Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 36 of 97
Found at i:14985279 original size:24 final size:24
Alignment explanation
Indices: 14985245--14985305 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
14985235 AGTAATTATA
* * **
14985245 ATTGGCGTGTCATGACATGGTAGG
1 ATTGGCTTGTCACGACACAGTAGG
* *
14985269 GTTGGCTTGTCACGACACAGTATG
1 ATTGGCTTGTCACGACACAGTAGG
14985293 ATTGGCTTGTCAC
1 ATTGGCTTGTCAC
14985306 AACATGGCTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (24 bp):
ATTGGCTTGTCACGACACAGTAGG
Found at i:14986398 original size:31 final size:31
Alignment explanation
Indices: 14986334--14986437 Score: 156
Period size: 31 Copynumber: 3.4 Consensus size: 31
14986324 GTGTTAGCAC
* *
14986334 GTAACAACATTTTACTT-GTATGCTTAACAT
1 GTAACAACATTTTACTTGGTATGCATAACGT
14986364 GTAACAACATTTTACTTGGTATGCATAACGT
1 GTAACAACATTTTACTTGGTATGCATAACGT
* * *
14986395 GTAACAACATTTGAGTTGGTATGCATAGCGT
1 GTAACAACATTTTACTTGGTATGCATAACGT
14986426 GTAACAACATTT
1 GTAACAACATTT
14986438 ATTTCTTTCT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 17 0.25
31 51 0.75
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (31 bp):
GTAACAACATTTTACTTGGTATGCATAACGT
Found at i:14988265 original size:156 final size:150
Alignment explanation
Indices: 14987899--14988265 Score: 398
Period size: 151 Copynumber: 2.4 Consensus size: 150
14987889 GACGATTTTT
* * **
14987899 ATGGATTATGTTCAACAATTTCATATGTGATTATCGAATAACATAGTAATTTCTATTATTGTAGT
1 ATGGTTTATGTTCAACAATTCCATATGTGATTATCGAATAACATAGTAATTTCTATTATTACAGT
* * * * * * *
14987964 TGATAGATGTGACGATAGCTCCTCAACCACTGACAGGTCTTACTTAAACACACAATGCTAATGAG
66 TGACAGATGTGACGATAACTCCTCAACCACTGACAAGACCTACTCAAACACACAATACTAATGAG
14988029 CCATTGGTAAAGACGGTTCTA
131 CCATTGGTAAAGAC-GTTCTA
* * * * *
14988050 ACT-ATTTGTGTTCAACAATTCCATATATGATTATCGAATAACACAGTAATTTCTGTTATTACAG
1 A-TGGTTTATGTTCAACAATTCCATATGTGATTATCGAATAACATAGTAATTTCTATTATTACAG
* * * ** *
14988114 TTGACCGATGTGACGATAACTTCTCAACCACTGACAAGACCTACTCAGATGCACAGTACTAATGA
65 TTGACAGATGTGACGATAACTCCTCAACCACTGACAAGACCTACTCAAACACACAATACTAATGA
14988179 GCTACCATTAAGGATATTAA-A-GTTCTA
130 G---CCATT--GG-TA--AAGACGTTCTA
* * *
14988206 ATGGTTTATGTTCAACAATTCCATATGTAATTATCGAATAACATAATAATATCTATTATT
1 ATGGTTTATGTTCAACAATTCCATATGTGATTATCGAATAACATAGTAATTTCTATTATT
14988266 GTAGTTAATC
Statistics
Matches: 176, Mismatches: 30, Indels: 15
0.80 0.14 0.07
Matches are distributed among these distances:
151 106 0.60
152 1 0.01
154 5 0.03
155 1 0.01
156 58 0.33
157 2 0.01
158 1 0.01
159 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (150 bp):
ATGGTTTATGTTCAACAATTCCATATGTGATTATCGAATAACATAGTAATTTCTATTATTACAGT
TGACAGATGTGACGATAACTCCTCAACCACTGACAAGACCTACTCAAACACACAATACTAATGAG
CCATTGGTAAAGACGTTCTA
Found at i:14990440 original size:76 final size:76
Alignment explanation
Indices: 14990371--14990551 Score: 272
Period size: 76 Copynumber: 2.4 Consensus size: 76
14990361 CTCAATGTGC
* * **
14990371 CACCACAAGATGTCAACAACATTTAACAATTGGAGCGTGGCGTGTCACCCCATAATACTAAAATG
1 CACCACAAGATGTCAACAACATCTAACAATTGGAGCATGGCGTGTCACCCCATAATACTAAAACA
14990436 ACTCAGCGTGT
66 ACTCAGCGTGT
* * * * * *
14990447 CATCACAAGATGTCAACGATATCTAACAATTGTAGCATGGCGTGTCACCCTATAATACTACAACA
1 CACCACAAGATGTCAACAACATCTAACAATTGGAGCATGGCGTGTCACCCCATAATACTAAAACA
14990512 ACTCAGCGTGT
66 ACTCAGCGTGT
14990523 CACCACAAGATGTCAACAACATCTAACAA
1 CACCACAAGATGTCAACAACATCTAACAA
14990552 GTGTGGCGTG
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
76 92 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (76 bp):
CACCACAAGATGTCAACAACATCTAACAATTGGAGCATGGCGTGTCACCCCATAATACTAAAACA
ACTCAGCGTGT
Found at i:14990603 original size:70 final size:74
Alignment explanation
Indices: 14990371--14990626 Score: 263
Period size: 76 Copynumber: 3.5 Consensus size: 74
14990361 CTCAATGTGC
* * * * * * * **
14990371 CACCACAAGATGTCAACAACATTTAACAATTGGAGCGTGGCGTGTCACCCCATAATACTAAAATG
1 CACCACAAGATGTCAACGACATCTAACAA-TGTAG-ATGGCGTGTCACCCTAAAATACTACAACA
14990436 ACTCAGCGTGT
64 ACTCAGCGTGT
* * *
14990447 CATCACAAGATGTCAACGATATCTAACAATTGTAGCATGGCGTGTCACCCTATAATACTACAACA
1 CACCACAAGATGTCAACGACATCTAACAA-TGTAG-ATGGCGTGTCACCCTAAAATACTACAACA
14990512 ACTCAGCGTGT
64 ACTCAGCGTGT
* * * *
14990523 CACCACAAGATGTCAACAACATCTAACAA-GT-G-TGGCGTGTCA-CCTAAAATACTGCAGCGAC
1 CACCACAAGATGTCAACGACATCTAACAATGTAGATGGCGTGTCACCCTAAAATACTACAACAAC
*
14990584 AT-GGCGTGT
66 -TCAGCGTGT
*
14990593 CACCACAAGATGTAAACGACATCTAACAAT-TAGA
1 CACCACAAGATGTCAACGACATCTAACAATGTAGA
14990627 GCGTGTAACA
Statistics
Matches: 156, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
70 49 0.31
71 12 0.08
73 1 0.01
74 2 0.01
76 92 0.59
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (74 bp):
CACCACAAGATGTCAACGACATCTAACAATGTAGATGGCGTGTCACCCTAAAATACTACAACAAC
TCAGCGTGT
Found at i:14994656 original size:43 final size:43
Alignment explanation
Indices: 14994608--14994714 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
14994598 CCAGTTCATG
** * *
14994608 CGCACTCCCTACTCGCACATGGCTGGGTCATCATCGGGTTATG
1 CGCACTCCCTACTCGCACATAACTGGGTCATCATCGGCTTATA
* *
14994651 TGCACTCCCTACTCGCACATAACTGGGTCATCCTCGGCTTATA
1 CGCACTCCCTACTCGCACATAACTGGGTCATCATCGGCTTATA
14994694 CGCACTCCCTACTCGCACATA
1 CGCACTCCCTACTCGCACATA
14994715 GCCAAGTTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (43 bp):
CGCACTCCCTACTCGCACATAACTGGGTCATCATCGGCTTATA
Found at i:14996718 original size:54 final size:54
Alignment explanation
Indices: 14996618--14996721 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
14996608 CAGCACGATA
* *
14996618 ACGATAGTGCTCAACAGAGAGTTGACAGAGCTAATACAGTTCAGAGAGTTGATG
1 ACGATAGTGCTCAACAGAAAGTTGACAGAGCTAATACAATTCAGAGAGTTGATG
*
14996672 ACGATGGTGCTCAAC-GAAAAGTTGACAGAGCTAATACAAATT-AGAGAGTT
1 ACGATAGTGCTCAACAG-AAAGTTGACAGAGCTAATAC-AATTCAGAGAGTT
14996722 AAGAGAGTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
53 1 0.02
54 41 0.91
55 3 0.07
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (54 bp):
ACGATAGTGCTCAACAGAAAGTTGACAGAGCTAATACAATTCAGAGAGTTGATG
Found at i:15006027 original size:22 final size:22
Alignment explanation
Indices: 15005974--15006021 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
15005964 ATAGAAATGA
*
15005974 AATAGAGTAGTTATTCTGTGAG
1 AATAGAATAGTTATTCTGTGAG
* *
15005996 AATAGAATAGTTATTTTGTGTG
1 AATAGAATAGTTATTCTGTGAG
15006018 AATA
1 AATA
15006022 TGATAGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (22 bp):
AATAGAATAGTTATTCTGTGAG
Found at i:15007086 original size:3 final size:3
Alignment explanation
Indices: 15007067--15007125 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
15007057 AAAAGAATTG
* *
15007067 AAT ACT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15007115 AAT AAT AAT AA
1 AAT AAT AAT AA
15007126 ACGTTTGAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15010594 original size:12 final size:12
Alignment explanation
Indices: 15010579--15010606 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15010569 AGATTATTTA
15010579 TCTCTCTTTCTC
1 TCTCTCTTTCTC
15010591 TCTCTCTTTCTC
1 TCTCTCTTTCTC
15010603 TCTC
1 TCTC
15010607 AGATCNAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (12 bp):
TCTCTCTTTCTC
Found at i:15010630 original size:2 final size:2
Alignment explanation
Indices: 15010623--15010659 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
15010613 AATTGCTTTC
*
15010623 AT AT AT AT TT AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15010660 CAGATTTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:15010886 original size:26 final size:26
Alignment explanation
Indices: 15010856--15010909 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
15010846 ATCCCCATAG
15010856 AAACCTTGTCCAGAATCTATACAAGA
1 AAACCTTGTCCAGAATCTATACAAGA
15010882 AAACCTTGTCCAGAATCTATACAAGA
1 AAACCTTGTCCAGAATCTATACAAGA
15010908 AA
1 AA
15010910 CTATGTCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (26 bp):
AAACCTTGTCCAGAATCTATACAAGA
Found at i:15015521 original size:19 final size:19
Alignment explanation
Indices: 15015497--15015533 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15015487 CTTCTAAACT
15015497 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
15015516 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
15015534 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:15019061 original size:26 final size:26
Alignment explanation
Indices: 15019025--15019079 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
15019015 AATTAAAATC
* *
15019025 AATAATTATAAAAACAATTATAACAA
1 AATAATAATAAAAACAAATATAACAA
* * *
15019051 AATAATAATAACATCAAATATAATAA
1 AATAATAATAAAAACAAATATAACAA
15019077 AAT
1 AAT
15019080 TTAGAGAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.27
Consensus pattern (26 bp):
AATAATAATAAAAACAAATATAACAA
Found at i:15019932 original size:129 final size:127
Alignment explanation
Indices: 15019640--15020163 Score: 568
Period size: 129 Copynumber: 4.1 Consensus size: 127
15019630 GCATGGTTTA
* * * ** *
15019640 AACATGGCATGTAACTTGATCTTTATC-TTGTCTTTCATTAGGACATAAACTCTTGGAGTTAAAA
1 AACATGGCGTGTAACTTGATCTCTATCTTTGTATTTCATTAGGACATAAACTCTTAAAGTTAAAC
* * * ** * *
15019704 ACCTTAAACATGGCATGCAATAACCATTTTCTTTCAACATAACGTGTAACAACTTTTTTTCTC
66 ACCTTAAACATGACATGTAATAA-CATTTTTTTTCAACATGGCATGTAACAACTTTTTTTTTC
* ** * * * *
15019767 AATATACCGTGTAACTTGGTCTCTATCTTTGCATTTCACTAGGACATAAACTGTTAAAGTTAAAC
1 AACATGGCGTGTAACTTGATCTCTATCTTTGTATTTCATTAGGACATAAACTCTTAAAGTTAAAC
* *
15019832 ACCTTAAACATGGCATGTAATAAACCATTTTTTTTCAACATGGCATGTAACAACTTTTTTTTTT
66 ACCTTAAACATGACATGTAAT-AA-CATTTTTTTTCAACATGGCATGTAACAACTTTTTTTTTC
* * * * * *
15019896 GACATGGCGTGTATCTTGATCTCTATCTTTGTATTTCATTAGAACATAAACTCTTGAGGTTAAAT
1 AACATGGCGTGTAACTTGATCTCTATCTTTGTATTTCATTAGGACATAAACTCTTAAAGTTAAAC
* * *
15019961 ACCTTAAACATGACATTTAATAACATTTTTTTTCAATATGGCATGTAATAA-TTTTTTTTTC
66 ACCTTAAACATGACATGTAATAACATTTTTTTTCAACATGGCATGTAACAACTTTTTTTTTC
** * * * * * * *
15020022 AACATGATGTTTAACTAGGTCTCTATCTTTGTATTTCGTTAAGACAAAAACTCTTAGAGTTAAAC
1 AACATGGCGTGTAACTTGATCTCTATCTTTGTATTTCATTAGGACATAAACTCTTAAAGTTAAAC
* * * * * *
15020087 ACCTTAAATATGACGTGTAACAACATTTTTTTTTCAACATGGCGTGTAACAAC-ATTTTTTTG
66 ACCTTAAACATGACATGTAATAACA-TTTTTTTTCAACATGGCATGTAACAACTTTTTTTTTC
*
15020149 AACATGACGTGTAAC
1 AACATGGCGTGTAAC
15020164 AATATTATTT
Statistics
Matches: 329, Mismatches: 64, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
126 80 0.24
127 90 0.27
128 52 0.16
129 107 0.33
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (127 bp):
AACATGGCGTGTAACTTGATCTCTATCTTTGTATTTCATTAGGACATAAACTCTTAAAGTTAAAC
ACCTTAAACATGACATGTAATAACATTTTTTTTCAACATGGCATGTAACAACTTTTTTTTTC
Found at i:15020142 original size:29 final size:29
Alignment explanation
Indices: 15020090--15020192 Score: 129
Period size: 29 Copynumber: 3.6 Consensus size: 29
15020080 GTTAAACACC
*
15020090 TTAAATATGACGTGTAACAACATTTTTTT
1 TTAAACATGACGTGTAACAACATTTTTTT
* *
15020119 TTCAACATGGCGTGTAACAACA--TTTTT
1 TTAAACATGACGTGTAACAACATTTTTTT
* * *
15020146 TTGAACATGACGTGTAACAATATTATTTT
1 TTAAACATGACGTGTAACAACATTTTTTT
*
15020175 TTAAACATGATGTGTAAC
1 TTAAACATGACGTGTAAC
15020193 TGTTGGTTCC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
27 24 0.38
29 39 0.62
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (29 bp):
TTAAACATGACGTGTAACAACATTTTTTT
Found at i:15030454 original size:29 final size:29
Alignment explanation
