Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 40 of 356
Found at i:13150963 original size:63 final size:62
Alignment explanation
Indices: 13150884--13151002 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 62
13150874 TAATAAATAT
* * *
13150884 ATAATAATAAATAAATA-ATATAATAATATGAA-ACATAACTCAAATTAATTAAATTAATAGAAA
1 ATAATAAAAAACAAATATAAAT-ATAATATGAATA-A-AACTCAAATTAATTAAATTAATAGAAA
* * *
13150947 ATAATAAAAAACAAATATAAATATAATGTGAATAAAGCTCAAATTAATTAATTTAA
1 ATAATAAAAAACAAATATAAATATAATATGAATAAAACTCAAATTAATTAAATTAA
13151003 CAATAAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
62 19 0.40
63 25 0.52
64 4 0.08
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (62 bp):
ATAATAAAAAACAAATATAAATATAATATGAATAAAACTCAAATTAATTAAATTAATAGAAA
Found at i:13151375 original size:37 final size:37
Alignment explanation
Indices: 13151320--13151390 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
13151310 GACTTAGTGG
*
13151320 GGGTAATGGAGGTAGTGGATGGTTTAGTAGGGTGTGA
1 GGGTAATGGAGGTAGTGGATGGTTTAGTAAGGTGTGA
*
13151357 GGGTGATGGAGGTAGTGGATGGTTTAGTAAGGTG
1 GGGTAATGGAGGTAGTGGATGGTTTAGTAAGGTG
13151391 ATGGAGTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.21, C:0.00, G:0.49, T:0.30
Consensus pattern (37 bp):
GGGTAATGGAGGTAGTGGATGGTTTAGTAAGGTGTGA
Found at i:13151391 original size:29 final size:29
Alignment explanation
Indices: 13151358--13151419 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
13151348 AGGGTGTGAG
13151358 GGTGATGGAGGTAGTGGAT-GGTTTAGTAA
1 GGTGATGGAGGTAGTGG-TCGGTTTAGTAA
* *
13151387 GGTGATGGAGTTAGTGGTCGGTTTAGTGA
1 GGTGATGGAGGTAGTGGTCGGTTTAGTAA
13151416 GGTG
1 GGTG
13151420 TTTAATTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.19, C:0.02, G:0.47, T:0.32
Consensus pattern (29 bp):
GGTGATGGAGGTAGTGGTCGGTTTAGTAA
Found at i:13153269 original size:7 final size:7
Alignment explanation
Indices: 13153257--13153281 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13153247 TCTTAACAAG
13153257 TTTTAAA
1 TTTTAAA
13153264 TTTTAAA
1 TTTTAAA
13153271 TTTTAAA
1 TTTTAAA
13153278 TTTT
1 TTTT
13153282 TTACCTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
TTTTAAA
Found at i:13153341 original size:23 final size:25
Alignment explanation
Indices: 13153315--13153375 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
13153305 TGTAGTGATT
* *
13153315 TTTTAAATTTTATTTCTC-ATA-AA
1 TTTTAATTTTTATTTATCAATATAA
*
13153338 TTTTTATTTTTATTTATCAAATATAA
1 TTTTAATTTTTATTTATC-AATATAA
13153364 TTTTAATTTTTA
1 TTTTAATTTTTA
13153376 AAAATATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 15 0.48
25 3 0.10
26 13 0.42
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTAATTTTTATTTATCAATATAA
Found at i:13158846 original size:47 final size:47
Alignment explanation
Indices: 13158738--13158847 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 47
13158728 CGGGATAAGT
* *
13158738 ACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTAC
1 ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTAC
* * *
13158785 ACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-AC
1 ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTAC
13158832 ACATAGTG-TCTCATCG
1 ACATAGTGCT-TCATCG
13158848 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (47 bp):
ACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTAC
Found at i:13159621 original size:4 final size:4
Alignment explanation
Indices: 13159612--13159644 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
13159602 CCCTTTTCTA
13159612 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
13159645 CACGTTACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:13162333 original size:45 final size:45
Alignment explanation
Indices: 13162269--13162359 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
13162259 AATTATGCTA
13162269 TATATGAAAAAGAATTATTAGCTATTAAAAAAGCAATAAAAACCT
1 TATATGAAAAAGAATTATTAGCTATTAAAAAAGCAATAAAAACCT
13162314 TATATGAAAAAGAATTATTAGCTATTAAAAAAGCAATAAAAACCT
1 TATATGAAAAAGAATTATTAGCTATTAAAAAAGCAATAAAAACCT
13162359 T
1 T
13162360 TCTTATATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (45 bp):
TATATGAAAAAGAATTATTAGCTATTAAAAAAGCAATAAAAACCT
Found at i:13171128 original size:27 final size:28
Alignment explanation
Indices: 13171097--13171152 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
13171087 GTAATTTGGA
13171097 TTTCCTTTTCTGTTATTT-CTGTT-ATGT
1 TTTCCTTTT-TGTTATTTCCTGTTAATGT
*
13171124 TTTCCTTTTTGTTCTTTCCTGTTAATGT
1 TTTCCTTTTTGTTATTTCCTGTTAATGT
13171152 T
1 T
13171153 GTTAGTCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.27
27 14 0.54
28 5 0.19
ACGTcount: A:0.07, C:0.16, G:0.11, T:0.66
Consensus pattern (28 bp):
TTTCCTTTTTGTTATTTCCTGTTAATGT
Found at i:13171860 original size:35 final size:35
Alignment explanation
Indices: 13171821--13171891 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
13171811 AAAAGCTGGG
13171821 TTATATCTCCAATAACACTATGGCTAAAACAAACT
1 TTATATCTCCAATAACACTATGGCTAAAACAAACT
13171856 TTATATCTCCAATAACACTATGGCTAAAACAAACT
1 TTATATCTCCAATAACACTATGGCTAAAACAAACT
13171891 T
1 T
13171892 CACTAAAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.30
Consensus pattern (35 bp):
TTATATCTCCAATAACACTATGGCTAAAACAAACT
Found at i:13177250 original size:33 final size:33
Alignment explanation
Indices: 13177211--13177275 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
13177201 AAAAAATCTA
13177211 ATTTTTTATTTTTTAGTATTGAATAAAAGAGAT
1 ATTTTTTATTTTTTAGTATTGAATAAAAGAGAT
13177244 ATTTTTTATTTTTTAGTATTGAATAAAAGAGA
1 ATTTTTTATTTTTTAGTATTGAATAAAAGAGA
13177276 GAAGAATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (33 bp):
ATTTTTTATTTTTTAGTATTGAATAAAAGAGAT
Found at i:13177915 original size:38 final size:39
Alignment explanation
Indices: 13177869--13177945 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
13177859 AAAAAGAAAG
13177869 AGCAATCAATC-AATCTTATTTAGTGGTCATTTCGGTTA
1 AGCAATCAATCAAATCTTATTTAGTGGTCATTTCGGTTA
13177907 AGCAATCAATCAAATCTTATTTAGTGGTCATTTCGGTTA
1 AGCAATCAATCAAATCTTATTTAGTGGTCATTTCGGTTA
13177946 TCTTATCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 11 0.29
39 27 0.71
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (39 bp):
AGCAATCAATCAAATCTTATTTAGTGGTCATTTCGGTTA
Found at i:13194594 original size:18 final size:19
Alignment explanation
Indices: 13194568--13194605 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13194558 TATCAGTATT
*
13194568 TTTACTACTATTA-TTATG
1 TTTAATACTATTATTTATG
*
13194586 TTTAATACTGTTATTTATG
1 TTTAATACTATTATTTATG
13194605 T
1 T
13194606 ATTTTTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTAATACTATTATTTATG
Found at i:13194994 original size:20 final size:20
Alignment explanation
Indices: 13194954--13194989 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
13194944 ATACATTTAT
13194954 ATACATACTCGTATATTTTC
1 ATACATACTCGTATATTTTC
13194974 ATACATA-TC-TATATTT
1 ATACATACTCGTATATTT
13194990 ATTCACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 7 0.44
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (20 bp):
ATACATACTCGTATATTTTC
Found at i:13201894 original size:88 final size:88
Alignment explanation
Indices: 13201648--13202090 Score: 488
Period size: 88 Copynumber: 5.1 Consensus size: 88
13201638 ATCAGTGAAC
* * * *
13201648 ATCGAA-A-ACAAGCCTTGCCT-TCATTGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTGC
1 ATCGAAGACACAAACCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGC
* *
13201709 CCTCCTGCATTAATAGCGAAGCAG
65 CTTCCTGCATTAACAGCGAAGCAG
* * * * * * *
13201733 ATCG-AGA-ATAAAACCTTGCCTC-CATTGGTTGCAATGGAGCT-GTTTAAGATAGCAGATCCTG
1 ATCGAAGACA-CAAACCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTG
* *
13201794 CATTCCTACATTAACAGCGAAGCAG
64 CCTTCCTGCATTAACAGCGAAGCAG
* ** *
13201819 ATCGAAGACACAAACCTTGCCTCTCTCGGGTGTAGCAGAGCTGGTTGAAAACAGCAGATCTTGCC
1 ATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCC
*
13201884 TTCCTGCATTAACAACGAAGCAG
66 TTCCTGCATTAACAGCGAAGCAG
* *
13201907 ATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTTGAAGACAACAGATCTTGCC
1 ATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCC
* *
13201972 TTCCTGTATTGACAGCGAAGCAG
66 TTCCTGCATTAACAGCGAAGCAG
* * * * **
13201995 GTCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGTTAGTTGAAGATAGTGGATCTTGCC
1 ATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCC
* * * * *
13202060 TTCCTGTACTGACGGTGAAGCAG
66 TTCCTGCATTAACAGCGAAGCAG
13202083 ATCGAAGA
1 ATCGAAGA
13202091 AACCAGATCT
Statistics
Matches: 306, Mismatches: 44, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
84 1 0.00
85 13 0.04
86 63 0.21
87 26 0.08
88 203 0.66
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (88 bp):
ATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCC
TTCCTGCATTAACAGCGAAGCAG
Found at i:13201926 original size:44 final size:44
Alignment explanation
Indices: 13201796--13201928 Score: 103
Period size: 44 Copynumber: 3.0 Consensus size: 44
13201786 AGATCCTGCA
* *
