Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 334 of 373
Found at i:112002475 original size:76 final size:73
Alignment explanation
Indices: 112002379--112002655 Score: 344
Period size: 76 Copynumber: 3.7 Consensus size: 73
112002369 GTAATCTGAA
*
112002379 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCTCAGCA
1 GCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTTAAAACAGAAATTGAAAATACCTCAGCA
*
112002444 TGTGAACCGAG
65 -GTG-TCCGAG
*
112002455 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 GCTCAACTCACCTCTCGCAATATAAGTTGA--TTTTTTT-AAAACAGAAATTGAAAATACCTCAG
*
112002520 C-GTGTCTTGAG
63 CAGTGTC-CGAG
** * * *
112002531 GCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGC-G
1 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTAAAACAGAAATTGAAAATACCTCAGCAG
112002594 TGTCCTGAG
66 TGTCC-GAG
** *
112002603 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAA
1 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTAA-AACAGAAATTGAA
112002656 GAACAGAAAT
Statistics
Matches: 181, Mismatches: 14, Indels: 14
0.87 0.07 0.07
Matches are distributed among these distances:
72 61 0.34
73 10 0.06
74 13 0.07
75 1 0.01
76 63 0.35
77 8 0.04
78 25 0.14
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTAAAACAGAAATTGAAAATACCTCAGCAG
TGTCCGAG
Found at i:112002596 original size:72 final size:73
Alignment explanation
Indices: 112002374--112003024 Score: 589
Period size: 72 Copynumber: 8.5 Consensus size: 73
112002364 AGTGTGTAAT
* * * *
112002374 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCT
*
112002439 CAGCATGTGAAC
65 CAGC--GTG-TC
* * *
112002451 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA---TTTTTTGAAAACAGAAATTGAAATTAC
*
112002515 CTCAACGTGTC
63 CTCAGCGTGTC
* * * *
112002526 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
112002590 AGCGTGTC
66 AGCGTGTC
* * **
112002598 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAGAACAGA
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAA-AACAGAAATT---GAA-ATT
** * *
112002663 AATTGAAAAGACCTCAG-C
61 ACCT---CAG-CGT--GTC
* * * *
112002681 ATGTGAGC-CGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGACAAACAGAAATTGA
1 CTGAG-GCTC-A-ACTC-A-T---CTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGA
112002744 AATTACCTCAGCGTGTGAAC
57 AATTACCTCAGCGTGT---C
* * *
112002764 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA---TTTTTTGAAAACAGAAATTGAAATTAC
*
112002828 CTCAACGTGTC
63 CTCAGCGTGTC
* * * * *
112002839 TTGAGGCTCAACTCATTTCTCACAATATAAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
112002903 AGCGTGTC
66 AGCGTGTC
* *
112002911 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTTGAA-AACAGAAATTGAAATTACC
112002976 TCAGCGTGTC
64 TCAGCGTGTC
*
112002986 CTGAGGCTCAACTCACCTCTAC-CAATATGAGTTGATTTT
1 CTGAGGCTCAACTCATCTCT-CGCAATATGAGTTGATTTT
112003025 GAAAAACAAA
Statistics
Matches: 481, Mismatches: 55, Indels: 79
0.78 0.09 0.13
Matches are distributed among these distances:
72 133 0.28
73 6 0.01
74 20 0.04
75 78 0.16
76 97 0.20
77 4 0.01
78 62 0.13
79 9 0.02
80 3 0.01
81 7 0.01
82 7 0.01
83 6 0.01
84 4 0.01
85 6 0.01
86 4 0.01
87 1 0.00
89 17 0.04
90 17 0.04
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (73 bp):
CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
AGCGTGTC
Found at i:112002662 original size:14 final size:14
Alignment explanation
Indices: 112002643--112002669 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
112002633 TTTTTTTAAC
112002643 AACAGAAATTGAAG
1 AACAGAAATTGAAG
112002657 AACAGAAATTGAA
1 AACAGAAATTGAA
112002670 AAGACCTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (14 bp):
AACAGAAATTGAAG
Found at i:112002720 original size:90 final size:86
Alignment explanation
Indices: 112002564--112002745 Score: 233
Period size: 90 Copynumber: 2.1 Consensus size: 86
112002554 AAGTTGAATT
** * **
112002564 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
112002629 TTGATTTTTTTAAC-AACAGAAA
66 TT-A-ATTTTTAACAAACAGAAA
112002651 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAA-AACAGAAATTGAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAATA
*
112002715 TGAGTTAATTTTTGACAAACAGAAA
62 TGAGTTAATTTTTAACAAACAGAAA
112002740 TTGAAA
1 TTGAAA
112002746 TTACCTCAGC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
87 5 0.06
88 30 0.36
89 14 0.17
90 32 0.39
91 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (86 bp):
TTGAAAACAGAAATTGAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTAATTTTTAACAAACAGAAA
Found at i:112002780 original size:75 final size:72
Alignment explanation
Indices: 112002651--112003038 Score: 426
Period size: 75 Copynumber: 5.2 Consensus size: 72
112002641 ACAACAGAAA
** *
112002651 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAA-AACAGAAATTGAAATTACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATAT
112002716 GAGTT-AATTT
62 GAGTTGAATTT
112002726 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGA-AAACAGAAATTGAAATTACCTCAGCGTGT---CCGAGGCTCAACTCACCTCTCGCAATAT
* *
112002791 AAGTTGATTTTTTT
62 GAGTTGA---ATTT
* * * ** * *
112002805 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATAAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAG
112002870 TTGAA-TT
65 TTGAATTT
**
112002877 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAG
*
112002942 TTGATTTTT
65 TTGA-ATTT
*
112002951 TTTAACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAC-CAATATG
1 TTGAA-AACAGAAATTGAAATTACCTCAGCGTGTCC-GAGGCTCAACTCACCTCT-CGCAATATG
112003015 AGTTG-A-TT
63 AGTTGAATTT
*
112003023 TTGAAAAACAAAAATT
1 TTG-AAAACAGAAATT
112003039 AAAAGGCTTA
Statistics
Matches: 274, Mismatches: 24, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
72 78 0.28
73 5 0.02
74 6 0.02
75 118 0.43
76 33 0.12
78 27 0.10
79 7 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGAATTT
Found at i:112002948 original size:313 final size:315
Alignment explanation
Indices: 112002379--112002969 Score: 1107
Period size: 313 Copynumber: 1.9 Consensus size: 315
112002369 GTAATCTGAA
* *
112002379 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCTCAGCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAACAGAAATTGAAAATACCTCAGCA
112002444 TGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGA
66 TGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGA
*
112002509 AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAG
131 AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATAAGTTGAATTTTGAAAACAG
112002574 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTT
196 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
112002638 TTAACAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
261 TTAACAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
*
112002693 GCTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTGACAAACAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGA-AAACAGAAATTGAAAATACCTCAGC
*
112002756 GTGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTG
65 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTG
112002821 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATAAGTTGAATTTTGAAAACA
130 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATAAGTTGAATTTTGAAAACA
112002886 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
195 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT
112002951 TTTAACAACAGAAATTGAA
260 TTTAACAACAGAAATTGAA
112002970 ATTACCTCAG
Statistics
Matches: 270, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
312 6 0.02
313 213 0.79
314 51 0.19
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (315 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAACAGAAATTGAAAATACCTCAGCA
TGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGA
AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATAAGTTGAATTTTGAAAACAG
AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
TTAACAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
Found at i:112003185 original size:70 final size:70
Alignment explanation
Indices: 112003042--112003216 Score: 203
Period size: 70 Copynumber: 2.5 Consensus size: 70
112003032 AAAAATTAAA
* * * * * **
112003042 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
112003106 CCCCG
66 CCCCG
* *
112003111 AGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
112003175 GTCTTG
65 GCCCCG
112003181 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
112003217 CCTTGGAAAG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
69 26 0.29
70 60 0.67
71 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:112011490 original size:12 final size:12
Alignment explanation
Indices: 112011470--112011505 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
112011460 TGGGATATGC
*
112011470 AATGTATGAATG
1 AATGCATGAATG
112011482 AATGCATGAATG
1 AATGCATGAATG
112011494 AATGCATGAATG
1 AATGCATGAATG
112011506 TCAAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:112013069 original size:24 final size:24
Alignment explanation
