Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 341 of 345
Found at i:101707301 original size:46 final size:46
Alignment explanation
Indices: 101707126--101707301 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
101707116 TGTAACCCGC
* * *
101707126 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
101707172 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
101707222 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
101707265 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
101707302 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:101712561 original size:24 final size:22
Alignment explanation
Indices: 101712532--101712617 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 22
101712522 TATTTGGTAA
101712532 TAATAATATAAAATAATAATATG
1 TAATAATA-AAAATAATAATATG
*
101712555 T-A-CATAAAAATACATATATATG
1 TAATAATAAAAATA-ATA-ATATG
* *
101712577 TATATATATATATAATAA-AGTATG
1 TA-ATA-ATA-AAAATAATAATATG
*
101712601 TAATAATAATAATAATA
1 TAATAATAAAAATAATA
101712618 TCTACAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
20 6 0.12
21 13 0.25
22 11 0.22
23 4 0.08
24 7 0.14
25 1 0.02
26 4 0.08
27 5 0.10
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
TAATAATAAAAATAATAATATG
Found at i:101713497 original size:12 final size:11
Alignment explanation
Indices: 101713474--101713508 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
101713464 AGAAAAAAAA
101713474 GAAGAGAGAGG
1 GAAGAGAGAGG
101713485 GAAGAGAGAAGG
1 GAAGAGAG-AGG
101713497 GAAGAGA-AGG
1 GAAGAGAGAGG
101713507 GA
1 GA
101713509 GGGGAAGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.22
11 8 0.35
12 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:101713629 original size:16 final size:16
Alignment explanation
Indices: 101713605--101713647 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
101713595 AAAAAAAATC
* *
101713605 TTTTTTTTTTTTTTTA
1 TTTTATTTTTTTTATA
*
101713621 TTTTATTTTATTTATA
1 TTTTATTTTTTTTATA
101713637 TTTTATGTTTT
1 TTTTAT-TTTT
101713648 AATATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTATTTTTTTTATA
Found at i:101713811 original size:14 final size:15
Alignment explanation
Indices: 101713776--101713811 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
101713766 TTTTTGGTTT
101713776 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
101713791 TTTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
101713805 TTTTTTT
1 TTTTTTT
101713812 TTGGTGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:101713812 original size:15 final size:16
Alignment explanation
Indices: 101713775--101713812 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
101713765 TTTTTTGGTT
101713775 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
101713791 -TTTTTTT-CTGGAAA
1 TTTTTTTTGCTGGAAA
101713805 TTTTTTTT
1 TTTTTTTT
101713813 TGGTGCTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:101713826 original size:33 final size:32
Alignment explanation
Indices: 101713773--101713846 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
101713763 TTTTTTTTGG
*
101713773 TTTTTTTTT-TGCTGGAAATTTTTTTCTGGAAA
1 TTTTTTTTTGTGCTGGAAATTTTTTGCTGG-AA
*
101713805 TTTTTTTTTGGTGCTGG-AATTTTTTGCTGGAT
1 TTTTTTTTT-GTGCTGGAAATTTTTTGCTGGAA
101713837 TTTTTTTTTG
1 TTTTTTTTTG
101713847 CTTCCCCTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
31 1 0.03
32 19 0.50
33 12 0.32
34 6 0.16
ACGTcount: A:0.12, C:0.05, G:0.19, T:0.64
Consensus pattern (32 bp):
TTTTTTTTTGTGCTGGAAATTTTTTGCTGGAA
Found at i:101713841 original size:14 final size:15
Alignment explanation
Indices: 101713775--101713843 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 15
101713765 TTTTTTGGTT
101713775 TTTTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
*
101713790 ATTTTTTT-CTGGAAA
1 TTTTTTTTGCTGG-AA
101713805 TTTTTTTTTGGTGCTGGAA
1 --TTTTTTT--TGCTGGAA
101713824 --TTTTTTGCTGG-A
1 TTTTTTTTGCTGGAA
101713836 TTTTTTTT
1 TTTTTTTT
101713844 TTGCTTCCCC
Statistics
Matches: 44, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
12 1 0.02
13 6 0.14
14 10 0.23
15 14 0.32
17 6 0.14
19 3 0.07
20 4 0.09
ACGTcount: A:0.13, C:0.06, G:0.19, T:0.62
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:101715352 original size:54 final size:52
Alignment explanation
Indices: 101715213--101715366 Score: 192
Period size: 54 Copynumber: 3.0 Consensus size: 52
101715203 CATATGACCT
** *
101715213 AAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG-AAA-AGCAA--A
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTA
*
101715261 AAGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAGACAGAAATTA
1 AAGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACAGAAATTA
*
101715314 ACAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGGAATT
1 A-AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATT
101715367 GGAAAGTAGA
Statistics
Matches: 91, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
47 1 0.01
48 34 0.37
49 2 0.02
50 1 0.01
51 4 0.04
53 2 0.02
54 43 0.47
55 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTA
Found at i:101715554 original size:140 final size:134
Alignment explanation
Indices: 101715402--101716075 Score: 886
Period size: 140 Copynumber: 4.8 Consensus size: 134
101715392 AGCGTGCCCC
*
101715402 GAGGCTCAACTCA-CC-TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTTAACGTGTCTT
1 GAGGCTCAACTCACCCATATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
* *
101715465 GAGGCTCAACTCACCTCTCACCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACC
65 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACC
*
101715530 TCAACGTGTTTT
123 TCAACGTGTCTT
101715542 GAGGCTCAACTCACCTCTCGCAATATGAGTT-ACTTTTGAAACATAAATTGAAATTACCTCAACG
1 GAGGCTCAACTCA---C-C-C-ATATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACG
* *
101715606 CGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCT
59 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCT
101715671 CAACGTGTCTT
124 CAACGTGTCTT
101715682 GAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACC
1 GAGGCTCAACTCA-----C-CCATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACC
*
101715747 TCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAA
53 TCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAA
101715812 TTACCTCAACGTGTCTT
118 TTACCTCAACGTGTCTT
*
101715829 GAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
1 GAGGCTCAACTCA---C-C-C-ATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
*
101715894 GTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGAAACATAAATTGAAATTACCTC
60 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTC
101715959 AACGTGTCTT
125 AACGTGTCTT
101715969 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
1 GAGGCTCAACTCA-C-C-C---ATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGT
101716034 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
60 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
101716076 CTGTCACTTG
Statistics
Matches: 491, Mismatches: 21, Indels: 44
0.88 0.04 0.08
Matches are distributed among these distances:
138 4 0.01
140 260 0.53
141 2 0.00
142 6 0.01
143 2 0.00
144 1 0.00
145 6 0.01
146 2 0.00
147 200 0.41
148 8 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (134 bp):
GAGGCTCAACTCACCCATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTG
TCTT
Found at i:101715555 original size:70 final size:66
Alignment explanation
Indices: 101715516--101716075 Score: 681
Period size: 70 Copynumber: 7.9 Consensus size: 66
101715506 CATAAATTGA
*
101715516 AAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTT-ACTTTTG
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGA-TTTTG
101715580 AAACAT
61 AAACAT
* *
101715586 AAATTGAAATTACCTCAACGCGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101715651 AACAT
62 AACAT
*
101715656 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101715721 AACATAAATT
62 AAC----A-T
*
101715731 GAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTT
101715796 GAAACAT
60 GAAACAT
*
101715803 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101715868 AACAT
62 AACAT
*
101715873 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101715938 AACAT
62 AACAT
*
101715943 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTTGA
101716008 AACAT
62 AACAT
101716013 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA---C-CGCAATATGAGTTGATTTT
101716076 CTGTCACTTG
Statistics
Matches: 467, Mismatches: 15, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
70 396 0.85
71 1 0.00
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
77 66 0.14
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (66 bp):
AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCGCAATATGAGTTGATTTTGAAACA
T
Found at i:101715708 original size:217 final size:217
Alignment explanation
Indices: 101715417--101716075 Score: 1190
Period size: 217 Copynumber: 3.1 Consensus size: 217
101715407 TCAACTCACC
