Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 149 of 189
Found at i:45118334 original size:53 final size:53
Alignment explanation
Indices: 45118275--45118500 Score: 249
Period size: 53 Copynumber: 4.2 Consensus size: 53
45118265 ATTTTTTTAG
45118275 TCAAATTATTAATTATTAATTGTATTAATTGTTAGTAAATTTATCAAATTATA
1 TCAAATTATTAATTATTAATTGTATTAATTGTTAGTAAATTTATCAAATTATA
* *
45118328 TCAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATA
1 TCAAATTATTAATTATTAATTGTATTAATTGTTAGTAAATTTATCAAATTATA
* ** ** * * ** *
45118381 TCAAATTATTAATTGTTAGTACCAGTCAAAACATT-TT-GTAAAATCTAACATTTTGTTA
1 TCAAATTATTAATTATTA--A-TTGT-ATTA-ATTGTTAGT-AAATTTATCAAATT-ATA
45118439 GTCAAATTATTAATTATTAATTGTATTAATTGTTAGTAAATTTATCAAATTATA
1 -TCAAATTATTAATTATTAATTGTATTAATTGTTAGTAAATTTATCAAATTATA
*
45118493 TCATATTA
1 TCAAATTA
45118501 GGGTTAGAGT
Statistics
Matches: 140, Mismatches: 23, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
53 76 0.54
54 5 0.04
55 15 0.11
56 8 0.06
57 14 0.10
58 5 0.04
59 17 0.12
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.46
Consensus pattern (53 bp):
TCAAATTATTAATTATTAATTGTATTAATTGTTAGTAAATTTATCAAATTATA
Found at i:45118601 original size:15 final size:15
Alignment explanation
Indices: 45118549--45118602 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
45118539 GGGCTTGGAT
45118549 AGTTAAGGGTTTTTA
1 AGTTAAGGGTTTTTA
* *
45118564 ATTTAAGGG-TTAT-
1 AGTTAAGGGTTTTTA
*
45118577 GGTT-AGGGTTTTTA
1 AGTTAAGGGTTTTTA
45118591 AGTTAAGGGTTT
1 AGTTAAGGGTTT
45118603 AGAGTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
12 4 0.13
13 5 0.17
14 6 0.20
15 15 0.50
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (15 bp):
AGTTAAGGGTTTTTA
Found at i:45118604 original size:22 final size:22
Alignment explanation
Indices: 45118579--45118747 Score: 182
Period size: 22 Copynumber: 7.5 Consensus size: 22
45118569 AGGGTTATGG
45118579 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
45118601 TTAGAGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAGGGT
* *
45118622 TTAGGGTATTTAAGTTAAAGG-
1 TTAGGGTTTTTAAGTTAAGGGT
* *
45118643 TTAGGGTATTTAAGTTAATGGT
1 TTAGGGTTTTTAAGTTAAGGGT
*
45118665 TTATGGTTTTTAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAAGGGT
45118687 TTAGGGTTTAGGGTTTTCAAGTTAAGGGT
1 TTAGGG--T----TTTT-AAGTTAAGGGT
*
45118716 TTAGGGTTTTTAAGTTAAAGG-
1 TTAGGGTTTTTAAGTTAAGGGT
*
45118737 TTATGGTTTTT
1 TTAGGGTTTTT
45118748 GTTAGGGTTT
Statistics
Matches: 128, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
21 48 0.38
22 53 0.41
23 4 0.03
24 1 0.01
27 1 0.01
28 4 0.03
29 17 0.13
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.46
Consensus pattern (22 bp):
TTAGGGTTTTTAAGTTAAGGGT
Found at i:45118610 original size:21 final size:21
Alignment explanation
Indices: 45118579--45118695 Score: 139
Period size: 21 Copynumber: 5.4 Consensus size: 21
45118569 AGGGTTATGG
45118579 TTAGGGTTTTTAAGTTAAGGGT
1 TTAGGG-TTTTAAGTTAAGGGT
*
45118601 TTAGAGTTTTTAAGTTAAGGG-
1 TTAG-GGTTTTAAGTTAAGGGT
*
45118622 TTAGGGTATTTAAGTTAAAGG-
1 TTAGGGT-TTTAAGTTAAGGGT
*
45118643 TTAGGGTATTTAAGTTAATGGT
1 TTAGGGT-TTTAAGTTAAGGGT
*
45118665 TTATGGTTTTTAAGTTAAGGGT
1 TTA-GGGTTTTAAGTTAAGGGT
45118687 TTAGGGTTT
1 TTAGGGTTT
45118696 AGGGTTTTCA
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
20 2 0.02
21 41 0.49
22 37 0.44
23 4 0.05
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (21 bp):
TTAGGGTTTTAAGTTAAGGGT
Found at i:45118695 original size:29 final size:29
Alignment explanation
Indices: 45118662--45118724 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
45118652 TTAAGTTAAT
* *
45118662 GGTTTATGGTTTTTAAGTTAAGGGTTTAG
1 GGTTTAGGGTTTTCAAGTTAAGGGTTTAG
45118691 GGTTTAGGGTTTTCAAGTTAAGGGTTTAG
1 GGTTTAGGGTTTTCAAGTTAAGGGTTTAG
45118720 GGTTT
1 GGTTT
45118725 TTAAGTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (29 bp):
GGTTTAGGGTTTTCAAGTTAAGGGTTTAG
Found at i:45118745 original size:43 final size:42
Alignment explanation
Indices: 45118579--45118746 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 42
45118569 AGGGTTATGG
* *
45118579 TTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTTTAAGTTAAGGG-
1 TTAGGGTTTTTAAGTTAAAGG-TTAG-GGTTTTAAGTTAAGGGT
* *
45118622 TTAGGGTATTTAAGTTAAAGGTTAGGGTATTTAAGTTAATGGT
1 TTAGGGTTTTTAAGTTAAAGGTTAGGGT-TTTAAGTTAAGGGT
*
45118665 TTATGGTTTTTAAGTTAAGGGTTTAGGGTTTAGGGTTTTCAAGTTAAGGGT
1 TTAGGGTTTTTAAGTTAA------A-GG-TTAGGGTTTT-AAGTTAAGGGT
*
45118716 TTAGGGTTTTTAAGTTAAAGGTTATGGTTTT
1 TTAGGGTTTTTAAGTTAAAGGTTAGGGTTTT
45118747 TGTTAGGGTT
Statistics
Matches: 105, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
41 2 0.02
42 16 0.15
43 44 0.42
44 2 0.02
45 1 0.01
49 1 0.01
50 5 0.05
51 34 0.32
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (42 bp):
TTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTAAGTTAAGGGT
Found at i:45118776 original size:7 final size:7
Alignment explanation
Indices: 45118764--45118803 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
45118754 GTTTGTCAAT
45118764 TAAATTA
1 TAAATTA
45118771 TAAATT-
1 TAAATTA
45118777 T-AATTA
1 TAAATTA
45118783 TAAATTA
1 TAAATTA
45118790 TAAATTTA
1 TAAA-TTA
45118798 TAAATT
1 TAAATT
45118804 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:45118776 original size:12 final size:12
Alignment explanation
Indices: 45118761--45118803 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
45118751 AGGGTTTGTC
45118761 AATTAAATTATA
1 AATTAAATTATA
*
45118773 AATTTAATTATA
1 AATTAAATTATA
45118785 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
45118800 AATT
1 AATT
45118804 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:45121131 original size:16 final size:15
Alignment explanation
Indices: 45121110--45121139 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
45121100 TTTAAAAAAA
45121110 TTTTAAAAATTAATTT
1 TTTTAAAAA-TAATTT
45121126 TTTTAAAAATAATT
1 TTTTAAAAATAATT
45121140 AAAAAAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTAAAAATAATTT
Found at i:45121217 original size:51 final size:51
Alignment explanation
Indices: 45121144--45121241 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
45121134 ATAATTAAAA
45121144 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAAATT
* * * *
45121195 AAATATGGATTTGAGAGTAATTTGGAAGGAAATTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGA
45121242 GAGGAAATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.26, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAAATT
Found at i:45121240 original size:11 final size:11
Alignment explanation
Indices: 45121224--45121255 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
45121214 ATTTGGAAGG
45121224 AAATTGAGAGC
1 AAATTGAGAGC
*
45121235 AAATTGAGAGG
1 AAATTGAGAGC
45121246 AAATTGAGAG
1 AAATTGAGAG
45121256 ATGATTAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.31, T:0.19
Consensus pattern (11 bp):
AAATTGAGAGC
Found at i:45121756 original size:31 final size:31
Alignment explanation
Indices: 45121721--45121790 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
45121711 TTACAAAATG
45121721 GTCATTGAACTATTCAAAAGTTCTCATTTAA
1 GTCATTGAACTATTCAAAAGTTCTCATTTAA
* * *
45121752 GTCATTGGACTATTCAGAAGTTTTCATTTAA
1 GTCATTGAACTATTCAAAAGTTCTCATTTAA
45121783 GTCATTGA
1 GTCATTGA
45121791 GTTGTTATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (31 bp):
GTCATTGAACTATTCAAAAGTTCTCATTTAA
Found at i:45127038 original size:16 final size:16
Alignment explanation
Indices: 45127017--45127049 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45127007 ATTGATAAAA
45127017 ATACAAAAAAACAAAC
1 ATACAAAAAAACAAAC
*
45127033 ATACAAACAAACAAAC
1 ATACAAAAAAACAAAC
45127049 A
1 A
45127050 AAACGTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.21, G:0.00, T:0.06
Consensus pattern (16 bp):
ATACAAAAAAACAAAC
Found at i:45128982 original size:50 final size:50
Alignment explanation
Indices: 45128928--45129052 Score: 160
Period size: 50 Copynumber: 2.5 Consensus size: 50
45128918 TATCTCAGAT
** * *
45128928 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
** * * * *
45128978 ATGGTCTTACGGGGGACCTATCATCTCGGTGCCAACGCTATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
45129028 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACATGGGACCTCTCATA
45129053 ATCTCAATGA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAAC
Found at i:45132965 original size:238 final size:239
Alignment explanation
Indices: 45132535--45133016 Score: 851
Period size: 238 Copynumber: 2.0 Consensus size: 239
