Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 77 of 125
Found at i:15508829 original size:26 final size:25
Alignment explanation
Indices: 15508783--15508862 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 25
15508773 AAGGTCTAGG
*
15508783 TTAGGGTTTGGGGTTTAGTTTAGGGT
1 TTAGGG-TTGGGGTTTGGTTTAGGGT
**
15508809 TTAGGGTTGGGGTTTTGGTTTAAAGT
1 TTAGGGTTGGGG-TTTGGTTTAGGGT
* ** *
15508835 TTAGGTTTAAGGTTTGTTTTAGGGT
1 TTAGGGTTGGGGTTTGGTTTAGGGT
15508860 TTA
1 TTA
15508863 CATTTTCGCT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
25 19 0.43
26 25 0.57
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.49
Consensus pattern (25 bp):
TTAGGGTTGGGGTTTGGTTTAGGGT
Found at i:15508964 original size:19 final size:19
Alignment explanation
Indices: 15508833--15508964 Score: 67
Period size: 19 Copynumber: 7.1 Consensus size: 19
15508823 TTGGTTTAAA
15508833 GTTTA-GGTTTAAGGTTTG
1 GTTTAGGGTTTAAGGTTTG
* * *
15508851 TTTTAGGGTTTACA-TTTTC
1 GTTTAGGGTTTA-AGGTTTG
* * *
15508870 GCTTAGGGCTTAGGGTTTG
1 GTTTAGGGTTTAAGGTTTG
* * *
15508889 GTTTAAGGTTTAGGGGTTG
1 GTTTAGGGTTTAAGGTTTG
* * *
15508908 GTTTAAGG-CT-AGGTGTTA
1 GTTTAGGGTTTAAGGT-TTG
* * *
15508926 GTTT-GAGATTTAGGGGTTG
1 GTTTAG-GGTTTAAGGTTTG
15508945 GTTTAGGGTTTAAGGTTTG
1 GTTTAGGGTTTAAGGTTTG
15508964 G
1 G
15508965 ATGGTAGTTT
Statistics
Matches: 80, Mismatches: 26, Indels: 15
0.66 0.21 0.12
Matches are distributed among these distances:
17 2 0.03
18 12 0.15
19 62 0.77
20 4 0.05
ACGTcount: A:0.16, C:0.04, G:0.36, T:0.45
Consensus pattern (19 bp):
GTTTAGGGTTTAAGGTTTG
Found at i:15508974 original size:26 final size:26
Alignment explanation
Indices: 15508945--15509018 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
15508935 TTAGGGGTTG
15508945 GTTTAGGGTTTAAGGTTTGGATGGTA
1 GTTTAGGGTTTAAGGTTTGGATGGTA
* * *
15508971 GTTTAGGGTTCAAGGTTTGGATGTTG
1 GTTTAGGGTTTAAGGTTTGGATGGTA
* *
15508997 GTTTAGGGTTTATGATTTGGAT
1 GTTTAGGGTTTAAGGTTTGGAT
15509019 TTGGGGTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (26 bp):
GTTTAGGGTTTAAGGTTTGGATGGTA
Found at i:15509006 original size:19 final size:19
Alignment explanation
Indices: 15508984--15509037 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
15508974 TAGGGTTCAA
15508984 GGTTTGGATGTTGG-TTTAG
1 GGTTTGGAT-TTGGATTTAG
* *
15509003 GGTTTATGATTTGGATTTGG
1 GGTTT-GGATTTGGATTTAG
15509023 GGTTTGGAATTTGGA
1 GGTTTGG-ATTTGGA
15509038 GTTTCATGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.46
Consensus pattern (19 bp):
GGTTTGGATTTGGATTTAG
Found at i:15514169 original size:25 final size:25
Alignment explanation
Indices: 15514134--15514188 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
15514124 ATATAGGGAA
*
15514134 CATTTGAATCATTGT-ATGACATTTG
1 CATTTGAATCATT-TAAAGACATTTG
*
15514159 CATTTGCATCATTTAGAAGACATTTG
1 CATTTGAATCATTTA-AAGACATTTG
15514185 CATT
1 CATT
15514189 ATTATCATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 1 0.04
25 12 0.46
26 13 0.50
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (25 bp):
CATTTGAATCATTTAAAGACATTTG
Found at i:15514182 original size:45 final size:46
Alignment explanation
Indices: 15514112--15514204 Score: 118
Period size: 45 Copynumber: 2.0 Consensus size: 46
15514102 GATTAGGGCA
* *
15514112 TGCATTTGCATCATATAGGGAACATTTGAATCATTGT-ATGACATT
1 TGCATTTGCATCATATAGAGAACATTTGAATCATTATCATGACATT
* * *
15514157 TGCATTTGCATCATTTAGA-AGACATTTGCATTATTATCATGACATT
1 TGCATTTGCATCATATAGAGA-ACATTTGAATCATTATCATGACATT
15514203 TG
1 TG
15514205 TCTTTGTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 1 0.02
45 30 0.73
46 10 0.24
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (46 bp):
TGCATTTGCATCATATAGAGAACATTTGAATCATTATCATGACATT
Found at i:15514437 original size:46 final size:45
Alignment explanation
Indices: 15514329--15514620 Score: 183
Period size: 46 Copynumber: 6.4 Consensus size: 45
15514319 TTAAAGGAAC
* * **
15514329 TTTTTGAATGAGAATCTTTGAAATTTTGGATGTGAATTTCTCTAA
1 TTTTTGAATGTGAATCTTTGAAATTTTGGATGTGAATCTCTAAAA
* * * * * *
15514374 TTTTTCAAATATAAATCTTTAAAACTTTGGGTGTGAATCTCTAAAA
1 TTTTT-GAATGTGAATCTTTGAAATTTTGGATGTGAATCTCTAAAA
* ** * * *
15514420 TCTTTTGAATGTGAATCTTTGAAATTTTGAACATGAAACCCTGAAA
1 T-TTTTGAATGTGAATCTTTGAAATTTTGGATGTGAATCTCTAAAA
** * * * *
15514466 TTTTTCGAATGAAAATTTTTGAAATTTTGGTTGTGAAATAT-TAAAG
1 TTTTT-GAATGTGAATCTTTGAAATTTTGGATGTG-AATCTCTAAAA
* * ** * **
15514512 TTTTTGAATGTGAATTTTTAAAATTTTCTATGTGAGTCTCTAAGC
1 TTTTTGAATGTGAATCTTTGAAATTTTGGATGTGAATCTCTAAAA
* * ** * * * *
15514557 TTTTCGAAGGAAAATCTTT-AACTTTTAGATGTGAAACCCTAAAA
1 TTTTTGAATGTGAATCTTTGAAATTTTGGATGTGAATCTCTAAAA
*
15514601 TTTTTGGAATGAGAATCTTT
1 TTTTT-GAATGTGAATCTTT
15514621 TTTTATGTTA
Statistics
Matches: 181, Mismatches: 60, Indels: 12
0.72 0.24 0.05
Matches are distributed among these distances:
44 24 0.13
45 61 0.34
46 90 0.50
47 6 0.03
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (45 bp):
TTTTTGAATGTGAATCTTTGAAATTTTGGATGTGAATCTCTAAAA
Found at i:15514444 original size:24 final size:23
Alignment explanation
Indices: 15514329--15514538 Score: 83
Period size: 22 Copynumber: 9.2 Consensus size: 23
15514319 TTAAAGGAAC
*
15514329 TTTTTGAATGAGAATCTTTGAAA
1 TTTTTGAATGTGAATCTTTGAAA
* **
15514352 -TTTTGGATGTGAAT-TTCTCTAA
1 TTTTTGAATGTGAATCTT-TGAAA
* * *
15514374 TTTTTCAAATATAAATCTTT-AAA
1 TTTTT-GAATGTGAATCTTTGAAA
** ** * *
15514397 ACTTTGGGTGTGAATCTCTAAAA
1 TTTTTGAATGTGAATCTTTGAAA
15514420 TCTTTTGAATGTGAATCTTTGAAA
1 T-TTTTGAATGTGAATCTTTGAAA
** * **
15514444 -TTTTGAACATGAAACCCTGAAA
1 TTTTTGAATGTGAATCTTTGAAA
** *
15514466 TTTTTCGAATGAAAATTTTTGAAA
1 TTTTT-GAATGTGAATCTTTGAAA
** *
15514490 -TTTTGGTTGTGAAAT-ATT-AAA
1 TTTTTGAATGTG-AATCTTTGAAA
* *
15514511 GTTTTTGAATGTGAATTTTTAAAA
1 -TTTTTGAATGTGAATCTTTGAAA
15514535 TTTT
1 TTTT
15514539 CTATGTGAGT
Statistics
Matches: 130, Mismatches: 44, Indels: 26
0.65 0.22 0.13
Matches are distributed among these distances:
21 5 0.04
22 48 0.37
23 38 0.29
24 37 0.28
25 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (23 bp):
TTTTTGAATGTGAATCTTTGAAA
Found at i:15514495 original size:92 final size:91
Alignment explanation
Indices: 15514329--15514538 Score: 217
Period size: 92 Copynumber: 2.3 Consensus size: 91
15514319 TTAAAGGAAC
* * ** *** *
15514329 TTTTTGAATGAGAATCTTTGAAATTTTGGATGTGAATTTCTCTAATTTTTCAAATATAAATCTTT
1 TTTTTGAATGTGAATCTTTGAAATTTTGAACATGAAACCCTCAAATTTTTCAAATATAAATCTTT
*
15514394 AAAACTTTGGGTGTG-AATCTCTAAAA
66 AAAACTTTGGGTGTGAAATAT-TAAAA
* * *
15514420 TCTTTTGAATGTGAATCTTTGAAATTTTGAACATGAAACCCTGAAATTTTTCGAATGA-AAATTT
1 T-TTTTGAATGTGAATCTTTGAAATTTTGAACATGAAACCCTCAAATTTTTCAAAT-ATAAATCT
* * * *
15514484 TTGAAATTTTGGTTGTGAAATATTAAAG
64 TTAAAACTTTGGGTGTGAAATATTAAAA
* *
15514512 TTTTTGAATGTGAATTTTTAAAATTTT
1 TTTTTGAATGTGAATCTTTGAAATTTT
15514539 CTATGTGAGT
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
91 25 0.26
92 68 0.69
93 5 0.05
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (91 bp):
TTTTTGAATGTGAATCTTTGAAATTTTGAACATGAAACCCTCAAATTTTTCAAATATAAATCTTT
AAAACTTTGGGTGTGAAATATTAAAA
Found at i:15514748 original size:17 final size:17
Alignment explanation
Indices: 15514726--15514788 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
15514716 CTTTTACGAG
*
15514726 TTCTTGCGAAAGTAAAA
1 TTCTTGCGAAACTAAAA
* *
15514743 TTCTTGAGAACCTAAAA
1 TTCTTGCGAAACTAAAA
*
15514760 CTCTTGC-AAATCTAAAAA
1 TTCTTGCGAAA-CT-AAAA
*
15514778 TTCTTGTGAAA
1 TTCTTGCGAAA
15514789 TTGAATTTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
16 2 0.06
17 21 0.60
18 9 0.26
19 3 0.09
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (17 bp):
TTCTTGCGAAACTAAAA
Found at i:15514960 original size:17 final size:17
Alignment explanation
Indices: 15514938--15514973 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15514928 AATTCTAGCA
15514938 AATCTAAAACCTTTGCG
1 AATCTAAAACCTTTGCG
*
15514955 AATCTATAACCTTTGCG
1 AATCTAAAACCTTTGCG
15514972 AA
1 AA
15514974 ACCTTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (17 bp):
AATCTAAAACCTTTGCG
Found at i:15521697 original size:222 final size:222
Alignment explanation
Indices: 15521311--15521743 Score: 758
Period size: 222 Copynumber: 2.0 Consensus size: 222
15521301 AATTAAAACT
* * *
15521311 TTATAATGTTAGAAATTTAAATGATTACTCAAAAAAGTTCATGAGTGAATATCAAAAACTAGATG
1 TTATAATGTTAGAAATTTAAATGATTACTAAAAAAAATACATGAGTGAATATCAAAAACTAGATG
*
15521376 AAGAATGTTTAGCATTTTGGAAAGAATTATATTTTCATAAACTTCCCTCACCATGGAATGAATTA
66 AAGAATGTTTAGCATTTTGGAAAGAACTATATTTTCATAAACTTCCCTCACCATGGAATGAATTA
* *
15521441 TGTTTACAAAATTATTCTAATTATTTAGAATTACGTAATAAAAACCATCTACAAATAATAGTACT
131 TGCTTACAAAATTATTCTAATTATTTAGAATTACGTAATAAAAACCATCTACAAATAATAGCACT
15521506 AATAATATTTCTTTATATGATAGTCAA
196 AATAATATTTCTTTATATGATAGTCAA
15521533 TTATAATGTTAGAAATTTAAATGATTACTAAAAAAAATACATGAGTGAATATCAAAAACTAGATG
1 TTATAATGTTAGAAATTTAAATGATTACTAAAAAAAATACATGAGTGAATATCAAAAACTAGATG
* *
15521598 AAGAATGTTTAGCATTTTGGAAAGAACTATATTTTCATAAACTTCCCTCGCCATGGGATGAATTA
66 AAGAATGTTTAGCATTTTGGAAAGAACTATATTTTCATAAACTTCCCTCACCATGGAATGAATTA
* * * *
15521663 TGCTTACAAAATTATTCTACTTATTTAGAATTACGTATTAAAAACCATCTACAAGTAGTAGCACT
131 TGCTTACAAAATTATTCTAATTATTTAGAATTACGTAATAAAAACCATCTACAAATAATAGCACT
15521728 AATAATATTTCTTTAT
196 AATAATATTTCTTTAT
15521744 TATTCTACTT
Statistics
Matches: 199, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
222 199 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (222 bp):
TTATAATGTTAGAAATTTAAATGATTACTAAAAAAAATACATGAGTGAATATCAAAAACTAGATG
AAGAATGTTTAGCATTTTGGAAAGAACTATATTTTCATAAACTTCCCTCACCATGGAATGAATTA
TGCTTACAAAATTATTCTAATTATTTAGAATTACGTAATAAAAACCATCTACAAATAATAGCACT
AATAATATTTCTTTATATGATAGTCAA
Found at i:15522555 original size:23 final size:23
Alignment explanation
Indices: 15522519--15522563 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
15522509 ATTATAATTC
15522519 AATTTTAATCTAGATTTTTTAAA
1 AATTTTAATCTAGATTTTTTAAA
* *
15522542 AATTTTTATTTAGATTTTTTAA
1 AATTTTAATCTAGATTTTTTAA
15522564 TTTAGTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
AATTTTAATCTAGATTTTTTAAA
Found at i:15522994 original size:20 final size:20
Alignment explanation
Indices: 15522958--15523014 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
15522948 AGTTTAGGCT
15522958 TTTTGGG-TATTTA-ATTTGA
1 TTTTGGGAT-TTTAGATTTGA
15522977 TTTTGGGATTTTAGATTTGA
1 TTTTGGGATTTTAGATTTGA
* * *
15522997 TTCTAGGATCTTAGATTT
1 TTTTGGGATTTTAGATTT
15523015 AAAGTGAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.33
20 22 0.67
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.54
Consensus pattern (20 bp):