Indices: 15030407--15030469 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
15030397 AAACACTTTA
* * *
15030407 AACATGGCGTTTAATAACTTTTTTTTTTC
1 AACATGGCATATAACAACTTTTTTTTTTC
15030436 AACATGGCATATAACAACTTTTTTTTTTC
1 AACATGGCATATAACAACTTTTTTTTTTC
15030465 AACAT
1 AACAT
15030470 CATGTGTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (29 bp):
AACATGGCATATAACAACTTTTTTTTTTC
Found at i:15030584 original size:28 final size:28
Alignment explanation
Indices: 15030540--15030623 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 28
15030530 ACCTTTAAAT
*
15030540 TGGCGTGTAACAACATTTTTTTTCAACA
1 TGGCGTGTAACAACATTTTTTTTAAACA
* * *
15030568 TGGCGTGTAATATCA--TTTTTTGAACA
1 TGGCGTGTAACAACATTTTTTTTAAACA
*
15030594 TGGCATGTAACAACATTATTTTTTAAACA
1 TGGCGTGTAACAACATT-TTTTTTAAACA
15030623 T
1 T
15030624 ATGATGTGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 22 0.48
28 13 0.28
29 11 0.24
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (28 bp):
TGGCGTGTAACAACATTTTTTTTAAACA
Found at i:15030744 original size:156 final size:154
Alignment explanation
Indices: 15030426--15030714 Score: 366
Period size: 156 Copynumber: 1.9 Consensus size: 154
15030416 TTTAATAACT
* * *
15030426 TTTTTTTTTCAACATGGCATATAACAACTTTTTTTTTTCAACATCATGTGTAACTTGGACTCCAC
1 TTTTTTTTTCAACATGGCATATAACAACATTATTTTTTAAACATCATGTGTAACTTGGACTCCAC
* * * *
15030491 CTTTGTATTTTACTAAGATATAAACTCTTGGAGTTAAACACCTTTAAATTGGCGTGTAACAACAT
66 CTTTGTATTTCACTAAGACATAAACTCTTGGAATTAAACACCTTTAAAATGGCGTGTAACAACAT
* *
15030556 TTTTTTTCAACATGGCGTGTAATA
131 TTTTTTTCAACATAGCGTGTAATC
** * * * * *
15030580 TCATTTTTTGAACATGGCATGTAACAACATTATTTTTTAAACATATGATGTGTAACTTGGTCTCT
1 TTTTTTTTTCAACATGGCATATAACAACATTATTTTTTAAAC--ATCATGTGTAACTTGGACTCC
* * *
15030645 ATCTTTGTATTTCACTAGGACATAAACTCTT-GAATTGAACACC-TTAAACATGGCGTGTAACAA
64 ACCTTTGTATTTCACTAAGACATAAACTCTTGGAATTAAACACCTTTAAA-ATGGCGTGTAACAA
15030708 CATTTTT
128 CATTTTT
15030715 CTAAGTTTTC
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
154 40 0.35
155 30 0.26
156 45 0.39
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (154 bp):
TTTTTTTTTCAACATGGCATATAACAACATTATTTTTTAAACATCATGTGTAACTTGGACTCCAC
CTTTGTATTTCACTAAGACATAAACTCTTGGAATTAAACACCTTTAAAATGGCGTGTAACAACAT
TTTTTTTCAACATAGCGTGTAATC
Found at i:15033636 original size:51 final size:52
Alignment explanation
Indices: 15033575--15033704 Score: 183
Period size: 52 Copynumber: 2.5 Consensus size: 52
15033565 CAAAAGTCCA
* *
15033575 CATCTAAGGCTTTACAACTTTAAAAATGATTTG-AAAAGATAAACAAATCCT
1 CATCTGAGGCTTTACAACTTTAAAAATGACTTGAAAAAGATAAACAAATCCT
*
15033626 CAT-TCGAGGCTTTACAACTTTAAAAATGACTTGAAAAAGATAAACAACTCCT
1 CATCT-GAGGCTTTACAACTTTAAAAATGACTTGAAAAAGATAAACAAATCCT
* * *
15033678 CATCTGATGCTTTAAAATTTTAAAAAT
1 CATCTGAGGCTTTACAACTTTAAAAAT
15033705 AAATTACAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
50 1 0.01
51 29 0.41
52 39 0.56
53 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (52 bp):
CATCTGAGGCTTTACAACTTTAAAAATGACTTGAAAAAGATAAACAAATCCT
Found at i:15039953 original size:16 final size:15
Alignment explanation
Indices: 15039932--15039966 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
15039922 TTAAAATAAT
*
15039932 TTTAATATATATATA
1 TTTAATATAAATATA
15039947 CTTTAATATAAATATA
1 -TTTAATATAAATATA
15039963 TTTA
1 TTTA
15039967 CTTTCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTAATATAAATATA
Found at i:15040007 original size:15 final size:15
Alignment explanation
Indices: 15039982--15040034 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
15039972 TATTTTGGGT
15039982 TAACATTATAAAATTA
1 TAAC-TTATAAAATTA
15039998 TAACTTATAAAATTA
1 TAACTTATAAAATTA
*
15040013 TTAA-TTATAATATATA
1 -TAACTTATAAAAT-TA
15040029 TAACTT
1 TAACTT
15040035 TGTTTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 22 0.67
16 11 0.33
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
TAACTTATAAAATTA
Found at i:15043142 original size:21 final size:21
Alignment explanation
Indices: 15043116--15043175 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
15043106 TTAGGCATTG
*
15043116 CGTGACTGACTTTGGATATTA
1 CGTGACTGAATTTGGATATTA
**
15043137 CGTGACTGAATTTGGGCATTA
1 CGTGACTGAATTTGGATATTA
* * *
15043158 AGTGACTGATTTTTGATA
1 CGTGACTGAATTTGGATA
15043176 GAGCATTGCA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (21 bp):
CGTGACTGAATTTGGATATTA
Found at i:15043229 original size:26 final size:26
Alignment explanation
Indices: 15043178--15043304 Score: 110
Period size: 26 Copynumber: 5.2 Consensus size: 26
15043168 TTTTGATAGA
*
15043178 GCATTGCATGACTAG---TTAAT-AG
1 GCATTGCGTGACTAGTTTTTAATAAG
15043200 GCATTGCGTGACTAGTTTTTAATAAG
1 GCATTGCGTGACTAGTTTTTAATAAG
* ** *
15043226 GCATTGTGTGACTA--ACTT--T-GG
1 GCATTGCGTGACTAGTTTTTAATAAG
* *
15043247 GCATTGCATGACTAGTTTTTGATAAG
1 GCATTGCGTGACTAGTTTTTAATAAG
* *
15043273 GCATTGCGTGACTAGTTTCTGATAAG
1 GCATTGCGTGACTAGTTTTTAATAAG
15043299 GCATTG
1 GCATTG
15043305 AATGATTAGT
Statistics
Matches: 84, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
21 13 0.15
22 15 0.18
23 2 0.02
24 2 0.02
25 6 0.07
26 46 0.55
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (26 bp):
GCATTGCGTGACTAGTTTTTAATAAG
Found at i:15043403 original size:22 final size:21
Alignment explanation
Indices: 15043378--15043446 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
15043368 TAAAAATCAA
*
15043378 TCACGCAATGTATAAAAACTAG
1 TCACGTAATG-ATAAAAACTAG
* * *
15043400 TCACGTAATGCCT-AAAACCAA
1 TCACGTAATG-ATAAAAACTAG
15043421 TCACGTAATGACTAAAAACTAG
1 TCACGTAATGA-TAAAAACTAG
15043443 TCAC
1 TCAC
15043447 ACGGTGATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 17 0.46
22 20 0.54
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.22
Consensus pattern (21 bp):
TCACGTAATGATAAAAACTAG
Found at i:15045363 original size:46 final size:42
Alignment explanation
Indices: 15045259--15045343 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
15045249 TCGAATACAC
* ** *
15045259 AATAGAAACAAAATGTATATGTAGAAGTAATAAATATATAAA
1 AATAGAAATAAAATACATATGTAGAAGTAATAAATAAATAAA
* *
15045301 AATAGAAATAAAATACATATGTATAAGTAATACATAAATAAA
1 AATAGAAATAAAATACATATGTAGAAGTAATAAATAAATAAA
15045343 A
1 A
15045344 TTAATATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (42 bp):
AATAGAAATAAAATACATATGTAGAAGTAATAAATAAATAAA
Found at i:15049465 original size:38 final size:38
Alignment explanation
Indices: 15049423--15049495 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
15049413 GTCGCATAAA
15049423 TGCAAGCAGGTGGTGGAGCAAATATAAGTTGGTTTATT
1 TGCAAGCAGGTGGTGGAGCAAATATAAGTTGGTTTATT
*
15049461 TGCAAGCAGGTGGTGGAGCAAATTTAAGTTGGTTT
1 TGCAAGCAGGTGGTGGAGCAAATATAAGTTGGTTT
15049496 GTTCATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.32
Consensus pattern (38 bp):
TGCAAGCAGGTGGTGGAGCAAATATAAGTTGGTTTATT
Found at i:15052935 original size:20 final size:20
Alignment explanation
Indices: 15052906--15052960 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
15052896 TTTTGTCAGT
* *
15052906 AATTAGGTTGGTAATTGATG
1 AATTATGTTGGTAATGGATG
*
15052926 AATT-TCGTTGATAATGGATG
1 AATTAT-GTTGGTAATGGATG
*
15052946 GATTATGTTGGTAAT
1 AATTATGTTGGTAAT
15052961 ACCTACAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (20 bp):
AATTATGTTGGTAATGGATG
Found at i:15059643 original size:24 final size:24
Alignment explanation
Indices: 15059587--15059643 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
15059577 GGATCGCTAA
15059587 GTTGCTAGTGAGGAGCCACCAGTT
1 GTTGCTAGTGAGGAGCCACCAGTT
* * **
15059611 GCTGTTAGTG-GTGAGCCATTAGTT
1 GTTGCTAGTGAG-GAGCCACCAGTT
15059635 GTTGCTAGT
1 GTTGCTAGT
15059644 ATTAAGACAC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.33
Consensus pattern (24 bp):
GTTGCTAGTGAGGAGCCACCAGTT
Found at i:15064020 original size:40 final size:39
Alignment explanation
Indices: 15063965--15064067 Score: 163
Period size: 38 Copynumber: 2.6 Consensus size: 39
15063955 ACCCAGCTCA
*
15063965 TGTGCATCCCCCCACATCGTGCACATAGTCAGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACA-AGTCAGAGCCATCG
*
15064005 TGTGCATCCCCCCACATCGTGCAC-AGTCAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACAAGTCAGAGCCATCG
*
15064043 TGTACATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
15064068 CGGGCACGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
38 35 0.59
40 24 0.41
ACGTcount: A:0.21, C:0.39, G:0.18, T:0.21
Consensus pattern (39 bp):
TGTGCATCCCCCCACATCGTGCACAAGTCAGAGCCATCG
Found at i:15064060 original size:19 final size:19
Alignment explanation
Indices: 15064000--15064063 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
15063990 TAGTCAGAGT
*
15064000 CATCGTGTGCATCCCCCCA
1 CATCGTGTACATCCCCCCA
* ****
15064019 CATCGTGCACAGTCAGTGC-
1 CATCGTGTACA-TCCCCCCA
15064038 CATCGTGTACATCCCCCCA
1 CATCGTGTACATCCCCCCA
15064057 CATCGTG
1 CATCGTG
15064064 CACACGGGCA
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
18 3 0.09
19 26 0.81
20 3 0.09
ACGTcount: A:0.19, C:0.41, G:0.19, T:0.22
Consensus pattern (19 bp):
CATCGTGTACATCCCCCCA
Found at i:15064975 original size:19 final size:19
Alignment explanation
Indices: 15064927--15064976 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
15064917 GATGGAAGGA
15064927 GGAAGAAGAAGAAGCTACT
1 GGAAGAAGAAGAAGCTACT
* *
15064946 GGAA-ATTGAAGAAGCTGCT
1 GGAAGA-AGAAGAAGCTACT
*
15064965 GGAAGGAGAAGA
1 GGAAGAAGAAGA
15064977 TATTTATAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.44, C:0.08, G:0.36, T:0.12
Consensus pattern (19 bp):
GGAAGAAGAAGAAGCTACT
Found at i:15071974 original size:25 final size:24
Alignment explanation
Indices: 15071937--15071983 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
15071927 TATTATTTGA
15071937 TTCAAGTTAAATTGTGACTTTTTCT
1 TTCAAGTTAAATTGTGA-TTTTTCT
* * *
15071962 TTCAATTTTAATTTTGATTTTT
1 TTCAAGTTAAATTGTGATTTTT
15071984 GTTTATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (24 bp):
TTCAAGTTAAATTGTGATTTTTCT
Found at i:15073260 original size:29 final size:29
Alignment explanation
Indices: 15073218--15073289 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
15073208 CATGTTCATC
15073218 ATGTATTGATACATGAAACCTAGGGCAAA
1 ATGTATTGATACATGAAACCTAGGGCAAA
15073247 ATGTATTGATACATGAAACCTAGGGCAAA
1 ATGTATTGATACATGAAACCTAGGGCAAA
15073276 ATGTATTGATACAT
1 ATGTATTGATACAT
15073290 TACCCTTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (29 bp):
ATGTATTGATACATGAAACCTAGGGCAAA
Found at i:15085553 original size:34 final size:34
Alignment explanation
Indices: 15085512--15085580 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
15085502 TCACTTAATG
*
15085512 TGTGTGACCCATTAGGCTTTTAACATGTTGGCAA
1 TGTGTGACCCATTAGGCTTCTAACATGTTGGCAA
15085546 TGTGTGACCCATTAGGCTTCTAACATGTTGGCAA
1 TGTGTGACCCATTAGGCTTCTAACATGTTGGCAA
15085580 T
1 T
15085581 AAATATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (34 bp):
TGTGTGACCCATTAGGCTTCTAACATGTTGGCAA
Found at i:15094690 original size:30 final size:32
Alignment explanation
Indices: 15094648--15094709 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
15094638 AAATTGATAC
* *
15094648 AAATATGTTTTCTTATC-TAGATTAAGACAAA
1 AAATATGTTTTCTTACCTTAAATTAAGACAAA
*
15094679 AAATAT-TTTTCTTGCCTTAAATTAAGACAAA
1 AAATATGTTTTCTTACCTTAAATTAAGACAAA
15094710 CATTTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (32 bp):
AAATATGTTTTCTTACCTTAAATTAAGACAAA
Found at i:15094703 original size:31 final size:30
Alignment explanation
Indices: 15094668--15094764 Score: 91
