Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011091.1 Kokia drynarioides strain JFW-HI SEQ_126064, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 233494
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 415 characters in sequence are not A, C, G, or T
Found at i:5529 original size:15 final size:16
Alignment explanation
Indices: 5504--5589 Score: 66
Period size: 16 Copynumber: 5.2 Consensus size: 16
5494 TTCAATGAAT
*
5504 AAAAGAAAAGAAAAGAA
1 AAAAGAAGA-AAAAGAA
5521 AAAAGAAGAAAAAGAA
1 AAAAGAAGAAAAAGAA
* * *
5537 AAAAAAACAAAAAAATA
1 AAAAGAAGAAAAAGA-A
* * *
5554 AATAATAAAATAAAATAA
1 AA-AAGAAGA-AAAAGAA
5572 AAAAG-AGAAAAAGAA
1 AAAAGAAGAAAAAGAA
5587 AAA
1 AAA
5590 GAAAAGGAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
15 9 0.16
16 21 0.38
17 13 0.23
18 8 0.14
19 5 0.09
ACGTcount: A:0.83, C:0.01, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAAGAAGAAAAAGAA
Found at i:5531 original size:20 final size:20
Alignment explanation
Indices: 5509--5592 Score: 62
Period size: 21 Copynumber: 3.9 Consensus size: 20
5499 TGAATAAAAG
5509 AAAAGAAAAGAAAAAAGAAGA
1 AAAAGAAAA-AAAAAAGAAGA
* *
5530 AAAAGAAAAAAAAACAAAAAA
1 AAAAGAAAAAAAAA-AGAAGA
* *
5551 ATAAATAATAAAATAAAATAA-A
1 A-AAAGAA-AAAA-AAAAGAAGA
5573 AAAGAGAAAAAGAAAAAGAA
1 AAA-AGAAAAA-AAAAAGAA
5593 AAGGAGAGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
20 5 0.10
21 25 0.49
22 11 0.22
23 7 0.14
24 3 0.06
ACGTcount: A:0.82, C:0.01, G:0.11, T:0.06
Consensus pattern (20 bp):
AAAAGAAAAAAAAAAGAAGA
Found at i:5535 original size:6 final size:6
Alignment explanation
Indices: 5504--5594 Score: 52
Period size: 6 Copynumber: 15.5 Consensus size: 6
5494 TTCAATGAAT
* *
5504 AAAAG- AAAAG- AAAAG- AAAA-A AGAAGA AAAAGA AAAA-A AAACAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA-AGA
* *
5548 AAAATA AATAATA AAATA-A AATAA-A AAAGAGA AAAAGA AAAAGA AAA
1 AAAAGA AA-AAGA AAA-AGA AA-AAGA AAA-AGA AAAAGA AAAAGA AAA
5595 GGAGAGGTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
5 22 0.30
6 36 0.49
7 16 0.22
ACGTcount: A:0.82, C:0.01, G:0.11, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:7463 original size:39 final size:39
Alignment explanation
Indices: 7320--7463 Score: 111
Period size: 39 Copynumber: 3.7 Consensus size: 39
7310 TCATTAACCA
* * *
7320 ATCTATTAGCCCGAGCCT-GGAGCAGGTTGCAGCCATTTG
1 ATCTTTTACCCCGAGCCTGGGA-CAGATTGCAGCCATTTG
* *
7359 ATCTTTTACCCCGAGCCTAGGG-CAGA-T-CA-TC-GTTG
1 ATCTTTTACCCCGAGCCT-GGGACAGATTGCAGCCATTTG
* * * *
7394 ACCAATTTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATTTG
1 ATC---TT-TTACCCCGAGCCTGGGACAGATTGCAGCCATTTG
7437 ATCTTTTACCCCGAGCCTGGGACAGAT
1 ATCTTTTACCCCGAGCCTGGGACAGAT
7464 CATCGTCAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
35 5 0.06
36 1 0.01
37 2 0.03
38 6 0.08
39 53 0.66
40 3 0.04
41 4 0.05
42 1 0.01
43 5 0.06
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (39 bp):
ATCTTTTACCCCGAGCCTGGGACAGATTGCAGCCATTTG
Found at i:7497 original size:78 final size:78
Alignment explanation
Indices: 7315--7505 Score: 226
Period size: 78 Copynumber: 2.4 Consensus size: 78
7305 TTACATCATT
* * * *
7315 AACCAATCTA-TTAGCCCGAGCCTGGAGCAGGTTGCAGCCATTTGATCTTTTACCCCGAGCCTAG
1 AACCAAT-TACTTACCCCGAGCATGGGGCAGATTGCAGCCATTTGATCTTTTACCCCGAGCCTAG
*
7379 GGCAGATCATCGTT
65 GGCAGATCATCGTC
* * * *
7393 GACCAATTTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATTTGATCTTTTACCCCGAGCCT-GG
1 AACCAATTACTTACCCCGAGCATGGGGCAGATTGCAGCCATTTGATCTTTTACCCCGAGCCTAGG
7457 GACAGATCATCGTC
66 G-CAGATCATCGTC
* * *
7471 AATCAATCTAC-TGCCCCGATCATGGGGCAGATTGC
1 AACCAAT-TACTTACCCCGAGCATGGGGCAGATTGC
7506 GATTATCCAT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
77 4 0.04
78 89 0.94
79 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (78 bp):
AACCAATTACTTACCCCGAGCATGGGGCAGATTGCAGCCATTTGATCTTTTACCCCGAGCCTAGG
GCAGATCATCGTC
Found at i:10769 original size:29 final size:29
Alignment explanation
Indices: 10718--11004 Score: 232
Period size: 29 Copynumber: 9.9 Consensus size: 29
10708 CTAGAGGTCT
* *
10718 CTAAACTATCCAAAGATTACATTTTTACCC
1 CTAAACT-TCCAAAAATTCCATTTTTACCC
*
10748 CTAAACTTCCAAAAATTCCATTTTTAACC
1 CTAAACTTCCAAAAATTCCATTTTTACCC
* * *
10777 CTAAAACTTCTAAAAAATACATTTTTACCC
1 CT-AAACTTCCAAAAATTCCATTTTTACCC
* *
10807 CCAAACTTCC-AAAATTCCATTTTAACCC
1 CTAAACTTCCAAAAATTCCATTTTTACCC
* *
10835 CAAAACTTTCAAAAATTACCA-TTTTACCC
1 CTAAACTTCCAAAAATT-CCATTTTTACCC
*
10864 CTAAACTTCC-AAAATTCCATTTTGA-CC
1 CTAAACTTCCAAAAATTCCATTTTTACCC
*
10891 CTAAAACTTTCAAAAATTACCA-TTTTA-CC
1 CT-AAACTTCCAAAAATT-CCATTTTTACCC
* **
10920 CTCGAA-TGTCCAAAAGCTCCATTTTTTACCC
1 CT-AAACT-TCCAAAAATTCCA-TTTTTACCC
* * *
10951 CGAAACTTTCAAAAGTTACCA-TTTTACCC
1 CTAAACTTCCAAAAATT-CCATTTTTACCC
* * *
10980 TTGAA-TGTCCAAAAATTTCATTTTT
1 CTAAACT-TCCAAAAATTCCATTTTT
11005 GATCCAAATT
Statistics
Matches: 207, Mismatches: 35, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
27 7 0.03
28 47 0.23
29 94 0.45
30 52 0.25
31 7 0.03
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
CTAAACTTCCAAAAATTCCATTTTTACCC
Found at i:10860 original size:57 final size:58
Alignment explanation
Indices: 10740--10979 Score: 292
Period size: 57 Copynumber: 4.1 Consensus size: 58
10730 AAGATTACAT
* * *
10740 TTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAAAC-TTCTAAAAAATA-CA
1 TTTTACCCCCAAACTTCC-AAAATTCCATTTTTAACCCCAAAACTTTC-AAAAATTACCA
10798 TTTTTACCCCCAAACTTCCAAAATTCCA-TTTTAACCCCAAAACTTTCAAAAATTACCA
1 -TTTTACCCCCAAACTTCCAAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCA
* * *
10856 TTTTACCCCTAAACTTCCAAAATTCCA-TTTTGACCCTAAAACTTTCAAAAATTACCA
1 TTTTACCCCCAAACTTCCAAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCA
* * * * * *
10913 TTTTACCCTCGAA-TGTCCAAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTTACCA
1 TTTTACCCCCAAACT-TCCAAAA-TTCCATTTTTAACCCCAAAACTTTCAAAAATTACCA
10972 TTTTACCC
1 TTTTACCC
10980 TTGAATGTCC
Statistics
Matches: 162, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
56 1 0.01
57 92 0.57
58 18 0.11
59 51 0.31
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.33
Consensus pattern (58 bp):
TTTTACCCCCAAACTTCCAAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCA
Found at i:10977 original size:59 final size:57
Alignment explanation
Indices: 10759--11121 Score: 281
Period size: 57 Copynumber: 6.2 Consensus size: 57
10749 TAAACTTCCA
* * * *
10759 AAAATTCCATTTTTAACCCTAAAAC-TTCTAAAAAATA-CATTTTTACCCCCAAACT-TCC
1 AAAATTCCA-TTTTAACCCCAAAACTTTC-AAAAATTACCA-TTTTACCCTCGAA-TGTCC
*
10817 AAAATTCCATTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCC-CTAAACT-TCC
1 AAAATTCCATTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTC-GAA-TGTCC
* *
10874 AAAATTCCATTTTGACCCTAAAACTTTCAAAAATTACCATTTTACCCTCGAATGTCC
1 AAAATTCCATTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTCGAATGTCC
* * * * *
10931 AAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTTACCATTTTACCCTTGAATGTCC
1 AAAA-TTCCA-TTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTCGAATGTCC
* * * ** * ** * *
10990 AAAAATTTCATTTTTGA-TCCAAATTTTTTTAAAAATTACTGTTTTACCCTCGAATATCT
1 -AAAATTCCA-TTTTAACCCCAAA-ACTTTCAAAAATTACCATTTTACCCTCGAATGTCC
* * * * * * *
11049 AAAGTTTCATTTTTAACCCC-AAATTTTACCAAAATTACCATTTTGCCCCCTGAAAGTCC
1 AAAATTCCA-TTTTAACCCCAAAACTTT-CAAAAATTACCATTTTACCCTC-GAATGTCC
11108 AAAATTACCATTTT
1 AAAATT-CCATTTT
11122 CCCCCGGATG
Statistics
Matches: 252, Mismatches: 40, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
56 2 0.01
57 95 0.38
58 55 0.22
59 94 0.37
60 6 0.02
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (57 bp):
AAAATTCCATTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTCGAATGTCC
Found at i:11115 original size:87 final size:86
Alignment explanation
Indices: 11021--11197 Score: 189
Period size: 87 Copynumber: 2.0 Consensus size: 86
11011 AATTTTTTTA
** * * * * *
11021 AAAATTACTGTTTTACCCTCGAATAT-CTAAAGTTTCATTTTTAACCCC-AAATTTTACCAAAA-
1 AAAATTACCATTTT-CCCCCGAATATCCAAAAGCTCCATTTTTAACCCCTAAACTTT--CAAAAG
*
11083 TTACCATTTTGCCCCCTGAAAGTCC
63 TTACCATTTT-ACCCCTGAAAGTCC
* * *
11108 AAAATTACCATTTTCCCCCGGATGTCCAAAAGCTCCATTTTTTACCCCTAAACTTTCAAAAGTTA
1 AAAATTACCATTTTCCCCCGAATATCCAAAAGCTCCATTTTTAACCCCTAAACTTTCAAAAGTTA
*
11173 CCATTTTACCCCTGAATGTCC
66 CCATTTTACCCCTGAAAGTCC
11194 AAAA
1 AAAA
11198 ATTTCGTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
86 29 0.39
87 40 0.53
88 6 0.08
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.33
Consensus pattern (86 bp):
AAAATTACCATTTTCCCCCGAATATCCAAAAGCTCCATTTTTAACCCCTAAACTTTCAAAAGTTA
CCATTTTACCCCTGAAAGTCC
Found at i:11120 original size:118 final size:117
Alignment explanation
Indices: 10720--11121 Score: 353
Period size: 116 Copynumber: 3.4 Consensus size: 117
10710 AGAGGTCTCT
* * *
10720 AAACTATCCAAAGATTA-CATTTTTACCCCT-AAACTTCCAAAAATTCCATTTTTAACCCTAAAA
1 AAACTTTCCAAA-ATTACCA-TTTTACCCCTGAAA-GTCC-AAAATTCCATTTTTGACCCTAAAA
* * * *
10783 C-TTCTAAAAAATA-CATTTTTACCCCCAAACT-TCCAAAA-TTCCA-TTTTAACCCCA
62 CTTTC-AAAAATTACCA-TTTTACCCTCGAA-TATCCAAAAGCTCCATTTTTAACCCCA
* *
10837 AAACTTTCAAAAATTACCATTTTACCCCT-AAACTTCCAAAATTCCA-TTTTGACCCTAAAACTT
1 AAACTTTCCAAAATTACCATTTTACCCCTGAAA-GTCCAAAATTCCATTTTTGACCCTAAAACTT
* * *
10900 TCAAAAATTACCATTTTACCCTCGAATGTCCAAAAGCTCCATTTTTTACCCCG
65 TCAAAAATTACCATTTTACCCTCGAATATCCAAAAGCTCCATTTTTAACCCCA
* * * * **
10953 AAACTTT-CAAAAGTTACCATTTTACCCTTGAATGTCCAAAAATTTCATTTTTGATCC-AAATTT
1 AAACTTTCCAAAA-TTACCATTTTACCCCTGAAAGTCC-AAAATTCCATTTTTGACCCTAAA-AC
* ** * * *
11016 TTTTAAAAATTACTGTTTTACCCTCGAATAT-CTAAAGTTTCATTTTTAACCCC-
63 TTTCAAAAATTACCATTTTACCCTCGAATATCCAAAAGCTCCATTTTTAACCCCA
* *
11069 AAATTTTACCAAAATTACCATTTTGCCCCCTGAAAGTCCAAAATTACCATTTT
1 AAACTTT-CCAAAATTACCATTTT-ACCCCTGAAAGTCCAAAATT-CCATTTT
11122 CCCCCGGATG
Statistics
Matches: 240, Mismatches: 30, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
113 1 0.00
114 39 0.16
115 22 0.09
116 62 0.26
117 59 0.25
118 57 0.24
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (117 bp):
AAACTTTCCAAAATTACCATTTTACCCCTGAAAGTCCAAAATTCCATTTTTGACCCTAAAACTTT
CAAAAATTACCATTTTACCCTCGAATATCCAAAAGCTCCATTTTTAACCCCA
Found at i:11143 original size:204 final size:205
Alignment explanation
Indices: 10903--11331 Score: 698
Period size: 204 Copynumber: 2.1 Consensus size: 205
10893 AAAACTTTCA
*
10903 AAAATTACCATTTTACCCTCGAATGTCCAAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTT
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTT
* * **
10968 ACCATTTTACCCTTGAATGTCCAAAAATTTCATTTTTGATCCAAATTTTTTTAAAAATTACTGTT
66 ACCATTTTACCCCTGAATGTCCAAAAATTTCATTTTTGATCCAAATTTTTCTAAAAATTACCATT
*
11033 TTACCCTCGAATATCTAAAGTTTCATTTTTAACCCCAAATTTTACCAAAATTACCATTTTGCCCC
131 TTACCCTCGAATATCTAAAATTTCATTTTTAACCCCAAATTTTACCAAAATTACCATTTTGCCCC
11098 CTGAAAGTCC
196 CTGAAAGTCC
