Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 53 of 120
Found at i:15446239 original size:21 final size:21
Alignment explanation
Indices: 15446182--15446241 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
15446172 GGTCGCGACG
15446182 TAGACATGCTATGTTGCAACA
1 TAGACATGCTATGTTGCAACA
** *
15446203 TAG--GGGGT-TGGTTGCAACA
1 TAGACATGCTAT-GTTGCAACA
15446222 TAGACATGCTATGTTGCAAC
1 TAGACATGCTATGTTGCAAC
15446242 GAAGAAGGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
18 1 0.03
19 14 0.48
21 13 0.45
22 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (21 bp):
TAGACATGCTATGTTGCAACA
Found at i:15458345 original size:27 final size:27
Alignment explanation
Indices: 15458283--15458370 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
15458273 TGTACCCACC
*
15458283 ATTCCTTCAGAGTTCACCATGCATATT
1 ATTCCTTCAGAGTTCACCATACATATT
* * *
15458310 GTTCTTTCAGAGTTCACGATACAT-TCT
1 ATTCCTTCAGAGTTCACCATACATAT-T
* ** *
15458337 ATTCCTTCAGACTTTGCCGTACATATT
1 ATTCCTTCAGAGTTCACCATACATATT
*
15458364 GTTCCTT
1 ATTCCTT
15458371 TCTTTCAGGA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
26 1 0.02
27 45 0.96
28 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (27 bp):
ATTCCTTCAGAGTTCACCATACATATT
Found at i:15458474 original size:27 final size:27
Alignment explanation
Indices: 15458440--15458619 Score: 209
Period size: 27 Copynumber: 6.7 Consensus size: 27
15458430 TAAAGTACGT
*
15458440 CACAAAGGCTTCCATTTCATAGATTGT
1 CACAAAGGCTTCCATTTCATAGATTGC
* * * **
15458467 AATC-AAGGATTCCGTTTCATAGATTTT
1 CA-CAAAGGCTTCCATTTCATAGATTGC
*
15458494 CACAAAGGCTTTCATTTCATAGATTGC
1 CACAAAGGCTTCCATTTCATAGATTGC
* * * *
15458521 CACAAAGGTTTCTATTTCATAAATTGG
1 CACAAAGGCTTCCATTTCATAGATTGC
* *
15458548 CACAAAGGCTTCCATTCCATAAATTGC
1 CACAAAGGCTTCCATTTCATAGATTGC
* *
15458575 CACAAATGCTTCTATTTCATAGATTGC
1 CACAAAGGCTTCCATTTCATAGATTGC
15458602 CACAAAGGCTTCCATTTC
1 CACAAAGGCTTCCATTTC
15458620 TAACGTGTTT
Statistics
Matches: 126, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 124 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (27 bp):
CACAAAGGCTTCCATTTCATAGATTGC
Found at i:15462257 original size:20 final size:20
Alignment explanation
Indices: 15462234--15462273 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15462224 ATATATAAAA
15462234 TTTTT-AAAATTCTT-TTGTT
1 TTTTTGAAAATT-TTCTTGTT
15462253 TTTTTGAAAATTTTCTTGTT
1 TTTTTGAAAATTTTCTTGTT
15462273 T
1 T
15462274 GGTGCTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTTTGAAAATTTTCTTGTT
Found at i:15464029 original size:15 final size:17
Alignment explanation
Indices: 15464009--15464041 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15463999 GTTAATGTTT
15464009 ATTC-TTGATTA-ATTG
1 ATTCTTTGATTATATTG
15464024 ATTCTTTGATTATATTG
1 ATTCTTTGATTATATTG
15464041 A
1 A
15464042 GATGCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (17 bp):
ATTCTTTGATTATATTG
Found at i:15469009 original size:194 final size:194
Alignment explanation
Indices: 15468680--15469068 Score: 742
Period size: 194 Copynumber: 2.0 Consensus size: 194
15468670 TCTTACAGCT
*
15468680 TCATTGTATGTGCAATCCAATAAAGGACCATTAGCAGATGTGGCGACAAGATTCCTTGTCTGAGC
1 TCATTGTATGTGCAATCCAATAAAGGACCATTAGCAGATGCGGCGACAAGATTCCTTGTCTGAGC
* *
15468745 ATTCAATCCATTATAAAATATCTATATTTGGGTTTCTTGTTAAATTCCATACATTGGGCAATGTC
66 ATTCAATCCATTATAAAAGATCTATATTTGGGTCTCTTGTTAAATTCCATACATTGGGCAATGTC
15468810 TAAGTAGAGTCTTATAACGCTCCCATGTTGTATGTAAGTTCTCATCATCTAACTGATGATATGC
131 TAAGTAGAGTCTTATAACGCTCCCATGTTGTATGTAAGTTCTCATCATCTAACTGATGATATGC
15468874 TCATTGTATGTGCAATCCAATAAAGGACCATTAGCAGATGCGGCGACAAGATTCCTTGTCTGAGC
1 TCATTGTATGTGCAATCCAATAAAGGACCATTAGCAGATGCGGCGACAAGATTCCTTGTCTGAGC
15468939 ATTCAATCCATTATAAAAGATCTATATTTGGGTCTCTTGTTAAATTCCATACATTGGGCAATGTC
66 ATTCAATCCATTATAAAAGATCTATATTTGGGTCTCTTGTTAAATTCCATACATTGGGCAATGTC
*
15469004 TAAGTAGAGTCTTATAACGCTCCCATGTTGTATGTAAGTTCTCATCATCTAATTGATGATATGC
131 TAAGTAGAGTCTTATAACGCTCCCATGTTGTATGTAAGTTCTCATCATCTAACTGATGATATGC
15469068 T
1 T
15469069 GTAATGTCAT
Statistics
Matches: 191, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
194 191 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (194 bp):
TCATTGTATGTGCAATCCAATAAAGGACCATTAGCAGATGCGGCGACAAGATTCCTTGTCTGAGC
ATTCAATCCATTATAAAAGATCTATATTTGGGTCTCTTGTTAAATTCCATACATTGGGCAATGTC
TAAGTAGAGTCTTATAACGCTCCCATGTTGTATGTAAGTTCTCATCATCTAACTGATGATATGC
Found at i:15482128 original size:11 final size:11
Alignment explanation
Indices: 15482112--15482142 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15482102 AAGTAAATCA
*
15482112 AAGTGTTGTTG
1 AAGTGTTGATG
15482123 AAGTGTTGATG
1 AAGTGTTGATG
15482134 AAGTGTTGA
1 AAGTGTTGA
15482143 GTATTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (11 bp):
AAGTGTTGATG
Found at i:15492999 original size:57 final size:57
Alignment explanation
Indices: 15492907--15493070 Score: 188
Period size: 57 Copynumber: 2.9 Consensus size: 57
15492897 AAAGAGACAA
* * * *
15492907 TTAAAACATGCAAG-GATTCTAATAAATTAAGTAATTCATAAAATATGAAAGTA-TTAC
1 TTAAAACATGAAAGAG-TTTTAAGAAATTAAGTAATTCATAAAACATGAAAG-AGTTAC
* *
15492964 TTAAAACATGAAAGAGTTTTAAGAAATTAATTAATTCATAATACATGAAAGAGTTAC
1 TTAAAACATGAAAGAGTTTTAAGAAATTAAGTAATTCATAAAACATGAAAGAGTTAC
* * * * * *
15493021 TTCAAATATGAAAGAGTGTTAAGAAAGTAAGTAATTCGTAATACATGAAA
1 TTAAAACATGAAAGAGTTTTAAGAAATTAAGTAATTCATAAAACATGAAA
15493071 AAATTATTCA
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
56 1 0.01
57 91 0.98
58 1 0.01
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.30
Consensus pattern (57 bp):
TTAAAACATGAAAGAGTTTTAAGAAATTAAGTAATTCATAAAACATGAAAGAGTTAC
Found at i:15499280 original size:55 final size:56
Alignment explanation
Indices: 15499214--15499324 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 56
15499204 AAATTATAGA
** *
15499214 TTGTAAATTAATTATTCATGATCACTATTCAAA-TTAAAAGTGATGATTTATCATC
1 TTGTAAATTAATTATTCACAAGCACTATTCAAATTTAAAAGTGATGATTTATCATC
15499269 TTGTAAATTAATTATTCACAAGCACTATTCAAATTTAAAAGTGATGATTTATCATC
1 TTGTAAATTAATTATTCACAAGCACTATTCAAATTTAAAAGTGATGATTTATCATC
15499325 GAATAGATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 30 0.58
56 22 0.42
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.41
Consensus pattern (56 bp):
TTGTAAATTAATTATTCACAAGCACTATTCAAATTTAAAAGTGATGATTTATCATC
Found at i:15513403 original size:240 final size:231
Alignment explanation
Indices: 15512986--15513460 Score: 779
Period size: 240 Copynumber: 2.0 Consensus size: 231
15512976 ATTTTAATGA
15512986 TTCAAACAGTTTTAATATCCGTACTACTTTTATGTATTTGTGATTTGAAGATTTGATCCATAGCA
1 TTCAAACAGTTTTAATATCCGTACTACTTTTATGTATTTGTGATTTGAAGATTTGATCCATAGCA
* *
15513051 GCGGTTGTTGAATAATATATAGTATTAAAATATTACACTAAAGAATTTGACCTGATAATTAAAAT
66 GCAGTTGTTGAATAATATATAGTATTAAAATATTACACCAAAGAATTTGACCTGATAATTAAAAT
15513116 ATATTGATTATTTTAGATGTGATATGAATTTGTGTAATACCCAAAAATCCGAACATCGACGCCAG
131 ATATTGATTATTTTAGATGTGATATGAATTTGTGTAATACCCAAAAATCCGAACATCGACGCCAG
*
15513181 TTAAGATTTTCAATGTTTTACTGTTAAATTTCACTG
196 TTAAGATATTCAATGTTTTACTGTTAAATTTCACTG
*
15513217 TTCAAACAGTTTTAATATCCGTACTACTTTTTATGTATTTGTGATTTGAAGATTTGATCCATAGT
1 TTCAAACAGTTTTAATATCCGTACTAC-TTTTATGTATTTGTGATTTGAAGATTTGATCCATAGC
15513282 AGCAGTTGTTGAATAATATATAGTATTAAAAATATTACACCAAAGAATACATGTATTGACCTGAT
65 AGCAGTTGTTGAATAATATATAGTATT-AAAATATTACACCAAAG---A-A--T-TTGACCTGAT
* * * * *
15513347 GATTAAAATATGTTGATTGTTTTAGATGTGATATGAATTTGTGTAATACTCAAAAATCTGAACAT
122 AATTAAAATATATTGATTATTTTAGATGTGATATGAATTTGTGTAATACCCAAAAATCCGAACAT
*
15513412 CGACGCCAGTTAAGATATTCGATGTTTTACTGTTAAATTTCACTG
187 CGACGCCAGTTAAGATATTCAATGTTTTACTGTTAAATTTCACTG
15513457 TTCA
1 TTCA
15513461 TCTTATCATT
Statistics
Matches: 225, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
231 27 0.12
232 62 0.28
233 16 0.07
236 1 0.00
237 1 0.00
239 1 0.00
240 117 0.52
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (231 bp):
TTCAAACAGTTTTAATATCCGTACTACTTTTATGTATTTGTGATTTGAAGATTTGATCCATAGCA
GCAGTTGTTGAATAATATATAGTATTAAAATATTACACCAAAGAATTTGACCTGATAATTAAAAT
ATATTGATTATTTTAGATGTGATATGAATTTGTGTAATACCCAAAAATCCGAACATCGACGCCAG
TTAAGATATTCAATGTTTTACTGTTAAATTTCACTG
Found at i:15515687 original size:11 final size:11
Alignment explanation
Indices: 15515673--15515697 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15515663 TCACAATTCA
15515673 ATTAAAAAATT
1 ATTAAAAAATT
15515684 ATTAAAAAATT
1 ATTAAAAAATT
15515695 ATT
1 ATT
15515698 TTATTTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTAAAAAATT
Found at i:15518760 original size:40 final size:42
Alignment explanation
Indices: 15518694--15518771 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 42
15518684 ATTAAAATAG
* *
15518694 ATAATTAATATAGAAAAAAATTAAATAAATAA-AAAATTTGA
1 ATAATTAATATAGAAAAAAATAAAATAAAGAAGAAAATTTGA
* *
15518735 ATAATTAA-ATAGGACAAAATAAAATAAAGAAGAAAAT
1 ATAATTAATATAGAAAAAAATAAAATAAAGAAGAAAAT
15518772 AAAGCAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.59
41 13 0.41
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.24
Consensus pattern (42 bp):
ATAATTAATATAGAAAAAAATAAAATAAAGAAGAAAATTTGA
Found at i:15530756 original size:27 final size:26
Alignment explanation
Indices: 15530726--15530778 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
15530716 AAAAAAGAAG
*
15530726 ATTTTTTGAAATGTATGTTTATGTTTT
1 ATTTTTTGAAAGGTATGTTTAT-TTTT
**
15530753 ATTTTTTGATGGGTATGTTTATTTTT
1 ATTTTTTGAAAGGTATGTTTATTTTT
15530779 CGATTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (26 bp):
ATTTTTTGAAAGGTATGTTTATTTTT
Found at i:15532963 original size:18 final size:18
Alignment explanation
Indices: 15532942--15532993 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 18
15532932 GCTCGAGACC
15532942 GAGCCTGAGCCTGAGCAT
1 GAGCCTGAGCCTGAGCAT
** ** *
15532960 GAGCCCAAGCCCAAGCTT
1 GAGCCTGAGCCTGAGCAT
*
15532978 AAGCCTGAGCCTGAGC
1 GAGCCTGAGCCTGAGC
15532994 CCGAGCACGA
Statistics
Matches: 24, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.25, C:0.33, G:0.29, T:0.13
Consensus pattern (18 bp):
GAGCCTGAGCCTGAGCAT
Found at i:15534625 original size:27 final size:27
Alignment explanation
Indices: 15534594--15534677 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
15534584 CACTAGTGCT
* *
15534594 ACCTATCTGCATGGCACCACTGGTTTC
1 ACCTATCTGCATGGCAACACTGGTGTC
* * *
15534621 GCCTATCTGTATGGCAACATTGGTGTC
1 ACCTATCTGCATGGCAACACTGGTGTC
* * *
15534648 ACCTATCAG-ATGGGAACCATTGGTGTC
1 ACCTATCTGCATGGCAA-CACTGGTGTC
15534675 ACC
1 ACC
15534678 AACCCCACAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.12
27 42 0.88
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (27 bp):
ACCTATCTGCATGGCAACACTGGTGTC
Found at i:15534812 original size:40 final size:40
Alignment explanation
Indices: 15534757--15534836 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
15534747 CCGTACAAAA
15534757 CATGGGTGCCACCCATCTAAGAGGCACCACCCAATATTTT
1 CATGGGTGCCACCCATCTAAGAGGCACCACCCAATATTTT
15534797 CATGGGTGCCACCCATCTAAGAGGCACCACCCAATATTTT
1 CATGGGTGCCACCCATCTAAGAGGCACCACCCAATATTTT
15534837 ATATTTTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (40 bp):
CATGGGTGCCACCCATCTAAGAGGCACCACCCAATATTTT
Found at i:15537008 original size:22 final size:22
