Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 122 of 185
Found at i:38131126 original size:30 final size:29
Alignment explanation
Indices: 38131092--38131169 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
38131082 GCACTTTAAT
*
38131092 ATTTTTTTATAATTTTAAAATTTCTTTATA
1 ATTTTTTTATAATTTTAAAATTT-TGTATA
* * **
38131122 ATTTTTATATAAACTTTATGATTTTGTATA
1 ATTTTTTTAT-AATTTTAAAATTTTGTATA
38131152 ATTTTTTTATAATTTTAA
1 ATTTTTTTATAATTTTAA
38131170 TTATAAAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 6 0.15
30 23 0.59
31 10 0.26
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (29 bp):
ATTTTTTTATAATTTTAAAATTTTGTATA
Found at i:38136349 original size:32 final size:33
Alignment explanation
Indices: 38136311--38136373 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
38136301 TAGATTGCTC
* *
38136311 CCCCTTA-ATAAAATTCATTTTCAATTTAAGCT
1 CCCCTTATATAAAAATAATTTTCAATTTAAGCT
38136343 CCCCTTATATAAAAATAATTTTCAATTTAAG
1 CCCCTTATATAAAAATAATTTTCAATTTAAG
38136374 GCATAAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (33 bp):
CCCCTTATATAAAAATAATTTTCAATTTAAGCT
Found at i:38145408 original size:9 final size:9
Alignment explanation
Indices: 38145394--38145421 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
38145384 ACTAGGCTTG
38145394 AAGCTCCTT
1 AAGCTCCTT
38145403 AAGCTCCTT
1 AAGCTCCTT
38145412 AAGCTCCTT
1 AAGCTCCTT
38145421 A
1 A
38145422 GGTTCCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (9 bp):
AAGCTCCTT
Found at i:38147771 original size:16 final size:17
Alignment explanation
Indices: 38147745--38147777 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
38147735 TTTATTATAC
38147745 TTATAAAAATGATTTTT
1 TTATAAAAATGATTTTT
38147762 TTAT-AAAATGATTTTT
1 TTATAAAAATGATTTTT
38147778 ATAAAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TTATAAAAATGATTTTT
Found at i:38147778 original size:14 final size:15
Alignment explanation
Indices: 38147745--38147782 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
38147735 TTTATTATAC
38147745 TTATAAAAATGATTTTT
1 TTAT-AAAATGA-TTTT
38147762 TTATAAAATGA-TTT
1 TTATAAAATGATTTT
38147776 TTATAAA
1 TTATAAA
38147783 GAAAAATCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
16 7 0.33
17 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (15 bp):
TTATAAAATGATTTT
Found at i:38154229 original size:22 final size:21
Alignment explanation
Indices: 38154201--38154241 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
38154191 GTTGCATTGT
38154201 GACGAGGAACCCTTGAAGTTGG
1 GACGAGGAACCCTT-AAGTTGG
38154223 GACGAGGAACCCTTAAGTT
1 GACGAGGAACCCTTAAGTT
38154242 ACGACATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.20
Consensus pattern (21 bp):
GACGAGGAACCCTTAAGTTGG
Found at i:38155285 original size:16 final size:16
Alignment explanation
Indices: 38155265--38155317 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
38155255 TTGGTTCGCT
*
38155265 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
* *
38155281 GTAATGGAATATATGC
1 GTAATGGAATAGAGGC
38155297 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
38155313 GTAAT
1 GTAAT
38155318 AGGTAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.38, C:0.04, G:0.32, T:0.26
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:38155381 original size:44 final size:46
Alignment explanation
Indices: 38155299--38155391 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
38155289 ATATATGCGT
* *
38155299 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGG
38155345 AATGGAATAGAGGCATAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGG
38155389 AAT
1 AAT
38155392 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 24 0.53
45 3 0.07
46 18 0.40
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:38155388 original size:39 final size:44
Alignment explanation
Indices: 38155299--38155396 Score: 125
Period size: 46 Copynumber: 2.3 Consensus size: 44
38155289 ATATATGCGT
* *
38155299 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTT--ATGG
38155345 AATGGAATAGAGGCATAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTATGG
38155384 AATGGAATAGAGG
1 AATGGAATAGAGG
38155397 TGTAACAACA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
39 14 0.28
40 1 0.02
43 1 0.02
44 13 0.26
45 3 0.06
46 18 0.36
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCATAATAGGTAATTCTTGTGTTTGGTTATGG
Found at i:38155566 original size:16 final size:16
Alignment explanation
Indices: 38155547--38155667 Score: 60
Period size: 16 Copynumber: 7.4 Consensus size: 16
38155537 AATTATTATT
38155547 AAATATAATTTAATAAA
1 AAATATAATTTAAT-AA
38155564 AATATATAATTT-ATAA
1 AA-ATATAATTTAATAA
*
38155580 AATATATGAATTTACT-A
1 AA-ATAT-AATTTAATAA
38155597 AAATCATAATATATAATACTA
1 AAAT-ATAAT-T-TAATA--A
*
38155618 TAAAAATAATTTAA-AA
1 -AAATATAATTTAATAA
* *
38155634 TAAT-T-A-TT-AT-T
1 AAATATAATTTAATAA
38155645 AAATATAATTTAATAA
1 AAATATAATTTAATAA
38155661 AAATATA
1 AAATATA
38155668 TAATTTGATA
Statistics
Matches: 80, Mismatches: 8, Indels: 33
0.66 0.07 0.27
Matches are distributed among these distances:
11 4 0.05
12 3 0.04
13 2 0.03
14 3 0.04
15 4 0.05
16 22 0.28
17 15 0.19
18 14 0.17
19 3 0.04
20 1 0.01
21 6 0.08
22 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:38155600 original size:18 final size:16
Alignment explanation
Indices: 38155549--38155681 Score: 71
Period size: 18 Copynumber: 8.0 Consensus size: 16
38155539 TTATTATTAA
38155549 ATATAATTTAATAAAAAT
1 ATATAATTT-AT-AAAAT
38155567 ATATAATTTATAAAAT
1 ATATAATTTATAAAAT
38155583 ATATGAATTTACTAAAAT
1 ATAT-AATTTA-TAAAAT
* * *
38155601 -CATAATATATAATACT
1 ATATAATTTATAA-AAT
*
38155617 ATAAAAATAATT-TAAAAT
1 AT-ATAAT--TTATAAAAT
* *
38155635 A-ATTA-TTAT-TAA-
1 ATATAATTTATAAAAT
38155647 ATATAATTTAATAAAAAT
1 ATATAATTT-AT-AAAAT
38155665 ATATAATTTGATAAAAT
1 ATATAATTT-ATAAAAT
38155682 TCTTAGCATT
Statistics
Matches: 88, Mismatches: 13, Indels: 29
0.68 0.10 0.22
Matches are distributed among these distances:
12 1 0.01
13 7 0.08
14 3 0.03
15 5 0.06
16 18 0.20
17 17 0.19
18 33 0.38
19 3 0.03
20 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
ATATAATTTATAAAAT
Found at i:38155744 original size:15 final size:14
Alignment explanation
Indices: 38155721--38155779 Score: 52
Period size: 15 Copynumber: 4.3 Consensus size: 14
38155711 TACTAAAATC
*
38155721 ATAATATATAATACT
1 ATAAAATATAATA-T
38155736 ATAAAATATAAT-T
1 ATAAAATATAATAT
38155749 -TAAAATA-AATATT
1 ATAAAATATAATA-T
* *
38155762 ATTAAATATAATTT
1 ATAAAATATAATAT
38155776 ATAA
1 ATAA
38155780 TCTACTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
11 3 0.08
12 7 0.19
13 2 0.06
14 10 0.28
15 14 0.39
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAAATATAATAT
Found at i:38172008 original size:62 final size:62
Alignment explanation
Indices: 38171926--38172045 Score: 215
Period size: 62 Copynumber: 1.9 Consensus size: 62
38171916 GCTAAATAAG
38171926 TCAATTTCCATAAAGCCACTTAAATATAAACATAAAATTGAAACAAATACAATTCAAATTAT
1 TCAATTTCCATAAAGCCACTTAAATATAAACATAAAATTGAAACAAATACAATTCAAATTAT
*
38171988 TCAATTTCCATAAA-CTCACTTAAATATAAACATAAAATTGAAACAAATATAATTCAAA
1 TCAATTTCCATAAAGC-CACTTAAATATAAACATAAAATTGAAACAAATACAATTCAAA
38172046 AAATAATTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
61 1 0.02
62 55 0.98
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (62 bp):
TCAATTTCCATAAAGCCACTTAAATATAAACATAAAATTGAAACAAATACAATTCAAATTAT
Found at i:38172779 original size:10 final size:10
Alignment explanation
Indices: 38172764--38172802 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
38172754 AGTTTAATTT
38172764 TTAATTAATC
1 TTAATTAATC
38172774 TTAATTAAT-
1 TTAATTAATC
*
38172783 TTAATTAAAC
1 TTAATTAATC
38172793 TTTAATTAAT
1 -TTAATTAAT
38172803 TAACCATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.32
10 9 0.36
11 8 0.32
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (10 bp):
TTAATTAATC
Found at i:38172787 original size:19 final size:20
Alignment explanation
Indices: 38172763--38172803 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
38172753 TAGTTTAATT
*
38172763 TTTAATTAATC-TTAATTAA
1 TTTAATTAAACTTTAATTAA
38172782 TTTAATTAAACTTTAATTAA
1 TTTAATTAAACTTTAATTAA
38172802 TT
1 TT
38172804 AACCATAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAATTAAACTTTAATTAA
Found at i:38178881 original size:79 final size:81
Alignment explanation
Indices: 38178745--38178927 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
38178735 TCGAATGATG
* *
38178745 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
38178809 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
38178824 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
38178886 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
38178904 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
38178928 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:38178943 original size:40 final size:40
Alignment explanation
Indices: 38178746--38178929 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