Period size: 29 Copynumber: 3.4 Consensus size: 30
15094658 TCTTATCTAG
15094668 ATTAAGACAAAAAATATTTTTCTTGCCTTAA
1 ATTAAGACAAAAAATATTTTTCTTG-CTTAA
* *
15094699 ATTAAGAC---AAACATTTTT-TTGTTTAA
1 ATTAAGACAAAAAATATTTTTCTTGCTTAA
*
15094725 ATTAAGACAAAACATGA--TTTCTTG-TCTAA
1 ATTAAGACAAAAAAT-ATTTTTCTTGCT-TAA
15094754 ATTAAGACAAA
1 ATTAAGACAAA
15094765 CATGCTTTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
26 12 0.21
27 3 0.05
28 13 0.23
29 19 0.34
30 1 0.02
31 8 0.14
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.37
Consensus pattern (30 bp):
ATTAAGACAAAAAATATTTTTCTTGCTTAA
Found at i:15094783 original size:57 final size:55
Alignment explanation
Indices: 15094600--15094827 Score: 210
Period size: 57 Copynumber: 4.0 Consensus size: 55
15094590 TTTAAAACAA
* * * * * * *
15094600 TTCTTGTCTTTAATTAAGAC-AAATATTTTATCTTGTATAAATTGATACAAATATGTT
1 TTCTTGTC-TAAATTAAGACAAAACATATT-TCTTGTCTAAATTAAGACAAACATG-T
* * * *
15094657 TTCTTATCTAGATTAAGACAAAAAATATTTTTCTTGCCTTAAATTAAGACAAACAT-T
1 TTCTTGTCTAAATTAAGACAAAACATA--TTTCTTGTC-TAAATTAAGACAAACATGT
* *
15094714 TTTTTGTTTAAATTAAGACAAAACATGATTTCTTGTCTAAATTAAGACAAACATGCT
1 TTCTTGTCTAAATTAAGACAAAACAT-ATTTCTTGTCTAAATTAAGACAAACATG-T
* *
15094771 TTCTTGTCTAAATTAAGACATAACACGT-TTTATTGTCTAAATTAAGACAAACATGT
1 TTCTTGTCTAAATTAAGACA-AA-ACATATTTCTTGTCTAAATTAAGACAAACATGT
15094827 T
1 T
15094828 AAAGTTGTGA
Statistics
Matches: 142, Mismatches: 20, Indels: 19
0.78 0.11 0.10
Matches are distributed among these distances:
55 17 0.12
56 19 0.13
57 79 0.56
58 8 0.06
59 19 0.13
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (55 bp):
TTCTTGTCTAAATTAAGACAAAACATATTTCTTGTCTAAATTAAGACAAACATGT
Found at i:15094807 original size:29 final size:28
Alignment explanation
Indices: 15094600--15094827 Score: 228
Period size: 28 Copynumber: 8.0 Consensus size: 28
15094590 TTTAAAACAA
* *
15094600 TTCTTGTCTTTAATTAAGACAAATAT-TT
1 TTCTTGTC-TAAATTAAGACAAACATGTT
* * * *
15094628 TATCTTGTATAAATTGATACAAATATGTT
1 T-TCTTGTCTAAATTAAGACAAACATGTT
* * * *
15094657 TTCTTATCTAGATTAAGACAAAAAATATTT
1 TTCTTGTCTAAATTAAGAC-AAACAT-GTT
*
15094687 TTCTTGCCTTAAATTAAGACAAACAT-TT
1 TTCTTGTC-TAAATTAAGACAAACATGTT
* *
15094715 TT-TTGTTTAAATTAAGACAAAACATGAT
1 TTCTTGTCTAAATTAAGAC-AAACATGTT
*
15094743 TTCTTGTCTAAATTAAGACAAACATGCT
1 TTCTTGTCTAAATTAAGACAAACATGTT
*
15094771 TTCTTGTCTAAATTAAGACATAACACGTT
1 TTCTTGTCTAAATTAAGACA-AACATGTT
*
15094800 TTATTGTCTAAATTAAGACAAACATGTT
1 TTCTTGTCTAAATTAAGACAAACATGTT
15094828 AAAGTTGTGA
Statistics
Matches: 167, Mismatches: 24, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
26 11 0.07
27 9 0.05
28 70 0.42
29 54 0.32
30 13 0.08
31 10 0.06
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (28 bp):
TTCTTGTCTAAATTAAGACAAACATGTT
Found at i:15109595 original size:15 final size:15
Alignment explanation
Indices: 15109552--15109598 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
15109542 TTTAAAAATC
*
15109552 AAAGATTTTGATTTT
1 AAAGTTTTTGATTTT
* *
15109567 AAAGCTTTGGATTTT
1 AAAGTTTTTGATTTT
*
15109582 AAAGTTTTTTATTTT
1 AAAGTTTTTGATTTT
15109597 AA
1 AA
15109599 GGTTGTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (15 bp):
AAAGTTTTTGATTTT
Found at i:15122726 original size:331 final size:342
Alignment explanation
Indices: 15121827--15122749 Score: 1404
Period size: 355 Copynumber: 2.7 Consensus size: 342
15121817 TCATAATTAA
* * * *
15121827 TTTTAAAGTTTACTAAATTTACTAATACATTTGGAATAGATTAATTACTAATACATGATTTTTCA
1 TTTTAAATTTTACTAAATTTACTAATACATTTAGAATTGATTAATTACTAATACATGATTCTTCA
*
15121892 TAATTAGGTAAATTATGTAATTAATTCAGT-AACCCCTTAATTAAAAAACCCTAAATAAAATATT
66 TAATTAGGTAAATTATGTAATTAATTCACTAAACCCCTTAATTAAAAAA-CCTAAATAAAATATT
* * *
15121956 ATATAATATTACTAAATTAATTAATTGCTTAAATACTTATAATACATTACATACCTTAATTGACT
130 ATATAATATTACTAATTTAATTAATTGCTTAAATACTTATAACACATTACATACCTTAATTAACT
* * *
15122021 AAATTATTTCATTAACTAATTTAACACCTTCATTTATTCAAATATTTTTAAAATTAAATAATATT
195 AAATTATTTCATTAACTCATTTAACACCTTCATTTATTTATATATTTTTAAAATTAAATAATATT
15122086 ACTAATTTAGTTAATTGCTTAATGATTAAAATTTTTTTCATTTGATTAGTTAAATTATATAATTA
260 AC--------TTAATT-CTTAATGATT-AAA--TTTTTCATTTGATTAGTTAAATTATATAATTA
15122151 TAAACCCTAAACCTTAATTAATTTAAATAC
313 TAAACCCTAAACCTTAATTAATTTAAATAC
* * *
15122181 TTTTAATTTTTATTAAATTAACTAATACATTTAGAATTGATTAATTACTAATACATGATTCTTCA
1 TTTTAAATTTTACTAAATTTACTAATACATTTAGAATTGATTAATTACTAATACATGATTCTTCA
15122246 TAATTAGGTAAATTATGTAATTAATTCACTAAACCCCTTAATTAAAAAACCATAAATAAAATATT
66 TAATTAGGTAAATTATGTAATTAATTCACTAAACCCCTTAATTAAAAAACC-TAAATAAAATATT
*
15122311 ATATAATATTACTAATTTAATTAATTTCTTAAATACTTATAACACATTACATACCTTAATTAACT
130 ATATAATATTACTAATTTAATTAATTGCTTAAATACTTATAACACATTACATACCTTAATTAACT
*
15122376 AAATTATTTAATTAACTCATTTAACACCTTCATTTATTTATATATTTTTAAAATTAAATAATATT
195 AAATTATTTCATTAACTCATTTAACACCTTCATTTATTTATATATTTTTAAAATTAAATAATATT
*
15122441 AC-TAA-T-TT-A-G-TT-AA-TTTTCATTTGATTAGTTAAATTATATAATTATAAACCTTAAAC
260 ACTTAATTCTTAATGATTAAATTTTTCATTTGATTAGTTAAATTATATAATTATAAACCCTAAAC
*
15122498 CTTAA-TAATTTATATAC
325 CTTAATTAATTTAAATAC
* * *
15122515 TTTTAAATTTTACTAAATTTATTAATATATTT-GAATTGATTAATTACTAATACATGA-TCCTCA
1 TTTTAAATTTTACTAAATTTACTAATACATTTAGAATTGATTAATTACTAATACATGATTCTTCA
*
15122578 TAATTAGGTAAATTATGTAATTAATTAACTAAACCCCTTAATTAAAAAACCTAAATAAAATATTA
66 TAATTAGGTAAATTATGTAATTAATTCACTAAACCCCTTAATTAAAAAACCTAAATAAAATATTA
* *
15122643 TATAATATTACTAATTTAAATAATTGCTTAAA-ATCTTATAACACATTACATACCTTAATTAATT
131 TATAATATTACTAATTTAATTAATTGCTTAAATA-CTTATAACACATTACATACCTTAATTAACT
15122707 AAATTATTTCATTAACTCATTTAACACCTTCATTTATTTATAT
195 AAATTATTTCATTAACTCATTTAACACCTTCATTTATTTATAT
15122750 TAGTTAAAGT
Statistics
Matches: 537, Mismatches: 29, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
330 1 0.00
331 115 0.21
332 55 0.10
333 25 0.05
334 38 0.07
335 47 0.09
338 2 0.00
340 2 0.00
341 1 0.00
342 1 0.00
343 2 0.00
345 1 0.00
346 3 0.01
354 89 0.17
355 155 0.29
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.43
Consensus pattern (342 bp):
TTTTAAATTTTACTAAATTTACTAATACATTTAGAATTGATTAATTACTAATACATGATTCTTCA
TAATTAGGTAAATTATGTAATTAATTCACTAAACCCCTTAATTAAAAAACCTAAATAAAATATTA
TATAATATTACTAATTTAATTAATTGCTTAAATACTTATAACACATTACATACCTTAATTAACTA
AATTATTTCATTAACTCATTTAACACCTTCATTTATTTATATATTTTTAAAATTAAATAATATTA
CTTAATTCTTAATGATTAAATTTTTCATTTGATTAGTTAAATTATATAATTATAAACCCTAAACC
TTAATTAATTTAAATAC
Found at i:15122880 original size:17 final size:17
Alignment explanation
Indices: 15122837--15122891 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
15122827 TAATTTATTG
*
15122837 CTTAATTACTT-ATAATA
1 CTTAATTACTTAATTA-A
15122854 CATTACATTACTTAATTAA
1 C-TTA-ATTACTTAATTAA
*
15122873 CTTAATTATTTAATTAA
1 CTTAATTACTTAATTAA
15122890 CT
1 CT
15122892 CATTAACACC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 15 0.45
18 6 0.18
19 9 0.27
20 3 0.09
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (17 bp):
CTTAATTACTTAATTAA
Found at i:15122927 original size:16 final size:16
Alignment explanation
Indices: 15122906--15122956 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
15122896 AACACCTTAA
15122906 TTAATTTAAATATTTT
1 TTAATTTAAATATTTT
*
15122922 TTAATTTAAATAATATTA
1 TTAATTTAAAT-AT-TTT
* *
15122940 CTAATTTAAACATTTT
1 TTAATTTAAATATTTT
15122956 T
1 T
15122957 GCATTTGCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 13 0.46
17 4 0.14
18 11 0.39
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTTAAATATTTT
Found at i:15123687 original size:7 final size:7
Alignment explanation
Indices: 15123675--15123708 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
15123665 AGATAGAGAA
15123675 GAAAAGG
1 GAAAAGG
15123682 GAAAAGG
1 GAAAAGG
15123689 GAAAAGG
1 GAAAAGG
15123696 GAGAAAGG
1 GA-AAAGG
15123704 AGAAA
1 -GAAA
15123709 TTGGGGGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 16 0.64
8 7 0.28
9 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (7 bp):
GAAAAGG
Found at i:15123694 original size:14 final size:16
Alignment explanation
Indices: 15123674--15123708 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
15123664 GAGATAGAGA
15123674 AGAAAAGGGA-AAAGG
1 AGAAAAGGGAGAAAGG
15123689 -GAAAAGGGAGAAAGG
1 AGAAAAGGGAGAAAGG
15123704 AGAAA
1 AGAAA
15123709 TTGGGGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.50
15 5 0.28
16 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (16 bp):
AGAAAAGGGAGAAAGG
Found at i:15123842 original size:28 final size:26
Alignment explanation
Indices: 15123783--15123843 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
15123773 AGTTTATTTG
* *
15123783 ATTTAAAAGTAAAAATATAAAAATTT
1 ATTTAAAAGTAAAAAAATAAAAAATT
* *
15123809 AATTAAATGTAATAACAAATAAAAAATT
1 ATTTAAAAGTAA-AA-AAATAAAAAATT
15123837 ATTTAAA
1 ATTTAAA
15123844 CTTTCTTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 10 0.36
27 2 0.07
28 16 0.57
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (26 bp):
ATTTAAAAGTAAAAAAATAAAAAATT
Found at i:15126084 original size:73 final size:73
Alignment explanation
Indices: 15125997--15126141 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
15125987 AGTAATATAT
15125997 TATATATATACATATATTTAATTTATACATAAGCATTACTATAACTTCTAATAAATTTTATTTAT
1 TATATATATACATATATTTAATTTATACATAAGCATTACTATAACTTCTAATAAATTTTATTTAT
15126062 ATGATTANA
66 ATGATTA-A
15126071 TATA-ATATACATATATTTAATTTATACATAAGCATTACTATAACTTCTAATAAATTTTATTTAT
1 TATATATATACATATATTTAATTTATACATAAGCATTACTATAACTTCTAATAAATTTTATTTAT
15126135 ATGATTA
66 ATGATTA
15126142 GCTTAATAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 67 0.94
74 4 0.06
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (73 bp):
TATATATATACATATATTTAATTTATACATAAGCATTACTATAACTTCTAATAAATTTTATTTAT
ATGATTAA
Found at i:15126127 original size:34 final size:34
Alignment explanation
Indices: 15126016--15126127 Score: 102
Period size: 35 Copynumber: 3.1 Consensus size: 34
15126006 ACATATATTT
15126016 AATTTATACATAAGCATTACTATAACTTCTAATA
1 AATTTATACATAAGCATTACTATAACTTCTAATA
** * * *
15126050 AATTTTATTTATATG-ATTANATATAA-TATACATATATTT
1 AA-TTTATACATAAGCATTA-CTATAACT-T-C-TA-A-TA
15126089 AATTTATACATAAGCATTACTATAACTTCTAATA
1 AATTTATACATAAGCATTACTATAACTTCTAATA
15126123 AATTT
1 AATTT
15126128 TATTTATATG
Statistics
Matches: 59, Mismatches: 10, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
34 13 0.22
35 16 0.27
36 3 0.05
37 3 0.05
38 16 0.27
39 8 0.14
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (34 bp):
AATTTATACATAAGCATTACTATAACTTCTAATA
Found at i:15126133 original size:39 final size:39
Alignment explanation
Indices: 15126012--15126135 Score: 136
Period size: 39 Copynumber: 3.3 Consensus size: 39
15126002 ATATACATAT
15126012 ATTTAATTTATACATAAGCATTACTATAACTTCTAATAA
1 ATTTAATTTATACATAAGCATTACTATAACTTCTAATAA
* * * *
15126051 ATTTTATTTAT--AT--G-ATTANATATAA--TATACATAT
1 ATTTAATTTATACATAAGCATTA-CTATAACTTCTA-ATAA
15126085 ATTTAATTTATACATAAGCATTACTATAACTTCTAATAA
1 ATTTAATTTATACATAAGCATTACTATAACTTCTAATAA
*
15126124 ATTTTATTTATA
1 ATTTAATTTATA
15126136 TGATTAGCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
33 3 0.04
34 17 0.25
35 6 0.09
36 2 0.03
37 2 0.03
38 6 0.09
39 28 0.42
40 3 0.04
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.46
Consensus pattern (39 bp):
ATTTAATTTATACATAAGCATTACTATAACTTCTAATAA
Found at i:15128790 original size:20 final size:20
Alignment explanation
Indices: 15128757--15128795 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15128747 TGTTAGGCAT