Alignment explanation
Indices: 15536983--15537062 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
15536973 TAAAAAATAT
15536983 TCAATTAAATTGGCGCAATCAA
1 TCAATTAAATTGGCGCAATCAA
*
15537005 TCAATTAAATTGGTGCAATCAA
1 TCAATTAAATTGGCGCAATCAA
* *
15537027 TCAATTATATTGGCACAATCAA
1 TCAATTAAATTGGCGCAATCAA
* *
15537049 TTAATTATATTGGC
1 TCAATTAAATTGGC
15537063 ATATTACATC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (22 bp):
TCAATTAAATTGGCGCAATCAA
Found at i:15544813 original size:17 final size:17
Alignment explanation
Indices: 15544772--15544809 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
15544762 TGGCAATGTA
15544772 TTTCTT-TTCTTTCTCT
1 TTTCTTCTTCTTTCTCT
15544788 TTTCTTCTTCTTTCT-T
1 TTTCTTCTTCTTTCTCT
15544804 TTTCTT
1 TTTCTT
15544810 TCTTTTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTCTTCTTTCTCT
Found at i:15544814 original size:10 final size:11
Alignment explanation
Indices: 15544772--15544816 Score: 58
Period size: 10 Copynumber: 4.3 Consensus size: 11
15544762 TGGCAATGTA
15544772 TTTCTTTTCTT
1 TTTCTTTTCTT
*
15544783 TCTCTTTTCTT
1 TTTCTTTTCTT
*
15544794 CTTC-TTTCTT
1 TTTCTTTTCTT
15544804 TTTC-TTTCTT
1 TTTCTTTTCTT
15544814 TTT
1 TTT
15544817 GTGAATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 18 0.60
11 12 0.40
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:15545606 original size:21 final size:21
Alignment explanation
Indices: 15545564--15545607 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15545554 GCCTTCCTCT
*
15545564 TTGCGCTTCTTTTTCTTATCC
1 TTGCGCTTCTCTTTCTTATCC
*
15545585 TTGCGCTTTCTCTTT-TTGTCC
1 TTGCGC-TTCTCTTTCTTATCC
15545606 TT
1 TT
15545608 TGAATTAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.02, C:0.27, G:0.11, T:0.59
Consensus pattern (21 bp):
TTGCGCTTCTCTTTCTTATCC
Found at i:15557119 original size:22 final size:22
Alignment explanation
Indices: 15557094--15557152 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
15557084 TAAAAAATAT
* *
15557094 TCAATTAAATTGGCGCAATCAA
1 TCAATTATATTGGCACAATCAA
15557116 TCAATTATATTGGCACAATCAA
1 TCAATTATATTGGCACAATCAA
15557138 TCAATTATATTGGCA
1 TCAATTATATTGGCA
15557153 TATTACATCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (22 bp):
TCAATTATATTGGCACAATCAA
Found at i:15559650 original size:4 final size:4
Alignment explanation
Indices: 15559628--15559666 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
15559618 AAGAACTAAT
** *
15559628 AATA AATA TTTA AAAA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT
15559667 GGACAGAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:15571339 original size:5 final size:5
Alignment explanation
Indices: 15571329--15571355 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15571319 ATAAAAACCA
15571329 AAATT AAATT AAATT AAATT AAATT AA
1 AAATT AAATT AAATT AAATT AAATT AA
15571356 CTATAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:15581296 original size:109 final size:109
Alignment explanation
Indices: 15581023--15581302 Score: 371
Period size: 109 Copynumber: 2.6 Consensus size: 109
15581013 AAACCATAGC
* * * * *
15581023 GATGGCTAAGATCTTGCATATGTTACGGATTCTCGATAGCTTGTGTGAGCAACATTGTGAGTCAG
1 GATGGCTGAGATCCTGCCTATGTTACGGATTCTCGATAGCTTGTGTGAGCAACATCGTGAGCCAG
* * * *
15581088 TGAATATTGAGTGGATACTATGTTCTGATGATACATACCGTCGT
66 TGAATACTAAATGGATACTATGTTCTGATGATACATACCGTCAT
* * * * *
15581132 GATGGCTGAGATCCTGCCTAAGTTACGGATTATCGATAGCTAGTGTGAGAAACATCGTGAGCCGG
1 GATGGCTGAGATCCTGCCTATGTTACGGATTCTCGATAGCTTGTGTGAGCAACATCGTGAGCCAG
*
15581197 TGAATACTAAATGGATACTATGTTCTGATGATACATGCCGTCAT
66 TGAATACTAAATGGATACTATGTTCTGATGATACATACCGTCAT
* * * * * *
15581241 GATGGTTGAGATCCTGCCTATGTTACGAATTCTCAACAGCTTGTGTGAGCTACATCATGAGC
1 GATGGCTGAGATCCTGCCTATGTTACGGATTCTCGATAGCTTGTGTGAGCAACATCGTGAGC
15581303 AGGCGATATA
Statistics
Matches: 146, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
109 146 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (109 bp):
GATGGCTGAGATCCTGCCTATGTTACGGATTCTCGATAGCTTGTGTGAGCAACATCGTGAGCCAG
TGAATACTAAATGGATACTATGTTCTGATGATACATACCGTCAT
Found at i:15584991 original size:14 final size:14
Alignment explanation
Indices: 15584972--15585001 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15584962 GGTTCCTAAA
15584972 ATGTATATACATAT
1 ATGTATATACATAT
*
15584986 ATGTATATATATAT
1 ATGTATATACATAT
15585000 AT
1 AT
15585002 TATTAAATTA
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:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (14 bp):
ATGTATATACATAT
Found at i:15592317 original size:100 final size:100
Alignment explanation
Indices: 15592144--15592355 Score: 415
Period size: 100 Copynumber: 2.1 Consensus size: 100
15592134 ATATTTTGCA
15592144 GGAAATTTTGGTGTGGTGTTGTTGTTAGAATAATTTATTTATAAATGTTCGTAAGATTTAGTTCT
1 GGAAATTTTGGTGTGGTGTTGTTGTTAGAATAATTTATTTATAAATGTTCGTAAGATTTAGTTCT
15592209 GATATTAGTATTGGTGGTAAATATGATTGTGCTAT
66 GATATTAGTATTGGTGGTAAATATGATTGTGCTAT
*
15592244 GGAAATTTTGGTGTGGTGTTGTTGTTAGAATAATTTATTTATAAATGTTCGTATGATTTAGTTCT
1 GGAAATTTTGGTGTGGTGTTGTTGTTAGAATAATTTATTTATAAATGTTCGTAAGATTTAGTTCT
15592309 GATATTAGTATTGGTGGTAAATATGATTGTGCTAT
66 GATATTAGTATTGGTGGTAAATATGATTGTGCTAT
15592344 GGAAATTTTGGT
1 GGAAATTTTGGT
15592356 ATATGAAAAT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 111 1.00
ACGTcount: A:0.26, C:0.03, G:0.25, T:0.46
Consensus pattern (100 bp):
GGAAATTTTGGTGTGGTGTTGTTGTTAGAATAATTTATTTATAAATGTTCGTAAGATTTAGTTCT
GATATTAGTATTGGTGGTAAATATGATTGTGCTAT
Found at i:15596672 original size:20 final size:20
Alignment explanation
Indices: 15596633--15596733 Score: 69
Period size: 20 Copynumber: 5.0 Consensus size: 20
15596623 TTTTGAAACA
*
15596633 ATTTTAAAATCAAGTTAAAATG
1 ATTTT-AAA-CAAGTCAAAATG
*
15596655 ATTTTAAACAAGTCAAAATA
1 ATTTTAAACAAGTCAAAATG
* ** * *
15596675 ACTTGGACCAAGTCAAAATC
1 ATTTTAAACAAGTCAAAATG
* **
15596695 ACTTT-AACACTTCAAAATG
1 ATTTTAAACAAGTCAAAATG
*
15596714 TTTTTCAAACAAGTCAAAAT
1 ATTTT-AAACAAGTCAAAAT
15596734 AGCTCTAGGC
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
19 13 0.21
20 29 0.48
21 14 0.23
22 5 0.08
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.31
Consensus pattern (20 bp):
ATTTTAAACAAGTCAAAATG
Found at i:15615589 original size:60 final size:60
Alignment explanation
Indices: 15615449--15615659 Score: 217
Period size: 60 Copynumber: 3.5 Consensus size: 60
15615439 GCATTTGGTA
* * * ** * *
15615449 ACTCACGATGACACAGAGTCATCGAACCT-TTAATCCATAATAAAATTCATTTCTCATTAAAT
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCATAA-AGGATTCA-AT-TCATTTAAT
* * ** * *
15615511 ACTCACGATAACAAATAGTTGTCGGACCTCATAATCCGTAAAGGATTCAATTCATTTATT
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAATTCATTTAAT
* * * * * *
15615571 TCTCATGATGACACATAGTCATCAGACCTCATAATCTATAAATGATTCATTTCATTTAAT
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAATTCATTTAAT
15615631 ACTCACGATGACACATAGTCATCGGACCT
1 ACTCACGATGACACATAGTCATCGGACCT
15615660 TTTTCGTTTA
Statistics
Matches: 120, Mismatches: 28, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
60 81 0.68
61 1 0.01
62 29 0.24
63 9 0.08
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (60 bp):
ACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAATTCATTTAAT
Found at i:15622745 original size:60 final size:60
Alignment explanation
Indices: 15622604--15622814 Score: 228
Period size: 60 Copynumber: 3.5 Consensus size: 60
15622594 ACATTTGGTA
* * * * * *
15622604 ACTCACGATGACACAGAGTCATCGGACCT-TTAATCCGTAATAGGATTCATTTCTCTTTAAAT
1 ACTCACAATGACACATAGTCATCGAACCTCATAATCCGTAA-AGGATTCAGTTC-ATTT-AAT
* * * * *
15622666 ACTCACGATTACACATAGTCGTCGAACCTCATAATCCGTAAAGGATTCAGTTCGTTTATT
1 ACTCACAATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCAGTTCATTTAAT
* * *
15622726 TCTCATAATGACACATAGTCATC-AGACCTCATAATCCGTAAAGGATTCATTTCATTTAAT
1 ACTCACAATGACACATAGTCATCGA-ACCTCATAATCCGTAAAGGATTCAGTTCATTTAAT
* *
15622786 ACTCACGATGACACATAGTCATCGGACCT
1 ACTCACAATGACACATAGTCATCGAACCT
15622815 TTTTCATTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
59 1 0.01
60 76 0.60
61 3 0.02
62 36 0.29
63 10 0.08
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (60 bp):
ACTCACAATGACACATAGTCATCGAACCTCATAATCCGTAAAGGATTCAGTTCATTTAAT
Found at i:15625816 original size:29 final size:30
Alignment explanation
Indices: 15625760--15625817 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
15625750 CAATTTCACT
*
15625760 TAAACTTTGAAATATGAAAAGTACAAAGAC
1 TAAACTTTGAAATATGAAAAGGACAAAGAC
*
15625790 TAAA-TTTGAAATATGTGAAAGGA-AAAGA
1 TAAACTTTGAAATATG-AAAAGGACAAAGA
15625818 TATAAAGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.53, C:0.05, G:0.17, T:0.24
Consensus pattern (30 bp):
TAAACTTTGAAATATGAAAAGGACAAAGAC
Found at i:15626885 original size:13 final size:13
Alignment explanation
Indices: 15626867--15626892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15626857 TATAGATGAC
15626867 CAACAATTTTTTA
1 CAACAATTTTTTA
15626880 CAACAATTTTTTA
1 CAACAATTTTTTA
15626893 TTTTTGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
CAACAATTTTTTA
Found at i:15627318 original size:24 final size:22
Alignment explanation
Indices: 15627287--15627338 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
15627277 CCCATATTAT
15627287 TTTTTATACTATTTTTTAATAGAA
1 TTTTTATACTA-TTTTT-ATAGAA
* *
15627311 TTTTTATATTATTTTTATATAA
1 TTTTTATACTATTTTTATAGAA
15627333 TTTTTA
1 TTTTTA
15627339 AATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 11 0.42
23 5 0.19
24 10 0.38
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTTATACTATTTTTATAGAA
Found at i:15627324 original size:11 final size:11
Alignment explanation
Indices: 15627280--15627338 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
15627270 CGACCTGCCC
15627280 ATATTATTTTTT
1 ATATTA-TTTTT
*
15627292 ATACTATTTTTT
1 ATATTA-TTTTT
**
15627304 AATAGAATTTTT
1 -ATATTATTTTT
15627316 ATATTATTTTT
1 ATATTATTTTT
*
15627327 ATATAATTTTT
1 ATATTATTTTT
15627338 A
1 A
15627339 AATATATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
11 20 0.50
12 16 0.40
13 4 0.10
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:15627331 original size:13 final size:12
Alignment explanation
Indices: 15627280--15627337 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
15627270 CGACCTGCCC
15627280 ATATTATTTTTT
1 ATATTATTTTTT
*
15627292 ATACTATTTTTT
1 ATATTATTTTTT
* *
15627304 A-ATAGAATTTTT
1 ATAT-TATTTTTT
15627316 ATATTA-TTTTT
1 ATATTATTTTTT
*
15627327 ATATAATTTTT
1 ATATTATTTTT
15627338 AAATATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 11 0.30
12 24 0.65
13 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (12 bp):
ATATTATTTTTT
Found at i:15627344 original size:13 final size:11
Alignment explanation
Indices: 15627287--15627338 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
15627277 CCCATATTAT
*
15627287 TTTTTATACTAT
1 TTTTTATA-TAA
*
15627299 TTTTTAATAGAA
1 TTTTT-ATATAA
*
15627311 TTTTTATATTA
1 TTTTTATATAA
15627322 TTTTTATATAA
1 TTTTTATATAA
15627333 TTTTTA
1 TTTTTA
15627339 AATATATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
11 20 0.59
12 11 0.32
13 3 0.09