* *
11108 AAAATTACCATTTT-CCCCCGGATGTCCAAAAGCTCCATTTTTTACCCCTAAACTTTCAAAAGTT
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTT
* *
11172 ACCATTTTACCCCTGAATGTCCAAAAATTTCGTTTTTGATCCAGATTTTTCTAAAAATTACCATT
66 ACCATTTTACCCCTGAATGTCCAAAAATTTCATTTTTGATCCAAATTTTTCTAAAAATTACCATT
* * *
11237 TTACCCTCGAATATCTAAAATTTCATTTTTAACCCCAAATTTTTCCAAATTTACCATTTTGCTCC
131 TTACCCTCGAATATCTAAAATTTCATTTTTAACCCCAAATTTTACCAAAATTACCATTTTGCCCC
* *
11302 TTGAGAGTCC
196 CTGAAAGTCC
* *
11312 AAAATTATCATTTTGCCCCC
1 AAAATTACCATTTTACCCCC
11332 CGGGTAACCA
Statistics
Matches: 207, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
204 188 0.91
205 19 0.09
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (205 bp):
AAAATTACCATTTTACCCCCGAATGTCCAAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTT
ACCATTTTACCCCTGAATGTCCAAAAATTTCATTTTTGATCCAAATTTTTCTAAAAATTACCATT
TTACCCTCGAATATCTAAAATTTCATTTTTAACCCCAAATTTTACCAAAATTACCATTTTGCCCC
CTGAAAGTCC
Found at i:11196 original size:29 final size:28
Alignment explanation
Indices: 11077--11197 Score: 104
Period size: 29 Copynumber: 4.2 Consensus size: 28
11067 CCAAATTTTA
* *
11077 CCAAAATTACCATTTTGCCCCCTGAAAGT
1 CCAAAATTACCATTTT-ACCCCTGAATGT
* *
11106 CCAAAATTACCATTTT-CCCCCGGATGT
1 CCAAAATTACCATTTTACCCCTGAATGT
* *
11133 CCAAAAGCT-CCATTTTTTACCCCTAAACT-T
1 CCAAAA-TTACCA--TTTTACCCCTGAA-TGT
*
11163 TCAAAAGTTACCATTTTACCCCTGAATGT
1 CCAAAA-TTACCATTTTACCCCTGAATGT
11192 CCAAAA
1 CCAAAA
11198 ATTTCGTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
27 17 0.23
28 2 0.03
29 38 0.51
30 13 0.18
31 4 0.05
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCTGAATGT
Found at i:11279 original size:59 final size:57
Alignment explanation
Indices: 11108--11296 Score: 166
Period size: 59 Copynumber: 3.2 Consensus size: 57
11098 CTGAAAGTCC
* * ** * * *
11108 AAAATTACCATTTTCCCCCGGATGTCCAAAAGCTCCATTTTTTACCCCTAAA-CTTTCA
1 AAAATTACCATTTTACCCCGAATGT-CAAAAATTTCATTTTTAACCCC-AAATTTTTCA
* * * * *
11166 AAAGTTACCATTTTACCCCTGAATGTCCAAAAATTTCGTTTTTGA-TCCAGATTTTTCTA
1 AAAATTACCATTTTACCCC-GAATGT-CAAAAATTTCATTTTTAACCCCAAATTTTTC-A
* * *
11225 AAAATTACCATTTTACCCTCGAATATCTAAAATTTCATTTTTAACCCCAAATTTTTCC
1 AAAATTACCATTTTACCC-CGAATGTCAAAAATTTCATTTTTAACCCCAAATTTTTCA
*
11283 AAATTTACCATTTT
1 AAAATTACCATTTT
11297 GCTCCTTGAG
Statistics
Matches: 106, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
57 2 0.02
58 51 0.48
59 52 0.49
60 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCGAATGTCAAAAATTTCATTTTTAACCCCAAATTTTTCA
Found at i:14330 original size:29 final size:29
Alignment explanation
Indices: 14279--14565 Score: 232
Period size: 29 Copynumber: 9.9 Consensus size: 29
14269 CTAGAGGTCT
* *
14279 CTAAACTATCCAAAGATTACATTTTTACCC
1 CTAAACT-TCCAAAAATTCCATTTTTACCC
*
14309 CTAAACTTCCAAAAATTCCATTTTTAACC
1 CTAAACTTCCAAAAATTCCATTTTTACCC
* * *
14338 CTAAAACTTCTAAAAAATACATTTTTACCC
1 CT-AAACTTCCAAAAATTCCATTTTTACCC
* *
14368 CCAAACTTCC-AAAATTCCATTTTAACCC
1 CTAAACTTCCAAAAATTCCATTTTTACCC
* *
14396 CAAAACTTTCAAAAATTACCA-TTTTACCC
1 CTAAACTTCCAAAAATT-CCATTTTTACCC
*
14425 CTAAACTTCC-AAAATTCCATTTTGA-CC
1 CTAAACTTCCAAAAATTCCATTTTTACCC
*
14452 CTAAAACTTTCAAAAATTACCA-TTTTA-CC
1 CT-AAACTTCCAAAAATT-CCATTTTTACCC
* **
14481 CTCGAA-TGTCCAAAAGCTCCATTTTTTACCC
1 CT-AAACT-TCCAAAAATTCCA-TTTTTACCC
* * *
14512 CGAAACTTTCAAAAGTTACCA-TTTTACCC
1 CTAAACTTCCAAAAATT-CCATTTTTACCC
* * *
14541 TTGAA-TGTCCAAAAATTTCATTTTT
1 CTAAACT-TCCAAAAATTCCATTTTT
14566 GATCCAAATT
Statistics
Matches: 207, Mismatches: 35, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
27 7 0.03
28 47 0.23
29 94 0.45
30 52 0.25
31 7 0.03
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
CTAAACTTCCAAAAATTCCATTTTTACCC
Found at i:14421 original size:57 final size:58
Alignment explanation
Indices: 14301--14540 Score: 292
Period size: 57 Copynumber: 4.1 Consensus size: 58
14291 AAGATTACAT
* * *
14301 TTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAAAC-TTCTAAAAAATA-CA
1 TTTTACCCCCAAACTTCC-AAAATTCCATTTTTAACCCCAAAACTTTC-AAAAATTACCA
14359 TTTTTACCCCCAAACTTCCAAAATTCCA-TTTTAACCCCAAAACTTTCAAAAATTACCA
1 -TTTTACCCCCAAACTTCCAAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCA
* * *
14417 TTTTACCCCTAAACTTCCAAAATTCCA-TTTTGACCCTAAAACTTTCAAAAATTACCA
1 TTTTACCCCCAAACTTCCAAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCA
* * * * * *
14474 TTTTACCCTCGAA-TGTCCAAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTTACCA
1 TTTTACCCCCAAACT-TCCAAAA-TTCCATTTTTAACCCCAAAACTTTCAAAAATTACCA
14533 TTTTACCC
1 TTTTACCC
14541 TTGAATGTCC
Statistics
Matches: 162, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
56 1 0.01
57 92 0.57
58 18 0.11
59 51 0.31
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.33
Consensus pattern (58 bp):
TTTTACCCCCAAACTTCCAAAATTCCATTTTTAACCCCAAAACTTTCAAAAATTACCA
Found at i:14538 original size:59 final size:57
Alignment explanation
Indices: 14320--14682 Score: 281
Period size: 57 Copynumber: 6.2 Consensus size: 57
14310 TAAACTTCCA
* * * *
14320 AAAATTCCATTTTTAACCCTAAAAC-TTCTAAAAAATA-CATTTTTACCCCCAAACT-TCC
1 AAAATTCCA-TTTTAACCCCAAAACTTTC-AAAAATTACCA-TTTTACCCTCGAA-TGTCC
*
14378 AAAATTCCATTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCC-CTAAACT-TCC
1 AAAATTCCATTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTC-GAA-TGTCC
* *
14435 AAAATTCCATTTTGACCCTAAAACTTTCAAAAATTACCATTTTACCCTCGAATGTCC
1 AAAATTCCATTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTCGAATGTCC
* * * * *
14492 AAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTTACCATTTTACCCTTGAATGTCC
1 AAAA-TTCCA-TTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTCGAATGTCC
* * * ** * ** * *
14551 AAAAATTTCATTTTTGA-TCCAAATTTTTTTAAAAATTACTGTTTTACCCTCGAATATCT
1 -AAAATTCCA-TTTTAACCCCAAA-ACTTTCAAAAATTACCATTTTACCCTCGAATGTCC
* * * * * * *
14610 AAAGTTTCATTTTTAACCCC-AAATTTTACCAAAATTACCATTTTGCCCCCTGAAAGTCC
1 AAAATTCCA-TTTTAACCCCAAAACTTT-CAAAAATTACCATTTTACCCTC-GAATGTCC
14669 AAAATTACCATTTT
1 AAAATT-CCATTTT
14683 CCCCCGGATG
Statistics
Matches: 252, Mismatches: 40, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
56 2 0.01
57 95 0.38
58 55 0.22
59 94 0.37
60 6 0.02
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (57 bp):
AAAATTCCATTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTCGAATGTCC
Found at i:14676 original size:87 final size:86
Alignment explanation
Indices: 14582--14758 Score: 189
Period size: 87 Copynumber: 2.0 Consensus size: 86
14572 AATTTTTTTA
** * * * * *
14582 AAAATTACTGTTTTACCCTCGAATAT-CTAAAGTTTCATTTTTAACCCC-AAATTTTACCAAAA-
1 AAAATTACCATTTT-CCCCCGAATATCCAAAAGCTCCATTTTTAACCCCTAAACTTT--CAAAAG
*
14644 TTACCATTTTGCCCCCTGAAAGTCC
63 TTACCATTTT-ACCCCTGAAAGTCC
* * *
14669 AAAATTACCATTTTCCCCCGGATGTCCAAAAGCTCCATTTTTTACCCCTAAACTTTCAAAAGTTA
1 AAAATTACCATTTTCCCCCGAATATCCAAAAGCTCCATTTTTAACCCCTAAACTTTCAAAAGTTA
*
14734 CCATTTTACCCCTGAATGTCC
66 CCATTTTACCCCTGAAAGTCC
14755 AAAA
1 AAAA
14759 ATTTCGTTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
86 29 0.39
87 40 0.53
88 6 0.08
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.33
Consensus pattern (86 bp):
AAAATTACCATTTTCCCCCGAATATCCAAAAGCTCCATTTTTAACCCCTAAACTTTCAAAAGTTA
CCATTTTACCCCTGAAAGTCC
Found at i:14681 original size:118 final size:117
Alignment explanation
Indices: 14281--14682 Score: 353
Period size: 116 Copynumber: 3.4 Consensus size: 117
14271 AGAGGTCTCT
* * *
14281 AAACTATCCAAAGATTA-CATTTTTACCCCT-AAACTTCCAAAAATTCCATTTTTAACCCTAAAA
1 AAACTTTCCAAA-ATTACCA-TTTTACCCCTGAAA-GTCC-AAAATTCCATTTTTGACCCTAAAA
* * * *
14344 C-TTCTAAAAAATA-CATTTTTACCCCCAAACT-TCCAAAA-TTCCA-TTTTAACCCCA
62 CTTTC-AAAAATTACCA-TTTTACCCTCGAA-TATCCAAAAGCTCCATTTTTAACCCCA
* *
14398 AAACTTTCAAAAATTACCATTTTACCCCT-AAACTTCCAAAATTCCA-TTTTGACCCTAAAACTT
1 AAACTTTCCAAAATTACCATTTTACCCCTGAAA-GTCCAAAATTCCATTTTTGACCCTAAAACTT
* * *
14461 TCAAAAATTACCATTTTACCCTCGAATGTCCAAAAGCTCCATTTTTTACCCCG
65 TCAAAAATTACCATTTTACCCTCGAATATCCAAAAGCTCCATTTTTAACCCCA
* * * * **
14514 AAACTTT-CAAAAGTTACCATTTTACCCTTGAATGTCCAAAAATTTCATTTTTGATCC-AAATTT
1 AAACTTTCCAAAA-TTACCATTTTACCCCTGAAAGTCC-AAAATTCCATTTTTGACCCTAAA-AC
* ** * * *
14577 TTTTAAAAATTACTGTTTTACCCTCGAATAT-CTAAAGTTTCATTTTTAACCCC-
63 TTTCAAAAATTACCATTTTACCCTCGAATATCCAAAAGCTCCATTTTTAACCCCA
* *
14630 AAATTTTACCAAAATTACCATTTTGCCCCCTGAAAGTCCAAAATTACCATTTT
1 AAACTTT-CCAAAATTACCATTTT-ACCCCTGAAAGTCCAAAATT-CCATTTT
14683 CCCCCGGATG
Statistics
Matches: 240, Mismatches: 30, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
113 1 0.00
114 39 0.16
115 22 0.09
116 62 0.26
117 59 0.25
118 57 0.24
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (117 bp):
AAACTTTCCAAAATTACCATTTTACCCCTGAAAGTCCAAAATTCCATTTTTGACCCTAAAACTTT
CAAAAATTACCATTTTACCCTCGAATATCCAAAAGCTCCATTTTTAACCCCA
Found at i:14704 original size:204 final size:205
Alignment explanation
Indices: 14464--14892 Score: 698
Period size: 204 Copynumber: 2.1 Consensus size: 205
14454 AAAACTTTCA
*
14464 AAAATTACCATTTTACCCTCGAATGTCCAAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTT
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTT
* * **
14529 ACCATTTTACCCTTGAATGTCCAAAAATTTCATTTTTGATCCAAATTTTTTTAAAAATTACTGTT
66 ACCATTTTACCCCTGAATGTCCAAAAATTTCATTTTTGATCCAAATTTTTCTAAAAATTACCATT
*
14594 TTACCCTCGAATATCTAAAGTTTCATTTTTAACCCCAAATTTTACCAAAATTACCATTTTGCCCC
131 TTACCCTCGAATATCTAAAATTTCATTTTTAACCCCAAATTTTACCAAAATTACCATTTTGCCCC
14659 CTGAAAGTCC
196 CTGAAAGTCC
* *
14669 AAAATTACCATTTT-CCCCCGGATGTCCAAAAGCTCCATTTTTTACCCCTAAACTTTCAAAAGTT
1 AAAATTACCATTTTACCCCCGAATGTCCAAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTT
* *
14733 ACCATTTTACCCCTGAATGTCCAAAAATTTCGTTTTTGATCCAGATTTTTCTAAAAATTACCATT
66 ACCATTTTACCCCTGAATGTCCAAAAATTTCATTTTTGATCCAAATTTTTCTAAAAATTACCATT
* * *
14798 TTACCCTCGAATATCTAAAATTTCATTTTTAACCCCAAATTTTTCCAAATTTACCATTTTGCTCC
131 TTACCCTCGAATATCTAAAATTTCATTTTTAACCCCAAATTTTACCAAAATTACCATTTTGCCCC
* *
14863 TTGAGAGTCC
196 CTGAAAGTCC
* *
14873 AAAATTATCATTTTGCCCCC
1 AAAATTACCATTTTACCCCC
14893 CGGGTAACCA
Statistics
Matches: 207, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
204 188 0.91
205 19 0.09
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (205 bp):
AAAATTACCATTTTACCCCCGAATGTCCAAAAGCTCCATTTTTTACCCCGAAACTTTCAAAAGTT
ACCATTTTACCCCTGAATGTCCAAAAATTTCATTTTTGATCCAAATTTTTCTAAAAATTACCATT
TTACCCTCGAATATCTAAAATTTCATTTTTAACCCCAAATTTTACCAAAATTACCATTTTGCCCC
CTGAAAGTCC
Found at i:14757 original size:29 final size:28
Alignment explanation
Indices: 14638--14758 Score: 104
Period size: 29 Copynumber: 4.2 Consensus size: 28
14628 CCAAATTTTA
* *
14638 CCAAAATTACCATTTTGCCCCCTGAAAGT
1 CCAAAATTACCATTTT-ACCCCTGAATGT
* *
14667 CCAAAATTACCATTTT-CCCCCGGATGT
1 CCAAAATTACCATTTTACCCCTGAATGT
* *
14694 CCAAAAGCT-CCATTTTTTACCCCTAAACT-T
1 CCAAAA-TTACCA--TTTTACCCCTGAA-TGT
