Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 77 of 77
Found at i:15776897 original size:37 final size:37
Alignment explanation
Indices: 15776856--15776940 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 37
15776846 GTCAAGATTA
*
15776856 AATCTTCCCACCTAACTTACTTT-AATGGTCTAAATTT
1 AATCTTCCCACCTAA-TTAATTTCAATGGTCTAAATTT
* * *
15776893 AATCTTTCTCACCTAATTAATTTCAATGGTTTAGATTT
1 AATC-TTCCCACCTAATTAATTTCAATGGTCTAAATTT
15776931 AATCTTCCCA
1 AATCTTCCCA
15776941 AAACATGTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
37 15 0.37
38 26 0.63
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.42
Consensus pattern (37 bp):
AATCTTCCCACCTAATTAATTTCAATGGTCTAAATTT
Found at i:15776907 original size:38 final size:38
Alignment explanation
Indices: 15776801--15776940 Score: 105
Period size: 37 Copynumber: 3.8 Consensus size: 38
15776791 ACATCTAACT
* * * *
15776801 TTTCAATGGTCTAGATTAAATATTT-CCACCCAATTACA
1 TTTCAATGGTCTAAATTTAATCTTTCCCACCTAATTA-A
* * *
15776839 --TCAAATTGTC-AAGATTAAATC-TTCCCACCTAACTTAC
1 TTTC-AATGGTCTAA-ATTTAATCTTTCCCACCTAA-TTAA
*
15776876 TTT-AATGGTCTAAATTTAATCTTTCTCACCTAATTAA
1 TTTCAATGGTCTAAATTTAATCTTTCCCACCTAATTAA
* *
15776913 TTTCAATGGTTTAGATTTAATC-TTCCCA
1 TTTCAATGGTCTAAATTTAATCTTTCCCA
15776941 AAACATGTCA
Statistics
Matches: 81, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
36 5 0.06
37 44 0.54
38 31 0.38
39 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (38 bp):
TTTCAATGGTCTAAATTTAATCTTTCCCACCTAATTAA
Found at i:15781708 original size:3 final size:3
Alignment explanation
Indices: 15781702--15781728 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15781692 TTTTTTAAGA
15781702 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
15781729 GAAAGATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15782671 original size:25 final size:25
Alignment explanation
Indices: 15782637--15782684 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
15782627 AATTCACTCC
*
15782637 AACCCTTTCAGATATAAGGAAAATG
1 AACCCTTTCAGATATAAAGAAAATG
15782662 AACCCTTTCAGATATAAAGAAAA
1 AACCCTTTCAGATATAAAGAAAA
15782685 AAAAAAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.23
Consensus pattern (25 bp):
AACCCTTTCAGATATAAAGAAAATG
Found at i:15785053 original size:60 final size:60
Alignment explanation
Indices: 15784939--15785056 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
15784929 GAGAGAAGTA
*
15784939 ACATAGCTGAATTTGGCTCTCAGTGGAATATCAGTGAGACAATTTAGTTCCTTTCATATT
1 ACATAGCTGAATTTGGCTCTCAGTGGAATATCAGTGAGACAATTCAGTTCCTTTCATATT
* ** *
15784999 ACATAG-TGGAATTTGGCTCTCAATTTTAATGTCAGTGAGACAATTCAGTT-CTTTCATA
1 ACATAGCT-GAATTTGGCTCTC-AGTGGAATATCAGTGAGACAATTCAGTTCCTTTCATA
15785057 GTCATTTGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
59 1 0.02
60 27 0.53
61 23 0.45
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (60 bp):
ACATAGCTGAATTTGGCTCTCAGTGGAATATCAGTGAGACAATTCAGTTCCTTTCATATT
Found at i:15791720 original size:16 final size:16
Alignment explanation
Indices: 15791701--15791731 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15791691 TTATAATTAC
15791701 TACTTTTTTATGAGCT
1 TACTTTTTTATGAGCT
15791717 TACTTTTTTATGAGC
1 TACTTTTTTATGAGC
15791732 ATTAAGTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (16 bp):
TACTTTTTTATGAGCT
Found at i:15792427 original size:33 final size:33
Alignment explanation
Indices: 15792390--15792456 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
15792380 GTAGATATGA
* *
15792390 TTTGATATATAAATTGAGATTTGATCCCAAACT
1 TTTGATATATAAATTGAGACTTAATCCCAAACT
* *
15792423 TTTGATATATAAGTTGAGACTTAATCCTAAACT
1 TTTGATATATAAATTGAGACTTAATCCCAAACT
15792456 T
1 T
15792457 GTGAGGCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TTTGATATATAAATTGAGACTTAATCCCAAACT
Found at i:15795290 original size:2 final size:2
Alignment explanation
Indices: 15795283--15795312 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15795273 GTGCCCAACT
15795283 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15795313 AACTCTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15801050 original size:5 final size:5
Alignment explanation
Indices: 15801040--15801076 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
15801030 TAGGAGTAAC
*
15801040 TCTTT TCTTT TCCTT TCTTT TCTTT TCTTT TCTTT TC
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TC
15801077 CTTGAAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TCTTT
Found at i:15802160 original size:26 final size:26
Alignment explanation
Indices: 15802124--15802177 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
15802114 CTTTAAAACA
15802124 ATAAAAACACTGAGCAACCGTGTGAG
1 ATAAAAACACTGAGCAACCGTGTGAG
15802150 ATAAAAACACTGAGCAACCGTGTGAG
1 ATAAAAACACTGAGCAACCGTGTGAG
15802176 AT
1 AT
15802178 CAAACTATAT
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:0.43, C:0.19, G:0.22, T:0.17
Consensus pattern (26 bp):
ATAAAAACACTGAGCAACCGTGTGAG
Found at i:15805494 original size:30 final size:30
Alignment explanation
Indices: 15805458--15805521 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
15805448 AAATAATTGG
*
15805458 ACAAGATACAAAATTAAAGGAGACTTCATC
1 ACAAGATACAAAATTAAAGGACACTTCATC
* *
15805488 ACAAGATATAAAATTACAGGACACTTCATC
1 ACAAGATACAAAATTAAAGGACACTTCATC
15805518 ACAA
1 ACAA
15805522 ACAAATTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.20
Consensus pattern (30 bp):
ACAAGATACAAAATTAAAGGACACTTCATC
Found at i:15808203 original size:18 final size:16
Alignment explanation
Indices: 15808182--15808219 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
15808172 CCTGTTCAGG
15808182 TTTTTCTTTTTGTTTTGT
1 TTTTTCTTTTT-TTTT-T
15808200 TTTTTCTTTTTTTTTT
1 TTTTTCTTTTTTTTTT
15808216 TTTT
1 TTTT
15808220 GCAAAAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
17 4 0.20
18 11 0.55
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTT
Found at i:15808916 original size:2 final size:2
Alignment explanation
Indices: 15808909--15808937 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15808899 AAGTAAAAAG
15808909 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15808938 AAAGCAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15823885 original size:48 final size:47
Alignment explanation
Indices: 15823814--15824071 Score: 243
Period size: 48 Copynumber: 5.4 Consensus size: 47
15823804 GGTGTCTTTG
* *
15823814 CCTAAAAAATAGGAAAATTATTAAAA-ACAATAGGTAAGA-AAGCATTTT
1 CCTAAAAAATA-GAAAAATATTAAAAGA-AATAGGTAAGAGAA-CATTTC
*
15823862 CCTAAAAAATAGAAGAAATATTAAAAGAAATAGGTAAGAGAACATTCC
1 CCTAAAAAATAGAA-AAATATTAAAAGAAATAGGTAAGAGAACATTTC
* *
15823910 CCTAAAAAATAGAAGAAATATTAAAAGAAATAGGTAA-AGTATCGTTTC
1 CCTAAAAAATAGAA-AAATATTAAAAGAAATAGGTAAGAG-AACATTTC
* * ** *** *
15823958 CCTAAAAAATAGAAACAATATTAAAAGGAATAGATAATTGAGTGTTTT
1 CCTAAAAAATAGAAA-AATATTAAAAGAAATAGGTAAGAGAACATTTC
* * * * * *
15824006 CCTAAAAAAAAAAAAAATTATTAAAAGGATTAGGTAAGGGAACGTTTC
1 CCTAAAAAATAGAAAAA-TATTAAAAGAAATAGGTAAGAGAACATTTC
*
15824054 CTTAAAAAATAGAAAAAT
1 CCTAAAAAATAGAAAAAT
15824072 TAGTAATAAG
Statistics
Matches: 179, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
47 9 0.05
48 166 0.93
49 4 0.02
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.24
Consensus pattern (47 bp):
CCTAAAAAATAGAAAAATATTAAAAGAAATAGGTAAGAGAACATTTC
Found at i:15824010 original size:96 final size:93
Alignment explanation
Indices: 15823769--15824071 Score: 281
Period size: 96 Copynumber: 3.2 Consensus size: 93
15823759 AGTGTTTCTT
* * * *
15823769 TAAAAAATAGGAGAA-ATTAAAAGGAATAGGTAATGGGTGTCTTTGCCTAAAAAATAGGAAAATT
1 TAAAAAATAGAAAAATATTAAAAGGAATAGGTAATGAGTGT-TTT-CCTAAAAAATA-GAAAAAT
* *
15823833 ATTAAAA-ACAATAGGT-AAGAAAGCATTTTCC
63 ATTAAAAGA-AATAGGTAAAGAAA-CGTTTCCC
* ** **
15823864 TAAAAAATAGAAGAAATATTAAAAGAAATAGGTAA-GAGAACATTCCCCTAAAAAATAGAAGAAA
1 TAAAAAATAGAA-AAATATTAAAAGGAATAGGTAATGAG--TGTTTTCCTAAAAAATAGAA-AAA
* *
15823928 TATTAAAAGAAATAGGTAAAGTATCGTTTCCC