13201796 TTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCC
1 TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
** * * * * * * *
13201840 -TCTCTCGGGTGTAGC-A-G-AGCTGGTTGAAAACAGCAGATCTTGCC
1 TTC-CT-GCAT-TAACAACGAAGCAGATCGAAGACA-CAAACCTTGCC
13201884 TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
1 TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
13201928 T
1 T
13201929 CTCTCGGTTG
Statistics
Matches: 61, Mismatches: 20, Indels: 16
0.63 0.21 0.16
Matches are distributed among these distances:
42 3 0.05
43 16 0.26
44 25 0.41
45 14 0.23
46 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (44 bp):
TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
Found at i:13201959 original size:43 final size:43
Alignment explanation
Indices: 13201910--13202045 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 43
13201900 GAAGCAGATC
13201910 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
* * * * * * *
13201953 GAAGACAACAGATCTTGCCT-TC-CTGTAT-TGACAGCGAAGCAGGTC
1 GAAGAC-ACAAACCTTGCCTCTCTCGGT-TGTG---GTGGAGCTGGTT
* * *
13201998 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGTTAGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
13202041 GAAGA
1 GAAGA
13202046 TAGTGGATCT
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 5 0.07
43 20 0.29
44 22 0.32
45 17 0.25
46 4 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
Found at i:13202014 original size:44 final size:44
Alignment explanation
Indices: 13201878--13202016 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
13201868 AACAGCAGAT
* * * *
13201878 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
* * * * * * *
13201922 CTTGCCTCTCTCGGT-TGTG---GTGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCT-TC-CTGTAT-TGACAGCGAAGCAGGTCGAAGAC-ACAAAC
13201966 CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
13202010 CTTGCCT
1 CTTGCCT
13202017 CTCTCGGTTG
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 5 0.07
43 15 0.22
44 29 0.42
45 17 0.25
46 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
Found at i:13212987 original size:22 final size:19
Alignment explanation
Indices: 13212953--13213007 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 19
13212943 TTTATTTTAT
*
13212953 TTTAATATCTAAAATATAAA
1 TTTAATATTTAAAATA-AAA
*
13212973 TTATACATATTTAAATTAAAA
1 TT-TA-ATATTTAAAATAAAA
*
13212994 TTTATTATTTAAAA
1 TTTAATATTTAAAA
13213008 ATTATTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 8 0.28
20 4 0.14
21 7 0.24
22 10 0.34
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTAATATTTAAAATAAAA
Found at i:13213025 original size:12 final size:11
Alignment explanation
Indices: 13212997--13213026 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
13212987 ATTAAAATTT
13212997 ATTATTTAAAA
1 ATTATTTAAAA
13213008 ATTATTTAAAA
1 ATTATTTAAAA
13213019 ATATATTT
1 AT-TATTT
13213027 TAATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTATTTAAAA
Found at i:13215820 original size:29 final size:29
Alignment explanation
Indices: 13215786--13215841 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
13215776 TTTGATTCTT
*
13215786 TTTAATAGTATAAG-GACTAAATTGATCCA
1 TTTAATAATA-AAGTGACTAAATTGATCCA
*
13215815 TTTAATAATAAAGTGACTAATTTGATC
1 TTTAATAATAAAGTGACTAAATTGATC
13215842 TAATCCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (29 bp):
TTTAATAATAAAGTGACTAAATTGATCCA
Found at i:13223274 original size:18 final size:19
Alignment explanation
Indices: 13223248--13223285 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13223238 TATCAGTATT
*
13223248 TTTACTACTATTA-TTATG
1 TTTAATACTATTATTTATG
*
13223266 TTTAATACTGTTATTTATG
1 TTTAATACTATTATTTATG
13223285 T
1 T
13223286 ATTTTTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTAATACTATTATTTATG
Found at i:13223671 original size:20 final size:20
Alignment explanation
Indices: 13223631--13223666 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
13223621 ATACATTTAT
13223631 ATACATACTCGTATATTTTC
1 ATACATACTCGTATATTTTC
13223651 ATACATA-TC-TATATTT
1 ATACATACTCGTATATTT
13223667 ATTCACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 7 0.44
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (20 bp):
ATACATACTCGTATATTTTC
Found at i:13230544 original size:88 final size:88
Alignment explanation
Indices: 13230349--13230757 Score: 416
Period size: 88 Copynumber: 4.7 Consensus size: 88
13230339 GGTTGCAGTG
* * *
13230349 GAGCTGGTT-AAAGA-AGCAGATCTTGCCCTCCTGCATTAATAGCGAAGCAGATCG-AGA-ATAA
1 GAGCTGGTTGAAA-ACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACA-CA
* * ***
13230410 AACCTTGCCTC-CATTGGTTGCAATG
64 AACCTTGCCTCTC-TCGGTTGTAGCA
* * * * *
13230435 GAGCT-GTTTAAAGATAGCAGATCCTGCATTCCTACATTAACAGCGAAGCAGATCGAAGACACAA
1 GAGCTGGTTGAAA-ACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAA
*
13230499 ACCTTGCCTCTCTCGGGTGTAGCA
65 ACCTTGCCTCTCTCGGTTGTAGCA
*
13230523 GAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACACAAA
1 GAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAA
* **
13230588 CCTTGCCTCTCTCGGTTGTGGTG
66 CCTTGCCTCTCTCGGTTGTAGCA
* * * * *
13230611 GAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAA
1 GAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAA
**
13230676 CCTTGCCTCTCTCGGTTGTAGTG
66 CCTTGCCTCTCTCGGTTGTAGCA
* * * * ** * * * * *
13230699 GAGTTAGTTGAAGATAGTGGATCTTGCCTTCCTGTACTGACGGTGAAGCAGATCGAAGA
1 GAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGA
13230758 AACCAGATCT
Statistics
Matches: 278, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
85 3 0.01
86 10 0.04
87 35 0.13
88 222 0.80
89 8 0.03
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (88 bp):
GAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAA
CCTTGCCTCTCTCGGTTGTAGCA
Found at i:13230593 original size:44 final size:44
Alignment explanation
Indices: 13230463--13230595 Score: 103
Period size: 44 Copynumber: 3.0 Consensus size: 44
13230453 AGATCCTGCA
* *
13230463 TTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCC
1 TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
** * * * * * * *
13230507 -TCTCTCGGGTGTAGC-A-G-AGCTGGTTGAAAACAGCAGATCTTGCC
1 TTC-CT-GCAT-TAACAACGAAGCAGATCGAAGACA-CAAACCTTGCC
13230551 TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
1 TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
13230595 T
1 T
13230596 CTCTCGGTTG
Statistics
Matches: 61, Mismatches: 20, Indels: 16
0.63 0.21 0.16
Matches are distributed among these distances:
42 3 0.05
43 16 0.26
44 25 0.41
45 14 0.23
46 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (44 bp):
TTCCTGCATTAACAACGAAGCAGATCGAAGACACAAACCTTGCC
Found at i:13230626 original size:43 final size:43
Alignment explanation
Indices: 13230577--13230712 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 43
13230567 GAAGCAGATC
13230577 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
* * * * * * *
13230620 GAAGACAACAGATCTTGCCT-TC-CTGTAT-TGACAGCGAAGCAGGTC
1 GAAGAC-ACAAACCTTGCCTCTCTCGGT-TGTG---GTGGAGCTGGTT
* * *
13230665 GAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGTTAGTT
1 GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
13230708 GAAGA
1 GAAGA
13230713 TAGTGGATCT
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 5 0.07
43 20 0.29
44 22 0.32
45 17 0.25
46 4 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTT
Found at i:13230669 original size:176 final size:174
Alignment explanation
Indices: 13230349--13230732 Score: 459
Period size: 176 Copynumber: 2.2 Consensus size: 174
13230339 GGTTGCAGTG
* * *
13230349 GAGCTGGTT-AAAGAAGCAGATCTTGCCCTCCTGCATTAATAGCGAAGCAGATCGAGAATAAAAC
1 GAGCTGGTTGAAA-AAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAGAATAAAAC
* * * *
13230413 CTTGCCTCCATTGGTTGCAATGGAGCTGTTTAAAGATAGCAGATCCTGCATTCCTACATTAACAG
65 CTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGACAACAGATCCTGCATTCCTACATTAACAG
13230478 CGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGGTGTAGCA
130 CGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGGTGTAGCA
*
13230523 GAGCTGGTTGAAAACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACA-CAA
1 GAGCTGGTTGAAAA-AGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCG-AGA-ATAAA
*** * * * ** *
13230587 ACCTTGCCTCTC-TCGGTTGTGGTGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGTATTGA
63 ACCTTGCCTC-CATCGGTTGCAATGGAGCTGGTTAAAGACAACAGATCCTGCATTCCTACATTAA
* * **
13230651 CAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTG
127 CAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGGTGTAGCA
* * * **
13230699 GAGTTAGTTGAAGATAGTGGATCTTGCCTTCCTG
1 GAGCTGGTTGAA-AAAGCAGATCTTGCCTTCCTG
13230733 TACTGACGGT
Statistics
Matches: 178, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
174 10 0.06
175 40 0.22
176 125 0.70
177 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (174 bp):
GAGCTGGTTGAAAAAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAGAATAAAACC
TTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGACAACAGATCCTGCATTCCTACATTAACAGC
GAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGGTGTAGCA
Found at i:13230681 original size:44 final size:44
Alignment explanation
Indices: 13230545--13230683 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
13230535 AACAGCAGAT
* * * *
13230545 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
* * * * * * *
13230589 CTTGCCTCTCTCGGT-TGTG---GTGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCT-TC-CTGTAT-TGACAGCGAAGCAGGTCGAAGAC-ACAAAC
13230633 CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
13230677 CTTGCCT
1 CTTGCCT
13230684 CTCTCGGTTG
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 5 0.07
43 15 0.22
44 29 0.42
45 17 0.25
46 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAAC
Found at i:13232261 original size:18 final size:19
Alignment explanation
Indices: 13232235--13232272 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13232225 TATCAGTATT
*
13232235 TTTACTACTATTA-TTATG
1 TTTAATACTATTATTTATG
*
13232253 TTTAATACTGTTATTTATG
1 TTTAATACTATTATTTATG
13232272 T
1 T
13232273 ATTTTTACTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTAATACTATTATTTATG
Found at i:13232660 original size:20 final size:20
Alignment explanation
Indices: 13232620--13232655 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
13232610 ATACATTTAT
13232620 ATACATACTCGTATATTTTC
1 ATACATACTCGTATATTTTC
13232640 ATACATA-TC-TATATTT
1 ATACATACTCGTATATTT
13232656 ATTCACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 7 0.44
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (20 bp):
ATACATACTCGTATATTTTC
Found at i:13236986 original size:7 final size:7
Alignment explanation
Indices: 13236976--13237000 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13236966 ATCAAAGTCG
13236976 GAGTACT
1 GAGTACT
13236983 GAGTACT
1 GAGTACT
13236990 GAGTACT
1 GAGTACT
13236997 GAGT
1 GAGT
13237001 TAAGGAGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (7 bp):
GAGTACT
Found at i:13251229 original size:6 final size:7
Alignment explanation
Indices: 13251200--13251227 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
13251190 AATATTGAAT
13251200 ATTAAAA
1 ATTAAAA
13251207 ATTAAAA
1 ATTAAAA
13251214 ATTAAAA
1 ATTAAAA
13251221 ATTAAAA
1 ATTAAAA
13251228 TTGATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATTAAAA
Found at i:13251273 original size:26 final size:26
Alignment explanation
Indices: 13251209--13251273 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
13251199 TATTAAAAAT
*
13251209 TAAAAAT-TAAAAATTAAAATTGATA
1 TAAAAATATAAAAATTAAAAGTGATA
** * *
13251234 TAAACTTATTAAAATTATAAGT-ATTA
1 TAAAAATATAAAAATTAAAAGTGA-TA
13251260 TAAAAATATAAAAA
1 TAAAAATATAAAAA
13251274 AATCTAATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (26 bp):
TAAAAATATAAAAATTAAAAGTGATA
Found at i:13251777 original size:9 final size:9
Alignment explanation
Indices: 13251763--13251883 Score: 73
Period size: 10 Copynumber: 12.6 Consensus size: 9
13251753 TTATGAATTT
13251763 TTTTTATAA
1 TTTTTATAA
*
13251772 TTTTTATTAG
1 TTTTTA-TAA
*
13251782 TTTATATTAA
1 TTTTTA-TAA
* *
13251792 TTTTAATACT
1 TTTTTATA-A
13251802 TTTTTATAA
1 TTTTTATAA
13251811 TTTTTATAA
1 TTTTTATAA
*
13251820 TTTCTATAGA
1 TTTTTATA-A
* * *
13251830 ATTTAATACG
1 TTTTTATA-A
13251840 TTTTTATAA
1 TTTTTATAA
*
13251849 TATTTTAAATA
1 T-TTTTATA-A
13251860 TGTTTTATTAA
1 T-TTTTA-TAA
13251871 -TTTTATAA
1 TTTTTATAA
13251879 TTTTT
1 TTTTT
13251884 TCTTTTTTTA
Statistics
Matches: 85, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
8 3 0.04
9 34 0.40
10 39 0.46
11 8 0.09
12 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:13251835 original size:38 final size:39
Alignment explanation
Indices: 13251762--13251855 Score: 120
Period size: 38 Copynumber: 2.4 Consensus size: 39
13251752 TTTATGAATT
* *
13251762 TTTTTTATAATTTTTATTAGTTTATATTAATTTTAATAC
1 TTTTTTATAATTTTTATTAATTTATATTAAATTTAATAC
*
13251801 TTTTTTATAATTTTTA-TAATTTCTA-TAGAATTTAATAC
1 TTTTTTATAATTTTTATTAATTTATATTA-AATTTAATAC
*
13251839 GTTTTTATAATATTTTA
1 TTTTTTATAAT-TTTTA
13251856 AATATGTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
37 2 0.04
38 26 0.53
39 21 0.43
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (39 bp):
TTTTTTATAATTTTTATTAATTTATATTAAATTTAATAC
Found at i:13251853 original size:20 final size:18
Alignment explanation
Indices: 13251763--13251849 Score: 66
Period size: 19 Copynumber: 4.6 Consensus size: 18
13251753 TTATGAATTT
*
13251763 TTTTTATAATTTTTATTAG
1 TTTTTATAA-TTTTAATAG
* *
13251782 TTTATATTAATTTTAATACT
1 TTTTTA-TAATTTTAATA-G
* *
13251802 TTTTTATAATTTTTATAA
1 TTTTTATAATTTTAATAG
* *
13251820 TTTCTATAGAATTTAATACG
1 TTTTTATA-ATTTTAATA-G
13251840 TTTTTATAAT
1 TTTTTATAAT
13251850 ATTTTAAATA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
18 7 0.13
19 30 0.58
20 15 0.29
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTTATAATTTTAATAG
Found at i:13260034 original size:22 final size:20
Alignment explanation
Indices: 13259989--13260036 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
13259979 TAAACGAGTC
*
13259989 TCTTTTTTTAGCTCCCTTTA
1 TCTTCTTTTAGCTCCCTTTA
*
13260009 TCTTCTTTTAGCTCTCTTT-
1 TCTTCTTTTAGCTCCCTTTA
*
13260028 TATTCTTTT
1 TCTTCTTTT
13260037 CACCATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.08, C:0.23, G:0.04, T:0.65
Consensus pattern (20 bp):
TCTTCTTTTAGCTCCCTTTA
Found at i:13263028 original size:36 final size:36
Alignment explanation
Indices: 13262981--13263052 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
13262971 AACAAAAGTA
13262981 GTAGCATAGTACCTAACAATGGGCATGAGCTCAAAT
1 GTAGCATAGTACCTAACAATGGGCATGAGCTCAAAT
13263017 GTAGCATAGTACCTAACAATGGGCATGAGCTCAAAT
1 GTAGCATAGTACCTAACAATGGGCATGAGCTCAAAT
13263053 TCCAACAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (36 bp):
GTAGCATAGTACCTAACAATGGGCATGAGCTCAAAT
Found at i:13266392 original size:20 final size:19
Alignment explanation
Indices: 13266369--13266415 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
13266359 TATTTCTTAA
13266369 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATTC-ACC
* *
13266389 AATTCAAAACTCCATTCAGC
1 AATT-AAAACTCAATTCACC
13266409 AATTAAA
1 AATTAAA
13266416 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAAAACTCAATTCACC
Found at i:13268472 original size:40 final size:40
Alignment explanation
Indices: 13268428--13268510 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
13268418 CTTAGTAATC
13268428 ATATAGTAAAAGAATTAATATTGTAATTGACTTAAATTTA
1 ATATAGTAAAAGAATTAATATTGTAATTGACTTAAATTTA
13268468 ATATAGTAAAAGAATTAATATTGTAATTGACTTAAATTTA
1 ATATAGTAAAAGAATTAATATTGTAATTGACTTAAATTTA
13268508 ATA
1 ATA
13268511 AAGAAATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (40 bp):
ATATAGTAAAAGAATTAATATTGTAATTGACTTAAATTTA
Found at i:13271844 original size:21 final size:20
Alignment explanation
Indices: 13271812--13271858 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
13271802 AAAACAAATT
*
13271812 TAAAATATTTAAAATTTTATA
1 TAAAATATTTAAAATTCTA-A
13271833 TAAACATA-TTAAAATTCTAA
1 TAAA-ATATTTAAAATTCTAA
13271853 TAAAAT
1 TAAAAT
13271859 CATATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 5 0.21
21 14 0.58
22 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAATATTTAAAATTCTAA
Found at i:13271866 original size:21 final size:20
Alignment explanation
Indices: 13271812--13271866 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
13271802 AAAACAAATT
* *
13271812 TAAAAT-ATTTAAAATTTTA
1 TAAAATCATATAAAATTTAA
13271831 TATAAA-CATATTAAAATTCTAA
1 TA-AAATCATA-TAAAATT-TAA
13271853 TAAAATCATATAAA
1 TAAAATCATATAAA
13271867 TTACTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 14 0.48
22 8 0.28
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAATCATATAAAATTTAA
Found at i:13272358 original size:20 final size:21
Alignment explanation
Indices: 13272312--13272360 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
13272302 CCGGTTCAGT
* *
13272312 TCAAGTTTTTATAATTCTTTTA
1 TCAA-TTTTTATAAGTCTTATA
13272334 T-AATTTTTATAAGT-TTATA
1 TCAATTTTTATAAGTCTTATA
13272353 TCAATTTT
1 TCAATTTT
13272361 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 16 0.67
21 2 0.08
22 1 0.04
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (21 bp):
TCAATTTTTATAAGTCTTATA
Found at i:13272393 original size:10 final size:9
Alignment explanation
Indices: 13272317--13272399 Score: 51
Period size: 10 Copynumber: 8.6 Consensus size: 9
13272307 TCAGTTCAAG
13272317 TTTTTATAAT
1 TTTTTAT-AT
*
13272327 TCTTTTATAA
1 T-TTTTATAT
*
13272337 TTTTTATAAG
1 TTTTTAT-AT
* *
13272347 TTTATATCAA
1 TTTTTAT-AT
*
13272357 TTTTAAT-T
1 TTTTTATAT
13272365 TTTTTAATAT
1 TTTTT-ATAT
13272375 TTCTTTATACT
1 TT-TTTATA-T
13272386 TTTTTATAT
1 TTTTTATAT
13272395 TTTTT
1 TTTTT
13272400 TTACAACTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
8 4 0.07
9 14 0.24
10 28 0.48
11 12 0.21
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTTTATAT
Found at i:13272400 original size:10 final size:10
Alignment explanation
Indices: 13272357--13272400 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
13272347 TTTATATCAA
13272357 TTTTA-ATTT
1 TTTTATATTT
13272366 TTTTAATATTT
1 TTTT-ATATTT
* *
13272377 CTTTATACTT
1 TTTTATATTT
13272387 TTTTATATTT
1 TTTTATATTT
13272397 TTTT
1 TTTT
13272401 TACAACTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 4 0.14
10 18 0.62
11 7 0.24
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTATATTT
Found at i:13272484 original size:9 final size:9
Alignment explanation
Indices: 13272470--13272624 Score: 78
Period size: 9 Copynumber: 17.4 Consensus size: 9
13272460 AAAAAATTAT
13272470 TAATTTTTA
1 TAATTTTTA
13272479 TAATTTATTA
1 TAATTT-TTA
*
13272489 GAATTTATTA
1 TAATTT-TTA
13272499 T-ATTTATTA
1 TAATTT-TTA
13272508 T-A-TTTTA
1 TAATTTTTA
*
13272515 TAATATTTA
1 TAATTTTTA
13272524 TAAGTTTTTA
1 TAA-TTTTTA
*
13272534 TAATTTTAA
1 TAATTTTTA
*
13272543 TAAGTTTATA
1 TAA-TTTTTA
*
13272553 TCAATTTTAA
1 T-AATTTTTA
13272563 T-A-TTTT-
1 TAATTTTTA
*
13272569 TAATATTTA
1 TAATTTTTA
13272578 -ATATTTTTA
1 TA-ATTTTTA
13272587 T--TTTTATA
1 TAATTTT-TA
**
13272595 TCTTTTTTA
1 TAATTTTTA
* *
13272604 TACTTTTTC
1 TAATTTTTA
13272613 TAATTTTT-
1 TAATTTTTA
13272621 TAAT
1 TAAT
13272625 ATCTTCATGG
Statistics
Matches: 116, Mismatches: 16, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
6 1 0.01
7 12 0.10
8 15 0.13
9 52 0.45
10 34 0.29
11 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (9 bp):
TAATTTTTA
Found at i:13272493 original size:19 final size:18
Alignment explanation
Indices: 13272466--13272539 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 18
13272456 TTTTAAAAAA
13272466 TTATT-AATTTTTATAAT
1 TTATTAAATTTTTATAAT
13272483 TTATTAGAATTTATTAT-AT
1 TTATTA-AATTT-TTATAAT
*
13272502 TTATTATA-TTTTATAAT
1 TTATTAAATTTTTATAAT
*
13272519 ATT-TATAAGTTTTTATAAT
1 -TTAT-TAAATTTTTATAAT
13272538 TT
1 TT
13272540 TAATAAGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
16 4 0.09
17 10 0.21
18 7 0.15
19 22 0.47
20 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTATTAAATTTTTATAAT
Found at i:13272545 original size:19 final size:19
Alignment explanation
Indices: 13272510--13272564 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
13272500 ATTTATTATA
13272510 TTTTATAATATTT-ATAAGT
1 TTTTATAAT-TTTAATAAGT
13272529 TTTTATAATTTTAATAAGT
1 TTTTATAATTTTAATAAGT
*
13272548 TTATATCAATTTTAATA
1 TTTTAT-AATTTTAATA
13272565 TTTTTAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 3 0.09
19 20 0.61
20 10 0.30
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
TTTTATAATTTTAATAAGT
Found at i:13272550 original size:17 final size:18
Alignment explanation
Indices: 13272492--13272577 Score: 58
Period size: 19 Copynumber: 4.7 Consensus size: 18
13272482 TTTATTAGAA
*
13272492 TTTATTATATTTATTATA-T
1 TTTATAATATTTA-TA-AGT
13272511 TTTATAATATTTATAAGTT
1 TTTATAATATTTATAAG-T
13272530 TTTATAAT-TTTAATAAGT
1 TTTATAATATTT-ATAAGT
13272548 TTATATCAAT-TTTA-ATA-T
1 TT-TAT-AATATTTATA-AGT
13272566 TTT-TAATATTTA
1 TTTATAATATTTA
13272578 ATATTTTTAT
Statistics
Matches: 59, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
15 3 0.05
16 5 0.08
17 2 0.03
18 12 0.20
19 31 0.53
20 6 0.10
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTATAATATTTATAAGT
Found at i:13273830 original size:149 final size:149
Alignment explanation
Indices: 13273559--13273862 Score: 491
Period size: 149 Copynumber: 2.0 Consensus size: 149
13273549 ATCAAGTCAA
* * * *
13273559 GATGAATGACAAGATTTATCCCGTCTGTGACATCCTCGTCTAATAGAAAACACCCCCTCCTACAT
1 GATGAATGACAAGATCTATCCCATCTGTGACATCCTCGTCCAATAGAAAACACCCCCTCCCACAT
* *
13273624 GTTCTGTAATGATGATTAAATGGCAAGCCTAACACGTTAACACCATCTTACATAGGACCATCACC
66 GTTCTGTAATGATGATTAAATGGCAAGCCTAACACATTAACACCATCTTACACAGGACCATCACC
13273689 TATAAATATCTCCAAGAAC
131 TATAAATATCTCCAAGAAC
* * *
13273708 GATGAATGACAGGATCTATCCCATCTGTGACATTCTCGTCCAATAGAAAACACCCCTTCCCACAT
1 GATGAATGACAAGATCTATCCCATCTGTGACATCCTCGTCCAATAGAAAACACCCCCTCCCACAT
* * *
13273773 GTTCTTTAATGATGATTAAATGGCAAGTCTAACACATTAACACCATCTTACACAGGACCCTCACC
66 GTTCTGTAATGATGATTAAATGGCAAGCCTAACACATTAACACCATCTTACACAGGACCATCACC
*
13273838 TATAAATATCTCTAAGAAC
131 TATAAATATCTCCAAGAAC
13273857 GATGAA
1 GATGAA
13273863 AAAAGGACTA
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
149 142 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (149 bp):
GATGAATGACAAGATCTATCCCATCTGTGACATCCTCGTCCAATAGAAAACACCCCCTCCCACAT
GTTCTGTAATGATGATTAAATGGCAAGCCTAACACATTAACACCATCTTACACAGGACCATCACC
TATAAATATCTCCAAGAAC
Found at i:13279858 original size:40 final size:40
Alignment explanation
Indices: 13279797--13279934 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
13279787 CTCGAGAATA
* * *
13279797 TAAAGTGGATAGGATTCGTTCCTGATTCACTATGATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* * *
13279837 CAAAGTGGATAGGATTTGTTCCTGATTCACTGTGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
13279877 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
13279917 TAAGGCGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
13279935 ACCTGAAAAG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:13279990 original size:78 final size:78
Alignment explanation
Indices: 13279899--13280050 Score: 250
Period size: 78 Copynumber: 1.9 Consensus size: 78
13279889 GATTTATTCC
* **
13279899 TGATTCACTATGGTAACTTAAGGCGGATAGGATTTGACCTGAAAAGATAATCCTGATTTGCTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGGATTTGACCTGAAAAGATAATCCTGATTCACTACA
13279964 GTTACATGATATA
66 GTTACATGATATA
* * *
13279977 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGGATTTGACCTGAAAAGATAATCCTGATTCACTACA
13280042 GTTACATGA
66 GTTACATGA
13280051 GATGTGACTC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (78 bp):
TGATTCACTATGGTAACCTAAGGCGGATAGGATTTGACCTGAAAAGATAATCCTGATTCACTACA
GTTACATGATATA
Found at i:13285853 original size:25 final size:25
Alignment explanation
Indices: 13285825--13285873 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
13285815 TTTGATTCAA
13285825 TTGTCGATCTATATAATAATTTAAC
1 TTGTCGATCTATATAATAATTTAAC
13285850 TTGTCGATCTATATAATAATTTAA
1 TTGTCGATCTATATAATAATTTAA
13285874 TTCAATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (25 bp):
TTGTCGATCTATATAATAATTTAAC
Found at i:13287830 original size:18 final size:18
Alignment explanation
Indices: 13287807--13287850 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
13287797 TTTATTGGCC
*
13287807 GATTGGTTTGATTAATAT
1 GATTGGTTTGATCAATAT
*
13287825 GATTGGTTTGATCAATCT
1 GATTGGTTTGATCAATAT
*
13287843 GTTTGGTT
1 GATTGGTT
13287851 CTATTAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.50
Consensus pattern (18 bp):
GATTGGTTTGATCAATAT
Found at i:13290798 original size:12 final size:12
Alignment explanation
Indices: 13290781--13290805 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13290771 GGTGTTCATT
13290781 CGGTTAACCGAC
1 CGGTTAACCGAC
13290793 CGGTTAACCGAC
1 CGGTTAACCGAC
13290805 C
1 C
13290806 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:13290979 original size:9 final size:9
Alignment explanation
Indices: 13290965--13291016 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
13290955 TTTGGTTAAA
13290965 AATTACCCG
1 AATTACCCG
13290974 AATTACCCG
1 AATTACCCG
13290983 AATTACCCG
1 AATTACCCG
*
13290992 AATTAACCG
1 AATTACCCG
*
13291001 AATTAACCG
1 AATTACCCG
13291010 AATTACC
1 AATTACC
13291017 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:13293479 original size:46 final size:46
Alignment explanation
Indices: 13293410--13293825 Score: 559
Period size: 46 Copynumber: 9.0 Consensus size: 46
13293400 GTGTGCTCTC
*
13293410 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
13293456 TTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
13293502 TGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
13293548 TTATATGAAATGTGTAAGATCATGGTTGAAAGATACCATAGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
13293594 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
13293640 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** ** * *
13293686 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*
13293732 TGACAT-AAA-GTGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTG--TAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
13293778 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
13293824 TG
1 TG
13293826 TCAAAGATAA
Statistics
Matches: 333, Mismatches: 32, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
44 1 0.00
45 3 0.01
46 324 0.97
47 3 0.01
48 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:13294054 original size:19 final size:19
Alignment explanation
Indices: 13294001--13294041 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
13293991 AATTATGAAG
13294001 ATAGATAAATGAAATAAGA
1 ATAGATAAATGAAATAAGA
13294020 ATAGATAAATGAAATAAGA
1 ATAGATAAATGAAATAAGA
13294039 ATA
1 ATA
13294042 AGTACATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (19 bp):