45132525 TCCCAACAAT
*
45132535 CTCTCACTTGCCCTAGTGAAGTAAATGTGTCATGTTTCACATTCTCATATCCTTGACATATTTGT
1 CTCTCACTTGACCTAGTGAAGTAAATGTGTCATGTTTCACATTCTCATATCCTTGACATATTTGT
45132600 TAAAACTCCTAATTATAAGAGTCCCAACAAACGAATCCGAAAGGTTATATTGAGAAGTTACTTTC
66 TAAAACTCCTAATTATAAGAGTCCCAACAAACGAATCCGAAAGGTTATATTGAGAAGTTACTTTC
* * **
45132665 ACCACGTCTACTAGTCCTTCAACTAAACATATATCTGGACATGTGCAAAGCATATTATAGCATAC
131 ACCACATCTACTAGTACTTCAACTAAACATATATCTGGACATGTGCAAAGCATAGCATAGCATAC
45132730 ATAAGGCTTCTAATCGCCAATGCATATGGATCCTTACTCTTATG
196 ATAAGGCTTCTAATCGCCAATGCATATGGATCCTTACTCTTATG
*
45132774 CTCTCACTT-ACCTAGTGAAGTAAATGTGTCATGTTTCACATTCTCATATCCTTGACATGTTTGT
1 CTCTCACTTGACCTAGTGAAGTAAATGTGTCATGTTTCACATTCTCATATCCTTGACATATTTGT
* *
45132838 TAAAACTCCTAATTATAATAGTCTCAACAAACGAATCCGAAAGGTTATATTGAGAAGTTACTTTC
66 TAAAACTCCTAATTATAAGAGTCCCAACAAACGAATCCGAAAGGTTATATTGAGAAGTTACTTTC
* *
45132903 CCCGCATCTACTAGTACTTCAACTAAACATATATCTGGA-AGTGTGCAAAGCATAGCATAGCATA
131 ACCACATCTACTAGTACTTCAACTAAACATATATCTGGACA-TGTGCAAAGCATAGCATAGCATA
45132967 CATAAGGCTTCTAATCGCCAATGCATATGGATCCTTACTCTTATG
195 CATAAGGCTTCTAATCGCCAATGCATATGGATCCTTACTCTTATG
45133012 CTCTC
1 CTCTC
45133017 TTTCTTCTGC
Statistics
Matches: 232, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
237 1 0.00
238 222 0.96
239 9 0.04
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (239 bp):
CTCTCACTTGACCTAGTGAAGTAAATGTGTCATGTTTCACATTCTCATATCCTTGACATATTTGT
TAAAACTCCTAATTATAAGAGTCCCAACAAACGAATCCGAAAGGTTATATTGAGAAGTTACTTTC
ACCACATCTACTAGTACTTCAACTAAACATATATCTGGACATGTGCAAAGCATAGCATAGCATAC
ATAAGGCTTCTAATCGCCAATGCATATGGATCCTTACTCTTATG
Found at i:45137846 original size:29 final size:29
Alignment explanation
Indices: 45137804--45137861 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
45137794 AATGCCTTAG
45137804 TCTTCTTCTTATTCACACGAGGTGGAACA
1 TCTTCTTCTTATTCACACGAGGTGGAACA
45137833 TCTTCTTCTTATTCACACGAGGTGGAACA
1 TCTTCTTCTTATTCACACGAGGTGGAACA
45137862 GAAGAATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (29 bp):
TCTTCTTCTTATTCACACGAGGTGGAACA
Found at i:45143026 original size:90 final size:90
Alignment explanation
Indices: 45142832--45143030 Score: 215
Period size: 90 Copynumber: 2.2 Consensus size: 90
45142822 AGGAGGAAGC
* ** * * * *
45142832 TCTGGCAAAATATTAATTTGCAATTATGGTGGTTCATCCACATATTATACAACAACTTTTATTTG
1 TCTGGCAAAATATTAACTTGCAATTATGGCAGTTCACCCACATATTATACAACAACTCTCATATG
*
45142897 CAATTAAGTTGTGTATTCAGAACCA
66 CAATTAAGTTGTGTATTCACAACCA
* ***
45142922 TCTGGTAGTGTATTAACTTGCAA-TATTGGCAGTTCACCCAC-TCATTAT-CTAACAACTCTCAT
1 TCTGGCAAAATATTAACTTGCAATTA-TGGCAGTTCACCCACAT-ATTATAC-AACAACTCTCAT
* *
45142984 ATGCATTTATGTTGTGTATTCACAACCA
63 ATGCAATTAAGTTGTGTATTCACAACCA
*
45143012 TCTGGCAACATATTAACTT
1 TCTGGCAAAATATTAACTT
45143031 TCAACTTTGT
Statistics
Matches: 88, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
89 4 0.05
90 84 0.95
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (90 bp):
TCTGGCAAAATATTAACTTGCAATTATGGCAGTTCACCCACATATTATACAACAACTCTCATATG
CAATTAAGTTGTGTATTCACAACCA
Found at i:45144049 original size:32 final size:31
Alignment explanation
Indices: 45144013--45144079 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
45144003 TAAATAACAT
*
45144013 TATAAATAA-TACAAAAATTACTTAATATTTTA
1 TATAAATAATTA-AAAAATTACTTAA-ATTATA
* *
45144045 TATAATTAATTATAAAATTACTTAAATTATA
1 TATAAATAATTAAAAAATTACTTAAATTATA
45144076 TATA
1 TATA
45144080 TAAGGTCAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 9 0.29
32 20 0.65
33 2 0.06
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (31 bp):
TATAAATAATTAAAAAATTACTTAAATTATA
Found at i:45160152 original size:21 final size:21
Alignment explanation
Indices: 45160126--45160181 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
45160116 GGTTAGGTAG
45160126 TGAAGAAGAAAAATGGTGTTT
1 TGAAGAAGAAAAATGGTGTTT
45160147 TGAAGAAGAAAAATGGTGTTT
1 TGAAGAAGAAAAATGGTGTTT
*
45160168 GGCAAGAGAGAAAA
1 TG-AAGA-AGAAAA
45160182 TGAGAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 22 0.69
22 4 0.12
23 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.21
Consensus pattern (21 bp):
TGAAGAAGAAAAATGGTGTTT
Found at i:45160446 original size:68 final size:68
Alignment explanation
Indices: 45160317--45160445 Score: 222
Period size: 69 Copynumber: 1.9 Consensus size: 68
45160307 GAAATGAGCT
*
45160317 AACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAAATAGC
1 AACCATATGTTTTGAAGAAAAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAAATAGC
45160382 AGC
66 AGC
* *
45160385 AACCATGTGTTTTGAATAAAAAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAA
1 AACCATATGTTTTGAAGAAAAAAAA-TGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAA
45160446 TTTGTTAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
68 22 0.39
69 35 0.61
ACGTcount: A:0.49, C:0.06, G:0.25, T:0.20
Consensus pattern (68 bp):
AACCATATGTTTTGAAGAAAAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAAATAGC
AGC
Found at i:45162996 original size:43 final size:42
Alignment explanation
Indices: 45162940--45163103 Score: 147
Period size: 43 Copynumber: 3.9 Consensus size: 42
45162930 TACCGTAACA
* * * * *
45162940 ATGCCATATCCCAGATATGATCTTACA-TATAATCTCGTATCG
1 ATGCAATAGCCCAGATATGGTCTTACACGA-AATCTCATATCG
* *
45162982 ATGTTAATAGCCCAG-TCATGGTCTTACACGAAATCACATATCG
1 ATG-CAATAGCCCAGAT-ATGGTCTTACACGAAATCTCATATCG
* *
45163025 ATGCCAAT-GTCCCAGACATGGTCTTACACGAATTCTCATATCG
1 ATG-CAATAG-CCCAGATATGGTCTTACACGAAATCTCATATCG
* *
45163068 ATGCCATATCCCAGATATGGTCTTACAC-ATAATCTC
1 ATGCAATAGCCCAGATATGGTCTTACACGA-AATCTC
45163104 GGTAACCCTA
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 31 0.31
43 66 0.67
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCAATAGCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:45167467 original size:18 final size:19
Alignment explanation
Indices: 45167436--45167477 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
45167426 GGAAATTTGG
45167436 GGAAA-GAGGAGGGGAGGA
1 GGAAAGGAGGAGGGGAGGA
*
45167454 GTAAAGGAGG-GGGGAGGA
1 GGAAAGGAGGAGGGGAGGA
45167472 GGAAAG
1 GGAAAG
45167478 AGAATGTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.02
Consensus pattern (19 bp):
GGAAAGGAGGAGGGGAGGA
Found at i:45183188 original size:31 final size:32
Alignment explanation
Indices: 45183129--45183193 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
45183119 GGCAAATTAC
45183129 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
45183161 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
45183192 AA
1 AA
45183194 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:45186356 original size:11 final size:11
Alignment explanation
Indices: 45186342--45186417 Score: 72
Period size: 11 Copynumber: 7.0 Consensus size: 11
45186332 TTTTTTGCGC
45186342 TTTTTGCTTTT
1 TTTTTGCTTTT
45186353 TTTTT-C--TT
1 TTTTTGCTTTT
45186361 TTTTT-CTTTT
1 TTTTTGCTTTT
45186371 GCGCTTTTTGCTTTT
1 ----TTTTTGCTTTT
*
45186386 TTTTTGCTGTT
1 TTTTTGCTTTT
45186397 TTTTT-CTTTT
1 TTTTTGCTTTT
45186407 TTTTTGCTTTT
1 TTTTTGCTTTT
45186418 ATTTAAAGAA
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
8 8 0.15
10 12 0.22
11 25 0.45
14 5 0.09
15 5 0.09
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (11 bp):
TTTTTGCTTTT
Found at i:45186371 original size:33 final size:35
Alignment explanation
Indices: 45186328--45186406 Score: 128
Period size: 33 Copynumber: 2.3 Consensus size: 35
45186318 GGTAGGCAAC
45186328 TTTTTT-TTTTGCGCTTTTTGCTTTTTTTTT-C-T
1 TTTTTTCTTTTGCGCTTTTTGCTTTTTTTTTGCGT
45186360 TTTTTTCTTTTGCGCTTTTTGCTTTTTTTTTGCTGT
1 TTTTTTCTTTTGCGCTTTTTGCTTTTTTTTTGC-GT
45186396 TTTTTTCTTTT
1 TTTTTTCTTTT
45186407 TTTTTGCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
32 6 0.14
33 24 0.56
34 1 0.02
36 12 0.28
ACGTcount: A:0.00, C:0.13, G:0.10, T:0.77
Consensus pattern (35 bp):
TTTTTTCTTTTGCGCTTTTTGCTTTTTTTTTGCGT
Found at i:45186647 original size:4 final size:4
Alignment explanation
Indices: 45186633--45186663 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
45186623 TAAAATTAGT
45186633 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
45186664 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:45187025 original size:31 final size:32
Alignment explanation
Indices: 45186966--45187030 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
45186956 GGCAAATTAC
45186966 AAGAGTAACTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAACTGAATCCTAATAAAAACTCTTTA
*
45186998 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAACTGAATCCTAATAAAAACTCTTTA
