAGTTCGATAGCCGAAGCCATCCCTTTTCATAATACGATAACTGAAGCCATCAC
TTCTCATAAGTTGATGGGCGTCACC
Found at i:24608008 original size:30 final size:30
Alignment explanation
Indices: 24607947--24608021 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
24607937 ATGGTCGTCA
*
24607947 CCATCCCTTTTCATAGATCAATAGCCAAAG
1 CCATCCCTTTTCATAGATCAATAACCAAAG
* **
24607977 CCATCCCTTTTCATAG-TACGATAACTGAAG
1 CCATCCCTTTTCATAGAT-CAATAACCAAAG
*
24608007 CCATCACTTTTCATA
1 CCATCCCTTTTCATA
24608022 ATTTGATGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 1 0.03
30 38 0.97
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (30 bp):
CCATCCCTTTTCATAGATCAATAACCAAAG
Found at i:24630538 original size:21 final size:21
Alignment explanation
Indices: 24630473--24630544 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
24630463 AAAACAAGTG
*
24630473 AGGAAAAAGAAAAAGAAGAGAA
1 AGGAAAATGAAAAAGAAGA-AA
*
24630495 A-AATACAAGTGAAAAAGAAGAAA
1 AGGA-A-AA-TGAAAAAGAAGAAA
* **
24630518 ATGAAAATGAAAAAGGTGAAA
1 AGGAAAATGAAAAAGAAGAAA
24630539 AGGAAA
1 AGGAAA
24630545 GCGAGAGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 18 0.45
22 4 0.10
23 6 0.15
24 12 0.30
ACGTcount: A:0.68, C:0.01, G:0.24, T:0.07
Consensus pattern (21 bp):
AGGAAAATGAAAAAGAAGAAA
Found at i:24632612 original size:119 final size:119
Alignment explanation
Indices: 24632401--24632758 Score: 682
Period size: 119 Copynumber: 3.0 Consensus size: 119
24632391 NNNNNNNNNN
24632401 GGAAGTTAATCTTGGGGCTTAATTTCGTGTTCTTGGCTTCCAAGAACATCTATTCATAAGTGTTT
1 GGAAGTTAATCTTGGGGCTTAATTTCGTGTTCTTGGCTTCCAAGAACATCTATTCATAAGTGTTT
24632466 TGATTCTTGGCTGTTCTTTATTGATTTGGGGATTTTTAGTTTCCAGATCTAATT
66 TGATTCTTGGCTGTTCTTTATTGATTTGGGGATTTTTAGTTTCCAGATCTAATT
24632520 GGAAGTTAATCTTGGGGCTTAATTTCGTGTTCTTGGCTTCCAAGAACATCTATTCATAAGTGTTT
1 GGAAGTTAATCTTGGGGCTTAATTTCGTGTTCTTGGCTTCCAAGAACATCTATTCATAAGTGTTT
*
24632585 TGATTCTTGGCTGTTCTTTATTGATTTGGGGATTTTTAGTTTCCACG-GCTAATT
66 TGATTCTTGGCTGTTCTTTATTGATTTGGGGATTTTTAGTTTCCA-GATCTAATT
24632639 GGAAGTTAATCTTGGGGCTTAATTTCGTGTTCTTGGCTTCCAAGAACATCTATTCATAAGTGTTT
1 GGAAGTTAATCTTGGGGCTTAATTTCGTGTTCTTGGCTTCCAAGAACATCTATTCATAAGTGTTT
*
24632704 TGATTCTTGGTTGTTCTTTATTGATTTGGGGATTTTTAGTTTCCAGATCTAATT
66 TGATTCTTGGCTGTTCTTTATTGATTTGGGGATTTTTAGTTTCCAGATCTAATT
24632758 G
1 G
24632759 ATTCTAATTA
Statistics
Matches: 234, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
118 1 0.00
119 232 0.99
120 1 0.00
ACGTcount: A:0.20, C:0.13, G:0.22, T:0.45
Consensus pattern (119 bp):
GGAAGTTAATCTTGGGGCTTAATTTCGTGTTCTTGGCTTCCAAGAACATCTATTCATAAGTGTTT
TGATTCTTGGCTGTTCTTTATTGATTTGGGGATTTTTAGTTTCCAGATCTAATT
Found at i:24636844 original size:20 final size:21
Alignment explanation
Indices: 24636807--24636871 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
24636797 AAAGGCAACT
*
24636807 GAAAAAGA-AAAAGAAGAAAAA
1 GAAAAAGAGAAATG-AGAAAAA
* *
24636828 GAGAATGA-AAATGAG-AAAA
1 GAAAAAGAGAAATGAGAAAAA
*
24636847 GAAAAAGAGAAGTGAGAAAAA
1 GAAAAAGAGAAATGAGAAAAA
24636868 GAAA
1 GAAA
24636872 CACGAGATTG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 10 0.28
20 8 0.22
21 18 0.50
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.05
Consensus pattern (21 bp):
GAAAAAGAGAAATGAGAAAAA
Found at i:24636856 original size:13 final size:13
Alignment explanation
Indices: 24636820--24636857 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
24636810 AAAGAAAAAG
24636820 AAGAAAAAGAG-A
1 AAGAAAAAGAGAA
* *
24636832 ATGAAAATGAGAA
1 AAGAAAAAGAGAA
24636845 AAGAAAAAGAGAA
1 AAGAAAAAGAGAA
24636858 GTGAGAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (13 bp):
AAGAAAAAGAGAA
Found at i:24636942 original size:36 final size:37
Alignment explanation
Indices: 24636902--24636984 Score: 86
Period size: 36 Copynumber: 2.3 Consensus size: 37
24636892 AAAATGTGAG
**
24636902 AAAGAAGAGAAAATTGAAAAAG-A-AAA-TGAGTTAGAA
1 AAAGAAGAGAAAA--GAAAAAGAAGAAAGTGAGCAAGAA
*
24636938 AAAGAA-ACAAAAGAAAAAGAAGAAAGTGAGCAAGAA
1 AAAGAAGAGAAAAGAAAAAGAAGAAAGTGAGCAAGAA
24636974 AAAG-AGAGAAA
1 AAAGAAGAGAAA
24636985 TGTTTTCACT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
33 7 0.18
34 1 0.03
35 9 0.23
36 22 0.56
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.07
Consensus pattern (37 bp):
AAAGAAGAGAAAAGAAAAAGAAGAAAGTGAGCAAGAA
Found at i:24642837 original size:387 final size:387
Alignment explanation
Indices: 24642123--24642890 Score: 1385
Period size: 387 Copynumber: 2.0 Consensus size: 387
24642113 CAGTTCCTAC
* *
24642123 TTTGCTAAGTAGCGAGTCGAGGTCCATCAACCTATTCCCAATTATCACCTTAATCCATATAAGAT
1 TTTGCTAAGTAGCGAGTCGAGGTCCATCAACCTATTCCCAACTATCACCTTAAACCATATAAGAT
*
24642188 TTGGGGTGATACTCGTTATAGTATCGAATCTTTCTTAATGTTTAAGTTCTATTATTCATCTCCAT
66 TTGGGGCGATACTCGTTATAGTATCGAATCTTTCTTAATGTTTAAGTTCTATTATTCATCTCCAT
*
24642253 CACTTACTTTTTCTATCCTATTTCTTTGTTAAACCGAGCCCATCCAAAGATATTCCATCTAAAAT
131 CACTTACTTTTTCTATCCTACTTCTTTGTTAAACCGAGCCCATCCAAAGATATTCCATCTAAAAT
*
24642318 CCATCTATCTATTATCCACATTGAACTTATTCCAACATACAATTCCATACTTAACCAAAATTCAT