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TTTTTATATAA
Found at i:15628502 original size:59 final size:59
Alignment explanation
Indices: 15628430--15628613 Score: 255
Period size: 58 Copynumber: 3.2 Consensus size: 59
15628420 TCACCCCTAA
* *
15628430 TGATAAATGTTGAAATATTAATGTGGTTAAATGTGACTAAATGTGATTAATAAGTGATG
1 TGATAAATGTTGAAATATTAATGTGATTAAATGTGACTAAATGTGATTAATATGTGATG
*
15628489 TGATAAATGTTGAAATATTAATGTGATTAAATGTTACT-AATGTGATTAATATGTGATG
1 TGATAAATGTTGAAATATTAATGTGATTAAATGTGACTAAATGTGATTAATATGTGATG
* * * * * * *
15628547 TGATAAATGCTGAAATATTCATGTGACT-AATGGGATTAGATGTGATTAATATGTGTTG
1 TGATAAATGTTGAAATATTAATGTGATTAAATGTGACTAAATGTGATTAATATGTGATG
*
15628605 TGTTAAATG
1 TGATAAATG
15628614 CTTATGTACT
Statistics
Matches: 112, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
57 6 0.05
58 70 0.62
59 36 0.32
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (59 bp):
TGATAAATGTTGAAATATTAATGTGATTAAATGTGACTAAATGTGATTAATATGTGATG
Found at i:15628627 original size:58 final size:57
Alignment explanation
Indices: 15628469--15628648 Score: 198
Period size: 58 Copynumber: 3.1 Consensus size: 57
15628459 AATGTGACTA
* * * * * ** *
15628469 AATGTGATTAATAAGTGATGTGATAAATGTTGAAATATTAATGTGATTAAATGTTACT
1 AATGTGATTAATATGTGATGTGATAAATGCTGAAATACTCATGTGACT-AATGCGATT
* *
15628527 AATGTGATTAATATGTGATGTGATAAATGCTGAAATATTCATGTGACTAATGGGATT
1 AATGTGATTAATATGTGATGTGATAAATGCTGAAATACTCATGTGACTAATGCGATT
* * * ** *
15628584 AGATGTGATTAATATGTGTTGTGTTAAATGCTTATGTACTCATGTGATTAATGCGATT
1 A-ATGTGATTAATATGTGATGTGATAAATGCTGAAATACTCATGTGACTAATGCGATT
15628642 AATGTGA
1 AATGTGA
15628649 AGAAGAATGC
Statistics
Matches: 106, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
57 13 0.12
58 93 0.88
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.39
Consensus pattern (57 bp):
AATGTGATTAATATGTGATGTGATAAATGCTGAAATACTCATGTGACTAATGCGATT
Found at i:15633715 original size:18 final size:18
Alignment explanation
Indices: 15633692--15633730 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
15633682 TAACAGAAGG
* *
15633692 GTCTCGGGGAGAGGAGTA
1 GTCTCGGGCAGAAGAGTA
15633710 GTCTCGGGCAGAAGAGTA
1 GTCTCGGGCAGAAGAGTA
15633728 GTC
1 GTC
15633731 AATTGTTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.44, T:0.18
Consensus pattern (18 bp):
GTCTCGGGCAGAAGAGTA
Found at i:15634012 original size:13 final size:13
Alignment explanation
Indices: 15633994--15634018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15633984 TTTAGTTTTA
15633994 TTATTTTTTGGGT
1 TTATTTTTTGGGT
15634007 TTATTTTTTGGG
1 TTATTTTTTGGG
15634019 CTCGGTCAAA
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTTTGGGT
Found at i:15634618 original size:49 final size:49
Alignment explanation
Indices: 15634412--15634882 Score: 281
Period size: 49 Copynumber: 9.6 Consensus size: 49
15634402 AGATTTGTCA
* ** *
15634412 TTGCGACTTCAATCTTTCCCTTTGTGTCTTC--ATGGTACTAGATTCGCCG
1 TTGCGACTTAAATCTTTCCCTTCATG-CTTCTGA-GGTACAAGATTCGCCG
* * * * *
15634461 TTGGGGCTTAAATATTTCCCTTCAGGCTTCT-AGGTACAAGGTTCGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGATTCGCCG
* * * * ***
15634509 TTGCAACTTAAACCTTTTCCTCCCTT-AT-CTTC-GTGGTAC-TGAATTCGTTA
1 TTGCGACTTAAA--TCTT--TCCCTTCATGCTTCTGAGGTACAAG-ATTCGCCG
* *
15634559 TTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAG-GTCTGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGATTC-GCCG
* * * * * * * * *
15634608 TTGTGACTTAAA-CATTTTCCTTTATCTCTTC-GTGGTACTAGATTTGTCA
1 TTGCGACTTAAATC-TTTCCCTTCAT-GCTTCTGAGGTACAAGATTCGCCG
* * *
15634657 TTGC-AGCTTAAATCTTTCCCTTCATTCTTCTGAGGTACAAGGTTCGTCG
1 TTGCGA-CTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGATTCGCCG
* * * ** *
15634706 TTGCGACTTAAACCTTTCCCTCCAT-C-TCTTCATGGTATTAGATTCACCG
1 TTGCGACTTAAATCTTTCCCTTCATGCTTC-TGA-GGTACAAGATTCGCCG
* * *
15634755 TTGCGGCTTAAA-CATTTCCCTTCATGCTTCTGAGGTACACGGTTCGCCG
1 TTGCGACTTAAATC-TTTCCCTTCATGCTTCTGAGGTACAAGATTCGCCG
* * * * *
15634804 TTGTGACTTAAACCTTTCCCTTCAT--ATCTTGTGGTACTAGATTCGCCG
1 TTGCGACTTAAATCTTTCCCTTCATGCTTC-TGAGGTACAAGATTCGCCG
*
15634852 TTGCGGCTTAAATCTTTCCCTTCATGTCTTC
1 TTGCGACTTAAATCTTTCCCTTCATG-CTTC
15634883 ATGGTAATGA
Statistics
Matches: 318, Mismatches: 75, Indels: 56
0.71 0.17 0.12
Matches are distributed among these distances:
46 6 0.02
47 6 0.02
48 84 0.26
49 173 0.54
50 38 0.12
51 5 0.02
52 6 0.02
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.39
Consensus pattern (49 bp):
TTGCGACTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGATTCGCCG
Found at i:15634638 original size:98 final size:98
Alignment explanation
Indices: 15634412--15634882 Score: 547
Period size: 98 Copynumber: 4.8 Consensus size: 98
15634402 AGATTTGTCA
* * ** * * * * *
15634412 TTGCGACTTCAATCTTTCCCTTTGTGTCTTCATGGTACTAGATTCGCCGTTGGGGCTTAAATATT
1 TTGCGACTTAAACCTTTCCCTTCATCTCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTT
*
15634477 TCCCTTCAGGCTTCT-AGGTACAAGGTTCGCCG
66 TCCCTTCATGCTTCTGAGGTACAAGGTTCGCCG
* * * * * **
15634509 TTGCAACTTAAACCTTTTCCTCCCTTATCTTCGTGGTACT-GAATTCGTTATTGCGGCTTAAATC
1 TTGCGACTTAAACCTTTCCCT-TCATCTCTTCGTGGTACTAG-ATTCGCCATTGCGGCTTAAATC
15634573 TTTCCCTTCATGCTTCTGAGGTACAAGG-TCTGCCG
64 TTTCCCTTCATGCTTCTGAGGTACAAGGTTC-GCCG
* * * * * * *
15634608 TTGTGACTTAAACATTTTCCTTTATCTCTTCGTGGTACTAGATTTGTCATTGCAGCTTAAATCTT
1 TTGCGACTTAAACCTTTCCCTTCATCTCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTT
* *
15634673 TCCCTTCATTCTTCTGAGGTACAAGGTTCGTCG
66 TCCCTTCATGCTTCTGAGGTACAAGGTTCGCCG
* * * * *
15634706 TTGCGACTTAAACCTTTCCCTCCATCTCTTCATGGTATTAGATTCACCGTTGCGGCTTAAA-CAT
1 TTGCGACTTAAACCTTTCCCTTCATCTCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATC-T
*
15634770 TTCCCTTCATGCTTCTGAGGTACACGGTTCGCCG
65 TTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCG
* * *
15634804 TTGTGACTTAAACCTTTCCCTTCATATCTT-GTGGTACTAGATTCGCCGTTGCGGCTTAAATCTT
1 TTGCGACTTAAACCTTTCCCTTCATCTCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTT
15634868 TCCCTTCATGTCTTC
66 TCCCTTCATG-CTTC
15634883 ATGGTAATGA
Statistics
Matches: 317, Mismatches: 48, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
97 58 0.18
98 224 0.71
99 35 0.11
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.39
Consensus pattern (98 bp):
TTGCGACTTAAACCTTTCCCTTCATCTCTTCGTGGTACTAGATTCGCCATTGCGGCTTAAATCTT
TCCCTTCATGCTTCTGAGGTACAAGGTTCGCCG
Found at i:15635317 original size:18 final size:18
Alignment explanation
Indices: 15635294--15635348 Score: 110
Period size: 18 Copynumber: 3.1 Consensus size: 18
15635284 AACAATTGCC
15635294 AAATAATTACAAGGAACA
1 AAATAATTACAAGGAACA
15635312 AAATAATTACAAGGAACA
1 AAATAATTACAAGGAACA
15635330 AAATAATTACAAGGAACA
1 AAATAATTACAAGGAACA
15635348 A
1 A
15635349 TATTAGATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.16
Consensus pattern (18 bp):
AAATAATTACAAGGAACA
Found at i:15649196 original size:36 final size:36
Alignment explanation
Indices: 15649116--15649196 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
15649106 CTGTTATCAA
* * * *
15649116 AGTGAATATGTGGGTATGTTATTCATGTCATGAGAT
1 AGTGAATATGTAGGTATGTTATTCATGCCACGAGAC
** *
15649152 AGAAAATATGTAGGTATGTTATTCATGCCACGTGAC
1 AGTGAATATGTAGGTATGTTATTCATGCCACGAGAC
15649188 AGTGAATAT
1 AGTGAATAT
15649197 ATTGTGCTGA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.35
Consensus pattern (36 bp):
AGTGAATATGTAGGTATGTTATTCATGCCACGAGAC
Found at i:15649677 original size:222 final size:223
Alignment explanation
Indices: 15649268--15649680 Score: 639
Period size: 222 Copynumber: 1.9 Consensus size: 223
15649258 ATAATAATAT
*
15649268 GGATATTTTGGCCTTGTAACCTTATGAGACTATTGGAAATAGTTGGCATGCCATAAGATTGTGAG
1 GGATATTTTGGCCTTGTAACCTTATGAGACTATTGGAAATAGTTGACATGCCATAAGATTGTGAG
* * * * *
15649333 TACTCACCTATATGTGTATATGTGTTTTGGGGTGTTGAGACCCAAGGATAGTTTTAAGGAGATAA
66 TACTCACCTATATGTGCATATGTGTTTTGAGGCGTTGAGACCCAAGGACAGTTTTAAGGAAATAA
*
15649398 GGGAATGTGGACTAAGCTCCATTCAACAGGACATTTGAGGGGAAATAAAGAGAGTGTTAGCTTTA
131 AGGAATGTGGACTAAGCTCCATTCAACAGGACATTTGAGGGGAAATAAAGAGAGTGTTAGCTTTA
15649463 GGGTTAGGTTTTAAGGTTTATGTTTTGG
196 GGGTTAGGTTTTAAGGTTTATGTTTTGG
* * * **
15649491 GGATATTTTGGCTTTGTAACCTTATGAGACTGTTGGATATAGTTGACATGCCATTGGATTGTGAG
1 GGATATTTTGGCCTTGTAACCTTATGAGACTATTGGAAATAGTTGACATGCCATAAGATTGTGAG
* * *
15649556 TACTCATCTATATGTGCATA-GTGTTTTGAGGCGTTGAGACCCAAGTACAGTTTTAGGGAAATAA
66 TACTCACCTATATGTGCATATGTGTTTTGAGGCGTTGAGACCCAAGGACAGTTTTAAGGAAATAA
* ** * *
15649620 AGGAATTTGGACTAAGCTCCATTCAATGGGATATTTGAGGGGAAATAAAGGGAGTGTTAGC
131 AGGAATGTGGACTAAGCTCCATTCAACAGGACATTTGAGGGGAAATAAAGAGAGTGTTAGC
15649681 CTTATGCTTC
Statistics
Matches: 170, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
222 93 0.55
223 77 0.45
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (223 bp):
GGATATTTTGGCCTTGTAACCTTATGAGACTATTGGAAATAGTTGACATGCCATAAGATTGTGAG
TACTCACCTATATGTGCATATGTGTTTTGAGGCGTTGAGACCCAAGGACAGTTTTAAGGAAATAA
AGGAATGTGGACTAAGCTCCATTCAACAGGACATTTGAGGGGAAATAAAGAGAGTGTTAGCTTTA
GGGTTAGGTTTTAAGGTTTATGTTTTGG
Found at i:15649846 original size:10 final size:10
Alignment explanation
Indices: 15649831--15649937 Score: 52
Period size: 10 Copynumber: 9.7 Consensus size: 10
15649821 CATGTGTTTC
15649831 ATGTGATTAT
1 ATGTGATTAT
* *
15649841 ATGTGACTAA
1 ATGTGATTAT
15649851 ATGTGATTAAT
1 ATGTGATT-AT
15649862 ATGTGATGTGAT
1 ATGTGAT-T-AT
*
15649874 AAATGTTGAAATATT
1 --ATG-TG-ATTA-T
* *
15649889 CATATGATTAA
1 -ATGTGATTAT
*
15649900 ATGTGATTAA
1 ATGTGATTAT
* *
15649910 ATGTGACTAA
1 ATGTGATTAT
15649920 ATGTGATTAAT
1 ATGTGATT-AT
15649931 ATGTGAT
1 ATGTGAT
15649938 GTGATAAATA
Statistics
Matches: 75, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
10 40 0.53
11 16 0.21
12 6 0.08
13 2 0.03
14 6 0.08
15 4 0.05
16 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (10 bp):
ATGTGATTAT
Found at i:15649935 original size:69 final size:69
Alignment explanation
Indices: 15649831--15649985 Score: 247
Period size: 69 Copynumber: 2.2 Consensus size: 69
15649821 CATGTGTTTC
* ** *
15649831 ATGTGATTATATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATATGA
1 ATGTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATTAATATGA
*
15649896 TTAA
66 GTAA
*
15649900 ATGTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATTAATGTGA
1 ATGTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATTAATATGA
15649965 GTAA
66 GTAA
15649969 ATGTGATTAATATGTGA
1 ATGTGATTAA-ATGTGA
15649986 TGTGATAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
69 73 0.92
70 6 0.08
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.39
Consensus pattern (69 bp):
ATGTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATTAATATGA
GTAA
Found at i:15649970 original size:49 final size:49
Alignment explanation
Indices: 15649909--15650033 Score: 193
Period size: 49 Copynumber: 2.6 Consensus size: 49
15649899 AATGTGATTA
15649909 AATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATT
1 AATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATT
* *
15649958 AATGTGAGTAAATGTGATTAATATGTGATGTGATAAATGCTGAAATATT
1 AATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATT
*
15650007 CAT-TAGACT-AATGTGATTAA-ATGTGAT
1 AATGT-GACTAAATGTGATTAATATGTGAT