45187029 AA
1 AA
45187031 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (32 bp):
AAGAGTAACTGAATCCTAATAAAAACTCTTTA
Found at i:45189945 original size:17 final size:18
Alignment explanation
Indices: 45189912--45189945 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45189902 AGTAACTCAT
*
45189912 TTATTAATCTAAGATGAG
1 TTATTAATCTAAAATGAG
45189930 TTATTAA-CTAAAATGA
1 TTATTAATCTAAAATGA
45189946 ACTCAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAAATGAG
Found at i:45196288 original size:41 final size:40
Alignment explanation
Indices: 45196243--45196349 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 40
45196233 TTTCTGAATC
*
45196243 AATGAAAATGTTGAAAAGGAAGTTATCCGAAAAGGATAATA
1 AATGAAAA-GTTGAAAAGGAAGTTATCCGAAAAGGATAACA
*
45196284 AATGAAAAGGTTGAAAAGGAAGTTATCTGAAAAGGATAACA
1 AATGAAAA-GTTGAAAAGGAAGTTATCCGAAAAGGATAACA
*
45196325 AATGAAAAGATTGAAAAGGATGTTA
1 AATGAAAAG-TTGAAAAGGAAGTTA
45196350 ACCAGTGTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.02
41 60 0.98
ACGTcount: A:0.51, C:0.04, G:0.23, T:0.21
Consensus pattern (40 bp):
AATGAAAAGTTGAAAAGGAAGTTATCCGAAAAGGATAACA
Found at i:45196540 original size:23 final size:23
Alignment explanation
Indices: 45196495--45196542 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
45196485 AATAAAATAC
*
45196495 CCTAACCCGAAATACTAACTAAA
1 CCTAACCCGAAATACCAACTAAA
* * *
45196518 CCTAACCCGAATTACCCATTAAA
1 CCTAACCCGAAATACCAACTAAA
45196541 CC
1 CC
45196543 CTAGCCCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.35, G:0.04, T:0.19
Consensus pattern (23 bp):
CCTAACCCGAAATACCAACTAAA
Found at i:45204481 original size:17 final size:18
Alignment explanation
Indices: 45204459--45204492 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45204449 TTTTTAATTA
45204459 TTATTT-AGAAAAATATT
1 TTATTTAAGAAAAATATT
*
45204476 TTATTTAAGAACAATAT
1 TTATTTAAGAAAAATAT
45204493 AAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (18 bp):
TTATTTAAGAAAAATATT
Found at i:45204546 original size:15 final size:15
Alignment explanation
Indices: 45204521--45204555 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45204511 ATTAGTAATT
*
45204521 ATTATTATTATTTTA
1 ATTAATATTATTTTA
*
45204536 TTTAATATTATTTTA
1 ATTAATATTATTTTA
45204551 ATTAA
1 ATTAA
45204556 AAAATTAGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTAATATTATTTTA
Found at i:45204816 original size:16 final size:16
Alignment explanation
Indices: 45204797--45204827 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45204787 AATATCATAA
*
45204797 AAAATAATTTTATTAT
1 AAAATAATTTGATTAT
45204813 AAAATAATTTGATTA
1 AAAATAATTTGATTA
45204828 AATATAGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
AAAATAATTTGATTAT
Found at i:45208940 original size:15 final size:15
Alignment explanation
Indices: 45208920--45208950 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45208910 TTCCATTTTT
45208920 CTTTTCTAATTTCGG
1 CTTTTCTAATTTCGG
45208935 CTTTTCTAATTTCGG
1 CTTTTCTAATTTCGG
45208950 C
1 C
45208951 AAGATGGGCT
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:0.13, C:0.23, G:0.13, T:0.52
Consensus pattern (15 bp):
CTTTTCTAATTTCGG
Found at i:45218346 original size:22 final size:22
Alignment explanation
Indices: 45218320--45218363 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
45218310 TTTTTTATTT
45218320 AATTCAGACATTTAAACAAGCC
1 AATTCAGACATTTAAACAAGCC
45218342 AATTCAGACATTTAAACAAGCC
1 AATTCAGACATTTAAACAAGCC
45218364 TTTGTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (22 bp):
AATTCAGACATTTAAACAAGCC
Found at i:45222696 original size:15 final size:15
Alignment explanation
Indices: 45222676--45222730 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
45222666 CCCAACCAGC
45222676 TTCTTCCGCCGCCCA
1 TTCTTCCGCCGCCCA
* *
45222691 TTCTTCCTCCAAACCCA
1 TTCTTCCGCC--GCCCA
*
45222708 CTTCTGCCGCCGCCCA
1 -TTCTTCCGCCGCCCA
45222724 TTCTTCC
1 TTCTTCC
45222731 TCCAAACCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 15 0.48
16 4 0.13
17 4 0.13
18 8 0.26
ACGTcount: A:0.11, C:0.51, G:0.09, T:0.29
Consensus pattern (15 bp):
TTCTTCCGCCGCCCA
Found at i:45222712 original size:18 final size:17
Alignment explanation
Indices: 45222687--45222745 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
45222677 TCTTCCGCCG
45222687 CCCATTCTTCCTCCAAA
1 CCCATTCTTCCTCCAAA
* * *
45222704 CCCACTTCTGCCGCC--G
1 CCCA-TTCTTCCTCCAAA
45222720 CCCATTCTTCCTCCAAA
1 CCCATTCTTCCTCCAAA
45222737 CCCACTTCT
1 CCCA-TTCT
45222746 GCCACCCCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
15 8 0.25
16 4 0.12
17 8 0.25
18 12 0.38
ACGTcount: A:0.17, C:0.51, G:0.05, T:0.27
Consensus pattern (17 bp):
CCCATTCTTCCTCCAAA
Found at i:45222718 original size:33 final size:33
Alignment explanation
Indices: 45222675--45222784 Score: 141
Period size: 33 Copynumber: 3.3 Consensus size: 33
45222665 TCCCAACCAG
*
45222675 CTTCTTCCGCCGCCCATTCTTCCTCCAAACCCA
1 CTTCTGCCGCCGCCCATTCTTCCTCCAAACCCA
45222708 CTTCTGCCGCCGCCCATTCTTCCTCCAAACCCA
1 CTTCTGCCGCCGCCCATTCTTCCTCCAAACCCA
* * * *
45222741 CTTCTGCCACC-CCCAGTGCTCCCTCCTAACCCA
1 CTTCTGCCGCCGCCCA-TTCTTCCTCCAAACCCA
* *
45222774 TTTCAGCCGCC
1 CTTCTGCCGCC
45222785 ACCAGCTCCA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
32 4 0.06
33 64 0.94
ACGTcount: A:0.15, C:0.52, G:0.09, T:0.25
Consensus pattern (33 bp):
CTTCTGCCGCCGCCCATTCTTCCTCCAAACCCA
Found at i:45222854 original size:36 final size:36
Alignment explanation
Indices: 45222768--45222861 Score: 152
Period size: 36 Copynumber: 2.6 Consensus size: 36
45222758 GCTCCCTCCT
* *
45222768 AACCCATTTCAGCCGCCACCAGCTCCACTAGTTCCA
1 AACCCATTGCAGCCTCCACCAGCTCCACTAGTTCCA
45222804 AACCCATTGCAGCCTCCACCAGCTCCACTAGTTCCA
1 AACCCATTGCAGCCTCCACCAGCTCCACTAGTTCCA
* *
45222840 GACCCATTGCAGCCTCCTCCAG
1 AACCCATTGCAGCCTCCACCAG
45222862 AACCTGCAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.23, C:0.45, G:0.13, T:0.19
Consensus pattern (36 bp):
AACCCATTGCAGCCTCCACCAGCTCCACTAGTTCCA
Found at i:45227626 original size:4 final size:4
Alignment explanation
Indices: 45227617--45227644 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
45227607 TTAAACTAAG
45227617 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
45227645 AATAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:45229048 original size:23 final size:22
Alignment explanation
Indices: 45228996--45229048 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
45228986 TCCACGTCTT
*
45228996 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
45229018 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
45229041 TTTCTTTT
1 TTTCTTTT
45229049 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:45238857 original size:30 final size:30
Alignment explanation
Indices: 45238785--45238868 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 30
45238775 GGGTAACCTA
*
45238785 ATATAA-GTCAGCTTGTTTGAGCAACCTTG
1 ATATAATGTCAGCTTGTTTGAGCAACCCTG
** * *
45238814 ATA-CGTTTCAGCTTGTTTGAGGAACCCTG
1 ATATAATGTCAGCTTGTTTGAGCAACCCTG
*
45238843 ATATAATGTCAGCTTGTGTGAGCAAC
1 ATATAATGTCAGCTTGTTTGAGCAAC
45238869 TTACTCACTA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
29 26 0.60
30 17 0.40
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (30 bp):
ATATAATGTCAGCTTGTTTGAGCAACCCTG
Found at i:45239819 original size:4 final size:4
Alignment explanation
Indices: 45239810--45239835 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
45239800 TCAAACTTCG
45239810 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
45239836 CAATAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:45249668 original size:22 final size:19
Alignment explanation
Indices: 45249643--45249686 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
45249633 TGATAATAAC
45249643 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
*
45249665 TAATGTATATTAATTATTA
1 TAATATATATTAATTATTA
45249684 TAA
1 TAA
45249687 ATTTTTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
20 1 0.05
21 4 0.19
22 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:45249675 original size:16 final size:15
Alignment explanation
Indices: 45249643--45249681 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
45249633 TGATAATAAC
45249643 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
45249659 TTATTATAATGTATAT
1 TAATTATAAT-TATAT
45249675 TAATTAT
1 TAATTAT
45249682 TATAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:45250376 original size:38 final size:39