38178736 CGAATGATGT
* * * *
38178746 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
38178786 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
38178826 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38178864 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38178905 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38178930 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38178951 original size:79 final size:79
Alignment explanation
Indices: 38178798--38178962 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
38178788 GGACTAAGAT
* **
38178798 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
38178863 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
38178877 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
38178940 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38178956 CCGAAGG
1 CCGAAGG
38178963 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38189967 original size:41 final size:41
Alignment explanation
Indices: 38189913--38190269 Score: 450
Period size: 41 Copynumber: 8.7 Consensus size: 41
38189903 TGAACTTTCA
* * * *
38189913 GGGC-TTTAGTGGCGTTTCTAAAAAAGTGCCGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
38189953 AGGGC-TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
1 -GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
38189994 AGAGC-TTTAGCGACGTTTTTAAAAAAGCGCCGCTAATGCTT
1 -GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
38190035 AGGCTTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
38190076 GGGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
38190117 GGGCTTTTAGTGGTGTTTTTGAGAAAGCGCCGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
38190158 GGGCTTTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
38190199 GGGCTTTTAGCGACGTTTGTAAAAAAGCGCCGCTAATGCTT
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
38190240 GAGCTTTTAGTGGCGTTTTTGAAAAAGCGC
1 GGGCTTTTAGCGGCGTTTTTGAAAAAGCGC
38190270 TGCGAAAACA
Statistics
Matches: 284, Mismatches: 31, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
40 2 0.01
41 282 0.99
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (41 bp):
GGGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:38190629 original size:14 final size:15
Alignment explanation
Indices: 38190601--38190633 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
38190591 AACGTTTATA
38190601 GATTATGGAATTAGG
1 GATTATGGAATTAGG
38190616 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
38190630 GATT
1 GATT
38190634 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:38191187 original size:23 final size:22
Alignment explanation
Indices: 38191161--38191206 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
38191151 TTAATTTTTT
38191161 ATAAAAAATTAATTTAAAAAATA
1 ATAAAAAA-TAATTTAAAAAATA
* * *
38191184 ATAATAAATATTTTATAAAATA
1 ATAAAAAATAATTTAAAAAATA
38191206 A
1 A
38191207 CTTAACTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAAAAATAATTTAAAAAATA
Found at i:38194223 original size:20 final size:20
Alignment explanation
Indices: 38194200--38194274 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 20
38194190 TTTTTTAGAT
38194200 AATTATGT-TTATTTTCTTTA
1 AATTATGTATTATTTT-TTTA
* *
38194220 AATTAAGTGTTATTTTTTTA
1 AATTATGTATTATTTTTTTA
* *
38194240 ATTTCATGTATTATTTATTTA
1 AATT-ATGTATTATTTTTTTA
*
38194261 ATTTAT-TATT-TTTT
1 AATTATGTATTATTTT
38194275 ACATATACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.06
19 4 0.09
20 16 0.34
21 24 0.51
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (20 bp):
AATTATGTATTATTTTTTTA
Found at i:38194232 original size:21 final size:19
Alignment explanation
Indices: 38194200--38194240 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
38194190 TTTTTTAGAT
*
38194200 AATTATGTTTATTTTCTTTA
1 AATTAAGTTTATTTT-TTTA
38194220 AATTAAGTGTTATTTTTTTA
1 AATTAAGT-TTATTTTTTTA
38194240 A
1 A
38194241 TTTCATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (19 bp):
AATTAAGTTTATTTTTTTA
Found at i:38194253 original size:21 final size:19
Alignment explanation
Indices: 38194188--38194266 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 19
38194178 TTTTGAGTTA
38194188 ATTTTTTTAGATAATTATGTTT
1 ATTTTTTTA-AT--TTATGTTT
* *
38194210 ATTTTCTTTAAATTAAGTGTT
1 ATTTT-TTTAATTTATGT-TT
38194231 ATTTTTTTAATTTCATGTATT
1 ATTTTTTTAATTT-ATGT-TT
*
38194252 ATTTATTTAATTTAT
1 ATTTTTTTAATTTAT
38194267 TATTTTTTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 14 0.29
21 24 0.50
22 6 0.12
23 4 0.08
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (19 bp):
ATTTTTTTAATTTATGTTT
Found at i:38195608 original size:42 final size:43
Alignment explanation
Indices: 38195549--38195659 Score: 154
Period size: 42 Copynumber: 2.6 Consensus size: 43
38195539 AATAATTTTT
* ** *
38195549 TAAAGGTTATGTT-TTTAGCGGTGTTTTTGCCAGAAGCGCCGC
1 TAAAGGTTATGTTCTTTAGCGGCGTTTTTAACAAAAGCGCCGC
*
38195591 TAAAGGTT-TGTTCTTTAGCGGCGTTTTTAACAAAAGCGTCGC
1 TAAAGGTTATGTTCTTTAGCGGCGTTTTTAACAAAAGCGCCGC
*
38195633 TAAAGGTTATATTCTTTAGCGGCGTTT
1 TAAAGGTTATGTTCTTTAGCGGCGTTT
38195660 GCGGCTAAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 4 0.07
42 40 0.66
43 17 0.28
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (43 bp):
TAAAGGTTATGTTCTTTAGCGGCGTTTTTAACAAAAGCGCCGC
Found at i:38195670 original size:43 final size:43
Alignment explanation
Indices: 38195549--38195726 Score: 157
Period size: 43 Copynumber: 4.2 Consensus size: 43
38195539 AATAATTTTT
* * * *
38195549 TAAAGGTTATGTT-TTTAGCGGTGTTT-TTGCCAGAAGCGCCGC
1 TAAAGGTTATATTCTTTAGCGGCGTTTGTGGCTA-AAGCGCCGC
* * ** * *
38195591 TAAAGGTT-TGTTCTTTAGCGGCGTTTTTAACAAAAGCGTCGC
1 TAAAGGTTATATTCTTTAGCGGCGTTTGTGGCTAAAGCGCCGC
*
38195633 TAAAGGTTATATTCTTTAGCGGCGTTTGCGGCTAAAGCGCCGC
1 TAAAGGTTATATTCTTTAGCGGCGTTTGTGGCTAAAGCGCCGC
* * * * * *
38195676 TAAATGTCACGA-TCTTTAGCGGCATTTGTGGCTATAGCGCTGC
1 TAAAGGTTA-TATTCTTTAGCGGCGTTTGTGGCTAAAGCGCCGC
38195719 TAAAGGTT
1 TAAAGGTT
38195727 CACATAAACG
Statistics
Matches: 111, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.04
42 36 0.32
43 70 0.63
44 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (43 bp):
TAAAGGTTATATTCTTTAGCGGCGTTTGTGGCTAAAGCGCCGC
Found at i:38197540 original size:17 final size:17
Alignment explanation
Indices: 38197515--38197548 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38197505 AGAGAAAATG
38197515 TCACAGCCTACACACAA
1 TCACAGCCTACACACAA
*
38197532 TCACGGCCTACACACAA
1 TCACAGCCTACACACAA
38197549 ATGTCTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.41, G:0.09, T:0.12
Consensus pattern (17 bp):
TCACAGCCTACACACAA
Found at i:38199281 original size:26 final size:26
Alignment explanation
Indices: 38199235--38199284 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
38199225 AGTATACTCG
38199235 TTTTTTCATTTTGGTATCTAAACTTT
1 TTTTTTCATTTTGGTATCTAAACTTT
38199261 TTTTTTCTAATTTT-GTA-CTAAACT
1 TTTTTTC--ATTTTGGTATCTAAACT
38199285 ATCCTTCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 14 0.64
27 3 0.14
28 5 0.23
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (26 bp):
TTTTTTCATTTTGGTATCTAAACTTT
Found at i:38206766 original size:9 final size:9
Alignment explanation
Indices: 38206749--38206785 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
38206739 TGAGTTTTCG
38206749 AATTCGAAT
1 AATTCGAAT
*
38206758 AACTCGAAT
1 AATTCGAAT
*
38206767 AATTCAAAT
1 AATTCGAAT
38206776 AATTCGAAT
1 AATTCGAAT
38206785 A
1 A
38206786 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:38209873 original size:50 final size:52
Alignment explanation
Indices: 38209804--38209934 Score: 178
Period size: 50 Copynumber: 2.6 Consensus size: 52
38209794 ATGTGTTTTG
* * * *
38209804 CATTTAATAAAGTCATGCATTATGTAACTCTCATGTTAG-TTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCAT
*
38209855 CA-TAAATT-ATTACATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCAT
1 CATTAAATTAAGT-CATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCAT
*
38209906 CATTAAATTAAGTCATGCATTAAGTAACT
1 CATTAAATTAAGTCATGCATTATGTAACT
38209935 AATTTGCTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
49 2 0.03
50 29 0.42
51 15 0.22
52 21 0.30
53 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (52 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCAT
Found at i:38218283 original size:75 final size:76
Alignment explanation
Indices: 38218183--38218326 Score: 263
Period size: 75 Copynumber: 1.9 Consensus size: 76
38218173 GAACTCGAAT
*
38218183 AAATTCTAACTTTTTTAAGTATTTGTGATACAAATTTGCAAGACTATAATTGAACTCTCCTTCGC
1 AAATTCTAACTTTTTTAAGTATTTGTGATACAAATTTGCAAGACAATAATTGAACTCTCCTTCGC
38218248 AATTATGATAC
66 AATTATGATAC
*
38218259 AAATTCTAAC-TTTTTAAGTATTTGTGATACAAATTTGCAAGACAATAATTGAACTCTCCTTGGC
1 AAATTCTAACTTTTTTAAGTATTTGTGATACAAATTTGCAAGACAATAATTGAACTCTCCTTCGC
38218323 AATT
66 AATT
38218327 TTTCAACACT
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 56 0.85
76 10 0.15
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (76 bp):