62 TATTAAAAGAAATAGGTAAAGAAACGTTTCCC
* * *
15823960 TAAAAAATAGAAACAATATTAAAAGGAATAGATAATTGAGTGTTTTCCTAAAAAAAAAAAAAATT
1 TAAAAAATAGAAA-AATATTAAAAGGAATAGGTAA-TGAGTGTTTTCCTAAAAAATAGAAAAA-T
* * * * *
15824025 ATTAAAAGGATTAGGTAAGGGAACGTTTCCT
63 ATTAAAAGAAATAGGTAAAGAAACGTTTCCC
15824056 TAAAAAATAGAAAAAT
1 TAAAAAATAGAAAAAT
15824072 TAGTAATAAG
Statistics
Matches: 170, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
95 21 0.12
96 122 0.72
97 23 0.14
98 4 0.02
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.24
Consensus pattern (93 bp):
TAAAAAATAGAAAAATATTAAAAGGAATAGGTAATGAGTGTTTTCCTAAAAAATAGAAAAATATT
AAAAGAAATAGGTAAAGAAACGTTTCCC
Found at i:15824073 original size:48 final size:46
Alignment explanation
Indices: 15823769--15824071 Score: 227
Period size: 48 Copynumber: 6.3 Consensus size: 46
15823759 AGTGTTTCTT
* * * **
15823769 TAAAAAATAGGAGAA-ATTAAAAGGAATAGGTAATGGGTGTC-TTTGCC
1 TAAAAAATAGAAAAATATTAAAAGAAATAGGTAA-GGG-AACGTTT-CC
* * *
15823816 TAAAAAATAGGAAAATTATTAAAA-ACAATAGGTAA-GAAAGCATTTTCC
1 TAAAAAATA-GAAAAATATTAAAAGA-AATAGGTAAGGGAA-C-GTTTCC
* * *
15823864 TAAAAAATAGAAGAAATATTAAAAGAAATAGGTAAGAGAACATTCCCC
1 TAAAAAATAGAA-AAATATTAAAAGAAATAGGTAAGGGAACGTT-TCC
* * *
15823912 TAAAAAATAGAAGAAATATTAAAAGAAATAGGTAAAGTATCGTTTCCC
1 TAAAAAATAGAA-AAATATTAAAAGAAATAGGTAAGGGAACGTTT-CC
* * ** **
15823960 TAAAAAATAGAAACAATATTAAAAGGAATAGATAATTGAGTGTTTTCC
1 TAAAAAATAGAAA-AATATTAAAAGAAATAGGTAAGGGAACG-TTTCC
* * * *
15824008 TAAAAAAAAAAAAAATTATTAAAAGGATTAGGTAAGGGAACGTTTCC
1 TAAAAAATAGAAAAA-TATTAAAAGAAATAGGTAAGGGAACGTTTCC
15824055 TTAAAAAATAGAAAAAT
1 -TAAAAAATAGAAAAAT
15824072 TAGTAATAAG
Statistics
Matches: 206, Mismatches: 35, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
47 25 0.12
48 156 0.76
49 25 0.12
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.24
Consensus pattern (46 bp):
TAAAAAATAGAAAAATATTAAAAGAAATAGGTAAGGGAACGTTTCC
Found at i:15824116 original size:39 final size:38
Alignment explanation
Indices: 15824050--15824372 Score: 141
Period size: 36 Copynumber: 8.8 Consensus size: 38
15824040 TAAGGGAACG
*
15824050 TTTCCTT-AAAAAATAGAAA-AATTAGTAATAAGAGTAT
1 TTTCCTTAAAAAAATA-AAAGAATAAGTAATAAGAGTAT
**
15824087 TTTCCTTAAGAAAAATAAAAGAATAAGTAATGTGAGTA-
1 TTTCCTTAA-AAAAATAAAAGAATAAGTAATAAGAGTAT
* *
15824125 TTT-CTCTAAAAAAATAAGAGAATAAGTAATATA-AATAT
1 TTTCCT-TAAAAAAATAAAAGAATAAGTAATA-AGAGTAT
* * * *
15824163 TTT--TT-GAAAAATAGAAA-AATAAATAATAAAAGTGT
1 TTTCCTTAAAAAAATA-AAAGAATAAGTAATAAGAGTAT
* * * ** *
15824198 TTTCCTAAAAAAAAAATAGAAGAACAAGTAATGTGAATA-
1 TTTCCT--TAAAAAAATAAAAGAATAAGTAATAAGAGTAT
* * *
15824237 TTTCCTT-AAAAAATAATAA-AACAAGTAAT-TG-GT-G
1 TTTCCTTAAAAAAATAA-AAGAATAAGTAATAAGAGTAT
* * *
15824271 TTTCCCTAAAGAAAATAGAATAATAAGTAATGAA-AGT-T
1 TTTCCTTAAA-AAAATAAAAGAATAAGTAAT-AAGAGTAT
* * * *
15824309 TATCCCT-AAAAAATGATAGAATAAGTAATAA-AG-AT
1 TTTCCTTAAAAAAATAAAAGAATAAGTAATAAGAGTAT
* **
15824344 GTTTTCTT--AAAAATAGTAGAATAAGTAAT
1 -TTTCCTTAAAAAAATAAAAGAATAAGTAAT
15824373 GAAAATATTT
Statistics
Matches: 222, Mismatches: 40, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
34 8 0.04
35 53 0.24
36 56 0.25
37 38 0.17
38 21 0.09
39 29 0.13
40 17 0.08
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (38 bp):
TTTCCTTAAAAAAATAAAAGAATAAGTAATAAGAGTAT
Found at i:15824263 original size:111 final size:111
Alignment explanation
Indices: 15824058--15824265 Score: 283
Period size: 111 Copynumber: 1.9 Consensus size: 111
15824048 CGTTTCCTTA
* * * * * * *
15824058 AAAAATAGAAAAATTAGTAATAAGAGTATTTTCCTTAAGAAAAATAAAAGAATAAGTAATGTGAG
1 AAAAATAGAAAAATAAATAATAAAAGTATTTTCCTAAAAAAAAATAAAAGAACAAGTAATGTGAA
* *
15824123 TATTTCTCTAAAAAAATAAGAGAATAAGTAATATAAATATTTTTTG
66 TATTTCTCTAAAAAAATAAGAAAACAAGTAATATAAATATTTTTTG
* *
15824169 AAAAATAGAAAAATAAATAATAAAAGTGTTTTCCTAAAAAAAAAATAGAAGAACAAGTAATGTGA
1 AAAAATAGAAAAATAAATAATAAAAGTATTTTCCT-AAAAAAAAATAAAAGAACAAGTAATGTGA
* *
15824234 ATATTTC-CTTAAAAAATAATAAAACAAGTAAT
65 ATATTTCTCTAAAAAAATAAGAAAACAAGTAAT
15824266 TGGTGTTTCC
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
111 52 0.63
112 31 0.37
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.28
Consensus pattern (111 bp):
AAAAATAGAAAAATAAATAATAAAAGTATTTTCCTAAAAAAAAATAAAAGAACAAGTAATGTGAA
TATTTCTCTAAAAAAATAAGAAAACAAGTAATATAAATATTTTTTG
Found at i:15824364 original size:35 final size:35
Alignment explanation
Indices: 15824317--15824391 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 35
15824307 TTTATCCCTA
*
15824317 AAAAATGATAGAATAAGTAAT-AAAGATGTTTTCTT
1 AAAAATGATAGAATAAGTAATGAAA-ATATTTTCTT
*
15824352 AAAAAT-AGTAGAATAAGTAATGAAAATATTTTTTT
1 AAAAATGA-TAGAATAAGTAATGAAAATATTTTCTT
15824387 AAAAA
1 AAAAA
15824392 ATAGGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
34 1 0.03
35 32 0.89
36 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.12, T:0.33
Consensus pattern (35 bp):
AAAAATGATAGAATAAGTAATGAAAATATTTTCTT
Found at i:15827848 original size:40 final size:40
Alignment explanation
Indices: 15827782--15827894 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 40
15827772 TGAATAGTTG
* * *
15827782 TTCTGTAAAATAACATTAGCTAAAATAGTTTTATCATCTA
1 TTCTGTAAAATAACTTTAGCTAAAATAGTCTTATCACCTA
* * * *
15827822 TTCTGTAAAATAATCTTTA-TTGAAATAGTCTTATTACCTG
1 TTCTGTAAAATAA-CTTTAGCTAAAATAGTCTTATCACCTA
* *
15827862 TTCCGTAAAATAACTTTCA-CTAAAATAATCTTA
1 TTCTGTAAAATAACTTT-AGCTAAAATAGTCTTA
15827895 ACATTTGTTC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 4 0.07
40 52 0.87
41 4 0.07
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (40 bp):
TTCTGTAAAATAACTTTAGCTAAAATAGTCTTATCACCTA
Found at i:15829974 original size:27 final size:27
Alignment explanation
Indices: 15829936--15829989 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
15829926 TCAGGGTCAC
*
15829936 GCTACATTCTTGTCAGAGATAATCTAA
1 GCTAAATTCTTGTCAGAGATAATCTAA
15829963 GCTAAATTCTTGTCAGAGATAATCTAA
1 GCTAAATTCTTGTCAGAGATAATCTAA
15829990 AATTTGTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (27 bp):
GCTAAATTCTTGTCAGAGATAATCTAA
Found at i:15831590 original size:31 final size:31
Alignment explanation
Indices: 15831558--15831617 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
15831548 TAATAATTTA
15831558 TATAT-TTAT-ATTATAT-TTTATATAAAAAT
1 TATATGTTATAATT-TATGTTTATATAAAAAT
15831587 TATATGTTATAATTTATGTTTATATAAAAAT
1 TATATGTTATAATTTATGTTTATATAAAAAT
15831618 ATAAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 5 0.18
30 7 0.25
31 16 0.57
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATATGTTATAATTTATGTTTATATAAAAAT
Found at i:15831687 original size:27 final size:25
Alignment explanation
Indices: 15831657--15831710 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
15831647 TGATTCATAG
15831657 TTTTTATTAAAATTTTAAATTATATTA
1 TTTTTATT--AATTTTAAATTATATTA
* *
15831684 TTTTTATTATTTTTATATTATATTA
1 TTTTTATTAATTTTAAATTATATTA
15831709 TT
1 TT
15831711 AAAATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 17 0.68
27 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTTATTAATTTTAAATTATATTA
Found at i:15831720 original size:16 final size:16
Alignment explanation
Indices: 15831660--15831725 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
15831650 TTCATAGTTT
*
15831660 TTATTAAAATTTTAAA
1 TTATTAAAATTTTATA
**
15831676 TTA-TATTATTTT-TA
1 TTATTAAAATTTTATA
*** *
15831690 TTATTTTTATATTATA
1 TTATTAAAATTTTATA
15831706 TTATTAAAATTTTATA
1 TTATTAAAATTTTATA
15831722 TTAT
1 TTAT
15831726 ATTATATTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
14 4 0.10
15 14 0.36
16 21 0.54
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTAAAATTTTATA
Found at i:15831720 original size:21 final size:21
Alignment explanation
Indices: 15831660--15831730 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 21
15831650 TTCATAGTTT
*
15831660 TTATTAAAATTTTAAATTATA
1 TTATTAAAATTTTATATTATA
* *
15831681 TTATTTTTATTATTTTTATATTATA
1 TTA---TTA-AAATTTTATATTATA