15650034 TAATATGTGT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
47 7 0.10
48 12 0.17
49 52 0.73
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (49 bp):
AATGTGACTAAATGTGATTAATATGTGATGTGATAAATACTGAAATATT
Found at i:15655981 original size:21 final size:20
Alignment explanation
Indices: 15655955--15656001 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
15655945 CAAGAGGGTA
* *
15655955 ATGTATCGATACATGCCTTAG
1 ATGTATCAACACAT-CCTTAG
*
15655976 ATGTATCAACACATCTTTAG
1 ATGTATCAACACATCCTTAG
15655996 ATGTAT
1 ATGTAT
15656002 TAGTACAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGTATCAACACATCCTTAG
Found at i:15657061 original size:24 final size:24
Alignment explanation
Indices: 15657034--15657085 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15657024 TTCGTAAGTC
* *
15657034 AAATAAATTGTACTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
15657058 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
15657082 AAAT
1 AAAT
15657086 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:15660760 original size:189 final size:189
Alignment explanation
Indices: 15660440--15660799 Score: 630
Period size: 189 Copynumber: 1.9 Consensus size: 189
15660430 TTTTGTGCTA
* *
15660440 TTTTTTATCGAATTCAAATAATCTTTTATTCAATCGAGTCAAACCTTTTGTTCGGATCAATATAT
1 TTTTTTATCGAATTCAAATAATCTTTTATTCAATCGAGTCAAACCCTTTGTTCGGATCAATATAC
* *
15660505 CGATTGGTTCTTGATCTATTCAACCAAATTGATCATATTCCAATAACACTAGCCACGTCATTAAA
66 CGATTGGTTCTTGATCTATTCAACCAAATTGATCATATTCCAAGAACACTAACCACGTCATTAAA
*
15660570 TCTTAATGAAATCCAAATTAAGGATCAAAATAGATCTAATTTATTTTTGTGCTAGTTTT
131 TCTTAATGAAATCCAAATTAAGAATCAAAATAGATCTAATTTATTTTTGTGCTAGTTTT
* *
15660629 TTTTTTATCGATTTCAAATAATTTTTTATTCAATCGAGTCAAACCCTTTGTTCGGATCAATATAC
1 TTTTTTATCGAATTCAAATAATCTTTTATTCAATCGAGTCAAACCCTTTGTTCGGATCAATATAC
* *
15660694 CGGTTGGTTCTTGATCTATTCAACCAAATTGATCATATTCCAAGAACACTAATCACGTCATTAAA
66 CGATTGGTTCTTGATCTATTCAACCAAATTGATCATATTCCAAGAACACTAACCACGTCATTAAA
*
15660759 TCTTAATGAAATTCAAATTAAGAATCAAAATAGATCTAATT
131 TCTTAATGAAATCCAAATTAAGAATCAAAATAGATCTAATT
15660800 GCTAAATTTA
Statistics
Matches: 161, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
189 161 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (189 bp):
TTTTTTATCGAATTCAAATAATCTTTTATTCAATCGAGTCAAACCCTTTGTTCGGATCAATATAC
CGATTGGTTCTTGATCTATTCAACCAAATTGATCATATTCCAAGAACACTAACCACGTCATTAAA
TCTTAATGAAATCCAAATTAAGAATCAAAATAGATCTAATTTATTTTTGTGCTAGTTTT
Found at i:15665291 original size:28 final size:29
Alignment explanation
Indices: 15665259--15665350 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
15665249 AATGGGGTCG
* **
15665259 AAAAT-GAAGTTTCGAGGAATTTAGGGTT
1 AAAATAGAAGTTTAGAAAAATTTAGGGTT
* *
15665287 AAAATATAATTTTAGAAAAATTTAGGGTT
1 AAAATAGAAGTTTAGAAAAATTTAGGGTT
* * * * *
15665316 AAACTATAATTTTAGGAAAGTTTAGAGGTT
1 AAAATAGAAGTTTAGAAAAATTTAG-GGTT
15665346 AAAAT
1 AAAAT
15665351 GTATTTTGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 5 0.09
29 40 0.75
30 8 0.15
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (29 bp):
AAAATAGAAGTTTAGAAAAATTTAGGGTT
Found at i:15665566 original size:90 final size:88
Alignment explanation
Indices: 15665278--15665566 Score: 368
Period size: 90 Copynumber: 3.3 Consensus size: 88
15665268 TTTCGAGGAA
* * * * * *
15665278 TTTA-GGGTTAAAATATAATTTTAGAAAAATTTAGGGTTAAACTATAATTTTAGGAAAGTTTAGA
1 TTTAGGGGTTAAAATATAATTTTAGAGAAGTTTAGGGTCAAAATGTAATTTTAGGAAAGTTTAGG
*
15665342 GGTTAAAATGTATTTTGGG-AAG
66 GGTTAAAATATATTTTGGGAAAG
* *
15665364 TTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTAGGGGTCAAAATGTGATTTT-GGAAAAGTTTA
1 TTTAGGGGTTAAAATATAATTTTAGAGAAGTTTA-GGGTCAAAATGTAATTTTAGG-AAAGTTTA
* *
15665428 AGGGTTAAAATATTATTTTAGGAAAG
64 GGGGTTAAAATA-TATTTTGGGAAAG
* *
15665454 TTTAAGGGTTAAAATGTAATTTTAGAGAAGTTTGAGGGTCAAAATGTAATTTTAGGAAAGTTTAG
1 TTTAGGGGTTAAAATATAATTTTAGAGAAGTTT-AGGGTCAAAATGTAATTTTAGGAAAGTTTAG
*
15665519 GGGTCAAAATATGATTTTGGGAAAG
65 GGGTTAAAATAT-ATTTTGGGAAAG
* *
15665544 CTTAGGGGTTAAAATATTATTTT
1 TTTAGGGGTTAAAATATAATTTT
15665567 GTAAAAGTTC
Statistics
Matches: 175, Mismatches: 20, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
86 4 0.02
87 28 0.16
88 31 0.18
89 9 0.05
90 100 0.57
91 3 0.02
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (88 bp):
TTTAGGGGTTAAAATATAATTTTAGAGAAGTTTAGGGTCAAAATGTAATTTTAGGAAAGTTTAGG
GGTTAAAATATATTTTGGGAAAG
Found at i:15665567 original size:30 final size:30
Alignment explanation
Indices: 15665278--15665566 Score: 297
Period size: 30 Copynumber: 9.8 Consensus size: 30
15665268 TTTCGAGGAA
* *
15665278 TTTA-GGGTTAAAATATAATTTTAGAAAAA
1 TTTAGGGGTTAAAATATAATTTTAGGAAAG
*
15665307 TTTA-GGGTTAAACTATAATTTTAGGAAAG
1 TTTAGGGGTTAAAATATAATTTTAGGAAAG
* * *
15665336 TTTAGAGGTTAAAATGT-ATTTT-GGGAAG
1 TTTAGGGGTTAAAATATAATTTTAGGAAAG
*
15665364 TTTAGGGGTTAAAATGTAATTTTA-GAGAAG
1 TTTAGGGGTTAAAATATAATTTTAGGA-AAG
* * *
15665394 TTTAGGGGTCAAAATGTGATTTT-GGAAAAG
1 TTTAGGGGTTAAAATATAATTTTAGG-AAAG
* *
15665424 TTTAAGGGTTAAAATATTATTTTAGGAAAG
1 TTTAGGGGTTAAAATATAATTTTAGGAAAG
* *
15665454 TTTAAGGGTTAAAATGTAATTTTA-GAGAAG
1 TTTAGGGGTTAAAATATAATTTTAGGA-AAG
* *
15665484 TTT-GAGGGTCAAAATGTAATTTTAGGAAAG
1 TTTAG-GGGTTAAAATATAATTTTAGGAAAG
* * *
15665514 TTTAGGGGTCAAAATATGATTTTGGGAAAG
1 TTTAGGGGTTAAAATATAATTTTAGGAAAG
* *
15665544 CTTAGGGGTTAAAATATTATTTT
1 TTTAGGGGTTAAAATATAATTTT
15665567 GTAAAAGTTC
Statistics
Matches: 224, Mismatches: 25, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
28 21 0.09
29 43 0.19
30 154 0.69
31 6 0.03
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (30 bp):
TTTAGGGGTTAAAATATAATTTTAGGAAAG
Found at i:15667021 original size:59 final size:59
Alignment explanation
Indices: 15666944--15667227 Score: 260
Period size: 59 Copynumber: 4.8 Consensus size: 59
15666934 CCCAGTAAAT
* * *
15666944 CCCTGAACTTT-CTAAAAATCACATTTTAACCCCTAAACTTCTCCAAAATAACATTTTTA
1 CCCTAAACTTTCCT-AAAATCACATTTTAACCCCTAAACTTTTCCAAAATAACATTTTCA
* ** * *
15667003 CTCTCGACTTTCCTAAAATCACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGA
1 CCCTAAACTTTCCTAAAATCACATTTTAACCCCTAAACTTTTCCAAAATAACATTTTCA
* * * * *
15667062 CCCTTAAAC-TTCCCAAAATTATATTTTAACCCC-AAACTTTTCTAAAATCACATTTTCA
1 CCC-TAAACTTTCCTAAAATCACATTTTAACCCCTAAACTTTTCCAAAATAACATTTTCA
* * *
15667120 CCCCTAAACTTCTCC-AAAATTACATTTTGACCCCTAAAC-TTTCCTAAAA-ACACATTTTAA
1 -CCCTAAACTT-TCCTAAAATCACATTTTAACCCCTAAACTTTTCC-AAAATA-ACATTTTCA
* ** * *
15667180 CCTCTAAACTTTTCTAAAATTGCA-TTTAACCTC-AAACTTTTCTAAAAT
1 CC-CTAAACTTTCCTAAAATCACATTTTAACCCCTAAACTTTTCCAAAAT
15667228 TGCATTTTGA
Statistics
Matches: 189, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
58 36 0.19
59 113 0.60
60 40 0.21
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (59 bp):
CCCTAAACTTTCCTAAAATCACATTTTAACCCCTAAACTTTTCCAAAATAACATTTTCA
Found at i:15667112 original size:88 final size:88
Alignment explanation
Indices: 15666958--15667238 Score: 318
Period size: 88 Copynumber: 3.2 Consensus size: 88
15666948 GAACTTTCTA
* * * * *
15666958 AAAATCACATTTTAACCCCTAAACTTCTCCAAAATAACATTTTTACTCTC-GACTTTCCTAAAAT
1 AAAATCACATTTTGACCCCTAAACTTC-CCAAAATAACATTTTAAC-CCCAAACTTTTCTAAAAT
15667022 CACATTTTAACCCCTAAACTTTTCC
64 CACATTTTAACCCCTAAACTTTTCC
* * *
15667047 AAAATCACATTTTGACCCTTAAACTTCCCAAAATTATATTTTAACCCCAAACTTTTCTAAAATCA
1 AAAATCACATTTTGACCCCTAAACTTCCCAAAATAACATTTTAACCCCAAACTTTTCTAAAATCA
* *
15667112 CATTTTCACCCCTAAACTTCTCC
66 CATTTTAACCCCTAAACTTTTCC
* * *
15667135 AAAATTACATTTTGACCCCTAAACTTTCCTAAAA-ACACATTTTAACCTCTAAACTTTTCTAAAA
1 AAAATCACATTTTGACCCCTAAAC-TTCCCAAAATA-ACATTTTAACC-CCAAACTTTTCTAAAA
** * *
15667199 TTGCA-TTTAACCTC-AAACTTTTCT
63 TCACATTTTAACCCCTAAACTTTTCC
**
15667223 AAAATTGCATTTTGAC
1 AAAATCACATTTTGAC
15667239 TCTGAATTCC
Statistics
Matches: 165, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
87 2 0.01
88 95 0.58
89 50 0.30
90 18 0.11
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.36
Consensus pattern (88 bp):
AAAATCACATTTTGACCCCTAAACTTCCCAAAATAACATTTTAACCCCAAACTTTTCTAAAATCA
CATTTTAACCCCTAAACTTTTCC
Found at i:15667206 original size:30 final size:30
Alignment explanation
Indices: 15666944--15667227 Score: 274
Period size: 30 Copynumber: 9.6 Consensus size: 30
15666934 CCCAGTAAAT
*
15666944 CCCTGAAC-TTTCTAAAAATCACATTTTAAC
1 CCCTAAACTTTTCT-AAAATCACATTTTAAC
* * * *
15666974 CCCTAAACTTCTCCAAAATAACATTTTTA-
1 CCCTAAACTTTTCTAAAATCACATTTTAAC
* ** *
15667003 CTCTCGACTTTCCTAAAATCACATTTTAAC
1 CCCTAAACTTTTCTAAAATCACATTTTAAC
* *
15667033 CCCTAAACTTTTCCAAAATCACATTTTGAC
1 CCCTAAACTTTTCTAAAATCACATTTTAAC
* * * * *
15667063 CCTTAAAC-TTCCCAAAATTATATTTTAAC
1 CCCTAAACTTTTCTAAAATCACATTTTAAC
*
15667092 CCC-AAACTTTTCTAAAATCACATTTTCAC
1 CCCTAAACTTTTCTAAAATCACATTTTAAC
* * * *
15667121 CCCTAAACTTCTCCAAAATTACATTTTGAC
1 CCCTAAACTTTTCTAAAATCACATTTTAAC
* *
15667151 CCCTAAACTTTCCTAAAAACACATTTTAAC
1 CCCTAAACTTTTCTAAAATCACATTTTAAC
* **
15667181 CTCTAAACTTTTCTAAAATTGCA-TTTAAC
1 CCCTAAACTTTTCTAAAATCACATTTTAAC
*
15667210 CTC-AAACTTTTCTAAAAT
1 CCCTAAACTTTTCTAAAAT
15667228 TGCATTTTGA
Statistics
Matches: 205, Mismatches: 45, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
28 19 0.09
29 68 0.33
30 115 0.56
31 3 0.01
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (30 bp):
CCCTAAACTTTTCTAAAATCACATTTTAAC
Found at i:15667235 original size:118 final size:118
Alignment explanation
Indices: 15666958--15667227 Score: 307
Period size: 118 Copynumber: 2.3 Consensus size: 118
15666948 GAACTTTCTA
* * * * * * **
15666958 AAAATCACATTTTAACCCCTAAACTTCTCCAAAATAACATTTTTA-CTCTCGACTTTCCTAAAAT
1 AAAATTACATTTTAACCCC-AAACTTTTCTAAAATCACATTTTCACCCCTAAACTTTCCTAAAAT
* *
15667022 CACATTTTAACCCCTAAACTTTTCCAAAATCACATTTTGACCCTTAAACTTCCC
65 CACATTTTAACCCCTAAACTTTTCCAAAAACACATTTTAACCCTTAAACTTCCC
*
15667076 AAAATTATATTTTAACCCCAAACTTTTCTAAAATCACATTTTCACCCCTAAACTTCTCC-AAAAT
1 AAAATTACATTTTAACCCCAAACTTTTCTAAAATCACATTTTCACCCCTAAACTT-TCCTAAAAT
* * * *
15667140 TACATTTTGACCCCTAAAC-TTTCCTAAAAACACATTTTAA-CCTCTAAACTTTTCT
65 CACATTTTAACCCCTAAACTTTTCC-AAAAACACATTTTAACCCT-TAAAC-TTCCC
* *
15667195 AAAATTGCA-TTTAACCTCAAACTTTTCTAAAAT
1 AAAATTACATTTTAACCCCAAACTTTTCTAAAAT
15667228 TGCATTTTGA
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
117 29 0.22
118 87 0.67
119 13 0.10
ACGTcount: A:0.36, C:0.27, G:0.01, T:0.35
Consensus pattern (118 bp):
AAAATTACATTTTAACCCCAAACTTTTCTAAAATCACATTTTCACCCCTAAACTTTCCTAAAATC
ACATTTTAACCCCTAAACTTTTCCAAAAACACATTTTAACCCTTAAACTTCCC
Found at i:15669771 original size:19 final size:19
Alignment explanation
Indices: 15669747--15669785 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15669737 TAGGATTGAA
15669747 TATTTAAGTTAT-TATTTAT
1 TATTTAA-TTATGTATTTAT
*
15669766 TATTTAATTTTGTATTTAT
1 TATTTAATTATGTATTTAT
15669785 T
1 T
15669786 TATATTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TATTTAATTATGTATTTAT
Found at i:15669799 original size:23 final size:24
Alignment explanation
Indices: 15669758--15669808 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
15669748 ATTTAAGTTA
*
15669758 TTATTTATTATTTAA-TTTTGTAT
1 TTATTTATTATTTAATTTTTATAT
*
15669781 TTATTTA-TATTTATCTTTTTATAT
1 TTATTTATTATTTA-ATTTTTATAT
15669805 TTAT
1 TTAT