*
101715417 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTTAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
*
101715482 TCACCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
65 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
*
101715547 TCAACTCACCTCTCGCAATATGAGTT-ACTTTTGAAACATAAATTGAAATTACCTCAACGCGTCT
130 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
101715611 TGAGGCTTAACTCACCTCTCGCAA
194 TGAGGCTTAACTCACCTCTCGCAA
101715635 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
101715700 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
101715765 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
131 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
101715830 AGGCTTAACTCACCTCTCGCAA
196 AGGCTTAACTCACCTCTCGCAA
101715852 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
101715917 CGCCATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
*
101715975 CAACTCACCTCTCGTAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
131 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
*
101716040 AGGCTCAACTCACCTCTCGCAA
196 AGGCTTAACTCACCTCTCGCAA
101716062 TATGAGTTGATTTT
1 TATGAGTTGATTTT
101716076 CTGTCACTTG
Statistics
Matches: 434, Mismatches: 6, Indels: 10
0.96 0.01 0.02
Matches are distributed among these distances:
210 130 0.30
212 1 0.00
213 1 0.00
217 291 0.67
218 11 0.03
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (217 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
AGGCTTAACTCACCTCTCGCAA
Found at i:101727521 original size:2 final size:2
Alignment explanation
Indices: 101727514--101727550 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
101727504 ATGTGCAAAA
*
101727514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101727551 AAATATACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:101727719 original size:2 final size:2
Alignment explanation
Indices: 101727714--101727768 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
101727704 AACTAATGGC
* * *
101727714 AT AT AT AC AT A- AT AT AT AT AT AT A- AT AC AC AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
101727753 AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT
101727769 TAGAAATGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:101727746 original size:22 final size:23
Alignment explanation
Indices: 101727714--101727765 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
101727704 AACTAATGGC
*
101727714 ATATATACATAATATATATATAT
1 ATATACACATAATATATATATAT
101727737 A-ATACACATAATATATATATAT
1 ATATACACATAATATATATATAT
101727759 ATATACA
1 ATATACA
101727766 TATTAGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATACACATAATATATATATAT
Found at i:101728313 original size:11 final size:11
Alignment explanation
Indices: 101728290--101728332 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
101728280 AAAAAAAGAA
101728290 AGAG-AGGGAAG
1 AGAGAAGGG-AG
101728301 AGAGAAGGGAG
1 AGAGAAGGGAG
101728312 AGAGAAGGGAG
1 AGAGAAGGGAG
* *
101728323 GGGGAAGGGA
1 AGAGAAGGGA
101728333 AATCCGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 25 0.86
12 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (11 bp):
AGAGAAGGGAG
Found at i:101728445 original size:16 final size:16
Alignment explanation
Indices: 101728421--101728463 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
101728411 AAAAAAAATC
* *
101728421 TTTTTTTTTTTTTTTA
1 TTTTATTTTTTTTATA
*
101728437 TTTTATTTTATTTATA
1 TTTTATTTTTTTTATA
101728453 TTTTATGTTTT
1 TTTTAT-TTTT
101728464 AATATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTATTTTTTTTATA
Found at i:101728608 original size:14 final size:14
Alignment explanation
Indices: 101728591--101728625 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
101728581 TTTTTGGTTT
101728591 TTTTTTTCTGGAAA
1 TTTTTTTCTGGAAA
101728605 TTTTTTTCTGGAAA
1 TTTTTTTCTGGAAA
101728619 TTTTTTT
1 TTTTTTT
101728626 TTGGTGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.66
Consensus pattern (14 bp):
TTTTTTTCTGGAAA
Found at i:101728640 original size:33 final size:33
Alignment explanation
Indices: 101728598--101728660 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
101728588 TTTTTTTTTT
*
101728598 CTGGAAATTTTTTTCTGGAAATTTTTTTTTGGTG
1 CTGGAAATTTTTTGCTGG-AATTTTTTTTTGGTG
*
101728632 CTGG-AATTTTTTGCTGGATTTTTTTTTTG
1 CTGGAAATTTTTTGCTGGAATTTTTTTTTG
101728661 CTTCCCCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 11 0.41
33 12 0.44
34 4 0.15
ACGTcount: A:0.14, C:0.06, G:0.21, T:0.59
Consensus pattern (33 bp):
CTGGAAATTTTTTGCTGGAATTTTTTTTTGGTG
Found at i:101729101 original size:35 final size:35
Alignment explanation
Indices: 101729061--101729131 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
101729051 GGAGTGTGTG
*
101729061 ATGGTGTTGGTGGCAGACAGCATGGGAGAATGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
* *
101729096 ATGGTGCTGGTGGCAGACAGTATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
101729131 A
1 A
101729132 GAGGCAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.25, C:0.08, G:0.46, T:0.20
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
Found at i:101729560 original size:20 final size:21
Alignment explanation
Indices: 101729518--101729560 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
101729508 CCTTTTTTAG
* *
101729518 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
101729539 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
101729559 AA
1 AA
101729561 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:101729777 original size:11 final size:11
Alignment explanation
Indices: 101729761--101729790 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
101729751 TAACATTAAG
101729761 AATATATATAT
1 AATATATATAT
*
101729772 AATATAAATAT
1 AATATATATAT
101729783 AATATATA
1 AATATATA
101729791 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:101730262 original size:13 final size:13
Alignment explanation
Indices: 101730216--101730268 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
101730206 GAAAAGGTAA
*
101730216 ATTTTTTT-TAAT
1 ATTTTTTTATTAT
*
101730228 ATTTGTTTTGTATAT
1 ATTT-TTTTAT-TAT
*
101730243 ATATTTTTATTAT
1 ATTTTTTTATTAT
101730256 ATTTTTTTATTAT
1 ATTTTTTTATTAT
101730269 GATGTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
12 4 0.12
13 19 0.56
14 6 0.18
15 5 0.15
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTTTTTTATTAT
Found at i:101730340 original size:18 final size:18
Alignment explanation
Indices: 101730301--101730358 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
101730291 GATTCGAAAA
101730301 AAGA-AAAAA-AATAAA-
1 AAGATAAAAATAATAAAG
*
101730316 AA-ATAAAAATAA-AAAT
1 AAGATAAAAATAATAAAG
101730332 AAGAGT-AAAATAATAAAG
1 AAGA-TAAAAATAATAAAG
101730350 AAGATAAAA
1 AAGATAAAA
101730359 TCACCTTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
14 1 0.03
15 10 0.29
16 4 0.11
17 9 0.26
18 11 0.31
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.14
Consensus pattern (18 bp):
AAGATAAAAATAATAAAG
Found at i:101730341 original size:17 final size:17
Alignment explanation
Indices: 101730301--101730359 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
101730291 GATTCGAAAA
*
101730301 AAGA-AAAAAAATAAA-
1 AAGATAAAATAATAAAG
*
101730316 AA-ATAAAAATAA-AAAT
1 AAGAT-AAAATAATAAAG
101730332 AAGAGTAAAATAATAAAG
1 AAGA-TAAAATAATAAAG
101730350 AAGATAAAAT
1 AAGATAAAAT
101730360 CACCTTTAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 1 0.03
15 5 0.14
16 8 0.22
17 14 0.39
18 8 0.22
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.15
Consensus pattern (17 bp):
AAGATAAAATAATAAAG
Found at i:101730599 original size:18 final size:18
Alignment explanation
Indices: 101730573--101730623 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
101730563 AGGGTTTCTT
101730573 GGTTTTTTTTGGGGGTTA
1 GGTTTTTTTTGGGGGTTA
**
101730591 GGGTTTTTTTTTAGGGTTA
1 -GGTTTTTTTTGGGGGTTA
101730610 GG-TTTTTTTGGGGG
1 GGTTTTTTTTGGGGG
101730624 GGCTTAATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 10 0.36
18 2 0.07
19 16 0.57
ACGTcount: A:0.06, C:0.00, G:0.39, T:0.55
Consensus pattern (18 bp):
GGTTTTTTTTGGGGGTTA
Found at i:101732457 original size:16 final size:17
Alignment explanation
Indices: 101732438--101732478 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
101732428 AAGAAATGAG
*
101732438 AGAA-AAGAGAAGGAGA
1 AGAAGAAGAGAAGAAGA
101732454 AGAAGAAG-GAAGAAGA
1 AGAAGAAGAGAAGAAGA
101732470 AGAAGAAGA
1 AGAAGAAGA
101732479 AGAAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (17 bp):
AGAAGAAGAGAAGAAGA
Found at i:101732459 original size:3 final size:3
Alignment explanation
Indices: 101732445--101732482 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
101732435 GAGAGAAAAG
*
101732445 AGA AGG AGA AGA AGA AGGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA A
101732483 AAAAAGGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:101732887 original size:114 final size:114