TTTTGGGATTTTAGATTTGA
Found at i:15523490 original size:13 final size:12
Alignment explanation
Indices: 15523458--15523511 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
15523448 CAAGTATTCC
*
15523458 TTTTCTTTTTTCA
1 TTTTATTTTTT-A
*
15523471 -TTTATTTTTTG
1 TTTTATTTTTTA
15523482 TTTTGATTTTTTA
1 TTTT-ATTTTTTA
15523495 TTTTATTTTTCTA
1 TTTTATTTTT-TA
15523508 TTTT
1 TTTT
15523512 TTATATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
12 18 0.51
13 17 0.49
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:15523672 original size:21 final size:22
Alignment explanation
Indices: 15523655--15523698 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
15523645 AAGTTTAATA
15523655 TAATTGCATGA-TATTTTATAT
1 TAATTGCATGATTATTTTATAT
*
15523676 TAATTTCATGATTATTTATATAT
1 TAATTGCATGATTATTT-TATAT
15523699 AGCTTACACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 5 0.25
23 5 0.25
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TAATTGCATGATTATTTTATAT
Found at i:15524610 original size:19 final size:18
Alignment explanation
Indices: 15524588--15524644 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
15524578 GAGTTTTATT
15524588 TAGGGTTTAAGATTTCACC
1 TAGGGTTTAAG-TTTCACC
*
15524607 TAGGGTTT-AGGTTCACC
1 TAGGGTTTAAGTTTCACC
*
15524624 TAAGGTTTAAGCTTTCACC
1 TAGGGTTTAAG-TTTCACC
15524643 TA
1 TA
15524645 TAGTTTAGCG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 13 0.39
18 4 0.12
19 16 0.48
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (18 bp):
TAGGGTTTAAGTTTCACC
Found at i:15524634 original size:36 final size:38
Alignment explanation
Indices: 15524591--15524663 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 38
15524581 TTTTATTTAG
*
15524591 GGTTTAAGATTTCACCTAGGGTTTAG-G-TTCACCTAA
1 GGTTTAAGATTTCACCTAGAGTTTAGCGATTCACCTAA
* *
15524627 GGTTTAAGCTTTCACCTATAGTTTAGCGATTCACCTA
1 GGTTTAAGATTTCACCTAGAGTTTAGCGATTCACCTA
15524664 TAGTTTCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 23 0.72
37 1 0.03
38 8 0.25
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (38 bp):
GGTTTAAGATTTCACCTAGAGTTTAGCGATTCACCTAA
Found at i:15524650 original size:19 final size:18
Alignment explanation
Indices: 15524600--15524669 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
15524590 GGGTTTAAGA
**
15524600 TTTCACCTAGGGTTTAG-
1 TTTCACCTATAGTTTAGC
*
15524617 GTTCACCTA-AGGTTTAAGC
1 TTTCACCTATA-GTTT-AGC
15524636 TTTCACCTATAGTTTAGC
1 TTTCACCTATAGTTTAGC
*
15524654 GATTCACCTATAGTTT
1 -TTTCACCTATAGTTT
15524670 CATTTTAGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 12 0.27
18 5 0.11
19 26 0.59
20 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTCACCTATAGTTTAGC
Found at i:15524818 original size:3 final size:3
Alignment explanation
Indices: 15524810--15524855 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
15524800 TTTTCATCAA
15524810 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15524856 CTTTAATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15527894 original size:20 final size:20
Alignment explanation
Indices: 15527869--15527913 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
15527859 TAATTCATGA
15527869 AATATGTATAAACTGAGATT
1 AATATGTATAAACTGAGATT
15527889 AATATGTATAAACTGAGATT
1 AATATGTATAAACTGAGATT
15527909 AATAT
1 AATAT
15527914 AATAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (20 bp):
AATATGTATAAACTGAGATT
Found at i:15532088 original size:17 final size:17
Alignment explanation
Indices: 15532066--15532098 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15532056 CAAATGTAAA
*
15532066 TAACAAATTAATATATC
1 TAACAAATAAATATATC
15532083 TAACAAATAAATATAT
1 TAACAAATAAATATAT
15532099 TTAAAAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
TAACAAATAAATATATC
Found at i:15536302 original size:6 final size:6
Alignment explanation
Indices: 15536293--15536361 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
15536283 AAAGCCCGAA
* * * *
15536293 AATTTT AATTTT GATTTTT AGTTTT AATTTT AGTCTT AATTTT AATTTT
1 AATTTT AATTTT -AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT
* *
15536342 GATTTTT AATTTT AGTTTT A
1 -AATTTT AATTTT AATTTT A
15536362 TTATTTTTAG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
6 41 0.80
7 10 0.20
ACGTcount: A:0.26, C:0.01, G:0.07, T:0.65
Consensus pattern (6 bp):
AATTTT
Found at i:15536335 original size:31 final size:31
Alignment explanation
Indices: 15536297--15536357 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
15536287 CCCGAAAATT
* *
15536297 TTAATTTTGATTTTTAGTTTTAATTTTAGTC
1 TTAATTTTAATTTTGAGTTTTAATTTTAGTC
*
15536328 TTAATTTTAATTTTGATTTTTAATTTTAGT
1 TTAATTTTAATTTTGAGTTTTAATTTTAGT
15536358 TTTATTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (31 bp):
TTAATTTTAATTTTGAGTTTTAATTTTAGTC
Found at i:15537645 original size:23 final size:21
Alignment explanation
Indices: 15537614--15537684 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 21
15537604 GCTTGATTAT
15537614 TGATA-TATTATATAATTGCA
1 TGATATTATTATATAATTGCA
15537634 TGATAGTGTATTAT-T-ATTGCA
1 TGATA-T-TATTATATAATTGCA
* *
15537655 TCATATAATATATTATAATTGCA
1 TGATATTAT-TA-TATAATTGCA
15537678 TGATATT
1 TGATATT
15537685 GTTTTGCATG
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
19 2 0.05
20 8 0.20
21 11 0.28
22 2 0.05
23 17 0.43
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (21 bp):
TGATATTATTATATAATTGCA
Found at i:15539063 original size:4 final size:4
Alignment explanation
Indices: 15539054--15539110 Score: 78
Period size: 4 Copynumber: 14.2 Consensus size: 4
15539044 CTTAGGTTTA
* * *
15539054 TATT TATT TATT TATT TATT TATT TATT TATT TATT TGTT TGTT TGTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
*
15539102 TATC TATT T
1 TATT TATT T
15539111 TCATTGATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:15543097 original size:11 final size:11
Alignment explanation
Indices: 15543077--15543110 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
15543067 ATAATAATAA
*
15543077 AAAAAAAAAAG
1 AAAAAGAAAAG
15543088 AAAAAGAAAAG
1 AAAAAGAAAAG
15543099 -AAAAGAAAAG
1 AAAAAGAAAAG
15543109 AA
1 AA
15543111 TGATTTTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:15543360 original size:33 final size:33
Alignment explanation
Indices: 15543323--15543386 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
15543313 CTACCATAGT
* *
15543323 TGGTCTTGACATTTATTAAAACACTACATATCA
1 TGGTCTTAACATTTATCAAAACACTACATATCA
15543356 TGGTCTTAACATTTATCAAAACACTACATAT
1 TGGTCTTAACATTTATCAAAACACTACATAT
15543387 TAAGAACTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (33 bp):
TGGTCTTAACATTTATCAAAACACTACATATCA
Found at i:15546098 original size:64 final size:64
Alignment explanation
Indices: 15546029--15546239 Score: 197
Period size: 64 Copynumber: 3.3 Consensus size: 64
15546019 ATCGAAACTA
* * * * * * *
15546029 AAATGACATGGACTAAATCGAGATCAAAATAAGTGACTAAGACTAAACCGCAAGTTAGAAAAAT
1 AAATGACCTGAACTAAGTCGAGATCAAAATAAGTGACCAAGACTAAACCACAAGTCAAAAAAAT
* * * * * * * *
15546093 AAATGACCTGCACCAAGTTGAAGTTGAAAATGAGTGACCAAGATTAAACCATAAGTCAAAAAAAT
1 AAATGACCTGAACTAAGTCG-AGATCAAAATAAGTGACCAAGACTAAACCACAAGTCAAAAAAAT
* * * * ** *
15546158 AAATGACCTTAACTAAGCCGAGGTCAAAATAAGTGACCAGGGTTGAACCACAAGTCAAAAAAAT
1 AAATGACCTGAACTAAGTCGAGATCAAAATAAGTGACCAAGACTAAACCACAAGTCAAAAAAAT
* *
15546222 AAAGGACCTAAACTAAGT
1 AAATGACCTGAACTAAGT
15546240 TGAAGCCAAA
Statistics
Matches: 117, Mismatches: 29, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
64 67 0.57
65 50 0.43
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (64 bp):
AAATGACCTGAACTAAGTCGAGATCAAAATAAGTGACCAAGACTAAACCACAAGTCAAAAAAAT
Found at i:15546212 original size:129 final size:129
Alignment explanation
Indices: 15546047--15546295 Score: 295
Period size: 129 Copynumber: 1.9 Consensus size: 129
15546037 TGGACTAAAT
* * * * * **
15546047 CGAGATCAAAATAAGTGACTAAGACTAAACCGCAAGTTAGAAAAATAAATGACCTGCACCAAGTT
1 CGAGATCAAAATAAGTGACCAAGACTAAACCACAAGTCAAAAAAATAAAGGACCTAAACCAAGTT
***
15546112 GAAGTTGAAAATG-AGTGACCAAGATTAAACCATAAGTCAAAAAA-ATAAATGACCTTAACTAAG
66 GAAGCCAAAAATGCA-TGACCAAGATTAAACCATAAGTCAAAAAATA-AAATGACCTTAACTAAG
15546175 C
129 C
* * ** * *
15546176 CGAGGTCAAAATAAGTGACCAGGGTTGAACCACAAGTCAAAAAAATAAAGGACCTAAACTAAGTT
1 CGAGATCAAAATAAGTGACCAAGACTAAACCACAAGTCAAAAAAATAAAGGACCTAAACCAAGTT
* * *
15546241 GAAGCCAAAAATGCATGACCTAGATTGAACTATAAGTCAAAAAATAAAATGACCT
66 GAAGCCAAAAATGCATGACCAAGATTAAACCATAAGTCAAAAAATAAAATGACCT
15546296 AGACTGAGCC
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
129 97 0.98
130 2 0.02
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.19
Consensus pattern (129 bp):
CGAGATCAAAATAAGTGACCAAGACTAAACCACAAGTCAAAAAAATAAAGGACCTAAACCAAGTT
GAAGCCAAAAATGCATGACCAAGATTAAACCATAAGTCAAAAAATAAAATGACCTTAACTAAGC
Found at i:15546250 original size:64 final size:64
Alignment explanation
Indices: 15546052--15546296 Score: 215
Period size: 65 Copynumber: 3.8 Consensus size: 64
15546042 TAAATCGAGA
* * * * * ** *
15546052 TCAAAATAAGTGACTAAGACTAAACCGCAAGTTAGAAAAATAAATGACCTGCACCAAGTTGAAG
1 TCAAAATAAGTGACCAAGATTAAACCACAAGTCAAAAAAATAAATGACCTAAACTAAGTTGAAG
* * * * ** *
15546116 TTGAAAATGAGTGACCAAGATTAAACCATAAGTCAAAAAAATAAATGACCTTAACTAAGCCGAGG
1 -TCAAAATAAGTGACCAAGATTAAACCACAAGTCAAAAAAATAAATGACCTAAACTAAGTTGAAG
* * * *
15546181 TCAAAATAAGTGACCAGGGTTGAACCACAAGTCAAAAAAATAAAGGACCTAAACTAAGTTGAAG
1 TCAAAATAAGTGACCAAGATTAAACCACAAGTCAAAAAAATAAATGACCTAAACTAAGTTGAAG
* * * * * *
15546245 CCAAAA-ATGCATGACCTAGATTGAACTATAAGTC-AAAAAATAAAATGACCTA
1 TCAAAATAAG--TGACCAAGATTAAACCACAAGTCAAAAAAAT-AAATGACCTA
15546297 GACTGAGCCA
Statistics
Matches: 144, Mismatches: 33, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
63 2 0.01
64 65 0.45
65 77 0.53
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (64 bp):
TCAAAATAAGTGACCAAGATTAAACCACAAGTCAAAAAAATAAATGACCTAAACTAAGTTGAAG
Found at i:15546270 original size:65 final size:63
Alignment explanation
Indices: 15546087--15546296 Score: 208
Period size: 64 Copynumber: 3.3 Consensus size: 63
15546077 CGCAAGTTAG
** * * *
15546087 AAAAATAAATGACCTGCACCAAGTTGAAGTTGAAAATGAGTGACCAAGATTAAACCATAAGTCAA
1 AAAAATAAATGACCTAAACTAAGTTGAAG-TCAAAATGAGTGACC-AGATTGAACCATAAGTCAA
* ** * * * *
15546152 AAAAATAAATGACCTTAACTAAGCCGAGGTCAAAATAAGTGACCAGGGTTGAACCACAAGTCAA
1 AAAAATAAATGACCTAAACTAAGTTGAAGTCAAAATGAGTGACCA-GATTGAACCATAAGTCAA
* * *
15546216 AAAAATAAAGGACCTAAACTAAGTTGAAGCCAAAAATGCA-TGACCTAGATTGAACTATAAGTC-
1 AAAAATAAATGACCTAAACTAAGTTGAAGTC-AAAATG-AGTGACC-AGATTGAACCATAAGTCA
15546279 A
63 A
15546280 AAAAATAAAATGACCTA