196 CCATCTATCTATTAGCCACATTGAACTTATTCCAACATACAATTCCATACTTAACCAAAATTCAT
*
24642383 CCATTTTCGAAACCGAACGAAACATCCTCGTCGACGATCGGGCAACTCAAATACGACTCGACTCA
261 CCATTTTCGAAACCGAACGAAACATCCTCGTCGACGATCGAGCAACTCAAATACGACTCGACTCA
*
24642448 ACACTGAGGTGGATCGTATCATTCTTCACCATAAAATGCACCTCCATCATCAACATATAAGA
326 ACACCGAGGTGGATCGTATCATTCTTCACCATAAAATGCACCTCCATCATCAACATATAAGA
* * *
24642510 TTTGCTAAGTAGCGGGTTGAGGTCCATCTACCTATTCCCAACTATCACCTTAAACCATATAAGAT
1 TTTGCTAAGTAGCGAGTCGAGGTCCATCAACCTATTCCCAACTATCACCTTAAACCATATAAGAT
*
24642575 TTGGGGCGATACTCGTTATAGTATCGAATCTTTCTTGATGTTTAAGTTCTATTATTCATCTCCAT
66 TTGGGGCGATACTCGTTATAGTATCGAATCTTTCTTAATGTTTAAGTTCTATTATTCATCTCCAT
*
24642640 CACTTACTTTTTCTATCCTACTTCTTTGTTAAACTGAGCCCATCCAAAGATATTCCATCTAAAAT
131 CACTTACTTTTTCTATCCTACTTCTTTGTTAAACCGAGCCCATCCAAAGATATTCCATCTAAAAT
*
24642705 CCATCTATCTATTAGCCACCTTGAACTTATTCCAACATACAATTCCATACTTAACCAAAATTCAT
196 CCATCTATCTATTAGCCACATTGAACTTATTCCAACATACAATTCCATACTTAACCAAAATTCAT
*
24642770 CCATTTTC-AGAACCGAACGAAACTTCCTCGTCGACGATCGAGCAACTCAAATACGACTCGACTC
261 CCATTTTCGA-AACCGAACGAAACATCCTCGTCGACGATCGAGCAACTCAAATACGACTCGACTC
*
24642834 AACACCGAGGTGGATCGTATCATTCTTCACCATAAAATGCACCTCCATTATCAACAT
325 AACACCGAGGTGGATCGTATCATTCTTCACCATAAAATGCACCTCCATCATCAACAT
24642891 TATTAATTAA
Statistics
Matches: 365, Mismatches: 15, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
386 1 0.00
387 364 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (387 bp):
TTTGCTAAGTAGCGAGTCGAGGTCCATCAACCTATTCCCAACTATCACCTTAAACCATATAAGAT
TTGGGGCGATACTCGTTATAGTATCGAATCTTTCTTAATGTTTAAGTTCTATTATTCATCTCCAT
CACTTACTTTTTCTATCCTACTTCTTTGTTAAACCGAGCCCATCCAAAGATATTCCATCTAAAAT
CCATCTATCTATTAGCCACATTGAACTTATTCCAACATACAATTCCATACTTAACCAAAATTCAT
CCATTTTCGAAACCGAACGAAACATCCTCGTCGACGATCGAGCAACTCAAATACGACTCGACTCA
ACACCGAGGTGGATCGTATCATTCTTCACCATAAAATGCACCTCCATCATCAACATATAAGA
Found at i:24646317 original size:56 final size:51
Alignment explanation
Indices: 24646248--24646440 Score: 183
Period size: 50 Copynumber: 3.7 Consensus size: 51
24646238 GGGAATGAGA
* **
24646248 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTAAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCAA-G--ATGAGAGG
* *
24646304 TCCCACGTAAGACCATGTCTGGGACATAGCGTTGGC-ACCAAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCAAGATGAGAGG
* * * * **
24646354 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCAAGATGAGAGG
* * * * *
24646404 TCCCATGTAAGACTATATCTTGGATATGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
24646441 GTATAGGAAA
Statistics
Matches: 116, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 79 0.68
52 1 0.01
53 3 0.03
56 33 0.28
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (51 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCAAGATGAGAGG
Found at i:24646482 original size:49 final size:49
Alignment explanation
Indices: 24646304--24646489 Score: 146
Period size: 50 Copynumber: 3.8 Consensus size: 49
24646294 TTATGAGAGG
* * * * **
24646304 TCCCACGTAAGACCATGTCTGGGACATAGCGTTGGCACCA-AGATGAGAGG
1 TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACGATAG--GAGAAC
* * * *
24646354 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCA-CGATAGGAGAAC
* * * *
24646404 TCCCATGTAAGACTATATCTT-GGATATGGCATTGGCA-GTATAGGA-AAC
1 TCCCACGTAAGACCATGT-TTGGGACATGGCATTGGCACG-ATAGGAGAAC
* *
24646452 ATCCCACGTAATACCATGTTTGGGACATGGCTTTGGCA
1 -TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCA
24646490 TGTTATTATC
Statistics
Matches: 108, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
48 6 0.06
49 33 0.31
50 65 0.60
51 3 0.03
52 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (49 bp):
TCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACGATAGGAGAAC
Found at i:24646716 original size:20 final size:20
Alignment explanation
Indices: 24646691--24646739 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
24646681 TGAGTTATTT
24646691 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
24646711 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
24646731 AAG-AAGCAA
1 AAGTAAGCAA
24646740 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:24650590 original size:19 final size:20
Alignment explanation
Indices: 24650553--24650590 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
24650543 TTTATGGTTT
*
24650553 TAAATAATTTTTGGGTAAAA
1 TAAATAATTTTCGGGTAAAA
*
24650573 TAAAT-ATTTTCGGTTAAA
1 TAAATAATTTTCGGGTAAA
24650591 TTAGAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (20 bp):
TAAATAATTTTCGGGTAAAA
Found at i:24654569 original size:17 final size:16
Alignment explanation
Indices: 24654530--24654572 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
24654520 ATTACGAAAC
**
24654530 TTTAAAAAAATTCGTA
1 TTTAAAAAAATTCAAA
*
24654546 TTAAAAAAAATTCCAAA
1 TTTAAAAAAATT-CAAA
24654563 TTTAAAAAAA
1 TTTAAAAAAA
24654573 AGGTTGCAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (16 bp):
TTTAAAAAAATTCAAA