Alignment explanation
Indices: 101732754--101733082 Score: 536
Period size: 114 Copynumber: 2.9 Consensus size: 114
101732744 TTTTATAGTT
*
101732754 GATTTGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
101732819 TAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * * * *
101732868 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTATATTAGCGAATTGTAATTCTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
*
101732933 TAATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
*
101732982 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTGTATTAGTGTATTGTGATTTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTA--GTGTATTAGTGTATTGTGATTTTTTT
* *
101733047 AGTAATGTA-TTT-AAAAAATAATTTTATAGTTATTTT
64 AGTAATATATTTTAAAAAAATAATTTTATAGCTATTTT
101733083 GTGTTAGTAT
Statistics
Matches: 197, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
114 165 0.84
115 3 0.02
116 29 0.15
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (114 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
TAATATATTTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:101733169 original size:15 final size:16
Alignment explanation
Indices: 101733140--101733171 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
101733130 TGTGATTTTT
101733140 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
101733156 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
101733171 T
1 T
101733172 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:101735260 original size:33 final size:32
Alignment explanation
Indices: 101735223--101735299 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 32
101735213 ATTTATCTCA
*
101735223 GTACTCTACTCTTTCC-GGCCCGTATCCACC-CAT
1 GTACTCTACTC-TTCCAAG-CCGTATCCACCGC-T
*
101735256 GTACTCAACTCTTCCAAAGCCGTATCCACCGCT
1 GTACTCTACTCTTCC-AAGCCGTATCCACCGCT
101735289 GTACTCTACTC
1 GTACTCTACTC
101735300 CTCCCGACCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 4 0.11
33 32 0.84
34 2 0.05
ACGTcount: A:0.19, C:0.40, G:0.12, T:0.29
Consensus pattern (32 bp):
GTACTCTACTCTTCCAAGCCGTATCCACCGCT
Found at i:101738992 original size:27 final size:27
Alignment explanation
Indices: 101738962--101739024 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
101738952 CCTACCAAGA
*
101738962 AGGCACAACTAGTCGTGCCTGTCAGGT
1 AGGCACAACTAGTCGAGCCTGTCAGGT
*
101738989 AGGCACAACTAGTTGAGCCTGTCAGGT
1 AGGCACAACTAGTCGAGCCTGTCAGGT
101739016 AGGCACAAC
1 AGGCACAAC
101739025 ATGTATGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.29, T:0.19
Consensus pattern (27 bp):
AGGCACAACTAGTCGAGCCTGTCAGGT
Found at i:101740350 original size:30 final size:30
Alignment explanation
Indices: 101740316--101740379 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
101740306 AACTTATTTT
101740316 TTTGTTAATTTTGTTATTATTTTAAAGACA
1 TTTGTTAATTTTGTTATTATTTTAAAGACA
* *
101740346 TTTGTTAATTTTGTTATTATTTTAGAGGCA
1 TTTGTTAATTTTGTTATTATTTTAAAGACA
101740376 TTTG
1 TTTG
101740380 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.58
Consensus pattern (30 bp):
TTTGTTAATTTTGTTATTATTTTAAAGACA
Found at i:101740523 original size:12 final size:12
Alignment explanation
Indices: 101740502--101740535 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
101740492 TATATATTTT
*
101740502 AAAATTATATAA
1 AAAATAATATAA
101740514 AAAATAATATAA
1 AAAATAATATAA
*
101740526 AAATTAATAT
1 AAAATAATAT
101740536 GGCAGGCCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:101749445 original size:35 final size:35
Alignment explanation
Indices: 101749399--101749599 Score: 280
Period size: 35 Copynumber: 5.8 Consensus size: 35
101749389 GGTTTTCCTC
101749399 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
*
101749434 ATGGAAAATACCATACCTACGTTTCACAACTCGGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
* * * * *
101749469 ATGGAAAATACCATACCTATGTATCATAGCTCGGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
* *
101749504 ATGG-AAATACCATACCTACATTTCATAACTCAGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
* * * *
101749538 ATAGAAAATACCATGCCTACGTATCATAACTCAGT
1 ATGGAAAATACCATACCTACGTTTCACAACTCAGT
101749573 ATGG-AAATACCATACCTACGTTTCACA
1 ATGGAAAATACCATACCTACGTTTCACA
101749600 TTTTTCCATG
Statistics
Matches: 147, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
34 48 0.33
35 99 0.67
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (35 bp):
ATGGAAAATACCATACCTACGTTTCACAACTCAGT
Found at i:101749545 original size:69 final size:69
Alignment explanation
Indices: 101749402--101749599 Score: 297
Period size: 69 Copynumber: 2.9 Consensus size: 69
101749392 TTTCCTCATG
* * *
101749402 GAAAATACCATACCTACGTTTCACAACTCAGTATGGAAAATACCATACCTACGTTTCACAACTCG
1 GAAAATACCATACCTACGTATCATAACTCAGTATGG-AAATACCATACCTACGTTTCACAACTCA
*
101749467 GTATG
65 GTATA
* * * * *
101749472 GAAAATACCATACCTATGTATCATAGCTCGGTATGGAAATACCATACCTACATTTCATAACTCAG
1 GAAAATACCATACCTACGTATCATAACTCAGTATGGAAATACCATACCTACGTTTCACAACTCAG
101749537 TATA
66 TATA
*
101749541 GAAAATACCATGCCTACGTATCATAACTCAGTATGGAAATACCATACCTACGTTTCACA
1 GAAAATACCATACCTACGTATCATAACTCAGTATGGAAATACCATACCTACGTTTCACA
101749600 TTTTTCCATG
Statistics
Matches: 113, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
69 82 0.73
70 31 0.27
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (69 bp):
GAAAATACCATACCTACGTATCATAACTCAGTATGGAAATACCATACCTACGTTTCACAACTCAG
TATA
Found at i:101750749 original size:12 final size:12
Alignment explanation
Indices: 101750732--101750782 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 12
101750722 AACACTCCAT
101750732 AAATATTTATAA
1 AAATATTTATAA
101750744 AAATATTTATACTCCA
1 AAATATTTATA----A
101750760 TAAATATTTATAA
1 -AAATATTTATAA
101750773 AAATATTTAT
1 AAATATTTAT
101750783 GATTCGGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 21 0.62
13 1 0.03
16 1 0.03
17 11 0.32
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:101750758 original size:29 final size:29
Alignment explanation
Indices: 101750725--101750782 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
101750715 ACTTAATAAC
101750725 ACTCCATAAATATTTATAAAAATATTTAT
1 ACTCCATAAATATTTATAAAAATATTTAT
101750754 ACTCCATAAATATTTATAAAAATATTTAT
1 ACTCCATAAATATTTATAAAAATATTTAT
101750783 GATTCGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (29 bp):
ACTCCATAAATATTTATAAAAATATTTAT
Found at i:101750766 original size:17 final size:17
Alignment explanation
Indices: 101750725--101750771 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
101750715 ACTTAATAAC
101750725 ACTCCATAAATATTTAT
1 ACTCCATAAATATTTAT
101750742 A----A-AAATATTTAT
1 ACTCCATAAATATTTAT
101750754 ACTCCATAAATATTTAT
1 ACTCCATAAATATTTAT
101750771 A
1 A
101750772 AAAATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
12 11 0.44
13 1 0.04
16 1 0.04
17 12 0.48
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (17 bp):
ACTCCATAAATATTTAT
Found at i:101752224 original size:15 final size:15
Alignment explanation
Indices: 101752204--101752255 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
101752194 ACTACAAAAA
101752204 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
101752219 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
101752238 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
101752253 ATT
1 ATT
101752256 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:101752319 original size:16 final size:16
Alignment explanation
Indices: 101752288--101752324 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
101752278 ATGTGAATAA
101752288 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
101752304 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
101752320 TATTA
1 TATTA
101752325 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:101752377 original size:22 final size:22
Alignment explanation
Indices: 101752349--101752391 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
101752339 TATTAAATAA
101752349 TTTATTAAAATAATAAATTATG
1 TTTATTAAAATAATAAATTATG
* * *
101752371 TTTATTATATTAATAATTTAT
1 TTTATTAAAATAATAAATTAT
101752392 TATATGACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTATTAAAATAATAAATTATG
Found at i:101753357 original size:2 final size:2
Alignment explanation
Indices: 101753350--101753380 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
101753340 AGATAAAAAT
101753350 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101753381 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:101754066 original size:21 final size:22
Alignment explanation
Indices: 101754013--101754066 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
101754003 ATCTTAAGTA
*
101754013 TGTGAACCCTTAGGGAACATATG
1 TGTGAACCCTTAGGG-ACATAGG
* * *
101754036 TGCGATCCCTTAGTG-CATAGG
1 TGTGAACCCTTAGGGACATAGG
101754057 TGTGAACCCT
1 TGTGAACCCT
101754067 ATAAATTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 13 0.52
23 12 0.48
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (22 bp):
TGTGAACCCTTAGGGACATAGG