15831706 TTATTAAAATTTTATATTATA
1 TTATTAAAATTTTATATTATA
15831727 TTAT
1 TTAT
15831731 ATTTAAGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 20 0.49
22 3 0.07
24 3 0.07
25 15 0.37
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTAAAATTTTATATTATA
Found at i:15843704 original size:21 final size:21
Alignment explanation
Indices: 15843680--15843731 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
15843670 TTAAATAAAA
*
15843680 AATAATATAAT-TTATAATTTT
1 AATAATA-AATATTATAAATTT
*
15843701 AATAATAATTATTATAAATTT
1 AATAATAAATATTATAAATTT
15843722 AATAA-AAATA
1 AATAATAAATA
15843732 AAATAATACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AATAATAAATATTATAAATTT
Found at i:15843736 original size:29 final size:30
Alignment explanation
Indices: 15843704--15843780 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
15843694 TAATTTTAAT
15843704 AATAATTATTATAAATTTA-ATAAAAATA-A
1 AATAATTA-TATAAATTTATATAAAAATACA
* *
15843733 AATAA-TACATAATTTTTATATAAAAATACA
1 AATAATTATATAA-ATTTATATAAAAATACA
15843763 ATATAATTATATAAATTT
1 A-ATAATTATATAAATTT
15843781 TAGTATTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 4 0.10
28 6 0.15
29 14 0.36
30 2 0.05
31 7 0.18
32 6 0.15
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (30 bp):
AATAATTATATAAATTTATATAAAAATACA
Found at i:15843813 original size:79 final size:79
Alignment explanation
Indices: 15843730--15843887 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 79
15843720 TTAATAAAAA
*
15843730 TAAAATAATACATAATTTTTATATAAAAATACAATATAATTATATAAATTTTAGTATTAGAATAG
1 TAAAATAATACATAATTTTTATATAAAAATACAATATAAATATATAAATTTTAGTATTAGAATAG
15843795 ATGAATCTTGAAAT
66 ATGAATCTTGAAAT
*
15843809 TAAAATAATGCATAATTTTTATATAAAAATACAATATAAATATATAAATTTTAGTATTAGAATAG
1 TAAAATAATACATAATTTTTATATAAAAATACAATATAAATATATAAATTTTAGTATTAGAATAG
15843874 ATGAATCTTGAAAT
66 ATGAATCTTGAAAT
15843888 CTGATTATAG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.39
Consensus pattern (79 bp):
TAAAATAATACATAATTTTTATATAAAAATACAATATAAATATATAAATTTTAGTATTAGAATAG
ATGAATCTTGAAAT
Found at i:15844891 original size:16 final size:16
Alignment explanation
Indices: 15844870--15844900 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15844860 GCCAAAGAAA
15844870 AAAAATTTAAAATTTT
1 AAAAATTTAAAATTTT
*
15844886 AAAAATTTGAAATTT
1 AAAAATTTAAAATTT
15844901 CAATTTAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAATTTAAAATTTT
Found at i:15845350 original size:28 final size:28
Alignment explanation
Indices: 15845249--15845350 Score: 78
Period size: 28 Copynumber: 3.4 Consensus size: 28
15845239 AAAACATAAT
* *
15845249 TTTTTAATTTTATTAAATTTATATATAATAA
1 TTTTAAATTTTATTATATTTATAT-T-AT-A
* *
15845280 TTATTAAAATTTTAAATTATATTAATTTTATA
1 TT-TT-AAATTTT--ATTATATTTATATTATA
* **
15845312 TCTTATTTTTTATTATATTTATATTATA
1 TTTTAAATTTTATTATATTTATATTATA
15845340 TTTTAAATTTT
1 TTTTAAATTTT
15845351 CATATTTACG
Statistics
Matches: 55, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
28 23 0.42
30 5 0.09
31 4 0.07
32 4 0.07
33 8 0.15
34 1 0.02
35 10 0.18
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTAAATTTTATTATATTTATATTATA
Found at i:15859986 original size:22 final size:22
Alignment explanation
Indices: 15859960--15860001 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15859950 CCATTGTCTC
*
15859960 TTTCCATCCTCCTCGGCATCCT
1 TTTCCATCCTCCTCAGCATCCT
* *
15859982 TTTCCGTTCTCCTCAGCATC
1 TTTCCATCCTCCTCAGCATC
15860002 TTTCTCAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.10, C:0.43, G:0.10, T:0.38
Consensus pattern (22 bp):
TTTCCATCCTCCTCAGCATCCT
Found at i:15872466 original size:20 final size:20
Alignment explanation
Indices: 15872429--15872469 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15872419 TTTAATTTTA
*
15872429 TAAAATTTATATATTATTAT
1 TAAAATTTAAATATTATTAT
15872449 TAAAATTTAAAT-TATATTAT
1 TAAAATTTAAATAT-TATTAT
15872469 T
1 T
15872470 TTTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAAATTTAAATATTATTAT
Found at i:15872476 original size:11 final size:11
Alignment explanation
Indices: 15872460--15872510 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
15872450 AAAATTTAAA
15872460 TTATATTATTT
1 TTATATTATTT
15872471 TTATATTA-TT
1 TTATATTATTT
*
15872481 TTAT-TTA-TA
1 TTATATTATTT
15872490 TTATATT-TATT
1 TTATATTAT-TT
15872501 TTATATTATT
1 TTATATTATT
15872511 ATATTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
9 8 0.24
10 8 0.24
11 17 0.50
12 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATATTATTT
Found at i:15872481 original size:25 final size:25
Alignment explanation
Indices: 15872453--15872535 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
15872443 TATTATTAAA
15872453 ATTTAAATTATATTATTTTTATATT
1 ATTTAAATTATATTATTTTTATATT
* * * *
15872478 ATTTTATTTATATTATATTTATTTT
1 ATTTAAATTATATTATTTTTATATT
* *
15872503 ATATT--ATTATATTTTATTTTAAATT
1 AT-TTAAATTATATTAT-TTTTATATT
15872528 A-TTAAATT
1 ATTTAAATT
15872536 TTGTTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
23 2 0.04
24 8 0.18
25 33 0.73
26 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTTAAATTATATTATTTTTATATT
Found at i:15872493 original size:19 final size:18
Alignment explanation
Indices: 15872459--15872531 Score: 75
Period size: 16 Copynumber: 4.2 Consensus size: 18
15872449 TAAAATTTAA
15872459 ATTATATTATTTT-TA-T
1 ATTATATTATTTTATATT
*
15872475 ATTATTTTA-TTTATATT
1 ATTATATTATTTTATATT
15872492 A-TAT-TTATTTTATATT
1 ATTATATTATTTTATATT
*
15872508 ATTATATTTTATTTTAAATT
1 ATTATA--TTATTTTATATT
15872528 ATTA
1 ATTA
15872532 AATTTTGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
15 6 0.12
16 22 0.46
17 5 0.10
20 15 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTATATTATTTTATATT
Found at i:15872493 original size:30 final size:30
Alignment explanation
Indices: 15872443--15872530 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
15872433 ATTTATATAT
* *
15872443 TATTATTAAAATTTAAATTATATTATTTTTA
1 TATTATT-ATATTTATATTATATTATTTTTA
*
15872474 TATTATTTTATTTATATTATATT-TATTTTA
1 TATTATTATATTTATATTATATTAT-TTTTA
* *
15872504 TATTATTATATTTTATTTTAAATTATT
1 TATTATTATA-TTTATATTATATTATT
15872531 AAATTTTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.02
30 27 0.56
31 19 0.40
32 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TATTATTATATTTATATTATATTATTTTTA
Found at i:15872515 original size:5 final size:5
Alignment explanation
Indices: 15872459--15872509 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
15872449 TAAAATTTAA
* * *
15872459 ATTAT ATTATT TTTAT ATTAT TTTAT -TTAT ATTAT ATTTAT TTTAT ATTAT
1 ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT
15872510 TATATTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
4 4 0.11
5 26 0.68
6 8 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (5 bp):
ATTAT
Found at i:15872520 original size:5 final size:5
Alignment explanation
Indices: 15872469--15872523 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
15872459 ATTATATTAT
* * * *
15872469 TTTTA TATTA TTTTA -TTTA TATTA TATTTA TTTTA TATTA TTATA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA
15872519 TTTTA
1 TTTTA
15872524 AATTATTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
4 4 0.10
5 32 0.80
6 4 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:15872528 original size:20 final size:20
Alignment explanation
Indices: 15872488--15872542 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
15872478 ATTTTATTTA
*
15872488 TATTATA-TTTATTTTATAT
1 TATTATATTTTATTTTAAAT
15872507 TATTATATTTTATTTTAAAT
1 TATTATATTTTATTTTAAAT
* *
15872527 TATTAAATTTTGTTTT
1 TATTATATTTTATTTT
15872543 TCTCACACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 7 0.22
20 25 0.78
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTATATTTTATTTTAAAT
Found at i:15874357 original size:1 final size:1
Alignment explanation
Indices: 15874353--15874381 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