*
14724 TCAAAAGTTACCATTTTACCCCTGAATGT
1 CCAAAA-TTACCATTTTACCCCTGAATGT
14753 CCAAAA
1 CCAAAA
14759 ATTTCGTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
27 17 0.23
28 2 0.03
29 38 0.51
30 13 0.18
31 4 0.05
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCTGAATGT
Found at i:14840 original size:59 final size:57
Alignment explanation
Indices: 14669--14857 Score: 166
Period size: 59 Copynumber: 3.2 Consensus size: 57
14659 CTGAAAGTCC
* * ** * * *
14669 AAAATTACCATTTTCCCCCGGATGTCCAAAAGCTCCATTTTTTACCCCTAAA-CTTTCA
1 AAAATTACCATTTTACCCCGAATGT-CAAAAATTTCATTTTTAACCCC-AAATTTTTCA
* * * * *
14727 AAAGTTACCATTTTACCCCTGAATGTCCAAAAATTTCGTTTTTGA-TCCAGATTTTTCTA
1 AAAATTACCATTTTACCCC-GAATGT-CAAAAATTTCATTTTTAACCCCAAATTTTTC-A
* * *
14786 AAAATTACCATTTTACCCTCGAATATCTAAAATTTCATTTTTAACCCCAAATTTTTCC
1 AAAATTACCATTTTACCC-CGAATGTCAAAAATTTCATTTTTAACCCCAAATTTTTCA
*
14844 AAATTTACCATTTT
1 AAAATTACCATTTT
14858 GCTCCTTGAG
Statistics
Matches: 106, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
57 2 0.02
58 51 0.48
59 52 0.49
60 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCGAATGTCAAAAATTTCATTTTTAACCCCAAATTTTTCA
Found at i:15287 original size:96 final size:96
Alignment explanation
Indices: 15122--15302 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 96
15112 AAAACTTTAA
** * **
15122 AATCGAGGCAATATTCTTTTATTTCGAGTTTCGAAATTTTGTGCCTTAACTTACTAGGTGTAATT
1 AATCGAGGCAATATTCTTTTATTTCGAGTTTCGAAAACTTGTGCCTTAACTTACTAGGTGAAACC
15187 TTTCTTCAAATCGAAATAATTGAATACCTTT
66 TTTCTTCAAATCGAAATAATTGAATACCTTT
*
15218 AATCGAGGCAATGTT-TTCTTATCTTCGA--TTCTGAAAACTTGTGCCTTAACTTACTAGGTGAA
1 AATCGAGGCAATATTCTT-TTAT-TTCGAGTTTC-GAAAACTTGTGCCTTAACTTACTAGGTGAA
* *
15280 ACCTTTCTTCAAGTCGAGATAAT
63 ACCTTTCTTCAAATCGAAATAAT
15303 CAAATATCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
95 5 0.07
96 64 0.86
97 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (96 bp):
AATCGAGGCAATATTCTTTTATTTCGAGTTTCGAAAACTTGTGCCTTAACTTACTAGGTGAAACC
TTTCTTCAAATCGAAATAATTGAATACCTTT
Found at i:18705 original size:7 final size:7
Alignment explanation
Indices: 18693--18725 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
18683 GATATTACAC
18693 TATATAT
1 TATATAT
18700 TATATAT
1 TATATAT
18707 TATATAT
1 TATATAT
18714 TATATAT
1 TATATAT
18721 TATAT
1 TATAT
18726 TAATATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATAT
Found at i:25471 original size:18 final size:18
Alignment explanation
Indices: 25448--25490 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
25438 GAATATGTTT
25448 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
25466 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
25484 TTAATTA
1 TTAATTA
25491 CACTTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:28433 original size:16 final size:16
Alignment explanation
Indices: 28414--28444 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28404 AACCATTTAA
*
28414 TCAATTAATTAATTTC
1 TCAATTAAATAATTTC
28430 TCAATTAAATAATTT
1 TCAATTAAATAATTT
28445 TTTCAACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
TCAATTAAATAATTTC
Found at i:28685 original size:39 final size:39
Alignment explanation
Indices: 28642--28722 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
28632 AAACCATCTC
*
28642 TTGAACTTTGCGAGACTACACTAATTCTAATATGATTCG
1 TTGAACTTTGCGAGACAACACTAATTCTAATATGATTCG
28681 TTGAACTTTGCGAGACAACACTAATTCTAATATGATTCG
1 TTGAACTTTGCGAGACAACACTAATTCTAATATGATTCG
28720 TTG
1 TTG
28723 GTCACGGTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (39 bp):
TTGAACTTTGCGAGACAACACTAATTCTAATATGATTCG
Found at i:31263 original size:17 final size:17
Alignment explanation
Indices: 31241--31274 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
31231 AAAACTACTC
31241 ATAAGGGTTTTTGTAAG
1 ATAAGGGTTTTTGTAAG
31258 ATAAGGGTTTTTGTAAG
1 ATAAGGGTTTTTGTAAG
31275 GTGATATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (17 bp):
ATAAGGGTTTTTGTAAG
Found at i:32327 original size:17 final size:16
Alignment explanation
Indices: 32301--32354 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 16
32291 CAGGCCCCTT
32301 TTTAATTTATTTTAAA
1 TTTAATTTATTTTAAA
32317 TTTAGATTTATTTTAAA
1 TTTA-ATTTATTTTAAA
* *
32334 TTTAAATTAATCTTAAA
1 TTT-AATTTATTTTAAA
32351 TTTA
1 TTTA
32355 TTCAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 5 0.15
17 28 0.82
18 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTAATTTATTTTAAA
Found at i:34240 original size:29 final size:30
Alignment explanation
Indices: 34192--34448 Score: 258
Period size: 30 Copynumber: 8.7 Consensus size: 30
34182 CGAACTGTCT
*
34192 AAAAATTCCATTTTTAACCTCGAAACTTCC
1 AAAAATTCCATTTTTAACCTCAAAACTTCC
* *
34222 -GAAATTCCATTTTTTACCTCAAAACTTCC
1 AAAAATTCCATTTTTAACCTCAAAACTTCC
* *
34251 AAAAATACCATTTTTAACCCCAAAACTTCC
1 AAAAATTCCATTTTTAACCTCAAAACTTCC
*
34281 AAAAATCCCA-TTTTAACC-CTAAAACTTCC
1 AAAAATTCCATTTTTAACCTC-AAAACTTCC
* * *
34310 AAAAATACCATTTTTAACCCCAAAACTTTC
1 AAAAATTCCATTTTTAACCTCAAAACTTCC
*
34340 AAAAATTCCAATTTT-ACC-CATGAAACTTCC
1 AAAAATTCCATTTTTAACCTCA--AAACTTCC
* * *
34370 AAAAATGCCATTTTTGACCCCAAAACTTCC
1 AAAAATTCCATTTTTAACCTCAAAACTTCC
** * * *
34400 AAAAATTTAATTTTTACCCTC-GAACCTCC
1 AAAAATTCCATTTTTAACCTCAAAACTTCC
*
34429 -AAAATCTCCATTTTTGACCT
1 AAAAAT-TCCATTTTTAACCT
34449 TGAAACTCTC
Statistics
Matches: 191, Mismatches: 27, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
28 8 0.04
29 71 0.37
30 106 0.55
31 4 0.02
32 2 0.01
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAATTCCATTTTTAACCTCAAAACTTCC
Found at i:34262 original size:30 final size:30
Alignment explanation
Indices: 34192--34415 Score: 267
Period size: 30 Copynumber: 7.5 Consensus size: 30
34182 CGAACTGTCT
* *
34192 AAAAATTCCATTTTTAACCTCGAAACTTCC
1 AAAAATTCCATTTTTAACCCCAAAACTTCC
* * *
34222 -GAAATTCCATTTTTTACCTCAAAACTTCC
1 AAAAATTCCATTTTTAACCCCAAAACTTCC
*
34251 AAAAATACCATTTTTAACCCCAAAACTTCC
1 AAAAATTCCATTTTTAACCCCAAAACTTCC
* *
34281 AAAAATCCCA-TTTTAACCCTAAAACTTCC
1 AAAAATTCCATTTTTAACCCCAAAACTTCC
* *
34310 AAAAATACCATTTTTAACCCCAAAACTTTC
1 AAAAATTCCATTTTTAACCCCAAAACTTCC
*
34340 AAAAATTCCAATTTT-A-CCCATGAAACTTCC
1 AAAAATTCCATTTTTAACCCCA--AAACTTCC
* *
34370 AAAAATGCCATTTTTGACCCCAAAACTTCC
1 AAAAATTCCATTTTTAACCCCAAAACTTCC
**
34400 AAAAATTTAATTTTTA
1 AAAAATTCCATTTTTA
34416 CCCTCGAACC
Statistics
Matches: 167, Mismatches: 21, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
28 4 0.02
29 54 0.32
30 104 0.62
31 1 0.01
32 4 0.02
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.32
Consensus pattern (30 bp):
AAAAATTCCATTTTTAACCCCAAAACTTCC
Found at i:34305 original size:59 final size:58
Alignment explanation
Indices: 34192--34405 Score: 270
Period size: 59 Copynumber: 3.6 Consensus size: 58
34182 CGAACTGTCT
* * * * *
34192 AAAAATTCCATTTTTAACCTCGAAACTTCC-GAAATTCCATTTTTTA-CCTCAAAACTTCC
1 AAAAATACCATTTTTAACCCCAAAACTTCCAAAAATCCCA--TTTTACCCT-AAAACTTCC
34251 AAAAATACCATTTTTAACCCCAAAACTTCCAAAAATCCCATTTTAACCCTAAAACTTCC
1 AAAAATACCATTTTTAACCCCAAAACTTCCAAAAATCCCATTTT-ACCCTAAAACTTCC
* * *
34310 AAAAATACCATTTTTAACCCCAAAACTTTCAAAAATTCCAATTTTACCCATGAAACTTCC
1 AAAAATACCATTTTTAACCCCAAAACTTCCAAAAA-TCCCATTTTACCC-TAAAACTTCC
* *
34370 AAAAATGCCATTTTTGACCCCAAAACTTCCAAAAAT
1 AAAAATACCATTTTTAACCCCAAAACTTCCAAAAAT
34406 TTAATTTTTA
Statistics
Matches: 139, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
58 4 0.03
59 76 0.55
60 59 0.42
ACGTcount: A:0.40, C:0.28, G:0.02, T:0.30
Consensus pattern (58 bp):
AAAAATACCATTTTTAACCCCAAAACTTCCAAAAATCCCATTTTACCCTAAAACTTCC
Found at i:34447 original size:59 final size:58
Alignment explanation
Indices: 34183--34432 Score: 261
Period size: 59 Copynumber: 4.2 Consensus size: 58
34173 GAAGGTCCCC
* * * * * * *
34183 GAACTGTCTAAAAATTCCATTTTTAACCTCGAAACTTCC-GAAATTCCATTTTTTACCTCA
1 GAACT-TCCAAAAATACCATTTTTAACCCCAAAACTTCCAAAAATT-CAATTTTTACC-CT
* * * *
34243 AAACTTCCAAAAATACCATTTTTAACCCCAAAACTTCCAAAAATCCCATTTTAACCCT
1 GAACTTCCAAAAATACCATTTTTAACCCCAAAACTTCCAAAAATTCAATTTTTACCCT
* *
34301 AAAACTTCCAAAAATACCATTTTTAACCCCAAAACTTTCAAAAATTCCAA-TTTTACCCAT
1 -GAACTTCCAAAAATACCATTTTTAACCCCAAAACTTCCAAAAATT-CAATTTTTACCC-T
* * *
34361 GAAACTTCCAAAAATGCCATTTTTGACCCCAAAACTTCCAAAAATTTAATTTTTACCCT
1 G-AACTTCCAAAAATACCATTTTTAACCCCAAAACTTCCAAAAATTCAATTTTTACCCT
*
34420 CGAACCTCCAAAA
1 -GAACTTCCAAAA
34433 TCTCCATTTT
Statistics
Matches: 162, Mismatches: 21, Indels: 15
0.82 0.11 0.08
Matches are distributed among these distances:
58 1 0.01
59 100 0.62
60 61 0.38
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.30
Consensus pattern (58 bp):
GAACTTCCAAAAATACCATTTTTAACCCCAAAACTTCCAAAAATTCAATTTTTACCCT
Found at i:34501 original size:29 final size:29
Alignment explanation
Indices: 34189--34501 Score: 160
Period size: 30 Copynumber: 10.6 Consensus size: 29
34179 CCCCGAACTG
*
34189 TCTAAAAATTCCATTTTTAACCTCGAAAC
1 TCTAAAAATTCCATTTTTACCCTCGAAAC
** *
34218 T-TCCGAAATTCCATTTTTTA-CCTCAAAAC
1 TCT-AAAAATTCCA-TTTTTACCCTCGAAAC
* * *
34247 TTCCAAAAATACCATTTTTAACCC-CAAAAC
1 -TCTAAAAATTCCATTTTT-ACCCTCGAAAC
* * * *
34277 TTCCAAAAATCCCATTTTAACCCT-AAAAC
1 -TCTAAAAATTCCATTTTTACCCTCGAAAC
* * *
34306 TTCCAAAAATACCATTTTTAACCC-CAAAAC
1 -TCTAAAAATTCCATTTTT-ACCCTCGAAAC
* *
34336 TTTCAAAAATTCCAATTTTACCCAT-GAAAC
1 TCT-AAAAATTCCATTTTTACCC-TCGAAAC
* * *
34366 TTCCAAAAATGCCATTTTTGACCC-CAAAAC
1 -TCTAAAAATTCCATTTTT-ACCCTCGAAAC
* ** *
34396 TTCCAAAAATTTAATTTTTACCCTCGAACC
1 -TCTAAAAATTCCATTTTTACCCTCGAAAC
* *
34426 TC-CAAAATCTCCATTTTTGA-CCTTGAAAC
1 TCTAAAAAT-TCCATTTTT-ACCCTCGAAAC
* * **
34455 TCTCAAAATTACC-CTTTTACCCTCGAATG
1 TCTAAAAATT-CCATTTTTACCCTCGAAAC
34484 TCTAAAAATTCCATTTTT
1 TCTAAAAATTCCATTTTT
34502 TAAACCCTAA
Statistics
Matches: 225, Mismatches: 37, Indels: 44
0.74 0.12 0.14
Matches are distributed among these distances:
28 9 0.04
29 99 0.44
30 110 0.49
31 7 0.03
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.33
Consensus pattern (29 bp):
TCTAAAAATTCCATTTTTACCCTCGAAAC
Found at i:34914 original size:96 final size:96
Alignment explanation
Indices: 34797--34988 Score: 237
Period size: 96 Copynumber: 2.0 Consensus size: 96
34787 AAAACTTTAA
* **
34797 AATCGATGTAATATTCTTTTAT-TTCGAGTT-TCAAAAATTTGTGCCTTAACTTACTAGGTGCAA
1 AATCGAGGTAATATTCTTTTATCTTCGA-TTGTCAAAAA-TTACGCCTTAACTTACTAGGTGCAA
** *
34860 TTTTTCTTCAAATTGAAATAATCGAATACCCTT
64 CCTTTCTTCAAATCGAAATAATCGAATACCCTT
* * *
34893 AATCGAGGTAATGTT-TCTTTATCTTCGATTGTGAAATATTACGCCTTAACTTACTAGGTGCAAC
1 AATCGAGGTAATATTCT-TTTATCTTCGATTGTCAAAAATTACGCCTTAACTTACTAGGTGCAAC
* *
34957 CTTTCTTCAAATCGAGATAATCGAATATCCTT
65 CTTTCTTCAAATCGAAATAATCGAATACCCTT
34989 TTCCCAAAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
95 1 0.01
96 71 0.87
97 10 0.12
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (96 bp):