Found at i:101754441 original size:39 final size:39
Alignment explanation
Indices: 101754387--101754505 Score: 229
Period size: 39 Copynumber: 3.1 Consensus size: 39
101754377 GTGTCTCCCC
*
101754387 TACCTTAACAATTACTTAAAATTCAAACTCAACAAGGTT
1 TACCTTAATAATTACTTAAAATTCAAACTCAACAAGGTT
101754426 TACCTTAATAATTACTTAAAATTCAAACTCAACAAGGTT
1 TACCTTAATAATTACTTAAAATTCAAACTCAACAAGGTT
101754465 TACCTTAATAATTACTTAAAATTCAAACTCAACAAGGTT
1 TACCTTAATAATTACTTAAAATTCAAACTCAACAAGGTT
101754504 TA
1 TA
101754506 ACATCCTCAC
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (39 bp):
TACCTTAATAATTACTTAAAATTCAAACTCAACAAGGTT
Found at i:101755992 original size:60 final size:60
Alignment explanation
Indices: 101755899--101756033 Score: 252
Period size: 60 Copynumber: 2.2 Consensus size: 60
101755889 CCCGTATGGC
*
101755899 TCACACGGTCGTGTCTTTAGTCTACGTGGTTTTCGCTAAGATAAAATTATGCTCCAGTAT
1 TCACACGGTCGTGTCTTCAGTCTACGTGGTTTTCGCTAAGATAAAATTATGCTCCAGTAT
*
101755959 TCACACGGTCATGTCTTCAGTCTACGTGGTTTTCGCTAAGATAAAATTATGCTCCAGTAT
1 TCACACGGTCGTGTCTTCAGTCTACGTGGTTTTCGCTAAGATAAAATTATGCTCCAGTAT
101756019 TCACACGGTCGTGTC
1 TCACACGGTCGTGTC
101756034 GTCAACCTGT
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (60 bp):
TCACACGGTCGTGTCTTCAGTCTACGTGGTTTTCGCTAAGATAAAATTATGCTCCAGTAT
Found at i:101756156 original size:30 final size:29
Alignment explanation
Indices: 101756120--101756187 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
101756110 ACATCCAATA
101756120 TTCACATGACAGTGTCTTAAACCCGTGTGG
1 TTCACATGAC-GTGTCTTAAACCCGTGTGG
* * **
101756150 TTCACATAGTCGTGTCTTCAGGCCGTGTGG
1 TTCACAT-GACGTGTCTTAAACCCGTGTGG
101756180 TTCACATG
1 TTCACATG
101756188 GTTGTGTCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 30 0.91
31 2 0.06
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (29 bp):
TTCACATGACGTGTCTTAAACCCGTGTGG
Found at i:101756405 original size:16 final size:16
Alignment explanation
Indices: 101756384--101756435 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
101756374 AAAATTTAAT
*
101756384 ATAAAAAATAATTTTA
1 ATAAAAAATAATATTA
**
101756400 ATAAAATTTAATATTA
1 ATAAAAAATAATATTA
101756416 ATAAAAAAATAAATATTA
1 AT-AAAAAAT-AATATTA
101756434 AT
1 AT
101756436 GAATAAAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 15 0.52
17 5 0.17
18 9 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAAAAATAATATTA
Found at i:101756430 original size:18 final size:18
Alignment explanation
Indices: 101756375--101756435 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
101756365 AATCAAATTA
101756375 AAAT-TTAATATAAAAAAT
1 AAATATTAATA-AAAAAAT
* *
101756393 -AATTTTAAT--AAAATT
1 AAATATTAATAAAAAAAT
*
101756408 TAATATTAATAAAAAAAT
1 AAATATTAATAAAAAAAT
101756426 AAATATTAAT
1 AAATATTAAT
101756436 GAATAAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.14
16 8 0.23
17 3 0.09
18 19 0.54
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATATTAATAAAAAAAT
Found at i:101756430 original size:28 final size:27
Alignment explanation
Indices: 101756355--101756430 Score: 64
Period size: 28 Copynumber: 2.6 Consensus size: 27
101756345 CTAAATAAAA
101756355 AAAAAACTCAAATCAAATTAAAATTTAATAT
1 AAAAAA-T-AAAT-AAA-TAAAATTTAATAT
* *
101756386 AAAAAATAATTTTAATAAAATTTAATATT
1 AAAAAATAA-ATAAATAAAATTTAATA-T
101756415 AATAAAA-AAATAAATA
1 AA-AAAATAAATAAATA
101756431 TTAATGAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
28 17 0.45
29 9 0.24
30 6 0.16
31 6 0.16
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (27 bp):
AAAAAATAAATAAATAAAATTTAATAT
Found at i:101758302 original size:60 final size:59
Alignment explanation
Indices: 101758207--101758398 Score: 187
Period size: 58 Copynumber: 3.3 Consensus size: 59
101758197 AGGATCTAAA
* * * * * *
101758207 TTTTTTTG-TCAAAGTTGGTCCCTGAAATTGATAATTGTTCCTATATTAGGGCTTGAAT
1 TTTTTTTGTTCCAAGTTAGTCCTTGAACTTGGTAATTGTTCCTACATTAGGGCTTGAAT
* * * * *
101758265 TATTTTTTGTTTCAAGTTAGTCCTTGAACTTGGTAATTATT-TTCACATTAGGGCCTGAAC
1 T-TTTTTTGTTCCAAGTTAGTCCTTGAACTTGGTAATTGTTCCT-ACATTAGGGCTTGAAT
* * * * *
101758325 TTTTTTT-TTCCAAATTAGTCCTTAAACTTGGCAATTGTTCCTACCTTCGGGCTTG-AT
1 TTTTTTTGTTCCAAGTTAGTCCTTGAACTTGGTAATTGTTCCTACATTAGGGCTTGAAT
101758382 TTTTTTTG-TCCAAGTTA
1 TTTTTTTGTTCCAAGTTA
101758399 ATCCCTGACA
Statistics
Matches: 107, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
57 16 0.15
58 38 0.36
59 15 0.14
60 38 0.36
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (59 bp):
TTTTTTTGTTCCAAGTTAGTCCTTGAACTTGGTAATTGTTCCTACATTAGGGCTTGAAT
Found at i:101761487 original size:23 final size:25
Alignment explanation
Indices: 101761461--101761508 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
101761451 CTTCATGTTT
101761461 TTTTTAAA-ACTTTTT-T-ATTTTAA
1 TTTTTAAATA-TTTTTATAATTTTAA
101761484 TTTTTAAATATTTTTATAATTTTAA
1 TTTTTAAATATTTTTATAATTTTAA
101761509 AATTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 13 0.59
24 2 0.09
25 7 0.32
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTTAAATATTTTTATAATTTTAA
Found at i:101762757 original size:11 final size:11
Alignment explanation
Indices: 101762743--101762788 Score: 67
Period size: 11 Copynumber: 4.1 Consensus size: 11
101762733 AGATACATAT
101762743 TATTTTATTAA
1 TATTTTATTAA
101762754 TATTTTAATT-A
1 TATTTT-ATTAA
101762765 TATATTTATTAA
1 TAT-TTTATTAA
101762777 TATTTTATTAA
1 TATTTTATTAA
101762788 T
1 T
101762789 TTAAGGTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 22 0.69
12 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:101766378 original size:22 final size:22
Alignment explanation
Indices: 101766366--101766408 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
101766356 TCTCTATATT
101766366 TTGCTACCATTTTACTATTATG
1 TTGCTACCATTTTACTATTATG
* *
101766388 TTGCTACTATTTTATTATTAT
1 TTGCTACCATTTTACTATTAT
101766409 TATTTGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (22 bp):
TTGCTACCATTTTACTATTATG
Found at i:101766500 original size:30 final size:30
Alignment explanation
Indices: 101766438--101766500 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
101766428 ACTTATTTTA
* **
101766438 TTGTTAATTTTGTTATTATTTTAAAGTTAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
* *
101766468 TTGTTGATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
101766498 TTG
1 TTG
101766501 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:101771122 original size:7 final size:7
Alignment explanation
Indices: 101771110--101771137 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
101771100 CAAGTTGTCA
101771110 ATTTATC
1 ATTTATC
101771117 ATTTATC
1 ATTTATC
101771124 ATTTATC
1 ATTTATC
101771131 ATTTATC
1 ATTTATC
101771138 CTTACAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTATC
Found at i:101773513 original size:126 final size:128
Alignment explanation
Indices: 101773313--101773760 Score: 347
Period size: 132 Copynumber: 3.5 Consensus size: 128
101773303 TATTTAGTCC
* * * * * *
101773313 AACGAGAAAATCGAAACCCAGCAC-AGTAGGACACGATTCCTCGGATTTCTAAACATCGAGCATT
1 AACGAG-AAATCGCAACCCAGCACGA-TAGGGCACGATTCCGCGAATTTCCAAACATCAAGCATT
* **
101773377 GCCTTATTTT-AGAA-TTTAG-AGAGCATGAGTGAAATTCTAAAGGAATC-TTCGATTA-TTGAA
64 GCCTTATTTTAAAAATTTTAGAAGA-CATGAACGAAATTCTAAAGGAA-CATTCGATTACTTGAA
101773437 CGA
127 C-A
* * * *
101773440 ATAGGAG-AATCGCAACCCAACACGATAGGGCACGATTCC-CGAATTTCCAAACATCAAGTATTT
1 A-ACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCGCGAATTTCCAAACATCAAGCATTG
* * *
101773503 CCTTTGTTTTAAAAAGTTTTTAGAAGACATGAACGAGATTCTAAAGGGACATTCGATTACTTTGA
65 CC-TTATTTTAAAAA--TTTTAGAAGACATGAACGAAATTCTAAAGGAACATTCGATTAC-TTGA
*
101773568 GCA
126 ACA
* * * ** *
101773571 AACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATGTCGAA-CATCG
1 AACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCGCGAATTTCCAAACATC-AAGCATTG
* * * * ** * * *
101773635 CCTTCGTTTTAAAGGATTTTTAGAAGACATGAACAAAATTTTGGAGGGATATTCGATTATTTTGA
65 CCTT-ATTTTAAA--AATTTTAGAAGACATGAACGAAATTCTAAAGGAACATTCGATTA-CTTGA
*
101773700 GCA
126 ACA
* * * * * *
101773703 AACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCAA
1 AACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCGCGAATTTCCAAACATCAA
101773761 ATCTCGTCTC
Statistics
Matches: 266, Mismatches: 37, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
125 21 0.08
126 33 0.12
127 5 0.02
128 4 0.02
129 1 0.00
130 35 0.13
131 38 0.14
132 126 0.47
133 2 0.01
134 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (128 bp):
AACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCGCGAATTTCCAAACATCAAGCATTGC
CTTATTTTAAAAATTTTAGAAGACATGAACGAAATTCTAAAGGAACATTCGATTACTTGAACA
Found at i:101773659 original size:132 final size:132
Alignment explanation
Indices: 101773451--101773788 Score: 432
Period size: 132 Copynumber: 2.6 Consensus size: 132
101773441 TAGGAGAATC
* * * * ** *
101773451 GCAACCCAACACGATAGGGCACGATTCC-CGAATTTCCAAACATCAAGTATTTCCTTTGTTTTAA
1 GCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCAAGCATCGCCTTCGTTTTAA
* *