Alignment explanation
Indices: 45250270--45250386 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 39
45250260 ATCCAACCCA
* * *
45250270 ACCCAATTACCCAATCCAATAAAATTAAAACTAACGTCT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
* * *
45250309 ACCAAATTACCCAACCCAATAGAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
45250348 ACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
45250386 A
1 A
45250387 ACTCTTAAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 28 0.40
39 42 0.60
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.20
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
Found at i:45250709 original size:28 final size:27
Alignment explanation
Indices: 45250677--45250734 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
45250667 TTAACCGACC
* *
45250677 TAATTAACTGAAAAAATTTCGGTTCGGT
1 TAATT-ACTAAAAAAAATTCGGTTCGGT
**
45250705 TAATTTTTAAAAAAAATTCGGTTCGGT
1 TAATTACTAAAAAAAATTCGGTTCGGT
45250732 TAA
1 TAA
45250735 CGGTTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (27 bp):
TAATTACTAAAAAAAATTCGGTTCGGT
Found at i:45250741 original size:27 final size:27
Alignment explanation
Indices: 45250687--45250744 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
45250677 TAATTAACTG
* ***
45250687 AAAAAATTTCGGTTCGGTTAATTTTTA
1 AAAAAAATTCGGTTCGGTTAACGGTTA
45250714 AAAAAAATTCGGTTCGGTTAACGGTTA
1 AAAAAAATTCGGTTCGGTTAACGGTTA
45250741 AAAA
1 AAAA
45250745 TTTTGGAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (27 bp):
AAAAAAATTCGGTTCGGTTAACGGTTA
Found at i:45256522 original size:16 final size:16
Alignment explanation
Indices: 45256489--45256546 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
45256479 TATTCTGGAC
*
45256489 ATAGTTATTCTCAAACA
1 ATAGTTGTTCT-AAACA
*
45256506 ATAGTTGTTTTAAACA
1 ATAGTTGTTCTAAACA
* ** *
45256522 ACAACTATTCTAAACA
1 ATAGTTGTTCTAAACA
45256538 ATAGTTGTT
1 ATAGTTGTT
45256547 GCTCCAGAAG
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
16 21 0.70
17 9 0.30
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.38
Consensus pattern (16 bp):
ATAGTTGTTCTAAACA
Found at i:45257812 original size:18 final size:18
Alignment explanation
Indices: 45257780--45257814 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45257770 TAAATTTATT
* *
45257780 TTATAAATTATAAATATA
1 TTATAAATAAAAAATATA
45257798 TTATAAATAAAAAATAT
1 TTATAAATAAAAAATAT
45257815 GTATTGAATT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTATAAATAAAAAATATA
Found at i:45261006 original size:27 final size:27
Alignment explanation
Indices: 45260953--45261003 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
45260943 GACTTACTTA
*
45260953 GGTATAAATTAAAATTGTGGATATTAT
1 GGTATAAATTAAAATTGTGAATATTAT
* *
45260980 GGTATAAA-TGAAATTTTGAATATT
1 GGTATAAATTAAAATTGTGAATATT
45261004 TATATTGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (27 bp):
GGTATAAATTAAAATTGTGAATATTAT
Found at i:45261228 original size:18 final size:18
Alignment explanation
Indices: 45261198--45261233 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
45261188 GTTGAACTAG
45261198 TTTTTTTTATTTTTAATA
1 TTTTTTTTATTTTTAATA
45261216 TTTTTATTT-TTTTTAATA
1 TTTTT-TTTATTTTTAATA
45261234 ATTTATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTTTATTTTTAATA
Found at i:45261238 original size:17 final size:18
Alignment explanation
Indices: 45261207--45261240 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45261197 GTTTTTTTTA
*
45261207 TTTTTAATATTTTTATTT
1 TTTTTAATATATTTATTT
45261225 TTTTTAATA-ATTTATT
1 TTTTTAATATATTTATT
45261241 CAATCAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTAATATATTTATTT
Found at i:45261423 original size:17 final size:18
Alignment explanation
Indices: 45261401--45261442 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
45261391 TCTCATATTT
*
45261401 ATTTTAATCAATTTTAG-
1 ATTTTAATAAATTTTAGA
45261418 ATTTTAA-AAATTTTAGA
1 ATTTTAATAAATTTTAGA
45261435 ATTTTAAT
1 ATTTTAAT
45261443 TTTAACTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
ATTTTAATAAATTTTAGA
Found at i:45261431 original size:16 final size:17
Alignment explanation
Indices: 45261410--45261441 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45261400 TATTTTAATC
45261410 AATTTTAG-ATTTTAAA
1 AATTTTAGAATTTTAAA
45261426 AATTTTAGAATTTTAA
1 AATTTTAGAATTTTAA
45261442 TTTTAACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
AATTTTAGAATTTTAAA
Found at i:45265259 original size:5 final size:5
Alignment explanation
Indices: 45265249--45265275 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
45265239 AAAATGGTGG
45265249 TGGTA TGGTA TGGTA TGGTA TGGTA TG
1 TGGTA TGGTA TGGTA TGGTA TGGTA TG
45265276 AGGTAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.41, T:0.41
Consensus pattern (5 bp):
TGGTA
Found at i:45265614 original size:22 final size:21
Alignment explanation
Indices: 45265589--45265629 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
45265579 ACATTTCTCA
45265589 TAAAAAA-AATGAAAACAAAACT
1 TAAAAAAGAA-GAAAA-AAAACT
45265611 TAAAAAAGAAGAAAAAAAA
1 TAAAAAAGAAGAAAAAAAA
45265630 GGGTGTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 12 0.67
23 2 0.11
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (21 bp):
TAAAAAAGAAGAAAAAAAACT
Found at i:45267895 original size:14 final size:14
Alignment explanation
Indices: 45267876--45267908 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
45267866 AATTATTTAC
45267876 ATATTTTTCAAAAA-
1 ATATTTTT-AAAAAG
45267890 ATATTTTTAAAAAG
1 ATATTTTTAAAAAG
45267904 ATATT
1 ATATT
45267909 GGAAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
ATATTTTTAAAAAG
Found at i:45268203 original size:16 final size:17
Alignment explanation
Indices: 45268182--45268214 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45268172 ATTATAAAGC
45268182 AATTTT-AATTTTTAAA
1 AATTTTAAATTTTTAAA
45268198 AATTTTAAATTTTTAAA
1 AATTTTAAATTTTTAAA
45268215 CTGAAGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTTAAATTTTTAAA
Found at i:45269810 original size:19 final size:20
Alignment explanation
Indices: 45269783--45269840 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 20
45269773 GCGCTACCTT
*
45269783 CTTTACAACCTTCTTTG-CA
1 CTTTGCAACCTTCTTTGTCA
*
45269802 CTTTGCAACTATCTCTGTTGTCA
1 CTTTGCAAC-CT-TCT-TTGTCA
45269825 CTTTGCAACCTTCTTT
1 CTTTGCAACCTTCTTT
45269841 ACTTCAGTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 8 0.25
20 3 0.09
21 6 0.19
22 4 0.12
23 11 0.34
ACGTcount: A:0.17, C:0.29, G:0.09, T:0.45
Consensus pattern (20 bp):
CTTTGCAACCTTCTTTGTCA
Found at i:45287809 original size:14 final size:14
Alignment explanation
Indices: 45287790--45287824 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
45287780 GATACAGATG
45287790 ACAGAATCAGATAT
1 ACAGAATCAGATAT
*
45287804 ACAGAA-GAGATAT
1 ACAGAATCAGATAT
45287817 ACAGAATC
1 ACAGAATC
45287825 CTACCCCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.17
Consensus pattern (14 bp):
ACAGAATCAGATAT
Found at i:45288287 original size:17 final size:17
Alignment explanation
Indices: 45288265--45288301 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
45288255 GTGTGGGCCT
*
45288265 ACATGCCCGTGTAGCCC
1 ACATGCACGTGTAGCCC
*
45288282 ACATGCACGTGTGGCCC
1 ACATGCACGTGTAGCCC
45288299 ACA
1 ACA
45288302 CGCCTAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.38, G:0.24, T:0.16
Consensus pattern (17 bp):
ACATGCACGTGTAGCCC
Found at i:45288316 original size:18 final size:18
Alignment explanation
Indices: 45288293--45288333 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45288283 CATGCACGTG
45288293 TGGCCCACACGC-CTAACT
1 TGGCCCACACGCAC-AACT
*
45288311 TGGCCCATACGCACAACT
1 TGGCCCACACGCACAACT
45288329 TGGCC
1 TGGCC
45288334 TAGCCCGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.22, C:0.41, G:0.20, T:0.17
Consensus pattern (18 bp):
TGGCCCACACGCACAACT
Found at i:45288429 original size:12 final size:12
Alignment explanation
Indices: 45288412--45288445 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
45288402 TCGTGTCTCG
*
45288412 CACACGGCTAAC
1 CACACGGCCAAC
45288424 CACACGGCCAAC
1 CACACGGCCAAC
45288436 CACACGGCCA
1 CACACGGCCA
45288446 GGCACGCGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.32, C:0.47, G:0.18, T:0.03
Consensus pattern (12 bp):
CACACGGCCAAC
Found at i:45289833 original size:41 final size:42
Alignment explanation
Indices: 45289776--45289898 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 42
45289766 ACTGAGATGT