AATCGAGGTAATATTCTTTTATCTTCGATTGTCAAAAATTACGCCTTAACTTACTAGGTGCAACC
TTTCTTCAAATCGAAATAATCGAATACCCTT
Found at i:45931 original size:205 final size:205
Alignment explanation
Indices: 45454--46224 Score: 1113
Period size: 205 Copynumber: 3.8 Consensus size: 205
45444 AATTATCCAT
* * *
45454 AAAC-AACGACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAGACACATGCTC
1 AAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCATGCTC
45518 GATGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAAGG-CGAAGCAATA
66 GATGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGC-AGGTCGAAGCAATA
*
45582 AAAGGTTAGCATCCTGATGAGATAACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAG
130 AAAGGTTAGCTTCCTGATGAGAT-ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAG
* *
45647 AGCAGCAAAATG
194 AGAAGCGAAATG
* * *
45659 AAACAAACGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTC
1 AAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCATGCTC
*
45724 GATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGAG-CGAAGCAATA
66 GATGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAG-GTCGAAGCAATA
*
45788 AAAGGTTAGCTTCCTGATGAGATCCTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
130 AAAGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
*
45853 GAAGCGAATTG
195 GAAGCGAAATG
* ** * *
45864 AAACAAATGACAG-AGTCATCTTCCTGATGAGATACCAAGAAGAAGACCAAGTCAAACCCAAGCT
1 AAACAAACGAC-GCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCATGCT
* * * *
45928 CGATGTGAGCAAATCTTAGAACCCCAACTTCCTGATGAGACACCGAGAAGCAGGTCAAAGCAATA
65 CGATGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATA
* * *
45993 AAAGGTTAGCTTCCTGATGAGATACGGAGAAGTGGACCAAATTTGTCTTCCTAATGAGATACAGA
130 AAAGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
*
46058 GAAGCGAACTG
195 GAAGCGAAATG
* * *
46069 AAACAAACGACGCAGTTATCTTCCTGAAGAGATACTTAGAAGAAGACCAAATCAAACCTC-TGCT
1 AAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACC-CATGCT
** * * **
46133 TAAT-TCGAGCGAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAATAAT
65 CGATGT-GAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAAT
*
46197 AAAACGGATTAGCTTCCTGATGAAATAC
129 AAAA-GG-TTAGCTTCCTGATGAGATAC
46225 GGGGAAGTAA
Statistics
Matches: 511, Mismatches: 46, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
204 3 0.01
205 348 0.68
206 141 0.28
207 19 0.04
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (205 bp):
AAACAAACGACGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCATGCTC
GATGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
AAGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
AAGCGAAATG
Found at i:46647 original size:11 final size:11
Alignment explanation
Indices: 46633--46710 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
46623 GCCCCTTTTT
*
46633 AATTTATTTTA
1 AATTTAATTTA
46644 AATTTAGATTT-
1 AATTTA-ATTTA
*
46655 ATTTTAGATTTA
1 AATTTA-ATTTA
46667 AA-TTAATCTTA
1 AATTTAAT-TTA
46678 AATTTAAATTT-
1 AATTT-AATTTA
46689 AATTTAAATTTA
1 AATTT-AATTTA
46701 AATTTAATTT
1 AATTTAATTT
46711 CAAAATTAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
10 2 0.03
11 40 0.69
12 13 0.22
13 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:46654 original size:6 final size:5
Alignment explanation
Indices: 46630--46710 Score: 63
Period size: 6 Copynumber: 14.6 Consensus size: 5
46620 TGGGCCCCTT
* * *
46630 TTTAA TTTAT TTTAAA TTTAGA TTTAT TTTAGA TTTAA ATTAA TCTTAAA
1 TTTAA TTTAA TTT-AA TTTA-A TTTAA TTTA-A TTTAA TTTAA T-TT-AA
46680 TTTAAA TTTAA TTTAAA TTTAAA TTTAA TTT
1 TTT-AA TTTAA TTT-AA TTT-AA TTTAA TTT
46711 CAAAATTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
5 27 0.42
6 34 0.53
7 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (5 bp):
TTTAA
Found at i:46656 original size:17 final size:17
Alignment explanation
Indices: 46633--46720 Score: 104
Period size: 17 Copynumber: 5.1 Consensus size: 17
46623 GCCCCTTTTT
46633 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
46650 GATTTATTTTAGATTTA
1 AATTTATTTTAAATTTA
* *
46667 AATTAATCTTAAATTTA
1 AATTTATTTTAAATTTA
*
46684 AATTTAATTTAAATTTA
1 AATTTATTTTAAATTTA
* *
46701 AATTTAATTTCAAAATTA
1 AATTT-ATTTTAAATTTA
46719 AA
1 AA
46721 AAAGTCCAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
17 47 0.81
18 11 0.19
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:46721 original size:6 final size:6
Alignment explanation
Indices: 46640--46720 Score: 73
Period size: 6 Copynumber: 14.0 Consensus size: 6
46630 TTTAATTTAT
* * *
46640 TTTAAA TTTAGA TTT-AT TTTAGA TTTAAA -TT-AA TCTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
*
46686 TTT-AA TTTAAA TTTAAA TTT-AA TTTCAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
46721 AAAGTCCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
4 2 0.03
5 15 0.25
6 37 0.61
7 7 0.11
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:47831 original size:29 final size:30
Alignment explanation
Indices: 47788--48061 Score: 245
Period size: 30 Copynumber: 9.5 Consensus size: 30
47778 CGAACTGTCT
*
47788 AAAAATTCCATTTTTACCCTCAAAACTTCA
1 AAAAATTCCATTTTTACCCTCAAAACTTCC
47818 AAAAATTCCATTTTTGACCCT-AAAACTTCC
1 AAAAATTCCATTTTT-ACCCTCAAAACTTCC
* * *
47848 AAAAATGCCATTTTTAACCTC-GAACTTCC
1 AAAAATTCCATTTTTACCCTCAAAACTTCC
* * *
47877 AAAAATACCATTTTGA-CCGCAAAACTTCC
1 AAAAATTCCATTTTTACCCTCAAAACTTCC
*
47906 AAGAATTCCATTTTTACCC-CTAAAACTTCC
1 AAAAATTCCATTTTTACCCTC-AAAACTTCC
* *
47936 AAAAATGCCATTTTTAACCTCAAAACTTCC
1 AAAAATTCCATTTTTACCCTCAAAACTTCC
*
47966 -AAAA----A--TTTACCCAT-GAAACTTCC
1 AAAAATTCCATTTTTACCC-TCAAAACTTCC
* * *
47989 AAAAATGCCATTTTTAACCC-CAAAACTACT
1 AAAAATTCCATTTTT-ACCCTCAAAACTTCC
* * *
48019 AAAAATTCCATTTTTACCGTC-GAACCTCC
1 AAAAATTCCATTTTTACCCTCAAAACTTCC
48048 -AAAATATCCATTTT
1 AAAAAT-TCCATTTT
48062 CAACCTCGAA
Statistics
Matches: 201, Mismatches: 25, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
23 14 0.07
24 5 0.02
25 1 0.00
28 9 0.04
29 65 0.32
30 97 0.48
31 10 0.05
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (30 bp):
AAAAATTCCATTTTTACCCTCAAAACTTCC
Found at i:47989 original size:53 final size:53
Alignment explanation
Indices: 47918--48025 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
47908 GAATTCCATT
* * *
47918 TTTACCCCTAAAACTTCCAAAAATGCCATTTTTAACCTCAAAACTTCCAAAAA
1 TTTACCCATAAAACTTCCAAAAATGCCATTTTTAACCCCAAAACTACCAAAAA
* *
47971 TTTACCCATGAAACTTCCAAAAATGCCATTTTTAACCCCAAAACTACTAAAAA
1 TTTACCCATAAAACTTCCAAAAATGCCATTTTTAACCCCAAAACTACCAAAAA
48024 TT
1 TT
48026 CCATTTTTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.29
Consensus pattern (53 bp):
TTTACCCATAAAACTTCCAAAAATGCCATTTTTAACCCCAAAACTACCAAAAA
Found at i:48059 original size:112 final size:112
Alignment explanation
Indices: 47870--48074 Score: 270
Period size: 112 Copynumber: 1.8 Consensus size: 112
47860 TTTAACCTCG
* * * * *
47870 AACTTCCAAAAATACCATTTTGACCGCAAAACTTCCAAGAATTCCATTTTTACCCCTAAAACTTC
1 AACTTCCAAAAATACCATTTTAACCCCAAAACTACCAAAAATTCCATTTTTACCCCTAAAACCTC
*
47935 CAAAAATGCCATTTTTAACCTCAAAACTTCCAAAAATTTACCCATGA
66 CAAAAATGCCATTTTCAACCTCAAAACTTCCAAAAATTTACCCATGA
* * * **
47982 AACTTCCAAAAATGCCATTTTTAACCCCAAAACTACTAAAAATTCCATTTTTA-CCGTCGAACCT
1 AACTTCCAAAAATACCA-TTTTAACCCCAAAACTACCAAAAATTCCATTTTTACCCCTAAAACCT
*
48046 CCAAAATAT-CCATTTTCAACCTCGAAACT
65 CCAAAA-ATGCCATTTTCAACCTCAAAACT
48075 CTTAAAATTA
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
112 47 0.59
113 32 0.41
ACGTcount: A:0.39, C:0.28, G:0.04, T:0.29
Consensus pattern (112 bp):
AACTTCCAAAAATACCATTTTAACCCCAAAACTACCAAAAATTCCATTTTTACCCCTAAAACCTC
CAAAAATGCCATTTTCAACCTCAAAACTTCCAAAAATTTACCCATGA
Found at i:53835 original size:23 final size:23
Alignment explanation
Indices: 53431--53824 Score: 554
Period size: 23 Copynumber: 17.1 Consensus size: 23
53421 TTATATCTAC
53431 GCTTAAATATTAATGTGATTTGT
1 GCTTAAATATTAATGTGATTTGT
* * * * *
53454 GCTTAAGTATTTATGCGATATAT
1 GCTTAAATATTAATGTGATTTGT
* *
53477 GCTTAAATATTAATATGGTTTGT
1 GCTTAAATATTAATGTGATTTGT
* *
53500 GCTCAAATATTAAAGTGATTTGT
1 GCTTAAATATTAATGTGATTTGT
*
53523 GCTTAAATATTAATATGATTTGT
1 GCTTAAATATTAATGTGATTTGT
* *
53546 GCTCAAATATTAATGTGATTTAT
1 GCTTAAATATTAATGTGATTTGT
53569 GCTTAAATATTAATGTGATTTGT
1 GCTTAAATATTAATGTGATTTGT
* *
53592 GCTTAATTATTAATGTGATTTAT
1 GCTTAAATATTAATGTGATTTGT
* *
53615 GCTTAAATATTAATATGATTTAT
1 GCTTAAATATTAATGTGATTTGT
*
53638 GCTCAAATATTAATGTGATTTGT
1 GCTTAAATATTAATGTGATTTGT
*
53661 GCTTAAATATTAATATGATTTGT
1 GCTTAAATATTAATGTGATTTGT
* *
53684 GCTCAAATATTAATGTGATTTAT
1 GCTTAAATATTAATGTGATTTGT
**
53707 AATTAAATATTAATGTGATTTGT
1 GCTTAAATATTAATGTGATTTGT
* *
53730 GCTTAAGTATTAATGTGATTTAT
1 GCTTAAATATTAATGTGATTTGT
53753 GCTTAAATATTAATGTGATTTGT
1 GCTTAAATATTAATGTGATTTGT
*
53776 GCTTAAATGTTAATGTGATTTGT
1 GCTTAAATATTAATGTGATTTGT
*
53799 GCTTAAATATTAATATGATTTGT
1 GCTTAAATATTAATGTGATTTGT
53822 GCT
1 GCT
53825 CAAGCATTAA
Statistics
Matches: 322, Mismatches: 49, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 322 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.46
Consensus pattern (23 bp):
GCTTAAATATTAATGTGATTTGT
Found at i:62458 original size:23 final size:23
Alignment explanation
Indices: 62428--62610 Score: 249
Period size: 23 Copynumber: 8.0 Consensus size: 23
62418 AGCTGTTACA
* *
62428 ATTAATGTGATTTATACTTAAAT
1 ATTAATGTGATTTGTGCTTAAAT
62451 ATTAATGTGATTTGTGCTTAAAT
1 ATTAATGTGATTTGTGCTTAAAT
*
62474 GTTAATGTGATTTGTGCTTAAAT
1 ATTAATGTGATTTGTGCTTAAAT
* * * *
62497 ATTACTATGATTTGTTCTCAAAT
1 ATTAATGTGATTTGTGCTTAAAT
* **
62520 ATTAACGTGATTTACGCTTAAAT
1 ATTAATGTGATTTGTGCTTAAAT
62543 ATTAATGTGATTTGTGCTTAAAT
1 ATTAATGTGATTTGTGCTTAAAT
* * *
62566 ATTAATATGATTTATGATTAAAT
1 ATTAATGTGATTTGTGCTTAAAT
62589 ATTAATGTGATTTGTGCTTAAA
1 ATTAATGTGATTTGTGCTTAAA
62611 GAATTAAGAT
Statistics
Matches: 136, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 136 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.46
Consensus pattern (23 bp):
ATTAATGTGATTTGTGCTTAAAT
Found at i:62720 original size:36 final size:36
Alignment explanation
Indices: 62680--62756 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
62670 TGATGACAGT
**
62680 TGTGAAAGTGAATATGTGGATATGTTCTTCATGCCA
1 TGTGAAAGAAAATATGTGGATATGTTCTTCATGCCA
* *
62716 TGTGATAGAAAATATGTGGGTATGTTCTTCATGCCA
1 TGTGAAAGAAAATATGTGGATATGTTCTTCATGCCA
62752 TGTGA
1 TGTGA
62757 TTGATTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.36
Consensus pattern (36 bp):
TGTGAAAGAAAATATGTGGATATGTTCTTCATGCCA
Found at i:74164 original size:19 final size:20
Alignment explanation
Indices: 74122--74167 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
74112 AAATTACAAA
*
74122 AAAAATTCAAAATAATTGTC
1 AAAAATTCAAAATAATTATC
*
74142 AAAAATTCAAAATATTTAT-
1 AAAAATTCAAAATAATTATC
74161 AAAAATT
1 AAAAATT