101773515 A-AAGTTTTTAGAAGACATGAACGAGATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGAA
66 AGAA-TTTTTAGAAGACATGAACAAAATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGAA
101773579 ATT
130 ATT
* *
101773582 GCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATGTCGAA-CATCGCCTTCGTTTTA
1 GCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATC-AAGCATCGCCTTCGTTTTA
* * ** * * *
101773646 AAGGATTTTTAGAAGACATGAACAAAATTTTGGAGGGATATTCGATTATTTTGAGCAAACGCGAA
65 AAGAATTTTTAGAAGACATGAACAAAATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGAA
101773711 ATT
130 ATT
* * *
101773714 GCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCAAATC-TCGTCTCCGTTTTA
1 GCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATC-AAGCATCGCCTTCGTTTTA
101773778 AAGAATTTTTA
65 AAGAATTTTTA
101773789 AATGAATATG
Statistics
Matches: 179, Mismatches: 24, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
131 26 0.15
132 149 0.83
133 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (132 bp):
GCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCAAGCATCGCCTTCGTTTTAA
AGAATTTTTAGAAGACATGAACAAAATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGAAA
TT
Found at i:101775125 original size:39 final size:39
Alignment explanation
Indices: 101775067--101775223 Score: 133
Period size: 39 Copynumber: 4.0 Consensus size: 39
101775057 TTCAGTGATG
* **
101775067 TATATCTGGACTTAGGGT-CCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCCGCAGGCT-TGTGCTGGAAT
* * *
101775106 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCCGCAGGCT-TGTGCTGGAAT
* * * *
101775145 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAAGTCCCGCAGGCTT-GTGCTGGAAT
** *
101775184 TATA-CCGGGTTTAAATTCCCGCAGGCTTGTGCTGGTAAT
1 TATATCCGGACTTAAAGTCCCGCAGGCTTGTGCTGG-AAT
101775223 T
1 T
101775224 GGTTTCAAGT
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
38 16 0.16
39 82 0.84
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCCGCAGGCTTGTGCTGGAAT
Found at i:101784069 original size:17 final size:16
Alignment explanation
Indices: 101784041--101784072 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
101784031 TTCTTTCAAT
101784041 TAGTTTAATTAATTAC
1 TAGTTTAATTAATTAC
101784057 TAGTTTCAATTAATTA
1 TAGTTT-AATTAATTA
101784073 TAACTGGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
TAGTTTAATTAATTAC
Found at i:101784352 original size:3 final size:3
Alignment explanation
Indices: 101784346--101784399 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
101784336 ATTTTTTTAT
* * * *
101784346 TAA TAA TAA TAA TAA TAA TAA CAA CAA CAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
101784394 CAA TAA
1 TAA TAA
101784400 CTATTCTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (3 bp):
TAA
Found at i:101790343 original size:22 final size:21
Alignment explanation
Indices: 101790318--101790363 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
101790308 TAAAAAGTTA
101790318 AAAAATAATCA-TTAAATTAATT
1 AAAAA-AATCATTTAAATT-ATT
*
101790340 AAAAAAATTATTTAAATTATT
1 AAAAAAATCATTTAAATTATT
101790361 AAA
1 AAA
101790364 TTATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAAAATCATTTAAATTATT
Found at i:101790356 original size:9 final size:9
Alignment explanation
Indices: 101790344--101790372 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
101790334 TTAATTAAAA
101790344 AAATTATTT
1 AAATTATTT
101790353 AAATTA-TT
1 AAATTATTT
101790361 AAATTATTT
1 AAATTATTT
101790370 AAA
1 AAA
101790373 AAATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
AAATTATTT
Found at i:101790364 original size:30 final size:31
Alignment explanation
Indices: 101790328--101790387 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
101790318 AAAAATAATC
101790328 ATTAAATTAATTAAAAAA-ATTATTTAAATT
1 ATTAAATTAATTAAAAAATATTATTTAAATT
* *
101790358 ATTAAATTATTTAAAAAATTTTATTTAAAT
1 ATTAAATTAATTAAAAAATATTATTTAAAT
101790388 CACCAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 17 0.63
31 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTAAATTAATTAAAAAATATTATTTAAATT
Found at i:101790396 original size:31 final size:30
Alignment explanation
Indices: 101790331--101790399 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
101790321 AATAATCATT
* * **
101790331 AAATTAATTAAAAAAATTATTTAAATTATT
1 AAATTATTTAAAAAAATTATTTAAATCACC
*
101790361 AAATTATTTAAAAAATTTTATTTAAATCACC
1 AAATTATTTAAAAAA-ATTATTTAAATCACC
101790392 AAATTATT
1 AAATTATT
101790400 AATTTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 14 0.42
31 19 0.58
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
AAATTATTTAAAAAAATTATTTAAATCACC
Found at i:101794321 original size:23 final size:24
Alignment explanation
Indices: 101794295--101794346 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
101794285 ATTTTGAAAC
101794295 ATATAATTATTAAAAAATTAT-TA
1 ATATAATTATTAAAAAATTATATA
* * *
101794318 ATATAATTTTTAAACAATTTTATA
1 ATATAATTATTAAAAAATTATATA
101794342 ATATA
1 ATATA
101794347 TAATTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATATAATTATTAAAAAATTATATA
Found at i:101796361 original size:51 final size:50
Alignment explanation
Indices: 101796290--101796449 Score: 239
Period size: 51 Copynumber: 3.2 Consensus size: 50
101796280 CTGATCACAT
*
101796290 TTATCACTTGTCACTGATCAGATAATTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
101796341 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
101796391 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
101796442 TTGTCACT
1 TTATCACT
101796450 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.46
51 54 0.54
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:101799478 original size:23 final size:24
Alignment explanation
Indices: 101799452--101799675 Score: 125
Period size: 26 Copynumber: 9.0 Consensus size: 24
101799442 GAAATGGAAT
* *
101799452 AATA-TATAAAACAATTTGAAGTA
1 AATAGTATAAAACAATTTAAAATA
101799475 AATAGTATAAAACAATTTAAAATA
1 AATAGTATAAAACAATTTAAAATA
* * * *
101799499 AATGATGTGTAGAGCAACTTAAAATA
1 AAT-A-GTATAAAACAATTTAAAATA
* * *
101799525 AATAATATACAAAGCGATTTAAACTA
1 AATAGTATA-AAA-CAATTTAAAATA
* * * * *
101799551 AATAATTTAAGATAATTTAAAGTA
1 AATAGTATAAAACAATTTAAAATA
101799575 AATA--A-AAAGACAATTTTAAATGAATA
1 AATAGTATAAA-ACAA-TTT-AA--AATA
* *
101799601 ATATA-TAGAAAAACACGTTTAAAATA
1 A-ATAGTA-TAAAACA-ATTTAAAATA
*
101799627 AATACTATAGAAAGCAATTTAAAATA
1 AATAGTATA-AAA-CAATTTAAAATA
*
101799653 AATAGAATAAAACAATTTAAAAT
1 AATAGTATAAAACAATTTAAAAT
101799676 CATTTAACAT
Statistics
Matches: 156, Mismatches: 27, Indels: 35
0.72 0.12 0.16
Matches are distributed among these distances:
21 2 0.01
22 3 0.02
23 7 0.04
24 49 0.31
25 12 0.08
26 66 0.42
27 5 0.03
28 3 0.02
29 6 0.04
30 3 0.02
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (24 bp):
AATAGTATAAAACAATTTAAAATA
Found at i:101800127 original size:25 final size:26
Alignment explanation
Indices: 101800060--101800137 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
101800050 ATATATAATA
* *
101800060 ATTTAAAATACATAAGACGTAAAAAG
1 ATTTAAAATAAATAATACGTAAAAAG
* * * *
101800086 AGATTAAAATGAGTAATA-GTAAAATG
1 A-TTTAAAATAAATAATACGTAAAAAG
**
101800112 ATTTAAAATAAATAATATATAAAAAG
1 ATTTAAAATAAATAATACGTAAAAAG
101800138 CTTAAAGACC
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
25 13 0.33
26 15 0.38
27 11 0.28
ACGTcount: A:0.59, C:0.03, G:0.12, T:0.27
Consensus pattern (26 bp):
ATTTAAAATAAATAATACGTAAAAAG
Found at i:101801428 original size:29 final size:29
Alignment explanation
Indices: 101801384--101801445 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
101801374 CTTGGGATTC
*
101801384 AAAAGTATAATAATTTATTTG-AATATAAT
1 AAAAGTATAATAATTTA-TTGAAATAAAAT
*
101801413 AAAAGTATAATGATTTATTGAAATAAAAT
1 AAAAGTATAATAATTTATTGAAATAAAAT
101801442 AAAA
1 AAAA
101801446 AAAGTTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 3 0.10
29 27 0.90
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (29 bp):
AAAAGTATAATAATTTATTGAAATAAAAT
Found at i:101802055 original size:13 final size:14
Alignment explanation
Indices: 101802037--101802065 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
101802027 AATTTACATA
101802037 ATTTAAAAAT-TAT
1 ATTTAAAAATATAT
101802050 ATTTAAAAATATAT
1 ATTTAAAAATATAT
101802064 AT
1 AT
101802066 AATTTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTAAAAATATAT
Found at i:101802673 original size:20 final size:19
Alignment explanation
Indices: 101802648--101802688 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
101802638 CATGTTTAAA
**
101802648 ATTTTAAATTAAAAAAATAC
1 ATTTTAAAAGAAAAAAA-AC
101802668 ATTTTAAAAGAAAAAAAAC
1 ATTTTAAAAGAAAAAAAAC
101802687 AT
1 AT
101802689 GCACAGTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (19 bp):
ATTTTAAAAGAAAAAAAAC
Found at i:101804811 original size:18 final size:17
Alignment explanation
Indices: 101804788--101804821 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
101804778 ATTTTTTGGA
101804788 ATTTTTATAAATATTTTG