*
15128757 TGCGTCACTGGATATTAGGG
1 TGCGTCACTAGATATTAGGG
*
15128777 TGCGTGACTAGATATTAGG
1 TGCGTCACTAGATATTAGG
15128796 AATGGTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.33, T:0.31
Consensus pattern (20 bp):
TGCGTCACTAGATATTAGGG
Found at i:15129388 original size:19 final size:19
Alignment explanation
Indices: 15129364--15129400 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15129354 CCATTTGACT
*
15129364 TATTGGAGTATTATTTGAG
1 TATTGGAGTATGATTTGAG
15129383 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
15129401 AGTTTAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:15130603 original size:17 final size:17
Alignment explanation
Indices: 15130581--15130616 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15130571 AAATATGAAT
15130581 TTATAAAATAAATGGAA
1 TTATAAAATAAATGGAA
*
15130598 TTATAAAATAAATTGAA
1 TTATAAAATAAATGGAA
15130615 TT
1 TT
15130617 TTTTATAAAT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (17 bp):
TTATAAAATAAATGGAA
Found at i:15132569 original size:22 final size:22
Alignment explanation
Indices: 15132544--15132597 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
15132534 GTTTTTAGGC
*
15132544 ATTGCGTGA-TTGATTTTTATAT
1 ATTGCGTGACTTG-TTGTTATAT
*
15132566 ATTGCGTGACTTGTTGTTATGT
1 ATTGCGTGACTTGTTGTTATAT
*
15132588 AATGCGTGAC
1 ATTGCGTGAC
15132598 ATTGGGCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 25 0.89
23 3 0.11
ACGTcount: A:0.20, C:0.09, G:0.24, T:0.46
Consensus pattern (22 bp):
ATTGCGTGACTTGTTGTTATAT
Found at i:15132694 original size:207 final size:207
Alignment explanation
Indices: 15132330--15132839 Score: 671
Period size: 207 Copynumber: 2.5 Consensus size: 207
15132320 ATATCTTCTA
* * * *
15132330 TTTAGACATTGCGTGATTGGTTTGTATGTATATG-GTGACTTGTTGTTATGTATTGCATGACATT
1 TTTAGGCATTGCGTGATTGGTTTTTATATAT-TGCGTGACTTGTTGTTATGTATTGCGTGACATT
* * * *
15132394 GGGCCAGTACGTGAGTAGTTATGTTGGCATAATGTGAGTGGATATTAGGCATCGAGTAACTTATT
65 GGGCCAATACGTGACTGGTTATGTTGGCATAATGTGAGTGGATATAAGGCATCGAGTAACTTATT
** ** * * *
15132459 ATTAGCTATTACGAGACTGGTGGTGCGTGACTAACTTCTGTAATTCACCTGTTATTTTGAGGCTT
130 ATTAGCTATTACGAGACCAGCAGTGCGTGACTAACTTCTGCAATTCACCTCTTATTTTAAGGCTT
*
15132524 TGGTTCACTAGTT
195 TGATTCACTAGTT
* *
15132537 TTTAGGCATTGCGTGATTGATTTTTATATATTGCGTGACTTGTTGTTATGTAATGCGTGACATTG
1 TTTAGGCATTGCGTGATTGGTTTTTATATATTGCGTGACTTGTTGTTATGTATTGCGTGACATTG
* * * * *
15132602 GGCCAATACGTGACTGGTTATGTTGGCATAATGTGAGTGGGTATAAGTCATTGAGTGACTTATTC
66 GGCCAATACGTGACTGGTTATGTTGGCATAATGTGAGTGGATATAAGGCATCGAGTAACTTATTA
* * * * * *
15132667 TTAGGTATTGCGAGACCAGCAGTGCGTGACTTACTTGTGCAATTCATCTCTTGTTTTAAGGCTTT
131 TTAGCTATTACGAGACCAGCAGTGCGTGACTAACTTCTGCAATTCACCTCTTATTTTAAGGCTTT
*
15132732 TATTCACTAGTT
196 GATTCACTAGTT
* * * * * *
15132744 TTTAGGCATTGCGCGACTGGTTTTTATATATTGCTTGACCTATTGTTATGTATTGTGTGACATTG
1 TTTAGGCATTGCGTGATTGGTTTTTATATATTGCGTGACTTGTTGTTATGTATTGCGTGACATTG
*
15132809 GGCCATTACGTGACTGGTTATGTTGGCATAA
66 GGCCAATACGTGACTGGTTATGTTGGCATAA
15132840 GAAGCATAAT
Statistics
Matches: 263, Mismatches: 39, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
206 2 0.01
207 261 0.99
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.40
Consensus pattern (207 bp):
TTTAGGCATTGCGTGATTGGTTTTTATATATTGCGTGACTTGTTGTTATGTATTGCGTGACATTG
GGCCAATACGTGACTGGTTATGTTGGCATAATGTGAGTGGATATAAGGCATCGAGTAACTTATTA
TTAGCTATTACGAGACCAGCAGTGCGTGACTAACTTCTGCAATTCACCTCTTATTTTAAGGCTTT
GATTCACTAGTT
Found at i:15135851 original size:13 final size:13
Alignment explanation
Indices: 15135819--15135851 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15135809 AGGTTAAGCG
*
15135819 GGAAAACCTAGGA
1 GGAAAAGCTAGGA
15135832 GGAAAAGCTAGGA
1 GGAAAAGCTAGGA
15135845 GGAAAAG
1 GGAAAAG
15135852 GAATCCATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.48, C:0.09, G:0.36, T:0.06
Consensus pattern (13 bp):
GGAAAAGCTAGGA
Found at i:15139185 original size:60 final size:60
Alignment explanation
Indices: 15139092--15139494 Score: 481
Period size: 60 Copynumber: 6.7 Consensus size: 60
15139082 AGTCGATGAG
* *
15139092 CGAAATATCTATTGATAGATTTTAAATATATCGATAGATGTCGTTTCATTTTCAAGCATA
1 CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCAAGCATA
* *
15139152 CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAA-CATA
1 CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTT-CAAGCATA
** * * * *
15139212 CGCTTACAACTA-CTGATAGATTTTAAATATATCGATAGATGTTGTTTCATCTTCTAGCATA
1 CG-AAATATCTATC-GATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCAAGCATA
* * * *
15139273 TGAAATATCTATCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCTAGCATATA
1 CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCAAGC--ATA
* * * *
15139335 CCAACA-A-CTACCGATAGATTTTAAATATATCGATAAATGTCGTTTCATCTTCCAGCATA
1 CGAA-ATATCTATCGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCAAGCATA
* *
15139394 CGAAATATCTATTGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATA
1 CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCAAGCATA
** * * * *
15139454 CGCTTACAACTACCGATAGATTTTAAATATATTGATAGATG
1 CG-AAATATCTATCGATAGATTTTAAATATATCGATAGATG
15139495 CTGTTTTATC
Statistics
Matches: 294, Mismatches: 38, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
58 1 0.00
59 7 0.02
60 154 0.52
61 125 0.43
62 6 0.02
63 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (60 bp):
CGAAATATCTATCGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCAAGCATA
Found at i:15139251 original size:61 final size:61
Alignment explanation
Indices: 15139104--15139538 Score: 477
Period size: 61 Copynumber: 7.2 Consensus size: 61
15139094 AAATATCTAT
* * * *
15139104 TGATAGATTTTAAATATATCGATAGATGTCGTTTCATTTTCAAGCATACG-AAATATCTA-
1 TGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCAAACAACTAC
* * * **
15139163 TCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAACATACGCTTACAACTAC
1 T-GATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCAAACAACTAC
* * * * *
15139225 TGATAGATTTTAAATATATCGATAGATGTTGTTTCATCTTCTAGCATATG-AAATATCTA-
1 TGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCAAACAACTAC
* * * ** *
15139284 TCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCTAGCATATACCAACAACTAC
1 T-GATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCAAACAACTAC
* * * * *
15139346 CGATAGATTTTAAATATATCGATAAATGTCGTTTCATCTTCCAGCATACG-AAATATCTAT
1 TGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCAAACAACTAC
**
15139406 TGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCTTACAACTAC
1 TGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCAAACAACTAC
* * * ** * **
15139467 CGATAGATTTTAAATATATTGATAGATG-CTGTTTTATCTTTTAGCATATGCCTACAACTAC
1 TGATAGATTTTAAATATATCGATAGATGTC-GTTTCATCTTCCAGCATACGCAAACAACTAC
*
15139528 CGATAGATTTT
1 TGATAGATTTT
15139539 GTTTCGAATT
Statistics
Matches: 317, Mismatches: 51, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
59 2 0.01
60 149 0.47
61 165 0.52
62 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (61 bp):
TGATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCAAACAACTAC
Found at i:15139318 original size:121 final size:121
Alignment explanation
Indices: 15139105--15139514 Score: 633
Period size: 121 Copynumber: 3.4 Consensus size: 121
15139095 AATATCTATT
* *
15139105 GATAGATTTTAAATATATCGATAGATGTCGTTTCATTTTCAAGCATACGAAATATCTATCGATAG
1 GATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCTAGCATACGAAATATCTATCGATAG
* *
15139170 ATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAACATACGCTTACAACTACT
66 ATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCTTACAACTACC
* *
15139226 GATAGATTTTAAATATATCGATAGATGTTGTTTCATCTTCTAGCATATGAAATATCTATCGATAG
1 GATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCTAGCATACGAAATATCTATCGATAG
* ** **
15139291 ATTTTAAATATATCGATAGATGCCCTTTCATCTTCTAGCATATACCAACAACTACC
66 ATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCTTACAACTACC
* * *
15139347 GATAGATTTTAAATATATCGATAAATGTCGTTTCATCTTCCAGCATACGAAATATCTATTGATAG
1 GATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCTAGCATACGAAATATCTATCGATAG
* *
15139412 ATTTTAAATATATCGATAGATGTCGTTTCATCTTCCAGCATACGCTTACAACTACC
66 ATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCTTACAACTACC
* * *
15139468 GATAGATTTTAAATATATTGATAGATG-CTGTTTTATCTTTTAGCATA
1 GATAGATTTTAAATATATCGATAGATGTC-GTTTCATCTTCTAGCATA
15139515 TGCCTACAAC
Statistics
Matches: 260, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
120 1 0.00
121 259 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (121 bp):
GATAGATTTTAAATATATCGATAGATGTCGTTTCATCTTCTAGCATACGAAATATCTATCGATAG
ATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCTTACAACTACC
Found at i:15141781 original size:23 final size:23
Alignment explanation
Indices: 15141755--15141805 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
15141745 TCACGCAATC
15141755 CCATATCAACTAGTCACACGATT
1 CCATATCAACTAGTCACACGATT
*
15141778 CCATATCAACTAGTCACGCGATT
1 CCATATCAACTAGTCACACGATT
15141801 CCATA
1 CCATA
15141806 ACAAGTGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.25
Consensus pattern (23 bp):
CCATATCAACTAGTCACACGATT
Found at i:15141819 original size:23 final size:23
Alignment explanation
Indices: 15141755--15141819 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
15141745 TCACGCAATC
* * *
15141755 CCATATCAACTAGTCACACGATT
1 CCATAACAACTAGTAACGCGATT
* *
15141778 CCATATCAACTAGTCACGCGATT
1 CCATAACAACTAGTAACGCGATT
* *
15141801 CCATAACAAGTGGTAACGC
1 CCATAACAACTAGTAACGC
15141820 CAATCCTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (23 bp):
CCATAACAACTAGTAACGCGATT
Found at i:15142018 original size:23 final size:23
Alignment explanation
Indices: 15141992--15142055 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
15141982 CAATATCAAA
*
15141992 TAGTAACTCGATTCCATAATAAC
1 TAGTAACGCGATTCCATAATAAC
*
15142015 TAGTCACGCGATTCCATAATAAC
1 TAGTAACGCGATTCCATAATAAC
* * *
15142038 TACTAACGCCACTCCATA
1 TAGTAACGCGATTCCATA
15142056 TTTACAACTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.36, C:0.28, G:0.09, T:0.27
Consensus pattern (23 bp):
TAGTAACGCGATTCCATAATAAC
Found at i:15142138 original size:23 final size:24
Alignment explanation
Indices: 15142112--15142174 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
15142102 TCTTAACGGT
*
15142112 TCACGCGATTCCATATTTAA-TAG
1 TCACGCGATTCCATATTCAATTAG
* * *
15142135 TCACGTGATTTCA-AATCAATTAG
1 TCACGCGATTCCATATTCAATTAG
15142158 TCACGCGATTCCATATT
1 TCACGCGATTCCATATT
15142175 AACTATTTAC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 4 0.13
23 25 0.81
24 2 0.06
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (24 bp):
TCACGCGATTCCATATTCAATTAG
Found at i:15146353 original size:23 final size:23
Alignment explanation
Indices: 15146317--15146372 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
15146307 TGAACAATAT
15146317 TCACGCAATA-ACCTAGAAACCAG
1 TCACGCAA-AGACCTAGAAACCAG
** **
15146340 TCACGCAAAGACCTATCAATTAG
1 TCACGCAAAGACCTAGAAACCAG
15146363 TCACGCAAAG
1 TCACGCAAAG
15146373 TTTAACCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.41, C:0.29, G:0.14, T:0.16
Consensus pattern (23 bp):
TCACGCAAAGACCTAGAAACCAG
Found at i:15148837 original size:21 final size:22
Alignment explanation
Indices: 15148788--15148847 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
15148778 ACTTAATCAC
15148788 TGTGTGAGTGGTTTTTAGGCAT
1 TGTGTGAGTGGTTTTTAGGCAT