Found at i:24665894 original size:62 final size:62
Alignment explanation
Indices: 24665760--24665927 Score: 203
Period size: 62 Copynumber: 2.7 Consensus size: 62
24665750 GTCCAGGGGT
* * *
24665760 CACACGGGCATGTGTCCAGGCCGTGTAACTCACTGACTTCGAATTTGGATCACACAGGCTAA
1 CACACGGGCGTGTGTCCAGGCCGTGTAACTCACTGACTTCGAATTTGAATCACACAGACTAA
* * * * * *
24665822 TACACAGGCGTGTGTCCAGGTCATGTAACTCACTGACTTCGAATTTGAATCATAC-GTACTGA
1 CACACGGGCGTGTGTCCAGGCCGTGTAACTCACTGACTTCGAATTTGAATCACACAG-ACTAA
* * * *
24665884 CACACGGGCGTGTGTCTAGGCCGTGTGACTCATTGACTTTGAAT
1 CACACGGGCGTGTGTCCAGGCCGTGTAACTCACTGACTTCGAAT
24665928 CTGATGATAC
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 1 0.01
62 87 0.99
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (62 bp):
CACACGGGCGTGTGTCCAGGCCGTGTAACTCACTGACTTCGAATTTGAATCACACAGACTAA
Found at i:24666083 original size:10 final size:10
Alignment explanation
Indices: 24666059--24666094 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
24666049 GCTCCTTTCA
*
24666059 AGCTCAA-TG
1 AGCTCAATTT
24666068 AGCTCAATTT
1 AGCTCAATTT
24666078 AGCTCAATTT
1 AGCTCAATTT
24666088 AGCTCAA
1 AGCTCAA
24666095 AACTTGCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (10 bp):
AGCTCAATTT
Found at i:24667368 original size:16 final size:17
Alignment explanation
Indices: 24667349--24667393 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
24667339 AATTTGAAAA
*
24667349 AAAATAAAAAAAAA-TC
1 AAAAGAAAAAAAAATTC
*
24667365 AAAAGAAAAAAAAATTG
1 AAAAGAAAAAAAAATTC
24667382 AAAAGAAAAAAA
1 AAAAGAAAAAAA
24667394 TTGTATACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAAGAAAAAAAAATTC
Found at i:24669872 original size:28 final size:27
Alignment explanation
Indices: 24669833--24669897 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
24669823 GTCTGTGGAA
* *
24669833 AAATTGAGAGAAACGAACAATGAAAAAG
1 AAATTGAAAGAAACGAA-AAAGAAAAAG
*
24669861 AAATTGAAAGAAATGAAAAAGAAAAAG
1 AAATTGAAAGAAACGAAAAAGAAAAAG
*
24669888 AAAGTGAAAG
1 AAATTGAAAG
24669898 TAAAAAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 18 0.55
28 15 0.45
ACGTcount: A:0.65, C:0.03, G:0.22, T:0.11
Consensus pattern (27 bp):
AAATTGAAAGAAACGAAAAAGAAAAAG
Found at i:24669890 original size:21 final size:21
Alignment explanation
Indices: 24669851--24669891 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24669841 AGAAACGAAC
**
24669851 AATGAAAAAGAAATTGAAAGA
1 AATGAAAAAGAAAAAGAAAGA
24669872 AATGAAAAAGAAAAAGAAAG
1 AATGAAAAAGAAAAAGAAAG
24669892 TGAAAGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.10
Consensus pattern (21 bp):
AATGAAAAAGAAAAAGAAAGA
Found at i:24672712 original size:21 final size:21
Alignment explanation
Indices: 24672686--24672729 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
24672676 TACCCAAATA
24672686 CCATACCATTTCATACCAATT
1 CCATACCATTTCATACCAATT
*
24672707 CCATACCATTTCGTACCAATT
1 CCATACCATTTCATACCAATT
24672728 CC
1 CC
24672730 CAAATACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.36, G:0.02, T:0.32
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:24681000 original size:37 final size:36
Alignment explanation
Indices: 24680906--24681001 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 36
24680896 ATTTTTTTCG
* *
24680906 AATTTTTTCT-CTTTGTTCTTTTAAACTTTGATATTCA
1 AATTTTTTTTACTTT-TT-TTTTAAACTTTGATAATCA
24680943 AATTTTTTTTACTTTTTTTTTAAACTTTGATAAAT-A
1 AATTTTTTTTACTTTTTTTTTAAACTTTGAT-AATCA
* *
24680979 TATATTTTTTTATTTTGTTTTTT
1 AAT-TTTTTTTACTTT-TTTTTT
24681002 TTGTGCAGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
36 17 0.33
37 24 0.47
38 10 0.20
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.66
Consensus pattern (36 bp):
AATTTTTTTTACTTTTTTTTTAAACTTTGATAATCA
Found at i:24681000 original size:38 final size:37
Alignment explanation
Indices: 24680908--24681001 Score: 102
Period size: 36 Copynumber: 2.5 Consensus size: 37
24680898 TTTTTTCGAA
* *
24680908 TTTTTTCTCTTTGTTCTTTTAAACTTTGATATTCAAATT
1 TTTTTTAT-TTTGTT-TTTTAAACTTTGATAATCAAATT
* *
24680947 TTTTTTACTTT-TTTTTTAAACTTTGATAAAT-ATATAT
1 TTTTTTATTTTGTTTTTTAAACTTTGAT-AATCAAAT-T
24680984 TTTTTTATTTTGTTTTTT
1 TTTTTTATTTTGTTTTTT
24681002 TTGTGCAGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
36 17 0.36
37 15 0.32
38 9 0.19
39 6 0.13
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.67
Consensus pattern (37 bp):
TTTTTTATTTTGTTTTTTAAACTTTGATAATCAAATT
Found at i:24683975 original size:40 final size:40
Alignment explanation
Indices: 24683886--24683975 Score: 92
Period size: 40 Copynumber: 2.2 Consensus size: 40
24683876 CAGGGGACGT
* * * * *
24683886 GTCAGCAAATCGCGGCCACGTAAGCGCGCTTTGTTGACAT
1 GTCAGCAAAGCACGGCCACGAAAGCGCGATTTGTTGACAC
* * *
24683926 GGCAACAAAGCACGTCCACGAAAGCGCGATTTGTGTG-CAC
1 GTCAGCAAAGCACGGCCACGAAAGCGCGATTTGT-TGACAC
24683966 GTCAGCAAAG
1 GTCAGCAAAG
24683976 TGCGCTGACG
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
40 37 0.95
41 2 0.05
ACGTcount: A:0.28, C:0.27, G:0.28, T:0.18