74168 TTAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTATC
Found at i:89356 original size:18 final size:18
Alignment explanation
Indices: 89333--89372 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
89323 TTTAGTAATG
*
89333 TTTTTATCTTAAAAGTAT
1 TTTTTATCCTAAAAGTAT
*
89351 TTTTTATCCTAAAAGTGT
1 TTTTTATCCTAAAAGTAT
89369 TTTT
1 TTTT
89373 GAAAGCAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (18 bp):
TTTTTATCCTAAAAGTAT
Found at i:91159 original size:29 final size:25
Alignment explanation
Indices: 91127--91183 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 25
91117 ATAAAATTTA
91127 TTAAATTTTAATAAAAATATAAAGAATAT
1 TTAAATTTT-ATAAAAAT-T--AGAATAT
*
91156 TTAAATTTTTTAAAAATTAGAATAT
1 TTAAATTTTATAAAAATTAGAATAT
91181 TTA
1 TTA
91184 TATAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 10 0.37
27 1 0.04
28 7 0.26
29 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
TTAAATTTTATAAAAATTAGAATAT
Found at i:91191 original size:20 final size:20
Alignment explanation
Indices: 91158--91228 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 20
91148 AAGAATATTT
*
91158 AAATTTTTTAAAAATTAG-A
1 AAATTTTATAAAAATTAGTA
*
91177 ATATTTATATAAAAATT-GTA
1 AAATTT-TATAAAAATTAGTA
91197 AAATTTTATAAAAATTA-TA
1 AAATTTTATAAAAATTAGTA
**
91216 AAAGATTATAAAA
1 AAATTTTATAAAA
91229 TACATAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 29 0.66
20 15 0.34
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
AAATTTTATAAAAATTAGTA
Found at i:91223 original size:10 final size:9
Alignment explanation
Indices: 91184--91228 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
91174 AGAATATTTA
91184 TATAAAAAT
1 TATAAAAAT
* *
91193 TGTAAAATTT
1 TATAAAA-AT
91203 TATAAAAAT
1 TATAAAAAT
91212 TATAAAAGAT
1 TATAAAA-AT
91222 TATAAAA
1 TATAAAA
91229 TACATAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (9 bp):
TATAAAAAT
Found at i:91437 original size:19 final size:19
Alignment explanation
Indices: 91415--91469 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
91405 GGTAAGTACG
91415 ATAATTTTTATATTTTTTT
1 ATAATTTTTATATTTTTTT
* * *
91434 ATAAATTTTATATATCTTT
1 ATAATTTTTATATTTTTTT
* *
91453 ACATTTTTTATAATTTT
1 ATAATTTTTAT-ATTTT
91470 ATTACGACTT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (19 bp):
ATAATTTTTATATTTTTTT
Found at i:91453 original size:10 final size:9
Alignment explanation
Indices: 91420--91537 Score: 53
Period size: 10 Copynumber: 12.6 Consensus size: 9
91410 GTACGATAAT
*
91420 TTTTATATTT
1 TTTTATA-TA
*
91430 TTTTATAAA
1 TTTTATATA
91439 TTTTATATA
1 TTTTATATA
* *
91448 TCTTTACATT
1 T-TTTATATA
91458 TTTTATA-A
1 TTTTATATA
*
91466 TTTTATTACGA
1 TTTTA-TA-TA
* * *
91477 CTTAATAAAA
1 TTTTAT-ATA
91487 TTTTATAT-
1 TTTTATATA
*
91495 TTTTTTATA
1 TTTTATATA
91504 TTTCTATATA
1 TTT-TATATA
*
91514 TTTCTTTATA
1 TTT-TATATA
91524 TTTCTATA-A
1 TTT-TATATA
91533 TTTTA
1 TTTTA
91538 CACTTTTTTA
Statistics
Matches: 84, Mismatches: 17, Indels: 16
0.72 0.15 0.14
Matches are distributed among these distances:
8 14 0.17
9 24 0.29
10 41 0.49
11 5 0.06
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATATA
Found at i:91515 original size:20 final size:20
Alignment explanation
Indices: 91490--91536 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
91480 AATAAAATTT
91490 TATATTTTTTTATATTTCTA
1 TATATTTTTTTATATTTCTA
*
91510 TATATTTCTTTATATTTCTA
1 TATATTTTTTTATATTTCTA
91530 TA-ATTTT
1 TATATTTT
91537 ACACTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (20 bp):
TATATTTTTTTATATTTCTA
Found at i:95523 original size:21 final size:23
Alignment explanation
Indices: 95483--95531 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
95473 TCGAATAACT
95483 TATTTAACTCAAATAACTTGAAC
1 TATTTAACTCAAATAACTTGAAC
* *
95506 TATTTAATTC-AA-AACTTGAAT
1 TATTTAACTCAAATAACTTGAAC
95527 TATTT
1 TATTT
95532 TTCGAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.54
22 2 0.08
23 9 0.38
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (23 bp):
TATTTAACTCAAATAACTTGAAC
Found at i:115901 original size:22 final size:22
Alignment explanation
Indices: 115866--115907 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
115856 GGTTTTACTT
115866 TTTCTTCTTGTGGTTTCTTTGTC
1 TTTCTTCTTGTGGTTT-TTTGTC
*
115889 TTTC-TCTTTTGGTTTTTTG
1 TTTCTTCTTGTGGTTTTTTG
115908 ATTTTCGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.00, C:0.14, G:0.17, T:0.69
Consensus pattern (22 bp):
TTTCTTCTTGTGGTTTTTTGTC
Found at i:123679 original size:31 final size:30
Alignment explanation
Indices: 123649--123732 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 30
123639 TTTAATATAA
123649 AATTATATATAT-AAATTTTAATTAGGTAT
1 AATTATATATATAAAATTTTAATTAGGTAT
*
123678 AATTATATATATAAAATTTTAATTGTGGT-T
1 AATTATATATATAAAATTTTAATT-AGGTAT
*
123708 CAAATATATACT-TAAAATTTTAATT
1 -AATTATATA-TATAAAATTTTAATT
123733 TTGATTTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
29 12 0.24
30 12 0.24
31 24 0.49
32 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (30 bp):
AATTATATATATAAAATTTTAATTAGGTAT
Found at i:133094 original size:53 final size:53
Alignment explanation
Indices: 133011--133255 Score: 337
Period size: 53 Copynumber: 4.6 Consensus size: 53
133001 ATAAAAGCAA
* * *
133011 AAAGGTCCGATGACTCTATGTCATCGTGAGTTTTATGAATCCTAGCACGAATT
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATCACGTATT
* * * * *
133064 AAAGGTCCAATGACTCTATGTTATCATGAGTTATACGAATCCTATTACGTATT
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATCACGTATT
* * * *
133117 AAAGGTCCGATGACTCTATATCATCGTGAGTTATATGAATCTTAACACGGATT
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATCACGTATT
* *
133170 AAAGGTCCCATGACTCTATGTCATCGTGAGTTATATGAATCCTATTACGTATT
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATCACGTATT
* * *
133223 AAAGGTCTGATGACTCTGTGTCATCGTAAGTTA
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTA
133256 CCAAATGTGA
Statistics
Matches: 165, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 165 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (53 bp):
AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTATCACGTATT
Found at i:133200 original size:106 final size:106
Alignment explanation
Indices: 133011--133255 Score: 382
Period size: 106 Copynumber: 2.3 Consensus size: 106
133001 ATAAAAGCAA
* *
133011 AAAGGTCCGATGACTCTATGTCATCGTGAGTTTTATGAATCCTAGCACGAATTAAAGGTCCAATG
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTAACACGAATTAAAGGTCCAATG
*
133076 ACTCTATGTTATCATGAGTTATACGAATCCTATTACGTATT
66 ACTCTATGTCATCATGAGTTATACGAATCCTATTACGTATT
* * * *
133117 AAAGGTCCGATGACTCTATATCATCGTGAGTTATATGAATCTTAACACGGATTAAAGGTCCCATG
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTAACACGAATTAAAGGTCCAATG
* *
133182 ACTCTATGTCATCGTGAGTTATATGAATCCTATTACGTATT
66 ACTCTATGTCATCATGAGTTATACGAATCCTATTACGTATT
* * *
133223 AAAGGTCTGATGACTCTGTGTCATCGTAAGTTA
1 AAAGGTCCGATGACTCTATGTCATCGTGAGTTA
133256 CCAAATGTGA
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 126 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (106 bp):
AAAGGTCCGATGACTCTATGTCATCGTGAGTTATATGAATCCTAACACGAATTAAAGGTCCAATG
ACTCTATGTCATCATGAGTTATACGAATCCTATTACGTATT
Found at i:133533 original size:31 final size:30
Alignment explanation
Indices: 133486--133546 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 30
133476 TTCTTACATC
133486 ACTTGGTTAATGACATGTATTAGAATGATG
1 ACTTGGTTAATGACATGTATTAGAATGATG
133516 ACTTGGTTATATGACATGTATTAGAATGATG
1 ACTTGGTTA-ATGACATGTATTAGAATGATG
133547 TTATCTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.38
Consensus pattern (30 bp):
ACTTGGTTAATGACATGTATTAGAATGATG
Found at i:133966 original size:21 final size:21
Alignment explanation
Indices: 133942--133990 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
133932 ACTTGATTCA
*
133942 GTAGAAGAGTCCCTTGTATCG
1 GTAGAAGAGTCACTTGTATCG
**
133963 GTAGAACTGTCACTTGTATCG
1 GTAGAAGAGTCACTTGTATCG
133984 GTAGAAG
1 GTAGAAG
133991 TCTGCACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (21 bp):
GTAGAAGAGTCACTTGTATCG
Found at i:135790 original size:20 final size:21
Alignment explanation
Indices: 135754--135798 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
135744 CTCATAGCCC
135754 ATTTCACATTCCCCCTTTCAA
1 ATTTCACATTCCCCCTTTCAA
135775 ATTTCACATT-CCCCTTTCAA
1 ATTTCACATTCCCCCTTTCAA
135795 ATTT
1 ATTT
135799 AACCCCAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTCACATTCCCCCTTTCAA
Found at i:139497 original size:5 final size:5
Alignment explanation
Indices: 139487--139515 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
139477 AAATCTAAGA
139487 ATCCC ATCCC ATCCC ATCCC ATCCC ATCC
1 ATCCC ATCCC ATCCC ATCCC ATCCC ATCC
139516 TCATGTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.59, G:0.00, T:0.21
Consensus pattern (5 bp):
ATCCC
Found at i:139803 original size:17 final size:17
Alignment explanation
Indices: 139778--139816 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
139768 TTTTAAAGAA
* *
139778 AATTCATTAATTCATTT
1 AATTCATTAAATCATAT
*
139795 AATTGATTAAATCATAT
1 AATTCATTAAATCATAT
139812 AATTC
1 AATTC
139817 GAGAGAAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (17 bp):
AATTCATTAAATCATAT
Found at i:148313 original size:69 final size:69
Alignment explanation
Indices: 148240--148517 Score: 279
Period size: 69 Copynumber: 4.0 Consensus size: 69
148230 TCCTTATCGT
* * * * *
148240 CTTTTCCACCATCTGCCTTTCCCCCGGCTTCAAACCGCGATTCTTCCTTACCCTTTTGCTCGTTA
1 CTTTTCCACCATCCGCCTTTCCTCCGGCTTCAAACTGTGATTCTTCCTTACCCTTTTGCTCATTA
148305 TCAC
66 TCAC
** * * * * * * * *
148309 CTTTTGTACCGTCCACTTTTCCTCCAGCTTTAAACTGTAATTCGTCCTTACCCTTGTGCTCATTA
1 CTTTTCCACCATCCGCCTTTCCTCCGGCTTCAAACTGTGATTCTTCCTTACCCTTTTGCTCATTA
148374 TCAC
66 TCAC
** * * * * *
148378 CTTTTCCACCATCCGTTTTTCCTCCGGCATCAAAATGTGATTCTTGCTTAGCCTTTTGCACATTA
1 CTTTTCCACCATCCGCCTTTCCTCCGGCTTCAAACTGTGATTCTTCCTTACCCTTTTGCTCATTA
148443 TCAC
66 TCAC
* * * ** * *
148447 CTTCTCCACCATCGGTCTTTCCTCCGGCTTC-AACATGTGATTCTTCCCGACCCTTGTGCTCAAT
1 CTTTTCCACCATCCGCCTTTCCTCCGGCTTCAAAC-TGTGATTCTTCCTTACCCTTTTGCTCATT
148511 ATCAC
65 ATCAC
148516 CT
1 CT
148518 CGTTGTTCAT
Statistics
Matches: 166, Mismatches: 42, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
68 2 0.01
69 164 0.99
ACGTcount: A:0.16, C:0.35, G:0.11, T:0.37
Consensus pattern (69 bp):
CTTTTCCACCATCCGCCTTTCCTCCGGCTTCAAACTGTGATTCTTCCTTACCCTTTTGCTCATTA
TCAC
Found at i:150640 original size:29 final size:30
Alignment explanation
Indices: 150597--150660 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
150587 AACAATTTAT
150597 ATTTTTATAATTTTTAAAGAGTTAAA-TAAA
1 ATTTTTATAATTTTTAAA-AGTTAAAGTAAA
* * *
150627 ATTTTTATCA-TTTTGAAAGTTAAAGTATA
1 ATTTTTATAATTTTTAAAAGTTAAAGTAAA
150656 ATTTT
1 ATTTT
150661 ATTATTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 7 0.23