** *
15148810 TACGTGATTGG-TTTTAGGCAT
1 TGTGTGAGTGGTTTTTAGGCAT
* *
15148831 TGTGTGACTGATTTTTA
1 TGTGTGAGTGGTTTTTA
15148848 AGTAATGCCT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.17, C:0.07, G:0.30, T:0.47
Consensus pattern (22 bp):
TGTGTGAGTGGTTTTTAGGCAT
Found at i:15148975 original size:26 final size:24
Alignment explanation
Indices: 15148859--15149208 Score: 263
Period size: 26 Copynumber: 14.5 Consensus size: 24
15148849 GTAATGCCTA
15148859 AGTCACGCAATGCCTTATT-AACT
1 AGTCACGCAATGCCTTATTAAACT
* *
15148882 AGTCACGCAATGCCTTACT-AACA
1 AGTCACGCAATGCCTTATTAAACT
* *
15148905 AGTCACGCAATGCCTTACT-AACA
1 AGTCACGCAATGCCTTATTAAACT
* *
15148928 AGTCATGCAATGCC-TA-TCAACT
1 AGTCACGCAATGCCTTATTAAACT
*
15148950 AGTCAAGCAATGCCTTATTAAAAACT
1 AGTCACGCAATGCCTTATT--AAACT
*
15148976 AGTCACACAATGCC-TA-TAAACT
1 AGTCACGCAATGCCTTATTAAACT
* *
15148998 AGTCACGCAATACCTTATCAGAAACT
1 AGTCACGCAATGCCTTAT--TAAACT
*
15149024 AGTCATGCAATGCCTTATTAAAAACT
1 AGTCACGCAATGCCTTATT--AAACT
* *
15149050 AGTCACACAATGCC-TA-TCAACT
1 AGTCACGCAATGCCTTATTAAACT
* * *
15149072 AATCACGCAATACCTTATCAGAAACT
1 AGTCACGCAATGCCTTAT--TAAACT
* * *
15149098 AGTCACGTAATACCTTATAAAAAACT
1 AGTCACGCAATGCCTTAT--TAAACT
* *
15149124 AGTCACGCAATGCC-TA-TCAATT
1 AGTCACGCAATGCCTTATTAAACT
*
15149146 AGTCACGCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCCTTAT--TAAACT
* * *
15149172 AGTCATGTAATGCCTTATAAAAAACT
1 AGTCACGCAATGCCTTAT--TAAACT
*
15149198 AATCACGCAAT
1 AGTCACGCAAT
15149209 ACCCAAAGTC
Statistics
Matches: 267, Mismatches: 41, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.00
22 67 0.25
23 65 0.24
24 3 0.01
25 6 0.02
26 125 0.47
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.25
Consensus pattern (24 bp):
AGTCACGCAATGCCTTATTAAACT
Found at i:15148998 original size:48 final size:47
Alignment explanation
Indices: 15148859--15149192 Score: 279
Period size: 48 Copynumber: 7.0 Consensus size: 47
15148849 GTAATGCCTA
*
15148859 AGTCACGCAATGCCTTATT--AACTAGTCACGCAATGCCT-TACTAACA
1 AGTCACGCAATGCCTTATTAAAACTAGTCACGCAATGCCTATA--AACT
* * * *
15148905 AGTCACGCAATGCCTTACT--AACAAGTCATGCAATGCCTATCAACT
1 AGTCACGCAATGCCTTATTAAAACTAGTCACGCAATGCCTATAAACT
* *
15148950 AGTCAAGCAATGCCTTATTAAAAACTAGTCACACAATGCCTATAAACT
1 AGTCACGCAATGCCTTATT-AAAACTAGTCACGCAATGCCTATAAACT
* * *
15148998 AGTCACGCAATACCTTATCAGAAACTAGTCATGCAATGCCTTATTAAAAACT
1 AGTCACGCAATGCCTTATTA-AAACTAGTCACGCAATGCC-TA-T--AAACT
* * * *
15149050 AGTCACACAATGCC-TA-T-CAACTAATCACGCAATACCTTATCAGAAACT
1 AGTCACGCAATGCCTTATTAAAACTAGTCACGCAATGCC-TAT---AAACT
* * * * *
15149098 AGTCACGTAATACCTTATAAAAAACTAGTCACGCAATGCCTATCAATT
1 AGTCACGCAATGCCTTAT-TAAAACTAGTCACGCAATGCCTATAAACT
* * *
15149146 AGTCACGCAATGCCTTATCAGAAACTAGTCATGTAATGCCTTATAAA
1 AGTCACGCAATGCCTTATTA-AAACTAGTCACGCAATGCC-TATAAA
15149193 AAACTAATCA
Statistics
Matches: 233, Mismatches: 39, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
45 20 0.09
46 35 0.15
47 4 0.02
48 126 0.54
49 9 0.04
50 1 0.00
51 5 0.02
52 33 0.14
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (47 bp):
AGTCACGCAATGCCTTATTAAAACTAGTCACGCAATGCCTATAAACT
Found at i:15149039 original size:74 final size:74
Alignment explanation
Indices: 15148946--15149208 Score: 400
Period size: 74 Copynumber: 3.6 Consensus size: 74
15148936 AATGCCTATC
* * *
15148946 AACTAGTCAAGCAATGCCTTATTAAAAACTAGTCACACAATGCCTATAAACTAGTCACGCAATAC
1 AACTAGTCATGCAATGCCTTATAAAAAACTAGTCACACAATGCCTATCAACTAGTCACGCAATAC
15149011 CTTATCAGA
66 CTTATCAGA
* *
15149020 AACTAGTCATGCAATGCCTTATTAAAAACTAGTCACACAATGCCTATCAACTAATCACGCAATAC
1 AACTAGTCATGCAATGCCTTATAAAAAACTAGTCACACAATGCCTATCAACTAGTCACGCAATAC
15149085 CTTATCAGA
66 CTTATCAGA
* * * * * *
15149094 AACTAGTCACGTAATACCTTATAAAAAACTAGTCACGCAATGCCTATCAATTAGTCACGCAATGC
1 AACTAGTCATGCAATGCCTTATAAAAAACTAGTCACACAATGCCTATCAACTAGTCACGCAATAC
15149159 CTTATCAGA
66 CTTATCAGA
* * *
15149168 AACTAGTCATGTAATGCCTTATAAAAAACTAATCACGCAAT
1 AACTAGTCATGCAATGCCTTATAAAAAACTAGTCACACAAT
15149209 ACCCAAAGTC
Statistics
Matches: 175, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 175 1.00
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (74 bp):
AACTAGTCATGCAATGCCTTATAAAAAACTAGTCACACAATGCCTATCAACTAGTCACGCAATAC
CTTATCAGA
Found at i:15149264 original size:25 final size:21
Alignment explanation
Indices: 15149211--15149272 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
15149201 CACGCAATAC
*
15149211 CCAAAGTCAGTGATGCAATGT
1 CCAAAGTCAGTCATGCAATGT
15149232 CCAAAGTCAGTCATGCAATGT
1 CCAAAGTCAGTCATGCAATGT
*
15149253 CCAAAGTCAGTCACGCAATG
1 CCAAAGTCAGTCATGCAATG
15149273 CCTAAAAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (21 bp):
CCAAAGTCAGTCATGCAATGT
Found at i:15149301 original size:22 final size:22
Alignment explanation
Indices: 15148859--15149302 Score: 66
Period size: 26 Copynumber: 18.9 Consensus size: 22
15148849 GTAATGCCTA
* **
15148859 AGTCACGCAATGCCTTATTAACT
1 AGTCACGCAATGCC-CAAAAACT
* ** *
15148882 AGTCACGCAATGCCTTACTAACA
1 AGTCACGCAATGCC-CAAAAACT
* ** *
15148905 AGTCACGCAATGCCTTACTAACA
1 AGTCACGCAATGCC-CAAAAACT
* * **
15148928 AGTCATGCAATGCCTATCAACT
1 AGTCACGCAATGCCCAAAAACT
* *
15148950 AGTCAAGCAATGCCTTATTAAAAACT
1 AGTCACGCAATGCC----CAAAAACT
* * *
15148976 AGTCACACAATGCCTATAAACT
1 AGTCACGCAATGCCCAAAAACT
* *
15148998 AGTCACGCAATACCTTATCAGAAACT
1 AGTCACGCAATGCC----CAAAAACT
* *
15149024 AGTCATGCAATGCCTTATTAAAAACT
1 AGTCACGCAATGCC----CAAAAACT
* * **
15149050 AGTCACACAATGCCTATCAACT
1 AGTCACGCAATGCCCAAAAACT
* * *
15149072 AATCACGCAATACCTTATCAGAAACT
1 AGTCACGCAATGCC----CAAAAACT
* * *
15149098 AGTCACGTAATACCTTATAAAAAACT
1 AGTCACGCAATGCC----CAAAAACT
* ** *
15149124 AGTCACGCAATGCCTATCAATT
1 AGTCACGCAATGCCCAAAAACT
*
15149146 AGTCACGCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCC----CAAAAACT
* * *
15149172 AGTCATGTAATGCCTTATAAAAAACT
1 AGTCACGCAATGCC----CAAAAACT
* * **
15149198 AATCACGCAATACCCAAAGTC-
1 AGTCACGCAATGCCCAAAAACT
* * * **
15149219 AGTGATGCAATGTCCAAAGTC-
1 AGTCACGCAATGCCCAAAAACT
* * **
15149240 AGTCATGCAATGTCCAAAGTC-
1 AGTCACGCAATGCCCAAAAACT
*
15149261 AGTCACGCAATGCCTAAAAACT
1 AGTCACGCAATGCCCAAAAACT
* *
15149283 AGTCACGTAATTCCCAAAAA
1 AGTCACGCAATGCCCAAAAA
15149303 TCATCAAAAC
Statistics
Matches: 335, Mismatches: 69, Indels: 35
0.76 0.16 0.08
Matches are distributed among these distances:
21 52 0.16
22 93 0.28
23 57 0.17
26 133 0.40
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.24
Consensus pattern (22 bp):
AGTCACGCAATGCCCAAAAACT
Found at i:15150196 original size:21 final size:22
Alignment explanation
Indices: 15150161--15150217 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
15150151 TATGTCCAAA
15150161 GTGAGTGGTTTTTAGGCATTAC
1 GTGAGTGGTTTTTAGGCATTAC
* *
15150183 GTGATTGG-TTTTAGGCATTGC
1 GTGAGTGGTTTTTAGGCATTAC
* *
15150204 GTGACTGATTTTTA
1 GTGAGTGGTTTTTA
15150218 AGTAATGCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.18, C:0.09, G:0.30, T:0.44
Consensus pattern (22 bp):
GTGAGTGGTTTTTAGGCATTAC
Found at i:15150303 original size:26 final size:26
Alignment explanation
Indices: 15150252--15150389 Score: 169
Period size: 26 Copynumber: 5.5 Consensus size: 26
15150242 CTTACTAACA
*
15150252 AGTCACGCAATGTC-TATC---AATT
1 AGTCACGCAATGTCTTATCAAAAACT
*
15150274 AGTCACGCAATGTCTTATCAGAAACT
1 AGTCACGCAATGTCTTATCAAAAACT
* *
15150300 AGTCACGTAATGTCTTATCAGAAACT
1 AGTCACGCAATGTCTTATCAAAAACT
**
15150326 AGTCACGCAATACCTTATCAAAAACT
1 AGTCACGCAATGTCTTATCAAAAACT
15150352 AGTCACGCAATG-CTTTATCAAAAACT
1 AGTCACGCAATGTC-TTATCAAAAACT
*
15150378 AATCACGCAATG
1 AGTCACGCAATG
15150390 CCCAAAGTTA
Statistics
Matches: 103, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
22 14 0.14
23 4 0.04
25 1 0.01
26 84 0.82
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (26 bp):
AGTCACGCAATGTCTTATCAAAAACT
Found at i:15161423 original size:24 final size:24
Alignment explanation
Indices: 15161397--15161450 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
15161387 GTAAGTTTGA
15161397 TTTATTACTTATTTTATTT-TTATAT
1 TTTA-TACTTATTTT-TTTATTATAT
*
15161422 TTTATATTTATTTTTTTATTATAAT
1 TTTATACTTATTTTTTTATTAT-AT
15161447 TTTA
1 TTTA
15161451 ANNNNNNNNN
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 13 0.50
25 10 0.38
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTATACTTATTTTTTTATTATAT
Found at i:15161450 original size:19 final size:19
Alignment explanation
Indices: 15161397--15161450 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
15161387 GTAAGTTTGA
15161397 TTTATTACTTATTTTATTTT
1 TTTATTA-TTATTTTATTTT
*
15161417 TATATT-TTATATTTATTTT
1 TTTATTATTAT-TTTATTTT
*
15161436 TTTATTATAATTTTA
1 TTTATTATTATTTTA
15161451 ANNNNNNNNN
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.14
19 17 0.59
20 8 0.28
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTATTATTTTATTTT
Found at i:15167052 original size:20 final size:20
Alignment explanation
Indices: 15167016--15167053 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15167006 TTACCCAAAG
* *
15167016 CCAAAATCTCTCTTAAAAAT
1 CCAAAATCTCCCCTAAAAAT
15167036 CCAAAATCTCCCCTAAAA
1 CCAAAATCTCCCCTAAAA
15167054 CCCAAACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.24
Consensus pattern (20 bp):
CCAAAATCTCCCCTAAAAAT
Found at i:15167058 original size:19 final size:20
Alignment explanation
Indices: 15167016--15167059 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15167006 TTACCCAAAG
* * *
15167016 CCAAAATCTCTCTTAAAAAT
1 CCAAAATCTCCCCTAAAAAC
15167036 CCAAAATCTCCCCT-AAAAC
1 CCAAAATCTCCCCTAAAAAC
15167055 CCAAA
1 CCAAA
15167060 CAAACAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.20
Consensus pattern (20 bp):
CCAAAATCTCCCCTAAAAAC
Found at i:15167452 original size:13 final size:13
Alignment explanation
Indices: 15167436--15167476 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
15167426 ACATTTCTTT
15167436 TTTTTTACTATTA
1 TTTTTTACTATTA
* *
15167449 TTTTATCCT-TT-
1 TTTTTTACTATTA
15167460 TTTTTTACTATTA
1 TTTTTTACTATTA
15167473 TTTT
1 TTTT
15167477 GTCCTCTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
11 7 0.32
12 4 0.18
13 11 0.50
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTTACTATTA
Found at i:15167460 original size:24 final size:24
Alignment explanation
Indices: 15167432--15167481 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
15167422 TTTTACATTT
15167432 CTTTTTTTTTACTATTATTTTATC
1 CTTTTTTTTTACTATTATTTTATC
*
15167456 CTTTTTTTTTACTATTATTTTGTC
1 CTTTTTTTTTACTATTATTTTATC
15167480 CT
1 CT
15167482 CTATAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (24 bp):
CTTTTTTTTTACTATTATTTTATC
Found at i:15167866 original size:21 final size:21
Alignment explanation
Indices: 15167842--15167970 Score: 84
Period size: 21 Copynumber: 6.0 Consensus size: 21
15167832 TGAAACTAAT
*
15167842 TACCAAGAGGCTTTGGAAATG
1 TACCAAGAGGCTTTGAAAATG
*
15167863 TACCAAGAGGTTTTGAGAAAATG
1 TACCAAGAGGCTTT--GAAAATG
**
15167886 TACCTGGAGGCTTT-ATAGAATG
1 TACCAAGAGGCTTTGA-A-AATG
** *
15167908 TACCCGGAGG-TTTTAAGAATG
1 TACCAAGAGGCTTTGAA-AATG
* *
15167929 TATCAAGAGGTTTTGAAAATG
1 TACCAAGAGGCTTTGAAAATG
*
15167950 TACTC-AGAGGTTTTAGAAAAT
1 TAC-CAAGAGGCTTT-GAAAAT
15167971 ACACTTGAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.01
21 45 0.51
22 26 0.29
23 17 0.19
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (21 bp):
TACCAAGAGGCTTTGAAAATG
Found at i:15167910 original size:22 final size:21
Alignment explanation