Indices: 112013041--112013097 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
112013031 ATAATGATGT
*
112013041 GAATAATAAAATATATAAAATATCA
1 GAATAATAAAATAT-CAAAATATCA
*
112013066 -AAT-ATCAAAATATCAAAATATTA
1 GAATAAT-AAAATATCAAAATATCA
112013089 GAATAATAA
1 GAATAATAA
112013098 TAATTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
23 10 0.37
24 15 0.56
25 2 0.07
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (24 bp):
GAATAATAAAATATCAAAATATCA
Found at i:112013070 original size:16 final size:16
Alignment explanation
Indices: 112013049--112013086 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
112013039 GTGAATAATA
112013049 AAATATATAAAATATC
1 AAATATATAAAATATC
*
112013065 AAATAT-CAAAATATC
1 AAATATATAAAATATC
112013080 AAA-ATAT
1 AAATATAT
112013087 TAGAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 2 0.11
15 11 0.58
16 6 0.32
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATATAAAATATC
Found at i:112013078 original size:8 final size:8
Alignment explanation
Indices: 112013053--112013086 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
112013043 ATAATAAAAT
112013053 ATAT-AAA
1 ATATCAAA
112013060 ATATC-AA
1 ATATCAAA
112013067 ATATCAAA
1 ATATCAAA
112013075 ATATCAAA
1 ATATCAAA
112013083 ATAT
1 ATAT
112013087 TAGAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (8 bp):
ATATCAAA
Found at i:112013093 original size:16 final size:16
Alignment explanation
Indices: 112013048--112013093 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
112013038 TGTGAATAAT
112013048 AAAATATATAAAATATC
1 AAAATAT-TAAAATATC
*
112013065 -AAATATCAAAATATC
1 AAAATATTAAAATATC
*
112013080 AAAATATTAGAATA
1 AAAATATTAAAATA
112013094 ATAATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATATTAAAATATC
Found at i:112013256 original size:20 final size:20
Alignment explanation
Indices: 112013206--112013260 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
112013196 ATACTACATC
112013206 AATATGTACAT-ATATAAAA
1 AATATGTACATAATATAAAA
* * * *
112013225 AAAACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
112013244 AATATGTACATAATATA
1 AATATGTACATAATATA
112013261 GTGTTAAAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
18 2 0.08
19 17 0.65
20 7 0.27
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.31
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:112013302 original size:22 final size:24
Alignment explanation
Indices: 112013239--112013303 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
112013229 CGTGATAATA
*
112013239 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
112013264 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
112013287 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
112013304 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:112013357 original size:27 final size:26
Alignment explanation
Indices: 112013326--112013409 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 26
112013316 AAAAAAAAAT
112013326 ATATATATATATAATATAATATTAAA
1 ATATATATATATAATATAATATTAAA
* *
112013352 GATATATACATA-AA-ATAGTA-TAAA
1 -ATATATATATATAATATAATATTAAA
*
112013376 ATATATATATATGTAATATAAAATTTAAA
1 ATATATATATA--TAATATAATA-TTAAA
112013405 ATATA
1 ATATA
112013410 CCTAATATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
23 10 0.22
24 4 0.09
25 5 0.11
26 4 0.09
27 14 0.30
29 9 0.20
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (26 bp):
ATATATATATATAATATAATATTAAA
Found at i:112013364 original size:25 final size:25
Alignment explanation
Indices: 112013328--112013461 Score: 102
Period size: 25 Copynumber: 5.6 Consensus size: 25
112013318 AAAAAAATAT
112013328 ATATATATATAATATAATATTAAAG
1 ATATATATATAATATAATATTAAAG
* * * * *
112013353 ATATATACATAAAATAGTATAAAAT
1 ATATATATATAATATAATATTAAAG
* *
112013378 ATATATATATGTAATATAAAATTTAA-
1 ATATATATA--TAATATAATATTAAAG
** *
112013404 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATATATAATATAATATTAAAG
112013426 A-ATATATATAATATAATATT-AAG
1 ATATATATATAATATAATATTAAAG
*
112013449 AAATATA-ATAATA
1 ATATATATATAATA
112013462 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 6 0.07
25 33 0.39
26 1 0.01
27 10 0.12
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (25 bp):
ATATATATATAATATAATATTAAAG
Found at i:112013974 original size:30 final size:30
Alignment explanation
Indices: 112013938--112014082 Score: 116
Period size: 30 Copynumber: 4.8 Consensus size: 30
112013928 ACAAGTGGTG
*
112013938 ATGGAGCAAGTGTGGTTAGTGGAGTAGGTA
1 ATGGAGCAAGTGTGGCTAGTGGAGTAGGTA