AAATTCTAACTTTTTTAAGTATTTGTGATACAAATTTGCAAGACAATAATTGAACTCTCCTTCGC
AATTATGATAC
Found at i:38223717 original size:20 final size:20
Alignment explanation
Indices: 38223692--38223733 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
38223682 AATAAACCAC
38223692 TTTATTACTAGAGCTACTAG
1 TTTATTACTAGAGCTACTAG
38223712 TTTATTACTAGAGCTACTAG
1 TTTATTACTAGAGCTACTAG
38223732 TT
1 TT
38223734 GCAAAACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (20 bp):
TTTATTACTAGAGCTACTAG
Found at i:38224010 original size:17 final size:19
Alignment explanation
Indices: 38223976--38224010 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
38223966 AAAACCTAAG
38223976 TTTTCTATCTTGTACTTCT
1 TTTTCTATCTTGTACTTCT
38223995 TTTTCT-TCTT-TACTTC
1 TTTTCTATCTTGTACTTC
38224011 GTCCCTCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.09, C:0.23, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTCTATCTTGTACTTCT
Found at i:38226144 original size:20 final size:20
Alignment explanation
Indices: 38226115--38226153 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38226105 AGAGTATGAA
*
38226115 ATATCAATACCTTAGGAAAT
1 ATATCAATACCTTAAGAAAT
*
38226135 ATATCGATACCTTAAGAAA
1 ATATCAATACCTTAAGAAA
38226154 AGTACCGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (20 bp):
ATATCAATACCTTAAGAAAT
Found at i:38226162 original size:20 final size:20
Alignment explanation
Indices: 38226121--38226163 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
38226111 TGAAATATCA
* *
38226121 ATACCTTAGGAAATATATCG
1 ATACCTTAAGAAATATACCG
38226141 ATACCTTAAGAAA-AGTACCG
1 ATACCTTAAGAAATA-TACCG
38226161 ATA
1 ATA
38226164 TTGGATCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
ATACCTTAAGAAATATACCG
Found at i:38233311 original size:23 final size:23
Alignment explanation
Indices: 38233285--38233328 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
38233275 TTTAATAATT
* *
38233285 ATTTTATGTTTATTATGTTTACA
1 ATTTGATGTTTATTATCTTTACA
*
38233308 ATTTGATTTTTATTATCTTTA
1 ATTTGATGTTTATTATCTTTA
38233329 TTTAAATGTA
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:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (23 bp):
ATTTGATGTTTATTATCTTTACA
Found at i:38235254 original size:23 final size:23
Alignment explanation
Indices: 38235226--38235279 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
38235216 TCCCACCTCT
*
38235226 TCCACCATGATCAACCTTGC-TCC
1 TCCACCATGACCAACCTT-CATCC
38235249 TCCACCATGACCAACCTTCATCC
1 TCCACCATGACCAACCTTCATCC
38235272 TCCACCAT
1 TCCACCAT
38235280 CGCACCACCG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 1 0.03
23 28 0.97
ACGTcount: A:0.24, C:0.46, G:0.06, T:0.24
Consensus pattern (23 bp):
TCCACCATGACCAACCTTCATCC
Found at i:38238826 original size:7 final size:7
Alignment explanation
Indices: 38238806--38238839 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
38238796 TTAATTGAAT
38238806 TTTG-GG
1 TTTGTGG
*
38238812 TTTCTGG
1 TTTGTGG
38238819 TTTGTGG
1 TTTGTGG
38238826 TTTGTGG
1 TTTGTGG
38238833 TTTGTGG
1 TTTGTGG
38238840 ACTTTTGGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 3 0.12
7 22 0.88
ACGTcount: A:0.00, C:0.03, G:0.41, T:0.56
Consensus pattern (7 bp):
TTTGTGG
Found at i:38244971 original size:25 final size:25
Alignment explanation
Indices: 38244915--38244963 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
38244905 ATAATCCATG
** *
38244915 TAAATCATGTATTTCATGTAACTTA
1 TAAATCATGTAAATCATCTAACTTA
38244940 TAAATCATGTAAATCATCTAACTT
1 TAAATCATGTAAATCATCTAACTT
38244964 TTATATCAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (25 bp):
TAAATCATGTAAATCATCTAACTTA
Found at i:38245034 original size:20 final size:20
Alignment explanation
Indices: 38245011--38245069 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
38245001 CATCAGTAAT
* *
38245011 AACAGAAATTTATCCGTATC
1 AACAGTAATTTATCCATATC
* *
38245031 AACAGTAACTTATACATATC
1 AACAGTAATTTATCCATATC
*
38245051 AACAGTAATTCATCCATAT
1 AACAGTAATTTATCCATAT
38245070 AACTACATAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (20 bp):
AACAGTAATTTATCCATATC
Found at i:38245250 original size:26 final size:25
Alignment explanation
Indices: 38245221--38245304 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 25
38245211 CCATGATCGA
38245221 TAAGCTCATTCCAAGCTGATAAACGG
1 TAAGCTCATT-CAAGCTGATAAACGG
*
38245247 TAAGCTC-TATCGAGCTG--AAACGG
1 TAAGCTCAT-TCAAGCTGATAAACGG
*
38245270 TAAGCTCA-TAAGAGCTGATATAACGG
1 TAAGCTCATTCA-AGCTGATA-AACGG
38245296 TAAGCTCAT
1 TAAGCTCAT
38245305 ACGAGCTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
22 1 0.02
23 18 0.38
25 8 0.17
26 21 0.44
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (25 bp):
TAAGCTCATTCAAGCTGATAAACGG
Found at i:38245305 original size:26 final size:25
Alignment explanation
Indices: 38245234--38245312 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 25
38245224 GCTCATTCCA
38245234 AGCTGATAAACGGTAAGCTC-TATCG
1 AGCTGATAAACGGTAAGCTCATA-CG
*
38245259 AGCTG--AAACGGTAAGCTCATAAG
1 AGCTGATAAACGGTAAGCTCATACG
38245282 AGCTGATATAACGGTAAGCTCATACG
1 AGCTGATA-AACGGTAAGCTCATACG
38245308 AGCTG
1 AGCTG
38245313 TGGTGAGTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
23 19 0.40
24 2 0.04
25 6 0.12
26 21 0.44
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (25 bp):
AGCTGATAAACGGTAAGCTCATACG
Found at i:38257930 original size:5 final size:5
Alignment explanation
Indices: 38257920--38257951 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
38257910 GATTTATATC
38257920 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
38257952 ATGCAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:38265508 original size:14 final size:14
Alignment explanation
Indices: 38265481--38265521 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
38265471 TATTTGATAA
38265481 ATTAAAAAATTAAAT
1 ATTAAAAAA-TAAAT
38265496 ATTAAAAAATAAAT
1 ATTAAAAAATAAAT
* *
38265510 ACTGAAAAATAA
1 ATTAAAAAATAA
38265522 TTGTTGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (14 bp):
ATTAAAAAATAAAT
Found at i:38271910 original size:13 final size:13
Alignment explanation
Indices: 38271887--38271925 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
38271877 CTCAAAATCA
38271887 ATTTTTT-AAAAT
1 ATTTTTTAAAAAT
38271899 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
* *
38271912 ATTTCTCAAAAAT
1 ATTTTTTAAAAAT
38271925 A
1 A
38271926 ATACTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:38272884 original size:72 final size:72
Alignment explanation
Indices: 38272741--38272888 Score: 183
Period size: 73 Copynumber: 2.0 Consensus size: 72
38272731 GTTTTGATGA
* * *
38272741 TTTGAGGAAAAGTAAATGTTTTGGGAGAAAACAAAAGGAAAAAAATTTTGGGAGTTTTGGTGAAG
1 TTTGAGGAAAAGTAAATGTCTTGGGAGAAAACAAAAGGAAAAAAATTTTGGGAGTTTGGGGGAAG
38272806 TAAAATT
66 TAAAATT
* ** *
38272813 TTTGAGGGAGAAGTAAATGTCTTGGGA-AAAGTAAAAGGAAAAAAGTTTTGGG-GATTTGGGGGG
1 TTTGA-GGAAAAGTAAATGTCTTGGGAGAAAACAAAAGGAAAAAAATTTTGGGAG-TTT-GGGGG
*
38272876 AAGTAAATTT
63 AAGTAAAATT
38272886 TTT
1 TTT
38272889 TGGGAAGGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
71 1 0.02
72 30 0.46
73 34 0.52
ACGTcount: A:0.39, C:0.01, G:0.30, T:0.30
Consensus pattern (72 bp):
TTTGAGGAAAAGTAAATGTCTTGGGAGAAAACAAAAGGAAAAAAATTTTGGGAGTTTGGGGGAAG
TAAAATT
Found at i:38284368 original size:43 final size:43
Alignment explanation
Indices: 38284321--38284424 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
38284311 CCCAGATGTG
* * * * *
38284321 GTCTTACATGTAATCACATA-TCGATGCCACTGTCCCAGACAGT
1 GTCTTACACGTAAACACA-AGTCAATGCCAATGTACCAGACAGT
*
38284364 GTCTTACACGTAAACACAAGTCAATGCCAATGTACCAGACATT
1 GTCTTACACGTAAACACAAGTCAATGCCAATGTACCAGACAGT
*
38284407 GTCTTACACGAAAACACA
1 GTCTTACACGTAAACACA
38284425 TATTGGAGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 52 0.98
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (43 bp):
GTCTTACACGTAAACACAAGTCAATGCCAATGTACCAGACAGT
Found at i:38286096 original size:40 final size:40
Alignment explanation
Indices: 38286033--38286163 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
38286023 ATCGTCAGAT
* *
38286033 CAACCG-AACACACTAGAACGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
*
38286072 CAACCGAAACACACCAAAAAGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
* * *
38286112 CACCCGAAACACTCCAGATAGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
* *
38286152 TAATCGAAACAC
1 CAACCGAAACAC
38286164 GCTAGACAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 6 0.07
40 75 0.93
ACGTcount: A:0.45, C:0.28, G:0.14, T:0.13
Consensus pattern (40 bp):
CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
Found at i:38291011 original size:24 final size:24
Alignment explanation
Indices: 38290984--38291033 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
38290974 TTTTAATTCG
**
38290984 ATCCTTTATGTTATTTTTTATTTT
1 ATCCTTTATGTTATTTAATATTTT
38291008 ATCCTTTATGTTATTTAATATTTT
1 ATCCTTTATGTTATTTAATATTTT
38291032 AT
1 AT
38291034 GTTTAATTTC
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:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (24 bp):