15874343 TTTAGCGCTG
15874353 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15874382 ATTATGTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:15874453 original size:17 final size:17
Alignment explanation
Indices: 15874431--15874467 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
15874421 TTCTTTCAAT
15874431 CTTCCTTTATTAGTAGA
1 CTTCCTTTATTAGTAGA
15874448 CTTCCTTTATTAGTAGA
1 CTTCCTTTATTAGTAGA
15874465 CTT
1 CTT
15874468 ATATCTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.49
Consensus pattern (17 bp):
CTTCCTTTATTAGTAGA
Found at i:15877198 original size:2 final size:2
Alignment explanation
Indices: 15877191--15877218 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15877181 AGAAAGATCC
15877191 AT AT AT 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
15877219 TCAATTTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15878003 original size:76 final size:71
Alignment explanation
Indices: 15877867--15878012 Score: 154
Period size: 73 Copynumber: 2.0 Consensus size: 71
15877857 TTAGTAATAA
*
15877867 TTATAAATAAATATAATAAAATTAAAATTTTATATTTTATATTTTCATATAAATAAAATTA-TAA
1 TTATAAATAAATATAATAAAATTAAAATTTTATATTTTATA--TTAATATAAATAAAATTACTAA
15877931 TAATAATTT
64 -AATAATTT
* *
15877940 TTATAAA-AAATATTATATAAATATATAATTTTTAATATTTTATA-TAATATAAATACATGAATT
1 TTATAAATAAATATAATA-AAAT-TA-AAATTTT-ATATTTTATATTAATATAAATA-A--AATT
15878003 ACTAAAATAA
59 ACTAAAATAA
15878013 AAAAATCCAA
Statistics
Matches: 62, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
72 9 0.15
73 21 0.34
74 3 0.05
75 6 0.10
76 20 0.32
77 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.45
Consensus pattern (71 bp):
TTATAAATAAATATAATAAAATTAAAATTTTATATTTTATATTAATATAAATAAAATTACTAAAA
TAATTT
Found at i:15881520 original size:8 final size:8
Alignment explanation
Indices: 15881507--15881531 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15881497 ATTTAATTCA
15881507 AATTTTAT
1 AATTTTAT
15881515 AATTTTAT
1 AATTTTAT
15881523 AATTTTAT
1 AATTTTAT
15881531 A
1 A
15881532 TATTAATGAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
AATTTTAT
Found at i:15899795 original size:4 final size:4
Alignment explanation
Indices: 15899786--15899852 Score: 89
Period size: 4 Copynumber: 16.8 Consensus size: 4
15899776 CTTCTCTGTT
* * * * *
15899786 CATA CATA CATG CATG CATG CATG CATA CATG CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
15899834 CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CAT
15899853 GCATGCATGC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:15899811 original size:12 final size:12
Alignment explanation
Indices: 15899786--15899869 Score: 96
Period size: 12 Copynumber: 7.0 Consensus size: 12
15899776 CTTCTCTGTT
*
15899786 CATACATACATG
1 CATACATGCATG
*
15899798 CATGCATGCATG
1 CATACATGCATG
*
15899810 CATACATGCATA
1 CATACATGCATG
* *
15899822 CATACATACATA
1 CATACATGCATG
* *
15899834 CATACATACATA
1 CATACATGCATG
15899846 CATACATGCATG
1 CATACATGCATG
*
15899858 CATGCATGCATG
1 CATACATGCATG
15899870 AGCATTCAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 64 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (12 bp):
CATACATGCATG
Found at i:15899857 original size:4 final size:4
Alignment explanation
Indices: 15899794--15899869 Score: 71
Period size: 4 Copynumber: 19.0 Consensus size: 4
15899784 TTCATACATA
* * * * * * *
15899794 CATG CATG CATG CATG CATA CATG CATA CATA CATA CATA CATA CATA
1 CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG CATG
* *
15899842 CATA CATA CATG CATG CATG CATG CATG
1 CATG CATG CATG CATG CATG CATG CATG
15899870 AGCATTCAGG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 68 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (4 bp):
CATG
Found at i:15899869 original size:8 final size:8
Alignment explanation
Indices: 15899786--15899868 Score: 85
Period size: 8 Copynumber: 10.4 Consensus size: 8
15899776 CTTCTCTGTT
*
15899786 CATACATA
1 CATACATG
*
15899794 CATGCATG
1 CATACATG
*
15899802 CATGCATG
1 CATACATG
15899810 CATACATG
1 CATACATG
*
15899818 CATACATA
1 CATACATG
*
15899826 CATACATA
1 CATACATG
*
15899834 CATACATA
1 CATACATG
*
15899842 CATACATA
1 CATACATG
*
15899850 CATGCATG
1 CATACATG
*
15899858 CATGCATG
1 CATACATG
15899866 CAT
1 CAT
15899869 GAGCATTCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 69 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (8 bp):
CATACATG
Found at i:15903379 original size:23 final size:23
Alignment explanation
Indices: 15903338--15903405 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
15903328 ATATCACATA
*
15903338 ATAAAAAAATCATGCAATAAATC
1 ATAAAAAAATCATGCAATAAAAC
* * *
15903361 ATAAAAACATTATGTAATAAAAC
1 ATAAAAAAATCATGCAATAAAAC
* *
15903384 ATACAAATAA-CATGCAAAAAAA
1 ATA-AAAAAATCATGCAATAAAA
15903406 TCAATAATTA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 31 0.89
24 4 0.11
ACGTcount: A:0.63, C:0.12, G:0.04, T:0.21
Consensus pattern (23 bp):
ATAAAAAAATCATGCAATAAAAC
Found at i:15903448 original size:19 final size:19
Alignment explanation
Indices: 15903426--15903467 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15903416 TGCAATATAC
*
15903426 AAATAAGCATGCAATTAAT
1 AAATAAGCATGCAAGTAAT
* *
15903445 AAATAATCATGTAAGTAAT
1 AAATAAGCATGCAAGTAAT
15903464 AAAT
1 AAAT
15903468 TATCATACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.29
Consensus pattern (19 bp):
AAATAAGCATGCAAGTAAT
Found at i:15903487 original size:20 final size:20
Alignment explanation
Indices: 15903462--15903509 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
15903452 CATGTAAGTA
15903462 ATAAATTATCATACAAATAT
1 ATAAATTATCATACAAATAT
* *
15903482 ATAAATTATTATGCAAATAT
1 ATAAATTATCATACAAATAT
15903502 ATAAATTA
1 ATAAATTA
15903510 CTCTAACGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAATTATCATACAAATAT
Found at i:15903764 original size:20 final size:20
Alignment explanation
Indices: 15903733--15903806 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
15903723 TAAATCATGC
15903733 AAATAA-CATGCAAACA-AA
1 AAATAATCATGCAAACATAA
* *
15903751 TCAATAATCATGCAAATATAA
1 -AAATAATCATGCAAACATAA
** *
15903772 AAATAATCATGCAAGTATAT
1 AAATAATCATGCAAACATAA
*
15903792 AAATTATCATGCAAA
1 AAATAATCATGCAAA
15903807 TAATAAATCA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
19 5 0.11
20 39 0.85
21 2 0.04
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (20 bp):
AAATAATCATGCAAACATAA
Found at i:15903784 original size:40 final size:40
Alignment explanation
Indices: 15903733--15903813 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
15903723 TAAATCATGC
*
15903733 AAATAACATGCAAACAAATCAATAATCATGCAAAT-ATAA
1 AAATAACATGCAAACAAATAAATAATCATGCAAATAATAA
** * *
15903772 AAATAATCATGCAAGTATATAAATTATCATGCAAATAATAA
1 AAATAA-CATGCAAACAAATAAATAATCATGCAAATAATAA
15903813 A
1 A
15903814 TCACACCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 6 0.17
40 24 0.69
41 5 0.14
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.25
Consensus pattern (40 bp):
AAATAACATGCAAACAAATAAATAATCATGCAAATAATAA
Found at i:15908265 original size:17 final size:19
Alignment explanation
Indices: 15908243--15908288 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
15908233 AAATAAATAG
15908243 AATAAAAATAAA-A-CTAA
1 AATAAAAATAAAGACCTAA
15908260 AAT-AAAATAAAGACCTAA
1 AATAAAAATAAAGACCTAA
*
15908278 AA-AAATATAAA
1 AATAAAAATAAA
15908289 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 8 0.32
17 4 0.16
18 13 0.52
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (19 bp):
AATAAAAATAAAGACCTAA
Found at i:15920801 original size:18 final size:16
Alignment explanation
Indices: 15920767--15920804 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
15920757 TTAAATTATT
15920767 AGAAAAAATAAATAAA
1 AGAAAAAATAAATAAA
15920783 AGAAAGAAATAATATAAA
1 AGAAA-AAATAA-ATAAA
15920801 AGAA
1 AGAA