* * *
112013968 ATGGAGCAAGTGTGGCTAGTGGATTTGGTG
1 ATGGAGCAAGTGTGGCTAGTGGAGTAGGTA
* * *
112013998 GTGGAG-AAGGTGTGGCTAGTGGAGTTGGTG
1 ATGGAGCAA-GTGTGGCTAGTGGAGTAGGTA
* * * * *
112014028 GTGGA-AAAGAAGTGGCTAGTGGAGTTGGTG
1 ATGGAGCAAG-TGTGGCTAGTGGAGTAGGTA
* *
112014058 GTGGA-AAAGGTGTGGCTAGTGGAGT
1 ATGGAGCAA-GTGTGGCTAGTGGAGT
112014083 TGGTGGTGGA
Statistics
Matches: 103, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.03
30 99 0.96
31 1 0.01
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.26
Consensus pattern (30 bp):
ATGGAGCAAGTGTGGCTAGTGGAGTAGGTA
Found at i:112014083 original size:30 final size:30
Alignment explanation
Indices: 112013977--112014107 Score: 208
Period size: 30 Copynumber: 4.4 Consensus size: 30
112013967 AATGGAGCAA
* *
112013977 GTGTGGCTAGTGGATTTGGTGGTGGAGAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
112014007 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
**
112014037 AAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
112014067 GTGTGGCTAGTGGAGTTGGTGGTGGAGAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
112014097 GTGTAGCTAGT
1 GTGTGGCTAGT
112014108 TGAGAAAAGT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.20, C:0.04, G:0.49, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:112014106 original size:60 final size:60
Alignment explanation
Indices: 112013947--112014107 Score: 216
Period size: 60 Copynumber: 2.7 Consensus size: 60
112013937 GATGGAGCAA
* * ** * *
112013947 GTGTGGTTAGTGGAGTAGGTAATGGAGCAA-GTGTGGCTAGTGGATTTGGTGGTGGAGAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAG-AAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
* **
112014007 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
112014067 GTGTGGCTAGTGGAGTTGGTGGTGGAGAAGGTGTAGCTAGT
1 GTGTGGCTAGTGGAGTTGGTGGTGGAGAAGGTGTGGCTAGT
112014108 TGAGAAAAGT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 2 0.02
60 85 0.98
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.27
Consensus pattern (60 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:112019390 original size:18 final size:18
Alignment explanation
Indices: 112019367--112019408 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
112019357 GATTACATCA
*
112019367 AAACCCAAC-CAAACCTCT
1 AAACCCAACTAAAACC-CT
112019385 AAACCC-ACTAAAACCCT
1 AAACCCAACTAAAACCCT
112019402 AAACCCA
1 AAACCCA
112019409 TGACCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.48, C:0.43, G:0.00, T:0.10
Consensus pattern (18 bp):
AAACCCAACTAAAACCCT
Found at i:112019504 original size:19 final size:19
Alignment explanation
Indices: 112019480--112019531 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
112019470 CCCATTAAGC
112019480 CCCCCCAAAAAAAACCTAA
1 CCCCCCAAAAAAAACCTAA
*
112019499 CCCCCCCAAAAAAA-CTAA
1 CCCCCCAAAAAAAACCTAA
112019517 -CCCCCAAAAAAAACC
1 CCCCCCAAAAAAAACC
112019532 ACGAAACCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 12 0.40
18 5 0.17
19 13 0.43
ACGTcount: A:0.52, C:0.44, G:0.00, T:0.04
Consensus pattern (19 bp):
CCCCCCAAAAAAAACCTAA
Found at i:112019509 original size:18 final size:18
Alignment explanation
Indices: 112019481--112019531 Score: 77
Period size: 17 Copynumber: 2.8 Consensus size: 18
112019471 CCATTAAGCC
112019481 CCCCCAAAAAAAACCTAA
1 CCCCCAAAAAAAACCTAA
*
112019499 CCCCCCCAAAAAAA-CTAA
1 -CCCCCAAAAAAAACCTAA
112019517 CCCCCAAAAAAAACC
1 CCCCCAAAAAAAACC
112019532 ACGAAACCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 12 0.41
18 5 0.17
19 12 0.41
ACGTcount: A:0.53, C:0.43, G:0.00, T:0.04
Consensus pattern (18 bp):
CCCCCAAAAAAAACCTAA
Found at i:112020572 original size:28 final size:30
Alignment explanation
Indices: 112020505--112020574 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 30
112020495 TTTATGTACA
* *
112020505 TATGTATATATATATATTTTGTACATATTAT
1 TATGTATATAT-TATATGTTGTAAATATTAT
* *
112020536 TAT-TTTATATTAT-TGTTGTAAAT-TTTT
1 TATGTATATATTATATGTTGTAAATATTAT
112020563 TATGTATATATT
1 TATGTATATATT
112020575 TTTTATGTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
27 6 0.18
28 15 0.45
29 3 0.09
30 6 0.18
31 3 0.09
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.60
Consensus pattern (30 bp):
TATGTATATATTATATGTTGTAAATATTAT
Found at i:112032921 original size:98 final size:98
Alignment explanation
Indices: 112032752--112032945 Score: 370
Period size: 98 Copynumber: 2.0 Consensus size: 98
112032742 CCGTGTGAGG
112032752 CACACGGCCTGTTCACATAGGCGTGTGACCCCTGTATGCATGAAAATTTTCTAAGTTCCCCAAAG