ATCCTTTATGTTATTTAATATTTT
Found at i:38299664 original size:94 final size:94
Alignment explanation
Indices: 38299411--38299710 Score: 386
Period size: 94 Copynumber: 3.2 Consensus size: 94
38299401 AGTGAAACCT
* * ** *
38299411 CAAATCCTATACCTCTGAAGTTGTAGTGGGTCGAATTGAAGCTAAAATAGCGAATCTTATCTCCC
1 CAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCTACCATAGTGAATCTTATCTCCC
* *
38299476 TGAAGTTGCAATGGTGCAAGATGAAGCTA
66 TGAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * * * *
38299505 CAAATCCTATA-CCGTGAAGTTGCAATCGGTCAGATTGAAGCAACCATAGTGACTCTTATCTCCC
1 CAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCTACCATAGTGAATCTTATCTCCC
* * *
38299569 TGGAGTTGTAGTGGAGCGAGATGAAGCTA
66 TGAAGTTGCAGTGGAGCAAGATGAAGCTA
* * *
38299598 CAAATCCTATACCCCTAAAGTTGTAGTGGGTCAAATTAAAGCTACCATGGTGAATCTTATCTCCC
1 CAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCTACCATAGTGAATCTTATCTCCC
* *
38299663 TGAAGATGCAGTGGAGCAAGATGAAACTA
66 TGAAGTTGCAGTGGAGCAAGATGAAGCTA
*
38299692 CAAATCCTATATCCCTGAA
1 CAAATCCTATACCCCTGAA
38299711 ATTACAGTGG
Statistics
Matches: 171, Mismatches: 34, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
93 76 0.44
94 95 0.56
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (94 bp):
CAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCTACCATAGTGAATCTTATCTCCC
TGAAGTTGCAGTGGAGCAAGATGAAGCTA
Found at i:38299720 original size:94 final size:93
Alignment explanation
Indices: 38299403--38299785 Score: 358
Period size: 94 Copynumber: 4.1 Consensus size: 93
38299393 AACAGATCAG
* * * ** *
38299403 TGAAACCT-CAAATCCTATACCTCTGAAGTTGTAGTGGGTCGAATTGAAGCTAAAATAGCGAATC
1 TGAAA-CTACAAATCCTATACC-CTGAAATTGCAGTGGGTCAAATTGAAGCTACCATAGTGAATC
* *
38299467 TTATCTCCCTGAAGTTGCAATGGTGCAAGA
64 TTATCTCCCTGAAGTTGCAGTGGAGCAAGA
* * * * * * * *
38299497 TGAAGCTACAAATCCTATACCGTGAAGTTGCAATCGGTCAGATTGAAGCAACCATAGTGACTCTT
1 TGAAACTACAAATCCTATACCCTGAAATTGCAGTGGGTCAAATTGAAGCTACCATAGTGAATCTT
* * *
38299562 ATCTCCCTGGAGTTGTAGTGGAGCGAGA
66 ATCTCCCTGAAGTTGCAGTGGAGCAAGA
* * * *
38299590 TGAAGCTACAAATCCTATACCCCT-AAAGTTGTAGTGGGTCAAATTAAAGCTACCATGGTGAATC
1 TGAAACTACAAATCCTATA-CCCTGAAA-TTGCAGTGGGTCAAATTGAAGCTACCATAGTGAATC
*
38299654 TTATCTCCCTGAAGATGCAGTGGAGCAAGA
64 TTATCTCCCTGAAGTTGCAGTGGAGCAAGA
* * ** * * * **
38299684 TGAAACTACAAATCCTATATCCCTGAAATTACAGTGGAAT-GGATTGAAACTACAACAGCAAATC
1 TGAAACTACAAATCCTATA-CCCTGAAATTGCAGTGG-GTCAAATTGAAGCTACCATAGTGAATC
* * * *
38299748 TTATCTCCTTAAAGTTGCAATAGAGCAAGA
64 TTATCTCCCTGAAGTTGCAGTGGAGCAAGA
38299778 TGAAACTA
1 TGAAACTA
38299786 TAACACTAAA
Statistics
Matches: 234, Mismatches: 50, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
93 79 0.34
94 151 0.65
95 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (93 bp):
TGAAACTACAAATCCTATACCCTGAAATTGCAGTGGGTCAAATTGAAGCTACCATAGTGAATCTT
ATCTCCCTGAAGTTGCAGTGGAGCAAGA
Found at i:38303073 original size:41 final size:41
Alignment explanation
Indices: 38303017--38303143 Score: 139
Period size: 41 Copynumber: 3.1 Consensus size: 41
38303007 AAAAATCTTA
*
38303017 ATATGATACATTGGCATGAAGCCTGCTAGGCGTAAAGCCTG
1 ATATGATACACTGGCATGAAGCCTGCTAGGCGTAAAGCCTG
* * * *
38303058 TTATGGTACACTGGCA-GTAAGCTTGCTAGGCGTAAAGACTG
1 ATATGATACACTGGCATG-AAGCCTGCTAGGCGTAAAGCCTG
* * * * * *
38303099 ATATAATTCACCGACATAAAGCCTGCTAGGCATAAAGCCTG
1 ATATGATACACTGGCATGAAGCCTGCTAGGCGTAAAGCCTG
38303140 ATAT
1 ATAT
38303144 AATTCACCAG
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
40 1 0.01
41 68 0.99
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (41 bp):
ATATGATACACTGGCATGAAGCCTGCTAGGCGTAAAGCCTG
Found at i:38303144 original size:41 final size:41
Alignment explanation
Indices: 38303035--38303176 Score: 135
Period size: 41 Copynumber: 3.5 Consensus size: 41
38303025 CATTGGCATG
* * ** * * *
38303035 AAGCCTGCTAGGCGTAAAGCCTGTTATGGTACACTGGCAGT-
1 AAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGACA-TA
* * *
38303076 AAGCTTGCTAGGCGTAAAGACTGATATAATTCACCGACATA
1 AAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGACATA
*
38303117 AAGCCTGCTAGGCATAAAGCCTGATATAATTCACC-AGCACA
1 AAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGA-CATA
* *
38303158 AAGCGTGATAGGCATAAAG
1 AAGCCTGCTAGGCATAAAG
38303177 TCCGATTATC
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
40 2 0.02
41 83 0.98
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (41 bp):
AAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGACATA
Found at i:38310937 original size:41 final size:41
Alignment explanation
Indices: 38310837--38310978 Score: 160
Period size: 41 Copynumber: 3.5 Consensus size: 41
38310827 AATATGATAA
** * * * *
38310837 ACCAGCACGAAGCCTGCTAGGCATAAGGCCT-ATTATGGTAC
1 ACCAGCATAAAGCCTGCTAGGCGTAAAGCCTGA-TATAGTTC
* * * *
38310878 ATCGGCATTAAGCTTGCTAGGCGTAAAGCCTGATATAGTTC
1 ACCAGCATAAAGCCTGCTAGGCGTAAAGCCTGATATAGTTC
*
38310919 ACCAGCATAAAGCCTGCTAGGCGTAAAGCCTGATATAATTC
1 ACCAGCATAAAGCCTGCTAGGCGTAAAGCCTGATATAGTTC
*
38310960 ACTAGCATAAAGCCTGCTA
1 ACCAGCATAAAGCCTGCTA
38310979 AGTATAAAGC
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 84 0.99
42 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
ACCAGCATAAAGCCTGCTAGGCGTAAAGCCTGATATAGTTC
Found at i:38310987 original size:41 final size:41
Alignment explanation
Indices: 38310882--38310989 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
38310872 TGGTACATCG
* * * * *
38310882 GCATTAAGCTTGCTAGGCGTAAAGCCTGATATAGTTCACCA
1 GCATAAAGCCTGCTAAGCATAAAGCCTGATATAATTCACCA
* * *
38310923 GCATAAAGCCTGCTAGGCGTAAAGCCTGATATAATTCACTA
1 GCATAAAGCCTGCTAAGCATAAAGCCTGATATAATTCACCA
*
38310964 GCATAAAGCCTGCTAAGTATAAAGCC
1 GCATAAAGCCTGCTAAGCATAAAGCC
38310990 CGATTATCAC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (41 bp):
GCATAAAGCCTGCTAAGCATAAAGCCTGATATAATTCACCA
Found at i:38313782 original size:10 final size:10
Alignment explanation
Indices: 38313751--38313800 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
38313741 AAAATTATTA
**
38313751 TTTTAAAAAA
1 TTTTAAAATT
38313761 TTTTAAAA--
1 TTTTAAAATT
38313769 TTTTAAAATT
1 TTTTAAAATT
* *
38313779 TTTTAGATTT
1 TTTTAAAATT
38313789 TTTTAAAATT
1 TTTTAAAATT
38313799 TT
1 TT
38313801 ATATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 8 0.24
10 26 0.76
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:38313794 original size:20 final size:19
Alignment explanation
Indices: 38313769--38313815 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
38313759 AATTTTAAAA
38313769 TTTTAAAATTTTTTAGATTT
1 TTTTAAAA-TTTTTAGATTT
*
38313789 TTTTAAAA-TTTTATATTT
1 TTTTAAAATTTTTAGATTT
38313807 TTTTAAAAT
1 TTTTAAAAT
38313816 ATAAATTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 17 0.68
20 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTAAAATTTTTAGATTT
Found at i:38313845 original size:20 final size:20
Alignment explanation
Indices: 38313751--38313873 Score: 78
Period size: 20 Copynumber: 6.2 Consensus size: 20
38313741 AAAATTATTA
* *
38313751 TTTTAAAA-AATTTT-AAAA
1 TTTTAAAATTATTTTGAAAT
**
38313769 TTTTAAAATT-TTTTAGATTT
1 TTTTAAAATTATTTT-GAAAT
* **
38313789 TTTTAAAATT-TTAT-ATTT
1 TTTTAAAATTATTTTGAAAT
38313807 TTTTAAAATATAAATTTTGAAAT
1 TTTTAAAAT-T--ATTTTGAAAT
38313830 TTTTATAAA-TATTTTGAAAT
1 TTTTA-AAATTATTTTGAAAT
* *
38313850 TTTGAAAATTATTTTGTAAT
1 TTTTAAAATTATTTTGAAAT
38313870 TTTT
1 TTTT
38313874 GTTTCGAGAG
Statistics
Matches: 84, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
18 25 0.30
19 4 0.05
20 41 0.49
22 4 0.05
23 7 0.08
24 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTAAAATTATTTTGAAAT
Found at i:38318182 original size:123 final size:123
Alignment explanation
Indices: 38317961--38318205 Score: 312
Period size: 123 Copynumber: 2.0 Consensus size: 123
38317951 AGCTTAACTC
* * * * * * *
38317961 TATGAGGTCTTATAATGTTAGCTGGGAACATAGGTCTGCTAGCTACTTTGGATGTTGTGATCTTA
1 TATGAGATCTTATAATGTCAGCTGAGAACATAAGTCTACTAGCTACTTTGGAGGTTGCGATCTTA
** *
38318026 AGTCGGCAAACCTTCATGACATCAATTGAGAGCGTAAG-TCTGCTAGCTGTGTTGGAGA
66 AACCGGCAAACCTTCATGACATCAATTGAGAGCGTAAGTTC-GCTAGCTGTGCTGGAGA
* *
38318084 TATGAGATCTTATAATGTCAGTTGAGAACATAAGTCTACTAGCTGCTTTGGAGGTTGCGATCTTA
1 TATGAGATCTTATAATGTCAGCTGAGAACATAAGTCTACTAGCTACTTTGGAGGTTGCGATCTTA
* * * * * *
38318149 AACCGGCCAATCTTTATGACATCAGTTGGGAGCGTAGGTTCGCTAGCTGTGCTGGAG
66 AACCGGCAAACCTTCATGACATCAATTGAGAGCGTAAGTTCGCTAGCTGTGCTGGAG
38318206 CGGCGAGTTT
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
123 101 0.98
124 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (123 bp):
TATGAGATCTTATAATGTCAGCTGAGAACATAAGTCTACTAGCTACTTTGGAGGTTGCGATCTTA
AACCGGCAAACCTTCATGACATCAATTGAGAGCGTAAGTTCGCTAGCTGTGCTGGAGA
Found at i:38320784 original size:20 final size:20
Alignment explanation
Indices: 38320751--38320794 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
38320741 TAAAGAAAGT
* *
38320751 AAATGCAATGGAAAGTAATA
1 AAATGCAATGGAAAATAAGA
38320771 AAATGCAAAT-GAAAATAAGA
1 AAATGC-AATGGAAAATAAGA
38320791 AAAT
1 AAAT