45289776 GATTCGTGTAAGACCAT-TCTGGGACA-TTGACATCGATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTTG-CATCGATATGA
* * *
45289817 GATTCGTGTAAGACCATGTTTTGGACATTTGCATTGATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTTGCATCGATATGA
* *
45289859 GATTTGTGTAAGACCATAGT-TGGG-CTATTGGCATCGATAT
1 GATTCGTGTAAGACCAT-GTCTGGGAC-ATTTGCATCGATAT
45289899 ATGATAGCAT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
41 18 0.25
42 48 0.68
43 5 0.07
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (42 bp):
GATTCGTGTAAGACCATGTCTGGGACATTTGCATCGATATGA
Found at i:45290146 original size:17 final size:18
Alignment explanation
Indices: 45290116--45290149 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
45290106 TACATGGAAA
45290116 TGTTTGAGTTTATATAAG
1 TGTTTGAGTTTATATAAG
45290134 TGTTTGA-TTTATATAA
1 TGTTTGAGTTTATATAA
45290150 ATGATTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (18 bp):
TGTTTGAGTTTATATAAG
Found at i:45294588 original size:15 final size:15
Alignment explanation
Indices: 45294554--45294584 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45294544 ATAACTTAAA
45294554 TTCAATACTTACATT
1 TTCAATACTTACATT
45294569 TTCAATACTTA-ATT
1 TTCAATACTTACATT
45294583 TT
1 TT
45294585 TCAACCGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (15 bp):
TTCAATACTTACATT
Found at i:45295024 original size:21 final size:21
Alignment explanation
Indices: 45295000--45295042 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
45294990 ATACAATAAT
45295000 AATAGTATTTTAATTTTAAAA
1 AATAGTATTTTAATTTTAAAA
* * * *
45295021 AATATTGTTTTATTTTTTAAA
1 AATAGTATTTTAATTTTAAAA
45295042 A
1 A
45295043 TATACTTATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
AATAGTATTTTAATTTTAAAA
Found at i:45297130 original size:52 final size:52
Alignment explanation
Indices: 45297068--45297168 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
45297058 ATACCCCATG
* * *
45297068 TGGTGCGTTGGGATGGTCGGAGTTAGTGTGTAGAGGATAGGGGTAGGACTTT
1 TGGTGCGTTGGGATGATCGGAGTTAGTGTGTAGAGGATAGAGGCAGGACTTT
*
45297120 TGGTGCGTTGGGATGATCGGAGTTGGTGTGTAGAGGATAGAGGCAGGAC
1 TGGTGCGTTGGGATGATCGGAGTTAGTGTGTAGAGGATAGAGGCAGGAC
45297169 GTTGCATATC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.19, C:0.07, G:0.47, T:0.28
Consensus pattern (52 bp):
TGGTGCGTTGGGATGATCGGAGTTAGTGTGTAGAGGATAGAGGCAGGACTTT
Found at i:45303366 original size:139 final size:139
Alignment explanation
Indices: 45303113--45303386 Score: 496
Period size: 139 Copynumber: 2.0 Consensus size: 139
45303103 TGAGGTGTTG
45303113 CTGTCTACTCTGAATAAACATTAGGTAATTTCGCAACCTCTTTCACCACGATTCGTTCCTCACAC
1 CTGTCTACTCTGAATAAACATTAGGTAATTTCGCAACCTCTTTCACCACGATTCGTTCCTCACAC
*
45303178 ATGGATCCCTGGTTAGGATCTCCGGATTTTTATTTTTCACTACGCCATAGGGGTGCCGGCGATCC
66 ATGGATCCCTGGTTAGGATCGCCGGATTTTTATTTTTCACTACGCCATAGGGGTGCCGGCGATCC
45303243 AACAGCTCT
131 AACAGCTCT
45303252 CTGTCTACTCTGAATAAACATTAGGTAATTTCGCAACCTCTTTCACC-CTGATTCGTTCCTCACA
1 CTGTCTACTCTGAATAAACATTAGGTAATTTCGCAACCTCTTTCACCAC-GATTCGTTCCTCACA
* * *
45303316 CATGGATCCCTGGTTAGGATCGCCGGATTTTTATTTTTCGCTGCGGCATAGGGGTGCCGGCGATC
65 CATGGATCCCTGGTTAGGATCGCCGGATTTTTATTTTTCACTACGCCATAGGGGTGCCGGCGATC
45303381 CAACAG
130 CAACAG
45303387 TGGTGTCAGA
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
138 1 0.01
139 129 0.99
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (139 bp):
CTGTCTACTCTGAATAAACATTAGGTAATTTCGCAACCTCTTTCACCACGATTCGTTCCTCACAC
ATGGATCCCTGGTTAGGATCGCCGGATTTTTATTTTTCACTACGCCATAGGGGTGCCGGCGATCC
AACAGCTCT
Found at i:45311706 original size:38 final size:38
Alignment explanation
Indices: 45311588--45311712 Score: 133
Period size: 38 Copynumber: 3.3 Consensus size: 38
45311578 TGACATGCTT
* * *
45311588 GTAACAGTAGACATGTTTTATCATGTATTTAGTTCAACA
1 GTAACAGTAGACATG-CTTAACATGTATTAAGTTCAACA
* * * * *
45311627 ATAGCATTAAACATGCGTAACATGTATTAAGTTCAACA
1 GTAACAGTAGACATGCTTAACATGTATTAAGTTCAACA
* * *
45311665 GTAACAGTAGGCATGCTTAACATGTATTCAGTTCAATA
1 GTAACAGTAGACATGCTTAACATGTATTAAGTTCAACA
*
45311703 GTAATAGTAG
1 GTAACAGTAG
45311713 GCATATTGAA
Statistics
Matches: 69, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
38 58 0.84
39 11 0.16
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.33
Consensus pattern (38 bp):
GTAACAGTAGACATGCTTAACATGTATTAAGTTCAACA
Found at i:45311725 original size:38 final size:38
Alignment explanation
Indices: 45311588--45311726 Score: 118
Period size: 38 Copynumber: 3.6 Consensus size: 38
45311578 TGACATGCTT
* * * *
45311588 GTAACAGTAGACATGTTTTATCATGTATTTAGTTCAACA
1 GTAACAGTAGGCATG-ATTAACATGTATTAAGTTCAACA
* * * ** **
45311627 ATAGCATTAAACATGCGTAACATGTATTAAGTTCAACA
1 GTAACAGTAGGCATGATTAACATGTATTAAGTTCAACA
* * *
45311665 GTAACAGTAGGCATGCTTAACATGTATTCAGTTCAATA
1 GTAACAGTAGGCATGATTAACATGTATTAAGTTCAACA
*
45311703 GTAATAGTAGGCAT-ATTGAACATG
1 GTAACAGTAGGCATGATT-AACATG
45311727 CAATCAGTAA
Statistics
Matches: 81, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
37 2 0.02
38 68 0.84
39 11 0.14
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (38 bp):
GTAACAGTAGGCATGATTAACATGTATTAAGTTCAACA
Found at i:45311734 original size:38 final size:38
Alignment explanation
Indices: 45311656--45311734 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
45311646 ACATGTATTA
* * *
45311656 AGTTCAACAGTAACAGTAGGCATGCTTAACATGTATTC
1 AGTTCAACAGTAACAGTAGGCATGATTAACATGCAATC
* *
45311694 AGTTCAATAGTAATAGTAGGCAT-ATTGAACATGCAATC
1 AGTTCAACAGTAACAGTAGGCATGATT-AACATGCAATC
45311732 AGT
1 AGT
45311735 AATACAGTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 2 0.06
38 33 0.94
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (38 bp):
AGTTCAACAGTAACAGTAGGCATGATTAACATGCAATC
Found at i:45315516 original size:5 final size:5
Alignment explanation
Indices: 45315467--45315495 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
45315457 TTTTAATATT
45315467 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
45315496 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:45317569 original size:28 final size:27
Alignment explanation
Indices: 45317518--45317617 Score: 87
Period size: 28 Copynumber: 3.6 Consensus size: 27
45317508 ATAATTTTAT
*
45317518 TTTCAATTAAAATAATAATT-TTAAAAA
1 TTTCAATTAAAAT-ATTATTATTAAAAA
*
45317545 TTATCAATTAAAATATTATTATTAAATA
1 TT-TCAATTAAAATATTATTATTAAAAA
* * *
45317573 CTT-AATTAAAATTTTATTACTAATAAA
1 TTTCAATTAAAATATTATTATTAA-AAA
* *
45317600 TTTTATTGTAAAATATTA
1 TTTCAAT-TAAAATATTA
45317618 AATACATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
26 18 0.31
27 12 0.20
28 20 0.34
29 9 0.15
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (27 bp):
TTTCAATTAAAATATTATTATTAAAAA
Found at i:45319611 original size:25 final size:24
Alignment explanation
Indices: 45319583--45319704 Score: 122
Period size: 25 Copynumber: 5.0 Consensus size: 24
45319573 TCTCGTTATA
*
45319583 TGGCTCTCATGAGCTTTCCGATATT
1 TGGCTCTCACGAGCTTTCCGAT-TT
*
45319608 TGGCTCTCACGAGCTTTCCGATTAA
1 TGGCTCTCACGAGCTTTCCGATT-T
*
45319633 TGGCTCTCACGAGCTTCCCG-TTT
1 TGGCTCTCACGAGCTTTCCGATTT
*
45319656 AATGGCTCTC-CGAAGCTTTCCGATAT
1 --TGGCTCTCACG-AGCTTTCCGATTT
* * *
45319682 TGGCTCGCATGAGCTTCCCGATT
1 TGGCTCTCACGAGCTTTCCGATT
45319705 ACAACTCTCA
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
24 22 0.27
25 57 0.70
26 2 0.02
ACGTcount: A:0.16, C:0.29, G:0.21, T:0.34
Consensus pattern (24 bp):
TGGCTCTCACGAGCTTTCCGATTT
Found at i:45319636 original size:50 final size:49
Alignment explanation
Indices: 45319582--45319704 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 49
45319572 ATCTCGTTAT
*
45319582 ATGGCTCTCATGAGCTTTCCGATATT-TGGCTCTCACG-AGCTTTCCGATTA
1 ATGGCTCTCATGAGCTTCCCGAT-TTATGGCTCTC-CGAAGCTTTCCGA-TA
*
45319632 ATGGCTCTCACGAGCTTCCCG-TTTAATGGCTCTCCGAAGCTTTCCGATA
1 ATGGCTCTCATGAGCTTCCCGATTT-ATGGCTCTCCGAAGCTTTCCGATA
* *
45319681 TTGGCTCGCATGAGCTTCCCGATT
1 ATGGCTCTCATGAGCTTCCCGATT
45319705 ACAACTCTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
48 2 0.03
49 23 0.36
50 39 0.61
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.33
Consensus pattern (49 bp):
ATGGCTCTCATGAGCTTCCCGATTTATGGCTCTCCGAAGCTTTCCGATA
Found at i:45325198 original size:21 final size:21
Alignment explanation
Indices: 45325168--45325209 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45325158 TTTGCCAAAG
* *
45325168 ATATGTATTGGATTGAATTGA
1 ATATGAATTGGATTAAATTGA
*
45325189 ATATGAATTGTATTAAATTGA
1 ATATGAATTGGATTAAATTGA
45325210 GCTAAATTCA
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:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTGA
Found at i:45325586 original size:25 final size:26
Alignment explanation
Indices: 45325567--45325715 Score: 107
Period size: 25 Copynumber: 6.0 Consensus size: 26
45325557 TGAGCATCTC
45325567 ATTATATGGCTCTCACGAGCTTCCCG
1 ATTATATGGCTCTCACGAGCTTCCCG
* *
45325593 A-TATTTGGCTCTCATGAGCTTCCCG
1 ATTATATGGCTCTCACGAGCTTCCCG
*
45325618 ATTA-ATGGCTCTC-CGGAGCTTCCTG
1 ATTATATGGCTCTCAC-GAGCTTCCCG
* **
45325643 A-TAT-TGGCTCGCATAAGCTTCCC-
1 ATTATATGGCTCTCACGAGCTTCCCG
* * * **
45325666 AAT-TACGGCTCTCATGAGCTTTACG
1 ATTATATGGCTCTCACGAGCTTCCCG
** *
45325691 -TTATATGGCTCAAAAGAGCTTCCCG
1 ATTATATGGCTCTCACGAGCTTCCCG
45325716 TTTACACGCT
Statistics
Matches: 94, Mismatches: 21, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
23 2 0.02
24 32 0.34
25 57 0.61
26 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.32
Consensus pattern (26 bp):
ATTATATGGCTCTCACGAGCTTCCCG
Found at i:45325626 original size:50 final size:49
Alignment explanation
Indices: 45325544--45325686 Score: 148
Period size: 50 Copynumber: 2.9 Consensus size: 49
45325534 AGCATTCCGT
* * * *
45325544 TATTTAGCTCTTATGAGCATCTCATTATATGGCTCTCACGAGCTTCCCGA
1 TATTTGGCTCTCATGAGCTTCCCATTA-ATGGCTCTCACGAGCTTCCCGA
*
45325594 TATTTGGCTCTCATGAGCTTCCCGATTAATGGCTCTC-CGGAGCTTCCTGA
1 TATTTGGCTCTCATGAGCTTCCC-ATTAATGGCTCTCAC-GAGCTTCCCGA
* * * *
45325644 TA-TTGGCTCGCATAAGCTTCCCAATT-ACGGCTCTCATGAGCTT
1 TATTTGGCTCTCATGAGCTTCCC-ATTAATGGCTCTCACGAGCTT
45325687 TACGTTATAT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
48 14 0.17
49 22 0.28
50 40 0.50
51 4 0.05
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (49 bp):
TATTTGGCTCTCATGAGCTTCCCATTAATGGCTCTCACGAGCTTCCCGA
Found at i:45325661 original size:24 final size:24
Alignment explanation
Indices: 45325573--45325686 Score: 115
Period size: 25 Copynumber: 4.7 Consensus size: 24
45325563 TCTCATTATA
*
45325573 TGGCTCTCACGAGCTTCCCGATATT
1 TGGCTCTCATGAGCTTCCCGATA-T
*
45325598 TGGCTCTCATGAGCTTCCCGATTAA
1 TGGCTCTCATGAGCTTCCCGA-TAT
** *
45325623 TGGCTCTCCGGAGCTTCCTGATAT
1 TGGCTCTCATGAGCTTCCCGATAT
* *
45325647 TGGCTCGCATAAGCTTCCC-A-AT
1 TGGCTCTCATGAGCTTCCCGATAT
45325669 TACGGCTCTCATGAGCTT
1 T--GGCTCTCATGAGCTT
45325687 TACGTTATAT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
22 3 0.04
23 1 0.01
24 29 0.40
25 38 0.52
26 2 0.03
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.32
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCCGATAT
Found at i:45327644 original size:20 final size:21
Alignment explanation
Indices: 45327619--45327668 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
45327609 TTTAAACTCT
45327619 ACAAATAAATT-TAAAATATA
1 ACAAATAAATTATAAAATATA
*
45327639 ACAAATATATTATAAAATATA
1 ACAAATAAATTATAAAATATA
*
45327660 ATAAA-AAAT
1 ACAAATAAAT
45327669 AGAAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
ACAAATAAATTATAAAATATA
Found at i:45330669 original size:22 final size:23
Alignment explanation
Indices: 45330635--45330681 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
45330625 GATTTTGCTT
45330635 TTATCTTTCTTTATT-TCATTTAC
1 TTATCTTTCTTTATTAT-ATTTAC
*
45330658 TTAT-TTTTTTTATTATATTTAC
1 TTATCTTTCTTTATTATATTTAC
45330680 TT
1 TT
45330682 TATTATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATCTTTCTTTATTATATTTAC
Found at i:45330709 original size:21 final size:20
Alignment explanation
Indices: 45330667--45330710 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
45330657 CTTATTTTTT
* *
45330667 TTATTATATTTACTTTATTA
1 TTATTATATTTACTTAAATA
45330687 TTATATATATTTACTTAAATA
1 TTAT-TATATTTACTTAAATA
45330708 TTA
1 TTA
45330711 AGTAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATTATATTTACTTAAATA
Found at i:45350315 original size:5 final size:5
Alignment explanation
Indices: 45350305--45350329 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45350295 CAGTTTTCTC
45350305 CCTCT CCTCT CCTCT CCTCT CCTCT
1 CCTCT CCTCT CCTCT CCTCT CCTCT
45350330 TTTCATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
CCTCT
Found at i:45352484 original size:3 final size:3
Alignment explanation
Indices: 45352476--45352508 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
45352466 TACAAAACAA
45352476 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
45352509 CAGCTTGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:45355010 original size:50 final size:57
Alignment explanation
Indices: 45354954--45355082 Score: 164
Period size: 59 Copynumber: 2.4 Consensus size: 57
45354944 CAAACACTTT
45354954 AACCATTTCTGTCA-G-ACA-ATA-AC-C-AATAC-AAAATAATTTAATACAAACAC
1 AACCATTTCTGTCATGCACAGATAGACACTAATACAAAAATAATTTAATACAAACAC
* *
45355004 AACCATTTCTGCCATGCACATGGTAGACAACTAATACAAAAATAATTTAATACAAACAC
1 AACCATTTCTGTCATGCACA-GATAGAC-ACTAATACAAAAATAATTTAATACAAACAC
*
45355063 AACCATTTTTGTCATGCACA
1 AACCATTTCTGTCATGCACA
45355083 TGGCAGACAA
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
50 13 0.20
51 1 0.02
52 3 0.05
54 2 0.03
55 2 0.03
57 1 0.02
58 5 0.08
59 39 0.59
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (57 bp):
AACCATTTCTGTCATGCACAGATAGACACTAATACAAAAATAATTTAATACAAACAC
Found at i:45355050 original size:59 final size:58
Alignment explanation
Indices: 45354978--45355092 Score: 194
Period size: 59 Copynumber: 2.0 Consensus size: 58
45354968 GACAATAACC
*
45354978 AATACAAAATAATTTAATACAAACACAACCATTTCTGCCATGCACATGGTAGACAACT
1 AATACAAAATAATTTAATACAAACACAACCATTTCTGCCATGCACATGGCAGACAACT
* *
45355036 AATACAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATGGCAGACAA
1 AATAC-AAAATAATTTAATACAAACACAACCATTTCTGCCATGCACATGGCAGACAA
45355093 TAACATACAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
58 5 0.09
59 48 0.91
ACGTcount: A:0.46, C:0.21, G:0.09, T:0.24
Consensus pattern (58 bp):
AATACAAAATAATTTAATACAAACACAACCATTTCTGCCATGCACATGGCAGACAACT
Found at i:45355549 original size:6 final size:6
Alignment explanation
Indices: 45355369--45355555 Score: 162
Period size: 6 Copynumber: 31.2 Consensus size: 6
45355359 AAAATCCAAT
* *
45355369 TCGAAA TCAAAA TCAAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA
1 TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA
* * * *
45355417 TCGAAA TCGAAA TCGAAA TCGAAA TTGAAA TCAAAA TCAAAA TCAAAA
1 TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA
* * ** * * * * *
45355465 TCAGTGAG T-G-TT TCAAAA TTGAAA TCAAAA TCAAAA TCAAAA TCGAAA
1 TC-G-AAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA
* * * * *
45355513 TCGAAA TCAAAA TCAAAA TCAAAA TCAAAA TTGAAA TCGAAA T
1 TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA TCGAAA T
45355556 AACCCTAAAT
Statistics
Matches: 155, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
4 1 0.01
6 152 0.98
8 2 0.01
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (6 bp):
TCGAAA
Found at i:45360656 original size:3 final size:3
Alignment explanation
Indices: 45360650--45360696 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
45360640 AATCGAATTC
* *
45360650 TAA TAA TAA TAA TAA TAA -AA -AA TAA -AA AAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45360695 TA
1 TA
45360697 GAATTTAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
2 6 0.15
3 33 0.85
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:45365081 original size:9 final size:9
Alignment explanation
Indices: 45365063--45365093 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45365053 AGTTTTTCCA
*
45365063 TCTTTCTCT
1 TCTTTTTCT
45365072 TCTTTTTCT
1 TCTTTTTCT
45365081 TCTTTTTCT
1 TCTTTTTCT
45365090 TCTT
1 TCTT
45365094 CTTGATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:45372240 original size:12 final size:12
Alignment explanation
Indices: 45372223--45372249 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45372213 ATTACCACCC
45372223 TTCTTTTTTTTT
1 TTCTTTTTTTTT
45372235 TTCTTTTTTTTT
1 TTCTTTTTTTTT
45372247 TTC
1 TTC
45372250 AGAAAAGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:45372410 original size:12 final size:12
Alignment explanation
Indices: 45372393--45372417 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45372383 ATTTTATAAC
45372393 ATAAATATTGTT
1 ATAAATATTGTT
45372405 ATAAATATTGTT
1 ATAAATATTGTT
45372417 A
1 A
45372418 ACAGCCTCTG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:45376054 original size:41 final size:40
Alignment explanation
Indices: 45375993--45376115 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 40
45375983 CATGTTAACG
* * * * *
45375993 CATATCGATGCCACTATCCCAGATAGGGTCTTATACGAAT