1 CACACGGCCTGTTCACATAGGCGTGTGACCCCTGTATGCATGAAAATTTTCTAAGTTCCCCAAAG
*
112032817 TTTTCAAATGTTATCGATTTCGTCCTAAACCCT
66 TTTTCAAAAGTTATCGATTTCGTCCTAAACCCT
*
112032850 CACACGGCCTGTTCACATAGGCGTGTGACCCCTGTATGCATGAAAATTTTCTAAGTTTCCCAAAG
1 CACACGGCCTGTTCACATAGGCGTGTGACCCCTGTATGCATGAAAATTTTCTAAGTTCCCCAAAG
112032915 TTTTCAAAAGTTATCGATTTCGTCCTAAACC
66 TTTTCAAAAGTTATCGATTTCGTCCTAAACC
112032946 TCTTCTAACC
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (98 bp):
CACACGGCCTGTTCACATAGGCGTGTGACCCCTGTATGCATGAAAATTTTCTAAGTTCCCCAAAG
TTTTCAAAAGTTATCGATTTCGTCCTAAACCCT
Found at i:112033272 original size:17 final size:17
Alignment explanation
Indices: 112033247--112033283 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
112033237 TAGCAAACCC
*
112033247 CCAAAATTAGTCTAAAA
1 CCAAAATTAATCTAAAA
*
112033264 CCAATATTAATCTAAAA
1 CCAAAATTAATCTAAAA
112033281 CCA
1 CCA
112033284 TGAAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.22, G:0.03, T:0.24
Consensus pattern (17 bp):
CCAAAATTAATCTAAAA
Found at i:112035329 original size:6 final size:6
Alignment explanation
Indices: 112035315--112035357 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
112035305 TAGATACAGT
* * *
112035315 TTCAGA TTTAGA TTTAGA TCCAGA TTCAGA TTCAGA TTACAGA
1 TTCAGA TTCAGA TTCAGA TTCAGA TTCAGA TTCAGA TT-CAGA
112035358 AGTAGATATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (6 bp):
TTCAGA
Found at i:112035342 original size:24 final size:24
Alignment explanation
Indices: 112035305--112035352 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
112035295 CAGTCAAAAA
* *
112035305 TAGATACAGTTTCAGATTTAGATT
1 TAGATACAGATTCAGATTCAGATT
*
112035329 TAGATCCAGATTCAGATTCAGATT
1 TAGATACAGATTCAGATTCAGATT
112035353 ACAGAAGTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (24 bp):
TAGATACAGATTCAGATTCAGATT
Found at i:112042363 original size:3 final size:3
Alignment explanation
Indices: 112042355--112042407 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
112042345 ACGGTTTAAA
* * * * **
112042355 AAT AAT AAT ATT AAT GAT AAT GAT AAT AAT ATT AAT AAT AAT ACG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
112042403 AAT AA
1 AAT AA
112042408 ATAACCCAGA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:112042382 original size:21 final size:21
Alignment explanation
Indices: 112042356--112042396 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
112042346 CGGTTTAAAA
*
112042356 ATAATAATATTAATGATAATG
1 ATAATAATATTAATAATAATG
112042377 ATAATAATATTAATAATAAT
1 ATAATAATATTAATAATAAT
112042397 ACGAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAATAATATTAATAATAATG
Found at i:112042403 original size:21 final size:21
Alignment explanation
Indices: 112042358--112042406 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
112042348 GTTTAAAAAT
* *
112042358 AATAATATTAATGATAATGAT
1 AATAATATTAATAATAATGAG
112042379 AATAATATTAATAATAAT-ACG
1 AATAATATTAATAATAATGA-G
112042400 AATAATA
1 AATAATA
112042407 AATAACCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
AATAATATTAATAATAATGAG
Found at i:112042534 original size:15 final size:15
Alignment explanation
Indices: 112042516--112042575 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
112042506 TTTAAAAATG
*
112042516 ATAATAAATAAAACA
1 ATAATAAATAAAAAA
112042531 ATAAT-AATAAAAGAA
1 ATAATAAATAAAA-AA
* *
112042546 ATGATAAAAAATAAAA
1 ATAATAAATAA-AAAA
112042562 ATAAATAAATAAAA
1 AT-AATAAATAAAA
112042576 GAGTGTAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 7 0.19
15 10 0.28
16 10 0.28
17 9 0.25
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (15 bp):
ATAATAAATAAAAAA
Found at i:112042548 original size:33 final size:33
Alignment explanation
Indices: 112042511--112042577 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
112042501 ATATTTTTAA
*
112042511 AAATGATAATAAATAAAACA-ATAAT-AATAAAAG
1 AAATGATAAAAAATAAAA-ATA-AATAAATAAAAG
112042544 AAATGATAAAAAATAAAAATAAATAAATAAAAG
1 AAATGATAAAAAATAAAAATAAATAAATAAAAG
112042577 A
1 A
112042578 GTGTAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 4 0.13
33 27 0.87
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.19
Consensus pattern (33 bp):
AAATGATAAAAAATAAAAATAAATAAATAAAAG
Found at i:112042571 original size:14 final size:13
Alignment explanation
Indices: 112042516--112042575 Score: 50
Period size: 14 Copynumber: 4.5 Consensus size: 13
112042506 TTTAAAAATG
112042516 ATAATAAATAAAACA
1 ATAA-AAATAAAA-A
* *
112042531 ATAATAATAAAAG
1 ATAAAAATAAAAA