15920805 TTTTAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (16 bp):
AGAAAAAATAAATAAA
Found at i:15927885 original size:2 final size:2
Alignment explanation
Indices: 15927878--15927902 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15927868 GACGGCAAAT
15927878 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
15927903 TTTTACAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15931529 original size:5 final size:5
Alignment explanation
Indices: 15931508--15931548 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
15931498 AAAAAGTTGG
*
15931508 AAAG- AAAG- AAAGT AAAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
15931549 TACTTATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
4 8 0.23
5 27 0.77
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:15931597 original size:2 final size:2
Alignment explanation
Indices: 15931590--15931637 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
15931580 CCCCCTCTAG
* *
15931590 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
15931631 TT AT AT A
1 AT AT AT A
15931638 CGGATGGGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:15935677 original size:28 final size:28
Alignment explanation
Indices: 15935643--15935733 Score: 155
Period size: 28 Copynumber: 3.2 Consensus size: 28
15935633 CCGTTTTACA
15935643 TAAACTCTTCACTCTTATATGGAGTCTC
1 TAAACTCTTCACTCTTATATGGAGTCTC
*
15935671 TGAACTCTTCACTCTTATATGGAGTCTC
1 TAAACTCTTCACTCTTATATGGAGTCTC
*
15935699 TAAACTCTTCACTCTTATACGGAGTCTC
1 TAAACTCTTCACTCTTATATGGAGTCTC
*
15935727 TAGACTC
1 TAAACTC
15935734 AAAGGCATCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.37
Consensus pattern (28 bp):
TAAACTCTTCACTCTTATATGGAGTCTC
Found at i:15945110 original size:17 final size:17
Alignment explanation
Indices: 15945085--15945123 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
15945075 AAAGGTATGA
*
15945085 AAAAACTTTAAAGGTCG
1 AAAAACTTTAAAGATCG
* *
15945102 AAAAGCTTTTAAGATCG
1 AAAAACTTTAAAGATCG
15945119 AAAAA
1 AAAAA
15945124 TTCATGTTGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (17 bp):
AAAAACTTTAAAGATCG
Found at i:15950396 original size:26 final size:26
Alignment explanation
Indices: 15950362--15950414 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
15950352 GCAGGTTAAA
*
15950362 AAGTCAATATATAAACATTAAGCATT
1 AAGTCAATATATAAACACTAAGCATT
15950388 AAGTCAATATATAAACACTAAGCATT
1 AAGTCAATATATAAACACTAAGCATT
15950414 A
1 A
15950415 GCTCCTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (26 bp):
AAGTCAATATATAAACACTAAGCATT
Found at i:15950579 original size:29 final size:29
Alignment explanation
Indices: 15950544--15950602 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
15950534 AGCTTTATAG
*
15950544 TGAAACTTATTAAAATTGGTAATTTATTC
1 TGAAACTTAATAAAATTGGTAATTTATTC
15950573 TGAAACTTAATAAAATTGGTAATTTATTC
1 TGAAACTTAATAAAATTGGTAATTTATTC
15950602 T
1 T
15950603 ATCTTTATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (29 bp):
TGAAACTTAATAAAATTGGTAATTTATTC
Found at i:15955104 original size:2 final size:2
Alignment explanation
Indices: 15955091--15955128 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
15955081 CGTAAAGAGG
* *
15955091 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15955129 TATTTGAACG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15971794 original size:4 final size:4
Alignment explanation
Indices: 15971785--15971838 Score: 90
Period size: 4 Copynumber: 13.0 Consensus size: 4
15971775 CTACTTACCT
15971785 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTTG TTTTG
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG -TTTG -TTTG
15971835 TTTG
1 TTTG
15971839 GGTTACAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 40 0.82
5 9 0.18
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTTG
Found at i:15972635 original size:1 final size:1
Alignment explanation
Indices: 15972629--15972655 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
15972619 GCCTTTAAAG
15972629 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
15972656 GGTTGACCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15978226 original size:41 final size:39
Alignment explanation
Indices: 15978064--15979179 Score: 1763
Period size: 39 Copynumber: 28.2 Consensus size: 39
15978054 NNNNNNNNNN
15978064 GAGGAGCAATTTA-TTTTCAAAGTTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTTA
15978103 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
15978142 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
15978181 GAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTA
15978222 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
15978261 GAGGAGCAATTTACTTTTCAAAGTCG-TGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
15978299 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
15978338 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
15978377 GAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTA
15978418 GAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTA
15978459 GAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTA
15978500 GAGGAGCAATTTA-TTTTCAAAGTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
15978538 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTG-TTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
*
15978576 GAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTA
15978617 GAGGAGCAATTTA-TTTTCAAAGTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
15978655 GAGGAGCAATTTAC-TTTCAAAGTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
**
15978693 GAGGAGCAATTTTTTTTTCAAAGTCGTTGCCTC--TTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
15978730 GAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTTA
*
15978770 GAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTA
15978811 GAGGAGCAATTT--TTTTCAAAGTCGTGGTGCCTC--TTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTA
15978848 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
*
15978887 GAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTA
15978928 GAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAG-TCGTTGCCTCTGTTTA
*
15978968 GAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGA
1 GAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTA
* *
15979009 GAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGA
1 GAGGAGCAATTTACTTTTCAAAGTCGT--TGCCTCTGTTTA
* *
15979050 GAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGA
1 GAGGAGCAATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTA
*
15979092 GAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGT-CGTTGCCTCTGTTTA
*
15979132 GAGGAGCAATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTA
1 GAGGAGCAATTTACTTTTC-AAAGTCGTT--GCCTCTGTTTA
15979173 GAGGAGC
1 GAGGAGC
15979180 TTCGGCCAAA
Statistics
Matches: 1031, Mismatches: 15, Indels: 60
0.93 0.01 0.05
Matches are distributed among these distances:
37 47 0.05
38 163 0.16
39 329 0.32
40 134 0.13
41 312 0.30
42 46 0.04
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (39 bp):
GAGGAGCAATTTACTTTTCAAAGTCGTTGCCTCTGTTTA
Found at i:15979208 original size:11 final size:10
Alignment explanation
Indices: 15979187--15979276 Score: 96
Period size: 10 Copynumber: 9.0 Consensus size: 10
15979177 AGCTTCGGCC
15979187 AAAAAAAAA-
1 AAAAAAAAAT
**
15979196 AAAAATCAA-
1 AAAAAAAAAT
15979205 AAAAAAAAAT
1 AAAAAAAAAT
15979215 AAAAAAAAA-
1 AAAAAAAAAT
**
15979224 ATCAAAAAAT
1 AAAAAAAAAT
15979234 AAAAAAAAAT
1 AAAAAAAAAT
15979244 AAAAACAAAAT
1 AAAAA-AAAAT
15979255 AAAAAAAAAT
1 AAAAAAAAAT
15979265 CAAAAATAAAAT
1 -AAAAA-AAAAT
15979277 GTTGAGTTGA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
9 21 0.31
10 27 0.40
11 15 0.22
12 5 0.07
ACGTcount: A:0.86, C:0.04, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:15979237 original size:29 final size:27
Alignment explanation
Indices: 15979187--15979275 Score: 96
Period size: 29 Copynumber: 3.3 Consensus size: 27