Indices: 15167882--15167930 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
15167872 GTTTTGAGAA
*
15167882 AATGTACCTGGAGGCTTTATAG
1 AATGTACCCGGAGGCTTTA-AG
*
15167904 AATGTACCCGGAGGTTTTAAG
1 AATGTACCCGGAGGCTTTAAG
15167925 AATGTA
1 AATGTA
15167931 TCAAGAGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (21 bp):
AATGTACCCGGAGGCTTTAAG
Found at i:15168156 original size:21 final size:21
Alignment explanation
Indices: 15168125--15168192 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
15168115 ACCCCGAGGC
*
15168125 TTTATAGAATGCACTCGAAGGT
1 TTTA-AGAATGTACTCGAAGGT
*
15168147 TTTAAGAATGTACTCGGAGGT
1 TTTAAGAATGTACTCGAAGGT
* *
15168168 TTTGAA-AATGTACCCGAAAGT
1 TTT-AAGAATGTACTCGAAGGT
15168189 TTTA
1 TTTA
15168193 GAAAATACAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.03
21 33 0.82
22 6 0.15
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (21 bp):
TTTAAGAATGTACTCGAAGGT
Found at i:15168178 original size:228 final size:228
Alignment explanation
Indices: 15167775--15168300 Score: 736
Period size: 228 Copynumber: 2.3 Consensus size: 228
15167765 GTACTCGAAA
* * *
15167775 GTTTTGAGAGAAAAATGTGGCTTCTAAAAAATGAAGCAACGTAACTTTAAAAATTTTTGAAACTA
1 GTTTTAAGAGAAAAATGTGGCTTCTAAAAAATGAGGCAACGTAACTTTAAAAAATTTTGAAACTA
* * * **
15167840 ATTACCAAGAGGCTTTGGAAATGTACCAAGAGGTTTTGAGAAAATGTACCTGGAGGCTTTATAGA
66 ATTACCAAGAAGCTTTGGAAATGTACCAAGAGATTTTGAGAAAATATACCCCGAGGCTTTATAGA
* * *
15167905 ATGTACCCGGAGGTTTTAAGAATGTATCAAGAGGTTTTGAAAATGTACTCAG-AGGTTTTAGAAA
131 ATGCACCCGAAGGTTTTAAGAATGTATCAAGAGGTTTTGAAAATGTAC-CAGAAAGTTTTAGAAA
*** **
15167969 ATACACTTGAAAGTCTTAGAAAATACACCCGGAG
195 ATACACCCAAAAGTCTTAGAAAATACACCAAGAG
15168003 GTTTTAAGAGAAAAATGTGGCTTCTAAAAAATGAGGCAACGTAACTTTAAAAAATTTTGAAACTA
1 GTTTTAAGAGAAAAATGTGGCTTCTAAAAAATGAGGCAACGTAACTTTAAAAAATTTTGAAACTA
** * *
15168068 ATTACCTGGAAGCTTTGGAAATGTACCCAGAGATTTTGAGAGAATATACCCCGAGGCTTTATAGA
66 ATTACCAAGAAGCTTTGGAAATGTACCAAGAGATTTTGAGAAAATATACCCCGAGGCTTTATAGA
* * *
15168133 ATGCACTCGAAGGTTTTAAGAATGTACTC-GGAGGTTTTGAAAATGTACCCGAAAGTTTTAGAAA
131 ATGCACCCGAAGGTTTTAAGAATGTA-TCAAGAGGTTTTGAAAATGTACCAGAAAGTTTTAGAAA
* *
15168197 ATACACCCAAAAGTCTTCGAAAATACACTAAGAG
195 ATACACCCAAAAGTCTTAGAAAATACACCAAGAG
* * * *
15168231 GTTTTAAGAGAAAAATGTGGC-TCTTCAAAACTAAGGCAACGTAACTTT-AAAAATCTTGAAACT
1 GTTTTAAGAGAAAAATGTGGCTTC-TAAAAAATGAGGCAACGTAACTTTAAAAAATTTTGAAACT
15168294 AATTACC
65 AATTACC
15168301 CGGAGGTTTT
Statistics
Matches: 266, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
227 25 0.09
228 239 0.90
229 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (228 bp):
GTTTTAAGAGAAAAATGTGGCTTCTAAAAAATGAGGCAACGTAACTTTAAAAAATTTTGAAACTA
ATTACCAAGAAGCTTTGGAAATGTACCAAGAGATTTTGAGAAAATATACCCCGAGGCTTTATAGA
ATGCACCCGAAGGTTTTAAGAATGTATCAAGAGGTTTTGAAAATGTACCAGAAAGTTTTAGAAAA
TACACCCAAAAGTCTTAGAAAATACACCAAGAG
Found at i:15168204 original size:22 final size:21
Alignment explanation
Indices: 15168166--15168224 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
15168156 GTACTCGGAG
** *
15168166 GTTTTGAAAATGTACCCGAAA
1 GTTTTGAAAATACACCCAAAA
15168187 GTTTTAGAAAATACACCCAAAA
1 GTTTT-GAAAATACACCCAAAA
*
15168209 GTCTTCGAAAATACAC
1 GT-TTTGAAAATACAC
15168225 TAAGAGGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 5 0.16
22 25 0.78
23 2 0.06
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (21 bp):
GTTTTGAAAATACACCCAAAA
Found at i:15168351 original size:75 final size:75
Alignment explanation
Indices: 15168228--15168373 Score: 238
Period size: 75 Copynumber: 1.9 Consensus size: 75
15168218 AATACACTAA
* *
15168228 GAGGTTTTAAGAGAAAAATGTGGCTCTTCAAAACTAAGGCAACGTAACTTTAAAAATCTTGAAAC
1 GAGGTTTTAAGAGAAAAATGTGGCTCCTAAAAACTAAGGCAACGTAACTTTAAAAATCTTGAAAC
15168293 TAATTACCCG
66 TAATTACCCG
* * * *
15168303 GAGGTTTTGAGAGAAAAATGTGGCTCCTAAAAACTGAGGCAACGTAACTTTAAAAATCTTGATAT
1 GAGGTTTTAAGAGAAAAATGTGGCTCCTAAAAACTAAGGCAACGTAACTTTAAAAATCTTGAAAC
15168368 TAATTA
66 TAATTA
15168374 TCTGAAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (75 bp):
GAGGTTTTAAGAGAAAAATGTGGCTCCTAAAAACTAAGGCAACGTAACTTTAAAAATCTTGAAAC
TAATTACCCG
Found at i:15171904 original size:14 final size:14
Alignment explanation
Indices: 15171885--15171914 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15171875 TTAATCATCA
*
15171885 TTTTTTTGTTATTT
1 TTTTTTTATTATTT
15171899 TTTTTTTATTATTT
1 TTTTTTTATTATTT
15171913 TT
1 TT
15171915 GAGTAATCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (14 bp):
TTTTTTTATTATTT
Found at i:15178002 original size:19 final size:19
Alignment explanation
Indices: 15177978--15178015 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15177968 ACTTCTTAAC
15177978 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
15177997 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
15178016 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:15180251 original size:32 final size:32
Alignment explanation
Indices: 15180200--15180298 Score: 92
Period size: 35 Copynumber: 3.0 Consensus size: 32
15180190 AACCATTCAC
* *
15180200 AATGGTTTTTCACAAGCTCAATCAAAACCCAA-
1 AATGGTTTTTCA-AGGCTCAACCAAAACCCAAT
* **
15180232 AGTGGTTTTTCAATGGCTCAACCCCAACCTACAAT
1 AATGGTTTTTCAA-GGCTCAACCAAAACC--CAAT
*
15180267 AATGGTTTTTCAAGGGATCAACCAAAACCCAA
1 AATGGTTTTTCAA-GGCTCAACCAAAACCCAA
15180299 CAACTAACTT
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
31 1 0.02
32 22 0.42
33 3 0.06
34 3 0.06
35 24 0.45
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (32 bp):
AATGGTTTTTCAAGGCTCAACCAAAACCCAAT
Found at i:15187685 original size:78 final size:76
Alignment explanation
Indices: 15187568--15187794 Score: 287
Period size: 75 Copynumber: 3.0 Consensus size: 76
15187558 AAATTTTAGA
* * * * *
15187568 TAATTAATATCAAGATTTTTAAAGTTATGTTTGCTTCAGTTTTGAGGAGCCACATTTTTCTTTCT
1 TAATTAGTTTCAAAATTTTTAAAGTTACG-TTGCTTCAGTTTTAAGGAGCCACATTTTTCTTTCT
*
15187633 AAAGCCTCCGGG
65 AAAACCTCCGGG
* *
15187645 TAATTAGTTTCAAAAATTTTTAAAAGTTACGTTGCCTCAGTTTTAAGGAGCCAAATTTTTCTTTC
1 TAATTAGTTTC-AAAATTTTT-AAAGTTACGTTGCTTCAGTTTTAAGGAGCCACATTTTTCTTTC
*
15187710 -AAAACCTACGGG
64 TAAAACCTCCGGG
** * * *
15187722 TAATTAGTTTCAAGCTTTTTAAAGTTACATTGCTTCAGTTTTAAGAAGCCACATTTTTCTCT-TA
1 TAATTAGTTTCAAAATTTTTAAAGTTACGTTGCTTCAGTTTTAAGGAGCCACATTTTTCTTTCTA
15187786 AAACCTCCG
66 AAACCTCCG
15187795 AATGTATTTT
Statistics
Matches: 130, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
75 46 0.35
76 7 0.05
77 30 0.23
78 39 0.30
79 8 0.06
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (76 bp):
TAATTAGTTTCAAAATTTTTAAAGTTACGTTGCTTCAGTTTTAAGGAGCCACATTTTTCTTTCTA
AAACCTCCGGG
Found at i:15187825 original size:22 final size:22
Alignment explanation
Indices: 15187783--15187912 Score: 95
Period size: 21 Copynumber: 6.0 Consensus size: 22
15187773 CATTTTTCTC
* **
15187783 TTAAAACCTCCGAATGTATTTT
1 TTAAAACCTCCGAGTACATTTT
15187805 TTAAAACCTCCGAGTACA-TTT
1 TTAAAACCTCCGAGTACATTTT
* * * *
15187826 TCAAAACTTCCAAGTACA-TTC
1 TTAAAACCTCCGAGTACATTTT
* * *
15187847 TTAAAACCTCTGGGTACATTCT
1 TTAAAACCTCCGAGTACATTTT
* * **
15187869 ATAAAGCCTCAAAGTACATTTT
1 TTAAAACCTCCGAGTACATTTT
15187891 CTTAAAACCTCC-AGGTACATTT
1 -TTAAAACCTCCGA-GTACATTT
15187913 CCAAAGCCTC
Statistics
Matches: 82, Mismatches: 23, Indels: 5
0.75 0.21 0.05
Matches are distributed among these distances:
21 33 0.40
22 33 0.40
23 16 0.20
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (22 bp):
TTAAAACCTCCGAGTACATTTT
Found at i:15187831 original size:21 final size:21
Alignment explanation
Indices: 15187785--15187928 Score: 89
Period size: 21 Copynumber: 6.7 Consensus size: 21
15187775 TTTTTCTCTT
* *
15187785 AAAACCTCCGAATGTA-TTTTTT
1 AAAACCTCCG-A-GTACATTTTC
15187807 AAAACCTCCGAGTACATTTTC
1 AAAACCTCCGAGTACATTTTC
* *
15187828 AAAACTTCCAAGTACATTCTT-
1 AAAACCTCCGAGTACATT-TTC
* *
15187849 AAAACCTCTGGGTACATTCTAT-
1 AAAACCTCCGAGTACATT-T-TC
* **
15187871 AAAGCCTCAAAGTACATTTTC
1 AAAACCTCCGAGTACATTTTC
*
15187892 TTAAAACCTCC-AGGTACATTTCC
1 --AAAACCTCCGA-GTACATTTTC
*
15187915 AAAGCCTCCGAGTA
1 AAAACCTCCGAGTA
15187929 ATTAGTTTCA
Statistics
Matches: 98, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
20 4 0.04
21 49 0.50
22 29 0.30
23 16 0.16
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAACCTCCGAGTACATTTTC
Found at i:15188126 original size:7 final size:8
Alignment explanation
Indices: 15188109--15188133 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15188099 ATTTTCTTTC
15188109 AAAGAAAA
1 AAAGAAAA
15188117 AAAGAAAA
1 AAAGAAAA
15188125 AAAGAAAA
1 AAAGAAAA
15188133 A
1 A
15188134 GTTTTGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:15188338 original size:22 final size:23
Alignment explanation
Indices: 15188308--15188366 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
15188298 AAATAATAGT
15188308 AAAAA-AAAGAAAAACA-AAAAA
1 AAAAACAAAGAAAAACAGAAAAA
* *
15188329 AACAACAAAGAAAAAGAGAAAAA
1 AAAAACAAAGAAAAACAGAAAAA
*
15188352 AAAAAGAAA-AAAAAC
1 AAAAACAAAGAAAAAC
15188367 TGTACGACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.13
22 15 0.48
23 12 0.39
ACGTcount: A:0.85, C:0.07, G:0.08, T:0.00
Consensus pattern (23 bp):
AAAAACAAAGAAAAACAGAAAAA
Found at i:15189332 original size:13 final size:12
Alignment explanation
Indices: 15189313--15189349 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
15189303 AGAGGAATAC
15189313 AAATATATATAA
1 AAATATATATAA
15189325 ATAATATAATATAA
1 A-AATAT-ATATAA
15189339 AAATATATATA
1 AAATATATATA
15189350 TATTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATATATATAA
Found at i:15189508 original size:6 final size:6
Alignment explanation
Indices: 15189469--15189510 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
15189459 AGCTAAGGAG
* *
15189469 ATAAAT GATAAAT ATAAA- ATATAT ATATAT ATAAAT ATAAAT
1 ATAAAT -ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
15189511 GAATGAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
5 4 0.12
6 22 0.69
7 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (6 bp):
ATAAAT
Found at i:15191955 original size:16 final size:16
Alignment explanation
Indices: 15191922--15191966 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
15191912 AAGAGTTTTC
**
15191922 AAAACAAAAAAATGAT
1 AAAACAAAAAAAAAAT
15191938 AAAA-AAAATAAAAAAT
1 AAAACAAAA-AAAAAAT
15191954 AAAACAAAAAAAA
1 AAAACAAAAAAAA
15191967 TAATGCCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 4 0.16
16 17 0.68
17 4 0.16
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.09
Consensus pattern (16 bp):
AAAACAAAAAAAAAAT
Found at i:15191957 original size:14 final size:14
Alignment explanation
Indices: 15191922--15191969 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
15191912 AAGAGTTTTC
15191922 AAAACAAAAAAATGAT
1 AAAACAAAAAAA--AT
*
15191938 AAAAAAAATAAAAAAT
1 -AAAACAA-AAAAAAT
15191954 AAAACAAAAAAAAT
1 AAAACAAAAAAAAT
15191968 AA
1 AA
15191970 TGCCTAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 2 0.07
17 6 0.21
18 5 0.18
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.10
Consensus pattern (14 bp):
AAAACAAAAAAAAT
Found at i:15192221 original size:12 final size:13
Alignment explanation
Indices: 15192175--15192228 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
15192165 TAATTGAAGG
15192175 TTTTTTTAAACTT
1 TTTTTTTAAACTT
15192188 TTTGTTTT-AA-TT
1 TTT-TTTTAAACTT
*
15192200 TTATTCTTAAA-TT
1 TT-TTTTTAAACTT
15192213 TTTTTTTAAACTT
1 TTTTTTTAAACTT
15192226 TTT
1 TTT