ATAGATAAATGAAATAAGA
Found at i:13294146 original size:16 final size:17
Alignment explanation
Indices: 13294125--13294157 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13294115 ATGATGGAGC
13294125 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
13294141 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
13294158 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:13300370 original size:7 final size:7
Alignment explanation
Indices: 13300358--13300407 Score: 82
Period size: 7 Copynumber: 6.9 Consensus size: 7
13300348 GGTTTTGACT
13300358 GGGTTTA
1 GGGTTTA
13300365 GGGTTTTA
1 GGG-TTTA
13300373 GGGTTTA
1 GGGTTTA
13300380 GGGTTTA
1 GGGTTTA
13300387 GGGTTTTA
1 GGG-TTTA
13300395 GGGTTTA
1 GGGTTTA
13300402 GGGTTT
1 GGGTTT
13300408 GCTCTACATA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 27 0.66
8 14 0.34
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.46
Consensus pattern (7 bp):
GGGTTTA
Found at i:13300378 original size:15 final size:15
Alignment explanation
Indices: 13300361--13300407 Score: 78
Period size: 15 Copynumber: 3.1 Consensus size: 15
13300351 TTTGACTGGG
13300361 TTTAGGGTTTTAGGG-
1 TTTAGGG-TTTAGGGT
13300376 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
13300391 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
13300406 TT
1 TT
13300408 GCTCTACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.23
15 24 0.77
ACGTcount: A:0.13, C:0.00, G:0.38, T:0.49
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:13300386 original size:22 final size:22
Alignment explanation
Indices: 13300358--13300407 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
13300348 GGTTTTGACT
13300358 GGGTTTAGGGTTTTAGGGTTTA
1 GGGTTTAGGGTTTTAGGGTTTA
13300380 GGGTTTAGGGTTTTAGGGTTTA
1 GGGTTTAGGGTTTTAGGGTTTA
13300402 GGGTTT
1 GGGTTT
13300408 GCTCTACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.46
Consensus pattern (22 bp):
GGGTTTAGGGTTTTAGGGTTTA
Found at i:13307261 original size:6 final size:6
Alignment explanation
Indices: 13307250--13307296 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
13307240 GCCATCATCA
* *
13307250 CCACCT CCACCT CCACCT CCACCT CCACCT CCACCA CCCCCT CCACC
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACC
13307297 GCCTCCTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.17, C:0.70, G:0.00, T:0.13
Consensus pattern (6 bp):
CCACCT
Found at i:13315597 original size:6 final size:6
Alignment explanation
Indices: 13315588--13315614 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13315578 ATCGCAACCA
13315588 CAGCCG CAGCCG CAGCCG CAGCCG CAG
1 CAGCCG CAGCCG CAGCCG CAGCCG CAG
13315615 TAACAGCCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.48, G:0.33, T:0.00
Consensus pattern (6 bp):
CAGCCG
Found at i:13315601 original size:18 final size:18
Alignment explanation
Indices: 13315580--13315614 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13315570 TCCTCGCAAT
13315580 CGCAACCACAGCCGCAGC
1 CGCAACCACAGCCGCAGC
* *
13315598 CGCAGCCGCAGCCGCAG
1 CGCAACCACAGCCGCAG
13315615 TAACAGCCGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.49, G:0.29, T:0.00
Consensus pattern (18 bp):
CGCAACCACAGCCGCAGC
Found at i:13317929 original size:134 final size:133
Alignment explanation
Indices: 13317758--13318146 Score: 534
Period size: 130 Copynumber: 2.9 Consensus size: 133
13317748 ATTTGGAGAA
* * * *
13317758 CATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAACAAAC-AAAAGATCGTAACCCAGCAC
1 CATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAA-ATCGCAACCCAGCAC
** * *
13317822 GATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTTGTTTTGGAGAGTTTTTTTT
65 GATAGGGCACGATT-CCCGAATTGCCAAACATCGAGTATTGCCTTCGTTTTGGAGAGTTTTTTTT
*
13317887 TAAAG
129 AAAAG
* * *
13317892 CATGAGTGAAATCCCAAAGAAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCTAGCACG
1 CATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
* * *
13317957 ATAGGGCACGATTCTCGAATTGCCAAACACCGAGTATTGCCTTCGTTTTGGAG-G--ATTTTTAA
66 ATAGGGCACGATTCCCGAATTGCCAAACATCGAGTATTGCCTTCGTTTTGGAGAGTTTTTTTTAA
13318019 AAG
131 AAG
* * * *
13318022 CATGACTGAAATTCCAAAGGAATATTCGATTGTTTTGGACAAACGGGAAATCGCAACCCAACACG
1 CATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
* * *
13318087 ATAGGGCACGATTCCTGAATTGCCAAACATCGAGTATTGCCTTCGTTTTAGAGAATTTTT
66 ATAGGGCACGATTCCCGAATTGCCAAACATCGAGTATTGCCTTCGTTTTGGAGAGTTTTT
13318147 AAATGAATAA
Statistics
Matches: 223, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
130 116 0.52
132 1 0.00
133 36 0.16
134 67 0.30
135 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (133 bp):
CATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACG
ATAGGGCACGATTCCCGAATTGCCAAACATCGAGTATTGCCTTCGTTTTGGAGAGTTTTTTTTAA
AAG
Found at i:13320277 original size:45 final size:45
Alignment explanation
Indices: 13320175--13320439 Score: 369
Period size: 45 Copynumber: 6.0 Consensus size: 45
13320165 CTAAATTCAT
* * * *
13320175 TCACCAGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
13320217 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
13320262 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
13320307 TCACCGACGTTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
13320352 TCACCGACGTTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * *
13320397 TCACCTGTAATATAGCCTGTTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
13320440 CTGTACGATA
Statistics
Matches: 206, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
42 10 0.05
43 14 0.07
44 10 0.05
45 171 0.83
46 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:13323644 original size:60 final size:58
Alignment explanation
Indices: 13323548--13323705 Score: 149
Period size: 57 Copynumber: 2.9 Consensus size: 58
13323538 ATTACTTTAA
* *
13323548 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAAGATTAAATC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAAGATTAAATC
* *
13323606 TATT-AATTAATAGAATATTTATCTATAAGATAAATATTAAATT-GA-TT----TT-AA--
1 TATTAAATTAATAGAATACTTATC---AAGATAAATATTAAATTAAATTTAAGATTAAATC
* * *
13323657 TATTAAATTAATAAAATAC-AATCAAGATAAGTATTAAATTAAATTTAAG
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAAG
13323706 TATTTTTTTA
Statistics
Matches: 82, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
48 16 0.20
49 1 0.01
50 2 0.02
51 7 0.09
52 12 0.15
53 2 0.02
54 2 0.02
57 17 0.21
58 6 0.07
59 1 0.01
60 16 0.20
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAAGATTAAATC
Found at i:13326336 original size:12 final size:12
Alignment explanation
Indices: 13326315--13326349 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
13326305 AACTATAAAA
13326315 TCAC-GTTTCTT
1 TCACTGTTTCTT
13326326 TCACTGTTTCTT
1 TCACTGTTTCTT
13326338 TCACTGTTTCTT
1 TCACTGTTTCTT
13326350 CCATATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.09, C:0.26, G:0.09, T:0.57
Consensus pattern (12 bp):
TCACTGTTTCTT
Found at i:13327147 original size:23 final size:23
Alignment explanation
Indices: 13327105--13327148 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13327095 ACTACCATTT
*
13327105 TCTAAATAAAATAATCATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
13327128 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
13327149 ATAATATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:13332777 original size:18 final size:19
Alignment explanation
Indices: 13332736--13332795 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
13332726 TAACTATTAG
*
13332736 TTAAT-TAATAGTATATTATA
1 TTAATATAATATTA-ATT-TA
13332756 TTAAT-TAATTATTAA-TTA
1 TTAATATAA-TATTAATTTA
13332774 TTAATATAATATTAATTTA
1 TTAATATAATATTAATTTA
13332793 TTA
1 TTA
13332796 TTTTTAAGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 13 0.36
19 10 0.28
20 9 0.25
21 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTAATATAATATTAATTTA
Found at i:13345944 original size:107 final size:107
Alignment explanation
Indices: 13345783--13345995 Score: 426
Period size: 107 Copynumber: 2.0 Consensus size: 107
13345773 TAGTTAAAAT
13345783 ATAACATAAATATCATAGCAACAGCCAAGACCCAAAAATTTTATAGTTGCATCTCTTGGAACTGA
1 ATAACATAAATATCATAGCAACAGCCAAGACCCAAAAATTTTATAGTTGCATCTCTTGGAACTGA
13345848 AGTACAAGCAAACACAAATTGCACGGAAAATTCATCAGGAGA
66 AGTACAAGCAAACACAAATTGCACGGAAAATTCATCAGGAGA
13345890 ATAACATAAATATCATAGCAACAGCCAAGACCCAAAAATTTTATAGTTGCATCTCTTGGAACTGA
1 ATAACATAAATATCATAGCAACAGCCAAGACCCAAAAATTTTATAGTTGCATCTCTTGGAACTGA
13345955 AGTACAAGCAAACACAAATTGCACGGAAAATTCATCAGGAG
66 AGTACAAGCAAACACAAATTGCACGGAAAATTCATCAGGAG
13345996 GTACTTGGAC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (107 bp):
ATAACATAAATATCATAGCAACAGCCAAGACCCAAAAATTTTATAGTTGCATCTCTTGGAACTGA
AGTACAAGCAAACACAAATTGCACGGAAAATTCATCAGGAGA
Found at i:13356262 original size:19 final size:20
Alignment explanation
Indices: 13356226--13356264 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13356216 TATTTTTTTC
*
13356226 ATTTTTTTATCCCAATAACA
1 ATTTTTTTATCACAATAACA
*
13356246 ATTTTTTTATTAC-ATAACA