38320795 TTTAAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.61, C:0.05, G:0.16, T:0.18
Consensus pattern (20 bp):
AAATGCAATGGAAAATAAGA
Found at i:38329399 original size:12 final size:12
Alignment explanation
Indices: 38329382--38329409 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38329372 TTTATTTCCC
38329382 TTTTCTTATTCT
1 TTTTCTTATTCT
38329394 TTTTCTTATTCT
1 TTTTCTTATTCT
38329406 TTTT
1 TTTT
38329410 TTTTTTGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTTATTCT
Found at i:38329773 original size:16 final size:15
Alignment explanation
Indices: 38329746--38329778 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
38329736 TTAAATATTT
38329746 TTATTATTCTTGTTA
1 TTATTATTCTTGTTA
38329761 TTATTATTTCTTGTTA
1 TTATTA-TTCTTGTTA
38329777 TT
1 TT
38329779 GTATTCACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (15 bp):
TTATTATTCTTGTTA
Found at i:38336614 original size:94 final size:94
Alignment explanation
Indices: 38336450--38337944 Score: 1515
Period size: 94 Copynumber: 16.0 Consensus size: 94
38336440 CAATGAAATA
* ** * *
38336450 ACAAATCCTATACCCTTGAAGTTGCAGTATGTCGGATTGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
38336515 CTGAAGCTACAGTGGAGCAAGATAAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * *** * *
38336544 AGAAATCCTATACCCCTGAAATTGTAGTGGGTCAGATTGAAGCTACAATAATAAATATTATCTCT
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* ** * * *
38336609 TTGAAGTTTTAATGGAGTAACATGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * *
38336638 ACAAATCTTATACCTCTGAAGTTGTAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTACCTTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* *
38336703 CTGAAGTTGCAGTGGAGTAAGATGAAGCC
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * *
38336732 ATAAATCCTGTACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGTGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
38336797 CTAAATTTGCAGTGGAGCAAGATGAAGAT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * *
38336826 ACAAATCTTATACCCCTAAAGTTACAGTGGGTCAAATTAAAGCTACCATAGCGAATCCTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* *
38336891 CTGAAGTTACAGTGGAGTAAGATGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
38336920 ACAAATCATATACCCTTGAAGATGCAATGGGTC-G---GAA--TACCATAGCGAATC-TATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
38336978 CTAAAGTTGTAGTGGAGCAAGATAAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * ** * *
38337007 ACAAATCATATACCCTTGAAGTTGCAGCAGGTCAGATTGAAGCTACCA-A-CTAAATTTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGC-GAATCTTATCTC
* * *
38337070 CTTGAAGTTGCAGTGGAGAAAGATGGAGCT
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
38337100 ACAAATCTTGTACCCCTGAAGTTGCAGTGGATCAGATTGAAGCTACAATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* *
38337165 CTGAAGTTGAAGTGAAGCAAGATGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
38337194 ACAAATCTTATACCTCTGAAGTTACAGTAGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * * *
38337259 CTGACGTTACAGTAGAGTAAGATGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * *
38337288 ATAAATCCTATACCCCTGGAGTTGCAGT-GGTCGGAATGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* *
38337352 CTAAAGTTACAGTGGAGCAA-AGTGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGA-TGAAGCT
* * * *
38337381 ACAAATCCTATACCCCTGAAGTTACAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
38337446 TTGAAGTTGTAGTGGAGTAAGATGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * *** *
38337475 ACAAATCATATACCCCTGAAGTTGCAGTAGGTTTTATTGAAGCTACCATAGTGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * ** * * * *
38337540 CTAAAATTATAGTGAAACAAAATAAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * * *
38337569 ACAAATTCTATGCCCCTGAAGATGAAATAGGTC-GAAATGAAGCTACCATAGCAAATCTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAG-ATTGAAGCTACCATAGCGAATCTTATCTC
* *
38337633 CTTGAAGTTGCAATGGAGCAAGATGAAGCT
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCT
** * * * * * * * * *
38337663 ACAAATCCTATGTCCCTGAGGATGTAGTAGGCCAGAATAAAGTTACCATAGCGAATCTTATCTTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
38337728 CTGAAGTTGTAGTGGAGCAAGATAAAGTT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * * *
38337757 AGAAATCCTATACCCCTGAAGATGCAGTGTGTCATAATGAAACTACAATAGCGAATCTTATTTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* *
38337822 CTAAAGTTGCAGTGGAGCAAGACGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * * * *
38337851 ACAAATCCTATACCCTTGAAGTTACAGTGGGT-TGAAATGAAACTACAACAACAAATCTTATCT-
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAG-ATTGAAGCTACCATAGCGAATCTTATCTC
* * * *
38337914 CTTTATGTTGCAATGGAGCAAGATGAAGCT
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCT
38337944 A
1 A
38337945 TGATACTAAA
Statistics
Matches: 1156, Mismatches: 229, Indels: 33
0.82 0.16 0.02
Matches are distributed among these distances:
87 60 0.05
88 15 0.01
90 2 0.00
91 4 0.00
92 5 0.00
93 182 0.16
94 885 0.77
95 3 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (94 bp):
ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
CTGAAGTTGCAGTGGAGCAAGATGAAGCT
Found at i:38336679 original size:44 final size:43
Alignment explanation
Indices: 38336501--38337502 Score: 343
Period size: 44 Copynumber: 21.6 Consensus size: 43
38336491 GCTACCATAG
* * *
38336501 CAAATCTTAT-CTCCCTGAAGCTACAGTGGAG-CAAGATAAAGCTA
1 CAAATCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATGAAGCTA
* * * *
38336545 GAAATCCTATACCCCTGAAATTGTAGTGGGTCAGATTGAAGCTA
1 CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGA-TGAAGCTA
** ** ** * * *
38336589 CAATAATAAATATTATCTCTTTGAAGTTTTAATGGAGTAACATGAAGCTA
1 C-A-AAT-CTTA-TA-C-CCCTGAAGTTGCAGTGG-GTCAGATGAAGCTA
* *
38336639 CAAATCTTATACCTCTGAAGTTGTAGTGGGTCAGATTGAAGCTA
1 CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGA-TGAAGCTA
* *
38336683 CCATAGCGAATC-T-TACCTTCCTGAAGTTGCAGTGGAGTAAGATGAAGCCA
1 -C--A---AATCTTATACC--CCTGAAGTTGCAGTGG-GTCAGATGAAGCTA
* * *
38336733 TAAATCCTGTACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTA
1 CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGA-TGAAGCTA
* * *
38336777 CCATAGTGAATCTTAT-CTCCCTAAATTTGCAGTGGAG-CAAGATGAAGATA
1 -C--A---AATCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATGAAGCTA
* * * *
38336827 CAAATCTTATACCCCTAAAGTTACAGTGGGTCAAATTAAAGCTA
1 CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGA-TGAAGCTA
* * *
38336871 CCATAGCGAATCCTAT-CTCCCTGAAGTTACAGTGGAGTAAGATGAAGCTA
1 -C--A---AATCTTATAC-CCCTGAAGTTGCAGTGG-GTCAGATGAAGCTA
* * * * * *
38336921 CAAATCATATACCCTTGAAGATGCAATGGGTCGGA--ATACCATA
1 CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATGA-AGC-TA
* * * *
38336964 GCGAATC-TAT-CTCCCTAAAGTTGTAGTGGAG-CAAGATAAAGCTA
1 -CAAATCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATGAAGCTA
* * **
38337008 CAAATCATATACCCTTGAAGTTGCAGCAGGTCAGATTGAAGCTACCAA
1 CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGA-TGAAGCT----A
* * ** *
38337056 CTAAATTTTAT-CTCCTTGAAGTTGCAGTGGAGAAAGATGGAGCTA
1 C-AAATCTTATAC-CCCTGAAGTTGCAGTGG-GTCAGATGAAGCTA
* *
38337101 CAAATCTTGTACCCCTGAAGTTGCAGTGGATCAGATTGAAGCTA
1 CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGA-TGAAGCTA
* *
38337145 CAATAGCGAATCTTAT-CTCCCTGAAGTTGAAGTGAAG-CAAGATGAAGCTA
1 C---A---AATCTTATAC-CCCTGAAGTTGCAGTG-GGTC-AGATGAAGCTA
* * *
38337195 CAAATCTTATACCTCTGAAGTTACAGTAGGTCAGATTGAAGCTA
1 CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGA-TGAAGCTA
* * * *
38337239 CCATAGCGAATCTTAT-CTCCCTGACGTTACAGTAGAGTAAGATGAAGCTA
1 -C--A---AATCTTATAC-CCCTGAAGTTGCAGT-GGGTCAGATGAAGCTA
* * * *
38337289 TAAATCCTATACCCCTGGAGTTGCAGT-GGTCGGAATGAAGCTACCATA
1 CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAG-ATGAAG----C-TA
* * *
38337337 GCAAATCTTAT-CTCCCTAAAGTTACAGTGGAG-CAAAGTGAAGCTA
1 -CAAATCTTATAC-CCCTGAAGTTGCAGTGG-GTCAGA-TGAAGCTA
* * *
38337382 CAAATCCTATACCCCTGAAGTTACAATGGGTCAGAATGAAGCTACCATA
1 CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAG-ATGAAG----C-TA
* * *
38337431 GCAAATCTTAT-CTCCTTGAAGTTGTAGTGGAGTAAGATGAAGCTA
1 -CAAATCTTATAC-CCCTGAAGTTGCAGTGG-GTCAGATGAAGCTA
*
38337476 CAAATCATATACCCCTGAAGTTGCAGT
1 CAAATCTTATACCCCTGAAGTTGCAGT
38337503 AGGTTTTATT
Statistics
Matches: 723, Mismatches: 126, Indels: 218
0.68 0.12 0.20
Matches are distributed among these distances:
41 1 0.00
42 6 0.01
43 61 0.08
44 292 0.40
45 24 0.03
46 12 0.02
47 15 0.02
48 16 0.02
49 61 0.08
50 205 0.28
51 30 0.04
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (43 bp):
CAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATGAAGCTA
Found at i:38343018 original size:12 final size:12
Alignment explanation
Indices: 38343001--38343028 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38342991 TGGTATGTGA
38343001 TAATCTGATTTT
1 TAATCTGATTTT
38343013 TAATCTGATTTT
1 TAATCTGATTTT
38343025 TAAT
1 TAAT
38343029 GTCTTCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (12 bp):
TAATCTGATTTT
Found at i:38344735 original size:21 final size:21
Alignment explanation