Consensus pattern (40 bp):
GTCAGCAAAGCACGGCCACGAAAGCGCGATTTGTTGACAC
Found at i:24684756 original size:124 final size:125
Alignment explanation
Indices: 24684211--24685154 Score: 1439
Period size: 126 Copynumber: 7.5 Consensus size: 125
24684201 GATAAAATCA
* * * * * * * *
24684211 AAGCAGGATGCT-TTATCAGAAGGATTTCTGAAGTCGCGCCCACGTGTACACGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
* * * *
24684275 TAGGTCTTGGAAAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAAAAGGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT-TTAAAAAACGCTTC
* * *
24684337 AGGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAG
*
24684401 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAATGCTTC
65 TAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* *
24684463 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCCCGCCCTCGTGGACGCACTTTTGCTACAAT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAGT
24684528 AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTT-AAAAAACGCTTC
* *
24684590 AAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTATAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAGT
* * *
24684655 AGGTCCT-GTAAAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
24684714 AAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCTCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAGT
*
24684779 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
24684838 TAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTATAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAGT
* * *
24684903 AGGTCCT-GTAAAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* * *
24684962 AAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCTCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAGT
24685027 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTT-AAAAAACGCTTC
* * *
24685088 AAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAGT
24685153 AG
66 AG
24685155 CATGTTTGAG
Statistics
Matches: 752, Mismatches: 59, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
123 36 0.05
124 233 0.31
125 108 0.14
126 260 0.35
127 115 0.15
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:24684932 original size:248 final size:249
Alignment explanation
Indices: 24684263--24685154 Score: 1527
Period size: 248 Copynumber: 3.6 Consensus size: 249
24684253 CGTGTACACG
* *
24684263 CTTTTGCTACAGTAGGTCTTGGAAAAATAATTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAA
1 CTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGT-TAAAA
* * * *
24684328 AAAGGCTTCAGGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTT
65 AAACGCTTCAAGCAGGATGCTATT-TGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTT
* * *
24684392 TTGCTATAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAA
129 TTGCTATAGTAGGTCCT-GTA-AAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTTTAAAAAA
* * * * *
24684457 TGCTTCAAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCCCGCCCTCGTGGACGCA
192 CGCTTCAAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCT
*
24684515 CTTTTGCTACAATAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAA
1 CTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TTAAA
24684580 AAAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTT
64 AAAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTT
24684645 TTGCTATAGTAGGTCCTGTAAAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTTTAAAAAACG
129 TTGCTATAGTAGGTCCTGTAAAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTTTAAAAAACG
24684710 CTTCAAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCT
194 CTTCAAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCT
*
24684766 CTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TATAAA
1 CTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAA
*
24684830 AACGCTTCTAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTT
66 AACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTT
24684895 GCTATAGTAGGTCCTGTAAAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTTTAAAAAACGCT
131 GCTATAGTAGGTCCTGTAAAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTTTAAAAAACGCT
24684960 TCAAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCT
196 TCAAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCT
24685014 CTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAA
1 CTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TTAAAA
* *
24685079 AAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGAACGCGCTTT
65 AAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTT
*
24685144 TGCTACAGTAG
130 TGCTATAGTAG
24685155 CATGTTTGAG
Statistics
Matches: 612, Mismatches: 23, Indels: 12
0.95 0.04 0.02
Matches are distributed among these distances:
248 246 0.40
250 110 0.18
251 117 0.19
252 24 0.04
253 112 0.18
254 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (249 bp):
CTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTAAAAA
AACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTT
GCTATAGTAGGTCCTGTAAAATAATTTTGAGTTGATGTTTCTGAGCAAATAGTTTAAAAAACGCT
TCAAGAAGGATGCTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCT
Found at i:24686474 original size:18 final size:18
Alignment explanation
Indices: 24686448--24686491 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
24686438 TACTCGAAAA
* *
24686448 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
24686466 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
24686484 AGGAAACA
1 AGGAAACA
24686492 CACCTGGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.27, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:24687162 original size:7 final size:7
Alignment explanation
Indices: 24687150--24687180 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
24687140 TATTAGTTAT
24687150 ATACTAA
1 ATACTAA
24687157 ATACTAA
1 ATACTAA
24687164 ATACTAA
1 ATACTAA
*
24687171 ATACAAA
1 ATACTAA
24687178 ATA
1 ATA
24687181 TCTATTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (7 bp):
ATACTAA
Found at i:24688296 original size:11 final size:11
Alignment explanation
Indices: 24688280--24688305 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24688270 TTTAAAAAAT
24688280 AAATTATTTAA
1 AAATTATTTAA
24688291 AAATTATTTAA
1 AAATTATTTAA
24688302 AAAT
1 AAAT
24688306 AGGGATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATTATTTAA
Found at i:24688357 original size:51 final size:51
Alignment explanation
Indices: 24688302--24688401 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
24688292 AATTATTTAA
24688302 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * *
24688353 AAATATGGATTTCAGAGAAATTTAGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
24688402 GGAAATTGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.25, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:24688386 original size:22 final size:22
Alignment explanation
Indices: 24688361--24688429 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
24688351 TTAAATATGG
*
24688361 ATTTCAGAGAAATTTAGAAGGA
1 ATTTGAGAGAAATTTAGAAGGA
*
24688383 ATTTGAGAGCAAATTGAG-AGGA
1 ATTTGAGAG-AAATTTAGAAGGA
*
24688405 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTT-AGA-AGGA
24688430 TTAGTTTGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 24 0.63
23 10 0.26
25 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.23
Consensus pattern (22 bp):
ATTTGAGAGAAATTTAGAAGGA
Found at i:24688429 original size:14 final size:11
Alignment explanation
Indices: 24688369--24688425 Score: 69
Period size: 11 Copynumber: 5.0 Consensus size: 11
24688359 GGATTTCAGA
*
24688369 GAAATTTAGAAG
1 GAAATTGAG-AG
*
24688381 GAATTTGAGAG
1 GAAATTGAGAG
*
24688392 CAAATTGAGAG
1 GAAATTGAGAG
24688403 GAAATTGAGAG
1 GAAATTGAGAG
24688414 GAAATTTGAGAG
1 GAAA-TTGAGAG
24688426 AGGATTAGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
11 25 0.64
12 14 0.36
ACGTcount: A:0.44, C:0.02, G:0.32, T:0.23
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:24694550 original size:13 final size:15
Alignment explanation
Indices: 24694516--24694545 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24694506 GAGAAAATAG
*
24694516 TATAATAAATATATT
1 TATAAAAAATATATT
24694531 TATAAAAAATATATT
1 TATAAAAAATATATT
24694546 AAAAATAATT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAAAAAATATATT
Found at i:24696984 original size:53 final size:54
Alignment explanation
Indices: 24696922--24697035 Score: 194
Period size: 53 Copynumber: 2.1 Consensus size: 54
24696912 ATAAGTATTT
* *
24696922 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAA-TA
1 AGTTGCTGGAATAAATTAATCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
*
24696975 AGTTGCTGGAATAAATTAATCATCTTAGTTAATTAAGTTCATGTTAGTTAATTA
1 AGTTGCTGGAATAAATTAATCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
24697029 AGTTGCT
1 AGTTGCT
24697036 TAAATCATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 48 0.84
54 9 0.16
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTAATCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:24697021 original size:19 final size:19
Alignment explanation
Indices: 24696941--24697032 Score: 86
Period size: 19 Copynumber: 5.1 Consensus size: 19
24696931 AATAAATTAC
*
24696941 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
24696960 TCATCTTAGTTAA-TAAGT
1 TCATCTTAGTTAATTAAGT
** * *
24696978 TGC-T-GGAATAAATTAA--
1 T-CATCTTAGTTAATTAAGT
24696994 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
24697013 TCATGTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
24697032 T
1 T
24697033 GCTTAAATCA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 12 0.21
18 9 0.16
19 33 0.58
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:24697255 original size:20 final size:19
Alignment explanation
Indices: 24697230--24697267 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
24697220 AGCTGTTATG
24697230 AAGTTGAATTAAAGGCCAAC
1 AAGTTGAATTAAA-GCCAAC