29 14 0.47
30 9 0.30
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.50
Consensus pattern (30 bp):
ATTTTTATAATTTTTAAAAGTTAAAGTAAA
Found at i:150679 original size:7 final size:7
Alignment explanation
Indices: 150667--150709 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
150657 TTTTATTATT
150667 AATTTAA
1 AATTTAA
150674 AATTTAA
1 AATTTAA
150681 AATTATAAA
1 AATT-T-AA
*
150690 AAGTTAA
1 AATTTAA
150697 AATTTAA
1 AATTTAA
150704 AATTTA
1 AATTTA
150710 CCATGATCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 25 0.78
8 2 0.06
9 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (7 bp):
AATTTAA
Found at i:150696 original size:16 final size:15
Alignment explanation
Indices: 150667--150705 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
150657 TTTTATTATT
*
150667 AATTT-AAAATTTAA
1 AATTTAAAAAGTTAA
150681 AATTATAAAAAGTTAA
1 AATT-TAAAAAGTTAA
150697 AATTTAAAA
1 AATTTAAAA
150706 TTTACCATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 6 0.27
16 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AATTTAAAAAGTTAA
Found at i:151141 original size:17 final size:16
Alignment explanation
Indices: 151119--151163 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
151109 CTGAATAAAC
151119 AATAAAAAAAATTATT
1 AATAAAAAAAATTATT
*
151135 AA-ATAAAAAATATATT
1 AATAAAAAAAAT-TATT
151151 --TAAAAAAAATTAT
1 AATAAAAAAAATTAT
151164 ATTATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 3 0.12
15 16 0.64
16 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAAAAAAATTATT
Found at i:151150 original size:16 final size:15
Alignment explanation
Indices: 151122--151167 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
151112 AATAAACAAT
151122 AAAAAAAAT-TATTA
1 AAAAAAAATATATTA
151136 AATAAAAAATATATTTA
1 AA-AAAAAATATA-TTA
*
151153 AAAAAAATTATATTA
1 AAAAAAAATATATTA
151168 TTATTTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 2 0.07
15 10 0.36
16 11 0.39
17 5 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAAAAATATATTA
Found at i:151694 original size:16 final size:16
Alignment explanation
Indices: 151672--151711 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
151662 ATAGTAAAAA
151672 TATAATTTTAT-TTTT
1 TATAATTTTATATTTT
151687 TAATAA-TTTATATTTT
1 T-ATAATTTTATATTTT
151703 TATAATTTT
1 TATAATTTT
151712 TAAAAAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATAATTTTATATTTT
Found at i:152431 original size:48 final size:48
Alignment explanation
Indices: 152359--152766 Score: 406
Period size: 48 Copynumber: 8.4 Consensus size: 48
152349 AGTGTCCAAG
* **
152359 GGTTTGACTATGGCATTGGGCAGTCTGCCCATGGGTGTGGTGGGTTCC
1 GGTTTGGCTATGGCATTGAACAGTCTGCCCATGGGTGTGGTGGGTTCC
* * * * **
152407 AGTTTGGCTATGACAGTGAGCAGTCTGCCCATGGGTGTGGTGACTTCC
1 GGTTTGGCTATGGCATTGAACAGTCTGCCCATGGGTGTGGTGGGTTCC
* * *
152455 GGTTTGACTATGGCATTTG-GCAGTCTGCCCATGAGTGTGGTGGGTTCC
1 GGTTTGGCTATGGCA-TTGAACAGTCTGCCCATGGGTGTGGTGGGTTCC
* * * * *
152503 CGTTTGGCTATGGCTTTTG-GCAGTTTGCCCATGGGTGTGATGGGTTCC
1 GGTTTGGCTATGGC-ATTGAACAGTCTGCCCATGGGTGTGGTGGGTTCC
* * **
152551 GGTTTGGCTATGGCATTGAACAGTCTGCCCATAGGCGTGGACGGTTCC
1 GGTTTGGCTATGGCATTGAACAGTCTGCCCATGGGTGTGGTGGGTTCC
* * * *
152599 GGTTTGGCCATGGCATTGAACAGGAACAGTCCGCCCATGGGTGTGATGGCTTCC
1 GGTTTGGCTATGGCATT------GAACAGTCTGCCCATGGGTGTGGTGGGTTCC
* * * * * *
152653 AGTTTGGCTGTGGCATTGAACAGTCTGCCCATAGGCGTGGAGGGTTTC
1 GGTTTGGCTATGGCATTGAACAGTCTGCCCATGGGTGTGGTGGGTTCC
* * *
152701 GGTTTGGCCATGGCATTGAACAGTCTGCCCATGGGTGTGATGGCTTCC
1 GGTTTGGCTATGGCATTGAACAGTCTGCCCATGGGTGTGGTGGGTTCC
* *
152749 AGTTTGGCTGTGGCATTG
1 GGTTTGGCTATGGCATTG
152767 GGTAGTCCGG
Statistics
Matches: 292, Mismatches: 59, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
47 3 0.01
48 249 0.85
49 2 0.01
54 38 0.13
ACGTcount: A:0.14, C:0.20, G:0.35, T:0.30
Consensus pattern (48 bp):
GGTTTGGCTATGGCATTGAACAGTCTGCCCATGGGTGTGGTGGGTTCC
Found at i:158317 original size:2 final size:2
Alignment explanation
Indices: 158310--158336 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
158300 GTGAATATTA
158310 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
158337 ATAAATCAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:160601 original size:48 final size:48
Alignment explanation
Indices: 160483--160586 Score: 174
Period size: 48 Copynumber: 2.2 Consensus size: 48
160473 GTGCTTACCC
* *
160483 TGGCATTGAGCAGTCTGTCCATGGGTGTGGTGGGTTCCGGTTTGGCTA
1 TGGCATTGAGCAGTCTGCCCATGGGTGTGATGGGTTCCGGTTTGGCTA
160531 TGGCATTGAGCAGTCTGCCCATGGGTGTGATGGGTTCCGGTTTGGC-A
1 TGGCATTGAGCAGTCTGCCCATGGGTGTGATGGGTTCCGGTTTGGCTA
160578 GTGGCATTG
1 -TGGCATTG
160587 GTTAGTCTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
47 1 0.02
48 52 0.98
ACGTcount: A:0.12, C:0.17, G:0.39, T:0.32
Consensus pattern (48 bp):
TGGCATTGAGCAGTCTGCCCATGGGTGTGATGGGTTCCGGTTTGGCTA
Found at i:162155 original size:17 final size:17
Alignment explanation
Indices: 162133--162176 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
162123 TTAAAACATG
162133 TAAATTTAAATTATTTT
1 TAAATTTAAATTATTTT
162150 TAAATTT--ATTATTTT
1 TAAATTTAAATTATTTT
162165 TGAAATTATAAA
1 T-AAATT-TAAA
162177 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.39
16 5 0.22
17 8 0.35
19 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TAAATTTAAATTATTTT
Found at i:166146 original size:16 final size:17
Alignment explanation
Indices: 166127--166167 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
166117 TTTCTTTCTT
*
166127 TTTTCTTT-ATTTTCCA
1 TTTTCTTTCATTCTCCA
166143 TTTTCTTCTCATTCTCCA
1 TTTTCTT-TCATTCTCCA
166161 -TTTCTTT
1 TTTTCTTT
166168 TAACGTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTCTTTCATTCTCCA
Found at i:166256 original size:21 final size:21
Alignment explanation
Indices: 166213--166267 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
166203 CTAGTCCCTA
166213 TATTTTTAGTTTTTGATCAATT
1 TATTTTTA-TTTTTGATCAATT
**
166235 TAATTTTTATTTTT-ATTTATT
1 T-ATTTTTATTTTTGATCAATT
*
166256 TATTTTTCTTTT
1 TATTTTTATTTT
166268 CTTTTTCCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 10 0.34
21 6 0.21
22 6 0.21
23 7 0.24
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (21 bp):
TATTTTTATTTTTGATCAATT
Found at i:170621 original size:59 final size:59
Alignment explanation
Indices: 170553--170934 Score: 486
Period size: 59 Copynumber: 6.5 Consensus size: 59
170543 TTCAGACATC
* * * * * *
170553 TGGGAGTAAAATAGTAATTTTTGGATGTTTCGGGGTTAAAAATGGGATTTTTGGGAGTT
1 TGGGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
*
170612 TGGGGGT-AAATGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGGATTTTTTGG-AGTT
1 TGGGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGA-TTTTTGGAAGTT
** * * *
170670 TGGGGGTAAAATGGTAATTTTTAAAAGTTTTGGGGTCAAAAATGGGATTTTTGGGAGTT
1 TGGGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
* * * *
170729 TGGGGGTGAAATGGTAATTTTTAGAGGGTTCGAGGTCAAAAAT-GGATTTTTGGAAGTT
1 TGGGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
* * * *
170787 CGAGGGTAAAATTGTAATTTTTGGAAGGTTT-G-GGTCAAAAAAGGGATTTTTGGAAGTT
1 TGGGGGTAAAATGGTAATTTTTGGAA-GTTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
* * *
170845 CGGGGGTAAAATGGTAATTTTTGGAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGGT
1 TGGGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
*
170904 CGGGGGTAAAATGGTAATTTTTGGACAGTTT
1 TGGGGGTAAAATGGTAATTTTTGGA-AGTTT
170935 AGGGACCTCC
Statistics
Matches: 285, Mismatches: 30, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
57 12 0.04
58 127 0.45
59 142 0.50
60 4 0.01
ACGTcount: A:0.28, C:0.03, G:0.33, T:0.36
Consensus pattern (59 bp):
TGGGGGTAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
Found at i:170679 original size:117 final size:117
Alignment explanation
Indices: 170558--170934 Score: 537
Period size: 117 Copynumber: 3.2 Consensus size: 117
170548 ACATCTGGGA
* * *
170558 GTAAAATAGTAATTTTTGGATGTTTCGGGGTTAAAAATGGGATTTTTGGGAGTTTGGGGGT-AAA
1 GTAAAATGGTAATTTTTGGAAGTTT-GGGGTCAAAAATGGGATTTTTGGGAGTTTGGGGGTAAAA
* *
170622 TGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGGATTTTTTGG-AGTTTGGGG
65 TGGTAATTTTTAGAAGGTTCGAGGTCAAAAATGGGA-TTTTTGGAAGTTCGGGG
** *
170675 GTAAAATGGTAATTTTTAAAAGTTTTGGGGTCAAAAATGGGATTTTTGGGAGTTTGGGGGTGAAA
1 GTAAAATGGTAATTTTTGGAAG-TTTGGGGTCAAAAATGGGATTTTTGGGAGTTTGGGGGTAAAA
* *
170740 TGGTAATTTTTAGAGGGTTCGAGGTCAAAAAT-GGATTTTTGGAAGTTCGAGG
65 TGGTAATTTTTAGAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGG
* * * *
170792 GTAAAATTGTAATTTTTGGAAGGTTT-GGGTCAAAAAAGGGATTTTTGGAAGTTCGGGGGTAAAA
1 GTAAAATGGTAATTTTTGGAA-GTTTGGGGTCAAAAATGGGATTTTTGGGAGTTTGGGGGTAAAA
* *
170856 TGGTAATTTTTGGAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGGTCGGGG
65 TGGTAATTTTTAGAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGG
170909 GTAAAATGGTAATTTTTGGACAGTTT
1 GTAAAATGGTAATTTTTGGA-AGTTT
170935 AGGGACCTCC
Statistics
Matches: 233, Mismatches: 21, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
116 71 0.30
117 124 0.53
118 38 0.16
ACGTcount: A:0.28, C:0.03, G:0.32, T:0.36
Consensus pattern (117 bp):
GTAAAATGGTAATTTTTGGAAGTTTGGGGTCAAAAATGGGATTTTTGGGAGTTTGGGGGTAAAAT
GGTAATTTTTAGAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGG
Found at i:171856 original size:14 final size:14
Alignment explanation
Indices: 171824--171864 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
171814 TATTATTAAT
*
171824 ATTATTATTGATGTC
1 ATTATTATTG-TTTC
171839 ATTATTATTGTTTC
1 ATTATTATTGTTTC
*
171853 ATTAATATTGTT
1 ATTATTATTGTT
171865 AATGATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.59
Consensus pattern (14 bp):
ATTATTATTGTTTC
Found at i:172611 original size:6 final size:6
Alignment explanation
Indices: 172592--172667 Score: 63
Period size: 6 Copynumber: 13.3 Consensus size: 6
172582 AAATCCATTC
***
172592 AAATTT -AA-TT AAATTT AAATTT -AAGGC AAATTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
**
172637 AACA--T AAATTT AAATTT AAAAAT AAATTT AA
1 AA-ATTT AAATTT AAATTT AAATTT AAATTT AA
172668 CCCAATTTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
4 3 0.06
5 9 0.17
6 41 0.76
7 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (6 bp):
AAATTT
Found at i:172629 original size:23 final size:23
Alignment explanation
Indices: 172600--172656 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
172590 TCAAATTTAA
**
172600 TTAAATTTAAATTTAAGGCAAAT
1 TTAAATTTAAATTTAACACAAAT
*
172623 TTAAATTTAAATTTAACATAAAT
1 TTAAATTTAAATTTAACACAAAT
172646 TTAAATTTAAA
1 TTAAATTTAAA
172657 AATAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
TTAAATTTAAATTTAACACAAAT
Found at i:172644 original size:17 final size:18
Alignment explanation
Indices: 172601--172667 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 18
172591 CAAATTTAAT
172601 TAAATTTAAATTTAAGGCAAA