Indices: 38344706--38344749 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
38344696 AAAATTATTT
* *
38344706 AAAAGATTTTAGATTTATTGA
1 AAAAGATTTAAAATTTATTGA
*
38344727 AAAATATTTAAAATTTATTGA
1 AAAAGATTTAAAATTTATTGA
38344748 AA
1 AA
38344750 TCAACATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (21 bp):
AAAAGATTTAAAATTTATTGA
Found at i:38345045 original size:31 final size:30
Alignment explanation
Indices: 38344998--38345055 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
38344988 TTTTTAAAAA
38344998 AATAATTATTAATAATTT-CTTATAATTCTC
1 AATAATTATTAATAATTTGC-TATAATTCTC
*
38345028 AATAATTTTTAAATAATTTGCTATAATT
1 AATAATTATT-AATAATTTGCTATAATT
38345056 TTTTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 9 0.36
31 15 0.60
32 1 0.04
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (30 bp):
AATAATTATTAATAATTTGCTATAATTCTC
Found at i:38346966 original size:17 final size:18
Alignment explanation
Indices: 38346933--38346966 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38346923 TATTAACACT
*
38346933 TAAAATAATATTATATAG
1 TAAAATAATAGTATATAG
38346951 TAAAATAAT-GTATATA
1 TAAAATAATAGTATATA
38346967 CAAAAAATGT
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:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAAATAATAGTATATAG
Found at i:38351110 original size:3 final size:3
Alignment explanation
Indices: 38351091--38351126 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
38351081 TTTAGCAATT
*
38351091 TTA TT- TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
38351127 ATCATTGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:38351447 original size:17 final size:17
Alignment explanation
Indices: 38351408--38351447 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
38351398 CATGCACATT
*
38351408 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
38351425 TATATATTTATATAATA
1 TTTATATGTATATAATA
38351442 TTTATA
1 TTTATA
38351448 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:38352158 original size:21 final size:21
Alignment explanation
Indices: 38352128--38352167 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
38352118 TTTCGTGGAC
*
38352128 CAAACCTGTTGTTTTAAAAAAT
1 CAAACCTGTT-TATTAAAAAAT
38352150 CAAA-CTGTTTATTAAAAA
1 CAAACCTGTTTATTAAAAA
38352168 CAACCACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (21 bp):
CAAACCTGTTTATTAAAAAAT
Found at i:38374062 original size:44 final size:43
Alignment explanation
Indices: 38373952--38374364 Score: 227
Period size: 44 Copynumber: 9.5 Consensus size: 43
38373942 ATTATACAGG
* *** * *
38373952 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
* *
38373998 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* ** ** *
38374042 TCTTATCTCTCTGAGATTACAACGGAGCAGATCAAAG-ATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAG--A
* * * *
38374086 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
* * * * *
38374125 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCAGAGA
* * * ** * * *
38374166 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
*
38374212 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* **
38374256 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * * ** *
38374299 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCAGA-GA
* *
38374343 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
38374365 CAGAGTAGAT
Statistics
Matches: 285, Mismatches: 62, Indels: 42
0.73 0.16 0.11
Matches are distributed among these distances:
38 2 0.01
39 24 0.08
40 1 0.00
41 28 0.10
42 9 0.03
43 33 0.12
44 122 0.43
45 1 0.00
46 63 0.22
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
Found at i:38374345 original size:87 final size:87
Alignment explanation
Indices: 38374215--38374374 Score: 214
Period size: 87 Copynumber: 1.8 Consensus size: 87
38374205 TTTCAGATCT
* * ** *
38374215 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
38374280 GAGCAGATTGAAGACACTATCC
66 GAGCAGATTGAAGACACTATCC
* * * *
38374302 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAGGTTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTCCCTGAGATTACAGC
*
38374366 AGAGTAGAT
65 AGAGCAGAT
38374375 CGCATCAAGT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
87 58 0.94
88 4 0.06
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATTGAAGACACTATCC
Found at i:38376212 original size:3 final size:3
Alignment explanation
Indices: 38376198--38376252 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
38376188 GCAATTTTAT
*
38376198 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38376246 TTA TTA T
1 TTA TTA T
38376253 ATCATTGTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:38376578 original size:17 final size:17
Alignment explanation
Indices: 38376539--38376578 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
38376529 CATGCACATT
*
38376539 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
38376556 TATATATTTATATAATA
1 TTTATATGTATATAATA
38376573 TTTATA
1 TTTATA
38376579 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:38380005 original size:12 final size:12
Alignment explanation
Indices: 38379990--38380015 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38379980 TCTTTCTTCT
38379990 TCTTCCTCTTTC
1 TCTTCCTCTTTC
38380002 TCTTCCTCTTTC
1 TCTTCCTCTTTC
38380014 TC
1 TC
38380016 CTTTTTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (12 bp):
TCTTCCTCTTTC
Found at i:38380011 original size:18 final size:17
Alignment explanation
Indices: 38379982--38380035 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
38379972 GGGGTTCTTC
*
38379982 TTTCTTCTTCTTCCTCT
1 TTTCTTCCTCTTCCTCT
*
38379999 TTCTCTTCCTCTTTCTCCT
1 TT-TCTTCCTCTTCCT-CT
*
38380018 TTTTTTCCTCTTCCTCT
1 TTTCTTCCTCTTCCTCT
38380035 T
1 T
38380036 CCTTAAGTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.16
18 22 0.71
19 4 0.13
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTCTTCCTCTTCCTCT
Found at i:38380931 original size:26 final size:27
Alignment explanation
Indices: 38380858--38380964 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
38380848 CGACAACAAG
* **
38380858 GAATAGCCTTTATGGTGAACTCTAAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
* * *
38380885 GAACAGCCTTTGTGGCGAACTATAAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
* *
38380912 GAATA-CATTTGTGGCAAACTCTGAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
* *
38380938 GAATAGCCTTTATGGCAAATTCTAAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
38380965 AGATCGCTTA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
26 22 0.33
27 44 0.67
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (27 bp):
GAATAGCCTTTGTGGCAAACTCTAAAA
Found at i:38383984 original size:11 final size:11
Alignment explanation
Indices: 38383968--38383992 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38383958 TTTATGTTTG
38383968 TTTAATTGAAT
1 TTTAATTGAAT
38383979 TTTAATTGAAT
1 TTTAATTGAAT
38383990 TTT
1 TTT
38383993 GATATCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTAATTGAAT
Found at i:38395970 original size:21 final size:21
Alignment explanation
Indices: 38395946--38395985 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
38395936 CATGTTTCAT
*
38395946 CATCAACATCCTCATCGCTCA
1 CATCAACATCATCATCGCTCA
**
38395967 CATCATTATCATCATCGCT
1 CATCAACATCATCATCGCT
38395986 GTTATCTCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.38, G:0.05, T:0.30
Consensus pattern (21 bp):
CATCAACATCATCATCGCTCA
Found at i:38397372 original size:70 final size:71
Alignment explanation
Indices: 38397290--38397437 Score: 244
Period size: 70 Copynumber: 2.1 Consensus size: 71
38397280 AGAAATATAT
* * *
38397290 ACAATATTAAAATAAAATTTTAATTACATTGCGATTAAAAAGAAATTTAAA-ACATAAATACATC
1 ACAATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACACATAAATACATC
38397354 ACATTA
66 ACATTA
* *
38397360 ACAATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACATATAAATGCATC
1 ACAATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACACATAAATACATC
38397425 ACATTA
66 ACATTA
38397431 ACAATAT
1 ACAATAT
38397438 TAAATGCACT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
70 48 0.67
71 24 0.33
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (71 bp):
ACAATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACACATAAATACATC
ACATTA
Found at i:38397885 original size:17 final size:18
Alignment explanation
Indices: 38397852--38397887 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
38397842 TAATAAAATG
38397852 TGTATAATAAAATTAAAA
1 TGTATAATAAAATTAAAA
*
38397870 TGTATAA-AACATTAAAA
1 TGTATAATAAAATTAAAA
38397887 T
1 T
38397888 AAAATTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (18 bp):
TGTATAATAAAATTAAAA
Found at i:38401649 original size:31 final size:31
Alignment explanation
Indices: 38401614--38401683 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
38401604 AGTTAGTCCT
* *
38401614 TAAACTTGACAATTGTTCCCACATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
*