1 ATTTTTATAAAT-TTTTG
*
101804806 ATTTTTTTAAATTTTT
1 ATTTTTATAAATTTTT
101804822 TTGTTGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTTATAAATTTTTG
Found at i:101806443 original size:16 final size:16
Alignment explanation
Indices: 101806422--101806455 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
101806412 AATTTTTTTG
101806422 TATGCATTATTAAAAT
1 TATGCATTATTAAAAT
101806438 TATGCATTATTAAAAT
1 TATGCATTATTAAAAT
101806454 TA
1 TA
101806456 AATTAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
TATGCATTATTAAAAT
Found at i:101806660 original size:2 final size:2
Alignment explanation
Indices: 101806653--101806691 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
101806643 ACATGCGTAA
101806653 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
101806692 TAGTGAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:101806909 original size:208 final size:209
Alignment explanation
Indices: 101806673--101807090 Score: 714
Period size: 208 Copynumber: 2.0 Consensus size: 209
101806663 ATATATATAT
* * * * *
101806673 ATATATATATATATCATATTAGTGAATCTGCTAATGCGTACTTCAT-TCGGATAAAGTATGCATT
1 ATATATATATATATCATATTACTGAATCTGCTAATACATACTTCATCT-AGATAAAATATGCATT
*
101806737 ATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTACAAAACAATATGTTATTTGGGAAAT
65 ATTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTACAAAACAATATGTTATTTGGAAAAT
*
101806802 AACAATTATTGTAATGAGATACATGTTTTATTAGGTATAAATATTTAAAATTTTGTTTTTGTAAT
130 AACAATTATTGTAATGAGATACATGTTTTATTAAGTATAAATATTTAAAATTTTGTTTTTGTAAT
101806867 GTGATACATGCGTAA
195 GTGATACATGCGTAA
*
101806882 ATATATATATA-ATCATATTACTGAATCTGCTAATACATACTTTATCTAGATAAAATATGCATTA
1 ATATATATATATATCATATTACTGAATCTGCTAATACATACTTCATCTAGATAAAATATGCATTA
*
101806946 TTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATA
66 TTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTACAAAACAATATGTTATTTGGAAAATA
* *
101807011 ACTATTATTGTAATGAGATACATGTTTTATTAAGTATAACTATTTAAAATTTTGTTTTTGTAATG
131 ACAATTATTGTAATGAGATACATGTTTTATTAAGTATAAATATTTAAAATTTTGTTTTTGTAATG
101807076 TGATACATGCGTAA
196 TGATACATGCGTAA
101807090 A
1 A
101807091 AAAAATATTT
Statistics
Matches: 197, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
208 185 0.94
209 12 0.06
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (209 bp):
ATATATATATATATCATATTACTGAATCTGCTAATACATACTTCATCTAGATAAAATATGCATTA
TTAAAATTAAATTAAAATATTAAATAAGAAATAAAATTACAAAACAATATGTTATTTGGAAAATA
ACAATTATTGTAATGAGATACATGTTTTATTAAGTATAAATATTTAAAATTTTGTTTTTGTAATG
TGATACATGCGTAA
Found at i:101814524 original size:23 final size:23
Alignment explanation
Indices: 101814484--101814532 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
101814474 TAATTACAAT
* * *
101814484 TTAATTAATATTATAATTATAT-A
1 TTAATTAAAAATAAAATT-TATCA
101814507 TTAATTAAAAATAAAATTTATCA
1 TTAATTAAAAATAAAATTTATCA
101814530 TTA
1 TTA
101814533 TAAATAACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAATTAAAAATAAAATTTATCA
Found at i:101817684 original size:30 final size:30
Alignment explanation
Indices: 101817648--101817708 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
101817638 AAATTTAACA
*
101817648 AGCAAATGCCTCTAAAATAATAATAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
* *
101817678 AGCAAATGTCTTTAAAATAATAAAAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
101817708 A
1 A
101817709 ACAATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.28
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAAAAAAATT
Found at i:101817767 original size:22 final size:22
Alignment explanation
Indices: 101817742--101817784 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
101817732 TATCCAAACA
101817742 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
101817764 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
101817785 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:101817788 original size:11 final size:11
Alignment explanation
Indices: 101817749--101817789 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
101817739 ACAATAACAA
101817749 CAAAATAGTAG
1 CAAAATAGTAG
* *
101817760 CAACATAATAG
1 CAAAATAGTAG
*
101817771 TAAAATAGTAG
1 CAAAATAGTAG
101817782 CAAAATAG
1 CAAAATAG
101817790 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:101825627 original size:3 final size:3
Alignment explanation
Indices: 101825619--101825666 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
101825609 AACCAAGTTT
101825619 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
101825667 GGCTTATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:101827553 original size:2 final size:2
Alignment explanation
Indices: 101827546--101827577 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
101827536 CTCAGGTATG
101827546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
101827578 AAGTCTCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101832155 original size:30 final size:29
Alignment explanation
Indices: 101832121--101832179 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
101832111 AAACTAAATC
101832121 AAATCAAAATTTAATGTATAGA-ATTGCACA
1 AAATCAAAATTT-ATGTAT-GACATTGCACA
*
101832151 AAATCAAAGTTTATGTATGACATTGCACA
1 AAATCAAAATTTATGTATGACATTGCACA
101832180 TTATATCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 2 0.07
29 14 0.52
30 11 0.41
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (29 bp):
AAATCAAAATTTATGTATGACATTGCACA
Found at i:101832166 original size:29 final size:31
Alignment explanation
Indices: 101832121--101832200 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
101832111 AAACTAAATC
*
101832121 AAATCAAAATTTAATGTATAGA-ATTGCACA-
1 AAATCAAAGTTT-ATGTATAGACATTGCACAT
101832151 AAATCAAAGTTTATGTAT-GACATTGCACATT
1 AAATCAAAGTTTATGTATAGACATTGCACA-T
* *
101832182 ATATCAAAGTTCATGTATA
1 AAATCAAAGTTTATGTATA
101832201 TTTTTTGTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
28 2 0.05
29 14 0.33
30 11 0.26
31 16 0.37
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (31 bp):
AAATCAAAGTTTATGTATAGACATTGCACAT
Found at i:101835626 original size:25 final size:26
Alignment explanation
Indices: 101835597--101835673 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
101835587 TTTCACATCC
*
101835597 CAATTTTA-CCCCAATAAAGTTTTAA
1 CAATTTTACCCCCAATAAAATTTTAA
* * * *
101835622 CAATTTTATCCCTAGTAAAATTTTGA
1 CAATTTTACCCCCAATAAAATTTTAA
* *
101835648 CGATTTTACCCCCAATAAATTTTTAA
1 CAATTTTACCCCCAATAAAATTTTAA
101835674 GAAAATTCAT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
25 8 0.20
26 33 0.80
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.39
Consensus pattern (26 bp):
CAATTTTACCCCCAATAAAATTTTAA
Found at i:101841537 original size:17 final size:18
Alignment explanation
Indices: 101841512--101841545 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
101841502 ATAAAATAAC
101841512 AAAACCCCTAAACCCATT
1 AAAACCCCTAAACCCATT
*
101841530 AAAA-CCCTTAACCCAT
1 AAAACCCCTAAACCCAT
101841546 CAGACCCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAACCCCTAAACCCATT
Found at i:101842911 original size:2 final size:2
Alignment explanation
Indices: 101842904--101842960 Score: 62
Period size: 2 Copynumber: 28.5 Consensus size: 2
101842894 TTATTTTATG
* * *
101842904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TG TA TA TT TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
101842945 TA GTG TA TA TA TA TA T
1 TA -TA TA TA TA TA TA T
101842961 TTATGAAGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
1 1 0.02
2 45 0.96
3 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (2 bp):
TA
Found at i:101843090 original size:3 final size:3
Alignment explanation
Indices: 101843084--101843215 Score: 55
Period size: 3 Copynumber: 43.3 Consensus size: 3
101843074 ACTTTTTTTA
*
101843084 TAT TAT TAT GTAT ATAT T-T GTAT ATAG TAT T-T TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * *
101843131 TAC T-T TAT T-T TAG TAT TAT TAT TA- TAT T-T TAT CTACT TAT GTGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TAT -TAT
* * *
101843175 GT-T TCAT TAT TAT T-T CTAG TAT CAT TAT TAT TAT TAA TAT T
1 -TAT T-AT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T
101843216 GGTATGTATT
Statistics
Matches: 99, Mismatches: 15, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
2 12 0.12
3 67 0.68
4 19 0.19
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:101860415 original size:27 final size:27
Alignment explanation
Indices: 101860385--101860528 Score: 182
Period size: 27 Copynumber: 5.3 Consensus size: 27
101860375 TACTAAAATG
**
101860385 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
101860412 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * * *
101860439 CCCTCAATTTATAGAATCACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
101860466 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
101860493 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCATTTTA
*
101860520 CCTTCGATT
1 CCCTCGATT