15192229 ATGAAATCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 14 0.40
13 17 0.49
14 4 0.11
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTTTTTAAACTT
Found at i:15196648 original size:16 final size:16
Alignment explanation
Indices: 15196615--15196659 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
15196605 AAGAGTTTTC
**
15196615 AAAACAAAAAAATGAT
1 AAAACAAAAAAAAAAT
15196631 AAAA-AAAATAAAAAAT
1 AAAACAAAA-AAAAAAT
15196647 AAAACAAAAAAAA
1 AAAACAAAAAAAA
15196660 TAATGCCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 4 0.16
16 17 0.68
17 4 0.16
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.09
Consensus pattern (16 bp):
AAAACAAAAAAAAAAT
Found at i:15196650 original size:14 final size:14
Alignment explanation
Indices: 15196615--15196662 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
15196605 AAGAGTTTTC
15196615 AAAACAAAAAAATGAT
1 AAAACAAAAAAA--AT
*
15196631 AAAAAAAATAAAAAAT
1 -AAAACAA-AAAAAAT
15196647 AAAACAAAAAAAAT
1 AAAACAAAAAAAAT
15196661 AA
1 AA
15196663 TGCCTAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 2 0.07
17 6 0.21
18 5 0.18
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.10
Consensus pattern (14 bp):
AAAACAAAAAAAAT
Found at i:15196914 original size:12 final size:13
Alignment explanation
Indices: 15196868--15196921 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
15196858 TAATTGAAGG
15196868 TTTTTTTAAACTT
1 TTTTTTTAAACTT
15196881 TTTGTTTT-AA-TT
1 TTT-TTTTAAACTT
*
15196893 TTATTCTTAAA-TT
1 TT-TTTTTAAACTT
15196906 TTTTTTTAAACTT
1 TTTTTTTAAACTT
15196919 TTT
1 TTT
15196922 ATGAAATCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 14 0.40
13 17 0.49
14 4 0.11
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTTTTTAAACTT
Found at i:15207607 original size:29 final size:29
Alignment explanation
Indices: 15207566--15207621 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
15207556 AGCTTGATTT
* *
15207566 ATTTACTTATTTTATTTTTAAT-ATTTTCA
1 ATTTAATTATTTT-TATTTAATAATTTTCA
*
15207595 ATTTAATTTTTTTTATTTAATAATTTT
1 ATTTAATTATTTTTATTTAATAATTTT
15207622 TACTTGGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (29 bp):
ATTTAATTATTTTTATTTAATAATTTTCA
Found at i:15207622 original size:14 final size:14
Alignment explanation
Indices: 15207563--15207623 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
15207553 GTAAGCTTGA
*
15207563 TTTATTTACTTATT
1 TTTATTTAATTATT
*
15207577 TTATTTTTAA-TATT
1 TT-TATTTAATTATT
* *
15207591 TTCAATTTAATTTTT
1 TT-TATTTAATTATT
*
15207606 TTTATTTAATAATT
1 TTTATTTAATTATT
15207620 TTTA
1 TTTA
15207624 CTTGGTGATT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
14 26 0.72
15 10 0.28
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTAATTATT
Found at i:15208139 original size:14 final size:14
Alignment explanation
Indices: 15208092--15208140 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
15208082 ATTTCTCGAA
15208092 TTTATTTATA-TATT
1 TTTATTTATATTA-T
* * *
15208106 TTTATATAAATTTT
1 TTTATTTATATTAT
15208120 TTTATTTATATTAT
1 TTTATTTATATTAT
15208134 TTTATTT
1 TTTATTT
15208141 TGTCTTCGGC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTATATTAT
Found at i:15209336 original size:47 final size:45
Alignment explanation
Indices: 15209278--15209604 Score: 339
Period size: 47 Copynumber: 7.0 Consensus size: 45
15209268 ACATCATGTT
* * * *
15209278 GGGAATGTGTGACACGACACCACTCAGAGTTGGTGAGACGCCATGGA
1 GGGAATCTGTGACACG-CA-GATTCAGAGTTGGTGACACGCCATGGA
* * * *
15209325 GGGAATCTGTGAGATGTCAGAGTTAAGAGTTGGTGACACGCCATGGT
1 GGGAATCTGTGACACG-CAGA-TTCAGAGTTGGTGACACGCCATGGA
* * * *
15209372 GGGAATGTGTGACACGACAGCGTTCAAAGTTGGTGAGACGCCATGGA
1 GGGAATCTGTGACACG-CAG-ATTCAGAGTTGGTGACACGCCATGGA
* *
15209419 GGGAATCTGTGACACGCCAGATTAAGAGTTGGTGACACGGCATGGA
1 GGGAATCTGTGACACG-CAGATTCAGAGTTGGTGACACGCCATGGA
* * *
15209465 GGGAATCTGTGACACGCTAGTGTTCAGGGTTGGTGAGACGCCATGGA
1 GGGAATCTGTGACACGC-AG-ATTCAGAGTTGGTGACACGCCATGGA
** * * *
15209512 TTGAATCTGTGAGACGCTAGAGTTAAGAGTTGGTGACACGGCATGGA
1 GGGAATCTGTGACACGC-AGA-TTCAGAGTTGGTGACACGCCATGGA
15209559 GGGAATCTGTGACACGCTAGAGTTCAGAGTTGGTGACACGCCATGG
1 GGGAATCTGTGACACGC-AGA-TTCAGAGTTGGTGACACGCCATGG
15209605 TCATGTTTAG
Statistics
Matches: 232, Mismatches: 43, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
45 1 0.00
46 40 0.17
47 191 0.82
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (45 bp):
GGGAATCTGTGACACGCAGATTCAGAGTTGGTGACACGCCATGGA
Found at i:15209417 original size:94 final size:93
Alignment explanation
Indices: 15209301--15209604 Score: 450
Period size: 94 Copynumber: 3.2 Consensus size: 93
15209291 ACGACACCAC
* *
15209301 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGATGTCAGAGTTAAGAGTTGGTGACACGC
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACG-CAGAGTTAAGAGTTGGTGACACGG
* *
15209366 CATGGTGGGAATGTGTGACACGAC-AGCGT
65 CATGGAGGGAATCTGTGACACG-CTAGCGT
* *
15209395 TCAAAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAGA-TTAAGAGTTGGTGACACGG
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACG-CAGAGTTAAGAGTTGGTGACACGG
*
15209459 CATGGAGGGAATCTGTGACACGCTAGTGT
65 CATGGAGGGAATCTGTGACACGCTAGCGT
* **
15209488 TCAGGGTTGGTGAGACGCCATGGATTGAATCTGTGAGACGCTAGAGTTAAGAGTTGGTGACACGG
1 TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGC-AGAGTTAAGAGTTGGTGACACGG
*
15209553 CATGGAGGGAATCTGTGACACGCTAGAGT
65 CATGGAGGGAATCTGTGACACGCTAGCGT
*
15209582 TCAGAGTTGGTGACACGCCATGG
1 TCAGAGTTGGTGAGACGCCATGG
15209605 TCATGTTTAG
Statistics
Matches: 191, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.01
93 80 0.42
94 109 0.57
ACGTcount: A:0.26, C:0.16, G:0.36, T:0.22
Consensus pattern (93 bp):
TCAGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGACGCAGAGTTAAGAGTTGGTGACACGGC
ATGGAGGGAATCTGTGACACGCTAGCGT
Found at i:15209557 original size:140 final size:141
Alignment explanation
Indices: 15209303--15209604 Score: 389
Period size: 140 Copynumber: 2.1 Consensus size: 141
15209293 GACACCACTC
* * *
15209303 AGAGTTGGTGAGACGCCATGGAGGGAATCTGTGAGATGTCAGAGTTAAGAGTTGGTGACACGCCA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAGAGTTAAGAGTTGGTGACACGCCA
* * *
15209368 TGGTGGGAATGTGTGACACGACAGCGTTCAAAGTTGGTGAGACGCCATGGAGGGAATCTGTGACA
66 TGGTGGGAATCTGTGACACGACAGAGTTCAAAGTTGGTGACACGCCATGGAGGGAATCTGTGACA
15209433 CGCCAGA-TTA
131 CGCCAGAGTTA
* * * * *
15209443 AGAGTTGGTGACACGGCATGGAGGGAATCTGTGACACG-CTAGTGTTCAGGGTTGGTGAGACGCC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTC-AGAGTTAAGAGTTGGTGACACGCC
* * *
15209507 ATGGAT-TGAATCTGTGAGACG-CTAGAGTT-AAGAGTTGGTGACACGGCATGGAGGGAATCTGT
65 ATGG-TGGGAATCTGTGACACGAC-AGAGTTCAA-AGTTGGTGACACGCCATGGAGGGAATCTGT
* *
15209569 GACACGCTAGAGTTC
127 GACACGCCAGAGTTA
15209584 AGAGTTGGTGACACGCCATGG
1 AGAGTTGGTGACACGCCATGG
15209605 TCATGTTTAG
Statistics
Matches: 140, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
139 4 0.03
140 113 0.81
141 23 0.16
ACGTcount: A:0.26, C:0.16, G:0.36, T:0.22
Consensus pattern (141 bp):
AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAGAGTTAAGAGTTGGTGACACGCCA
TGGTGGGAATCTGTGACACGACAGAGTTCAAAGTTGGTGACACGCCATGGAGGGAATCTGTGACA
CGCCAGAGTTA
Found at i:15209652 original size:52 final size:53
Alignment explanation
Indices: 15209592--15209691 Score: 166
Period size: 53 Copynumber: 1.9 Consensus size: 53
15209582 TCAGAGTTGG
* *
15209592 TGACACGCCATGGTCAT-GTTTAGAGTGTGTGACACGACATTGCTTGAAAAGC
1 TGACACGCCATGGTCATGGTTTAGAGTGCGTGACACGACAGTGCTTGAAAAGC
*
15209644 TGACACGCCATGGTCATGGTTTAGAGTGCGTGACACGGCAGTGCTTGA
1 TGACACGCCATGGTCATGGTTTAGAGTGCGTGACACGACAGTGCTTGA
15209692 GTAACTAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 17 0.39
53 27 0.61
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (53 bp):
TGACACGCCATGGTCATGGTTTAGAGTGCGTGACACGACAGTGCTTGAAAAGC
Found at i:15209703 original size:53 final size:52
Alignment explanation
Indices: 15209594--15209710 Score: 155
Period size: 53 Copynumber: 2.2 Consensus size: 52
15209584 AGAGTTGGTG
* * *
15209594 ACACGCCATGGTCATGTTTAGAGTGTGTGACACGACATTGCTTGAAAAGCTG
1 ACACGCCATGGTCATGTTTAGAGTGCGTGACACGACAGTGCTTGAAAAGCTA
* *
15209646 ACACGCCATGGTCATGGTTTAGAGTGCGTGACACGGCAGTGCTTGAGTAA-CTA
1 ACACGCCATGGTCAT-GTTTAGAGTGCGTGACACGACAGTGCTTGA-AAAGCTA
*
15209699 ACACGTCATGGT
1 ACACGCCATGGT
15209711 TTGAAATAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
52 15 0.26
53 40 0.70
54 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (52 bp):
ACACGCCATGGTCATGTTTAGAGTGCGTGACACGACAGTGCTTGAAAAGCTA
Found at i:15210308 original size:31 final size:31
Alignment explanation
Indices: 15210179--15210306 Score: 157
Period size: 31 Copynumber: 4.1 Consensus size: 31
15210169 TTAGTTATTA
* *
15210179 GCGTGTGATAGCATTTCACTTGATATGCATG
1 GCGTGTGACAGCATTTTACTTGATATGCATG
* * *
15210210 GCGTGTGATAGCATTTTACTTGATATACATC
1 GCGTGTGACAGCATTTTACTTGATATGCATG
* * * *
15210241 TCGTGTCACAGAATTTTACTTGTTATGCATG
1 GCGTGTGACAGCATTTTACTTGATATGCATG
* *
15210272 GCGTTTGACAGCATTTTACTTGTTATGCATG
1 GCGTGTGACAGCATTTTACTTGATATGCATG
15210303 GCGT
1 GCGT
15210307 TTTACTTAAT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 83 1.00
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (31 bp):
GCGTGTGACAGCATTTTACTTGATATGCATG
Found at i:15210311 original size:21 final size:21
Alignment explanation
Indices: 15210285--15210348 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
15210275 TTTGACAGCA
*
15210285 TTTTACTTGTTATGCATGGCG
1 TTTTACTTGATATGCATGGCG
* *
15210306 TTTTACTTAATATGCATGGCA
1 TTTTACTTGATATGCATGGCG
15210327 TTTTACTTGATATGCATGGCG
1 TTTTACTTGATATGCATGGCG
15210348 T
1 T
15210349 GTCACAACGT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.45
Consensus pattern (21 bp):
TTTTACTTGATATGCATGGCG
Found at i:15210372 original size:31 final size:31
Alignment explanation
Indices: 15210325--15210423 Score: 121
Period size: 31 Copynumber: 3.2 Consensus size: 31
15210315 ATATGCATGG
*
15210325 CATTTTACTTGATATGCATGGCGTGTCACAA
1 CATTTAACTTGATATGCATGGCGTGTCACAA
* * *
15210356 CGTTTAACTTGTTATGCATGACGTGTCACAA
1 CATTTAACTTGATATGCATGGCGTGTCACAA
*
15210387 CATTTTGA-TTGCA-ATGCATGGCGTGTCACAA
1 CA-TTTAACTTG-ATATGCATGGCGTGTCACAA
15210418 CATTTA
1 CATTTA
15210424 TTCCTTATTT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
30 3 0.05
31 50 0.88
32 4 0.07
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (31 bp):
CATTTAACTTGATATGCATGGCGTGTCACAA
Found at i:15210404 original size:104 final size:104
Alignment explanation
Indices: 15210220--15210410 Score: 251
Period size: 104 Copynumber: 1.8 Consensus size: 104
15210210 GCGTGTGATA
* * * * * *
15210220 GCATTTTACTTGATATACATCTCGTGTCACAGAATTTTACTTGTTATGCATGGCGTTTGACAGCA
1 GCATTTTACTTGATATACATCGCGTGTCACAGAATTTAACTTGTTATGCATGACGTGTCACAACA
**
15210285 TTTTACTTGTTATGCATGGCGTTTTACTTAATATGCATG
66 TTTTACTTGCAATGCATGGCGTTTTACTTAATATGCATG
* * *
15210324 GCATTTTACTTGATATGCATGGCGTGTCACA-ACGTTTAACTTGTTATGCATGACGTGTCACAAC
1 GCATTTTACTTGATATACATCGCGTGTCACAGA-ATTTAACTTGTTATGCATGACGTGTCACAAC
15210388 ATTTTGA-TTGCAATGCATGGCGT
65 ATTTT-ACTTGCAATGCATGGCGT
15210411 GTCACAACAT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
103 1 0.01
104 72 0.97
105 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (104 bp):
GCATTTTACTTGATATACATCGCGTGTCACAGAATTTAACTTGTTATGCATGACGTGTCACAACA
TTTTACTTGCAATGCATGGCGTTTTACTTAATATGCATG
Found at i:15212318 original size:156 final size:156
Alignment explanation
Indices: 15212054--15212549 Score: 604