38401645 TAAACTTGACAATTGCTCCCAAATTGGGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
38401676 TAAACTTG
1 TAAACTTG
38401684 GAAATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (31 bp):
TAAACTTGACAATTGCTCCCAAATTGAGGCC
Found at i:38403911 original size:19 final size:19
Alignment explanation
Indices: 38403887--38403925 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
38403877 CAAGAATTGG
38403887 TATTAAGAGTTAGGTGACA
1 TATTAAGAGTTAGGTGACA
38403906 TATTAAGAGTTAGGTGACA
1 TATTAAGAGTTAGGTGACA
38403925 T
1 T
38403926 TCTTGTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (19 bp):
TATTAAGAGTTAGGTGACA
Found at i:38412645 original size:20 final size:18
Alignment explanation
Indices: 38412598--38412704 Score: 62
Period size: 20 Copynumber: 5.8 Consensus size: 18
38412588 GCAGATAAAC
38412598 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
38412615 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
38412635 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
38412654 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
38412671 ATTAAATGTAATATTAAACT
1 ATTAAAT-TAATATTTAA-T
*
38412691 ATTAAAATAATATT
1 ATTAAATTAATATT
38412705 ATTTTTGGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
16 1 0.01
17 15 0.21
18 9 0.13
19 21 0.30
20 24 0.34
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:38413154 original size:18 final size:18
Alignment explanation
Indices: 38413133--38413167 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
38413123 TAATTGATTT
38413133 GATTAATTTAATTTTACC
1 GATTAATTTAATTTTACC
38413151 GATTAATTTAATTTTAC
1 GATTAATTTAATTTTAC
38413168 TTGATCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (18 bp):
GATTAATTTAATTTTACC
Found at i:38414361 original size:15 final size:16
Alignment explanation
Indices: 38414331--38414363 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
38414321 CTATACATGC
*
38414331 AAAATATAAAACACAT
1 AAAATATAAAAAACAT
38414347 AAAATA-AAAAAACAT
1 AAAATATAAAAAACAT
38414362 AA
1 AA
38414364 TAGTGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATATAAAAAACAT
Found at i:38416269 original size:3 final size:3
Alignment explanation
Indices: 38416261--38416296 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
38416251 TTGAACTTCT
* *
38416261 TAA TAA TAA TAA TAA TAA TAA TAG TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38416297 ATAAGCAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:38416344 original size:13 final size:13
Alignment explanation
Indices: 38416326--38416353 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38416316 ATATCACTTG
38416326 AACTTACATAGAA
1 AACTTACATAGAA
38416339 AACTTACATAGAA
1 AACTTACATAGAA
38416352 AA
1 AA
38416354 GAAGATTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AACTTACATAGAA
Found at i:38417171 original size:31 final size:31
Alignment explanation
Indices: 38417133--38417233 Score: 166
Period size: 31 Copynumber: 3.3 Consensus size: 31
38417123 AGTTAGCCCT
* * *
38417133 TAAACTTGAGAATTGTTCCCACATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
*
38417164 TGAACTTGACAATTGCTCCCAAATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
38417195 TAAACTTGACAATTGCTCCCAAATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
38417226 TAAACTTG
1 TAAACTTG
38417234 GAAATATCAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (31 bp):
TAAACTTGACAATTGCTCCCAAATTGAGGCC
Found at i:38417608 original size:3 final size:3
Alignment explanation
Indices: 38417600--38417629 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
38417590 TTGAACTTCT
38417600 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38417630 GCAAGAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:38419989 original size:20 final size:21
Alignment explanation
Indices: 38419940--38419993 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
38419930 TCGGTAGTCG
*
38419940 AACCAGTCAAGTCATTGGTTC
1 AACCAGTCAAGTCATTGATTC
*
38419961 -ATCAGTCAAGTCATTGATTC
1 AACCAGTCAAGTCATTGATTC
38419981 AACCA-TCAAGTCA
1 AACCAGTCAAGTCA
38419994 ACTATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (21 bp):
AACCAGTCAAGTCATTGATTC
Found at i:38423240 original size:12 final size:12
Alignment explanation
Indices: 38423220--38423249 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38423210 TATGGTTAAT
*
38423220 TTCTTTAGCAGC
1 TTCTGTAGCAGC
38423232 TTCTGTAGCAGC
1 TTCTGTAGCAGC
38423244 TTCTGT
1 TTCTGT
38423250 TGTTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (12 bp):
TTCTGTAGCAGC
Found at i:38423897 original size:91 final size:91
Alignment explanation
Indices: 38423765--38423972 Score: 274
Period size: 91 Copynumber: 2.3 Consensus size: 91
38423755 TTGATTTTAG
* *
38423765 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTAT
* *
38423830 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
* * * * *
38423857 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
38423922 TGTAATAATTATTATTTTAAATTATA
66 TGTAATAATTATTATTTTAAATTATA
* * * *
38423948 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
38423973 GTTATAATTA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
91 83 0.81
92 19 0.19
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:38424021 original size:16 final size:17
Alignment explanation
Indices: 38424002--38424033 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
38423992 TTATTAAATC
38424002 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
38424018 ATATATTTAATATTAA
1 ATATATTTAATATTAA
38424034 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:38424097 original size:66 final size:63
Alignment explanation
Indices: 38424026--38424238 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
38424016 AAATATATTT
38424026 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
38424090 AG
62 AG
* * * * * * *
38424092 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
38424152 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
38424212 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
38424239 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:38424112 original size:120 final size:120
Alignment explanation
Indices: 38423988--38424280 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
38423978 AATTATTTTA
* * *
38423988 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
38424051 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
38424108 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
38424173 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
38424228 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
38424281 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:38424140 original size:18 final size:17
Alignment explanation
Indices: 38424109--38424143 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38424099 ATTATTAAGA
38424109 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
38424126 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
38424144 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:38424257 original size:18 final size:17
Alignment explanation
Indices: 38424229--38424263 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38424219 ATTATTAAGA
*
38424229 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38424246 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38424264 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38424377 original size:147 final size:149
Alignment explanation
Indices: 38424217--38424491 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
38424207 ATAAGAATAT
*
38424217 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
38424282 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
38424345 TACCAAAAAAAATTTCTGC
131 TACCAAAAAAAATTTCTGC
38424364 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
38424429 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
38424492 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAAAAAATTTCTGC
Found at i:38424404 original size:18 final size:17
Alignment explanation
Indices: 38424376--38424410 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38424366 ATTATTAAGA
*
38424376 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38424393 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38424411 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38424621 original size:44 final size:45
Alignment explanation
Indices: 38424572--38424666 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
38424562 TTACACCTCT
* *
38424572 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
38424616 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
38424661 ATTACA
1 ATTACA
38424667 CCTATAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:38424666 original size:16 final size:16
Alignment explanation
Indices: 38424647--38424698 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
38424637 GATTTGCTAT
* *
38424647 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
38424663 TACACCTATAATCCAA
1 TACACCTCTAATCCAA