101860529 GTGAAATTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 100 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:101860454 original size:54 final size:54
Alignment explanation
Indices: 101860385--101860528 Score: 207
Period size: 54 Copynumber: 2.7 Consensus size: 54
101860375 TACTAAAATG
* * * *
101860385 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTA
1 CCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTA
*
101860439 CCCTCAATTTATAGAATCACCGTTTTACCCTCGATTTACAAAATTACCATTTTA
1 CCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTA
* * * *
101860493 CCCTCAGTTTACAAAATTACCGTTTTACCTTCGATT
1 CCCTCAATTTATAGAATTACCGTTTTACCCTCGATT
101860529 GTGAAATTAC
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (54 bp):
CCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTA
Found at i:101860590 original size:27 final size:26
Alignment explanation
Indices: 101860560--101860681 Score: 127
Period size: 27 Copynumber: 4.6 Consensus size: 26
101860550 TGTAGGATAG
101860560 AATTACCAAAATACTCTTAGTTTGTAA
1 AATTACCAAAATAC-CTTAGTTTGTAA
*
101860587 AATTACCAAAATACCCTAGTTTGTAA
1 AATTACCAAAATACCTTAGTTTGTAA
* * * *
101860613 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-TTAGTTTGTAA
* * * * *
101860640 AATTATCGAAATACTCTCAATTTGCAA
1 AATTACCAAAATAC-CTTAGTTTGTAA
101860667 AATTACCAAAATACC
1 AATTACCAAAATACC
101860682 CTTATAGGAT
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
26 26 0.32
27 53 0.66
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCTTAGTTTGTAA
Found at i:101860616 original size:80 final size:80
Alignment explanation
Indices: 101860527--101860683 Score: 183
Period size: 80 Copynumber: 2.0 Consensus size: 80
101860517 TTACCTTCGA
* * * * * *
101860527 TTGTGAAATTACTAAAATACCCCT-GTAGGAT-AGAATTACCAAAATACTCTTAGTTTGTAAAAT
1 TTGTAAAATTACCAAAATACCACTGGTAGG-TGA-AATTACCAAAATACTCTCAATTTGCAAAAT
101860590 TACCAAAATACCCTAGT
64 TACCAAAATACCCTAGT
* ** * *
101860607 TTGTAAAATTACCGAAATACCACTGGTTTGTGAAATTATCGAAATACTCTCAATTTGCAAAATTA
1 TTGTAAAATTACCAAAATACCACTGGTAGGTGAAATTACCAAAATACTCTCAATTTGCAAAATTA
101860672 CCAAAATACCCT
66 CCAAAATACCCT
101860684 TATAGGATGA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 60 0.94
81 4 0.06
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (80 bp):
TTGTAAAATTACCAAAATACCACTGGTAGGTGAAATTACCAAAATACTCTCAATTTGCAAAATTA
CCAAAATACCCTAGT
Found at i:101860758 original size:27 final size:27
Alignment explanation
Indices: 101860693--101860780 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
101860683 TTATAGGATG
** *
101860693 AAATGACTAAAATACCCCTAATA-GGTA
1 AAATGACTGTAATACCCCT-GTAGGGTA
* *
101860720 AAAAGACCGTAA-AGCCCCTGTAGGGTA
1 AAATGACTGTAATA-CCCCTGTAGGGTA
* * *
101860747 AAGTGACTGTAATACCCTTGTATGGTA
1 AAATGACTGTAATACCCCTGTAGGGTA
101860774 AAATGAC
1 AAATGAC
101860781 GAATATGCCC
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
26 3 0.06
27 43 0.91
28 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (27 bp):
AAATGACTGTAATACCCCTGTAGGGTA
Found at i:101861628 original size:25 final size:24
Alignment explanation
Indices: 101861590--101861659 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
101861580 AGGAAGTGCT
* *
101861590 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
101861614 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
101861639 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
101861660 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:101861672 original size:24 final size:23
Alignment explanation
Indices: 101861590--101861686 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
101861580 AGGAAGTGCT
* * *
101861590 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAG-TTATC
101861614 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
101861639 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
101861663 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
101861687 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.06
24 13 0.21
25 46 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:101861866 original size:42 final size:42
Alignment explanation
Indices: 101861807--101861940 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
101861797 TTGTCTCCCC
* *
101861807 AAATGGGCTTACATACATTCATTGACATTACATGTAATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
101861849 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
101861891 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
101861933 AAATGGGC
1 AAATGGGC
101861941 CTAAGGGCCA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:101861999 original size:31 final size:31
Alignment explanation
Indices: 101861964--101862078 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
101861954 CGTTTACAGT
*
101861964 AAAGGCTTCGGCCAAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
101861995 AAAGGCTTCGGCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
101862026 AAAGGTTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
101862057 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
101862079 TCAAGACTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:101865352 original size:39 final size:40
Alignment explanation
Indices: 101865268--101865352 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
101865258 ACTTAATTCA
* * * *
101865268 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGAAACAATC
*
101865308 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGAAACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGAAACAATC
*
101865347 TCAGCA
1 CCAGCA
101865353 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.31, C:0.32, G:0.21, T:0.16
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGAAACAATC
Found at i:101865603 original size:46 final size:47
Alignment explanation
Indices: 101865423--101865624 Score: 268
Period size: 47 Copynumber: 4.3 Consensus size: 47
101865413 TGCACACTTT
* * *
101865423 TCACAATTGGTCATTCGGCCTTATCACATAT--TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTTCACAT-TCA
** * * **
101865469 TCACATTAACCATTCGGCCTTATCTCATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
*
101865516 TCACATTGGCCGTTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
101865563 TCACATTGGCCATTCGGCC-TATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
101865609 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
101865625 ATCTTAAGCT
Statistics
Matches: 138, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
45 21 0.15
46 48 0.35
47 69 0.50
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
Found at i:101869017 original size:27 final size:27
Alignment explanation
Indices: 101868987--101869130 Score: 200
Period size: 27 Copynumber: 5.3 Consensus size: 27
101868977 TACTGAAATG
* *
101868987 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
101869014 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * *
101869041 CCCTCGATTTACAGAATTACCGTTTAA
1 CCCTCGATTTATAAAATTACCATTTTA
101869068 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
101869095 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAAAATTACCATTTTA
101869122 CCCTCGATT
1 CCCTCGATT
101869131 GTGAAATTAC
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 101 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:101869057 original size:54 final size:54
Alignment explanation
Indices: 101868987--101869130 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
101868977 TACTGAAATG
** *
101868987 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTA
*
101869041 CCCTCGATTTACAGAATTACCGTTTAACCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTA
*
101869095 CCCTC-AGTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATT
101869131 GTGAAATTAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 1 0.01
54 82 0.99
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (54 bp):
CCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTA
Found at i:101869203 original size:54 final size:54
Alignment explanation
Indices: 101869129--101869291 Score: 177
Period size: 54 Copynumber: 3.0 Consensus size: 54
101869119 TTACCCTCGA
* *
101869129 TTGTGAAATTACTAAAATACCCCTATAGGAT-AGAATTACCAAAATACCCTTAAT
1 TTGTAAAATTACTAAAATACCCCTGTAGGATGA-AATTACCAAAATACCCTTAAT
* * ** * * *
101869183 TTGTAAAATTACTGAAATACCACTGGTTTG-TGAAATTATCGAAATACCCTCAAT
1 TTGTAAAATTACTAAAATACCCCT-GTAGGATGAAATTACCAAAATACCCTTAAT
* * * *
101869237 TTGTAAAATTACTAAAATACCCTTGTAGGATGAAATGACTAAAATACCCCTAAT
1 TTGTAAAATTACTAAAATACCCCTGTAGGATGAAATTACCAAAATACCCTTAAT
101869291 T
1 T
101869292 AAAAAGACCG
Statistics
Matches: 86, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
53 3 0.03
54 80 0.93
55 3 0.03
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (54 bp):
TTGTAAAATTACTAAAATACCCCTGTAGGATGAAATTACCAAAATACCCTTAAT
Found at i:101869259 original size:27 final size:27
Alignment explanation
Indices: 101869120--101869259 Score: 108
Period size: 27 Copynumber: 5.2 Consensus size: 27