1 ATTTTTTTATCACAATAACA
13356265 TATTCTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTTTTTATCACAATAACA
Found at i:13361089 original size:26 final size:27
Alignment explanation
Indices: 13361050--13361101 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
13361040 GATAGAGTTT
* * *
13361050 AATAAAATTTAAAAAATTTTATTTTAA
1 AATAAAATTAAAAAAATATAATTTTAA
13361077 AATAAAA-TAAAAAAATATAATTTTA
1 AATAAAATTAAAAAAATATAATTTTA
13361102 TATGAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAAAATTAAAAAAATATAATTTTAA
Found at i:13361128 original size:16 final size:17
Alignment explanation
Indices: 13361107--13361144 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
13361097 TTTTATATGA
*
13361107 ATTTTAC-TTCTATTTT
1 ATTTTACATTATATTTT
13361123 ATTTTACTATTATATTTT
1 ATTTTAC-ATTATATTTT
13361141 ATTT
1 ATTT
13361145 AAATAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
18 12 0.63
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTACATTATATTTT
Found at i:13362990 original size:26 final size:26
Alignment explanation
Indices: 13362934--13362983 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
13362924 TTAGTAATAG
* * *
13362934 TCAGTTATTCAGTATCAATCAATTGA
1 TCAGTTATCCAATAACAATCAATTGA
*
13362960 TCAGTTATCCAATAACAGTCAATT
1 TCAGTTATCCAATAACAATCAATT
13362984 ATTCAGTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (26 bp):
TCAGTTATCCAATAACAATCAATTGA
Found at i:13362999 original size:18 final size:19
Alignment explanation
Indices: 13362978--13363031 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
13362968 CCAATAACAG
13362978 TCAATTATTCAGTAA-AAA
1 TCAATTATTCAGTAACAAA
* * *
13362996 TCAAATATACAGTAACAAT
1 TCAATTATTCAGTAACAAA
*
13363015 TAAATTATTCAGTAACA
1 TCAATTATTCAGTAACA
13363032 GTTGGTCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.50, C:0.13, G:0.06, T:0.31
Consensus pattern (19 bp):
TCAATTATTCAGTAACAAA
Found at i:13363029 original size:19 final size:19
Alignment explanation
Indices: 13362980--13363031 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
13362970 AATAACAGTC
*
13362980 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAACAATCA
* *
13362999 AA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATCA
13363017 AATTATTCAGTAACA
1 AATTATTCAGTAACA
13363032 GTTGGTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.31
Consensus pattern (19 bp):
AATTATTCAGTAACAATCA
Found at i:13364415 original size:15 final size:15
Alignment explanation
Indices: 13364395--13364437 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
13364385 GTTTCATCCT
13364395 TTCTTTCTT-TTTTTA
1 TTCTTT-TTCTTTTTA
13364410 TTCTTTTTCTTTTTA
1 TTCTTTTTCTTTTTA
*
13364425 TTCCTTTTACTTT
1 TT-CTTTTTCTTT
13364438 ATATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 2 0.08
15 14 0.56
16 9 0.36
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTTTTCTTTTTA
Found at i:13364431 original size:16 final size:15
Alignment explanation
Indices: 13364404--13364437 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13364394 TTTCTTTCTT
*
13364404 TTTTTATTCTTTTTC
1 TTTTTATTCTTTTAC
13364419 TTTTTATTCCTTTTAC
1 TTTTTATT-CTTTTAC
13364435 TTT
1 TTT
13364438 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTATTCTTTTAC
Found at i:13373161 original size:40 final size:40
Alignment explanation
Indices: 13373063--13373232 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
13373053 TCCTCGTTCA
* * * *
13373063 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
13373102 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
13373142 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * *
13373182 AATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
13373222 AAGGCCTTCGG
1 AATGCCTTCGG
13373233 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 34 0.29
40 83 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:13373245 original size:80 final size:79
Alignment explanation
Indices: 13373061--13373285 Score: 218
Period size: 80 Copynumber: 2.8 Consensus size: 79
13373051 GCTCCTCGTT
* * * * *
13373061 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
13373126 TTTAACAACTCGCA
66 TTTAACAACTCGCA
* * * * *
13373140 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTTGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
** *
13373205 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
** * * * * * * *
13373220 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CACAATGCCTTCGGGACATAACCCG
13373284 GA
64 GA
13373286 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
79 38 0.32
80 79 0.66
81 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
TTTAACAACTCGCA
Found at i:13373294 original size:41 final size:41
Alignment explanation
Indices: 13373217--13373294 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
13373207 TTAGTATCTC
* * *
13373217 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
13373258 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
13373295 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:13380025 original size:39 final size:40
Alignment explanation
Indices: 13379982--13380127 Score: 176
Period size: 39 Copynumber: 3.7 Consensus size: 40
13379972 TCATCGTTCA
* *
13379982 AATGCCTTCGGGAC-AAAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTAAA-CCCGGATTTAATAACTCACACG
*
13380021 AATGCCTTCGGGAC-ATAACCCGGATTTAACAACT-AGCACG
1 AATGCCTTCGGGACTA-AACCCGGATTTAATAACTCA-CACG
* *
13380061 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTAAACCCGGATTTAATAACTCACACG
*
13380100 AATGCCTTCGGGACTTAACCCGGATTTA
1 AATGCCTTCGGGACTAAACCCGGATTTA
13380128 GTATCTCGCA
Statistics
Matches: 95, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
38 1 0.01
39 65 0.68
40 29 0.31
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTAAACCCGGATTTAATAACTCACACG
Found at i:13380107 original size:79 final size:79
Alignment explanation
Indices: 13379982--13380127 Score: 215
Period size: 79 Copynumber: 1.8 Consensus size: 79
13379972 TCATCGTTCA
* *
13379982 AATGCCTTCGGGACAAAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACAAAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
13380047 TAACAACTAGCACG
66 TAACAACTAGCACG
* * *
13380061 AATGCCTTC-GGACTTAA-CCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGAC-AAAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGGA
13380124 TTTA
64 TTTA
13380128 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 22 0.37
79 38 0.63
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACAAAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTAGCACG
Found at i:13380125 original size:40 final size:39
Alignment explanation
Indices: 13379982--13380203 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
13379972 TCATCGTTCA
* * * *
13379982 AATGCCTTCGGGAC-AAAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAA-CCCGGATTTAATAACTCGCAC
* * *
13380021 AATGCCTTCGGGACATAACCCGGATTTAACAACTAGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
13380060 GAATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * *
13380099 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCATA
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA-C
* ** * * * *
13380140 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
13380180 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
13380204 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
39 69 0.45
40 77 0.50
41 7 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:13380147 original size:79 final size:79
Alignment explanation
Indices: 13380000--13380203 Score: 212
Period size: 79 Copynumber: 2.6 Consensus size: 79
13379990 CGGGACAAAG
* * * * * *
13380000 CCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTAGCACGAATG
1 CCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTAGCACAAAGG
13380065 CCTTCGGA-CTTAA
66 CCTTCGGATCTTAA
** * * *
13380078 CCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCATAAAG
1 CCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTAGCACAAAG
*
13380143 GCCTTCGGATCTTAG
65 GCCTTCGGATCTTAA
* * * * * * *
13380158 TCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
13380204 CAGCATTCAA
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 18 0.17
79 44 0.42
80 37 0.36
81 5 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
CCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTAGCACAAAGG
CCTTCGGATCTTAA
Found at i:13382457 original size:39 final size:39
Alignment explanation
Indices: 13382318--13382457 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
13382308 GCTCTGATGA
* *
13382318 GCTTCAGTTAGCCTTTGGGCTTTCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
13382357 GCTTCAGTTAGCTTTCGGGTTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
13382396 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAATTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
13382435 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