15979177 AGCTTCGGCC
*
15979187 AAAA-AAAAAAAAAATCAAAAA---AA
1 AAAATAAAAAAAAAATAAAAAAAAAAA
15979210 AAAATAAAAAAAAAATCAAAAAATAAAAA
1 AAAATAAAAAAAAAAT-AAAAAA-AAAAA
* *
15979239 AAAATAAAAACAAAATAAAAAAAAATCA
1 AAAATAAAAAAAAAATAAAAAAAAA-AA
15979267 AAAATAAAA
1 AAAATAAAA
15979276 TGTTGAGTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
23 4 0.07
24 11 0.20
25 5 0.09
27 3 0.05
28 16 0.29
29 17 0.30
ACGTcount: A:0.87, C:0.04, G:0.00, T:0.09
Consensus pattern (27 bp):
AAAATAAAAAAAAAATAAAAAAAAAAA
Found at i:15979262 original size:24 final size:22
Alignment explanation
Indices: 15979187--15979263 Score: 100
Period size: 24 Copynumber: 3.4 Consensus size: 22
15979177 AGCTTCGGCC
*
15979187 AAAAAAAAAAAAAATCAAAAAA
1 AAAAAAAAAAAAAAACAAAAAA
15979209 AAAAATAAAAAAAAAATCAAAAAA
1 AAAAA-AAAAAAAAAA-CAAAAAA
* *
15979233 TAAAAAAAAATAAAAACAAAATA
1 -AAAAAAAAAAAAAAACAAAAAA
15979256 AAAAAAAA
1 AAAAAAAA
15979264 TCAAAAATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
22 13 0.27
23 15 0.31
24 16 0.33
25 5 0.10
ACGTcount: A:0.88, C:0.04, G:0.00, T:0.08
Consensus pattern (22 bp):
AAAAAAAAAAAAAAACAAAAAA
Found at i:15979269 original size:7 final size:6
Alignment explanation
Indices: 15979187--15979275 Score: 68
Period size: 5 Copynumber: 15.5 Consensus size: 6
15979177 AGCTTCGGCC
*
15979187 AAAA-A AAAA-A AAAATCA AAAAAA AAAATA AAAA-A AAAATCA AAAA-A
1 AAAATA AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAAT-A AAAATA
*
15979233 TAAAA-A AAAATA AAAA-C AAAAT- AAAA-A AAAATCA AAAATA AAA
1 -AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A AAAATA AAA
15979276 TGTTGAGTTG
Statistics
Matches: 71, Mismatches: 3, Indels: 19
0.76 0.03 0.20
Matches are distributed among these distances:
5 31 0.44
6 24 0.34
7 16 0.23
ACGTcount: A:0.87, C:0.04, G:0.00, T:0.09
Consensus pattern (6 bp):
AAAATA
Found at i:15979270 original size:1 final size:1
Alignment explanation
Indices: 15979187--15979263 Score: 73
Period size: 1 Copynumber: 77.0 Consensus size: 1
15979177 AGCTTCGGCC
** * ** * * *
15979187 AAAAAAAAAAAAAATCAAAAAAAAAAATAAAAAAAAAATCAAAAAATAAAAAAAAATAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
15979252 AATAAAAAAAAA
1 AAAAAAAAAAAA
15979264 TCAAAAATAA
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.88, C:0.04, G:0.00, T:0.08
Consensus pattern (1 bp):
A
Found at i:15979472 original size:3 final size:3
Alignment explanation
Indices: 15979451--15979561 Score: 54
Period size: 3 Copynumber: 35.3 Consensus size: 3
15979441 TCTTCTTTTG
15979451 TAT T-T TAT GTAT T-T TAT TAT TAT TAT TAT GTAT ATATT TATT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT -TA-T TA-T TAT
* * *
15979496 T-T TTT TAT TA- GAT TA- GAT T-T ATAT GTAT ATAGT TAT ATATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT -TA-T TAT -TA-T TAT
15979540 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
15979562 TTTAATTATC
Statistics
Matches: 87, Mismatches: 8, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
2 9 0.10
3 49 0.56
4 26 0.30
5 3 0.03
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:15979491 original size:21 final size:20
Alignment explanation
Indices: 15979451--15979560 Score: 70
Period size: 20 Copynumber: 5.4 Consensus size: 20
15979441 TCTTCTTTTG
*
15979451 TATTTTATGTATTTTATTAT
1 TATTTTATGTATTATATTAT
15979471 TATTATTATGTA-TATATTTATT
1 TATT-TTATGTATTATA-TTA-T
* *
15979493 TATTTT-TTTATTAGATTA-
1 TATTTTATGTATTATATTAT
*
15979511 GATTTATATGTA-TATAGTTA-
1 TATTT-TATGTATTATA-TTAT
15979531 TATATTTAT-TATTATTATTAT
1 TAT-TTTATGTATTA-TATTAT
15979552 TATTATTAT
1 TATT-TTAT
15979561 TTTTAATTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 23
0.70 0.07 0.23
Matches are distributed among these distances:
18 4 0.06
19 6 0.08
20 30 0.42
21 26 0.37
22 5 0.07
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TATTTTATGTATTATATTAT
Found at i:15980134 original size:20 final size:20
Alignment explanation
Indices: 15980109--15980157 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
15980099 TCCGGCGAAC
*
15980109 TTCCGGCGAGATTTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
*
15980129 TTCCGGCAAGAATTTCCAGA
1 TTCCGGCGAGAATTTCCAGA
*
15980149 ATCCGGCGA
1 TTCCGGCGA
15980158 AATCCCACGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAGAATTTCCAGA
Found at i:15980417 original size:14 final size:14
Alignment explanation
Indices: 15980398--15980440 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
15980388 CCGAGCCGAG
15980398 CCGAGCCGTTCTTC-
1 CCGAGCCGTT-TTCT
*
15980412 CCGAGCCGCTTTCT
1 CCGAGCCGTTTTCT
15980426 CCGAGCCGTTTTCT
1 CCGAGCCGTTTTCT
15980440 C
1 C
15980441 TTCTTGAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 3 0.12
14 23 0.88
ACGTcount: A:0.07, C:0.42, G:0.21, T:0.30
Consensus pattern (14 bp):
CCGAGCCGTTTTCT
Found at i:15980538 original size:17 final size:18
Alignment explanation
Indices: 15980487--15980532 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
15980477 CGCTCCAGGT
15980487 TTTTTTTTTTTTTTTGAA
1 TTTTTTTTTTTTTTTGAA
15980505 TTTTTTTTTTTTTTTGAA
1 TTTTTTTTTTTTTTTGAA
15980523 TTTTTTTTTT
1 TTTTTTTTTT
15980533 ATTTGACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.09, C:0.00, G:0.04, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTGAA
Found at i:15980572 original size:13 final size:13
Alignment explanation
Indices: 15980556--15980580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15980546 TTTGATCTGA
15980556 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
15980569 TTTTTTTTTCTT
1 TTTTTTTTTCTT
15980581 AATTAATCCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTCTTT
Found at i:15980867 original size:158 final size:157
Alignment explanation
Indices: 15980571--15981029 Score: 691
Period size: 151 Copynumber: 2.9 Consensus size: 157
15980561 TTTTCTTTTT
* *
15980571 TTTTTTTC-TTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATA
1 TTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATA
*
15980635 CT-TCTGAGGTGAGGGAATTTTTTTTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
65 CTCT-TGAGGTGAGGGAA--TTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAA
* * *
15980699 TTTTCGATAATTAATTACTTGGCTGATTTTGA
127 TTTCCAATAATTAATTACTTGGATGA-TTTGA
*
15980731 TTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGTATAC
1 TTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATAC
*
15980796 TCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATTTC
66 TCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
15980861 CAATAATT-A--A-TTGGATGATTTGA
131 CAATAATTAATTACTTGGATGATTTGA
* *
15980884 --TTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATAC
* *
15980947 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATCATTTC
66 TCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
* *
15981012 CAACAACTAATTACTTGG
131 CAATAATTAATTACTTGG
15981030 TAAATTTTAA
Statistics
Matches: 277, Mismatches: 16, Indels: 17
0.89 0.05 0.05
Matches are distributed among these distances:
151 128 0.46
152 1 0.00
153 5 0.02
154 8 0.03
155 5 0.02
157 1 0.00
158 53 0.19
160 44 0.16
161 32 0.12
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (157 bp):
TTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATAC
TCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
CAATAATTAATTACTTGGATGATTTGA
Found at i:15990950 original size:4 final size:4
Alignment explanation
Indices: 15990927--15990965 Score: 51
Period size: 4 Copynumber: 9.0 Consensus size: 4
15990917 TATTGTAACC
15990927 CAAA CAAAA CAAAA CAAAA CAAA CAAA CAAA CAAA CAAA
1 CAAA C-AAA C-AAA C-AAA CAAA CAAA CAAA CAAA CAAA
15990966 AGGTAAGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 20 0.59
5 14 0.41
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
CAAA
Found at i:16004089 original size:24 final size:24
Alignment explanation
Indices: 16004057--16004103 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