24697250 AAGTTGAATTAAAGCCAA
1 AAGTTGAATTAAAGCCAA
24697268 TAGCTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (19 bp):
AAGTTGAATTAAAGCCAAC
Found at i:24705525 original size:16 final size:16
Alignment explanation
Indices: 24705504--24705537 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24705494 GATTAGGACA
24705504 TAATTAAACACTTAAT
1 TAATTAAACACTTAAT
**
24705520 TAATTAAGTACTTAAT
1 TAATTAAACACTTAAT
24705536 TA
1 TA
24705538 GGACATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATTAAACACTTAAT
Found at i:24707129 original size:20 final size:20
Alignment explanation
Indices: 24707077--24707132 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
24707067 TACTTCAAGT
* ** *
24707077 TCATTCAGCTCAACCATAGT
1 TCATTCAGCTCATCTTTAGC
*
24707097 TCATTGAGCTCATCTTTAGC
1 TCATTCAGCTCATCTTTAGC
24707117 TCATTCAGCTCATCTT
1 TCATTCAGCTCATCTT
24707133 CATTTTTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.38
Consensus pattern (20 bp):
TCATTCAGCTCATCTTTAGC
Found at i:24708367 original size:17 final size:18
Alignment explanation
Indices: 24708345--24708379 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24708335 GAATCATATT
24708345 CGCTAGGTAATA-TTATC
1 CGCTAGGTAATACTTATC
*
24708362 CGCTAGGTGATACTTATC
1 CGCTAGGTAATACTTATC
24708380 TCTAGGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (18 bp):
CGCTAGGTAATACTTATC
Found at i:24709252 original size:132 final size:132
Alignment explanation
Indices: 24709044--24709308 Score: 476
Period size: 132 Copynumber: 2.0 Consensus size: 132
24709034 TCATACACAT
* *
24709044 AGTTATCACAATGAATAATGTTTTTGAGTATTACATAATATTCCAAGAAACATTCTCTTGGTGGG
1 AGTTATCACAATGAATAATGCTTTTGAGTATTACATAATATTCCAAGAAACATTCTCTTGGCGGG
*
24709109 TCAGGCTAGTATGTTGTTCTCTAACACATACTCATGTAATGATTTTGAAATCCCCATGTCATTGA
66 TCAGGCTAGTATGTTGTTCTCTAACACATACTCATGTAATGATTTCGAAATCCCCATGTCATTGA
24709174 CA
131 CA
* *
24709176 AGTTATCACAATGAATAATGCTTTTGAGTATTATATAATATTCTAAGAAACATTCTCTTGGCGGG
1 AGTTATCACAATGAATAATGCTTTTGAGTATTACATAATATTCCAAGAAACATTCTCTTGGCGGG
*
24709241 TCAGGCTAGTATGTTGTTCTCTAACACATATTCATGTAATGATTTCGAAATCCCCATGTCATTGA
66 TCAGGCTAGTATGTTGTTCTCTAACACATACTCATGTAATGATTTCGAAATCCCCATGTCATTGA
24709306 CA
131 CA
24709308 A
1 A
24709309 CGCTTTGTCA
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 127 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (132 bp):
AGTTATCACAATGAATAATGCTTTTGAGTATTACATAATATTCCAAGAAACATTCTCTTGGCGGG
TCAGGCTAGTATGTTGTTCTCTAACACATACTCATGTAATGATTTCGAAATCCCCATGTCATTGA
CA
Found at i:24712066 original size:28 final size:28
Alignment explanation
Indices: 24711957--24712169 Score: 215
Period size: 28 Copynumber: 7.7 Consensus size: 28
24711947 AAAAATGTTA
*
24711957 GAAAATGAA-AGCCTTTGTGGC-GAATCAT
1 GAAAA-GAATAGCCTTTGTGGCAAAAT-AT
* *
24711985 GAAATGAAT-G-CTTTGTGGC-GAATCAT
1 GAAAAGAATAGCCTTTGTGGCAAAAT-AT
* * *
24712011 -AATATGAA-AGCCTTTGTGGCGAAGTAT
1 GAA-AAGAATAGCCTTTGTGGCAAAATAT
* **
24712038 GAAAATAATAGCCTTTGTGGTTAAATAT
1 GAAAAGAATAGCCTTTGTGGCAAAATAT
24712066 GAAAAGAATAGCCTTTGTGGCAAAATAT
1 GAAAAGAATAGCCTTTGTGGCAAAATAT
24712094 GAAAAGAATAGCCTTTGTGGCAAAATAT
1 GAAAAGAATAGCCTTTGTGGCAAAATAT
* * *
24712122 GAAAAAAATAGCCTTTGTGGCGAAGTAT
1 GAAAAGAATAGCCTTTGTGGCAAAATAT
* *
24712150 GAAAAGAACAGCCTCTGTGG
1 GAAAAGAATAGCCTTTGTGG
24712170 TGATCTCTGA
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.01
26 22 0.14
27 18 0.11
28 119 0.74
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.27
Consensus pattern (28 bp):
GAAAAGAATAGCCTTTGTGGCAAAATAT
Found at i:24712086 original size:56 final size:56
Alignment explanation
Indices: 24711957--24712197 Score: 237
Period size: 56 Copynumber: 4.4 Consensus size: 56
24711947 AAAAATGTTA
* **
24711957 GAAAATGAA-AGCCTTTGTGGCGAA-TCATGAAATGAAT-G-CTTTGTGG-CGAATCAT
1 GAAAA-GAATAGCCTTTGTGGCGAAGT-ATGAAAAGAATAGCCTTTGTGGTAAAAT-AT
* * *
24712011 -AATATGAA-AGCCTTTGTGGCGAAGTATGAAAATAATAGCCTTTGTGGTTAAATAT
1 GAA-AAGAATAGCCTTTGTGGCGAAGTATGAAAAGAATAGCCTTTGTGGTAAAATAT
* * *
24712066 GAAAAGAATAGCCTTTGTGGCAAAATATGAAAAGAATAGCCTTTGTGGCAAAATAT
1 GAAAAGAATAGCCTTTGTGGCGAAGTATGAAAAGAATAGCCTTTGTGGTAAAATAT
* * * * ** *
24712122 GAAAAAAATAGCCTTTGTGGCGAAGTATGAAAAGAACAGCCTCTGTGGTGATCTCT
1 GAAAAGAATAGCCTTTGTGGCGAAGTATGAAAAGAATAGCCTTTGTGGTAAAATAT
*
24712178 GAAAAGAAT-GCCCTTGTGGC
1 GAAAAGAATAGCCTTTGTGGC
24712198 ACACACTAAT
Statistics
Matches: 157, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
53 29 0.18
54 3 0.02
55 24 0.15
56 101 0.64
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (56 bp):
GAAAAGAATAGCCTTTGTGGCGAAGTATGAAAAGAATAGCCTTTGTGGTAAAATAT
Found at i:24714246 original size:20 final size:20
Alignment explanation
Indices: 24714221--24714267 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
24714211 AGCTCGTTTC
24714221 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCGAGCTCAAGT
* * * *
24714241 CAGCTCATTCGAGTTGAATT
1 CAGCTCACTCGAGCTCAAGT
24714261 CAGCTCA
1 CAGCTCA
24714268 ACCTCAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (20 bp):