15669809 CTTTTAGAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 11 0.46
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTTATTATTTAATTTTTATAT
Found at i:15669803 original size:14 final size:14
Alignment explanation
Indices: 15669784--15669813 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15669774 TTTGTATTTA
15669784 TTTATATTTATCTT
1 TTTATATTTATCTT
15669798 TTTATATTTATCTT
1 TTTATATTTATCTT
15669812 TT
1 TT
15669814 AGAGTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATATTTATCTT
Found at i:15671449 original size:64 final size:64
Alignment explanation
Indices: 15671368--15671493 Score: 243
Period size: 64 Copynumber: 2.0 Consensus size: 64
15671358 ATATTACTTT
15671368 TATATATATAAATATTATTCTTTAGATGAGTGATTGACTACTTATAATTTGATTTCAATTTATA
1 TATATATATAAATATTATTCTTTAGATGAGTGATTGACTACTTATAATTTGATTTCAATTTATA
*
15671432 TATATATATATATATTATTCTTTAGATGAGTGATTGACTACTTATAATTTGATTTCAATTTA
1 TATATATATAAATATTATTCTTTAGATGAGTGATTGACTACTTATAATTTGATTTCAATTTA
15671494 GTTAAGTAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (64 bp):
TATATATATAAATATTATTCTTTAGATGAGTGATTGACTACTTATAATTTGATTTCAATTTATA
Found at i:15673261 original size:28 final size:29
Alignment explanation
Indices: 15673229--15673287 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
15673219 AAAACGGGAC
* *
15673229 TTTTGGA-TACCCGTGGGCAAAATGGTAA
1 TTTTGGACTACCAGGGGGCAAAATGGTAA
**
15673257 TTTTGGACTTTCAGGGGGCAAAATGGTAA
1 TTTTGGACTACCAGGGGGCAAAATGGTAA
15673286 TT
1 TT
15673288 CTCGTGAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.32
Consensus pattern (29 bp):
TTTTGGACTACCAGGGGGCAAAATGGTAA
Found at i:15673394 original size:30 final size:30
Alignment explanation
Indices: 15673363--15673529 Score: 198
Period size: 30 Copynumber: 5.6 Consensus size: 30
15673353 CAAAATCGGC
*
15673363 GTCAAAATGCAATTTTTAGAAAGTTTT-GG
1 GTCAAAATGTAATTTTTAGAAAGTTTTAGG
*
15673392 CGTTAAAATGTAA-TTTTAGAAAAGTTTTAGG
1 -GTCAAAATGTAATTTTTAG-AAAGTTTTAGG
*
15673423 GTCAAAATGTAATTTTTAGAAAGTTTTAAG
1 GTCAAAATGTAATTTTTAGAAAGTTTTAGG
*
15673453 GTTAAAATGTAA-TTTTAGAAAAGTTTTAGG
1 GTCAAAATGTAATTTTTAG-AAAGTTTTAGG
* * *
15673483 GTTAAAATGTAATTTTCAAAAAGTTTT-GG
1 GTCAAAATGTAATTTTTAGAAAGTTTTAGG
*
15673512 AGTCAAAATATAATTTTT
1 -GTCAAAATGTAATTTTT
15673530 GGGCAGTTTA
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
29 14 0.12
30 94 0.78
31 12 0.10
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.40
Consensus pattern (30 bp):
GTCAAAATGTAATTTTTAGAAAGTTTTAGG
Found at i:15673430 original size:90 final size:89
Alignment explanation
Indices: 15673336--15673531 Score: 208
Period size: 90 Copynumber: 2.2 Consensus size: 89
15673326 TCGAGGGGAT
* **
15673336 AAAATGATAAATTTTGGCAAA-ATCGGCGTCAAAATGCAATTTTTAG-AAAGTTTT-GGCGTTAA
1 AAAATGATAATTTTTGG-AAATATAAG-GTCAAAATGCAA-TTTTAGAAAAGTTTTAGG-GTTAA
15673398 AATGTAATTTT-AGAAAAGTTTTAGG-GTC
62 AATGTAATTTTCA-AAAAGTTTT-GGAGTC
* * * *
15673426 AAAATG-TAATTTTTAGAAAGTTTTAAGGTTAAAATGTAATTTTAGAAAAGTTTTAGGGTTAAAA
1 AAAATGATAATTTTTGGAAA--TATAAGGTCAAAATGCAATTTTAGAAAAGTTTTAGGGTTAAAA
15673490 TGTAATTTTCAAAAAGTTTTGGAGTC
64 TGTAATTTTCAAAAAGTTTTGGAGTC
15673516 AAAAT-ATAATTTTTGG
1 AAAATGATAATTTTTGG
15673532 GCAGTTTAGG
Statistics
Matches: 90, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
88 3 0.03
89 16 0.18
90 66 0.73
91 5 0.06
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (89 bp):
AAAATGATAATTTTTGGAAATATAAGGTCAAAATGCAATTTTAGAAAAGTTTTAGGGTTAAAATG
TAATTTTCAAAAAGTTTTGGAGTC
Found at i:15673538 original size:60 final size:60
Alignment explanation
Indices: 15673363--15673528 Score: 244
Period size: 60 Copynumber: 2.8 Consensus size: 60
15673353 CAAAATCGGC
* *
15673363 GTCAAAATGCAATTTTTAGAAAGTTTTGGCGTTAAAATGTAATTTTAGAAAAGTTTTAGG
1 GTCAAAATGTAATTTTTAGAAAGTTTTGGAGTTAAAATGTAATTTTAGAAAAGTTTTAGG
*
15673423 GTCAAAATGTAATTTTTAGAAAGTTTT-AAGGTTAAAATGTAATTTTAGAAAAGTTTTAGG
1 GTCAAAATGTAATTTTTAGAAAGTTTTGGA-GTTAAAATGTAATTTTAGAAAAGTTTTAGG
* * * * *
15673483 GTTAAAATGTAATTTTCAAAAAGTTTTGGAGTCAAAATATAATTTT
1 GTCAAAATGTAATTTTTAGAAAGTTTTGGAGTTAAAATGTAATTTT
15673529 TGGGCAGTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
60 94 0.99
61 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.40
Consensus pattern (60 bp):
GTCAAAATGTAATTTTTAGAAAGTTTTGGAGTTAAAATGTAATTTTAGAAAAGTTTTAGG
Found at i:15673538 original size:90 final size:90
Alignment explanation
Indices: 15673366--15673529 Score: 246
Period size: 90 Copynumber: 1.8 Consensus size: 90
15673356 AATCGGCGTC
15673366 AAAATGCAATTTTTAGAAAGTTTTGGCGTTAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAAT
1 AAAATGCAATTTTTAGAAAGTTTTGGCGTTAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAAT
*
15673431 GTAATTTTTAGAAAGTTTTAAGGTT
66 ATAATTTTTAGAAAGTTTTAAGGTT
*
15673456 AAAATGTAA-TTTTAGAAAAGTTTTAGG-GTTAAAATGTAATTTTCA-AAAAGTTTT-GGAGTCA
1 AAAATGCAATTTTTAG-AAAGTTTT-GGCGTTAAAATGTAATTTT-AGAAAAGTTTTAGG-GTCA
15673517 AAATATAATTTTT
62 AAATATAATTTTT
15673530 GGGCAGTTTA
Statistics
Matches: 68, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
89 8 0.12
90 57 0.84
91 3 0.04
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (90 bp):
AAAATGCAATTTTTAGAAAGTTTTGGCGTTAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAAT
ATAATTTTTAGAAAGTTTTAAGGTT
Found at i:15675515 original size:6 final size:6
Alignment explanation
Indices: 15675500--15675558 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
15675490 TTAAATTTGA
* * *
15675500 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT AAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
15675548 ATAAAT TTAAA
1 TTAAAT TTAAA
15675559 ACCCATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:15675534 original size:14 final size:14
Alignment explanation
Indices: 15675515--15675542 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15675505 CTTAAATTTA
15675515 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
15675529 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
15675543 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:15675969 original size:38 final size:40
Alignment explanation
Indices: 15675933--15676713 Score: 381
Period size: 38 Copynumber: 20.1 Consensus size: 40
15675923 TAACTTCAAA
*
15675933 GATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
1 GATAAAGACTTGTTATCTAGCTTTACTTCAATTTCAAGAG
* ** * *
15675973 GAT-AGGAAATG--ATCTTGCTCTTACTTCAATTT-TAGA-
1 GATAAAGACTTGTTATCTAGCT-TTACTTCAATTTCAAGAG
* *
15676009 GATACAGACTTGATATCTAGCTTTACTTCAATTTCAAGAG
1 GATAAAGACTTGTTATCTAGCTTTACTTCAATTTCAAGAG
* **
15676049 GAT-AGGAAATG--ATCTTA-CTTTACTTCAATTTCAAGAG
1 GATAAAGACTTGTTATC-TAGCTTTACTTCAATTTCAAGAG
* ***
15676086 GAT-AGGAAAAG--ATCTTA-CTCTTACTTCAATTTC-AGA-
1 GATAAAGACTTGTTATC-TAGCT-TTACTTCAATTTCAAGAG
* * *
15676122 GATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 GATAAAGACTTGTTATCTAGCTTTACTTCAATTTCAAGAG
15676162 GATAGGAA-AC--G--ATCTTA-CTCTTACTTCAATTTC-AGA-
1 GATA--AAGACTTGTTATC-TAGCT-TTACTTCAATTTCAAGAG
* *
15676198 GATACAGACTTGATATCTAGCTTTACTTCAATTTCAAGAG
1 GATAAAGACTTGTTATCTAGCTTTACTTCAATTTCAAGAG
* *** *
15676238 GAT-AGGAAAAG--ATCTTA-CTCGTACTTCAATTTC-AGA-
1 GATAAAGACTTGTTATC-TAGCT-TTACTTCAATTTCAAGAG
* * *
15676274 GATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 GATAAAGACTTGTTATCTAGCTTTACTTCAATTTCAAGAG
* * *
15676314 GATAGAA-A-ATG--ATCTTGCTCTTACTTTAATTTC-AGA-
1 GATA-AAGACTTGTTATCTAGCT-TTACTTCAATTTCAAGAG
* *
15676350 GATACAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAG
1 GATAAAGACTTGTTATCTAGCTTTACTTCAATTTCAAGAG
* ** *
15676390 GAT-AGGAAATG--ATCTTGCTCTTACTTCAATTTCAA-A-
1 GATAAAGACTTGTTATCTAGCT-TTACTTCAATTTCAAGAG
* * *
15676426 GATAAAGACTTGATATCCAGTCTTTACTTCAATTTCAAAAG
1 GATAAAGACTTGTTATCTAG-CTTTACTTCAATTTCAAGAG
* *** *
15676467 GAT-AGGAAAAG--ATCTTA-CTCTTACTTCAATTT-TAGA-
1 GATAAAGACTTGTTATC-TAGCT-TTACTTCAATTTCAAGAG
* *
15676503 GATAAAGACTTGTTATCTAGCTCTACTTCAATTTCAACAG
1 GATAAAGACTTGTTATCTAGCTTTACTTCAATTTCAAGAG
* ***
15676543 GAT-AGGAAAAG--ATCTTA-CTCTTACTTCAATTTC-AGA-
1 GATAAAGACTTGTTATC-TAGCT-TTACTTCAATTTCAAGAG
* * * *
15676579 GATAAAGACTTGTTATCCAACTCTATTTCAATTTCAAGAG
1 GATAAAGACTTGTTATCTAGCTTTACTTCAATTTCAAGAG
* * *
15676619 GATAGGAAATGATGTTGGTGCTCCGTCTTGCTCTTACTTCAATTTC-AGAG
1 GAT---AAA-GA-CTT-GT--T--ATCTAGCT-TTACTTCAATTTCAAGAG
* *
15676669 AGATAAAGACTTGTTATCCAGCTCTACTTCAATTTCAAGAG
1 -GATAAAGACTTGTTATCTAGCTTTACTTCAATTTCAAGAG
15676710 GATA
1 GATA
15676714 GGAGATGATG
Statistics
Matches: 564, Mismatches: 99, Indels: 156
0.69 0.12 0.19
Matches are distributed among these distances:
34 1 0.00
35 3 0.01
36 27 0.05
37 123 0.22
38 199 0.35
39 101 0.18
40 50 0.09
41 16 0.03
42 2 0.00
43 4 0.01
44 2 0.00
45 4 0.01
46 4 0.01
47 2 0.00
48 4 0.01
50 8 0.01
51 14 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (40 bp):
GATAAAGACTTGTTATCTAGCTTTACTTCAATTTCAAGAG
Found at i:15676034 original size:76 final size:76
Alignment explanation
Indices: 15675908--15676082 Score: 264
Period size: 76 Copynumber: 2.3 Consensus size: 76
15675898 TTGAAAATTC
* *
15675908 ATCTTGCTCTTACTAT-AACTTCAAAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGA
1 ATCTTGCTCTTACT-TCAATTTCAAAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGA
15675972 GGATAGGAAATG
65 GGATAGGAAATG
* * * *
15675984 ATCTTGCTCTTACTTCAATTTTAGAGATACAGACTTGATATCTAGCTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAAAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
15676049 GATAGGAAATG
66 GATAGGAAATG
*
15676060 ATCTTACT-TTACTTCAATTTCAA
1 ATCTTGCTCTTACTTCAATTTCAA
15676083 GAGGATAGGA
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 14 0.16
76 75 0.84
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAAAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:15676158 original size:76 final size:76
Alignment explanation
Indices: 15676069--15676627 Score: 877
Period size: 76 Copynumber: 7.3 Consensus size: 76
15676059 GATCTTACTT
15676069 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
15676134 TTATCCAACTC
66 TTATCCAACTC
* *
15676145 TACTTCAATTTCAAGAGGATAGGAAACGATCTTACTCTTACTTCAATTTCAGAGATACAGACTTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
* * * *
15676210 ATATCTAGCTT
66 TTATCCAACTC
*
15676221 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCGTACTTCAATTTCAGAGATAAAGACTTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
15676286 TTATCCAACTC
66 TTATCCAACTC
* * *
15676297 TACTTCAATTTCAAGAGGATA-GAAAATGATCTTGCTCTTACTTTAATTTCAGAGATACAGACTT
1 TACTTCAATTTCAAGAGGATAGGAAAA-GATCTTACTCTTACTTCAATTTCAGAGATAAAGACTT
* *
15676361 GTTATCCAGCTT
65 GTTATCCAACTC
* * *
15676373 TACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAAAGATAAAGACTTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
* * *
15676438 ATATCCAGTCTT
66 TTATCCA-ACTC
* *
15676450 TACTTCAATTTCAAAAGGATAGGAAAAGATCTTACTCTTACTTCAATTTTAGAGATAAAGACTTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
* *
15676515 TTATCTAGCTC
66 TTATCCAACTC
*
15676526 TACTTCAATTTCAACAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
1 TACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
15676591 TTATCCAACTC
66 TTATCCAACTC
*
15676602 TATTTCAATTTCAAGAGGATAGGAAA