Period size: 156 Copynumber: 3.2 Consensus size: 156
15212044 GTTTATCGAG
* * * * * *
15212054 TAACACAGTAATTTATGTAATTGCAGTTTACGGAAGCGAGGACAGGTCCTTAAGCACTGATCGGT
1 TAACACAGTTATATATGTAATTGCAGTTTACGAAAGCGAAGACAGGTCCTGAAGCACCGATCGGT
* * * * * * *
15212119 CTAGC-CCAATCTCAGACAGCTAACCAGTCGGCGGTA-AGGATATTAAAGTTGTAACAGTTAATG
66 CCAGCTCC-ACCGCAGACTGCTAACGAG-CCGCGATATAGGATATTAAAGTTGTAACAGTTAATG
*
15212182 TTCAACAATTCCAAACATGATTATTGAA
129 TTCAACAATTCCATACATGATTATTGAA
* *
15212210 TAACACAGTTATATATGTAATTGCAGTTTACGAAAGCGATGACAAGTCCTGAAGCACCGATCGGT
1 TAACACAGTTATATATGTAATTGCAGTTTACGAAAGCGAAGACAGGTCCTGAAGCACCGATCGGT
* * * *
15212275 CCGGCTCCACCGCAGATTGCTAATGAGCCAGCGATATA-GATATTAAAGTTGTAACAATTAATGT
66 CCAGCTCCACCGCAGACTGCTAACGAGCC-GCGATATAGGATATTAAAGTTGTAACAGTTAATGT
*
15212339 TCAACAATTTCATACATGATTATTGAA
130 TCAACAATTCCATACATGATTATTGAA
* * * ** *
15212366 TAACACAGTTAAATATGTAATCGCAGTATGTGAAAGCAAAGACAGGTCCTGAAGCACCGATCGGT
1 TAACACAGTTATATATGTAATTGCAGTTTACGAAAGCGAAGACAGGTCCTGAAGCACCGATCGGT
* * * *
15212431 CCAGCTCCACTGCAGACTGTTAACGAGCCGCTAGT-TAGGATATTAAAGTTGTAACGGTTAATGT
66 CCAGCTCCACCGCAGACTGCTAACGAGCCGCGA-TATAGGATATTAAAGTTGTAACAGTTAATGT
*
15212495 TCAACAATTCCATATATGATTATTGAA
130 TCAACAATTCCATACATGATTATTGAA
* * * *
15212522 TAACATAATTATATATGTTATTGTAGTT
1 TAACACAGTTATATATGTAATTGCAGTT
15212550 GACCCAGTCG
Statistics
Matches: 290, Mismatches: 45, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
155 6 0.02
156 281 0.97
157 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (156 bp):
TAACACAGTTATATATGTAATTGCAGTTTACGAAAGCGAAGACAGGTCCTGAAGCACCGATCGGT
CCAGCTCCACCGCAGACTGCTAACGAGCCGCGATATAGGATATTAAAGTTGTAACAGTTAATGTT
CAACAATTCCATACATGATTATTGAA
Found at i:15212943 original size:31 final size:31
Alignment explanation
Indices: 15212907--15213266 Score: 305
Period size: 31 Copynumber: 11.6 Consensus size: 31
15212897 CAGCTTTAGT
* * *
15212907 GTGTCACAATATTTTACTTGTTATTCATGGT
1 GTGTCACAACATTTTACTTGTTATGCATGGC
* * * *
15212938 GTGTCACAACGTTTGATTTTGATATGCATGGC
1 GTGTCACAACATTTTA-CTTGTTATGCATGGC
* * * * *
15212970 GTGTCAGAATATTTTGCTTGTTATCCTTGGC
1 GTGTCACAACATTTTACTTGTTATGCATGGC
* *
15213001 GTGTCACCA-AGTTTATCTTGTTATGCATGGC
1 GTGTCACAACATTTTA-CTTGTTATGCATGGC
* * *
15213032 GTGTCACAACATTTTAATTATTTTGCATGGC
1 GTGTCACAACATTTTACTTGTTATGCATGGC
* * * * *
15213063 GTGTCACAACATTTTCCTCGTTATCCTTGGT
1 GTGTCACAACATTTTACTTGTTATGCATGGC
* *
15213094 GTGTCACCA-AGTTTATCTTGTTATGCATGGC
1 GTGTCACAACATTTTA-CTTGTTATGCATGGC
* ** * *
15213125 GTGTCACAACATTTTCCTCATTATCCTTGGC
1 GTGTCACAACATTTTACTTGTTATGCATGGC
* *
15213156 GTGTCACCA-AGTTTATCTTGTTATGCATGGC
1 GTGTCACAACATTTTA-CTTGTTATGCATGGC
* * * *
15213187 GTGTCACGACATTTTACTTGTTTTACATTGC
1 GTGTCACAACATTTTACTTGTTATGCATGGC
* * *
15213218 GTGTGACAACATTTTACTTGGTATGCACT-AC
1 GTGTCACAACATTTTACTTGTTATGCA-TGGC
15213249 GTGTCACAACATTTTACT
1 GTGTCACAACATTTTACT
15213267 GTTTATGGGT
Statistics
Matches: 253, Mismatches: 68, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
30 12 0.05
31 204 0.81
32 37 0.15
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (31 bp):
GTGTCACAACATTTTACTTGTTATGCATGGC
Found at i:15215511 original size:31 final size:31
Alignment explanation
Indices: 15215471--15215770 Score: 239
Period size: 31 Copynumber: 9.7 Consensus size: 31
15215461 ACATGCTAGA
*
15215471 ACTTGTTATGCATGGCGGGTCAGAACAATTT
1 ACTTGTTATGCATGGCGTGTCAGAACAATTT
* * *
15215502 AATTGTTATGCATGGCGTGCCAGAACATTTT
1 ACTTGTTATGCATGGCGTGTCAGAACAATTT
* * * *
15215533 GCTTGTTATCCTTGGCGTGTC--ACCAAGTTT
1 ACTTGTTATGCATGGCGTGTCAGAACAA-TTT
*
15215563 ATCTTGTTATGCATGGCGTGTCAGAACATTTT
1 A-CTTGTTATGCATGGCGTGTCAGAACAATTT
* * * *
15215595 ACTTGTTATTCTTGGTGTGTC--ACCAAGTTT
1 ACTTGTTATGCATGGCGTGTCAGAACAA-TTT
* * *
15215625 ATCTTGTTATGCATGGTGTGTCACAACATTTT
1 A-CTTGTTATGCATGGCGTGTCAGAACAATTT
* *** *
15215657 ACTTGTTATGCATGGCATGTCATTTCATTTT
1 ACTTGTTATGCATGGCGTGTCAGAACAATTT
* * * * * *
15215688 TCTTGTTATGAATGGCGTGTTACAATATTTT
1 ACTTGTTATGCATGGCGTGTCAGAACAATTT
* * * * * *
15215719 ATTTGATAGGCACGGCGTGTCACAACATTTT
1 ACTTGTTATGCATGGCGTGTCAGAACAATTT
15215750 ACTTGTTATGCATGGCGTGTC
1 ACTTGTTATGCATGGCGTGTC
15215771 TCACATTTAT
Statistics
Matches: 211, Mismatches: 50, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
29 6 0.03
30 7 0.03
31 184 0.87
32 8 0.04
33 6 0.03
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.41
Consensus pattern (31 bp):
ACTTGTTATGCATGGCGTGTCAGAACAATTT
Found at i:15215572 original size:62 final size:62
Alignment explanation
Indices: 15215504--15215770 Score: 279
Period size: 62 Copynumber: 4.3 Consensus size: 62
15215494 AACAATTTAA
* *
15215504 TTGTTATGCATGGCGTGCCAGAACATTTTGCTTGTTATCCTTGGCGTGTCACCAAGTTTATC
1 TTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATCCTTGGCGTGTCACCAAGTTTATC
* *
15215566 TTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATTCTTGGTGTGTCACCAAGTTTATC
1 TTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATCCTTGGCGTGTCACCAAGTTTATC
* * * * * * *
15215628 TTGTTATGCATGGTGTGTCACAACATTTTACTTGTTATGCATGGCATGTCATTTC-A-TTTTTC
1 TTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATCCTTGGCGTGTCA--CCAAGTTTATC
* * * * * * ** ** * *
15215690 TTGTTATGAATGGCGTGTTACAATATTTTATTTGATAGGCACGGCGTGTCACAACATTTTA-C
1 TTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATCCTTGGCGTGTCACCA-AGTTTATC
15215752 TTGTTATGCATGGCGTGTC
1 TTGTTATGCATGGCGTGTC
15215771 TCACATTTAT
Statistics
Matches: 174, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
62 169 0.97
63 4 0.02
64 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (62 bp):
TTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATCCTTGGCGTGTCACCAAGTTTATC
Found at i:15215631 original size:93 final size:93
Alignment explanation
Indices: 15215471--15215770 Score: 282
Period size: 93 Copynumber: 3.2 Consensus size: 93
15215461 ACATGCTAGA
* * * *
15215471 ACTTGTTATGCATGGCGGGTCAGAACAATTTAATTGTTATGCATGGCGTGCCAGAACATTTTGCT
1 ACTTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATGCATGGCGTGCCACAACATTTTGCT
* *
15215536 TGTTATCCTTGGCGTGTCACCA-AGTTT
66 TGTTATCCATGGCGTGTCACAACAGTTT
* * * * *
15215563 ATCTTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATTCTTGGTGTGTCACCAA-GTTTAT
1 A-CTTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATGCATGGCGTGCCA-CAACATTT-T
* * *
15215627 -CTTGTTATGCATGGTGTGTCACAACATTTT
63 GCTTGTTATCCATGGCGTGTCACAACAGTTT
* *** * * ** * **
15215657 ACTTGTTATGCATGGCATGTCATTTCATTTTTCTTGTTATGAATGGCGTGTTACAATATTTTATT
1 ACTTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATGCATGGCGTGCCACAACATTTTGCT
* ** * *
15215722 TGATAGGCACGGCGTGTCACAACATTTT
66 TGTTATCCATGGCGTGTCACAACAGTTT
15215750 ACTTGTTATGCATGGCGTGTC
1 ACTTGTTATGCATGGCGTGTC
15215771 TCACATTTAT
Statistics
Matches: 171, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
92 5 0.03
93 158 0.92
94 8 0.05
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.41
Consensus pattern (93 bp):
ACTTGTTATGCATGGCGTGTCAGAACATTTTACTTGTTATGCATGGCGTGCCACAACATTTTGCT
TGTTATCCATGGCGTGTCACAACAGTTT
Found at i:15216691 original size:24 final size:24
Alignment explanation
Indices: 15216664--15216866 Score: 101
Period size: 22 Copynumber: 8.7 Consensus size: 24
15216654 TTAATCATAA
15216664 TAATATTTAAATTAAATAAAATAT
1 TAATATTTAAATTAAATAAAATAT
** *
15216688 TAATATTTAAATT--ATCTATTAT
1 TAATATTTAAATTAAATAAAATAT
15216710 TAATATTTTAAA-TAAATAATCAATTAT
1 TAATA-TTTAAATTAAATAA--AA-TAT
*
15216737 TAAT-TTTCAA--AAATAAAATA-
1 TAATATTTAAATTAAATAAAATAT
* ** * * *
15216757 AAATA-AAATAATTGATTATAATA-
1 TAATATTTA-AATTAAATAAAATAT
*
15216780 -A-TATTTAAATTAAATAAAGTAT
1 TAATATTTAAATTAAATAAAATAT
15216802 TAATATTTTAAAATATAAAT-AAATAT
1 TAATA-TTT-AAAT-TAAATAAAATAT
* * *
15216828 TAATATTTAAATT--ATTAATTAG
1 TAATATTTAAATTAAATAAAATAT
*
15216850 TAATATTTTAATTAAAT
1 TAATATTTAAATTAAAT
15216867 TCTAGATTAT
Statistics
Matches: 135, Mismatches: 24, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
20 3 0.02
21 18 0.13
22 32 0.24
23 15 0.11
24 29 0.21
25 11 0.08
26 15 0.11
27 12 0.09
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (24 bp):
TAATATTTAAATTAAATAAAATAT
Found at i:15216724 original size:119 final size:116
Alignment explanation
Indices: 15216431--15216809 Score: 431
Period size: 119 Copynumber: 3.3 Consensus size: 116
15216421 TTAAAAATAT
*
15216431 TAATA-TTAAATTATAAATAAAATATTGATATTTAAATTATCAATTATTAATA----AAATAAAT
1 TAATATTTAAA-T-TAAATAAAATATTAATATTTAAATTATC-ATTATTAATATTTTAAATAAAT
* ** * * * *
15216491 TATAAATTATTCCTATTTAAAAACAAAATAAATTAAAA-ATAAA-TAAACATAA
63 TATCAATTATTAATATTTAAAAATAAAATAAAATAAAATAAAAATTAATCATAA
* * *
15216543 T-ATCATTTAAATTATATAAACAATATTAATAATTAAATCATCAGTTATTAATATTTTAAATAAA
1 TAAT-ATTTAAATTAAAT-AA-AATATTAATATTTAAATTATCA-TTATTAATATTTTAAATAAA
*
15216607 TTACCAATTATTAATATTTAAAAAATAAAATAAAATAAAATAAAAAATTAATCATAA
62 TTATCAATTATTAATATTT-AAAAATAAAATAAAATAAAAT-AAAAATTAATCATAA
*
15216664 TAATATTTAAATTAAATAAAATATTAATATTTAAATTATCTATTATTAATATTTTAAATAAATAA
1 TAATATTTAAATTAAATAAAATATTAATATTTAAATTATC-ATTATTAATATTTTAAATAAATTA
* *
15216729 TCAATTATTAAT-TTTCAAAAATAAAATAAAATAAAAT---AATTGATTATAA
65 TCAATTATTAATATTT-AAAAATAAAATAAAATAAAATAAAAATTAATCATAA
*
15216778 TAATATTTAAATTAAATAAAGTATTAATATTT
1 TAATATTTAAATTAAATAAAATATTAATATTT
15216810 TAAAATATAA
Statistics
Matches: 231, Mismatches: 21, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
111 6 0.03
112 6 0.03
113 32 0.14
114 41 0.18
117 22 0.10
118 42 0.18
119 52 0.23
120 7 0.03
121 21 0.09
122 2 0.01
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (116 bp):
TAATATTTAAATTAAATAAAATATTAATATTTAAATTATCATTATTAATATTTTAAATAAATTAT
CAATTATTAATATTTAAAAATAAAATAAAATAAAATAAAAATTAATCATAA
Found at i:15216735 original size:27 final size:26
Alignment explanation
Indices: 15216576--15216752 Score: 100
Period size: 27 Copynumber: 7.3 Consensus size: 26
15216566 TATTAATAAT
* *
15216576 TAAATCATCAGTTATTAATATTTTAAA
1 TAAATAATCAATTATTAATA-TTTAAA
* *
15216603 TAAATTACCAATTATTAATATTTAAA
1 TAAATAATCAATTATTAATATTTAAA
*
15216629 -AAATAA--AA-TA--AA-A-TAAAA
1 TAAATAATCAATTATTAATATTTAAA
* * *
15216647 TAAAAAATTAATCATAATAATATTTAAA
1 TAAATAATCAAT--TATTAATATTTAAA
15216675 TTAAATAA--AA-TATTAATATTTAAA
1 -TAAATAATCAATTATTAATATTTAAA
*
15216699 T---T-ATCTATTATTAATATTTTAAA
1 TAAATAATCAATTATTAATA-TTTAAA
*
15216722 TAAATAATCAATTATTAAT-TTTCAA
1 TAAATAATCAATTATTAATATTTAAA
15216747 -AAATAA
1 TAAATAA
15216753 AATAAAATAA
Statistics
Matches: 119, Mismatches: 12, Indels: 41
0.69 0.07 0.24
Matches are distributed among these distances:
18 4 0.03
19 7 0.06
20 3 0.03
21 3 0.03
22 10 0.08
23 10 0.08
24 21 0.18
25 10 0.08
26 9 0.08
27 32 0.27
28 4 0.03
29 6 0.05
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (26 bp):
TAAATAATCAATTATTAATATTTAAA
Found at i:15216828 original size:26 final size:25
Alignment explanation
Indices: 15216778--15216866 Score: 91
Period size: 26 Copynumber: 3.7 Consensus size: 25
15216768 TTGATTATAA
15216778 TAATA-TTTAAATTAAATAAAGTAT
1 TAATATTTTAAATTAAATAAAGTAT
15216802 TAATATTTTAAAATATAAATAAA-TAT
1 TAATATTTT-AAAT-TAAATAAAGTAT
* * *
15216828 TAATA-TTTAAATT--ATTAATTAG
1 TAATATTTTAAATTAAATAAAGTAT
15216850 TAATATTTT-AATTAAAT
1 TAATATTTTAAATTAAAT
15216867 TCTAGATTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.07
22 11 0.20
23 4 0.07
24 11 0.20
25 6 0.11
26 12 0.21
27 8 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TAATATTTTAAATTAAATAAAGTAT
Done.