38424679 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38424695 TACA
1 TACA
38424699 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:38424860 original size:16 final size:16
Alignment explanation
Indices: 38424839--38424907 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
38424829 TTTGGTTCGC
38424839 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
38424855 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
*
38424871 TGTATTGGGATTAAAGG
1 TGTATT-GGATTAGAGG
38424888 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
38424904 TGTA
1 TGTA
38424908 ATAGCTAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 34 0.71
17 14 0.29
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:38424889 original size:33 final size:32
Alignment explanation
Indices: 38424839--38424907 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
38424829 TTTGGTTCGC
*
38424839 TGTATTGGATTAGAGGTGTATTAGATTAGAGG
1 TGTATTGGATTAAAGGTGTATTAGATTAGAGG
*
38424871 TGTATTGGGATTAAAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAAAGGTGTATTAGATTAGAGG
38424904 TGTA
1 TGTA
38424908 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAAAGGTGTATTAGATTAGAGG
Found at i:38424972 original size:44 final size:45
Alignment explanation
Indices: 38424888--38424978 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
38424878 GGATTAAAGG
* * *
38424888 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
38424933 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
38424977 TG
1 TG
38424979 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:38425163 original size:18 final size:17
Alignment explanation
Indices: 38425142--38425176 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38425132 TTATTATTAA
*
38425142 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
38425160 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
38425177 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:38425260 original size:120 final size:120
Alignment explanation
Indices: 38425120--38425386 Score: 489
Period size: 120 Copynumber: 2.2 Consensus size: 120
38425110 ATTTAATCAT
*
38425120 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCATAATA
*
38425185 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
* *
38425241 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCATAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCATAATAA
38425306 TAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 TAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
38425361 ATTTAACATAATTATTATTAAATATA
1 ATTTAACATAATTATTATTAAATATA
38425387 ATCAATTTTT
Statistics
Matches: 142, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
120 138 0.97
121 4 0.03
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCATAATAA
TAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:38425283 original size:18 final size:17
Alignment explanation
Indices: 38425260--38425296 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
38425250 AATTATTATT
38425260 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
38425276 AAATATATGATTTAATA
1 AAATATATGATTTAATA
38425293 AAAT
1 AAAT
38425297 TCATAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:38425355 original size:61 final size:61
Alignment explanation
Indices: 38425170--38425357 Score: 206
Period size: 61 Copynumber: 3.1 Consensus size: 61
38425160 ATATAATTTA
* * *
38425170 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCATAATATTAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
* * * * ** * * *
38425231 ATAAAA-T-ATAAT-TTAACATAATTATTAT-TAAATATATTTTAATTAAAATATATGAT-TT
1 ATAAAATTCATAATATTAA-AT-ATTCTTATATGAATTTACTCAAATCATAATATATGATACT
38425289 AATAAAATTCATAATATTAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCATAATATTAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
38425351 ATAAAAT
1 ATAAAAT
38425358 ATAATTTAAC
Statistics
Matches: 98, Mismatches: 21, Indels: 16
0.73 0.16 0.12
Matches are distributed among these distances:
58 3 0.03
59 33 0.34
60 16 0.16
61 41 0.42
62 5 0.05
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (61 bp):
ATAAAATTCATAATATTAAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
Found at i:38427844 original size:18 final size:18
Alignment explanation
Indices: 38427821--38427855 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
38427811 GTTTCAGACG
38427821 TGAGAAAGAAATGAGAAA
1 TGAGAAAGAAATGAGAAA
38427839 TGAGAAAGAAATGAGAA
1 TGAGAAAGAAATGAGAA
38427856 GACGGCTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (18 bp):
TGAGAAAGAAATGAGAAA
Found at i:38428835 original size:24 final size:26
Alignment explanation
Indices: 38428774--38428835 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
38428764 TATCTTTACA
*
38428774 TATTTTTAATAATTTGATTATTACTT
1 TATTTTTAATAATTTAATTATTACTT
*
38428800 TAGTTTTGAATAA-TTAATTA-TA-TT
1 TA-TTTTTAATAATTTAATTATTACTT
38428824 TATTTTATAATA
1 TATTTT-TAATA
38428836 TAAAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 4 0.13
24 8 0.26
25 2 0.06
26 8 0.26
27 9 0.29
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (26 bp):
TATTTTTAATAATTTAATTATTACTT
Found at i:38429702 original size:18 final size:18
Alignment explanation
Indices: 38429681--38429720 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
38429671 GGTTTTTTAA
*
38429681 TTTTGTTAGGTTTAGGGT
1 TTTTGTTAGGGTTAGGGT
38429699 TTTTGTTAGGGTTAGGGT
1 TTTTGTTAGGGTTAGGGT
38429717 TTTT
1 TTTT
38429721 AAGGGTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.57
Consensus pattern (18 bp):
TTTTGTTAGGGTTAGGGT
Found at i:38431851 original size:10 final size:10
Alignment explanation
Indices: 38431831--38431861 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
38431821 AAATTCGAAT
38431831 ATATATAAAAA
1 ATAT-TAAAAA
38431842 ATATTAAAAA
1 ATATTAAAAA
38431852 ATATTAAAAA
1 ATATTAAAAA
38431862 TGGATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
ATATTAAAAA
Found at i:38436519 original size:73 final size:74
Alignment explanation
Indices: 38436395--38436545 Score: 216
Period size: 73 Copynumber: 2.1 Consensus size: 74
38436385 AAGAATGATT
* * * *
38436395 ACACACGGCCAGGATACAAGGCCGTGCCTTAGGCCATGTGAGTCCTGGAGCTTAA-TTTTTAAGA
1 ACACACGGCAAGGACACAAGGCAGTGCCTTAGGCCATGTGAGTCCTAGAGCTTAATTTTTTAAGA
38436459 TTTTGAAAG
66 TTTTGAAAG
* * *
38436468 ACACACGGCAAGGACACAAGGGAGTGTCC-TAGTCTATGTGAGTCCTAGAGCTTAATTTTTTAAG
1 ACACACGGCAAGGACACAAGGCAGTG-CCTTAGGCCATGTGAGTCCTAGAGCTTAATTTTTTAAG
38436532 ATTTTGAAAG
65 ATTTTGAAAG
38436542 ACAC
1 ACAC
38436546 GAGGGCTGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
73 45 0.65
74 24 0.35
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (74 bp):
ACACACGGCAAGGACACAAGGCAGTGCCTTAGGCCATGTGAGTCCTAGAGCTTAATTTTTTAAGA
TTTTGAAAG
Found at i:38437421 original size:32 final size:32
Alignment explanation
Indices: 38437385--38437449 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
38437375 CAACTCCTTA
38437385 AGACTGATTTTTGTCCATTGTCGAGCCCACTT
1 AGACTGATTTTTGTCCATTGTCGAGCCCACTT
38437417 AGACTGATTTTTGTCCATTGTCGAGCCCACTT
1 AGACTGATTTTTGTCCATTGTCGAGCCCACTT
38437449 A
1 A
38437450 CTTTGAGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (32 bp):
AGACTGATTTTTGTCCATTGTCGAGCCCACTT
Found at i:38444075 original size:11 final size:12
Alignment explanation
Indices: 38444045--38444078 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
38444035 TGGCTTACCC
38444045 ATATTAATTTTT
1 ATATTAATTTTT
38444057 ATATTAATTTTT
1 ATATTAATTTTT
38444069 ATA-TAATTTT
1 ATATTAATTTT
38444079 AAAAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:38444238 original size:30 final size:30
Alignment explanation
Indices: 38444204--38444266 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
38444194 ACTTAACAAG
*
38444204 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
38444234 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
38444264 CAA
1 CAA
38444267 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:38457723 original size:13 final size:14
Alignment explanation
Indices: 38457688--38457721 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
38457678 TTGATTAACT
38457688 AAATTAAATTCATC
1 AAATTAAATTCATC
38457702 -AATTAAATTCATC
1 AAATTAAATTCATC
38457715 AAATTAA
1 AAATTAA
38457722 TTAAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATTAAATTCATC
Found at i:38458152 original size:48 final size:49
Alignment explanation
Indices: 38458095--38458205 Score: 152
Period size: 48 Copynumber: 2.3 Consensus size: 49
38458085 TATTGTAATA
* ** *
38458095 AATTTAATATTAAATTTAATTTGATACTTATATTGAT-AGTATTTTGTT
1 AATTTAATATTAAATTTAATTTAATACTTATATTGATAAGTATCATATT
* * *
38458143 AATTTAATATTAAATTTAATTTAATATTTTTCTTGATAAGTATCATATT
1 AATTTAATATTAAATTTAATTTAATACTTATATTGATAAGTATCATATT
38458192 AATTTAATATTAAA
1 AATTTAATATTAAA
38458206 GTGATTCAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 33 0.60
49 22 0.40
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (49 bp):
AATTTAATATTAAATTTAATTTAATACTTATATTGATAAGTATCATATT
Done.