1 TACTTCAATTTCAAGAGGATAGGAAA
15676628 TGATGTTGGT
Statistics
Matches: 440, Mismatches: 40, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
75 5 0.01
76 363 0.82
77 72 0.16
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (76 bp):
TACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGACTTG
TTATCCAACTC
Found at i:15676514 original size:305 final size:309
Alignment explanation
Indices: 15676066--15676722 Score: 1000
Period size: 305 Copynumber: 2.1 Consensus size: 309
15676056 AATGATCTTA
* *
15676066 CTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCAGAGATAAAGAC
1 CTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAAAGATAAAGAC
* * *
15676131 TTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAACGATCTTACTCTTACTTCAATTTCA
66 TTGATATCCAACTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCA
* * *
15676196 GAGATACAGACTTGATATCTAGCTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTACTCGTA
131 GAGATAAAGACTTGATATCTAGCTCTACTTCAATTTCAACAGGATAGGAAAAGATCTTACTCGTA
15676261 CTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA-GAAA-A-
196 CTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAGAG
* *
15676323 TG-ATCTTGCTCTTACTTTAATTTC-AGAGATACAGACTTGTTATCCAG
261 TGCATCTTGCTCTTACTTCAATTTCAAGAGATAAAGACTTGTTATCCAG
*
15676370 CTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTTACTTCAATTTCAAAGATAAAGAC
1 CTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAAAGATAAAGAC
* * *
15676435 TTGATATCCAGTCTTTACTTCAATTTCAAAAGGATAGGAAAAGATCTTACTCTTACTTCAATTTT
66 TTGATATCCA-ACTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTACTCTTACTTCAATTTC
* *
15676500 AGAGATAAAGACTTGTTATCTAGCTCTACTTCAATTTCAACAGGATAGGAAAAGATCTTACTCTT
130 AGAGATAAAGACTTGATATCTAGCTCTACTTCAATTTCAACAGGATAGGAAAAGATCTTACTCGT
*
15676565 ACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTATTTCAATTTCAAGAGGATAGGAAATG
195 ACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAA-G
*
15676630 ATGTTGGTGCTCCGTCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAG
259 A-----GTG---CATCTTGCTCTTACTTCAATTTCA-AGAGATAAAGACTTGTTATCCAG
* *
15676690 CTCTACTTCAATTTCAAGAGGATAGGAGATGAT
1 CTTTACTTCAATTTCAAGAGGATAGGAAATGAT
15676723 GTTTGATTGA
Statistics
Matches: 317, Mismatches: 20, Indels: 16
0.90 0.06 0.05
Matches are distributed among these distances:
304 71 0.22
305 166 0.52
306 4 0.01
308 1 0.00
314 2 0.01
318 20 0.06
320 53 0.17
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (309 bp):
CTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTTACTTCAATTTCAAAGATAAAGAC
TTGATATCCAACTCTACTTCAATTTCAAAAGGATAGGAAAAGATCTTACTCTTACTTCAATTTCA
GAGATAAAGACTTGATATCTAGCTCTACTTCAATTTCAACAGGATAGGAAAAGATCTTACTCGTA
CTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAGAG
TGCATCTTGCTCTTACTTCAATTTCAAGAGATAAAGACTTGTTATCCAG
Found at i:15676713 original size:91 final size:89
Alignment explanation
Indices: 15676555--15676725 Score: 288
Period size: 91 Copynumber: 1.9 Consensus size: 89
15676545 TAGGAAAAGA
*
15676555 TCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTATTTCAATTTCAAGAGG
1 TCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
15676620 ATAGGAAATGATGTTGGTGCTCCG
66 ATAGGAAATGATGTTGGTGCTCCG
* *
15676644 TCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTCTACTTCAATTTCAAGA
1 TCTTACTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA
*
15676709 GGATAGGAGATGATGTT
64 GGATAGGAAATGATGTT
15676726 TGATTGATCT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 20 0.26
91 56 0.74
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (89 bp):
TCTTACTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
ATAGGAAATGATGTTGGTGCTCCG
Found at i:15689146 original size:30 final size:30
Alignment explanation
Indices: 15688977--15689145 Score: 202
Period size: 30 Copynumber: 5.6 Consensus size: 30
15688967 GGCACAATCG
*
15688977 GGGTTAAAATGTAATTTTTAG-AAAGTTTTA
1 GGGTCAAAATGTAA-TTTTAGAAAAGTTTTA
15689007 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTAGAAAAGTTTTA
*
15689037 GGGTCAAAATGTAATTTTGGAAAAGTCTTT-
1 GGGTCAAAATGTAATTTTAGAAAAGT-TTTA
* * *
15689067 GGGATCAAAATATAATTTTGGAAAA-TTTTT
1 GGG-TCAAAATGTAATTTTAGAAAAGTTTTA
15689097 GAGGTCAAAATGTAATTTTTAG-AAAGTTTTA
1 G-GGTCAAAATGTAA-TTTTAGAAAAGTTTTA
* *
15689128 AGGTCAAAATATAATTTT
1 GGGTCAAAATGTAATTTT
15689146 TGGGTAGTTT
Statistics
Matches: 124, Mismatches: 8, Indels: 15
0.84 0.05 0.10
Matches are distributed among these distances:
29 13 0.10
30 77 0.62
31 34 0.27
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.39
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTAGAAAAGTTTTA
Found at i:15689148 original size:61 final size:60
Alignment explanation
Indices: 15688977--15689145 Score: 227
Period size: 60 Copynumber: 2.8 Consensus size: 60
15688967 GGCACAATCG
* * *
15688977 GGGTTAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATGTAATTTTAGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTA
* *
15689037 GGGTCAAAATGTAA-TTTTGGAAAAGTCTTT-GGGATCAAAATATAATTTTGGAAAA-TTTTT
1 GGGTCAAAATGTAATTTTTAG-AAAGT-TTTAGGG-TCAAAATATAATTTTGGAAAAGTTTTA
*
15689097 GAGGTCAAAATGTAATTTTTAGAAAGTTTTAAGGTCAAAATATAATTTT
1 G-GGTCAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTT
15689146 TGGGTAGTTT
Statistics
Matches: 96, Mismatches: 7, Indels: 12
0.83 0.06 0.10
Matches are distributed among these distances:
59 5 0.05
60 44 0.46
61 42 0.44
62 5 0.05
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.39
Consensus pattern (60 bp):
GGGTCAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTA
Found at i:15691138 original size:6 final size:6
Alignment explanation
Indices: 15691123--15691181 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
15691113 TTAAATTTGA
* * *
15691123 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT AAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
15691171 ATAAAT TTAAA
1 TTAAAT TTAAA
15691182 ATCCATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:15691157 original size:14 final size:14
Alignment explanation
Indices: 15691138--15691165 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15691128 CTTAAATTTA
15691138 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
15691152 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
15691166 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:15691192 original size:11 final size:11
Alignment explanation
Indices: 15691130--15691183 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
15691120 TGATTAAACT
*
15691130 TAAATTTAAAG
1 TAAATTTAAAA
15691141 TAAATTT-AAA
1 TAAATTTAAAA
* *
15691151 T-AA-GTAAATT
1 TAAATTTAAA-A
15691161 TAAATTTAAAA
1 TAAATTTAAAA
15691172 TAAATTTAAAA
1 TAAATTTAAAA
15691183 T
1 T
15691184 CCATTTAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
8 1 0.03
9 4 0.12
10 4 0.12
11 21 0.62
12 4 0.12
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:15692343 original size:9 final size:9
Alignment explanation
Indices: 15692326--15692373 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
15692316 TAAATTTTAC
*
15692326 AATTTAAAT
1 AATTCAAAT
15692335 AATTCAAAT
1 AATTCAAAT
15692344 AATTCAAAT
1 AATTCAAAT
* *
15692353 AACTCGAAT
1 AATTCAAAT
*
15692362 AACTCAAAT
1 AATTCAAAT
15692371 AAT
1 AAT
15692374 AAATTGGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.31
Consensus pattern (9 bp):
AATTCAAAT
Found at i:15692475 original size:19 final size:19
Alignment explanation
Indices: 15692453--15692534 Score: 62
Period size: 19 Copynumber: 4.1 Consensus size: 19
15692443 ATTACATAGT
15692453 AATTCAAAATAAATTTTAA
1 AATTCAAAATAAATTTTAA
15692472 AATTCAAAAT--ATTTATAA
1 AATTCAAAATAAATTT-TAA
*
15692490 AAGTTCCAAAATTTATATTTTTAAA
1 AA-TT-CAAAA--TA-AATTTT-AA
*
15692515 AATT-ATAATAAATTTTAA
1 AATTCAAAATAAATTTTAA
15692533 AA
1 AA
15692535 AAATTCTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
17 4 0.08
18 9 0.18
19 17 0.33
20 7 0.14
22 4 0.08
24 3 0.06
25 7 0.14
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (19 bp):
AATTCAAAATAAATTTTAA
Found at i:15692503 original size:18 final size:17
Alignment explanation
Indices: 15692463--15692506 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
15692453 AATTCAAAAT
15692463 AAATTT-TAAAATTCAA
1 AAATTTATAAAATTCAA
*
15692479 AATATTTATAAAAGTTCCA
1 AA-ATTTATAAAA-TTCAA
15692498 AAATTTATA
1 AAATTTATA
15692507 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.08
17 4 0.17
18 12 0.50
19 6 0.25
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATTTATAAAATTCAA
Found at i:15692538 original size:21 final size:20
Alignment explanation
Indices: 15692512--15692564 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
15692502 TTATATTTTT
*
15692512 AAAAATTATAATAAATTTTAA
1 AAAAATT-TAATAAATTCTAA
*
15692533 AAAAATTCTAAAAAATTCTAA
1 AAAAATT-TAATAAATTCTAA
15692554 AAAAATTTAAT
1 AAAAATTTAAT
15692565 TTTAATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTTAATAAATTCTAA
Found at i:15692544 original size:11 final size:11
Alignment explanation
Indices: 15692524--15692560 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
15692514 AAATTATAAT
*
15692524 AAATTTTAAAA
1 AAATTCTAAAA
15692535 AAATTCT-AAA
1 AAATTCTAAAA
15692545 AAATTCTAAAA
1 AAATTCTAAAA
15692556 AAATT
1 AAATT
15692561 TAATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTCTAAAA
Found at i:15692555 original size:9 final size:10
Alignment explanation
Indices: 15692512--15692557 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
15692502 TTATATTTTT
*
15692512 AAAAATTATA
1 AAAAATTCTA
* *
15692522 ATAAATTTTAA
1 AAAAATTCT-A
15692533 AAAAATTCTA
1 AAAAATTCTA
15692543 AAAAATTCTA
1 AAAAATTCTA
15692553 AAAAA
1 AAAAA
15692558 ATTTAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 23 0.74
11 8 0.26
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:15695626 original size:30 final size:28
Alignment explanation
Indices: 15695592--15695649 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
15695582 ATTGGATATG
* *
15695592 AATTTTTAAATATAAAAAATATTGAAATTA
1 AATTTCTAAAAAT-AAAAATATT-AAATTA
15695622 AATTTCTAAAAATAAAAATATTAAATTA
1 AATTTCTAAAAATAAAAATATTAAATTA
15695650 CAAATAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 9 0.35
30 11 0.42
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
AATTTCTAAAAATAAAAATATTAAATTA
Found at i:15700088 original size:12 final size:12
Alignment explanation
Indices: 15700071--15700095 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15700061 TAATTCCATG
15700071 AAATGAGCCCTA
1 AAATGAGCCCTA
15700083 AAATGAGCCCTA
1 AAATGAGCCCTA
15700095 A
1 A
15700096 GAGGTTACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (12 bp):
AAATGAGCCCTA
Found at i:15703151 original size:19 final size:19
Alignment explanation
Indices: 15703119--15703179 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
15703109 AAAAAATAAT
*
15703119 AAAT-AAAAATAGAAGAGA
1 AAATAAAAAAAAGAAGAGA
15703137 AAA-AGAAAAAAAGAAGA-A
1 AAATA-AAAAAAAGAAGAGA
15703155 AAATAAAAAAAAGGAAGAAGA
1 AAATAAAAAAAA-GAAG-AGA
15703176 AAAT
1 AAAT
15703180 GAGAGGTCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
18 14 0.39
19 16 0.44
20 1 0.03
21 5 0.14