1 AAAAAT-AAATGACCTA
15546297 GACTGAGCCA
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
63 1 0.01
64 60 0.51
65 55 0.47
66 2 0.02
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (63 bp):
AAAAATAAATGACCTAAACTAAGTTGAAGTCAAAATGAGTGACCAGATTGAACCATAAGTCAA
Found at i:15558509 original size:18 final size:18
Alignment explanation
Indices: 15558481--15558535 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
15558471 TTTAAATTGC
15558481 AAATAATTAAAGTGCATGA
1 AAAT-ATTAAAGTGCATGA
* *
15558500 AAATATTAAATTACATG-
1 AAATATTAAAGTGCATGA
15558517 -AAT-TTAAAGTGCATGA
1 AAATATTAAAGTGCATGA
15558533 AAA
1 AAA
15558536 ATAAATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 10 0.33
16 3 0.10
17 2 0.07
18 11 0.37
19 4 0.13
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.29
Consensus pattern (18 bp):
AAATATTAAAGTGCATGA
Found at i:15558531 original size:15 final size:16
Alignment explanation
Indices: 15558486--15558533 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
15558476 ATTGCAAATA
15558486 ATTAAAGTGCATGAAAAT
1 ATTAAAGTGCATG--AAT
* *
15558504 ATTAAATTACATGAAT
1 ATTAAAGTGCATGAAT
15558520 -TTAAAGTGCATGAA
1 ATTAAAGTGCATGAA
15558534 AAATAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 12 0.46
16 3 0.12
18 11 0.42
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (16 bp):
ATTAAAGTGCATGAAT
Found at i:15558552 original size:27 final size:31
Alignment explanation
Indices: 15558488--15558553 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
15558478 TGCAAATAAT
*
15558488 TAAAGTGCATGAAAATATTAAATTACATGAA
1 TAAAGTGCATGAAAATATTAAATTAAATGAA
15558519 TTTAAAGTGCATGAAAA-A-TAAATTAAAT-AA
1 --TAAAGTGCATGAAAATATTAAATTAAATGAA
15558549 -AAAGT
1 TAAAGT
15558554 AAATGAGGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 5 0.16
30 2 0.06
31 9 0.28
32 1 0.03
33 15 0.47
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.29
Consensus pattern (31 bp):
TAAAGTGCATGAAAATATTAAATTAAATGAA
Found at i:15558634 original size:17 final size:17
Alignment explanation
Indices: 15558612--15558670 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
15558602 TAAATTGCAT
* *
15558612 AAATTTAAACAACATAG
1 AAATTTAAATAACATAC
*
15558629 AAATTTAAATTACA-AC
1 AAATTTAAATAACATAC
*
15558645 AAATTTAAATAACATAT
1 AAATTTAAATAACATAC
*
15558662 AAAATTAAA
1 AAATTTAAA
15558671 GTGCTTGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 14 0.40
17 21 0.60
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (17 bp):
AAATTTAAATAACATAC
Found at i:15559416 original size:12 final size:13
Alignment explanation
Indices: 15559394--15559422 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15559384 GTCCTTCAAA
15559394 TTTATTTTTTATT
1 TTTATTTTTTATT
15559407 TTTA-TTTTTATT
1 TTTATTTTTTATT
15559419 TTTA
1 TTTA
15559423 AATTTTTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:15560159 original size:10 final size:10
Alignment explanation
Indices: 15560144--15560171 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
15560134 AAAGGCATGG
15560144 CTTGGCTCGA
1 CTTGGCTCGA
15560154 CTTGGCTCGA
1 CTTGGCTCGA
15560164 CTTGGCTC
1 CTTGGCTC
15560172 CCTTTCATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.32, G:0.29, T:0.32
Consensus pattern (10 bp):
CTTGGCTCGA
Found at i:15561024 original size:8 final size:9
Alignment explanation
Indices: 15560994--15561023 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15560984 TCTTTTCCCT
15560994 TTTTATTTA
1 TTTTATTTA
15561003 TTTTATTTA
1 TTTTATTTA
15561012 TTTT-TTTA
1 TTTTATTTA
15561020 TTTT
1 TTTT
15561024 TAACATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTATTTA
Found at i:15561567 original size:18 final size:18
Alignment explanation
Indices: 15561544--15561626 Score: 75
Period size: 18 Copynumber: 4.7 Consensus size: 18
15561534 GGACTTTAGA
15561544 TTCACAAGAATTTTCAAC
1 TTCACAAGAATTTTCAAC
*
15561562 TTCACAAGAATTTTTAGA-
1 TTCACAAGAATTTTCA-AC
* * *
15561580 TTCACAA-AA-ATTAAAGA
1 TTCACAAGAATTTTCAA-C
*
15561597 TTCACAAGAA-TTTCAGC
1 TTCACAAGAATTTTCAAC
15561614 TTCACAAGAATTT
1 TTCACAAGAATTT
15561627 GATTCTAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.02
16 3 0.06
17 19 0.36
18 29 0.55
19 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (18 bp):
TTCACAAGAATTTTCAAC
Found at i:15561617 original size:17 final size:17
Alignment explanation
Indices: 15561541--15561693 Score: 95
Period size: 17 Copynumber: 9.1 Consensus size: 17
15561531 CAAGGACTTT
15561541 AGATTCACAAGAATTTTC
1 AGATTCACAAGAA-TTTC
*
15561559 A-ACTTCACAAGAATTTTT
1 AGA-TTCACAAGAA-TTTC
* **
15561577 AGATTCACAAAAATTAA
1 AGATTCACAAGAATTTC
15561594 AGATTCACAAGAATTTC
1 AGATTCACAAGAATTTC
*
15561611 AGCTTCACAAGAATTT-
1 AGATTCACAAGAATTTC
*
15561627 -GATTCTA-AA-AATTTT
1 AGATTC-ACAAGAATTTC
** **
15561642 AGATTTGCAA-AAACTC
1 AGATTCACAAGAATTTC
* *
15561658 ATATTCA-TAGAAATTTTC
1 AGATTCACAAG-AA-TTTC
15561676 AGATTCACAAGAATTTC
1 AGATTCACAAGAATTTC
15561693 A
1 A
15561694 ATTTTGCATT
Statistics
Matches: 103, Mismatches: 22, Indels: 21
0.71 0.15 0.14
Matches are distributed among these distances:
14 5 0.05
15 7 0.07
16 14 0.14
17 39 0.38
18 35 0.34
19 3 0.03
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (17 bp):
AGATTCACAAGAATTTC
Found at i:15562098 original size:44 final size:42
Alignment explanation
Indices: 15562049--15562158 Score: 103
Period size: 44 Copynumber: 2.5 Consensus size: 42
15562039 CTCATTTAAG
* * *
15562049 TTCAAAGATTCAGATTCAATAAATTTTAGAGTTTCACATCTAAA
1 TTCAAAGATTCACATTCAA-AAATTTAAG-GGTTCACATCTAAA
* * *
15562093 TTCAAAGGTTCTCATTCAAAAATTTAAGGGTTCACATCCAAAA
1 TTCAAAGATTCACATTCAAAAATTTAAGGGTTCACAT-CTAAA
** *
15562136 TTTTGAAGATTCTCATTCAAAAA
1 -TTCAAAGATTCACATTCAAAAA
15562159 CTTTTAATGA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 8 0.15
43 12 0.22
44 35 0.64
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (42 bp):
TTCAAAGATTCACATTCAAAAATTTAAGGGTTCACATCTAAA
Found at i:15562124 original size:22 final size:21
Alignment explanation
Indices: 15562097--15562158 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
15562087 TCTAAATTCA
15562097 AAGGTTCTCATTCAAAAATTT
1 AAGGTTCTCATTCAAAAATTT
* * *
15562118 AAGGGTTCACATCCAAAATTTT
1 AA-GGTTCTCATTCAAAAATTT
*
15562140 GAAGATTCTCATTCAAAAA
1 -AAGGTTCTCATTCAAAAA
15562159 CTTTTAATGA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 2 0.06
22 28 0.88
23 2 0.06
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (21 bp):
AAGGTTCTCATTCAAAAATTT
Found at i:15562170 original size:24 final size:22
Alignment explanation
Indices: 15562101--15562171 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
15562091 AATTCAAAGG
*
15562101 TTCTCATTCAAAAA-TTTAAGGG
1 TTCTCATTCAAAAATTTTAA-GA
* *
15562123 TTCACA-TCCAAAATTTTGAAGA
1 TTCTCATTCAAAAATTTT-AAGA
15562145 TTCTCATTCAAAAACTTTTAATGA
1 TTCTCATTCAAAAA-TTTTAA-GA
15562169 TTC
1 TTC
15562172 ACACTCGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 6 0.15
22 14 0.36
23 10 0.26
24 9 0.23
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (22 bp):
TTCTCATTCAAAAATTTTAAGA
Found at i:15562324 original size:21 final size:21
Alignment explanation
Indices: 15562295--15562500 Score: 250
Period size: 21 Copynumber: 9.7 Consensus size: 21
15562285 AGATTCTCAT
*
15562295 TCAAAGATTATCATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
*
15562316 TCAATGATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
* *
15562337 TTAAAGATTCTGATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
* * *
15562358 TTAAAGATTCCCATTTAAAAT
1 TCAAAGATTCTCATTTAAAAC
*
15562379 TCATAGATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
* *
15562400 TCTAATATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
* *
15562421 TCCGTTAAGATTCTTATTTAAAAC
1 T-C--AAAGATTCTCATTTAAAAC
* *
15562445 TTAAAAATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
*
15562466 TTAAAGATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
15562487 TCAAAGATTCTCAT
1 TCAAAGATTCTCAT
15562501 CATATTTAAC
Statistics
Matches: 159, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
21 140 0.88
22 1 0.01
24 18 0.11
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TCAAAGATTCTCATTTAAAAC
Found at i:15563192 original size:118 final size:118
Alignment explanation
Indices: 15563042--15563435 Score: 677
Period size: 117 Copynumber: 3.3 Consensus size: 118
15563032 TCTTGTGCAG
* *
15563042 GGAAAATTGATACTTTCAATTTTTTCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
15563107 TGATACTTTCAACTTTTCCTCAAAAAAAACCTTTTTTTTAAATTTTATTTTTAA
66 TGATACTTTCAACTTTTCCTC-AAAAAAACCTTTTTTTTAAATTTTATTTTTAA
*
15563161 GGAAAATTGATACCTTCAAC-TTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
*
15563225 TGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTTATTTTTAA
66 TGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTTAAATTTTATTTTTAA
* *
15563278 GGAAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTGAAACTTTGATTTTCAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
*
15563342 TGATACTTTCAACTTTTCCTTAAAAAAACCTTTTTTTTGAAATTTTATTTTTAA
66 TGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTT-AAATTTTATTTTTAA
15563396 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTT
1 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTT
15563436 TATTTTTATT
Statistics
Matches: 261, Mismatches: 10, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
117 121 0.46
118 106 0.41
119 34 0.13
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTTAAATTTTATTTTTAA
Found at i:15563335 original size:117 final size:118
Alignment explanation
Indices: 15563042--15563435 Score: 693
Period size: 118 Copynumber: 3.3 Consensus size: 118
15563032 TCTTGTGCAG
*
15563042 GGAAAATTGATACTTTCAATTTTTTCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
*
15563107 TGATACTTTCAACTTTTCCTCAAAAAAAACCTTTTTTTTAAATTTTATTTTTAA
66 TGATACTTTCAACTTTTCCTC-AAAAAAACCTTTTTTTGAAATTTTATTTTTAA
* *
15563161 GGAAAATTGATACCTTCAAC-TTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
15563225 TGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTTATTTTTAA
66 TGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTTATTTTTAA
*
15563278 GGAAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTGAAACTTTGATTTTCAAGGAAAAT
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
*
15563342 TGATACTTTCAACTTTTCCTTAAAAAAACCTTTTTTTTGAAATTTTATTTTTAA
66 TGATACTTTCAACTTTTCCTCAAAAAAACC-TTTTTTTGAAATTTTATTTTTAA
*
15563396 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTT
1 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT
15563436 TATTTTTATT
Statistics
Matches: 263, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
117 114 0.43
118 120 0.46
119 29 0.11
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTGAAATTTTATTTTTAA
Found at i:15563484 original size:6 final size:5
Alignment explanation
Indices: 15563461--15563553 Score: 68
Period size: 5 Copynumber: 18.2 Consensus size: 5
15563451 AAAATTGAAT
*
15563461 AATAA AACAA AATAAA AATGAA AAT-A AA-AA AATAA AATAA AGA-AA
1 AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA A-ATAA
* * *
15563506 AGTAA AACAAA AATAA AATAA AATAAA AGATAA AA-AA AATTA AATAA
1 AATAA AA-TAA AATAA AATAA AAT-AA A-ATAA AATAA AATAA AATAA
15563553 A
1 A
15563554 CCTAATCTAA
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
4 10 0.14
5 37 0.53
6 21 0.30
7 2 0.03
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:15563524 original size:26 final size:25
Alignment explanation
Indices: 15563486--15563553 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 25
15563476 AAATGAAAAT
15563486 AAAAAAATAAAATAAAGAAAAG-TAA
1 AAAAAAATAAAATAAAGAAAAGAT-A
*
15563511 AACAAAAATAAAATAAAATAAAAGATA
1 AA-AAAAATAAAAT-AAAGAAAAGATA
*
15563538 AAAAAAATTAAATAAA
1 AAAAAAATAAAATAAA
15563554 CCTAATCTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 5 0.13
26 21 0.55
27 11 0.29
28 1 0.03
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (25 bp):
AAAAAAATAAAATAAAGAAAAGATA
Found at i:15563532 original size:21 final size:22
Alignment explanation
Indices: 15563461--15563553 Score: 79
Period size: 21 Copynumber: 4.3 Consensus size: 22
15563451 AAAATTGAAT
15563461 AATAAAAC--AAAATAAAAATGAA
1 AATAAAACATAAAAT-AAAAT-AA
*
15563483 AATAAAAAAATAAAATAAAGA-AA
1 AAT-AAAACATAAAATAAA-ATAA
*
15563506 AGTAAAACA-AAAATAAAATAA
1 AATAAAACATAAAATAAAATAA
* *
15563527 AATAAAAGATAAAA-AAAATTA
1 AATAAAACATAAAATAAAATAA
15563548 AATAAA
1 AATAAA
15563554 CCTAATCTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 29 0.49
22 12 0.20
23 8 0.14
24 3 0.05
25 6 0.10
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (22 bp):
AATAAAACATAAAATAAAATAA
Found at i:15563549 original size:17 final size:16
Alignment explanation
Indices: 15563469--15563545 Score: 65
Period size: 16 Copynumber: 4.9 Consensus size: 16
15563459 ATAATAAAAC
15563469 AAAATAAAAATGAAAAT-
1 AAAAT-AAAAT-AAAATA
15563486 -AAA-AAAATAAAATA
1 AAAATAAAATAAAATA
* * *
15563500 AAGA-AAAGTAAAACA
1 AAAATAAAATAAAATA
15563515 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
15563531 AAAGATAAAA-AAAAT
1 AAA-ATAAAATAAAAT
15563546 TAAATAAACC
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
13 5 0.10
14 5 0.10
15 14 0.28
16 20 0.40
17 6 0.12
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:15564615 original size:6 final size:6
Alignment explanation
Indices: 15564604--15564702 Score: 96
Period size: 6 Copynumber: 16.5 Consensus size: 6
15564594 AAATATATAT
* * *
15564604 AATAAA AATAAA AAT-AT AATAAA AATAAA AAT-AT AATAAA AATGTAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AAT-AAA
* * *
15564651 AAT-AT AATAAA AATAAA AATAAA AATAAG AATAAG AATAAAA TAATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AAT-AAA -AATAAA
15564700 AAT
1 AAT
15564703 GGACTTACCC
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
5 12 0.15
6 53 0.68
7 10 0.13
8 3 0.04
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:15564622 original size:17 final size:17
Alignment explanation
Indices: 15564600--15564695 Score: 129
Period size: 17 Copynumber: 5.5 Consensus size: 17
15564590 CTTAAAATAT
15564600 ATATAATAAAAATAAAA
1 ATATAATAAAAATAAAA
15564617 ATATAATAAAAATAAAA
1 ATATAATAAAAATAAAA
*
15564634 ATATAATAAAAATGTAAA
1 ATATAATAAAAAT-AAAA
15564652 ATATAATAAAAATAAAA
1 ATATAATAAAAATAAAA
* * *
15564669 ATAAAAATAAGAATAAGA
1 AT-ATAATAAAAATAAAA
*
15564687 ATAAAATAA
1 ATATAATAA
15564696 TAAAAATGGA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
17 42 0.58
18 30 0.42
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
ATATAATAAAAATAAAA
Found at i:15564636 original size:47 final size:46
Alignment explanation
Indices: 15564592--15564683 Score: 105
Period size: 47 Copynumber: 2.0 Consensus size: 46
15564582 CATAAATACT
* *
15564592 TAAAATATATATAATAAAAATAAAAAT-ATAATAAAAATAAAAATATAA
1 TAAAA-ATATAAAAT-AAAATAAAAATAAAAATAAAAATAAAAATAT-A
* * *
15564640 TAAAAATGTAAAATATAATAAAAATAAAAATAAAAATAAGAATA
1 TAAAAATATAAAATAAAATAAAAATAAAAATAAAAATAAAAATA
15564684 AGAATAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
46 10 0.26
47 23 0.61
48 5 0.13
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (46 bp):
TAAAAATATAAAATAAAATAAAAATAAAAATAAAAATAAAAATATA
Found at i:15564660 original size:35 final size:34
Alignment explanation
Indices: 15564600--15564695 Score: 129
Period size: 35 Copynumber: 2.8 Consensus size: 34
15564590 CTTAAAATAT
15564600 ATATAATAAAAATAAAAATATAATAAAAATAAAA
1 ATATAATAAAAATAAAAATATAATAAAAATAAAA
*
15564634 ATATAATAAAAATGTAAAATATAATAAAAATAAAA
1 ATATAATAAAAAT-AAAAATATAATAAAAATAAAA
* * * *
15564669 ATAAAAATAAGAATAAGAATAAAATAA
1 AT-ATAATAAAAATAAAAATATAATAA
15564696 TAAAAATGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
34 13 0.24
35 32 0.59
36 9 0.17
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (34 bp):
ATATAATAAAAATAAAAATATAATAAAAATAAAA
Found at i:15565089 original size:20 final size:20
Alignment explanation
Indices: 15565064--15565109 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
15565054 TTCAAACTAC
* *
15565064 AATGCAAACGTAATGCATGT
1 AATGCAAACATAATACATGT
15565084 AATGCAAACATAATACATGT
1 AATGCAAACATAATACATGT
15565104 AATGCA
1 AATGCA
15565110 GATGTCACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (20 bp):
AATGCAAACATAATACATGT
Found at i:15570692 original size:11 final size:11
Alignment explanation
Indices: 15570643--15570704 Score: 54
Period size: 11 Copynumber: 5.4 Consensus size: 11
15570633 GTAAGACATG
*
15570643 TAAAAAATAAA
1 TAAATAATAAA
*
15570654 TAAATTATCAAAA
1 TAAATAAT--AAA
*
15570667 TAAGTAAATAAA
1 TAAAT-AATAAA
15570679 TAAACTAA-AAA
1 TAAA-TAATAAA
15570690 TAAATAATAAA
1 TAAATAATAAA
15570701 TAAA
1 TAAA
15570705 ATGAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
10 3 0.07
11 20 0.49
12 8 0.20
13 8 0.20
14 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:15570717 original size:22 final size:22
Alignment explanation
Indices: 15570643--15570706 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
15570633 GTAAGACATG
* *
15570643 TAAAAAATAAATAAATTATCAAAA
1 TAAATAATAAATAAA--ATAAAAA
* *
15570667 TAAGTAAATAAATAAACTAAAAA
1 TAAAT-AATAAATAAAATAAAAA
15570690 TAAATAATAAATAAAAT
1 TAAATAATAAATAAAAT
15570707 GAAAGAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 11 0.33
23 9 0.27
24 3 0.09
25 10 0.30
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAATAATAAATAAAATAAAAA
Found at i:15573216 original size:19 final size:18
Alignment explanation
Indices: 15573189--15573244 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
15573179 AACAGTTTTG
15573189 TTTTT-TTTTCAATTATT
1 TTTTTATTTTCAATTATT
* *
15573206 TATTTTATTTTTATTTATT
1 T-TTTTATTTTCAATTATT
*
15573225 TTATTATTTT--ATTATT
1 TTTTTATTTTCAATTATT
15573241 TTTT
1 TTTT
15573245 ACCTAATTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.25
17 1 0.03
18 12 0.38
19 11 0.34
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTATTTTCAATTATT
Found at i:15573216 original size:23 final size:22
Alignment explanation
Indices: 15573190--15573245 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
15573180 ACAGTTTTGT
15573190 TTTTTTTTCAATTAT-TTATTTTA
1 TTTTTTTT--ATTATATTATTTTA
*
15573213 TTTTTATTTATTTTATTATTTTA
1 TTTTT-TTTATTATATTATTTTA
15573236 TTATTTTTTA
1 TT-TTTTTTA
15573246 CCTAATTAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 4 0.14
23 19 0.66
24 6 0.21
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTTTATTATATTATTTTA
Found at i:15573219 original size:15 final size:16
Alignment explanation
Indices: 15573201--15573242 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
15573191 TTTTTTTCAA
15573201 TTATTTATTTTATT-T
1 TTATTTATTTTATTAT
15573216 TTATTTATTTTATTAT
1 TTATTTATTTTATTAT
15573232 TT-TATTATTTT
1 TTAT-TTATTTT
15573243 TTACCTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTATTTTATTAT
Found at i:15573233 original size:8 final size:8
Alignment explanation
Indices: 15573205--15573242 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
15573195 TTTCAATTAT
15573205 TTATTTTA
1 TTATTTTA
15573213 -T-TTTTA
1 TTATTTTA
15573219 TTTATTTTA
1 -TTATTTTA
15573228 TTATTTTA
1 TTATTTTA
15573236 TTATTTT
1 TTATTTT
15573243 TTACCTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 5 0.19
7 1 0.04
8 16 0.59
9 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTATTTTA
Found at i:15573253 original size:23 final size:23
Alignment explanation
Indices: 15573205--15573253 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
15573195 TTTCAATTAT
** *
15573205 TTATTTTATTTTTATTTATTTTA
1 TTATTTTATTTTTATTTACCTAA
15573228 TTATTTTATTATTT-TTTACCTAA
1 TTATTTTATT-TTTATTTACCTAA
15573251 TTA
1 TTA
15573254 GAAAAAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (23 bp):
TTATTTTATTTTTATTTACCTAA
Found at i:15573386 original size:16 final size:18
Alignment explanation
Indices: 15573355--15573389 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
15573345 AATGTTGATA
15573355 AATTAAAAATCATAAAAT
1 AATTAAAAATCATAAAAT
15573373 AATT-AAAA-CATAAAAT
1 AATTAAAAATCATAAAAT
15573389 A
1 A
15573390 TAAAAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 4 0.24
18 4 0.24
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
AATTAAAAATCATAAAAT
Found at i:15573758 original size:4 final size:4
Alignment explanation
Indices: 15573749--15573789 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
15573739 GAAGAGATAC
*
15573749 ATAA ATAA ATAA ATAA ATAA ATAA A-AA TTAA GATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA ATAA A
15573790 AATATTGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 2 0.06
4 28 0.85
5 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:15573822 original size:18 final size:16
Alignment explanation
Indices: 15573799--15573845 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
15573789 AAATATTGTA
15573799 AATTAAAAATCATAAAAT
1 AATT-AAAA-CATAAAAT
15573817 AATTAAAACATAAAAT
1 AATTAAAACATAAAAT
15573833 -A-TAAAA-ATAAAAT
1 AATTAAAACATAAAAT
15573846 GAATAACTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.24
14 5 0.17
15 1 0.03
16 8 0.28
17 4 0.14
18 4 0.14
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (16 bp):