**
112042544 A-AATGATAAAAA
1 ATAAAAATAAAAA
112042556 ATAAAAATAAATAA
1 ATAAAAATAAA-AA
112042570 ATAAAA
1 ATAAAA
112042576 GAGTGTAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
12 10 0.27
13 8 0.22
14 15 0.41
15 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (13 bp):
ATAAAAATAAAAA
Found at i:112043998 original size:44 final size:45
Alignment explanation
Indices: 112043830--112044101 Score: 159
Period size: 44 Copynumber: 6.0 Consensus size: 45
112043820 TTTCACTTTG
* *
112043830 CTCCACTGCAACTTCAAGGAGATAA-GATT-TATAG-TTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGGCTTGT-TAGCTTCAATCTA
* * * * * * * * *
112043873 CTCTAATACAACTTCAGGGATATAAGATTTGCCATGATAGATTTAATCCAA
1 CTCCACTGCAACTTCAGGGAGATAAG----G-CTTGTTAGCTTCAAT-CTA
* *
112043924 C-CCACTACAACCTCAGGG-G-TATAGGACTTGTTA-CTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATA-AGG-CTTGTTAGCTTCAATCTA
* * * *
112043967 TTCCACTGCAACTTCAGGGAGATAAGGCTTG-TCGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTTGTTAGCTTCAATCTA
* * *
112044011 CTCCACTGTAATTTCAGGGAGATAA-GATT-TATAGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGGCTTGT-TAGCTTCAATCTA
* * * * *
112044055 CTCTACTGCAACTTCAGAGAGATAAGGTTTGTTATCTTCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGGCTTGTTAGCTTCAATCTA
112044100 CT
1 CT
112044102 TTAATCTGCT
Statistics
Matches: 171, Mismatches: 40, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
43 26 0.15
44 85 0.50
45 26 0.15
46 3 0.02
48 3 0.02
49 6 0.04
50 19 0.11
51 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTTGTTAGCTTCAATCTA
Found at i:112044052 original size:88 final size:88
Alignment explanation
Indices: 112043738--112044624 Score: 433
Period size: 88 Copynumber: 9.8 Consensus size: 88
112043728 TCGCTTCAAG
* * * * * ** ** * *
112043738 CTGCTCCACTGCAAATTCATGGAGCTAAGATCTGTAGCTTTGATCTGTTCCACTGCAAATTCAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACTGCAACTTCAGG
* ** * *
112043803 GAAATAAGATTTGCTA-TTTTCACT
66 GAGATAAGGCTTG-TAGCTTT-AAT
* * * * *
112043827 TTGCTCCACTGCAACTTCAAGGAGATAAGATTTATAG-TTCAATCTACTCTAATACAACTTCAGG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACTGCAACTTCAGG
* * *
112043891 GATATAAGATTTGCCATGATAGATTTAAT
66 GAGATAAG----G-CTTG-TAGCTTTAAT
** * * * *
112043920 CCAAC-CCACTACAACCTCAGGG-GTATAGGACTTGT-TA-CTTCAATCTATTCCACTGCAACTT
1 -CTGCTCCACTGCAACTTCAGGGAG-ATAAGA-TT-TATAGCTTCAATCTACTCCACTGCAACTT
*
112043981 CAGGGAGATAAGGCTTGTCGCTTTAAT
62 CAGGGAGATAAGGCTTGTAGCTTTAAT
* * * *
112044008 CTGCTCCACTGTAATTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCTACTGCAACTTCAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACTGCAACTTCAGG
*
112044073 GAGATAAGGTTTGTTATCTTCGATCTACTTTAAT
66 GAGATAAGGCTTG-TA-----G-----CTTTAAT
* * * * * **
112044107 CTGCTCCACTGCAACCTCAAGGAGAAAAGATTTGCAATTTGCAGCTTTAATATGTTCCACTG---
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTT---A--T--AGCTTCAATCTACTCCACTGCAA
* * *
112044169 CTTCAGGGAAATAA--CATTCGCTA-TTTTCAGT
59 CTTCAGGGAGATAAGGC-TT-G-TAGCTTT-AAT
* * * * * *
112044200 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATATGCTTCACTGCAACTT-AGG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACTGCAACTTCAGG
** *
112044264 GAGATAAGATTTATAGCTTTAAT
66 GAGATAAGGCTTGTAGCTTTAAT
* * * * * * *
112044287 CTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTACTCCATTGCAACTTCAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTT-ATAGCTTCAATCTACTCCACTGCAACTTCAG
*
112044352 GGAGAT-AGGACTTGTGGCTTTAAT
65 GGAGATAAGG-CTTGTAGCTTTAAT
* ** * * * * * * *
112044376 CTGTTCTTCTGCAAATTCAGGGAAATAAGATTCATAGCTTTAATCTGCTCTACTGCAACTTCAGA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACTGCAACTTCAGG
* * * *
112044441 GAGATAA-GATTGCTATCTTCAGT
66 GAGATAAGGCTTG-TAGCTTTAAT
* * * * *
112044464 CTGCTCCACTGCAACTTCAGGGAGATAAG-GTT-TGGCTTTAATCTGCTCCACTACAACTTCAGG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACTGCAACTTCAGG
** **
112044527 GAGATAAGATTTGTTTATTTTTAA-
66 GAGATAAGGCTTG--TAGCTTTAAT
** * * * * * * *
112044551 CTTGCTCCACTATAATTTTAGGGAGATAAGTTTTATGGCTTTAATCTACTTCACTACAACTTCAG
1 C-TGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACTGCAACTTCAG
112044616 GGAGATAAG
65 GGAGATAAG
112044625 ATTCACCATG
Statistics
Matches: 608, Mismatches: 138, Indels: 103
0.72 0.16 0.12
Matches are distributed among these distances:
86 51 0.08
87 47 0.08
88 214 0.35
89 89 0.15
90 38 0.06
92 4 0.01
93 56 0.09
94 39 0.06
95 1 0.00
99 35 0.06
102 3 0.00
103 15 0.02
104 1 0.00
106 15 0.02