CAGCTCACTCGAGCTCAAGT
Found at i:24717301 original size:29 final size:29
Alignment explanation
Indices: 24717264--24717320 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
24717254 GACATTTTTG
24717264 TTGAATGGAGTTTGCTATGATTGATGTTA
1 TTGAATGGAGTTTGCTATGATTGATGTTA
24717293 TTGAATGGAGTTTGCTATGATTGATGTT
1 TTGAATGGAGTTTGCTATGATTGATGTT
24717321 GTGAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.04, G:0.28, T:0.46
Consensus pattern (29 bp):
TTGAATGGAGTTTGCTATGATTGATGTTA
Found at i:24718527 original size:14 final size:14
Alignment explanation
Indices: 24718508--24718536 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24718498 TAAAATCACC
24718508 AAATTTAATGTCCA
1 AAATTTAATGTCCA
24718522 AAATTTAATGTCCA
1 AAATTTAATGTCCA
24718536 A
1 A
24718537 TGTTCATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
AAATTTAATGTCCA
Found at i:24731777 original size:36 final size:37
Alignment explanation
Indices: 24731737--24731809 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
24731727 TCAAAAACCT
24731737 GCAAAACAAACAC-TCAA-CACTCAAAAAGAAAAATTA
1 GCAAAACAAAC-CGTCAATCACTCAAAAAGAAAAATTA
* ** *
24731773 GCAAACCTCACCGTTAATCACTCAAAAAGAAAAATTA
1 GCAAAACAAACCGTCAATCACTCAAAAAGAAAAATTA
24731810 AATTCTCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
35 1 0.03
36 11 0.35
37 19 0.61
ACGTcount: A:0.55, C:0.23, G:0.07, T:0.15
Consensus pattern (37 bp):
GCAAAACAAACCGTCAATCACTCAAAAAGAAAAATTA
Found at i:24758294 original size:384 final size:384
Alignment explanation
Indices: 24757578--24758345 Score: 1421
Period size: 384 Copynumber: 2.0 Consensus size: 384
24757568 TGAATGAAAC
24757578 TCTGTTCATTTGGTGAGAATTACTTTTCTCCAATTTTGTACAAAGACTTGTTGGCTTATCTACAA
1 TCTGTTCATTTGGTGAGAATTACTTTTCTCCAATTTTGTACAAAGACTTGTTGGCTTATCTACAA
*
24757643 AGTTAGTGGCGTCAACCCGTTCTTTGTTTTATCAAGAACTTATCACTTTAGCAAGTGTGGCATTC
66 AGTTAGTGGCGTCAACCCGTTCTTTGCTTTATCAAGAACTTATCACTTTAGCAAGTGTGGCATTC
* *
24757708 AAACCCTATACCGAGGTTCCTATCTTTCTAGACAGCGGGTCGAGGTTTTGATTGAATTTTCTATC
131 AAACCCTATACCGAGGTTCCTATCCTTCTAGACAGCGAGTCGAGGTTTTGATTGAATTTTCTATC
*
24757773 CATCTCATCAAACGTATAAGTGTCGGGTCGACACTTACTAGTGTTGGTTCTTACTTATTTCTTGA
196 CATCTCATCAAACGTATAAGTGTCGGGTCGACACTTACTAGTGTTGGGTCTTACTTATTTCTTGA
24757838 GTCGTTTTTCTTTCCTTCATTTTATCATAACCGAATACATCCATTCTTAGCCATTTTTCCTGAAC
261 GTCGTTTTTCTTTCCTTCATTTTATCATAACCGAATACATCCATTCTTAGCCATTTTTCCTGAAC
24757903 CTTTTGATATGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTA
326 CTTTTGATATGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTA
*
24757962 TCTGTTCATTTGGTGAGAATTACTTTTCTCCGATTTTGTACAAAGACTTGTTGGCTTATCTACAA
1 TCTGTTCATTTGGTGAGAATTACTTTTCTCCAATTTTGTACAAAGACTTGTTGGCTTATCTACAA
* **
24758027 AGTTAGTGGTGTCAACCCGTTCTTTGCTTTATCCTGAACTTATCACTTTAGCAAGTGTGGCATTC
66 AGTTAGTGGCGTCAACCCGTTCTTTGCTTTATCAAGAACTTATCACTTTAGCAAGTGTGGCATTC
*
24758092 AAACCCTATACCGAGGTTCCTATCCTTCTAGACAGCGAGTCGAGGTTTTGATTGAATTTTCTGTC
131 AAACCCTATACCGAGGTTCCTATCCTTCTAGACAGCGAGTCGAGGTTTTGATTGAATTTTCTATC
24758157 CATCTCATTC-AACGTATAAGTGTCGGGTCGACACTTACTAGTGTTGGGTCTTACTTATTTCTTG
196 CATCTCA-TCAAACGTATAAGTGTCGGGTCGACACTTACTAGTGTTGGGTCTTACTTATTTCTTG
*
24758221 AGTCGTTTTTCTTTCCTTCATTTTATCATAACTGAATACATCCATTCTTAGCCATTTTTCCTGAA
260 AGTCGTTTTTCTTTCCTTCATTTTATCATAACCGAATACATCCATTCTTAGCCATTTTTCCTGAA
*
24758286 CTTTTTGATATGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTA
325 CCTTTTGATATGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTA
24758346 CCACAAGGCT
Statistics
Matches: 372, Mismatches: 11, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
384 370 0.99
385 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (384 bp):
TCTGTTCATTTGGTGAGAATTACTTTTCTCCAATTTTGTACAAAGACTTGTTGGCTTATCTACAA
AGTTAGTGGCGTCAACCCGTTCTTTGCTTTATCAAGAACTTATCACTTTAGCAAGTGTGGCATTC
AAACCCTATACCGAGGTTCCTATCCTTCTAGACAGCGAGTCGAGGTTTTGATTGAATTTTCTATC
CATCTCATCAAACGTATAAGTGTCGGGTCGACACTTACTAGTGTTGGGTCTTACTTATTTCTTGA
GTCGTTTTTCTTTCCTTCATTTTATCATAACCGAATACATCCATTCTTAGCCATTTTTCCTGAAC
CTTTTGATATGAGTCACAAAGGCCCAACTCAAGCTCAAGAACGTGATGGGCTCAAATTA
Found at i:24763081 original size:18 final size:18
Alignment explanation
Indices: 24763054--24763095 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
24763044 TGCTGGAATA
*
24763054 AATTAATTAAGTT-AGTTT
1 AATTAATTAA-TTCAGCTT
*
24763072 AATTAGTTAATTCAGCTT
1 AATTAATTAATTCAGCTT
24763090 AATTAA
1 AATTAA
24763096 ATGTTGAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (18 bp):
AATTAATTAATTCAGCTT
Found at i:24769689 original size:50 final size:50
Alignment explanation
Indices: 24769566--24769807 Score: 195
Period size: 50 Copynumber: 4.7 Consensus size: 50
24769556 GGTAAAGAGA
* ** **
24769566 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATAATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC--ACCT-AG---ATGAGAAC
* * * *
24769622 TCCGATGTAAGACCATGTCCGGGACATGGCGTTGGCACCGT-GATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACC-TAGATGAGAAC