AATTAAAACATAAAAT
Found at i:15574841 original size:62 final size:62
Alignment explanation
Indices: 15574775--15574898 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
15574765 CTATCCCAAA
*
15574775 ATGTCTTCCCTTGGTGTTGTTTTTTCCACACTCCATTATCAAAGACACCCAGCCGACTCTTT
1 ATGTCTTCCCTTGGTGTTGTTTTTTCCACACTCCATTAACAAAGACACCCAGCCGACTCTTT
15574837 ATGTCTTCCCTTGGTGTTGTTTTTTCCACACTCCATTAACAAAGACACCCAGCCGACTCTTT
1 ATGTCTTCCCTTGGTGTTGTTTTTTCCACACTCCATTAACAAAGACACCCAGCCGACTCTTT
15574899 TGAAATTGGA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (62 bp):
ATGTCTTCCCTTGGTGTTGTTTTTTCCACACTCCATTAACAAAGACACCCAGCCGACTCTTT
Found at i:15576327 original size:10 final size:10
Alignment explanation
Indices: 15576312--15576340 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
15576302 GTGTGCAATG
15576312 TTCATCACAC
1 TTCATCACAC
15576322 TTCATCACAC
1 TTCATCACAC
15576332 TTCATCACA
1 TTCATCACA
15576341 TGAAATTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (10 bp):
TTCATCACAC
Found at i:15581429 original size:10 final size:10
Alignment explanation
Indices: 15581414--15581440 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15581404 CCTTACTAGT
15581414 CTATGATAGA
1 CTATGATAGA
15581424 CTATGATAGA
1 CTATGATAGA
15581434 CTATGAT
1 CTATGAT
15581441 GTAAGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (10 bp):
CTATGATAGA
Found at i:15585443 original size:62 final size:63
Alignment explanation
Indices: 15585346--15585518 Score: 224
Period size: 62 Copynumber: 2.8 Consensus size: 63
15585336 GATGAAACTG
*
15585346 GTACTGAAAAGCCCATGAAAGATGACCAAGTGACAGAGGATAAAATTTGTTC-CAAATGGCTA
1 GTACTGAAAAGCCCGTGAAAGATGACCAAGTGACAGAGGATAAAATTTGTTCTCAAATGGCTA
* * * *
15585408 GTACTGAAAAGCCCGTGAATGATGACCAAGTGACAGATGATGAAATTTGTTCTGAAATGGCTA
1 GTACTGAAAAGCCCGTGAAAGATGACCAAGTGACAGAGGATAAAATTTGTTCTCAAATGGCTA
* * * ** *
15585471 GTACTGAGAAGCTCGTGAACGATGATTAAGTGA-TGAAGGATAAAATTT
1 GTACTGAAAAGCCCGTGAAAGATGACCAAGTGACAG-AGGATAAAATTT
15585519 ATACTAAAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
62 49 0.51
63 47 0.49
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (63 bp):
GTACTGAAAAGCCCGTGAAAGATGACCAAGTGACAGAGGATAAAATTTGTTCTCAAATGGCTA
Found at i:15585929 original size:22 final size:21
Alignment explanation
Indices: 15585851--15585928 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
15585841 AAACTTTTTT
* **
15585851 ATGAAAATCTTTGAATTTTGA
1 ATGAGAATCTTTGAATTTCAA
* *
15585872 ATGAGAGTCTTTAAATTTCAA
1 ATGAGAATCTTTGAATTTCAA
* *
15585893 AGGAGAATCTTTGAGTTTCAA
1 ATGAGAATCTTTGAATTTCAA
15585914 ACTGAGAATCTTTGA
1 A-TGAGAATCTTTGA
15585929 GGTGTGAAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
21 34 0.74
22 12 0.26
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (21 bp):
ATGAGAATCTTTGAATTTCAA
Found at i:15586467 original size:42 final size:42
Alignment explanation
Indices: 15586407--15586800 Score: 488
Period size: 42 Copynumber: 9.3 Consensus size: 42
15586397 TGCCAATGAA
* *
15586407 CCATTT-TTTTTTCAAAGTTCTGTTGCCTTTATTCAGAGGAG
1 CCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAAAGGAG
* *
15586448 CCATTTATTTTTCCAAAGTTCTGTTGCCTTTATTCAAAGGAG
1 CCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAAAGGAG
* * *
15586490 CCATTTATTTTTCCAAAATTCTGTTGCCTCTATTCAAATGAG
1 CCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAAAGGAG
*
15586532 CCATTTATTTTTTTTCAAAGTTCTATTGCCTCTATTCAAAGGAG
1 CCATTTA--TTTTTTCAAAGTTCTGTTGCCTCTATTCAAAGGAG
* * *
15586576 CCATTTATTTTTTTCAAAGTTCTGTTGCCTCTATTTATATGAG
1 CCATTTA-TTTTTTCAAAGTTCTGTTGCCTCTATTCAAAGGAG
* *
15586619 CCATTTATTTTTCCAAAGTTCTATTGCCTCTATTCAGAA-GAG
1 CCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCA-AAGGAG
* *
15586661 CCATTTATTTTTTTCAAAGTTTTGTTGCCTCTA-TCTAGAGGAG
1 CCATTTA-TTTTTTCAAAGTTCTGTTGCCTCTATTC-AAAGGAG
* * * *
15586704 CCATTTAATTTTTTTCAAAGTTTTGTTGCCTCTATTTAGATGAG
1 CCATTT-A-TTTTTTCAAAGTTCTGTTGCCTCTATTCAAAGGAG
* * * *
15586748 CCATTTATTTTTTCAAAGTTTTGTTGCTTCTATTTAAAGGAT
1 CCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAAAGGAG
15586790 CCATTTATTTT
1 CCATTTATTTT
15586801 GCCTCTATTC
Statistics
Matches: 317, Mismatches: 27, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
41 6 0.02
42 160 0.50
43 73 0.23
44 77 0.24
45 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (42 bp):
CCATTTATTTTTTCAAAGTTCTGTTGCCTCTATTCAAAGGAG
Found at i:15586631 original size:129 final size:128
Alignment explanation
Indices: 15586411--15586800 Score: 552
Period size: 129 Copynumber: 3.0 Consensus size: 128
15586401 AATGAACCAT
* *
15586411 TTTTTTTTCAAAGTTCTGTTGCCTTTATTCAGAGGAGCCATTTA-TTTTTCCAAAGTTCTGTTGC
1 TTTTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCCATTTATTTTTTTCAAAGTTCTGTTGC
* * * *
15586475 CTTTATTCAAAGGAGCCATTTATTTTTCCAAAATTCTGTTGCCTCTATTCAAATGAGCCATTTA
66 CTCTATTTAAATGAGCCATTTATTTTTCCAAAGTTCTGTTGCCTCTATTCAAA-GAGCCATTTA
* *
15586539 TTTTTTTTCAAAGTTCTATTGCCTCTATTCAAAGGAGCCATTTATTTTTTTCAAAGTTCTGTTGC
1 TTTTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCCATTTATTTTTTTCAAAGTTCTGTTGC
* *
15586604 CTCTATTTATATGAGCCATTTATTTTTCCAAAGTTCTATTGCCTCTATTCAGAAGAGCCATTTA
66 CTCTATTTAAATGAGCCATTTATTTTTCCAAAGTTCTGTTGCCTCTATTCA-AAGAGCCATTTA
* *
15586668 -TTTTTTTCAAAGTTTTGTTGCCTCTA-TCTAGAGGAGCCATTTAATTTTTTTCAAAGTTTTGTT
1 TTTTTTTTCAAAGTTCTGTTGCCTCTATTC-AGAGGAGCCATTT-ATTTTTTTCAAAGTTCTGTT
* * * * * *
15586731 GCCTCTATTTAGATGAGCCATTTATTTTTTCAAAGTTTTGTTGCTTCTATTTAAAGGATCCATTT
64 GCCTCTATTTAAATGAGCCATTTATTTTTCCAAAGTTCTGTTGCCTCTATTCAAA-GAGCCATTT
15586796 A
128 A
15586797 TTTT
1 TTTT
15586801 GCCTCTATTC
Statistics
Matches: 235, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
127 2 0.01
128 79 0.34
129 149 0.63
130 5 0.02
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (128 bp):
TTTTTTTTCAAAGTTCTGTTGCCTCTATTCAGAGGAGCCATTTATTTTTTTCAAAGTTCTGTTGC
CTCTATTTAAATGAGCCATTTATTTTTCCAAAGTTCTGTTGCCTCTATTCAAAGAGCCATTTA
Found at i:15586807 original size:28 final size:28
Alignment explanation
Indices: 15586771--15586828 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
15586761 CAAAGTTTTG
* *
15586771 TTGCTTCTATTTAAAGGATCCATTTATT
1 TTGCCTCTATTCAAAGGATCCATTTATT
*
15586799 TTGCCTCTATTCAGAGGATCCATTTATT
1 TTGCCTCTATTCAAAGGATCCATTTATT
15586827 TT
1 TT
15586829 TCCAAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.48
Consensus pattern (28 bp):
TTGCCTCTATTCAAAGGATCCATTTATT
Found at i:15586838 original size:112 final size:114
Alignment explanation
Indices: 15586685--15586893 Score: 307
Period size: 112 Copynumber: 1.9 Consensus size: 114
15586675 CAAAGTTTTG
* * *
15586685 TTGCCTCTATCTAGAGGAGCCATTTAATTTTTTTCAAAGTTTTGTTGCCTCTATTTAGATGAGCC
1 TTGCCTCTATCTAGAGGAGCCATTTAATTTTTTCCAAAGTTTTATTGCCTCTATTCAGATGAGCC
* * ** *
15586750 ATTTATTTTTTCAAAGTTTTGTTGCTTCTATTTAAAGGATCCATTTATT
66 ACTTATTTTTCCAAAGTCATGTTGCCTCTATTTAAAGGATCCATTTATT
*
15586799 TTGCCTCTAT-TCAGAGGATCCATTT-A-TTTTTCCAAAGTTTTATTGCCTCTATTCAGATGAGC
1 TTGCCTCTATCT-AGAGGAGCCATTTAATTTTTTCCAAAGTTTTATTGCCTCTATTCAGATGAGC
15586861 CACTTATTTTTCCAAAGTCATGTTGCCTCTATT
65 CACTTATTTTTCCAAAGTCATGTTGCCTCTATT
15586894 CAGAATAGCC
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
112 61 0.72
113 2 0.02
114 22 0.26
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.46
Consensus pattern (114 bp):
TTGCCTCTATCTAGAGGAGCCATTTAATTTTTTCCAAAGTTTTATTGCCTCTATTCAGATGAGCC
ACTTATTTTTCCAAAGTCATGTTGCCTCTATTTAAAGGATCCATTTATT
Found at i:15586846 original size:42 final size:42
Alignment explanation
Indices: 15586799--15587087 Score: 311
Period size: 42 Copynumber: 6.9 Consensus size: 42
15586789 TCCATTTATT
* * *
15586799 TTGCCTCTATTCAGAGGATCCATTTATTTTTCCAAAGTTTTA
1 TTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTTCTG
* *
15586841 TTGCCTCTATTCAGATGAGCCACTTATTTTTCCAAAG-TCATG
1 TTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTTC-TG
** *
15586883 TTGCCTCTATTCAGAATAGCCATTTATTTTTTCAAAGTTCTG
1 TTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTTCTG
* **
15586925 TTACCTCTATTCAGAGGAGTAATTTATTTTTCCAAAAGTTCTG
1 TTGCCTCTATTCAGAGGAGCCATTTATTTTTCC-AAAGTTCTG
* * *
15586968 TTGCCTCTATTCAAAGGAGCAATTTATTTTTTCAAAG-TCGTG
1 TTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTTC-TG
** *
15587010 TTG--T-T-TCTCAGATAAGCCATTTATTTTTCCAAAGTTCGG
1 TTGCCTCTAT-TCAGAGGAGCCATTTATTTTTCCAAAGTTCTG
* * * *
15587049 GTGCCTCTATTCAAAGAAGCTATTTATTTTTCCAAAGTT
1 TTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTT
15587088 GTTTCGCCTT
Statistics
Matches: 208, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.00
39 26 0.12
40 3 0.01
41 4 0.02
42 133 0.64
43 41 0.20
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (42 bp):
TTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTTCTG
Found at i:15586868 original size:70 final size:70
Alignment explanation
Indices: 15586729--15586870 Score: 185
Period size: 70 Copynumber: 2.0 Consensus size: 70
15586719 CAAAGTTTTG
* * * * * * * *
15586729 TTGCCTCTATTTAGATGAGCCATTTATTTTTTCAAAGTTTTGTTGCTTCTATTTAAAGGATCCAT
1 TTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTTTTATTGCCTCTATTCAAAGGAGCCAC
15586794 TTATT
66 TTATT
* * *
15586799 TTGCCTCTATTCAGAGGATCCATTTATTTTTCCAAAGTTTTATTGCCTCTATTCAGATGAGCCAC
1 TTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTTTTATTGCCTCTATTCAAAGGAGCCAC
15586864 TTATT
66 TTATT
15586869 TT
1 TT
15586871 TCCAAAGTCA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.47
Consensus pattern (70 bp):
TTGCCTCTATTCAGAGGAGCCATTTATTTTTCCAAAGTTTTATTGCCTCTATTCAAAGGAGCCAC
TTATT
Found at i:15586904 original size:154 final size:157
Alignment explanation
Indices: 15586642--15586935 Score: 418
Period size: 154 Copynumber: 1.9 Consensus size: 157
15586632 CAAAGTTCTA
* *
15586642 TTGCCTCTATTCAGAAGAGCCATTTATTTTTTTCAAAGTTTTGTTGCCTCTATCTAGAGGAGCCA
1 TTGCCTCTATTCAGAAGAGCCATTTATTTTTTCCAAAGTTTTATTGCCTCTATCTAGAGGAGCCA
* * ** * *
15586707 TTTAATTTTTTTCAAAGTTTTGTTGCCTCTATTTAGATGAGCCATTTATTTTTTCAAAGTTTTGT
66 CTTAATTTTTTCCAAAGTCATGTTGCCTCTATTCAGATGAGCCATTTATTTTTTCAAAGTTCTGT
* *
15586772 TGCTTCTATTTAAAGGATCCATTTATT
131 TACCTCTATTTAAAGGATCCATTTATT
* * *
15586799 TTGCCTCTATTCAGAGGATCCATTTA-TTTTTCCAAAGTTTTATTGCCTCTAT-TCAGATGAGCC
1 TTGCCTCTATTCAGAAGAGCCATTTATTTTTTCCAAAGTTTTATTGCCTCTATCT-AGAGGAGCC
15586862 ACTT-A-TTTTTCCAAAGTCATGTTGCCTCTATTCAGAAT-AGCCATTTATTTTTTCAAAGTTCT
65 ACTTAATTTTTTCCAAAGTCATGTTGCCTCTATTCAG-ATGAGCCATTTATTTTTTCAAAGTTCT
15586924 GTTACCTCTATT
129 GTTACCTCTATT
15586936 CAGAGGAGTA
Statistics
Matches: 122, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
154 59 0.48