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (88 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACTGCAACTTCAGG
GAGATAAGGCTTGTAGCTTTAAT
Found at i:112044258 original size:44 final size:44
Alignment explanation
Indices: 112044199--112044627 Score: 391
Period size: 44 Copynumber: 9.8 Consensus size: 44
112044189 CTATTTTCAG
* * *
112044199 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAA
* * *
112044243 TATGCTTCACTGCAACTT-AGGGAGATAAGATTTATAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAA
* * * * * *
112044286 TCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAA
* * * * *
112044331 TCTACTCCATTGCAACTTCAGGGAGATAGGACTTGTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAA
* ** * * **
112044375 TCTGTTCTTCTGCAAATTCAGGGAAATAAGATTCATAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAA
* * * * *
112044419 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAA
*
112044463 TCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG--GCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAA
* **
112044505 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTTTATTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG--TAGCTTTAA
** * * * * *
112044551 -CTTGCTCCACTATAATTTTAGGGAGATAAGTTTTATGGCTTTAA
1 TC-TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAA
* * *
112044595 TCTACTTCACTACAACTTCAGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
112044628 CACCATGATA
Statistics
Matches: 303, Mismatches: 72, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
42 37 0.12
43 36 0.12
44 158 0.52
45 39 0.13
46 33 0.11
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAA
Found at i:112044557 original size:132 final size:131
Alignment explanation
Indices: 112044169--112044538 Score: 494
Period size: 132 Copynumber: 2.8 Consensus size: 131
112044159 TGTTCCACTG
* * * * *
112044169 CTTCAGGGAAATAACATTCGCTATTTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
1 CTTCAGAGAGATAAGATT-GCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG-GTTG
** * * *
112044234 TAACTTCAATATGCTTCACTGCAACTT-AGGGAGATAAGATTTATAGCTTTAATCTGCTCTACTA
64 TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTGCTCTACTA
112044298 CAA
129 CAA
* *
112044301 CTTCAGAGAGATAAGATTTGCTATCTTCAGTCTACTCCATTGCAACTTCAGGGAGAT-AGGACTT
1 CTTCAGAGAGATAAGA-TTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGG--TT
* ** * * *
112044365 GTGGCTTTAATCTGTTCTTCTGCAAATTCAGGGAAATAAGATTCATAGCTTTAATCTGCTCTACT
63 GTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTGCTCTACT
*
112044430 GCAA
128 ACAA
112044434 CTTCAGAGAGATAAGATTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGTT-TG
1 CTTCAGAGAGATAAGATTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGTG
*
112044498 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTT
66 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
112044539 GTTTATTTTT
Statistics
Matches: 205, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
130 36 0.18
131 4 0.02
132 107 0.52
133 58 0.28
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (131 bp):
CTTCAGAGAGATAAGATTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGTTGTG
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTTAATCTGCTCTACTACA
A
Found at i:112044576 original size:220 final size:220
Alignment explanation
Indices: 112044199--112044629 Score: 521
Period size: 220 Copynumber: 2.0 Consensus size: 220
112044189 CTATTTTCAG
* *
112044199 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATATGCTTCACTGCAACTTAGG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCAATATGCTCCACTGCAACTTAGG
* * *
112044264 GAGATAAGATTTATAGCTTTAATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTC
66 GAGATAAGAGTTATAGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGCTATCTTA
* * * * * * * *
112044329 AGTCTACTCCATTGCAACTTCAGGGAGATAGGACTTGTGGCTTTAATCT-GTTCTTCTGCAAATT
131 ACTCTACTCCACTACAACTTCAGGGAGATAAGACTTATGGCTTTAATCTACTTC-ACTACAAATT
112044393 CAGGGAAATAAGATTCATAGCTTTAA
195 CAGGGAAATAAGATTCATAGCTTTAA
* * * *
112044419 TCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTGCTATCTTCAGTCTGCTCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTG-TAACTTCAATATGCTCCACTGCAACTT-A
* * *
112044483 GGGAGATAAG-GTT-TGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTTTATT
64 GGGAGATAAGAGTTATAGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTG-CTA-T
* * * * * **
112044546 TTTAACT-TGCTCCACTATAATTTTAGGGAGATAAGTTTTATGGCTTTAATCTACTTCACTACAA