1 CATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAT
**
45376033 CATATACGATGCCAATGTCCCAGACATGGTCTTACACGTTT
1 CATAT-CGATGCCAATGTCCCAGACATGGTCTTACACGAAT
*
45376074 CCTCACTTCGATGCCAATGTCCCAGACATGGTCTTACACGAA
1 CAT-A--TCGATGCCAATGTCCCAGACATGGTCTTACACGAA
45376116 ATCACATCTC
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
40 5 0.07
41 30 0.43
42 1 0.01
43 32 0.46
44 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (40 bp):
CATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAT
Found at i:45380716 original size:41 final size:41
Alignment explanation
Indices: 45380671--45380781 Score: 150
Period size: 41 Copynumber: 2.7 Consensus size: 41
45380661 GCCCGTGTGA
* *
45380671 TCACACACGCCTGTGTGCCCTACACAGCCTACCACATGGCC
1 TCACACACACATGTGTGCCCTACACAGCCTACCACATGGCC
* *
45380712 TCACACATACATGTGTGCCCTACACGGCCTACCACATGGCC
1 TCACACACACATGTGTGCCCTACACAGCCTACCACATGGCC
* * * *
45380753 TCACACATACTTGTGTACCCTACATAGCC
1 TCACACACACATGTGTGCCCTACACAGCC
45380782 CAATTGACGC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.24, C:0.40, G:0.15, T:0.21
Consensus pattern (41 bp):
TCACACACACATGTGTGCCCTACACAGCCTACCACATGGCC
Found at i:45383568 original size:18 final size:18
Alignment explanation
Indices: 45383545--45383582 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
45383535 TCATGCGCAG
45383545 AACTTACTCATTTTACGA
1 AACTTACTCATTTTACGA
45383563 AACTTACTCATTTTACGA
1 AACTTACTCATTTTACGA
45383581 AA
1 AA
45383583 AAACATTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (18 bp):
AACTTACTCATTTTACGA
Found at i:45388812 original size:22 final size:23
Alignment explanation
Indices: 45388786--45388832 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
45388776 GACTTCTTTA
* * *
45388786 TTTGAGCTTAAAAAAT-AATATT
1 TTTGAACTAAAAAAATCAAAATT
45388808 TTTGAACTAAAAAAATCAAAATT
1 TTTGAACTAAAAAAATCAAAATT
45388831 TT
1 TT
45388833 GCCCATTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (23 bp):
TTTGAACTAAAAAAATCAAAATT
Found at i:45389040 original size:40 final size:41
Alignment explanation
Indices: 45388996--45389080 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 41
45388986 AAACAATTAA
* *
45388996 TTTATTAATTTATTTTATATAAATTATTG-AATTGTTAATT
1 TTTATTAATTTATTTCATATAAATTATTGTAATTATTAATT
*
45389036 TTTATTAATTTATTTCATATAAATTATTGTAATTATTGATT
1 TTTATTAATTTATTTCATATAAATTATTGTAATTATTAATT
45389077 TTTA
1 TTTA
45389081 AGGGTTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 28 0.68
41 13 0.32
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (41 bp):
TTTATTAATTTATTTCATATAAATTATTGTAATTATTAATT
Found at i:45393887 original size:17 final size:18
Alignment explanation
Indices: 45393851--45393889 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
45393841 GTTTGAGCCA
* *
45393851 GTTATATTTGTGTACTAT
1 GTTATATTTGTGAACCAT
45393869 GTTATA-TTGTGAACCAT
1 GTTATATTTGTGAACCAT
45393886 GTTA
1 GTTA
45393890 ACTTGGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.49
Consensus pattern (18 bp):
GTTATATTTGTGAACCAT
Found at i:45393932 original size:36 final size:36
Alignment explanation
Indices: 45393885--45393965 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
45393875 TTGTGAACCA
* * * *
45393885 TGTTAACTTGGTGAAT-TATATTATTATGGCGAACTG
1 TGTTAATTTGGTG-ATCTATAATAATATGACGAACTG
*
45393921 TGTTAATTTGGTGATCTGTAATAATATGACGAACTG
1 TGTTAATTTGGTGATCTATAATAATATGACGAACTG
*
45393957 TATTAATTT
1 TGTTAATTT
45393966 CCAAATTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 36 0.95
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (36 bp):
TGTTAATTTGGTGATCTATAATAATATGACGAACTG
Found at i:45396475 original size:49 final size:49
Alignment explanation
Indices: 45396422--45396527 Score: 117
Period size: 49 Copynumber: 2.2 Consensus size: 49
45396412 AAAAATGATG
* * * *
45396422 GGTTTTCACTATTTTCACGTTTTACCATC-CTTGG-TGGCCTAGCAACGAT
1 GGTTTTCACTATTTGCACATTCTACCATCAC--GGATGGCCTAACAACGAT
* * *
45396471 GGTTTCCACTATTTGCATATTCTACCATCACGGATGGCTTAACAACGAT
1 GGTTTTCACTATTTGCACATTCTACCATCACGGATGGCCTAACAACGAT
45396520 GGTTTTCA
1 GGTTTTCA
45396528 TCCTAAGGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
48 2 0.04
49 44 0.94
50 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (49 bp):
GGTTTTCACTATTTGCACATTCTACCATCACGGATGGCCTAACAACGAT
Found at i:45405332 original size:13 final size:13
Alignment explanation
Indices: 45405314--45405340 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45405304 TGGTTTATTT
45405314 TGAGTAAGTTTTA
1 TGAGTAAGTTTTA
45405327 TGAGTAAGTTTTA
1 TGAGTAAGTTTTA
45405340 T
1 T
45405341 AAGGAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGAGTAAGTTTTA
Found at i:45407253 original size:30 final size:30
Alignment explanation
Indices: 45407219--45407311 Score: 159
Period size: 30 Copynumber: 3.1 Consensus size: 30
45407209 ACTTACTTTA
*
45407219 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
*
45407249 TTGTTAATTTTGTTATTATTTTAGATGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
*
45407279 TTGCTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
45407309 TTG
1 TTG
45407312 CTTGTTAAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.24, C:0.04, G:0.15, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:45409932 original size:18 final size:18
Alignment explanation
Indices: 45409911--45409954 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
45409901 TAATCGGATA
* * *
45409911 CAGATGCATATTCAGATT
1 CAGATACATAATCAAATT
*
45409929 CAGACACATAATCAAATT
1 CAGATACATAATCAAATT
45409947 CAGATACA
1 CAGATACA
45409955 AATGCAAACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (18 bp):
CAGATACATAATCAAATT
Found at i:45409968 original size:24 final size:24
Alignment explanation
Indices: 45409941--45409990 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
45409931 GACACATAAT
45409941 CAAATTCAGATACAAATGCAAACA
1 CAAATTCAGATACAAATGCAAACA
* *
45409965 CAAATTCTGATACAAATGCAATCA
1 CAAATTCAGATACAAATGCAAACA
45409989 CA
1 CA
45409991 TATCCTACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.22, G:0.08, T:0.20
Consensus pattern (24 bp):
CAAATTCAGATACAAATGCAAACA
Found at i:45412405 original size:14 final size:14
Alignment explanation
Indices: 45412386--45412413 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45412376 TAAATCATGA
45412386 TTAGATTAATTAAG
1 TTAGATTAATTAAG
45412400 TTAGATTAATTAAG
1 TTAGATTAATTAAG
45412414 CCTTAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
TTAGATTAATTAAG
Found at i:45413778 original size:18 final size:18
Alignment explanation
Indices: 45413757--45413794 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45413747 AAAAAAAAAT
45413757 TAAAAATTAAAATATTTA
1 TAAAAATTAAAATATTTA
**
45413775 TAAAAATTTCAATATTTA
1 TAAAAATTAAAATATTTA
45413793 TA
1 TA
45413795 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAAATTAAAATATTTA
Found at i:45415480 original size:57 final size:57
Alignment explanation
Indices: 45415385--45415565 Score: 236
Period size: 57 Copynumber: 3.1 Consensus size: 57
45415375 ATAGAAATAG
* * *
45415385 TGAAAATGGAGAAATGAGAAATCATTTGGAAATAATTATGGTTTTGTCCAAAATGAAAA
1 TGAAAATGGAGAAATG-G-AATCATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAA
* *
45415444 TAAAAATGGAGAAATGGAATCATTTGAAAATGATTATGGTTTTCTCAAAAATGAAAA
1 TGAAAATGGAGAAATGGAATCATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAA
* * * * * * *
45415501 TGATAATGGAGAAGTAGAAACATTTGAAAATGAATGTGGTTTTCTCCAAAACGAAAA
1 TGAAAATGGAGAAATGGAATCATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAA
45415558 TGAAAATG
1 TGAAAATG
45415566 ACCTAAAAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
57 91 0.85
58 1 0.01
59 15 0.14
ACGTcount: A:0.46, C:0.06, G:0.20, T:0.28
Consensus pattern (57 bp):
TGAAAATGGAGAAATGGAATCATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAA
Found at i:45418565 original size:27 final size:26
Alignment explanation
Indices: 45418530--45418603 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
45418520 GAACTACCCC
* *
45418530 TTTAGTGTCCCGTTAGACTATCTCGTG
1 TTTAATGTCCCATT-GACTATCTCGTG
* *
45418557 TTTAATGTCCCCTTGAGCTATCTCGTT
1 TTTAATGTCCCATTGA-CTATCTCGTG
*
45418584 TTTAACGTCCCATTGGACTA
1 TTTAATGTCCCATT-GACTA
45418604 AATATGATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
27 36 0.90
28 2 0.05
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (26 bp):
TTTAATGTCCCATTGACTATCTCGTG
Found at i:45418928 original size:44 final size:44
Alignment explanation
Indices: 45418828--45418992 Score: 222
Period size: 44 Copynumber: 3.7 Consensus size: 44