1 TAAATTTAAATTTAA---AAA
*
172622 TTTAAATTTAAATTT-AACA
1 --TAAATTTAAATTTAAAAA
172641 TAAATTTAAATTTAAAAA
1 TAAATTTAAATTTAAAAA
172659 TAAATTTAA
1 TAAATTTAA
172668 CCCAATTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 13 0.32
18 12 0.29
19 2 0.05
22 1 0.02
23 13 0.32
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
TAAATTTAAATTTAAAAA
Found at i:173772 original size:30 final size:30
Alignment explanation
Indices: 173738--173802 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
173728 TGACTTCCAA
* *
173738 TTTTTATTTCGTACTATATCTAACTTTTAT
1 TTTTTAATTCATACTATATCTAACTTTTAT
*
173768 TTTTTAATTCATATTATATCTAACTTTTAT
1 TTTTTAATTCATACTATATCTAACTTTTAT
173798 TTTTT
1 TTTTT
173803 GTTTTTGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.63
Consensus pattern (30 bp):
TTTTTAATTCATACTATATCTAACTTTTAT
Found at i:173921 original size:9 final size:9
Alignment explanation
Indices: 173905--173948 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
173895 GTTTTTAAAT
173905 TGTTATGTA
1 TGTTATGTA
* *
173914 TATTATGTT
1 TGTTATGTA
173923 TGTTATGTA
1 TGTTATGTA
173932 CTGTTATGTA
1 -TGTTATGTA
173942 TG-TATGT
1 TGTTATGT
173949 TATGGTCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 5 0.17
9 16 0.53
10 9 0.30
ACGTcount: A:0.20, C:0.02, G:0.20, T:0.57
Consensus pattern (9 bp):
TGTTATGTA
Found at i:173936 original size:14 final size:13
Alignment explanation
Indices: 173905--173952 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
173895 GTTTTTAAAT
*
173905 TGTTATGTATATTA
1 TGTTATGTAT-GTA
173919 TGTT-TGTTATGTA
1 TGTTATG-TATGTA
173932 CTGTTATGTATGTA
1 -TGTTATGTATGTA
173946 TGTTATG
1 TGTTATG
173953 GTCCATACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 11 0.37
14 17 0.57
15 2 0.07
ACGTcount: A:0.21, C:0.02, G:0.21, T:0.56
Consensus pattern (13 bp):
TGTTATGTATGTA
Found at i:175127 original size:16 final size:16
Alignment explanation
Indices: 175106--175136 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
175096 CAAATAAAGC
175106 AAATAAACAAAAAATA
1 AAATAAACAAAAAATA
*
175122 AAATAATCAAAAAAT
1 AAATAAACAAAAAAT
175137 CCTTTATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (16 bp):
AAATAAACAAAAAATA
Found at i:175611 original size:21 final size:21
Alignment explanation
Indices: 175585--175627 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
175575 CACATAAATG
*
175585 TATATAGTATTTTATC-TATTA
1 TATATA-TATTATATCATATTA
175606 TATATATATTATATCATATTA
1 TATATATATTATATCATATTA
175627 T
1 T
175628 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (21 bp):
TATATATATTATATCATATTA
Found at i:176805 original size:15 final size:15
Alignment explanation
Indices: 176785--176813 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
176775 TTTTTAAAAA
176785 AATTAAATTCTTTTG
1 AATTAAATTCTTTTG
176800 AATTAAATTCTTTT
1 AATTAAATTCTTTT
176814 TATTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (15 bp):
AATTAAATTCTTTTG
Found at i:177623 original size:67 final size:67
Alignment explanation
Indices: 177490--177624 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 67
177480 CTCTATTTCA
* * *
177490 ATTTAAAAATAAAATTCGGGACTTTTTCAAAAAAAAATATTTCGACAGCTTTACAACTCTACTAG
1 ATTTAAAAATAAAAGTCGGGACTTTTTCAAAAAAAAATATTTCGACAGCTTGACAACTCCACTAG
177555 GG
66 GG
* ** * * *
177557 ATTTTAAAATAAAAGTCGGGACTTTTTTTAAAAAAAATGTTTCGACAGCTTGACGACTCCATTAG
1 ATTTAAAAATAAAAGTCGGGACTTTTTCAAAAAAAAATATTTCGACAGCTTGACAACTCCACTAG
177622 GG
66 GG
177624 A
1 A
177625 CCAATAAGAG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (67 bp):
ATTTAAAAATAAAAGTCGGGACTTTTTCAAAAAAAAATATTTCGACAGCTTGACAACTCCACTAG
GG
Found at i:178435 original size:16 final size:16
Alignment explanation
Indices: 178416--178458 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 16
178406 AATTTTTTCT
178416 TCAAATTTTTTTGAAA
1 TCAAATTTTTTTGAAA
178432 TCAAAAGTTTTTTTTTGAAA
1 TC-AAA---TTTTTTTGAAA
178452 TCAAATT
1 TCAAATT
178459 AAAACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
16 4 0.17
17 3 0.13
19 3 0.13
20 13 0.57
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (16 bp):
TCAAATTTTTTTGAAA
Found at i:178590 original size:23 final size:25
Alignment explanation
Indices: 178564--178610 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
178554 TTAAAATCAC
178564 AAAAAAC-AAATTTT-TATTTTTTA
1 AAAAAACTAAATTTTCTATTTTTTA
* *
178587 AAAAATCTAAATTTTCTTTTTTTT
1 AAAAAACTAAATTTTCTATTTTTT
178611 TAATGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (25 bp):
AAAAAACTAAATTTTCTATTTTTTA
Found at i:178681 original size:33 final size:33
Alignment explanation
Indices: 178634--178702 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
178624 TACTTTACTT
178634 AAAAATCAAAACTTTTATTTCGAAATAGTTAAA
1 AAAAATCAAAACTTTTATTTCGAAATAGTTAAA
* * * *
178667 AAAAATTAAGACTTTTATTTTGAAATGGTTAAA
1 AAAAATCAAAACTTTTATTTCGAAATAGTTAAA
178700 AAA
1 AAA
178703 TTAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.35
Consensus pattern (33 bp):
AAAAATCAAAACTTTTATTTCGAAATAGTTAAA
Found at i:178701 original size:163 final size:162
Alignment explanation
Indices: 178532--178913 Score: 463
Period size: 163 Copynumber: 2.4 Consensus size: 162
178522 AAAACTTTGT
*
178532 TTAAAAATTTAATTTTTTTCCTTTAAAATCAC-AAAAAACAAATTTTTATTTTTTAAAAAATCTA
1 TTAAAAAATTAA-TTTTTT-CTTTAAAATCACTAAAAAACAAATTTTTATTTTTT-AAAAATCTA
* * *
178596 AA-TTTTCTTTT-TTTTTAATGAAAATTACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAA
63 AACTTTT-TTTTATTATTAATGAAAATCACTACTTTACTTAAAAAGCAAAACTTTTATTTCGAAA
178659 TAGTTAAAAAAAATTAAGACTTTTATTTTGAAATGG
127 TAGTTAAAAAAAATTAAGACTTTTATTTTGAAATGG
* * **
178695 TTAAAAAATTAATTTTTTCTTTAAAATGACTAAAAAACAGATTTTTATTTTTTTTAAATCTAAAC
1 TTAAAAAATTAATTTTTTCTTTAAAATCACTAAAAAACAAATTTTTATTTTTTAAAAATCTAAAC
*
178760 TTTTTTTTAATTATTATTGAAAATCACTACTTTACTTAAAAAGCAAAACTTTTATTTCGAAATAG
66 TTTTTTTT-ATTATTAATGAAAATCACTACTTTACTTAAAAAGCAAAACTTTTATTTCGAAATAG
*
178825 TT-AAAAAAATCAA-A-----ATTTT---AT--
130 TTAAAAAAAATTAAGACTTTTATTTTGAAATGG
* * * * *
178846 TTAAAAATTTAAACTTTTTCTTTAAAATGACTAAAAAACAGATTATTA-TTTTTAAAAATCTAAA
1 TTAAAAAATT-AATTTTTTCTTTAAAATCACTAAAAAACAAATTTTTATTTTTTAAAAATCTAAA
178910 CTTT
65 CTTT
178914 CTNNNNNNNN
Statistics
Matches: 199, Mismatches: 15, Indels: 22
0.84 0.06 0.09
Matches are distributed among these distances:
151 27 0.14
152 35 0.18
153 2 0.01
156 5 0.03
161 25 0.13
162 41 0.21
163 64 0.32
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (162 bp):
TTAAAAAATTAATTTTTTCTTTAAAATCACTAAAAAACAAATTTTTATTTTTTAAAAATCTAAAC
TTTTTTTTATTATTAATGAAAATCACTACTTTACTTAAAAAGCAAAACTTTTATTTCGAAATAGT
TAAAAAAAATTAAGACTTTTATTTTGAAATGG
Found at i:178881 original size:152 final size:152
Alignment explanation
Indices: 178464--178913 Score: 561
Period size: 152 Copynumber: 2.9 Consensus size: 152
178454 AAATTAAAAC
* * * *
178464 AAAATCTCTACTTTACTTCAAAATTAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAATTT
* * * *
178529 TGTTTAAAAATTTAATTTTTTTCCTTTAAAATCAC-AAAAAACAAATTTTTATTTTTTAAAAAAT
66 TATTTAAAAATTTAAATTTTTT-CTTTAAAATGACTAAAAAACAGATTTTTATTTTTT-AAAAAT
*
178593 CTAAA-TTTTCTTTTTTTTTAATG
129 CTAAACTTTTCTTTTTTATTAATG
* *
178616 AAAATTACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATTAAGACTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAA-A---
*
178681 TTATTTTGAAATGGTTAAAAAATT-AATTTTTTCTTTAAAATGACTAAAAAACAGATTTTTATTT
62 --ATTTT---AT--TTAAAAATTTAAATTTTTTCTTTAAAATGACTAAAAAACAGATTTTTATTT
** *
178745 TTTTTAAATCTAAACTTTT-TTTTAATTATTATTG
120 TTTAAAAATCTAAACTTTTCTTTT--TTATTAATG
*
178779 AAAATCACTACTTTACTTAAAAAGCAAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAATTT
1 AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAATTT
* *
178843 TATTTAAAAATTTAAACTTTTTCTTTAAAATGACTAAAAAACAGATTATTA-TTTTTAAAAATCT
66 TATTTAAAAATTTAAATTTTTTCTTTAAAATGACTAAAAAACAGATTTTTATTTTTTAAAAATCT
178907 AAACTTT
131 AAACTTT
178914 CTNNNNNNNN
Statistics
Matches: 259, Mismatches: 23, Indels: 33
0.82 0.07 0.10
Matches are distributed among these distances:
151 27 0.10
152 90 0.35
153 3 0.01
156 5 0.02
158 4 0.02
161 26 0.10
162 42 0.16
163 62 0.24
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (152 bp):
AAAATCACTACTTTACTTAAAAATCAAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAATTT
TATTTAAAAATTTAAATTTTTTCTTTAAAATGACTAAAAAACAGATTTTTATTTTTTAAAAATCT
AAACTTTTCTTTTTTATTAATG
Found at i:179056 original size:32 final size:29
Alignment explanation
Indices: 179017--179081 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 29
179007 TATTTTACTT
*
179017 AAAAAATCTAAACTTTTATTTCAAAATAGTTA
1 AAAAAATCAAAAC-TTTATTT-AAAA-AGTTA
*
179049 AAAAAATCAAAACTTTATTTAAAAATTTA
1 AAAAAATCAAAACTTTATTTAAAAAGTTA
179078 AAAA
1 AAAA
179082 TTTTCTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 8 0.26
30 4 0.13
31 7 0.23
32 12 0.39
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAAAATCAAAACTTTATTTAAAAAGTTA
Found at i:179640 original size:3 final size:3
Alignment explanation
Indices: 179632--179656 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
179622 CATGAAACCT
179632 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
179657 TTGGACAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:180179 original size:42 final size:43
Alignment explanation
Indices: 180072--180416 Score: 384
Period size: 42 Copynumber: 8.2 Consensus size: 43
180062 CCTTCATATT
* * * ** *
180072 CAATGAAGAAATAAATGGACCTCTACGCCT-AAACCTCTAAATA
1 CAATGAA-AAGTAAATGGACCTCCACACCTGAGGCCTCTAAATG
180115 CAA-GAAAAAAGTAAATGGACCTCCACACCTGA-GCCTCTAAATG
1 CAATG--AAAAGTAAATGGACCTCCACACCTGAGGCCTCTAAATG
*
180158 CAATAAAAAGTAAATGGACCTCCACACCT-AGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGAGGCCTCTAAATG
* * * * *
180200 CGATGAAAAGTAAATGGGCCTCCACA-CTTAGGTCTCTAAATA
1 CAATGAAAAGTAAATGGACCTCCACACCTGAGGCCTCTAAATG
* * * * * *
180242 CAATGAAGAGTAAATGGACCTCTACA-TTTAGGCCTTTAAAAG
1 CAATGAAAAGTAAATGGACCTCCACACCTGAGGCCTCTAAATG
* *
180284 CAATGAAAAGTAAATGGGCCTCCACACTTG-GGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGAGGCCTCTAAATG
* *
180326 TAATGAAAAGTAAATGGACCTTCACACCTG-GGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGAGGCCTCTAAATG
*
180368 CAATGAAAAGTAAATGGACCTCCATACCT-AGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGAGGCCTCTAAATG
*
180410 TAATGAA
1 CAATGAA
180417 TGCTTTCCTT
Statistics
Matches: 260, Mismatches: 34, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.01
42 218 0.84
43 36 0.14
44 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (43 bp):
CAATGAAAAGTAAATGGACCTCCACACCTGAGGCCTCTAAATG
Found at i:180811 original size:9 final size:9
Alignment explanation
Indices: 180791--180823 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
180781 GCTCTCTCTA
180791 TTTTTTCTTC
1 TTTTTTC-TC
180801 TTTTTTCTC
1 TTTTTTCTC
180810 -TTTTTCTC