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (19 bp):
AAATAAAAAAAAGAAGAGA
Found at i:15703156 original size:17 final size:16
Alignment explanation
Indices: 15703134--15703178 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
15703124 AAAATAGAAG
15703134 AGAAAAAGAAAAAAAGA
1 AGAAAAAGAAAAAAA-A
*
15703151 AGAAAAATAAAAAAAA
1 AGAAAAAGAAAAAAAA
* *
15703167 GGAAGAAGAAAA
1 AGAAAAAGAAAA
15703179 TGAGAGGTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (16 bp):
AGAAAAAGAAAAAAAA
Found at i:15703568 original size:119 final size:114
Alignment explanation
Indices: 15703382--15703611 Score: 316
Period size: 119 Copynumber: 2.0 Consensus size: 114
15703372 TCAAGCTCGG
* * * *
15703382 CTTCGTTATTTTGATTCGACACACTGTTTTGACCCACTTCTCTGTTCCTCACCAGGAAAATGGGA
1 CTTCGTTATTTTGATTCAACACACTGTATTGACCCACTTCTCTGTGCCTCACCAGGAAAATGAGA
15703447 TTTGAAGTCTCACTCCACTCCACTCCACTATATCCTTAGGGACGTTGAGCTTGC
66 TTTGAAGTCTCACTCCA-T----TCCACTATATCCTTAGGGACGTTGAGCTTGC
* * * ** *
15703501 CTTCGTTGTTTTGATTCAACATACTGTATTGACCCACTTCTCTGTGCCTTAGTAGGAAGATGAGA
1 CTTCGTTATTTTGATTCAACACACTGTATTGACCCACTTCTCTGTGCCTCACCAGGAAAATGAGA
*
15703566 TTTGAAGTCTCACTCCATTCCACTGTATCCTTAGGGACGTTGAGCT
66 TTTGAAGTCTCACTCCATTCCACTATATCCTTAGGGACGTTGAGCT
15703612 CGGCTTCATT
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
114 27 0.27
118 1 0.01
119 72 0.72
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (114 bp):
CTTCGTTATTTTGATTCAACACACTGTATTGACCCACTTCTCTGTGCCTCACCAGGAAAATGAGA
TTTGAAGTCTCACTCCATTCCACTATATCCTTAGGGACGTTGAGCTTGC
Found at i:15703768 original size:42 final size:42
Alignment explanation
Indices: 15703706--15703820 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 42
15703696 TAGGGACGTA
** *
15703706 AGATTCGCCTTTGTAACTTCAATCTAGCCTT-T-TACAACT-TTG
1 AGATTCGCCTTTACAGCTTCAATCTA--CTTCTCTAC-ACTCTTG
* *
15703748 AGATTCGCCTTTACGGCTTCAATCTACTTCTCTACAGTCTTG
1 AGATTCGCCTTTACAGCTTCAATCTACTTCTCTACACTCTTG
* *
15703790 AGATTTGCCTTTGCAGCTTCAATCTACTTCT
1 AGATTCGCCTTTACAGCTTCAATCTACTTCT
15703821 TCTCATCTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
40 3 0.05
41 3 0.05
42 56 0.90
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (42 bp):
AGATTCGCCTTTACAGCTTCAATCTACTTCTCTACACTCTTG
Found at i:15703858 original size:49 final size:49
Alignment explanation
Indices: 15703805--15704141 Score: 262
Period size: 49 Copynumber: 6.9 Consensus size: 49
15703795 TGCCTTTGCA
* *
15703805 GCTTCAATCTACTT-CTTCTCATCTTTGGGGTATAAGATTCGCCATTGTG
1 GCTTCAATCTA-TTCCTTCTCATCTTTAGGGTATAAGATTCGCCGTTGTG
* * * * * * *
15703854 GCTTCAATAT-TTCCCTTCACATCTCTAAGGTATAAGGTTCACCGTTGTA
1 GCTTCAATCTATT-CCTTCTCATCTTTAGGGTATAAGATTCGCCGTTGTG
* * * *
15703903 GCTTAAACCT-TTCCCTCTACATCTTTAGGGTATAAGATTCGTCGTTGTG
1 GCTTCAATCTATTCCTTCT-CATCTTTAGGGTATAAGATTCGCCGTTGTG
* * **
15703952 GCTTCAATCT-TTCCCTTCAT-ATCTTTAGGGTATAAGGTTCACCGTTACG
1 GCTTCAATCTATT-CCTTC-TCATCTTTAGGGTATAAGATTCGCCGTTGTG
* * * * *
15704001 GCTTCAACCT-TTCCCTCTACATCTCTAGGGTATAAGGA-TCGTCGTTATG
1 GCTTCAATCTATTCCTTCT-CATCTTTAGGGTATAA-GATTCGCCGTTGTG
* * * *
15704050 GCTTCAACCT-TTCCCTCTACATCTCTAGGGTATAAGGA-TCGCCGTTATG
1 GCTTCAATCTATTCCTTCT-CATCTTTAGGGTATAA-GATTCGCCGTTGTG
* *
15704099 GCTTCAACCT-TTCCCTCTACATCTTTAGGGTATAAGATTCGCC
1 GCTTCAATCTATTCCTTCT-CATCTTTAGGGTATAAGATTCGCC
15704142 ATTGCGACTT
Statistics
Matches: 242, Mismatches: 37, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
47 3 0.01
48 10 0.04
49 223 0.92
50 5 0.02
51 1 0.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (49 bp):
GCTTCAATCTATTCCTTCTCATCTTTAGGGTATAAGATTCGCCGTTGTG
Found at i:15703937 original size:98 final size:98
Alignment explanation
Indices: 15703824--15704170 Score: 446
Period size: 98 Copynumber: 3.5 Consensus size: 98
15703814 TACTTCTTCT
* *
15703824 CATCTTTGGGGTATAAGATTCGCCATTGTGGCTTCAATATTTCCCTTCACATCTCTAAGGTATAA
1 CATCTTTAGGGTATAAGATTCGCCATTGTGGCTTCAATATTTCCCTTCACATCTCTAGGGTATAA
* * *
15703889 GGTTCACCGTTGTAGCTTAAACCTTTCCCTCTA
66 GGTTCACCGTTATGGCTTCAACCTTTCCCTCTA
* * * * *
15703922 CATCTTTAGGGTATAAGATTCGTCGTTGTGGCTTCAATCTTTCCCTTCATATCTTTAGGGTATAA
1 CATCTTTAGGGTATAAGATTCGCCATTGTGGCTTCAATATTTCCCTTCACATCTCTAGGGTATAA
*
15703987 GGTTCACCGTTACGGCTTCAACCTTTCCCTCTA
66 GGTTCACCGTTATGGCTTCAACCTTTCCCTCTA
* * * * **
15704020 CATCTCTAGGGTATAAGGA-TCGTCGTTATGGCTTCAACCTTTCCC-TCTACATCTCTAGGGTAT
1 CATCTTTAGGGTATAA-GATTCGCCATTGTGGCTTCAATATTTCCCTTC-ACATCTCTAGGGTAT
* *
15704083 AAGGATCGCCGTTATGGCTTCAACCTTTCCCTCTA
64 AAGGTTCACCGTTATGGCTTCAACCTTTCCCTCTA
* * * **
15704118 CATCTTTAGGGTATAAGATTCGCCATTGCGACTTTAATATTTCATTTCACATC
1 CATCTTTAGGGTATAAGATTCGCCATTGTGGCTTCAATATTTCCCTTCACATC
15704171 ATTAGAGTAT
Statistics
Matches: 215, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
97 4 0.02
98 207 0.96
99 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.37
Consensus pattern (98 bp):
CATCTTTAGGGTATAAGATTCGCCATTGTGGCTTCAATATTTCCCTTCACATCTCTAGGGTATAA
GGTTCACCGTTATGGCTTCAACCTTTCCCTCTA
Found at i:15704170 original size:147 final size:146
Alignment explanation
Indices: 15703819--15704170 Score: 420
Period size: 147 Copynumber: 2.4 Consensus size: 146
15703809 CAATCTACTT
* * *
15703819 CTTCTCATCTTTGGGGTATAAGATTCGCCATTGTGGCTTCAATATTTCCCTTCACATCTCTAAGG
1 CTTCACATCTTTAGGGTATAAGATTCGCCATTGCGGCTTCAATATTT-CCTTCACATCTCTAAGG
* * * *
15703884 TATAAGGTTCACCGTTGTAGCTTAAACCTTTCCCTCTACATCTTTAGGGTATAAGATTCGTCGTT
65 TATAAGGATCACCGTTATAGCTTAAACCTTTCCCTCTACATCTCTAGGGTATAAGATTCGCCGTT
* *
15703949 GTGGCTTCAATCTTTCC
130 ATGGCTTCAACCTTTCC
* * * * * ** * *
15703966 CTTCATATCTTTAGGGTATAAGGTTCACCGTTACGGCTTCAACCTTTCCCTCTACATCTCTAGGG
1 CTTCACATCTTTAGGGTATAAGATTCGCCATTGCGGCTTCAATATTTCCTTC-ACATCTCTAAGG
** * *
15704031 TATAAGGATCGTCGTTATGGCTTCAACCTTTCCCTCTACATCTCTAGGGTATAAGGA-TCGCCGT
65 TATAAGGATCACCGTTATAGCTTAAACCTTTCCCTCTACATCTCTAGGGTATAA-GATTCGCCGT
15704095 TATGGCTTCAACCTTTCC
129 TATGGCTTCAACCTTTCC
* * *
15704113 C-TCTACATCTTTAGGGTATAAGATTCGCCATTGCGACTTTAATATTTCATTTCACATC
1 CTTC-ACATCTTTAGGGTATAAGATTCGCCATTGCGGCTTCAATATTTC-CTTCACATC
15704171 ATTAGAGTAT
Statistics
Matches: 168, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
146 6 0.04
147 158 0.94
148 4 0.02
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.37
Consensus pattern (146 bp):
CTTCACATCTTTAGGGTATAAGATTCGCCATTGCGGCTTCAATATTTCCTTCACATCTCTAAGGT
ATAAGGATCACCGTTATAGCTTAAACCTTTCCCTCTACATCTCTAGGGTATAAGATTCGCCGTTA
TGGCTTCAACCTTTCC
Found at i:15707162 original size:58 final size:58
Alignment explanation
Indices: 15707080--15707191 Score: 224
Period size: 58 Copynumber: 1.9 Consensus size: 58
15707070 ACTTGTCAAC
15707080 ATGACCCCTCAAAGAGCTAGGGAGTTGATTTCGATGATGGCTGCAAACTCTCAACAGT
1 ATGACCCCTCAAAGAGCTAGGGAGTTGATTTCGATGATGGCTGCAAACTCTCAACAGT
15707138 ATGACCCCTCAAAGAGCTAGGGAGTTGATTTCGATGATGGCTGCAAACTCTCAA
1 ATGACCCCTCAAAGAGCTAGGGAGTTGATTTCGATGATGGCTGCAAACTCTCAA
15707192 TAGTTTCGAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (58 bp):
ATGACCCCTCAAAGAGCTAGGGAGTTGATTTCGATGATGGCTGCAAACTCTCAACAGT
Found at i:15715259 original size:21 final size:20
Alignment explanation
Indices: 15715222--15715264 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
15715212 ATAATAATGA
*
15715222 TAAATAAATGTGTGTACATAT
1 TAAATAAATGTGGGTACA-AT
15715243 TAAATAAA-GTTGGGTACAAT
1 TAAATAAATG-TGGGTACAAT
15715263 TA
1 TA
15715265 TTTAGCAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (20 bp):
TAAATAAATGTGGGTACAAT
Found at i:15720326 original size:7 final size:7
Alignment explanation
Indices: 15720316--15720347 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
15720306 TGAGAGATGA
*
15720316 ATGAAGG
1 ATGAGGG
15720323 ATGAGGG
1 ATGAGGG
15720330 ATGAGGG
1 ATGAGGG
15720337 ATGAGGG
1 ATGAGGG
15720344 ATGA
1 ATGA
15720348 TGGAAATGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.50, T:0.16
Consensus pattern (7 bp):
ATGAGGG
Found at i:15720332 original size:18 final size:19
Alignment explanation
Indices: 15720291--15720333 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
15720281 GAGGAAAAAA
15720291 GGATGAAAGAAAGAATGAG
1 GGATGAAAGAAAGAATGAG
* * *
15720310 AGATGAATG-AAGGATGAG
1 GGATGAAAGAAAGAATGAG
15720328 GGATGA
1 GGATGA
15720334 GGGATGAGGG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.40, T:0.14
Consensus pattern (19 bp):
GGATGAAAGAAAGAATGAG
Found at i:15725235 original size:28 final size:28
Alignment explanation
Indices: 15725203--15725259 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
15725193 GTACTTCCTT
15725203 TACATTTGAAATACATTTATTTAGGTAA
1 TACATTTGAAATACATTTATTTAGGTAA
*
15725231 TACATTTGAAATACGTTTATTTAGGTAA
1 TACATTTGAAATACATTTATTTAGGTAA
15725259 T
1 T
15725260 TGTTCTACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (28 bp):
TACATTTGAAATACATTTATTTAGGTAA
Found at i:15729153 original size:18 final size:19
Alignment explanation
Indices: 15729126--15729168 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15729116 CTTATTTCCA
* *
15729126 TCATCCCTCA-TCCTTCAT
1 TCATCTCTCATTCCTTAAT
*
15729144 TCATCTCTCATTCTTTAAT
1 TCATCTCTCATTCCTTAAT
15729163 TCATCT
1 TCATCT
15729169 TTGTTTCCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.47
Consensus pattern (19 bp):
TCATCTCTCATTCCTTAAT
Found at i:15731273 original size:24 final size:24
Alignment explanation
Indices: 15731237--15731296 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
15731227 TAGACTAATA
* *
15731237 AGAGTTTGATTGAAACAAATAAAT
1 AGAGTTTAATTGAAACAAATAAAC
*
15731261 AGATTTTAATTGAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
15731285 AGAGTTTAATTG
1 AGAGTTTAATTG
15731297 GAAGATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.32
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAAC
Found at i:15753871 original size:18 final size:18
Alignment explanation
Indices: 15753807--15753874 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
15753797 TGTCACCACA
*
15753807 TTCCCTTTGTCATTGCAT
1 TTCCATTTGTCATTGCAT
** *
15753825 TTTTAATTGTCATTGCAT
1 TTCCATTTGTCATTGCAT
* *
15753843 GTGCA-TTGTCATTGCAT
1 TTCCATTTGTCATTGCAT
15753860 TTCCATTTGTCATTG
1 TTCCATTTGTCATTG
15753875 TAAATTAATG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 15 0.38
18 25 0.62
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.50
Consensus pattern (18 bp):
TTCCATTTGTCATTGCAT
Found at i:15758122 original size:50 final size:50
Alignment explanation
Indices: 15758047--15758150 Score: 172
Period size: 50 Copynumber: 2.1 Consensus size: 50
15758037 TTGAGTACAT
** *
15758047 TAATTTAAAATCTCTTTAATTAAAATTAATGCTTTTTTATTTGGTTTGAC
1 TAATTTAAAATCTCTTTAATTAAAATTAATGCTCATTGATTTGGTTTGAC
*
15758097 TAATTTAAAATCTCTTTAATTAAAATTAATGCTCATTGATTTGGTTTGAT
1 TAATTTAAAATCTCTTTAATTAAAATTAATGCTCATTGATTTGGTTTGAC
15758147 TAAT
1 TAAT
15758151 AAATATACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.50
Consensus pattern (50 bp):
TAATTTAAAATCTCTTTAATTAAAATTAATGCTCATTGATTTGGTTTGAC
Found at i:15760798 original size:50 final size:50
Alignment explanation
Indices: 15760744--15760844 Score: 134
Period size: 50 Copynumber: 2.0 Consensus size: 50
15760734 AAAGGCTTAA
*
15760744 TTAAGATGCAAAC-TAAATAAACAA-ATGAGTTACATAATGCATGACATAAT
1 TTAAGATGCAAACTTAAAT-AACAATA-GAGTTACATAACGCATGACATAAT