45418818 ATTATGCTAG
* * * ** *
45418828 AACATCTTTCAACCATGGTCTTACTCATTTCAATCATGATGTCAT
1 AACATCTTTCAGCTATGGTCTTACTCATTT-TATCCCGATGCCAT
* *
45418873 AACATCTTTCAGTTACGGTCTTACTCATTTTATCCCGATGCCAT
1 AACATCTTTCAGCTATGGTCTTACTCATTTTATCCCGATGCCAT
* * *
45418917 AATATCTTTCAGCTATGGTCTTACTCATTTTATCCCGATACCAA
1 AACATCTTTCAGCTATGGTCTTACTCATTTTATCCCGATGCCAT
45418961 AACATCTTTCAGCTATGGTCTTACTCATTTTA
1 AACATCTTTCAGCTATGGTCTTACTCATTTTA
45418993 GGTGTATAGC
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
44 80 0.75
45 26 0.25
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (44 bp):
AACATCTTTCAGCTATGGTCTTACTCATTTTATCCCGATGCCAT
Found at i:45421786 original size:126 final size:125
Alignment explanation
Indices: 45421557--45421803 Score: 361
Period size: 126 Copynumber: 2.0 Consensus size: 125
45421547 TCAAAAAGCA
* ** *
45421557 CCGCAACTAATTAAGCAGAACGCCGTCGTTTAACTTTGACCTATAGTGGCACTAGCGGTGTTTAT
1 CCGCAAATAATTAAGCAGAACGCCGTCGTTTAACTTTGAAATATAGTGGCACTAGCAGTGTTTAT
* * * *
45421622 CTGAAAACGCCGGTAAATATCTAGAATTTGTGGCGCTTATCAAAAAACGCCACTAATGCT
66 ATGAAAACGCCGGTAAAGATCTAGAATTTGCGGAGCTTATCAAAAAACGCCACTAATGCT
*
45421682 CCGCAAATAATTAAGCAGAACGCCGTCGTTTAACTTTGATAATATTAGTGGCAGTAGCAG-GTTT
1 CCGCAAATAATTAAGCAGAACGCCGTCGTTTAACTTTGA-AATA-TAGTGGCACTAGCAGTGTTT
* * *
45421746 ATATGAAAACGCCGGTAAAGATCTAGTATTTGCGGAGCTTATCAAGAAACGCCGCTAA
64 ATATGAAAACGCCGGTAAAGATCTAGAATTTGCGGAGCTTATCAAAAAACGCCACTAA
45421804 AGATCGGTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 38 0.35
126 57 0.53
127 13 0.12
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (125 bp):
CCGCAAATAATTAAGCAGAACGCCGTCGTTTAACTTTGAAATATAGTGGCACTAGCAGTGTTTAT
ATGAAAACGCCGGTAAAGATCTAGAATTTGCGGAGCTTATCAAAAAACGCCACTAATGCT
Found at i:45422570 original size:13 final size:13
Alignment explanation
Indices: 45422552--45422596 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
45422542 TAGTGTTTAC
45422552 GGTTTATGGTGTA
1 GGTTTATGGTGTA
*
45422565 GGTTTATGGTTTA
1 GGTTTATGGTGTA
45422578 GTGTTTATGGTGTA
1 G-GTTTATGGTGTA
*
45422592 TGTTT
1 GGTTT
45422597 TCAATTTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (13 bp):
GGTTTATGGTGTA
Found at i:45422643 original size:14 final size:14
Alignment explanation
Indices: 45422626--45422775 Score: 86
Period size: 14 Copynumber: 10.3 Consensus size: 14
45422616 TTTAGGGGTG
*
45422626 AGGGCTTAAGGTTT
1 AGGGTTTAAGGTTT
* *
45422640 AGGGGTTATAGGCTT
1 AGGGTTTA-AGGTTT
* * *
45422655 AGGGTCTAGGGGTT
1 AGGGTTTAAGGTTT
45422669 AGTGGTTTAAGG-TT
1 AG-GGTTTAAGGTTT
45422683 ACGGGTTTAAGGGTTT
1 A-GGGTTTAA-GGTTT
* *
45422699 AGGGTTTAGGGTAT
1 AGGGTTTAAGGTTT
* * *
45422713 ATGGTATAGAAGTTT
1 AGGGTTTA-AGGTTT
*
45422728 AAGGGTTTTAATGTTT
1 -AGGG-TTTAAGGTTT
*
45422744 AGGGTTTAGGGTTT
1 AGGGTTTAAGGTTT
* * *
45422758 ATGGCTTAAGGTCT
1 AGGGTTTAAGGTTT
45422772 AGGG
1 AGGG
45422776 GTTATTGGAT
Statistics
Matches: 103, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
14 54 0.52
15 35 0.34
16 11 0.11
17 3 0.03
ACGTcount: A:0.21, C:0.04, G:0.37, T:0.37
Consensus pattern (14 bp):
AGGGTTTAAGGTTT
Found at i:45422710 original size:22 final size:21
Alignment explanation
Indices: 45422615--45422758 Score: 76
Period size: 22 Copynumber: 6.6 Consensus size: 21
45422605 CATGTTGAGT
* * * *
45422615 GTTTAGGGGTGAGGGCTTAAG
1 GTTTAGGGTTTAGGGTTTAGG
*
45422636 GTTTAGGGGTTATA-GGCTTAGG
1 GTTTA-GGGTT-TAGGGTTTAGG
* * *
45422658 GTCTAGGGGTTAGTGGTTTAAG
1 GTTTAGGGTTTAG-GGTTTAGG
45422680 G-TTACGGGTTTAAGGGTTTAGG
1 GTTTA-GGGTTT-AGGGTTTAGG
* * * *
45422702 GTTTAGGGTATATGGTATAGAA
1 GTTTAGGGTTTAGGGTTTAG-G
**
45422724 GTTTAAGGGTTTTAATGTTTAGG
1 GTTT-AGGG-TTTAGGGTTTAGG
45422747 GTTTAGGGTTTA
1 GTTTAGGGTTTA
45422759 TGGCTTAAGG
Statistics
Matches: 94, Mismatches: 19, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
20 2 0.02
21 22 0.23
22 48 0.51
23 14 0.15
24 8 0.09
ACGTcount: A:0.21, C:0.03, G:0.38, T:0.38
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGTTTAGG
Found at i:45422777 original size:22 final size:22
Alignment explanation
Indices: 45422615--45422778 Score: 74
Period size: 22 Copynumber: 7.5 Consensus size: 22
45422605 CATGTTGAGT
* *
45422615 GTTTAGGGG-TGAGGGCTTAAG
1 GTTTAGGGGTTTATGGCTTAAG
*
45422636 GTTTAGGGG-TTATAGGCTTAGG
1 GTTTAGGGGTTTAT-GGCTTAAG
* *
45422658 GTCTAGGGG-TTAGTGGTTTAAG
1 GTTTAGGGGTTTA-TGGCTTAAG
* * * *
45422680 G-TTACGGGTTTAAGGGTTTAGG
1 GTTTAGGGGTTT-ATGGCTTAAG
* *
45422702 GTTTA-GGGTATATGG-TATAGAA
1 GTTTAGGGGTTTATGGCT-TA-AG
* * *
45422724 GTTTAAGGGTTTTAAT-GTTTAGG
1 GTTT-AGGGGTTT-ATGGCTTAAG
45422747 GTTTA-GGGTTTATGGCTTAAG
1 GTTTAGGGGTTTATGGCTTAAG
*
45422768 GTCTAGGGGTT
1 GTTTAGGGGTT
45422779 ATTGGATCTT
Statistics
Matches: 108, Mismatches: 22, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
20 3 0.03
21 35 0.32
22 50 0.46
23 10 0.09
24 7 0.06
25 3 0.03
ACGTcount: A:0.20, C:0.04, G:0.38, T:0.38
Consensus pattern (22 bp):
GTTTAGGGGTTTATGGCTTAAG
Found at i:45422999 original size:21 final size:21
Alignment explanation
Indices: 45422949--45423000 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
45422939 GTTATAGGCA
45422949 TATGTTTTAGGGTTTAAATTT
1 TATGTTTTAGGGTTTAAATTT
*
45422970 TATATTTTAGGGTTT-AATGTT
1 TATGTTTTAGGGTTTAAAT-TT
*
45422991 TATGGTTTAG
1 TATGTTTTAG
45423001 CTAAAAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (21 bp):
TATGTTTTAGGGTTTAAATTT
Found at i:45425203 original size:45 final size:45
Alignment explanation
Indices: 45425152--45425238 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
45425142 ACTGTTTCTA
* * *
45425152 GTGTACAATCTGTCAACAATATGCCACCAACTATATCAGGGTCTG
1 GTGTACAATCTGCCAACAATATGCCACCAAATAGATCAGGGTCTG
*
45425197 GTGTACAATCTGCCAATAATATGCCACCAAATAGATCAGGGT
1 GTGTACAATCTGCCAACAATATGCCACCAAATAGATCAGGGT
45425239 TCAAAACTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (45 bp):
GTGTACAATCTGCCAACAATATGCCACCAAATAGATCAGGGTCTG
Found at i:45430443 original size:30 final size:31
Alignment explanation
Indices: 45430392--45430450 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
45430382 TTATTTTAAA
*
45430392 GTTCAAATTTACATAACTTACATAATTTACG
1 GTTCAAATTTACATAAATTACATAATTTACG
45430423 GTTCAAATTT-CATAAATTACATAATTTA
1 GTTCAAATTTACATAAATTACATAATTTA
45430451 AATATAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (31 bp):
GTTCAAATTTACATAAATTACATAATTTACG
Found at i:45430606 original size:48 final size:48
Alignment explanation
Indices: 45430548--45430660 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 48
45430538 CTTCGCTTAA
* * *
45430548 TACACAACTTACATAATTTAAAGAT-AAA-ATTTCATAACGTACATAATT
1 TACATAACTTACATAATTCAAACATCAAATATTT--TAACGTACATAATT
* *
45430596 TATATAACTTACATAATTCAAACATCAAATATTTTAACTTACATAATT
1 TACATAACTTACATAATTCAAACATCAAATATTTTAACGTACATAATT
*
45430644 TACATAATTTACATAAT
1 TACATAACTTACATAAT
45430661 ACATAACTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 49 0.88
49 3 0.05
50 4 0.07
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (48 bp):
TACATAACTTACATAATTCAAACATCAAATATTTTAACGTACATAATT
Found at i:45430648 original size:9 final size:9
Alignment explanation
Indices: 45430630--45430889 Score: 178
Period size: 9 Copynumber: 30.3 Consensus size: 9
45430620 TCAAATATTT
45430630 TAACTTACA
1 TAACTTACA
*
45430639 TAATTTACA
1 TAACTTACA
*
45430648 TAATTTACA
1 TAACTTACA
45430657 TAA--TACA
1 TAACTTACA
45430664 TAACTTACA
1 TAACTTACA
* *
45430673 TAATTTAAAGA
1 TAACTT--ACA
* *
45430684 TCAAATTTCA
1 T-AACTTACA
45430694 TAACTTACA
1 TAACTTACA
*
45430703 TAAGTTACA
1 TAACTTACA
45430712 -AGACTTACA
1 TA-ACTTACA
45430721 TAA--TACA
1 TAACTTACA
45430728 TAACTTACA
1 TAACTTACA
45430737 TAA--TACA
1 TAACTTACA
*
45430744 TTACTTACA
1 TAACTTACA
*
45430753 TAACTTCCA
1 TAACTTACA
45430762 TAA--TACA
1 TAACTTACA
* *
45430769 CAAATTACA
1 TAACTTACA
*
45430778 TAAATTACA
1 TAACTTACA
45430787 GT-A-TT-CA
1 -TAACTTACA
*
45430794 CAACTTACA
1 TAACTTACA
45430803 TAACTTACA
1 TAACTTACA
*
45430812 T--CATACA
1 TAACTTACA
*
45430819 AAACTTACA
1 TAACTTACA
*
45430828 CAACTTACA
1 TAACTTACA
45430837 TAACTTACA
1 TAACTTACA
45430846 TAA--TACA
1 TAACTTACA
*
45430853 CAACTTACA
1 TAACTTACA
*
45430862 TTACTTACA
1 TAACTTACA
45430871 TAA--TACA
1 TAACTTACA
*
45430878 TAACTTGCA
1 TAACTTACA
45430887 TAA
1 TAA
45430890 ATAAATATAT
Statistics
Matches: 200, Mismatches: 28, Indels: 46
0.73 0.10 0.17
Matches are distributed among these distances:
7 46 0.23
8 5 0.03
9 138 0.69
10 4 0.02
11 3 0.01
12 4 0.02
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
TAACTTACA
Done.