* * *
24769672 TCCCCA-GTAAGACCATGTCTGGGACATAGCATGGGCACCTATATGAGAAC
1 T-CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAAC
* * * * *
24769722 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAAC
* * *
24769770 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24769808 TGTTATATTC
Statistics
Matches: 155, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
48 3 0.02
49 42 0.27
50 72 0.46
51 3 0.02
53 1 0.01
54 1 0.01
55 1 0.01
56 32 0.21
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATGAGAAC
Found at i:24775010 original size:30 final size:32
Alignment explanation
Indices: 24774975--24775061 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 32
24774965 ATAATATGAG
* *
24774975 TCTTTAATTATGTCTTG-TTTATTAA-ATGCA
1 TCTTTAATTATGTCTTGCATTATTAATATACA
*
24775005 TCTTTAATTAATGTCTTGCATTATTAATCTACA
1 TCTTTAATT-ATGTCTTGCATTATTAATATACA
* *
24775038 TCTTTTAATTATGACATGCATTAT
1 TC-TTTAATTATGTCTTGCATTAT
24775062 GTGTTCTGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
30 9 0.19
31 8 0.17
32 7 0.15
33 17 0.35
34 7 0.15
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.51
Consensus pattern (32 bp):
TCTTTAATTATGTCTTGCATTATTAATATACA
Found at i:24776798 original size:20 final size:22
Alignment explanation
Indices: 24776770--24776820 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
24776760 TTTATTCTTG
* *
24776770 ATATATTTAATTAG-TG-TTTA
1 ATATGTTTAATGAGTTGTTTTA
24776790 ATATGTTTAATGAGTTGTTTTA
1 ATATGTTTAATGAGTTGTTTTA
24776812 ATATGTTTA
1 ATATGTTTA
24776821 TTATAGGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 12 0.44
21 2 0.07
22 13 0.48
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (22 bp):
ATATGTTTAATGAGTTGTTTTA
Found at i:24777528 original size:9 final size:9
Alignment explanation
Indices: 24777514--24777539 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
24777504 ATTCATTAAT
24777514 TTTTAGTTA
1 TTTTAGTTA
24777523 TTTTAGTTA
1 TTTTAGTTA
24777532 TTTTAGTT
1 TTTTAGTT
24777540 TGTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (9 bp):
TTTTAGTTA
Found at i:24779275 original size:447 final size:447
Alignment explanation
Indices: 24778435--24779289 Score: 1442
Period size: 447 Copynumber: 1.9 Consensus size: 447
24778425 GTCTCGAGTG
* * *
24778435 ACTTATCTAGTGAGCTAGTGGCGTCATCCTGAACTTGTTTCTGAACTTATCACCAACCTTGGTGT
1 ACTTAGCTAGTGAGCTAGTGGCGTCATCCTAAACTTGTTTCTGAACTTATCACCAACCCTGGTGT
*
24778500 GGCGTTCATCCATCTAAATATACCTTCGATTCCTACTTTGCTAAGTAACGGGTCGAGGTCCATCA
66 GGCGTTCATCCATCTAAATATAACTTCGATTCCTACTTTGCTAAGTAACGGGTCGAGGTCCATCA
* *
24778565 ACCTATTCCCAATTGTCACCTTAAACCATAAAAGATTTGGGGCGATACGCGTTATAGTATCGAAT
131 ACCTATTCCCAACTGTCACCTTAAACCATAAAAGATTTGGGGCGATACGCATTATAGTATCGAAT
*
24778630 CTTTCTTGATGTTTAAGTTCTATTATTCATCTCTATCACTTACTTTTTCTATCCTACTTCTTTGT
196 CTTTCTTGATGTGTAAGTTCTATTATTCATCTCTATCACTTACTTTTTCTATCCTACTTCTTTGT
* * * *
24778695 TAAACCAAGCTCATCCAACGATATTCCATTTAAAATCCATCTATCTATTAGCCACCTTGAACTTA
261 TAAACCAAGCCCATCCAAAGATATTCCATCTAAAATACATCTATCTATTAGCCACCTTGAACTTA
* * *
24778760 TTCCAATATACAATTCCATACTTAACCAAAATTCATCCATTTTTGAAACTGAACGAAACTTCCTC
326 TTCCAACATACAATTCCATACTTAACCAAAATTCATCCATTTTTGAAACCGAACAAAACTTCCTC
* *
24778825 GTCGATGGTCGGGCAACTCAAATACGACTCGACTCAACACTGAGGTGGATCGTATCA
391 GTCGACGATCGGGCAACTCAAATACGACTCGACTCAACACTGAGGTGGATCGTATCA
* *
24778882 ACTTAGCTAGTGAGTTAGTGGCGTCATCCTAAACTTGTTTTTGAACTTATCACCAACCCTGGTGT
1 ACTTAGCTAGTGAGCTAGTGGCGTCATCCTAAACTTGTTTCTGAACTTATCACCAACCCTGGTGT
* * *
24778947 GGCGTTCATCCATCTACATATAACTTTGGTTCCTACTTTGCTAAGTAACGGGTCGAGGTCCATCA
66 GGCGTTCATCCATCTAAATATAACTTCGATTCCTACTTTGCTAAGTAACGGGTCGAGGTCCATCA
* * *
24779012 ACGTATTCCCAGCTGTCACCTTAAACCATATAAGATTTGGGGCGATACGCATTATAGTATCGAAT
131 ACCTATTCCCAACTGTCACCTTAAACCATAAAAGATTTGGGGCGATACGCATTATAGTATCGAAT
*
24779077 CTTTCTTGATGTGTAAGTTCTATTATTCATCT-TCATCACTTATTTTTTCTATCCTACTTCTTTG
196 CTTTCTTGATGTGTAAGTTCTATTATTCATCTCT-ATCACTTACTTTTTCTATCCTACTTCTTTG
* * *
24779141 TTAAACCGAGCCCATCCAAAGTTATTCCATCTAAAATACATCTATCTTTTAGCCACCTTGAACTT
260 TTAAACCAAGCCCATCCAAAGATATTCCATCTAAAATACATCTATCTATTAGCCACCTTGAACTT
24779206 ATTCCAACATACAATTCCATACTTAACCAAAATTCATCCATTTTTGAAACCGAACAAAACTTCCT
325 ATTCCAACATACAATTCCATACTTAACCAAAATTCATCCATTTTTGAAACCGAACAAAACTTCCT
24779271 CGTCGACGATCGGGCAACT
390 CGTCGACGATCGGGCAACT
24779290 TGATGAGATC
Statistics
Matches: 379, Mismatches: 28, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
446 1 0.00
447 378 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (447 bp):
ACTTAGCTAGTGAGCTAGTGGCGTCATCCTAAACTTGTTTCTGAACTTATCACCAACCCTGGTGT
GGCGTTCATCCATCTAAATATAACTTCGATTCCTACTTTGCTAAGTAACGGGTCGAGGTCCATCA
ACCTATTCCCAACTGTCACCTTAAACCATAAAAGATTTGGGGCGATACGCATTATAGTATCGAAT
CTTTCTTGATGTGTAAGTTCTATTATTCATCTCTATCACTTACTTTTTCTATCCTACTTCTTTGT
TAAACCAAGCCCATCCAAAGATATTCCATCTAAAATACATCTATCTATTAGCCACCTTGAACTTA
TTCCAACATACAATTCCATACTTAACCAAAATTCATCCATTTTTGAAACCGAACAAAACTTCCTC
GTCGACGATCGGGCAACTCAAATACGACTCGACTCAACACTGAGGTGGATCGTATCA
Done.