* * *
15760794 TTAAGATGCAAACTTAACTAACATTAGAGTTACATAACGCATGTCATAAT
1 TTAAGATGCAAACTTAAATAACAATAGAGTTACATAACGCATGACATAAT
15760844 T
1 T
15760845 AAATCATGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
50 40 0.89
51 5 0.11
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.29
Consensus pattern (50 bp):
TTAAGATGCAAACTTAAATAACAATAGAGTTACATAACGCATGACATAAT
Found at i:15763830 original size:182 final size:182
Alignment explanation
Indices: 15763468--15763833 Score: 576
Period size: 182 Copynumber: 2.0 Consensus size: 182
15763458 TGTATAGTTA
* *
15763468 AAAAGGCATGTCTCTTCACTTGTTGATTACTTAATGTTCCCTTAATCTGTTGTTTGGTATCCCTT
1 AAAAGGCATGTCTCTTCACTTGTTGATGACTTAATGTTCCCTTAATCTGTTGTTTGATATCCCTT
*
15763533 TATCTTCCTTAAAATTGAATGACAAAAGACTTGGTTTAGACCTCTTAAAATGGCATCATAATGAC
66 TATCTTCCTTAAAATTGAATGACAAAAGACTTGGCTTAGACCTCTTAAAATGGCATCATAATGAC
* *
15763598 CTTTGAAGGCACCAAAACCAATCAGATTTGAAAAGTTTTCTTGATCCATTTG
131 CATTGAAGGCACCAAAACCAATCAGATTTGAAAAGTTTCCTTGATCCATTTG
* * *
15763650 AAAAGGCATGTCTTTTCACTTGTTGATGACTTAATGTTCCCTTAATGTGTTGTTTGATATCCTTT
1 AAAAGGCATGTCTCTTCACTTGTTGATGACTTAATGTTCCCTTAATCTGTTGTTTGATATCCCTT
*
15763715 TATCTTCCTTAAAATTGAAT-ATCAAAAGACTT-GCTTAGACCTCTTAAAATGGCGTCATAATGA
66 TATCTTCCTTAAAATTGAATGA-CAAAAGACTTGGCTTAGACCTCTTAAAATGGCATCATAATGA
* * *
15763778 CCATTGAAGGCACCAAAATCGATCA-ATTTTGAAAAGTCTTCCTTGGTCCATTTG
130 CCATTGAAGGCACCAAAACCAATCAGA-TTTGAAAAGT-TTCCTTGATCCATTTG
15763832 AA
1 AA
15763834 TTGCCACCAT
Statistics
Matches: 169, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
180 1 0.01
181 62 0.37
182 106 0.63
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (182 bp):
AAAAGGCATGTCTCTTCACTTGTTGATGACTTAATGTTCCCTTAATCTGTTGTTTGATATCCCTT
TATCTTCCTTAAAATTGAATGACAAAAGACTTGGCTTAGACCTCTTAAAATGGCATCATAATGAC
CATTGAAGGCACCAAAACCAATCAGATTTGAAAAGTTTCCTTGATCCATTTG
Found at i:15764993 original size:50 final size:50
Alignment explanation
Indices: 15764918--15765021 Score: 156
Period size: 50 Copynumber: 2.1 Consensus size: 50
15764908 TTGAGTACAT
* * *
15764918 TAATTTTAAATCTCATTAATTAAAATTAATGCTCT-TTGATTTGGTTTGAC
1 TAATTTAAAATCTCATTAATTAAAATTAATGCT-TATTGATTCGGTTTGAA
*
15764968 TAATTTAAAATCTCTTTAATTAAAATTAATGCTTATTGATTCGGTTTGAA
1 TAATTTAAAATCTCATTAATTAAAATTAATGCTTATTGATTCGGTTTGAA
15765018 TAAT
1 TAAT
15765022 AAATATACAG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 1 0.02
50 48 0.98
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.47
Consensus pattern (50 bp):
TAATTTAAAATCTCATTAATTAAAATTAATGCTTATTGATTCGGTTTGAA
Found at i:15765388 original size:15 final size:15
Alignment explanation
Indices: 15765368--15765410 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
15765358 TGACAAAGGG
15765368 GTGTCGACCAACACA
1 GTGTCGACCAACACA
15765383 GTGTCGACCAACACA
1 GTGTCGACCAACACA
15765398 GTGTCGACCAACA
1 GTGTCGACCAACA
15765411 AAAAAATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.14
Consensus pattern (15 bp):
GTGTCGACCAACACA
Found at i:15766501 original size:12 final size:13
Alignment explanation
Indices: 15766469--15766493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15766459 AGTTAGATTC
15766469 AGTTTAAAATTTG
1 AGTTTAAAATTTG
15766482 AGTTTAAAATTT
1 AGTTTAAAATTT
15766494 TATTTAAATT
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:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
AGTTTAAAATTTG
Found at i:15770892 original size:29 final size:29
Alignment explanation
Indices: 15770842--15770898 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
15770832 CTCATGGGCA
* * * *
15770842 AAAGTGCTTCCATATGAGCGCTTTTTTGT
1 AAAGCGCTTCCACATCAGCGCTCTTTTGT
*
15770871 AAAGCGCTTCCACATCATCGCTCTTTTG
1 AAAGCGCTTCCACATCAGCGCTCTTTTG
15770899 CCTGACACAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (29 bp):
AAAGCGCTTCCACATCAGCGCTCTTTTGT
Found at i:15772688 original size:28 final size:28
Alignment explanation
Indices: 15772656--15772724 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
15772646 CGTATACTGG
* * *
15772656 TAACAGAGAGTAAGCATAACTTTTGGGT
1 TAACAGGGAGTAAGCATAACCTTTAGGT
*
15772684 TAACAGGGAGTAAGCATGACCTTTAGGT
1 TAACAGGGAGTAAGCATAACCTTTAGGT
*
15772712 CAACAGGGAGTAA
1 TAACAGGGAGTAA
15772725 ATCGGATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (28 bp):
TAACAGGGAGTAAGCATAACCTTTAGGT
Found at i:15786104 original size:11 final size:11
Alignment explanation
Indices: 15786077--15786106 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
15786067 AACTCGTGCA
15786077 TCCAAAAACAC
1 TCCAAAAACAC
15786088 TCCCAAAAACAC
1 T-CCAAAAACAC
15786100 TCCAAAA
1 TCCAAAA
15786107 CCTTCATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.53, C:0.37, G:0.00, T:0.10
Consensus pattern (11 bp):
TCCAAAAACAC
Found at i:15790906 original size:24 final size:22
Alignment explanation
Indices: 15790878--15790926 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
15790868 TTTCTAGAAT
*
15790878 ATTTAATAGTATAATATATTTAAC
1 ATTTAATAGCATAAT-TATTT-AC
*
15790902 ATTTATTAGCATAATTATTTAC
1 ATTTAATAGCATAATTATTTAC
15790924 ATT
1 ATT
15790927 GATTAGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 5 0.22
24 13 0.57
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTTAATAGCATAATTATTTAC
Found at i:15790931 original size:22 final size:24
Alignment explanation
Indices: 15790888--15790932 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
15790878 ATTTAATAGT
*
15790888 ATAATATATTTAACATTTATTAGC
1 ATAATATATTTAACATTGATTAGC
15790912 ATAAT-TATTT-ACATTGATTAG
1 ATAATATATTTAACATTGATTAG
15790933 AATTAGGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 5 0.25
24 5 0.25
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAACATTGATTAGC
Found at i:15791844 original size:13 final size:13
Alignment explanation
Indices: 15791826--15791850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15791816 GACAATGGTG
15791826 AAGGAAAAAATTA
1 AAGGAAAAAATTA
15791839 AAGGAAAAAATT
1 AAGGAAAAAATT
15791851 TTGGGGGTTT
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:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAGGAAAAAATTA
Found at i:15809778 original size:43 final size:43
Alignment explanation
Indices: 15809731--15809844 Score: 104
Period size: 43 Copynumber: 2.7 Consensus size: 43
15809721 TTGAATAAAT
*
15809731 CGAAGCAACCATAATGGCACAAACAATTCATCAT-AGGATATAC
1 CGAAGCAACCATAATGGCACAAACAATGCATCATCA-GATATAC
* * * * * * *
15809774 CGAAGTAACTATATTGGCACATACAGTGCATCATCAGATTTAT
1 CGAAGCAACCATAATGGCACAAACAATGCATCATCAGATATAC
* * * *
15809817 CGAAGCATCCATACTGGTACACACAATG
1 CGAAGCAACCATAATGGCACAAACAATG
15809845 ACAGTGATCC
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
43 54 0.98
44 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.23
Consensus pattern (43 bp):
CGAAGCAACCATAATGGCACAAACAATGCATCATCAGATATAC
Found at i:15811689 original size:41 final size:41
Alignment explanation
Indices: 15811571--15811728 Score: 160
Period size: 41 Copynumber: 3.8 Consensus size: 41
15811561 GGTGTATAAA
* * * * *
15811571 AAGGAAGACTCATATCTCGGGTTGAGCATGAGAATT-TGTAT
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAG-ATTATGAAT
* * * *
15811612 AAATGGAAGACTCGTGACTCG-GAATGAGCATTAGATTATGAAT
1 -AA-GGAAGACTCATGTCTCGAG-ATGAGAATGAGATTATGAAT
*
15811655 AAGGAAGACTCATGTCTCGAGATG-GAAATGAGATTATGATT
1 AAGGAAGACTCATGTCTCGAGATGAG-AATGAGATTATGAAT
15811696 AAGGAAGACTCATGTCTCGAGATGAGAATGAGA
1 AAGGAAGACTCATGTCTCGAGATGAGAATGAGA
15811729 AAATGGTTAA
Statistics
Matches: 99, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
40 1 0.01
41 61 0.62
42 10 0.10
43 27 0.27
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.25
Consensus pattern (41 bp):
AAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT
Found at i:15818279 original size:41 final size:41
Alignment explanation
Indices: 15818234--15818324 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
15818224 AAATGAGCAT
* * *
15818234 GAGATTATGAATAAGGAAGACTCATGTCTTGAGATGGGAAC
1 GAGATTATGAATAAGGAAGACTAATGTCTCGAGATGAGAAC
* *
15818275 GAGATTATGATTAAGGAAGACTAATGTCTCGAGATGAGAAT
1 GAGATTATGAATAAGGAAGACTAATGTCTCGAGATGAGAAC
*
15818316 GAGAATATG
1 GAGATTATG
15818325 GTTAAAAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (41 bp):
GAGATTATGAATAAGGAAGACTAATGTCTCGAGATGAGAAC
Found at i:15818348 original size:42 final size:41
Alignment explanation
Indices: 15818234--15818348 Score: 113
Period size: 41 Copynumber: 2.8 Consensus size: 41
15818224 AAATGAGCAT
* * * * * *
15818234 GAGATTATGAATAAGGAAGACTCATGTCTTGAGATGGGAAC
1 GAGAATATGATTAAAGAAGACTAATGTCTCGAGATGAGAAC
* * *
15818275 GAGATTATGATTAAGGAAGACTAATGTCTCGAGATGAGAAT
1 GAGAATATGATTAAAGAAGACTAATGTCTCGAGATGAGAAC
* * *
15818316 GAGAATATGGTTAAAAGAAGACTTATGACTCGA
1 GAGAATATGATT-AAAGAAGACTAATGTCTCGA
15818349 TAGAGCATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 46 0.73
42 17 0.27
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.25
Consensus pattern (41 bp):
GAGAATATGATTAAAGAAGACTAATGTCTCGAGATGAGAAC
Found at i:15827251 original size:25 final size:25
Alignment explanation
Indices: 15827217--15827264 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15827207 CATTTATAAA
*
15827217 AAAAAAG-AAAGAAAGAAAGAAGAGG
1 AAAAAAGAAAAG-AAGAAAAAAGAGG
*
15827242 AAAAGAGAAAAGAAGAAAAAAGA
1 AAAAAAGAAAAGAAGAAAAAAGA
15827265 AATATATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (25 bp):
AAAAAAGAAAAGAAGAAAAAAGAGG
Found at i:15829295 original size:43 final size:43
Alignment explanation
Indices: 15829027--15829303 Score: 203
Period size: 43 Copynumber: 6.6 Consensus size: 43
15829017 AGGCCAATCA
* * * * **
15829027 AGTGCATCATTAGATAAACCGAAGCATA-TATACTAGAACCCGT
1 AGTGCATCATCAGATAAATCGAAGCA-ACTATACTAGCACACAC
* * * * * *
15829070 AGTGCATCACCAAATATACCAAAGCATCTATACTAGCACACAC
1 AGTGCATCATCAGATAAATCGAAGCAACTATACTAGCACACAC
* * * *
15829113 AATG---CATCAGATAAACCGAAGCAACTATATTGGCACACAC
1 AGTGCATCATCAGATAAATCGAAGCAACTATACTAGCACACAC
*
15829153 AGTGCATC-TC-GAATAAATCAAAGCAACTATACTAG--CACAC
1 AGTGCATCATCAG-ATAAATCGAAGCAACTATACTAGCACACAC
* ** * * * *
15829193 AGTACATCATTGGATATACCAAAGCATCTATACTAGCACACAC
1 AGTGCATCATCAGATAAATCGAAGCAACTATACTAGCACACAC
* * * * * *
15829236 GGTGCATCAACGGATAAATCGAAGTAACTATACTAACATACAC
1 AGTGCATCATCAGATAAATCGAAGCAACTATACTAGCACACAC
15829279 AGTGCATCATCAGAT-AATCGAAGCA
1 AGTGCATCATCAGATAAATCGAAGCA
15829304 TCGCATATAC
Statistics
Matches: 182, Mismatches: 43, Indels: 19
0.75 0.18 0.08
Matches are distributed among these distances:
40 44 0.24
41 22 0.12
42 31 0.17
43 85 0.47
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (43 bp):
AGTGCATCATCAGATAAATCGAAGCAACTATACTAGCACACAC
Found at i:15833022 original size:49 final size:49
Alignment explanation
Indices: 15832940--15833035 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
15832930 CTATTTAAAT
* ** * * *
15832940 GGTTGAAAAACCTTATTTTAATCAATGTCAAATAGATGAAGTGTAGTAA
1 GGTTGAAAAACCTTATTCTAATCAAAATAAAATAAAAGAAGTGTAGTAA
*
15832989 GGTTGAAAAACTTTATTCTAATCAAAATAAAATAAAAGAAGTGTAGT
1 GGTTGAAAAACCTTATTCTAATCAAAATAAAATAAAAGAAGTGTAGT
15833036 TCTATATGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (49 bp):
GGTTGAAAAACCTTATTCTAATCAAAATAAAATAAAAGAAGTGTAGTAA
Done.