16004047 GACTGCGTTA
*
16004057 ATATTAAAT-TTAATAATTTATATT
1 ATATAAAATATTAA-AATTTATATT
16004081 ATATAAAATATTAAAATTTATAT
1 ATATAAAATATTAAAATTTATAT
16004104 ATTTATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATATAAAATATTAAAATTTATATT
Found at i:16004108 original size:32 final size:33
Alignment explanation
Indices: 16004056--16004173 Score: 109
Period size: 32 Copynumber: 3.5 Consensus size: 33
16004046 TGACTGCGTT
16004056 AATATT-AAATTTA-ATAATTTATATTATATAA
1 AATATTAAAATTTATATAATTTATATTATATAA
**
16004087 AATATTAAAATTTATAT-ATTTATATTATATTT
1 AATATTAAAATTTATATAATTTATATTATATAA
* *
16004119 TATATGAAAATTATATGTTATAATTTATATTGATATGAA
1 AATATTAAAATT-TA---TATAATTTATATT-ATAT-AA
*
16004158 AATA-TAAAATATATAT
1 AATATTAAAATTTATAT
16004174 TTTTATTAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
31 6 0.09
32 30 0.43
33 4 0.06
34 3 0.04
36 3 0.04
37 11 0.16
38 9 0.13
39 3 0.04
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (33 bp):
AATATTAAAATTTATATAATTTATATTATATAA
Found at i:16004221 original size:24 final size:23
Alignment explanation
Indices: 16004168--16004223 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
16004158 AATATAAAAT
* *
16004168 ATATATTTTTATTAAATTTATAT
1 ATATATTATTATTAAATTTATAA
*
16004191 ATA-ATTATTATTAAATTTTTAA
1 ATATATTATTATTAAATTTATAA
16004213 ATCATATTATT
1 AT-ATATTATT
16004224 TTTACGTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 18 0.64
23 4 0.14
24 6 0.21
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATATTATTATTAAATTTATAA
Found at i:16005545 original size:22 final size:22
Alignment explanation
Indices: 16005520--16005571 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
16005510 TCATAATTAC
16005520 GATCATCGTTCACTAGGGTTTT
1 GATCATCGTTCACTAGGGTTTT
*
16005542 GATCATCATTCACTAGGGTTTT
1 GATCATCGTTCACTAGGGTTTT
*
16005564 AATCATCG
1 GATCATCG
16005572 ACTCCCTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (22 bp):
GATCATCGTTCACTAGGGTTTT
Found at i:16007694 original size:9 final size:9
Alignment explanation
Indices: 16007680--16007713 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
16007670 TTCTCTTTCT
16007680 TTTTTTTAA
1 TTTTTTTAA
16007689 TTTTTTTAA
1 TTTTTTTAA
16007698 TTTTTTTAA
1 TTTTTTTAA
16007707 TTTTTTT
1 TTTTTTT
16007714 TTGTTACCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:16008506 original size:2 final size:2
Alignment explanation
Indices: 16008501--16008529 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16008491 ATATATATAT
16008501 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
16008530 TATTAAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16009244 original size:11 final size:11
Alignment explanation
Indices: 16009228--16009278 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
16009218 TTTTTTATTC
16009228 AATTTAAATTA
1 AATTTAAATTA
16009239 AATTTAAATATTA
1 AATTT-AA-ATTA
* * *
16009252 CATATATATTA
1 AATTTAAATTA
16009263 AATTTAAATTA
1 AATTTAAATTA
16009274 AATTT
1 AATTT
16009279 TATATCAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
11 22 0.69
12 3 0.09
13 7 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:16024436 original size:46 final size:46
Alignment explanation
Indices: 16024369--16024456 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
16024359 CTTGCCCATG
*
16024369 GTTGAGACCAGATGTTAAAACTTAACTCACTGTTGAATATAAGATA
1 GTTGAGACCAGATGGTAAAACTTAACTCACTGTTGAATATAAGATA
* *
16024415 GTTGAGACCTGATGGTAAAACTTAAGTCACTGTTGAATATAA
1 GTTGAGACCAGATGGTAAAACTTAACTCACTGTTGAATATAA
16024457 CAATGAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (46 bp):
GTTGAGACCAGATGGTAAAACTTAACTCACTGTTGAATATAAGATA
Found at i:16028527 original size:34 final size:34
Alignment explanation
Indices: 16028489--16028558 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
16028479 TTCTATGCAG
16028489 TGGAATTCAAATGGCTTAATCCGTTCACTACATC
1 TGGAATTCAAATGGCTTAATCCGTTCACTACATC
16028523 TGGAATTCAAATGGCTTAATCCGTTCACTACATC
1 TGGAATTCAAATGGCTTAATCCGTTCACTACATC
16028557 TG
1 TG
16028559 TAACCCGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (34 bp):
TGGAATTCAAATGGCTTAATCCGTTCACTACATC
Found at i:16032604 original size:7 final size:7
Alignment explanation
Indices: 16032592--16032616 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16032582 ATTTAAATTA
16032592 AAATAAT
1 AAATAAT
16032599 AAATAAT
1 AAATAAT
16032606 AAATAAT
1 AAATAAT
16032613 AAAT
1 AAAT
16032617 TTAATGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:16033571 original size:2 final size:2
Alignment explanation
Indices: 16033564--16033610 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
16033554 TAAGTCTGGA
16033564 AT AT AT AT AT AT AT AT AT AT 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 AT AT
16033606 AT AT A
1 AT AT A
16033611 CTTACAGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16033846 original size:2 final size:2
Alignment explanation
Indices: 16033785--16033826 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
16033775 CATACATGGC
16033785 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16033826 T
1 T
16033827 TGGTCGATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16038714 original size:3 final size:3
Alignment explanation
Indices: 16038708--16038733 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16038698 TGATCTTTGT
16038708 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
16038734 GATGGTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16042778 original size:239 final size:237
Alignment explanation
Indices: 16042361--16042840 Score: 915
Period size: 239 Copynumber: 2.0 Consensus size: 237
16042351 TGGAATGCCA
16042361 TGAACTTTTGTTTATACCCTTTCCTGGTACAGATTACTAGACTGCATTACCCAGTCATAGCTTAA
1 TGAACTTTTGTTTATACCCTTTCCTGGTACAGATTACTAGACTGCATTACCCAGTCATAGCTTAA
16042426 AAGAAGGGGGGGGGGGTGTTCGTTTCCTTCTATGCTTTAACTCCAGTTAAGAAGATTCACACTGT
66 AAGAAGGGGGGGGGGGTGTTCGTTTCCTTCTATGCTTTAACTCCAGTTAAGAAGATTCACACTGT
*
16042491 TCATTTTAAGTTGCAGGACAATAGCCTGATTCTGAACTCGAGATAGTTCATAGAAACATTGGTTC
131 TCAATTTAAGTTGCAGGACAATAGCCTGATTCTGAACTCGAGATAGTTCATAGAAACATTGGTTC
16042556 CGCATTGTCCAACTTCTCAAATCACCAAAAACAGTAAATTAT
196 CGCATTGTCCAACTTCTCAAATCACCAAAAACAGTAAATTAT
*
16042598 TGAACTTTTGTTTATACCCTTTCCTGGTACAGATTACTAGACTGCATTACTCAGTCATAGCTTAA
1 TGAACTTTTGTTTATACCCTTTCCTGGTACAGATTACTAGACTGCATTACCCAGTCATAGCTTAA
16042663 AAGAAGGGGGGGGGGGGGTGTTCGTTTCCTTCTATGCTTTAACTCCAGTTAAGAAGATTCACACT
66 AAGAA--GGGGGGGGGGGTGTTCGTTTCCTTCTATGCTTTAACTCCAGTTAAGAAGATTCACACT
*
16042728 GTTCAATTTAAGTTGCAGGACAATAGCCTGATTCTGAACTCGAGATAGTTCATAGAAATATTGGT
129 GTTCAATTTAAGTTGCAGGACAATAGCCTGATTCTGAACTCGAGATAGTTCATAGAAACATTGGT
16042793 TCCGCATTGTCCAACTTCTCAAATCACCAAAAACAGTAAATTAT
194 TCCGCATTGTCCAACTTCTCAAATCACCAAAAACAGTAAATTAT
16042837 TGAA
1 TGAA
16042841 ATTTAACTCA
Statistics
Matches: 238, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
237 69 0.29
239 169 0.71
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (237 bp):
TGAACTTTTGTTTATACCCTTTCCTGGTACAGATTACTAGACTGCATTACCCAGTCATAGCTTAA
AAGAAGGGGGGGGGGGTGTTCGTTTCCTTCTATGCTTTAACTCCAGTTAAGAAGATTCACACTGT
TCAATTTAAGTTGCAGGACAATAGCCTGATTCTGAACTCGAGATAGTTCATAGAAACATTGGTTC
CGCATTGTCCAACTTCTCAAATCACCAAAAACAGTAAATTAT
Found at i:16044805 original size:16 final size:17
Alignment explanation
Indices: 16044781--16044814 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16044771 CAAAGAGGAG
*
16044781 AGGGGAAAA-AATGGGC
1 AGGGAAAAATAATGGGC
16044797 AGGGAAAAATAATGGGC
1 AGGGAAAAATAATGGGC
16044814 A
1 A
16044815 TCTTCCCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.47, C:0.06, G:0.38, T:0.09
Consensus pattern (17 bp):
AGGGAAAAATAATGGGC
Found at i:16057467 original size:2 final size:2
Alignment explanation
Indices: 16057460--16057485 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16057450 TTCCACATGC
16057460 AT AT 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