155 4 0.03
156 35 0.29
157 24 0.20
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (157 bp):
TTGCCTCTATTCAGAAGAGCCATTTATTTTTTCCAAAGTTTTATTGCCTCTATCTAGAGGAGCCA
CTTAATTTTTTCCAAAGTCATGTTGCCTCTATTCAGATGAGCCATTTATTTTTTCAAAGTTCTGT
TACCTCTATTTAAAGGATCCATTTATT
Found at i:15587074 original size:124 final size:126
Alignment explanation
Indices: 15586800--15587084 Score: 348
Period size: 124 Copynumber: 2.3 Consensus size: 126
15586790 CCATTTATTT
* * * * * *
15586800 TGCCTCTATTCAGAGGATCCATTTATTTTTCC-AAAGTTTTATTGCCTCTATTCAGATGAGCCAC
1 TGCCTCTATTCAGAGGAGCTATTTATTTTTCCAAAAGTTCTATTGCCTCTATTCAAAGGAGCAAC
* * *
15586864 TTATTTTTCCAAAGTCATGTTGCCTCTATTCAGAATAGCCATTTATTTTTTCAAAGTTCTGT
66 TTATTTTTCCAAAGTCATGTTG-CTCTATTCAGAATAGCCATTTATTTTTCCAAAGTTCGGG
* *
15586926 TACCTCTATTCAGAGGAG-TAATTTATTTTTCCAAAAGTTCTGTTGCCTCTATTCAAAGGAGCAA
1 TGCCTCTATTCAGAGGAGCT-ATTTATTTTTCCAAAAGTTCTATTGCCTCTATTCAAAGGAGCAA
* * *
15586990 TTTATTTTTTCAAAGTCGTGTTG-T-T-TCTCAG-ATAAGCCATTTATTTTTCCAAAGTTCGGG
65 CTTATTTTTCCAAAGTCATGTTGCTCTAT-TCAGAAT-AGCCATTTATTTTTCCAAAGTTCGGG
* *
15587050 TGCCTCTATTCAAAGAAGCTATTTATTTTTCCAAA
1 TGCCTCTATTCAGAGGAGCTATTTATTTTTCCAAA
15587085 GTTGTTTCGC
Statistics
Matches: 137, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
123 3 0.02
124 58 0.42
125 2 0.01
126 28 0.20
127 46 0.34
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (126 bp):
TGCCTCTATTCAGAGGAGCTATTTATTTTTCCAAAAGTTCTATTGCCTCTATTCAAAGGAGCAAC
TTATTTTTCCAAAGTCATGTTGCTCTATTCAGAATAGCCATTTATTTTTCCAAAGTTCGGG
Found at i:15590101 original size:31 final size:33
Alignment explanation
Indices: 15590040--15590102 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
15590030 TTGCAAACAA
*
15590040 TTAAAGTGCATGAAAATATTAAATTACATAAAT
1 TTAAAGTGCAAGAAAATATTAAATTACATAAAT
* *
15590073 TTAAAGTTCAAGAAAA-A-TAAATTGCATAAA
1 TTAAAGTGCAAGAAAATATTAAATTACATAAA
15590103 AAGTAAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 14 0.52
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (33 bp):
TTAAAGTGCAAGAAAATATTAAATTACATAAAT
Found at i:15598399 original size:13 final size:13
Alignment explanation
Indices: 15598381--15598419 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
15598371 TTTAATTTAG
15598381 ATTAAATTCATAT
1 ATTAAATTCATAT
*
15598394 ATTAAATTTATAT
1 ATTAAATTCATAT
15598407 ATTAAATTCATAT
1 ATTAAATTCATAT
15598420 TGAATTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTAAATTCATAT
Found at i:15598576 original size:13 final size:13
Alignment explanation
Indices: 15598544--15598583 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
15598534 AGTCTAGTTA
15598544 AATATATCAAAAAT
1 AATATAT-AAAAAT
15598558 --TATATAAAAAT
1 AATATATAAAAAT
15598569 AATATATAAAAAT
1 AATATATAAAAAT
15598582 AA
1 AA
15598584 AGAATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.25
12 5 0.21
13 13 0.54
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:15599220 original size:14 final size:15
Alignment explanation
Indices: 15599195--15599224 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
15599185 TTTTATTTAA
15599195 ATTTATTAATTATTT
1 ATTTATTAATTATTT
15599210 ATTTA-TAATTATTT
1 ATTTATTAATTATTT
15599224 A
1 A
15599225 AATTCAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTATTAATTATTT
Found at i:15599221 original size:21 final size:20
Alignment explanation
Indices: 15599174--15599222 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
15599164 AATTTATCAC
*
15599174 AAATTA-TAATTTTTTATTT
1 AAATTATTAATTATTTATTT
15599193 AAATTTATTAATTATTTATTT
1 AAA-TTATTAATTATTTATTT
15599214 ATAATTATT
1 A-AATTATT
15599223 TAAATTCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
21 18 0.69
22 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AAATTATTAATTATTTATTT
Found at i:15599819 original size:18 final size:18
Alignment explanation
Indices: 15599808--15599846 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15599798 ATAATAAAGA
15599808 GAATAAGTATAAGAATAG
1 GAATAAGTATAAGAATAG
* * *
15599826 GAATAAGAATAGGACTAG
1 GAATAAGTATAAGAATAG
15599844 GAA
1 GAA
15599847 AGCCTCTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (18 bp):
GAATAAGTATAAGAATAG
Found at i:15602299 original size:30 final size:30
Alignment explanation
Indices: 15602241--15602299 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
15602231 TGATACCCCA
*
15602241 AAACCCTAACTCTAGCCAAAACCTTAAACC
1 AAACCCTAACTCTAGCCAAAACCCTAAACC
* *
15602271 AAACCCTAATTCTAAGCC-CAACCCTAAAC
1 AAACCCTAACTCT-AGCCAAAACCCTAAAC
15602300 TAACCTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.37, G:0.03, T:0.17
Consensus pattern (30 bp):
AAACCCTAACTCTAGCCAAAACCCTAAACC
Found at i:15602341 original size:25 final size:25
Alignment explanation
Indices: 15602323--15602379 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
15602313 TAACCCTATA
15602323 TGAAACTTTAAATCCTAACTCTAAT
1 TGAAACTTTAAATCCTAACTCTAAT
* *
15602348 TGAAACCTTAAATCCAAACTCTAAT
1 TGAAACTTTAAATCCTAACTCTAAT
15602373 TGAAACT
1 TGAAACT
15602380 GCAAATCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (25 bp):
TGAAACTTTAAATCCTAACTCTAAT
Found at i:15602395 original size:24 final size:25
Alignment explanation
Indices: 15602314--15602395 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
15602304 CTTAAGCCTT
* * *
15602314 AACCCT-ATATGAAACTTTAAATCCT
1 AACCCTAAT-TGAAACCTCAAATCCA
* *
15602339 AACTCTAATTGAAACCTTAAATCCA
1 AACCCTAATTGAAACCTCAAATCCA
*
15602364 AACTCTAATTGAAA-CTGCAAAT-CA
1 AACCCTAATTGAAACCT-CAAATCCA
15602388 AACCCTAA
1 AACCCTAA
15602396 ACTTTAACCT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.22
25 37 0.74
26 2 0.04
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.27
Consensus pattern (25 bp):
AACCCTAATTGAAACCTCAAATCCA
Found at i:15607912 original size:19 final size:19
Alignment explanation
Indices: 15607879--15607947 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
15607869 ATTTGAGGTT
*
15607879 TGGTTTA-GTTTTGAAAGA
1 TGGTTTAGGGTTTGAAAGA
15607897 TGGTTTAGGGTTTGAAAG-
1 TGGTTTAGGGTTTGAAAGA
* * *
15607915 GGGATTTAGGGTTTGGAGGA
1 TGG-TTTAGGGTTTGAAAGA
15607935 TGGTTTAGGGTTT
1 TGGTTTAGGGTTT
15607948 AGGAGGTCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
18 9 0.21
19 32 0.74
20 2 0.05
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (19 bp):
TGGTTTAGGGTTTGAAAGA
Found at i:15607992 original size:20 final size:20
Alignment explanation
Indices: 15607951--15607990 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15607941 AGGGTTTAGG
* *
15607951 AGGTCATTTGGGGGTTTGAA
1 AGGTCATTTGAGGATTTGAA
15607971 AGGTCATTT-AGGATTTGAA
1 AGGTCATTTGAGGATTTGAA
15607990 A
1 A
15607991 AGTGGTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.35
Consensus pattern (20 bp):
AGGTCATTTGAGGATTTGAA
Found at i:15608122 original size:17 final size:17
Alignment explanation
Indices: 15608075--15608124 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
15608065 GGTTTAAAAT
*
15608075 ATAGGATTTG-GGGTTC
1 ATAGGATTTGAGGTTTC
15608091 AT-GG-TTT-AGGGTTTC
1 ATAGGATTTGA-GGTTTC
15608106 ATAGGATTTGAGGTTTC
1 ATAGGATTTGAGGTTTC
15608123 AT
1 AT
15608125 GGAATTATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
14 3 0.11
15 9 0.32
16 4 0.14
17 11 0.39
18 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.32, T:0.42
Consensus pattern (17 bp):
ATAGGATTTGAGGTTTC
Found at i:15610094 original size:42 final size:40
Alignment explanation
Indices: 15610028--15610184 Score: 129
Period size: 42 Copynumber: 3.8 Consensus size: 40
15610018 TCATGATTGG
* * * *
15610028 AAGACTTTGATTCACAACAAAGTAAACAATTCATAGTTTGA
1 AAGACTCTGATT-TCAACAGAGTAAACAATTTATAGTTTGA
**
15610069 AAGACTCTAGATTTGCAACAGAGTAAATGATTTATAGTTTG-
1 AAGACTCT-GATTT-CAACAGAGTAAACAATTTATAGTTTGA
* *
15610110 AAGACTCTGAATTCATAGCAGAGTAAACAATTTACAGTTTGGA
1 AAGACTCTGATTTCA-A-CAGAGTAAACAATTTATAGTTT-GA
* * *
15610153 AA-ACTCTGGATTCACAACAGACTAAACTATTT
1 AAGACTCT-GATT-TCAACAGAGTAAACAATTT
15610185 GGAGTAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 15
0.76 0.11 0.12
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 34 0.36
42 45 0.48
43 6 0.06
44 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (40 bp):
AAGACTCTGATTTCAACAGAGTAAACAATTTATAGTTTGA
Found at i:15618166 original size:23 final size:23
Alignment explanation
Indices: 15618136--15618182 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
15618126 GTTCTTTCCA
15618136 ACAATTGTTCTGTGAAAGAAACG
1 ACAATTGTTCTGTGAAAGAAACG
*
15618159 ACAATTGTTCTTTGAAAGAAACG
1 ACAATTGTTCTGTGAAAGAAACG
15618182 A
1 A
15618183 TTTGAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (23 bp):
ACAATTGTTCTGTGAAAGAAACG
Found at i:15626525 original size:15 final size:16
Alignment explanation
Indices: 15626507--15626536 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15626497 TTTATCAAAA
15626507 ATTATTT-TTATTTTT
1 ATTATTTATTATTTTT
15626522 ATTATTTATTATTTT
1 ATTATTTATTATTTT
15626537 GAATACATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTATTTATTATTTTT
Found at i:15626600 original size:15 final size:15
Alignment explanation
Indices: 15626564--15626593 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15626554 TTTTTATACA
15626564 AAAAT-AATAAAAAT
1 AAAATAAATAAAAAT
15626578 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
15626593 A
1 A
15626594 TTATAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:15627220 original size:28 final size:26
Alignment explanation
Indices: 15627188--15627240 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
15627178 AGATATTATA
15627188 ATAATTTTGATCAATTATGATAAGAGAG
1 ATAATTTT-AT-AATTATGATAAGAGAG
* *
15627216 ATAATTTTATACTTTTGATAAGAGA
1 ATAATTTTATAATTATGATAAGAGA
15627241 AGTACTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 2 0.09
28 8 0.35
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.40
Consensus pattern (26 bp):
ATAATTTTATAATTATGATAAGAGAG
Found at i:15629685 original size:22 final size:23
Alignment explanation
Indices: 15629642--15629685 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
15629632 ATTTTAAGTT
* *
15629642 TTTATATTTATGTATGATAAATG
1 TTTAAATTTATGTAGGATAAATG
15629665 TTTAAATTTAT-TAGGATAAAT
1 TTTAAATTTATGTAGGATAAAT
15629686 ATCTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (23 bp):
TTTAAATTTATGTAGGATAAATG
Found at i:15642411 original size:35 final size:35
Alignment explanation
Indices: 15642372--15642667 Score: 168
Period size: 37 Copynumber: 8.2 Consensus size: 35
15642362 TACGGTTCAG
*
15642372 TCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAA
1 TCCCAGTCATTTTTAATATTTGGCTTGTGGTTTAA
* * * **