101869110 ATTACCGTTT
* *
101869120 TACCCTCGA-TTGTGAAATTACTAAAA
1 TACCCTCAATTTGTAAAATTACTAAAA
* ** * *
101869146 TACCC-CTATAGGATAGAATTACCAAAA
1 TACCCTCAATTTG-TAAAATTACTAAAA
* *
101869173 TACCCTTAATTTGTAAAATTACTGAAA
1 TACCCTCAATTTGTAAAATTACTAAAA
** * *
101869200 TACCACT-GGTTTGTGAAATTA-TCGAAA
1 TACC-CTCAATTTGTAAAATTACT-AAAA
101869227 TACCCTCAATTTGTAAAATTACTAAAA
1 TACCCTCAATTTGTAAAATTACTAAAA
101869254 TACCCT
1 TACCCT
101869260 TGTAGGATGA
Statistics
Matches: 87, Mismatches: 20, Indels: 13
0.73 0.17 0.11
Matches are distributed among these distances:
25 2 0.02
26 9 0.10
27 70 0.80
28 6 0.07
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACTAAAA
Found at i:101869327 original size:27 final size:27
Alignment explanation
Indices: 101869291--101869353 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
101869281 TACCCCTAAT
*
101869291 TAAAAAGACCGTAA-AGCCCCTGTAGGG
1 TAAAATGACCGTAATA-CCCCTGTAGGG
* * *
101869318 TAAAGTGACCGTAATACCCTTGTATGG
1 TAAAATGACCGTAATACCCCTGTAGGG
101869345 TAAAATGAC
1 TAAAATGAC
101869354 GAATATGCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCTGTAGGG
Found at i:101870210 original size:25 final size:26
Alignment explanation
Indices: 101870163--101870233 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
101870153 AGGAAGTGCC
*
101870163 AAAAGGGCTTCTTCCCCAGTTTA-CCG
1 AAAAGGGCTT-TGCCCCAGTTTATCCG
*
101870189 AAAAGGGCTTTGCCCCAGTTTATCTG
1 AAAAGGGCTTTGCCCCAGTTTATCCG
*
101870215 -AAAGGGATTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
101870234 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
25 29 0.71
26 12 0.29
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTTGCCCCAGTTTATCCG
Found at i:101870440 original size:42 final size:42
Alignment explanation
Indices: 101870381--101870514 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
101870371 TAGTCTCCCC
101870381 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
101870423 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
101870465 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
101870507 AAATGGGC
1 AAATGGGC
101870515 CTAAGGGCCA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:101870577 original size:31 final size:31
Alignment explanation
Indices: 101870538--101870621 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
101870528 CGTTTACAGT
*
101870538 AAAA-GCTTCAGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
*
101870568 AAAAGGCTTCGGCCTAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
*
101870599 GAAAGGCTTCGGCCCAGT-ATATG
1 AAAAGGCTTCGGCCCAGTGATATG
101870622 TCAAGACTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 9 0.18
31 40 0.82
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGATTTATG
Found at i:101873455 original size:17 final size:17
Alignment explanation
Indices: 101873429--101873466 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
101873419 AAATTTATAC
*
101873429 ATAAATATTGATTTAAT
1 ATAAAAATTGATTTAAT
*
101873446 ATAAAAATTGATTTGAT
1 ATAAAAATTGATTTAAT
101873463 ATAA
1 ATAA
101873467 TTATACACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
ATAAAAATTGATTTAAT
Found at i:101880661 original size:30 final size:31
Alignment explanation
Indices: 101880627--101880688 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
101880617 TCCAATATGG
* *
101880627 CACAAAACACATTATTAACATCTTGG-ATAT
1 CACAAAACACATTATCAACATCTAGGCATAT
101880657 CACAAAACACATTATCAACATCTAGGCATAT
1 CACAAAACACATTATCAACATCTAGGCATAT
101880688 C
1 C
101880689 CAAGCCATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (31 bp):
CACAAAACACATTATCAACATCTAGGCATAT
Found at i:101884015 original size:61 final size:61
Alignment explanation
Indices: 101883920--101884041 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
101883910 TCCCTCTAAC
101883920 CAAAGCACTATGCCTATGCCTATGCCTATGTCTTTTCTGTTAGATGAGTCAAATGTTTGGG
1 CAAAGCACTATGCCTATGCCTATGCCTATGTCTTTTCTGTTAGATGAGTCAAATGTTTGGG
101883981 CAAAGCACTATGCCTATGCCTATGCCTATGTCTTTTCTGTTAGATGAGTCAAATGTTTGGG
1 CAAAGCACTATGCCTATGCCTATGCCTATGTCTTTTCTGTTAGATGAGTCAAATGTTTGGG
101884042 GGAATCCTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (61 bp):
CAAAGCACTATGCCTATGCCTATGCCTATGTCTTTTCTGTTAGATGAGTCAAATGTTTGGG
Found at i:101886268 original size:26 final size:26
Alignment explanation
Indices: 101886239--101886291 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
101886229 AGTTTTTATT
101886239 TAATATAATTTAATT-TGATTTTTTAA
1 TAATATAATTTAATTAT-ATTTTTTAA
* *
101886265 TAATTTAATTTACTTATATTTTTTAA
1 TAATATAATTTAATTATATTTTTTAA
101886291 T
1 T
101886292 TTATTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (26 bp):
TAATATAATTTAATTATATTTTTTAA
Found at i:101886291 original size:18 final size:18
Alignment explanation
Indices: 101886268--101886304 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
101886258 TTTTTAATAA
101886268 TTTAATTTACTTATATTT
1 TTTAATTTACTTATATTT
* *
101886286 TTTAATTTATTTTTATTT
1 TTTAATTTACTTATATTT
101886304 T
1 T
101886305 AAAAGAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTAATTTACTTATATTT
Found at i:101887497 original size:66 final size:66
Alignment explanation
Indices: 101887398--101887533 Score: 263
Period size: 66 Copynumber: 2.1 Consensus size: 66
101887388 CAACAAAGAG
*
101887398 ATGTGTAAAAAACCTCATTAATATGAAGTTAGCCGCTGACCCCGAATATTTAAACATCGAAAGAT
1 ATGTGTAAAAAACCTCATTAATATGAAGTTAGCCGCTGACCCCGAATATTTAAACATAGAAAGAT
101887463 C
66 C
101887464 ATGTGTAAAAAACCTCATTAATATGAAGTTAGCCGCTGACCCCGAATATTTAAACATAGAAAGAT
1 ATGTGTAAAAAACCTCATTAATATGAAGTTAGCCGCTGACCCCGAATATTTAAACATAGAAAGAT
101887529 C
66 C
101887530 ATGT
1 ATGT
101887534 TTTTCAAATT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (66 bp):
ATGTGTAAAAAACCTCATTAATATGAAGTTAGCCGCTGACCCCGAATATTTAAACATAGAAAGAT
C
Found at i:101887683 original size:1 final size:1
Alignment explanation
Indices: 101887677--101887703 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
101887667 CTCTCCGAGC
101887677 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
101887704 GGCAAGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:101897146 original size:23 final size:23
Alignment explanation
Indices: 101897098--101897147 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
101897088 ATTTTTCCCT
* * **
101897098 GTTTTTTTTAGAGTTAGGATTTG
1 GTTTTTTTTAAAGTAAGGATAGG
101897121 GTTTTTTTTAAAGTAAGGATAGG
1 GTTTTTTTTAAAGTAAGGATAGG
101897144 GTTT
1 GTTT
101897148 AGGATTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (23 bp):
GTTTTTTTTAAAGTAAGGATAGG
Found at i:101897263 original size:29 final size:28
Alignment explanation
Indices: 101897209--101897265 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
101897199 TTTATTTTTG
*
101897209 TTTATATTTTTAAATTTATTATATGTTA
1 TTTATATTTTTAAATTTATTAGATGTTA
*
101897237 TTTATTTTTTTATAATTT-TTGAGATGTTA
1 TTTATATTTTTA-AATTTATT-AGATGTTA
101897266 AACTAACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (28 bp):
TTTATATTTTTAAATTTATTAGATGTTA
Found at i:101899360 original size:17 final size:18
Alignment explanation
Indices: 101899325--101899363 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
101899315 TTATTCACAA
* *
101899325 TTTAATATTTTTATTTAT
1 TTTAATATTTATATATAT
101899343 TTTAATA-TTATATATAT
1 TTTAATATTTATATATAT
101899360 TTTA
1 TTTA
101899364 TGTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTAATATTTATATATAT
Found at i:101903466 original size:35 final size:35
Alignment explanation
Indices: 101903422--101903588 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
101903412 TCCTCATTGA
** *
101903422 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
101903457 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
* *
101903497 AATACCATACCTACATTTCACAGCTTAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
101903532 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
101903567 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
101903589 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 86 0.75
39 3 0.03
40 26 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:101903505 original size:75 final size:73
Alignment explanation
Indices: 101903417--101903588 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
101903407 GGTTTTCCTC
** * * **
101903417 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
101903481 TCAGTATGG
65 TCAGTATGG
* *
101903490 ATTTGATAATACCATACCTACATTTCACAGCTTAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
101903555 CTCAGTATGG
64 CTCAGTATGG
101903565 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
101903589 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:101905696 original size:2 final size:2
Alignment explanation
Indices: 101905689--101905733 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
101905679 TGAAAGTCGA
*
101905689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101905730 AT AT
1 AT AT
101905734 TTTGAAAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Done.