13382458 AGATCACGAT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:13383808 original size:53 final size:54
Alignment explanation
Indices: 13383731--13383847 Score: 155
Period size: 53 Copynumber: 2.1 Consensus size: 54
13383721 CCATGGCAAC
* *
13383731 ATGTGATCATGTGATTTCCGTATAAGACCATAGCTGGGTTATGACATCAGAGAT
1 ATGTGATCATGTGACTTCCGTATAAGACCATAGCTGGGATATGACATCAGAGAT
* * * *
13383785 ATGTGATTATGT-ACTTCCGTATAAGACCATATCTGGGATATGGCATCAGTGTGAT
1 ATGTGATCATGTGACTTCCGTATAAGACCATAGCTGGGATATGACATCA--GAGAT
13383840 ATGTGATC
1 ATGTGATC
13383848 CGTGTAAGAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 32 0.59
54 11 0.20
55 11 0.20
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (54 bp):
ATGTGATCATGTGACTTCCGTATAAGACCATAGCTGGGATATGACATCAGAGAT
Found at i:13383856 original size:46 final size:47
Alignment explanation
Indices: 13383732--13383893 Score: 139
Period size: 53 Copynumber: 3.3 Consensus size: 47
13383722 CATGGCAACA
* *
13383732 TGTGATCATGTGATTTCCGTATAAGACCATAGCTGGGTTATGACATCAGAG
1 TGTGAT-ATGTGA--TCCGTATAAGACCATAGCTGGGATATGGCATC-GAG
*
13383783 ATATGTGATTATGT-ACTTCCGTATAAGACCATATCTGGGATATGGCATC-AG
1 ---TGTGA-TATGTGA--TCCGTATAAGACCATAGCTGGGATATGGCATCGAG
* * * * *
13383834 TGTGATATGTGATCCGTGTAAGACCATGGCTGGGCTATGGCTTCGGTG
1 TGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATC-GAG
13383882 TGTGATATGTGA
1 TGTGATATGTGA
13383894 CTATGTGCAA
Statistics
Matches: 94, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
46 27 0.29
47 5 0.05
48 19 0.20
51 2 0.02
53 31 0.33
54 9 0.10
55 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (47 bp):
TGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGAG
Found at i:13385050 original size:15 final size:15
Alignment explanation
Indices: 13385030--13385086 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
13385020 CGATGAATTT
13385030 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
13385045 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
13385060 ATTGAATTTATATTG
1 ATTGAATTTATATTG
13385075 ATTGAA-TTATAT
1 ATTGAATTTATAT
13385087 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:13385480 original size:21 final size:21
Alignment explanation
Indices: 13385454--13385539 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
13385444 GGCTTTATCG
* *
13385454 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
13385475 ATCAGGCACCTCATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
* *
13385496 ATCAGGCACCTCGTGTGTTGT
1 ATCAGGCACCTCATGTGTCGT
* * * *
13385517 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
13385538 AT
1 AT
13385540 ACTGATCAAG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.37
Consensus pattern (21 bp):
ATCAGGCACCTCATGTGTCGT
Found at i:13388512 original size:21 final size:21
Alignment explanation
Indices: 13388487--13388551 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
13388477 TAGCCTTTGG
13388487 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
13388508 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
*
13388526 GCTTCCGTTTAGCAATTATGT
1 GCTTCCGTTTAGCACTTATGT
13388547 GCTTC
1 GCTTC
13388552 AGCTAGACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 7 0.21
21 12 0.35
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:13388513 original size:39 final size:39
Alignment explanation
Indices: 13388469--13388569 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
13388459 GCTCTGATGA
* *
13388469 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAATTATGT
13388508 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAATTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAATTATGT
* *
13388547 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
13388570 AGATCACGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAATTATGT
Found at i:13390221 original size:19 final size:21
Alignment explanation
Indices: 13390187--13390227 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
13390177 ATTGGATGGA
*
13390187 TCAGCTCTTACGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
13390208 TCAGCT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
13390227 T
1 T
13390228 GGTGTATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 2 0.11
21 6 0.32
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:13391329 original size:123 final size:121
Alignment explanation
Indices: 13391123--13391345 Score: 311
Period size: 123 Copynumber: 1.8 Consensus size: 121
13391113 GGCTCCTATC
* * * * *
13391123 TTGAATAAAAAATGAAGACATTAAAGATAAATGGACATGTTAAAAGTATTTGTAAAGCCATGAGA
1 TTGAATAAAAAATGAAGACATTAAAGAGAAATGGAAATGTTAAAAATATTTGCAAAGCCAGGAGA
** * * *
13391188 GGCTTCATTGGTGCAATATGAACATGATCCACTAACTATACAGGTTGCCTCCCCTT
66 CACTTCATTGGTCCAATATGAAAACGATCCACTAACTATACAGGTTGCCTCCCCTT
* *
13391244 TTGAATAAAAAATGAAGACATTAAAGAGAGAAATGGAAATGTTAAAAATATTTGCGAAGCTAGGA
1 TTGAATAAAAAATGAAGACATT-AA-AGAGAAATGGAAATGTTAAAAATATTTGCAAAGCCAGGA
*
13391309 GACACTTTATTGGTCCAATATGAAAACGATCCACTAA
64 GACACTTCATTGGTCCAATATGAAAACGATCCACTAA
13391346 TTGTATTCGT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
121 22 0.25
122 2 0.02
123 63 0.72
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (121 bp):
TTGAATAAAAAATGAAGACATTAAAGAGAAATGGAAATGTTAAAAATATTTGCAAAGCCAGGAGA
CACTTCATTGGTCCAATATGAAAACGATCCACTAACTATACAGGTTGCCTCCCCTT
Found at i:13392301 original size:21 final size:21
Alignment explanation
Indices: 13392262--13392301 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
13392252 TATATATATT
*
13392262 ATATTATAAAATAATAAATTA
1 ATATTATAAAATAACAAATTA
13392283 ATATTATAATAA-AACAAAT
1 ATATTATAA-AATAACAAAT
13392302 AAATGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATTATAAAATAACAAATTA
Found at i:13393288 original size:37 final size:39
Alignment explanation
Indices: 13393197--13393335 Score: 93
Period size: 40 Copynumber: 3.5 Consensus size: 39
13393187 GACTTCGAGT
* * *
13393197 TGATGAGACAGTGGGTGTCAAGTTACTACTTCGGATTAAT
1 TGATGAGACACTGGGTGCCAAGTTA-TACTTCGGATTAAC
** * *
13393237 TCGATGAGGTACTGGGTGCCAA-TT-TACTTCGGTTTAGC
1 T-GATGAGACACTGGGTGCCAAGTTATACTTCGGATTAAC
* ** * ** *
13393275 TGATGAGACACTGGGCGTTAAATTATTACTTCAAATTATC
1 TGATGAGACACTGGGTGCCAAGTTA-TACTTCGGATTAAC
* *
13393315 CGATGAGGCACTGGGTGCCAA
1 TGATGAGACACTGGGTGCCAA
13393336 ACTGGTGTGT
Statistics
Matches: 74, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
37 15 0.20
38 14 0.19
40 29 0.39
41 16 0.22
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (39 bp):
TGATGAGACACTGGGTGCCAAGTTATACTTCGGATTAAC
Found at i:13394696 original size:11 final size:11
Alignment explanation
Indices: 13394680--13394705 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13394670 ACTTAAAATA
13394680 AAAATATAAAG
1 AAAATATAAAG
13394691 AAAATATAAAG
1 AAAATATAAAG
13394702 AAAA
1 AAAA
13394706 GACAATTCTG
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:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (11 bp):
AAAATATAAAG
Found at i:13395093 original size:5 final size:5
Alignment explanation
Indices: 13395083--13395121 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
13395073 AACTATAGAT
*
13395083 ATATG ATATG ATATG ATATG ATATG ATATA ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
13395122 AATAAGAGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:13396832 original size:15 final size:15
Alignment explanation
Indices: 13396812--13396842 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13396802 TATTTGGACG
13396812 TAGTGGCACTACCAC
1 TAGTGGCACTACCAC
13396827 TAGTGGCACTACCAC
1 TAGTGGCACTACCAC
13396842 T
1 T
13396843 TCATCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (15 bp):
TAGTGGCACTACCAC
Found at i:13401391 original size:21 final size:21
Alignment explanation
Indices: 13401367--13401409 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
13401357 AAAGTTATTT
13401367 TTTCCAGTAGAAATCAACAAA
1 TTTCCAGTAGAAATCAACAAA
13401388 TTTCCAGTAGAAATCAACAAA
1 TTTCCAGTAGAAATCAACAAA
13401409 T
1 T
13401410 ATCATAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.26
Consensus pattern (21 bp):
TTTCCAGTAGAAATCAACAAA
Found at i:13402618 original size:12 final size:12
Alignment explanation
Indices: 13402589--13402620 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
13402579 ATATATTTTT
13402589 AAATT-ATATAA
1 AAATTAATATAA
13402600 AAA-TAATATAA
1 AAATTAATATAA
13402611 AAATTAATAT
1 AAATTAATAT
13402621 GGGCATGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 12 0.63
12 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTAATATAA
Found at i:13405366 original size:20 final size:20
Alignment explanation
Indices: 13405341--13405380 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13405331 ACAAAAAAGA
13405341 AAGAATAATATACCAATGAT
1 AAGAATAATATACCAATGAT
13405361 AAGAATAATATACCAATGAT
1 AAGAATAATATACCAATGAT
13405381 TCATCCTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (20 bp):
AAGAATAATATACCAATGAT
Found at i:13409527 original size:17 final size:16
Alignment explanation
Indices: 13409501--13409535 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