15642407 TCCCAGTCATTTTTTTATTTTTTGACTTACGGTTTAA
1 TCCCAGTCA--TTTTTAATATTTGGCTTGTGGTTTAA
* * * * *
15642444 TCCCAATC-TCTTTT-ATCTTCCTGGCTTGCGGTTCAG
1 TCCCAGTCAT-TTTTAATATT--TGGCTTGTGGTTTAA
* * *
15642480 TCTCAGTAATTTTTAAAATTTGGCTTGTGGTTTAA
1 TCCCAGTCATTTTTAATATTTGGCTTGTGGTTTAA
* * * * * * *
15642515 TCCTAATCATTTTTTTATTTTTTGACTTGCGATTTAA
1 TCCCAGTCA--TTTTTAATATTTGGCTTGTGGTTTAA
* * * *
15642552 TCCCAGTC-TCTTTT-ATCTTTCTGGCTTGTAGTTCAG
1 TCCCAGTCAT-TTTTAAT-ATT-TGGCTTGTGGTTTAA
*
15642588 TCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAA
1 TCCCAGTCATTTTTAATATTTGGCTTGTGGTTTAA
* * * * * *
15642623 TCCTAGTCATTTCTTTATTTTCTGACTTGCGATTTAA
1 TCCCAGTCATTT-TTAATATT-TGGCTTGTGGTTTAA
15642660 TCCCAGTC
1 TCCCAGTC
15642668 TCTTTTATCT
Statistics
Matches: 192, Mismatches: 53, Indels: 30
0.70 0.19 0.11
Matches are distributed among these distances:
34 6 0.03
35 59 0.31
36 49 0.26
37 78 0.41
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.48
Consensus pattern (35 bp):
TCCCAGTCATTTTTAATATTTGGCTTGTGGTTTAA
Found at i:15642528 original size:108 final size:108
Alignment explanation
Indices: 15642355--15642677 Score: 511
Period size: 108 Copynumber: 3.0 Consensus size: 108
15642345 TATATAGGCC
* *
15642355 CCTGGCTTACGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCCAGTCATTTT
1 CCTGGCTTGCGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCTAGTCATTTT
* * *
15642420 TTTATTTTTTGACTTACGGTTTAATCCCAATCTCTTTTATCTT
66 TTTATTTTTTGACTTGCGATTTAATCCCAGTCTCTTTTATCTT
* * * * *
15642463 CCTGGCTTGCGGTTCAGTCTCAGTAATTTTTAAAATTTGGCTTGTGGTTTAATCCTAATCATTTT
1 CCTGGCTTGCGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCTAGTCATTTT
15642528 TTTATTTTTTGACTTGCGATTTAATCCCAGTCTCTTTTATCTT
66 TTTATTTTTTGACTTGCGATTTAATCCCAGTCTCTTTTATCTT
* ** *
15642571 TCTGGCTTGTAGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCTAGTCATTTC
1 CCTGGCTTGCGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCTAGTCATTTT
*
15642636 TTTATTTTCTGACTTGCGATTTAATCCCAGTCTCTTTTATCT
66 TTTATTTTTTGACTTGCGATTTAATCCCAGTCTCTTTTATCT
15642678 CTTTGACTTA
Statistics
Matches: 195, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 195 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.48
Consensus pattern (108 bp):
CCTGGCTTGCGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCTAGTCATTTT
TTTATTTTTTGACTTGCGATTTAATCCCAGTCTCTTTTATCTT
Found at i:15642694 original size:108 final size:107
Alignment explanation
Indices: 15642357--15642732 Score: 500
Period size: 108 Copynumber: 3.5 Consensus size: 107
15642347 TATAGGCCCC
*
15642357 TGGCTTACGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCCAGTCATTTTTT
1 TGGCTTACGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCTAGTCATTTTTT
* * * *
15642422 TATTTTTTGACTTACGGTTTAATCCCAATCTCTTTTATCTTCC
66 TATTTTTTGACTTGCGATTTAATCCCAGTCTCTTTTATCTT-T
* * * * * *
15642465 TGGCTTGCGGTTCAGTCTCAGTAATTTTTAAAATTTGGCTTGTGGTTTAATCCTAATCATTTTTT
1 TGGCTTACGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCTAGTCATTTTTT
15642530 TATTTTTTGACTTGCGATTTAATCCCAGTCTCTTTTATCTTT
66 TATTTTTTGACTTGCGATTTAATCCCAGTCTCTTTTATCTTT
*** *
15642572 CTGGCTTGTAGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCTAGTCATTTCT
1 -TGGCTTACGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCTAGTCATTTTT
*
15642637 TTATTTTCTGACTTGCGATTTAATCCCAGTCTCTTTTATCTCTT
65 TTATTTTTTGACTTGCGATTTAATCCCAGTCTCTTTTATCT-TT
* * * * ** * * *
15642681 TGACTTACGGTTCAATCCTAGTCGTCATTAATATTTAGCTCATGATTTAATC
1 TGGCTTACGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATC
15642733 TCGATCATTT
Statistics
Matches: 234, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
108 232 0.99
109 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (107 bp):
TGGCTTACGGTTCAGTCCCAGTCATTTTTAATATTTGGCTCGTGGTTTAATCCTAGTCATTTTTT
TATTTTTTGACTTGCGATTTAATCCCAGTCTCTTTTATCTTT
Found at i:15643079 original size:171 final size:171
Alignment explanation
Indices: 15642781--15643286 Score: 503
Period size: 171 Copynumber: 3.0 Consensus size: 171
15642771 CTCTTTATCA
** *
15642781 ACGATTTAATCCCGGTCTCTTTATCCTCTGATTCACGATTCAATCTCGATCTCTTTAATTTAAAA
1 ACGATTTAATCCCAATCTCTTTATCCTCTGATTCACGATTCAATCTCGATCTCTTTAATTCAAAA
* * * *
15642846 TCATAGTTTAATCTCGATTGTTGTTATCCTCTGACTCGTGATTCAATTTCAGTCTTCTTATTTTT
66 TCATAGCTTAATCTCGATTGTTGTAATCCTCTGACTCGTGATTCAATTTCAGTCTCCTTATTTTC
* *
15642911 GGACTTGTGATTCAGTCCAAGTTAACGAT-ATTTT-TTAACTT
131 GGACTTGTGATTCAATCCAAGTTAACG-TCATTTTCTT-ACTC
* * * *
15642952 ACGATTTAATCCCAATCTCTTTATCCTCTGATTCGCGATTTAATC-CTGCTCTTTTTAATTCAAA
1 ACGATTTAATCCCAATCTCTTTATCCTCTGATTCACGATTCAATCTC-GATCTCTTTAATTCAAA
* * *
15643016 ATCGTAGCTTAATCTC-AGTTGTTGTAATCCTTTGACTCGTG-GTCTAATTTC-GATCTCCTTAT
65 ATCATAGCTTAATCTCGA-TTGTTGTAATCCTCTGACTCGTGATTC-AATTTCAG-TCTCCTTAT
15643078 TTTCGGACTTGTGATTCAATCCAAGTTAACGTCATTTTCTTACTC
127 TTTCGGACTTGTGATTCAATCCAAGTTAACGTCATTTTCTTACTC
* * * * * * ** *
15643123 GCGGTTTAATCCCAATCTCTTTAT-TTTTCGATTCATGATTCAATCCCGATAACTTTAATTTAAA
1 ACGATTTAATCCCAATCTCTTTATCCTCT-GATTCACGATTCAATCTCGATCTCTTTAATTCAAA
* * ** * * * **
15643187 ATCGTAGTTTAATCTCGATTGTCAT-TAA-CCTCCAACTCGTGATT-TATTCCCGGT-TGTTTTA
65 ATCATAGCTTAATCTCGATTGT--TGTAATCCTCTGACTCGTGATTCAATT-TCAGTCT-CCTTA
** *
15643248 TTTTCTAACTTGTGATTCAATCCAAGTTAACGTTATTTT
126 TTTTCGGACTTGTGATTCAATCCAAGTTAACGTCATTTT
15643287 TTGATTCGCG
Statistics
Matches: 280, Mismatches: 40, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
170 12 0.04
171 258 0.92
172 9 0.03
173 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.44
Consensus pattern (171 bp):
ACGATTTAATCCCAATCTCTTTATCCTCTGATTCACGATTCAATCTCGATCTCTTTAATTCAAAA
TCATAGCTTAATCTCGATTGTTGTAATCCTCTGACTCGTGATTCAATTTCAGTCTCCTTATTTTC
GGACTTGTGATTCAATCCAAGTTAACGTCATTTTCTTACTC
Found at i:15643369 original size:34 final size:33
Alignment explanation
Indices: 15643313--15643377 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
15643303 TCTTGGTTTA
* *
15643313 TTTATTCTCTAATTTACGGTTTAATCTCGATCTT
1 TTTATTCTCTAATTCACAGTTTAATCT-GATCTT
* *
15643347 TTTATTCTCTGATTCATAGTTTAATCTGATC
1 TTTATTCTCTAATTCACAGTTTAATCTGATC
15643378 CTTAGTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (33 bp):
TTTATTCTCTAATTCACAGTTTAATCTGATCTT
Found at i:15643526 original size:121 final size:121
Alignment explanation
Indices: 15643388--15643620 Score: 358
Period size: 121 Copynumber: 1.9 Consensus size: 121
15643378 CTTAGTATTT
** ** * * * * *
15643388 CTCTTACTCGTGGTTTAATTTCGCTCTTCTTATTTTTTATTGGTAATTTAATCTGAGTTCAATCC
1 CTCTTACTAATGGTTTAATCCCGCTCTTCTCATTTTTGACTGATAATTTAATCCGAGTTCAATCC
*
15643453 TGATCTTGTTATTTCTTGATTCGCGATGTTGTCTCAATCGATTCTTTACTTTTCGA
66 TGATCTTGTTATTCCTTGATTCGCGATGTTGTCTCAATCGATTCTTTACTTTTCGA
*
15643509 CTCTTACTAATGGTTTAATCCCGCTCTTCTCATTTTTGACTGATGATTTAATCCGAGTTCAATCC
1 CTCTTACTAATGGTTTAATCCCGCTCTTCTCATTTTTGACTGATAATTTAATCCGAGTTCAATCC
*
15643574 TGATCTTGTTATTCCTTGATTCGCGGTGTTGTCTCAATCGATTCTTT
66 TGATCTTGTTATTCCTTGATTCGCGATGTTGTCTCAATCGATTCTTT
15643621 TTTCGACTTA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
121 100 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.48
Consensus pattern (121 bp):
CTCTTACTAATGGTTTAATCCCGCTCTTCTCATTTTTGACTGATAATTTAATCCGAGTTCAATCC
TGATCTTGTTATTCCTTGATTCGCGATGTTGTCTCAATCGATTCTTTACTTTTCGA
Found at i:15643812 original size:74 final size:74
Alignment explanation
Indices: 15643733--15644156 Score: 203
Period size: 74 Copynumber: 5.8 Consensus size: 74
15643723 TTTATTTCTC
* * * **
15643733 CAACTTATGGTTTAACCCCAATCATTTTTATTTTTCTGACTTGCGATTTAATTCCAATCATTCTT
1 CAACTTACGGTTTAACCCAAATCATTTTTATTTCTCTGACTTGCGATTTAACCCCAATCATTCTT
15643798 ATAGTTTTT
66 ATAGTTTTT
* * *
15643807 CAACTTACGGTTTAATCTAAATCATTTTTATTTCTCTGACTTGCGGTTTAACCCCAATCATT-TT
1 CAACTTACGGTTTAACCCAAATCATTTTTATTTCTCTGACTTGCGATTTAACCCCAATCATTCTT
15643871 -TA-TTTTT
66 ATAGTTTTT
* * * * * * * * * * * *
15643878 CTTATTTGCGATTTAATCTC-AGTCATTCCTATAGTTT-TTTAACTTGTGGTTTAATCCCAATCA
1 C-AACTTACGGTTTAA-CCCAAATCATT--TTTA-TTTCTCTGACTTGCGATTTAACCCCAATCA
*
15643941 TT-TT-TATTTTTT
61 TTCTTATAGTTTTT
** * * * * * * * *
15643953 TGACTTACGATTTAACCCCAGTCGTTTTTATTTCTCTGACTTGCGGTTTAACCCTAGTCGTT-TT
1 CAACTTACGGTTTAACCCAAATCATTTTTATTTCTCTGACTTGCGATTTAACCCCAATCATTCTT
15644017 -T-GTTTTT
66 ATAGTTTTT
* * * * * * * * * *
15644024 CTTACTTGCGATTTAATCCC-AGTCATTCCTATAGTTT-TTTAACTTGTGGTTTAATCCCAATCA
1 C-AACTTACGGTTTAA-CCCAAATCATT--TTTA-TTTCTCTGACTTGCGATTTAACCCCAATCA
15644087 TT-TT-TA-TTTCTT
61 TTCTTATAGTTT-TT
** * * * * * *
15644099 TGACTTACGATTTAACCCCAGTCATTTTTATTTCTTTGACTTGCGATTCAATCCCAAT
1 CAACTTACGGTTTAACCCAAATCATTTTTATTTCTCTGACTTGCGATTTAACCCCAAT
15644157 TGTCGTTAAT
Statistics
Matches: 277, Mismatches: 56, Indels: 36
0.75 0.15 0.10
Matches are distributed among these distances:
71 17 0.06
72 86 0.31
73 10 0.04
74 151 0.55
75 13 0.05
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (74 bp):
CAACTTACGGTTTAACCCAAATCATTTTTATTTCTCTGACTTGCGATTTAACCCCAATCATTCTT
ATAGTTTTT
Found at i:15643819 original size:110 final size:110
Alignment explanation
Indices: 15643625--15644124 Score: 458
Period size: 110 Copynumber: 4.6 Consensus size: 110
15643615 TTCTTTTTTC
* * ** * * *
15643625 GACTTACGATTTAATCCCGGTCATTTTTACTTTT-TGACTTGCGAATTAATCCCAGTCATTCCTA
1 GACTTACGGTTTAACCCCAATCATTTTTATTTTTCTGACTTGCGATTTAATTCCAGTCATTCCTA
* * ** *
15643689 TAGTTTCTCAACTTGTGGTTTAATCGCAATTGTTTTTATTTCTCC
66 TAGTTTTTCAACTTGTGGTTTAATCCCAATCATTTTTATTTCTCT
* * * *
15643734 AACTTATGGTTTAACCCCAATCATTTTTATTTTTCTGACTTGCGATTTAATTCCAATCATTCTTA
1 GACTTACGGTTTAACCCCAATCATTTTTATTTTTCTGACTTGCGATTTAATTCCAGTCATTCCTA
** **
15643799 TAGTTTTTCAACTTACGGTTTAATCTAAATCATTTTTATTTCTCT
66 TAGTTTTTCAACTTGTGGTTTAATCCCAATCATTTTTATTTCTCT
* * *
15643844 GACTTGCGGTTTAACCCCAATCATTTTTATTTTTCTTATTTGCGATTTAA-TCTCAGTCATTCCT
1 GACTTACGGTTTAACCCCAATCATTTTTATTTTTCTGACTTGCGATTTAATTC-CAGTCATTCCT
* * *
15643908 ATAGTTTTTTAACTTGTGGTTTAATCCCAATCATTTTTATTTTTTT
65 ATAGTTTTTCAACTTGTGGTTTAATCCCAATCATTTTTATTTCTCT
* * * * * * *
15643954 GACTTACGATTTAACCCCAGTCGTTTTTATTTCTCTGACTTGCGGTTTAA-CCCTAGTCGTT--T
1 GACTTACGGTTTAACCCCAATCATTTTTATTTTTCTGACTTGCGATTTAATTCC-AGTCATTCCT
* * * * * * *
15644016 -TTGTTTTTCTTACTTGCGATTTAATCCCAGTCATTCCTATAGTTT-TTT
65 ATAGTTTTTC-AACTTGTGGTTTAATCCCAATCATT--TTTA-TTTCTCT
* ** * * **
15644064 AACTTGTGGTTTAATCCCAATCATTTTTATTTCTT-TGACTTACGATTTAACCCCAGTCATT
1 GACTTACGGTTTAACCCCAATCATTTTTATTT-TTCTGACTTGCGATTTAATTCCAGTCATT
15644125 TTTATTTCTT
Statistics
Matches: 321, Mismatches: 61, Indels: 17
0.80 0.15 0.04
Matches are distributed among these distances:
107 7 0.02
108 22 0.07
109 30 0.09