16057486 GCACTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16057681 original size:2 final size:2
Alignment explanation
Indices: 16057676--16057705 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16057666 ATATATATAT
16057676 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16057706 GATTTTCGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16057882 original size:12 final size:12
Alignment explanation
Indices: 16057867--16057895 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16057857 AAATAGTAAT
16057867 AATAATAATAAA
1 AATAATAATAAA
16057879 AATAATAATAAA
1 AATAATAATAAA
16057891 AATAA
1 AATAA
16057896 AATTTTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:16073502 original size:2 final size:2
Alignment explanation
Indices: 16073495--16073537 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
16073485 TATGAAGACA
16073495 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16073537 A
1 A
16073538 CGTAAAGCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16073896 original size:4 final size:4
Alignment explanation
Indices: 16073887--16073920 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
16073877 TCATGATAAG
16073887 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
16073921 GGAGTTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:16082763 original size:2 final size:2
Alignment explanation
Indices: 16082751--16082780 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16082741 ACCACATTAA
*
16082751 AT AT GT AT 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
16082781 GGATTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16084542 original size:18 final size:19
Alignment explanation
Indices: 16084508--16084545 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16084498 AATCAAACTT
16084508 AGAACACATAAAAAATTTA
1 AGAACACATAAAAAATTTA
* *
16084527 AGAACACATCAAAATTTTA
1 AGAACACATAAAAAATTTA
16084546 TTCATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (19 bp):
AGAACACATAAAAAATTTA
Found at i:16088544 original size:16 final size:16
Alignment explanation
Indices: 16088519--16088549 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16088509 ATATATTTAA
16088519 AATAACAAAAAATAAT
1 AATAACAAAAAATAAT
*
16088535 AATAATAAAAAATAA
1 AATAACAAAAAATAA
16088550 AAAAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAACAAAAAATAAT
Found at i:16089269 original size:17 final size:17
Alignment explanation
Indices: 16089249--16089287 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
16089239 TTCGTTTTGG
16089249 TTTTT-GTTTCTATTTTT
1 TTTTTAGTTTCT-TTTTT
16089266 TTTTTACGTTTCTTTTTT
1 TTTTTA-GTTTCTTTTTT
16089284 TTTT
1 TTTT
16089288 CGGTTGGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.05, C:0.08, G:0.05, T:0.82
Consensus pattern (17 bp):
TTTTTAGTTTCTTTTTT
Found at i:16089594 original size:12 final size:12
Alignment explanation
Indices: 16089560--16089604 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
16089550 ATTCTGTTTC
*
16089560 TTTTGTTTGTTT
1 TTTTGTTTATTT
*
16089572 TCTT-TTT-TTT
1 TTTTGTTTATTT
16089582 TTTTGTTTATTT
1 TTTTGTTTATTT
16089594 TTTTGTTTATT
1 TTTTGTTTATT
16089605 AATAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 6 0.21
11 6 0.21
12 17 0.59
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.84
Consensus pattern (12 bp):
TTTTGTTTATTT
Found at i:16089595 original size:18 final size:18
Alignment explanation
Indices: 16089560--16089601 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
16089550 ATTCTGTTTC
16089560 TTTTGTTTGTTTTCTTTT
1 TTTTGTTTGTTTTCTTTT
* *
16089578 TTTTTTTTG-TTT-ATTT
1 TTTTGTTTGTTTTCTTTT
16089594 TTTTGTTT
1 TTTTGTTT
16089602 ATTAATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 10 0.48
17 3 0.14
18 8 0.38
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (18 bp):
TTTTGTTTGTTTTCTTTT
Found at i:16089619 original size:15 final size:16
Alignment explanation
Indices: 16089599--16089640 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
16089589 TATTTTTTTG
16089599 TTTATTAATAAAT-TT
1 TTTATTAATAAATATT
16089614 TTTATTAA-AAATATT
1 TTTATTAATAAATATT
* *
16089629 ATTATTATTAAA
1 TTTATTAATAAA
16089641 AAATAGTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 4 0.17
15 16 0.70
16 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTATTAATAAATATT
Found at i:16089845 original size:49 final size:49
Alignment explanation
Indices: 16089788--16090268 Score: 575
Period size: 48 Copynumber: 9.8 Consensus size: 49
16089778 TAATTTTTTT
*
16089788 TTGAAAAAGCTCCTCTCAACAAAGGCTCCACAACTTTAAAATTCTCATC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
* * * * **
16089837 TTGGAAAAGCTCTTCTGCTCTCAGCAGAGGTTCAACAACTTTAAAATT-TTTTC
1 TTGAAAAAG--C-TC--CTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
* **
16089890 TTGAAAAAGCTCCTCTCAATAGAGGCTTTACAACTTTAAAATTCTCATC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
* * * * **
16089939 TTGGAAAAGCTCCTCTCACCAGAGGTTCAACAACTTTAAAATT-TTTTC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
16089987 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
* * * * * **
16090036 TTGGAAAAGCTCCTCTCACCAAAGGTTCAACAACTTTAAAATT-TTTTC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
* *
16090084 TTGAAAAAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAA--ATC-TC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
*
16090130 TTGAAAAAAGCTCCTCTCAGCAGAGGCTCCACAACTTTAAAA-TCTCATC
1 TTG-AAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
16090179 -TGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TCTCATC
1 TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
* *
16090226 TTGAAAAAAAGCTCATCTCAGCAGAGGCTCCACAACTTTAAAA
1 TTG--AAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA
16090269 ATCTTTCTTC
Statistics
Matches: 369, Mismatches: 49, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
46 5 0.01
47 81 0.22
48 112 0.30
49 91 0.25
50 38 0.10
51 2 0.01
52 2 0.01
53 11 0.03
54 27 0.07
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.28
Consensus pattern (49 bp):
TTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATC
Found at i:16090011 original size:97 final size:97
Alignment explanation
Indices: 16089779--16090277 Score: 693
Period size: 97 Copynumber: 5.1 Consensus size: 97
16089769 ATTTTTTTTT
* *
16089779 AATTTTTTTTTGAAAAAGCTCCTCTCAACAAAGGCTCCACAACTTTAAAATTCTCATCTTGGAAA
1 AATTTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAA
16089844 AGCTCTTCTGCTCTCAGCAGAGGTTCAACAACTTTAA
66 AG--C-TC--CTCTCAGCAGAGGTTCAACAACTTTAA
* **
16089881 AATTTTTTCTTGAAAAAGCTCCTCTCAATAGAGGCTTTACAACTTTAAAATTCTCATCTTGGAAA
1 AATTTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAA
*
16089946 AGCTCCTCTCACCAGAGGTTCAACAACTTTAA
66 AGCTCCTCTCAGCAGAGGTTCAACAACTTTAA
16089978 AATTTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAA
1 AATTTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAA
* *
16090043 AGCTCCTCTCACCAAAGGTTCAACAACTTTAA
66 AGCTCCTCTCAGCAGAGGTTCAACAACTTTAA
* * *
16090075 AATTTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTTCACAACTTTAAAA--ATC-TCTTGAAAA
1 AATTTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTG-GAA
* *
16090137 AAGCTCCTCTCAGCAGAGGCTCCACAACTTTAA
65 AAGCTCCTCTCAGCAGAGGTTCAACAACTTTAA
* ** *
16090170 AATCTCATC-TGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAA-TCTCATCTTGAAAA
1 AATTTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTG--GA
* * *
16090233 AAAGCTCATCTCAGCAGAGGCTCCACAACTTTAA
64 AAAGCTCCTCTCAGCAGAGGTTCAACAACTTTAA
* *
16090267 AAATCTTTCTT
1 AATTTTTTCTT
16090278 CTCTTTCTTT
Statistics
Matches: 364, Mismatches: 28, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
94 44 0.12
95 41 0.11
96 5 0.01
97 208 0.57
98 1 0.00
99 2 0.01
100 1 0.00
102 62 0.17
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (97 bp):
AATTTTTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAA
AGCTCCTCTCAGCAGAGGTTCAACAACTTTAA
Done.