1 TTTTTTCTC
180818 TTTTTT
1 TTTTTT
180824 TTTTGTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 7 0.32
10 7 0.32
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:190792 original size:17 final size:18
Alignment explanation
Indices: 190772--190821 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
190762 AACTAAGTTA
190772 ACAAA-AAAAATGCAATG
1 ACAAATAAAAATGCAATG
190789 ACAAAATAAAAATGCAATG
1 AC-AAATAAAAATGCAATG
*
190808 A-AAATAAAGATGCA
1 ACAAATAAAAATGCA
190822 TGCAAACTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 14 0.47
18 3 0.10
19 13 0.43
ACGTcount: A:0.64, C:0.10, G:0.12, T:0.14
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:201049 original size:24 final size:24
Alignment explanation
Indices: 201016--201066 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
201006 ATATACTGGT
*
201016 TAACCTTTTTAGGCTCGTCAA-AGC
1 TAACCCTTTTAGGCTCGT-AAGAGC
*
201040 TAACCCTTTTGGGCTCGTAAGAGC
1 TAACCCTTTTAGGCTCGTAAGAGC
201064 TAA
1 TAA
201067 TTCTGTCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (24 bp):
TAACCCTTTTAGGCTCGTAAGAGC
Found at i:207288 original size:146 final size:144
Alignment explanation
Indices: 207092--207632 Score: 651
Period size: 146 Copynumber: 3.7 Consensus size: 144
207082 TTAATTAAAA
* * * * *
207092 AAAATCTCTACTTTACTTCAAAA-TCAAAACTTTTATTTCAAAATAATTAAAAAAAAT-AAAACT
1 AAAATCACTAATTTACTTAAAAATTCAAAA-TTTTATTTCGAAATAGTTAAAAAAAATAAAAACT
* *
207155 TTGTTTAAAAATTTAAATTTTTTCTTTAAAATCATTAAACAACAGATTTTTATTTTTTAAAAAAT
65 TTGTTTAAAAATTTAAA-CTTTTCTTTAAAATGATTAAA-AACAGATTTTTATTTTTT-AAAAAT
207220 CTAAACTTTTTTTTAATG
127 CTAAACTTTTTTTTAATG
* * * * * * * *
207238 AAAATCACTAATTTACTTAAAATTTTAAATTTTTATTTTGAAATAGTTAAAAAGAATCAAGATTT
1 AAAATCACTAATTTACTTAAAAATTCAAAATTTTATTTCGAAATAGTTAAAAAAAATAAAAACTT
* * * *
207303 TATTTAAAAAATATTTAAACTTTTCTTTAAAATGACTAAAAACATATTTTTATTTTTTTAAAATC
66 TGTTT--AAAA-ATTTAAACTTTTCTTTAAAATGATTAAAAACAGATTTTTATTTTTTAAAAATC
207368 TAAACTTTTTTTTTAATG
128 TAAAC-TTTTTTTTAATG
* * *
207386 AAAATCACTTATTTATTTAAAAATTCAAAATTTTATTTCGAAATAGTTAAAAAAAATAAAAATTT
1 AAAATCACTAATTTACTTAAAAATTCAAAATTTTATTTCGAAATAGTTAAAAAAAATAAAAACTT
* * *
207451 TGTTCAAAAATTTAAACTTTTTCTTTAAAATGACTCAAAAATAGATTTTTA-TTTTTAAAAATCT
66 TGTTTAAAAATTTAAAC-TTTTCTTTAAAATGA-TTAAAAACAGATTTTTATTTTTTAAAAATCT
* ** *
207515 AAATTTTTTTTTTTTTA
129 AAA-CTTTTTTTTAATG
**
207532 AAAATCACTGTTTTACTTAAAAATTCAAACA-TTTATTTCGAAATAGTT-AAAAAAATAAAAACT
1 AAAATCACTAATTTACTTAAAAATTCAAA-ATTTTATTTCGAAATAGTTAAAAAAAATAAAAACT
*
207595 TTGTTTAAAAATTTAAACTTTTCTTTAAAATGACTAAA
65 TTGTTTAAAAATTTAAACTTTTCTTTAAAATGATTAAA
207633 TTTTTTTTTT
Statistics
Matches: 340, Mismatches: 45, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
143 3 0.01
144 15 0.04
145 39 0.11
146 128 0.38
147 38 0.11
148 88 0.26
149 22 0.06
150 7 0.02
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (144 bp):
AAAATCACTAATTTACTTAAAAATTCAAAATTTTATTTCGAAATAGTTAAAAAAAATAAAAACTT
TGTTTAAAAATTTAAACTTTTCTTTAAAATGATTAAAAACAGATTTTTATTTTTTAAAAATCTAA
ACTTTTTTTTAATG
Found at i:207761 original size:28 final size:28
Alignment explanation
Indices: 207721--207786 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
207711 TATCATGTAC
207721 TGTTATGTATGTATGTCATGGTCCATAT
1 TGTTATGTATGTATGTCATGGTCCATAT
207749 TGTTATGTATGTATGTCATGGTCCATAT
1 TGTTATGTATGTATGTCATGGTCCATAT
207777 TGTTATGTAT
1 TGTTATGTAT
207787 ATTATGTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.21, C:0.09, G:0.21, T:0.48
Consensus pattern (28 bp):
TGTTATGTATGTATGTCATGGTCCATAT
Found at i:207827 original size:9 final size:9
Alignment explanation
Indices: 207777--207844 Score: 63
Period size: 9 Copynumber: 7.9 Consensus size: 9
207767 TGGTCCATAT
207777 TGTTATGTA
1 TGTTATGTA
*
207786 TATTATGTA
1 TGTTATGTA
*
207795 TGTTACGTA
1 TGTTATGTA
207804 CTG---TG-A
1 -TGTTATGTA
*
207810 TGCTATGTA
1 TGTTATGTA
207819 TGTTATGTA
1 TGTTATGTA
*
207828 TATTATGTA
1 TGTTATGTA
207837 TGTTATGT
1 TGTTATGT
207845 TTACTGTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
5 2 0.04
6 1 0.02
7 1 0.02
8 2 0.04
9 39 0.83
10 2 0.04
ACGTcount: A:0.24, C:0.04, G:0.21, T:0.51
Consensus pattern (9 bp):
TGTTATGTA
Found at i:207836 original size:18 final size:18
Alignment explanation
Indices: 207777--207844 Score: 73
Period size: 18 Copynumber: 3.4 Consensus size: 18
207767 TGGTCCATAT
207777 TGTTATGTATATTATGTA
1 TGTTATGTATATTATGTA
*
207795 TGTTACGTACTGTGATGCTATGTA
1 TGTTATGTA---T-AT--TATGTA
207819 TGTTATGTATATTATGTA
1 TGTTATGTATATTATGTA
207837 TGTTATGT
1 TGTTATGT
207845 TTACTGTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
18 22 0.52
20 2 0.05
21 2 0.05
22 2 0.05
24 14 0.33
ACGTcount: A:0.24, C:0.04, G:0.21, T:0.51
Consensus pattern (18 bp):
TGTTATGTATATTATGTA
Found at i:207987 original size:36 final size:33
Alignment explanation
Indices: 207929--208003 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 33
207919 CTTGGGATAA
* *
207929 ATGTGATGGTCCATACTGTTATGTATGTATGTATGT
1 ATGTTATGGTCCATACTATTATGTA--TAT-TATGT
*
207965 ATGTTATGGTCCATATTATTATGTATATTATGT
1 ATGTTATGGTCCATACTATTATGTATATTATGT
207998 ATGTTA
1 ATGTTA
208004 CGTACTGTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 11 0.31
34 3 0.08
36 22 0.61
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (33 bp):
ATGTTATGGTCCATACTATTATGTATATTATGT
Found at i:207992 original size:12 final size:13
Alignment explanation
Indices: 207977--208043 Score: 50
Period size: 15 Copynumber: 5.0 Consensus size: 13
207967 GTTATGGTCC
207977 ATATTAT-TATGT
1 ATATTATGTATGT
207989 ATATTATGTATGT
1 ATATTATGTATGT
*
208002 -TACGTACTGTGATG-
1 ATA-TTA-TGT-ATGT
*
208016 ATACGTATGTTATGT
1 ATA-TTATG-TATGT
208031 ATATTATGTATGT
1 ATATTATGTATGT
208044 TATGTTTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
12 9 0.20
13 12 0.26
14 12 0.26
15 13 0.28
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.49
Consensus pattern (13 bp):
ATATTATGTATGT
Found at i:208043 original size:18 final size:18
Alignment explanation
Indices: 207983--208048 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 18
207973 GTCCATATTA
207983 TTATGTATATTATGTATG
1 TTATGTATATTATGTATG
* *
208001 TTACGTACTGTGATGATACGTATG
1 TTATGTA---T-AT--TATGTATG
208025 TTATGTATATTATGTATG
1 TTATGTATATTATGTATG
208043 TTATGT
1 TTATGT
208049 TTACTGCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
18 19 0.50
20 2 0.05
21 2 0.05
22 2 0.05
24 13 0.34
ACGTcount: A:0.26, C:0.05, G:0.20, T:0.50
Consensus pattern (18 bp):
TTATGTATATTATGTATG
Found at i:208080 original size:204 final size:203
Alignment explanation
Indices: 207752--208146 Score: 709
Period size: 204 Copynumber: 1.9 Consensus size: 203
207742 TCCATATTGT
* * *
207752 TATGTATGTATGTCATGGTCCATATTGTTATGTATATTATGTATGTTACGTACTGTGATGCTATG
1 TATGTATGTATGTCATGGTCCATATTATTATGTATATTATGTATGTTACGTACTGTGATGATACG
* *
207817 TATGTTATGTATATTATGTATGTTATGTTTACTGTTATGTTTGCATGATTGTTTATTAATGTTTA
66 TATGTTATGTATATTATGTATGTTATGTTTACTGCTATGTTTGCATGACTGTTTATTAATGTTTA
*
207882 TGTATGTATATTATTCATTTGCAGTTTGCTATAATGTCTTGGGATAAATGTGATGGTCCATACTG
131 TGTATGTATATTATTCATTTGCAGTTTACTATAATGTCTTGGGATAAATGTG-TGGTCCATACTG
207947 TTATGTATG
195 TTATGTATG
*
207956 TATGTATGTATGTTATGGTCCATATTATTATGTATATTATGTATGTTACGTACTGTGATGATACG
1 TATGTATGTATGTCATGGTCCATATTATTATGTATATTATGTATGTTACGTACTGTGATGATACG
208021 TATGTTATGTATATTATGTATGTTATGTTTACTGCTATGTTTGCATGACTGTTTATTAATGTTTA
66 TATGTTATGTATATTATGTATGTTATGTTTACTGCTATGTTTGCATGACTGTTTATTAATGTTTA
*
208086 TGTATGTATATTATTCATTTGCAGTTTACTATAATGTCTTGGGATAAATGTGTGGTGCATA
131 TGTATGTATATTATTCATTTGCAGTTTACTATAATGTCTTGGGATAAATGTGTGGTCCATA
208147 TGCATCTGGG
Statistics
Matches: 183, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
203 8 0.04
204 175 0.96
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (203 bp):
TATGTATGTATGTCATGGTCCATATTATTATGTATATTATGTATGTTACGTACTGTGATGATACG
TATGTTATGTATATTATGTATGTTATGTTTACTGCTATGTTTGCATGACTGTTTATTAATGTTTA
TGTATGTATATTATTCATTTGCAGTTTACTATAATGTCTTGGGATAAATGTGTGGTCCATACTGT
TATGTATG
Found at i:211399 original size:21 final size:21
Alignment explanation
Indices: 211360--211399 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
211350 TGGACATGCC
***
211360 ACCACATAATTGTTGATAACA
1 ACCACATAATTGCAAATAACA
211381 ACCACATAATTGCAAATAA
1 ACCACATAATTGCAAATAA
211400 ACTGCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.25
Consensus pattern (21 bp):
ACCACATAATTGCAAATAACA
Found at i:226235 original size:17 final size:17
Alignment explanation
Indices: 226213--226246 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
226203 TTGTTAGTAA
*
226213 GCATTGTCGTTGCATTT
1 GCATTGTCATTGCATTT
226230 GCATTGTCATTGCATTT
1 GCATTGTCATTGCATTT
226247 AAATGTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.21, T:0.47
Consensus pattern (17 bp):
GCATTGTCATTGCATTT
Found at i:227328 original size:55 final size:55
Alignment explanation
Indices: 227262--227410 Score: 190
Period size: 55 Copynumber: 2.7 Consensus size: 55
227252 AACTAATGTT
* * * *
227262 GCTGCATGAGCATATCCAGAATTGCGCCCAGAATTATTGTCGCATCTGATAGCTC
1 GCTGCATGAGCATATCCAAAATTACGCCCAAAATTATCGTCGCATCTGATAGCTC
* * * *
227317 GCTGCATGAGCATATCCAAAATTACGCCCAAAATTATCGTCGTATCTGAAAACTT
1 GCTGCATGAGCATATCCAAAATTACGCCCAAAATTATCGTCGCATCTGATAGCTC
* * * *
227372 ACTACATGAACATATCCAAAATTAAGCCCAAAATTATCG
1 GCTGCATGAGCATATCCAAAATTACGCCCAAAATTATCG
227411 CCATATCTGA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 82 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.26
Consensus pattern (55 bp):
GCTGCATGAGCATATCCAAAATTACGCCCAAAATTATCGTCGCATCTGATAGCTC
Found at i:227418 original size:55 final size:55
Alignment explanation
Indices: 227321--227425 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
227311 TAGCTCGCTG
* * * *
227321 CATGAGCATATCCAAAATTACGCCCAAAATTATCGTCGTATCTGAAAACTTACTA
1 CATGAACATATCCAAAATTAAGCCCAAAATTATCGCCATATCTGAAAACTTACTA
*
227376 CATGAACATATCCAAAATTAAGCCCAAAATTATCGCCATATCTGACAACT
1 CATGAACATATCCAAAATTAAGCCCAAAATTATCGCCATATCTGAAAACT
227426 ATCCGGATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.26
Consensus pattern (55 bp):
CATGAACATATCCAAAATTAAGCCCAAAATTATCGCCATATCTGAAAACTTACTA
Found at i:232831 original size:50 final size:50
Alignment explanation
Indices: 232741--232835 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
232731 ATATTTGTCA
*
232741 TTTCAAATTCTTCTATCATAACTTTTTTCTTAAAGCATTGAACATAGTGT
1 TTTCAAATTCTTCTATCATAACTTTTTTCTAAAAGCATTGAACATAGTGT
* **
232791 TTTCAAATTCTT-TGGTCATAACATTTTTT-TAAAATTATTGAACAT
1 TTTCAAATTCTTCT-ATCATAAC-TTTTTTCTAAAAGCATTGAACAT
232836 GCTTAAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
49 1 0.03
50 32 0.82
51 6 0.15
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (50 bp):
TTTCAAATTCTTCTATCATAACTTTTTTCTAAAAGCATTGAACATAGTGT
Done.