110 255 0.79
111 7 0.02
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (110 bp):
GACTTACGGTTTAACCCCAATCATTTTTATTTTTCTGACTTGCGATTTAATTCCAGTCATTCCTA
TAGTTTTTCAACTTGTGGTTTAATCCCAATCATTTTTATTTCTCT
Found at i:15643904 original size:146 final size:144
Alignment explanation
Indices: 15643634--15644143 Score: 531
Period size: 146 Copynumber: 3.5 Consensus size: 144
15643624 CGACTTACGA
** * * * * *
15643634 TTTAATCCCGGTCATTTTTACTTTTTGACTTGCGAATTAATCCCAGTCATTCCTATAGTTTCTC-
1 TTTAATCCCAATCATTTTTATTTTTTGACTTACGATTTAACCCCAGTCATT--TTTA-TTTCTCT
* * * * ** * ** ** * * * *
15643698 AACTTGTGGTTTAATCGCAATTGTTTTTATTTCTCCAACTTATGGTTTAACCCCAATCATT-TTT
63 GACTTGCGGTTTAACCCCAATCATTTTTATTTTTCTTACTTGCGATTTAATCCCAGTCATTCTAT
* * *
15643762 A-TTTTTCTGACTTGCGA
128 AGTTTTT-TAACTTGTGG
* ** * * ** *
15643779 TTTAATTCCAATCATTCTTATAGTTTTTCAACTTACGGTTTAATCTAAATCATTTTTATTTCTCT
1 TTTAATCCCAATCATT-TT-TA-TTTTTTGACTTACGATTTAACCCCAGTCATTTTTATTTCTCT
* *
15643844 GACTTGCGGTTTAACCCCAATCATTTTTATTTTTCTTATTTGCGATTTAATCTCAGTCATTCCTA
63 GACTTGCGGTTTAACCCCAATCATTTTTATTTTTCTTACTTGCGATTTAATCCCAGTCATT-CTA
15643909 TAGTTTTTTAACTTGTGG
127 TAGTTTTTTAACTTGTGG
*
15643927 TTTAATCCCAATCATTTTTATTTTTTTGACTTACGATTTAACCCCAGTCGTTTTTATTTCTCTGA
1 TTTAATCCCAATCATTTTTA-TTTTTTGACTTACGATTTAACCCCAGTCATTTTTATTTCTCTGA
* * * *
15643992 CTTGCGGTTTAACCCTAGTCGTTTTTGTTTTTCTTACTTGCGATTTAATCCCAGTCATTCCTATA
65 CTTGCGGTTTAACCCCAATCATTTTTATTTTTCTTACTTGCGATTTAATCCCAGTCATT-CTATA
15644057 GTTTTTTAACTTGTGG
129 GTTTTTTAACTTGTGG
*
15644073 TTTAATCCCAATCATTTTTATTTCTTTGACTTACGATTTAACCCCAGTCATTTTTATTTCTTTGA
1 TTTAATCCCAATCATTTTTATTT-TTTGACTTACGATTTAACCCCAGTCATTTTTATTTCTCTGA
15644138 CTTGCG
65 CTTGCG
15644144 ATTCAATCCC
Statistics
Matches: 306, Mismatches: 51, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
145 22 0.07
146 228 0.75
147 4 0.01
148 47 0.15
149 5 0.02
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.49
Consensus pattern (144 bp):
TTTAATCCCAATCATTTTTATTTTTTGACTTACGATTTAACCCCAGTCATTTTTATTTCTCTGAC
TTGCGGTTTAACCCCAATCATTTTTATTTTTCTTACTTGCGATTTAATCCCAGTCATTCTATAGT
TTTTTAACTTGTGG
Found at i:15644134 original size:36 final size:35
Alignment explanation
Indices: 15643618--15644156 Score: 333
Period size: 36 Copynumber: 14.8 Consensus size: 35
15643608 CAATCGATTC
* **
15643618 TTTTTTCGACTTACGATTTAATCCCGGTCATTTTTA
1 TTTTTT-GACTTGCGATTTAATCCCAATCATTTTTA
* * * *
15643654 CTTTTTGACTTGCGAATTAATCCCAGTCATTCCTATA
1 TTTTTTGACTTGCGATTTAATCCCAATCATT--TTTA
* ** * * * **
15643691 GTTTCTCAACTTGTGGTTTAATCGCAATTGTTTTTA
1 -TTTTTTGACTTGCGATTTAATCCCAATCATTTTTA
*** ** * *
15643727 TTTCTCCAACTTATGGTTTAACCCCAATCATTTTTA
1 TTT-TTTGACTTGCGATTTAATCCCAATCATTTTTA
*
15643763 TTTTTCTGACTTGCGATTTAATTCCAATCATTCTTATA
1 TTTTT-TGACTTGCGATTTAATCCCAATCATT-TT-TA
** * * **
15643801 GTTTTTCAACTTACGGTTTAATCTAAATCATTTTTA
1 -TTTTTTGACTTGCGATTTAATCCCAATCATTTTTA
* * *
15643837 TTTCTCTGACTTGCGGTTTAACCCCAATCATTTTTA
1 TTT-TTTGACTTGCGATTTAATCCCAATCATTTTTA
* * * * *
15643873 TTTTTCTTATTTGCGATTTAATCTCAGTCATTCCTATA
1 TTTTT-TGACTTGCGATTTAATCCCAATCATT--TTTA
* * *
15643911 GTTTTTTAACTTGTGGTTTAATCCCAATCATTTTTA
1 -TTTTTTGACTTGCGATTTAATCCCAATCATTTTTA
* * * *
15643947 TTTTTTTGACTTACGATTTAACCCCAGTCGTTTTTA
1 -TTTTTTGACTTGCGATTTAATCCCAATCATTTTTA
* * * * *
15643983 TTTCTCTGACTTGCGGTTTAA-CCCTAGTCGTTTTTG
1 TTT-TTTGACTTGCGATTTAATCCC-AATCATTTTTA
* * *
15644019 TTTTTCTTACTTGCGATTTAATCCCAGTCATTCCTATA
1 TTTTT-TGACTTGCGATTTAATCCCAATCATT--TTTA
* * *
15644057 GTTTTTTAACTTGTGGTTTAATCCCAATCATTTTTA
1 -TTTTTTGACTTGCGATTTAATCCCAATCATTTTTA
* * *
15644093 TTTCTTTGACTTACGATTTAACCCCAGTCATTTTTA
1 TTT-TTTGACTTGCGATTTAATCCCAATCATTTTTA
*
15644129 TTTCTTTGACTTGCGATTCAATCCCAAT
1 TTT-TTTGACTTGCGATTTAATCCCAAT
15644157 TGTCGTTAAT
Statistics
Matches: 388, Mismatches: 94, Indels: 42
0.74 0.18 0.08
Matches are distributed among these distances:
35 40 0.10
36 235 0.61
37 10 0.03
38 88 0.23
39 15 0.04
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.48
Consensus pattern (35 bp):
TTTTTTGACTTGCGATTTAATCCCAATCATTTTTA
Found at i:15644381 original size:17 final size:18
Alignment explanation
Indices: 15644354--15644387 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
15644344 ATATTTTTTA
15644354 TAATCTAAAAAAATTAAT
1 TAATCTAAAAAAATTAAT
15644372 TAAT-TAAAAAAATTAA
1 TAATCTAAAAAAATTAA
15644388 AATTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATCTAAAAAAATTAAT
Found at i:15645858 original size:13 final size:13
Alignment explanation
Indices: 15645840--15645864 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15645830 ATTAAACCCC
15645840 AAACCCTAAACTG
1 AAACCCTAAACTG
15645853 AAACCCTAAACT
1 AAACCCTAAACT
15645865 TTTATCAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.32, G:0.04, T:0.16
Consensus pattern (13 bp):
AAACCCTAAACTG
Found at i:15646997 original size:27 final size:27
Alignment explanation
Indices: 15646967--15647019 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
15646957 AAGCTGAAAG
*
15646967 CACTCGTCAAACGGAGAGCTTAGGGAT
1 CACTCATCAAACGGAGAGCTTAGGGAT
*
15646994 CACTCATCAAACGGAGAGGTTAGGGA
1 CACTCATCAAACGGAGAGCTTAGGGA
15647020 CCGATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.17
Consensus pattern (27 bp):
CACTCATCAAACGGAGAGCTTAGGGAT
Found at i:15653958 original size:17 final size:17
Alignment explanation
Indices: 15653922--15653964 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15653912 CAAAGTTAAA
* * *
15653922 AAAAATATAAAAACATT
1 AAAAATTTAAAAAAACT
15653939 AAAAATTTAAAAAAACT
1 AAAAATTTAAAAAAACT
15653956 AAAATATTT
1 AAAA-ATTT
15653965 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATTTAAAAAAACT
Found at i:15654134 original size:20 final size:20
Alignment explanation
Indices: 15654109--15654170 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
15654099 ATAAAAGCAT
15654109 AAAAAATCTAAAATTTAAAA
1 AAAAAATCTAAAATTTAAAA
**
15654129 AAAAAATCT-AAATTT-TTA
1 AAAAAATCTAAAATTTAAAA
15654147 AAAAAATCTAGAAATTTAAAA
1 AAAAAATCTA-AAATTTAAAA
15654168 AAA
1 AAA
15654171 TCCAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 10 0.29
19 6 0.17
20 15 0.43
21 4 0.11
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAAATCTAAAATTTAAAA
Found at i:15654171 original size:18 final size:17
Alignment explanation
Indices: 15654109--15654177 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 17
15654099 ATAAAAGCAT
15654109 AAAAAATCTAAAATTTAAAA
1 AAAAAATCTAAAATTT---A
*
15654129 AAAAAATCTAAATTTTTA
1 AAAAAATCTAAA-ATTTA
15654147 AAAAAATCTAGAAATTTA
1 AAAAAATCTA-AAATTTA
*
15654165 AAAAAATCCAAAA
1 AAAAAATCTAAAA
15654178 ATTATGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.07
18 24 0.55
19 2 0.05
20 12 0.27
21 3 0.07
ACGTcount: A:0.65, C:0.07, G:0.01, T:0.26
Consensus pattern (17 bp):
AAAAAATCTAAAATTTA
Found at i:15654305 original size:20 final size:20
Alignment explanation
Indices: 15654282--15654328 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15654272 ATCCAAAATT
* * *
15654282 AAAAAATTCTTAAACCTTCA
1 AAAAAAATCTAAAAACTTCA
*
15654302 AAAAAAATCTAAAAATTTCA
1 AAAAAAATCTAAAAACTTCA
15654322 AAAAAAA
1 AAAAAAA
15654329 AAAAGGGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAAAAATCTAAAAACTTCA
Found at i:15654587 original size:35 final size:37
Alignment explanation
Indices: 15654530--15654605 Score: 84
Period size: 35 Copynumber: 2.1 Consensus size: 37
15654520 ATTTTCCAGT
* * *
15654530 TTTTTTATTTTCTTGAAATTTTTCA-TA-TTTTGATA
1 TTTTTAATTTTATTGAAATTTTTCAGTATTTTTAATA
** *
15654565 TTTTTAATTTTATTGATTTTTTTTAGTATTTTTAATA
1 TTTTTAATTTTATTGAAATTTTTCAGTATTTTTAATA
15654602 TTTT
1 TTTT
15654606 AATATTTGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
35 20 0.61
36 2 0.06
37 11 0.33
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (37 bp):
TTTTTAATTTTATTGAAATTTTTCAGTATTTTTAATA
Found at i:15654727 original size:11 final size:10
Alignment explanation
Indices: 15654710--15654779 Score: 61
Period size: 10 Copynumber: 6.5 Consensus size: 10
15654700 TTTTAGATAA
15654710 TTTTTTAAAT
1 TTTTTTAAAT
15654720 TTTATTT-AAT
1 TTT-TTTAAAT
15654730 TTTTTTAAAAGT
1 TTTTTT-AAA-T
*
15654742 TTTTTGAAAATT
1 TTTTT-TAAA-T
*
15654754 CTTTTTTAAAA
1 -TTTTTTAAAT
15654765 TTTTTTAAAT
1 TTTTTTAAAT
15654775 TTTTT
1 TTTTT
15654780 GGGTTTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
9 3 0.06
10 23 0.47
11 5 0.10
12 13 0.27
13 5 0.10
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:15654758 original size:14 final size:12
Alignment explanation
Indices: 15654710--15654770 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
15654700 TTTTAGATAA
15654710 TTTTTT-AAATT
1 TTTTTTAAAATT
*
15654721 TTATTT--AA-T
1 TTTTTTAAAATT
*
15654730 TTTTTTAAAAGT
1 TTTTTTAAAATT
*
15654742 TTTTTGAAAATT
1 TTTTTTAAAATT
15654754 CTTTTTTAAAATT
1 -TTTTTTAAAATT
15654767 TTTT
1 TTTT
15654771 AAATTTTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 7 0.17
12 15 0.37
13 11 0.27
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (12 bp):
TTTTTTAAAATT
Found at i:15654770 original size:10 final size:10
Alignment explanation
Indices: 15654708--15654779 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 10
15654698 ATTTTTAGAT
15654708 AATTTTTT-A
1 AATTTTTTAA
*
15654717 AATTTTATTTA
1 AATTTT-TTAA
*
15654728 ATTTTTTTAA
1 AATTTTTTAA
15654738 AAGTTTTTTGAA
1 AA-TTTTTT-AA
15654750 AATTCTTTTTTAA
1 AA---TTTTTTAA
15654763 AATTTTTT-A
1 AATTTTTTAA
15654772 AATTTTTT
1 AATTTTTT
15654780 GGGTTTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
9 15 0.28
10 12 0.23
11 12 0.23
12 4 0.08
13 4 0.08
14 6 0.11
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:15654792 original size:24 final size:24
Alignment explanation
Indices: 15654765--15654813 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
15654755 TTTTTTAAAA
* *
15654765 TTTTT-TAAATTTTTTGGGTTTTT
1 TTTTTATAAATTTTTTGAGCTTTT
15654788 TTTTTATAAATTTTTTGAGCTTTT
1 TTTTTATAAATTTTTTGAGCTTTT
15654812 TT
1 TT
15654814 AACTTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.16, C:0.02, G:0.10, T:0.71
Consensus pattern (24 bp):
TTTTTATAAATTTTTTGAGCTTTT
Found at i:15657053 original size:2 final size:2
Alignment explanation
Indices: 15657031--15657095 Score: 58
Period size: 2 Copynumber: 32.5 Consensus size: 2
15657021 TCATTACATA
* * * * * *
15657031 AT AT CT AT AT AT GT AT GT AT AT AT AT AT AT AC AC AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
15657073 AT GT AT GT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
15657096 CACACACTCA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (2 bp):
AT
Done.