13409491 ATAATATAAG
*
13409501 ATAATTTAAAACAATGA
1 ATAATATAAAA-AATGA
13409518 ATAATATAAAAAATGA
1 ATAATATAAAAAATGA
13409534 AT
1 AT
13409536 GATAATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (16 bp):
ATAATATAAAAAATGA
Found at i:13412189 original size:39 final size:39
Alignment explanation
Indices: 13412122--13412495 Score: 604
Period size: 39 Copynumber: 9.5 Consensus size: 39
13412112 ACAAAGCATG
* *
13412122 CGGGACTTTAAGCCCGAATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
13412163 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
13412202 CGGGGCTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * * * *
13412241 CGGGGCTAAGCTCGAATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
13412280 CGGGACTTATCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
13412319 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
13412358 TGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
13412397 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
13412436 CGGGACTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
13412475 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
13412496 TTCTCCATTA
Statistics
Matches: 312, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 305 0.98
40 2 0.01
41 5 0.02
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:13415995 original size:20 final size:19
Alignment explanation
Indices: 13415951--13415995 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
13415941 AATGGGAGGG
13415951 AGTAAAAATTTTGGGGAAA
1 AGTAAAAATTTTGGGGAAA
*
13415970 AATAAAAATTTTTGAGGG-AA
1 AGTAAAAA-TTTTG-GGGAAA
13415990 AGTAAA
1 AGTAAA
13415996 TGGGAGAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 7 0.32
20 12 0.55
21 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.22, T:0.27
Consensus pattern (19 bp):
AGTAAAAATTTTGGGGAAA
Found at i:13419974 original size:14 final size:14
Alignment explanation
Indices: 13419955--13419983 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13419945 TGGCAACCTG
13419955 ATATGAAACGTGTA
1 ATATGAAACGTGTA
13419969 ATATGAAACGTGTA
1 ATATGAAACGTGTA
13419983 A
1 A
13419984 GACCATGGTT
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:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
ATATGAAACGTGTA
Found at i:13420021 original size:46 final size:46
Alignment explanation
Indices: 13419969--13420230 Score: 373
Period size: 46 Copynumber: 5.7 Consensus size: 46
13419959 GAAACGTGTA
*
13419969 ATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
13420015 ATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
13420061 ATATGAAACGTGTAAGACCGTGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
13420107 ATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACGTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
** ** * *
13420153 ATGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAACATG
1 AT-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
13420200 ATA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATATG-AAATGTGTAAGACCATGGTTGAAAGA
13420231 CACTATGGTA
Statistics
Matches: 198, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 158 0.80
47 39 0.20
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:13421827 original size:46 final size:46
Alignment explanation
Indices: 13421775--13421865 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
13421765 AATAATATTT
*
13421775 TAATTAAGATCGTTTTCATTTAATAAATGAAAATTAATAGGCTTGC
1 TAATTAAGATCATTTTCATTTAATAAATGAAAATTAATAGGCTTGC
*
13421821 TAATTAAGATCATTTTCATTTAATAAATGATAATTAATAGGCTTG
1 TAATTAAGATCATTTTCATTTAATAAATGAAAATTAATAGGCTTG
13421866 TTTATATGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.41
Consensus pattern (46 bp):
TAATTAAGATCATTTTCATTTAATAAATGAAAATTAATAGGCTTGC
Found at i:13425501 original size:21 final size:21
Alignment explanation
Indices: 13425477--13425522 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13425467 AATTTTATTG
13425477 ATGATTTTAAGTTGAGCCTTA
1 ATGATTTTAAGTTGAGCCTTA
* * *
13425498 ATGATTTTGAGTTGAGTCTTG
1 ATGATTTTAAGTTGAGCCTTA
13425519 ATGA
1 ATGA
13425523 AATTATGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (21 bp):
ATGATTTTAAGTTGAGCCTTA
Found at i:13429205 original size:31 final size:31
Alignment explanation
Indices: 13429167--13429243 Score: 84
Period size: 35 Copynumber: 2.4 Consensus size: 31
13429157 AGTCCGCATA
*
13429167 TATGAATCCACTAT-TTTCATGAAGTTTCTTC
1 TATGAATCCACTATATTT-ATGAAGTTTCCTC
*
13429198 TATGAATCAACATGTTATATTTATGAAGTTTCCTC
1 TATGAATC--CA--CTATATTTATGAAGTTTCCTC
13429233 TATGAATCCAC
1 TATGAATCCAC
13429244 AAGTACGAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
31 8 0.21
33 4 0.11
35 23 0.61
36 3 0.08
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (31 bp):
TATGAATCCACTATATTTATGAAGTTTCCTC
Found at i:13430563 original size:33 final size:32
Alignment explanation
Indices: 13430526--13430600 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
13430516 GCCTGCCTCT
*
13430526 ACCCTTCAT-TAAGGGGTATTTATAGAGGAGATG
1 ACCCTT-ATCTAA-GGGTACTTATAGAGGAGATG
*
13430559 ACCCTTATCTTAGGGTACTTATAGAGGAGATG
1 ACCCTTATCTAAGGGTACTTATAGAGGAGATG
*
13430591 GCCCTTATCT
1 ACCCTTATCT
13430601 TTTGAGCCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 30 0.79
33 8 0.21
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (32 bp):
ACCCTTATCTAAGGGTACTTATAGAGGAGATG
Found at i:13430581 original size:32 final size:32
Alignment explanation
Indices: 13430539--13430601 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
13430529 CTTCATTAAG
*
13430539 GGGTATTTATAGAGGAGATGACCCTTATCTTA
1 GGGTACTTATAGAGGAGATGACCCTTATCTTA
*
13430571 GGGTACTTATAGAGGAGATGGCCCTTATCTT
1 GGGTACTTATAGAGGAGATGACCCTTATCTT
13430602 TTGAGCCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.33
Consensus pattern (32 bp):
GGGTACTTATAGAGGAGATGACCCTTATCTTA
Found at i:13456179 original size:16 final size:17
Alignment explanation
Indices: 13456158--13456192 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
13456148 TAATGTCTAG
13456158 GAAAATTA-TTAATTGA
1 GAAAATTAGTTAATTGA
13456174 GAAAATTAGTTTAATTGA
1 GAAAATTAG-TTAATTGA
13456192 G
1 G
13456193 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (17 bp):
GAAAATTAGTTAATTGA
Found at i:13465999 original size:54 final size:53
Alignment explanation
Indices: 13465869--13466014 Score: 147
Period size: 54 Copynumber: 2.7 Consensus size: 53
13465859 TGTCATACAA
* * *
13465869 GCAAT-CATATAGAGTACGCCACCAAGTCGATCCA-TTCAAAGTATGCCACAAAG
1 GCAATCCAT-TAGAGTACGCCACAAAGGCGATCCAGTT-AAAGTACGCCACAAAG
* *
13465922 GCAATCCATTCAAAATGTA--CCACAAAGGCGAGCCAGTTAAAGTACGCCACAAAG
1 GCAATCCATT--AGA-GTACGCCACAAAGGCGATCCAGTTAAAGTACGCCACAAAG
* *
13465976 GCGATCCAATTAGAGTACGCCACAAAGGCAATCCAGTTA
1 GCAATCC-ATTAGAGTACGCCACAAAGGCGATCCAGTTA
13466015 GAGTTTGCTA
Statistics
Matches: 76, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
52 3 0.04
53 8 0.11
54 55 0.72
55 7 0.09
56 3 0.04
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.17
Consensus pattern (53 bp):
GCAATCCATTAGAGTACGCCACAAAGGCGATCCAGTTAAAGTACGCCACAAAG
Found at i:13466018 original size:27 final size:26
Alignment explanation
Indices: 13465881--13466010 Score: 129
Period size: 27 Copynumber: 4.8 Consensus size: 26
13465871 AATCATATAG
* *
13465881 AGTACGCCACCAAGTCGATCCATTCAA
1 AGTACGCCACAAAGGCGATCCATT-AA
* *
13465908 AGTATGCCACAAAGGCAATCCATTCAAA
1 AGTACGCCACAAAGGCGATCCATT--AA
*
13465936 ATGTA--CCACAAAGGCGAGCCAGTTAA
1 A-GTACGCCACAAAGGCGATCCA-TTAA
*
13465962 AGTACGCCACAAAGGCGATCCAATTAG
1 AGTACGCCACAAAGGCGATCC-ATTAA
*
13465989 AGTACGCCACAAAGGCAATCCA
1 AGTACGCCACAAAGGCGATCCA
13466011 GTTAGAGTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
25 3 0.03
26 4 0.05
27 71 0.82
28 6 0.07
29 3 0.03
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.15
Consensus pattern (26 bp):
AGTACGCCACAAAGGCGATCCATTAA
Found at i:13468941 original size:31 final size:31
Alignment explanation
Indices: 13468906--13468965 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
13468896 CAACCCAGTT
* *
13468906 ACTTAAATGAAAACTTTCGAATAGTTCAATG
1 ACTTAAATGAAAACTTCCAAATAGTTCAATG
* *
13468937 ACTTAAATGGAAGCTTCCAAATAGTTCAA
1 ACTTAAATGAAAACTTCCAAATAGTTCAA
13468966 CAATCATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (31 bp):
ACTTAAATGAAAACTTCCAAATAGTTCAATG
Found at i:13469476 original size:6 final size:6
Alignment explanation
Indices: 13469465--13469490 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13469455 TTTAATTTAA
13469465 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
13469491 GCTTTTGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:13472491 original size:6 final size:6
Alignment explanation
Indices: 13472482--13472506 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13472472 CCTCTTGACC
13472482 GTCCTG GTCCTG GTCCTG GTCCTG G
1 GTCCTG GTCCTG GTCCTG GTCCTG G
13472507 AACACTGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (6 bp):
GTCCTG
Done.