127 CTTAACTCTACTCCACTACAACTTCAGGGAGATAAGACTTATGGCTTTAATCTACTTCACTACAA
* *
112044610 CTTCAGGGAGATAAGATTCA
192 ATTCAGGGAAATAAGATTCA
112044630 CCATGATAAC
Statistics
Matches: 177, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
219 44 0.25
220 114 0.64
221 19 0.11
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (220 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTCAATATGCTCCACTGCAACTTAGG
GAGATAAGAGTTATAGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGCTATCTTA
ACTCTACTCCACTACAACTTCAGGGAGATAAGACTTATGGCTTTAATCTACTTCACTACAAATTC
AGGGAAATAAGATTCATAGCTTTAA
Found at i:112046300 original size:18 final size:18
Alignment explanation
Indices: 112046277--112046312 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
112046267 GTCGTGTGTG
112046277 CAGTTAAGTGCCAAGATA
1 CAGTTAAGTGCCAAGATA
112046295 CAGTTAAGTGCCAAGATA
1 CAGTTAAGTGCCAAGATA
112046313 TGTGTGATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (18 bp):
CAGTTAAGTGCCAAGATA
Found at i:112046701 original size:19 final size:19
Alignment explanation
Indices: 112046677--112046714 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
112046667 TAGGCCTCAT
112046677 TGGGCCAAGATGGG-TCGTG
1 TGGGCCAA-ATGGGCTCGTG
*
112046696 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
112046715 GGCCTCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.13, C:0.21, G:0.45, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:112047449 original size:33 final size:34
Alignment explanation
Indices: 112047395--112047460 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
112047385 CCACATTGTC
* *
112047395 ACTATATAGGGCTAAGACCCAGACTG-TACTGTT
1 ACTAAATAGGGCTAAGACCCAGACCGTTACTGTT
* *
112047428 ACTAAATAGGGCTCAGGCCCAGACCGTTACTGT
1 ACTAAATAGGGCTAAGACCCAGACCGTTACTGT
112047461 ATGCACTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 22 0.79
34 6 0.21
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (34 bp):
ACTAAATAGGGCTAAGACCCAGACCGTTACTGTT
Found at i:112052670 original size:22 final size:23
Alignment explanation
Indices: 112052645--112052709 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
112052635 CAACCAAATC
112052645 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
112052667 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
** *
112052690 ACGTCATCACATATCTATAA
1 AATTCAT-ACATATTTATAA
112052710 CCAGGTTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 6 0.17
23 18 0.51
24 11 0.31
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:112060435 original size:23 final size:23
Alignment explanation
Indices: 112060392--112060435 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
112060382 TCAATTCAAT
*
112060392 ATATTTTCAAGATAAATTCATGC
1 ATATTTTCAAGATAAAGTCATGC
*
112060415 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
112060436 CACATATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGC
Found at i:112070044 original size:21 final size:21
Alignment explanation
Indices: 112070018--112070057 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
112070008 GGTTTAAAAT
*
112070018 TAATAATATTAATGATAATGA
1 TAATAATATTAATAATAATGA
112070039 TAATAATATTAATAATAAT
1 TAATAATATTAATAATAAT
112070058 ACGAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TAATAATATTAATAATAATGA
Found at i:112070064 original size:21 final size:21
Alignment explanation
Indices: 112070019--112070067 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
112070009 GTTTAAAATT
* *
112070019 AATAATATTAATGATAATGAT
1 AATAATATTAATAATAATGAG
112070040 AATAATATTAATAATAAT-ACG
1 AATAATATTAATAATAATGA-G
112070061 AATAATA
1 AATAATA
112070068 AATAATCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
AATAATATTAATAATAATGAG
Found at i:112070209 original size:12 final size:12
Alignment explanation
Indices: 112070194--112070220 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
112070184 ATAAAACAAT
112070194 AATGATAAATAA
1 AATGATAAATAA
112070206 AATGATAAATAA
1 AATGATAAATAA
112070218 AAT
1 AAT
112070221 AAATAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (12 bp):
AATGATAAATAA
Found at i:112070213 original size:18 final size:18
Alignment explanation
Indices: 112070173--112070207 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
112070163 TATTTTTAAA
112070173 AATAATAATAAATAAAAC
1 AATAATAATAAATAAAAC
*
112070191 AATAATGATAAATAAAA
1 AATAATAATAAATAAAA
112070208 TGATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
AATAATAATAAATAAAAC
Found at i:112081553 original size:21 final size:20
Alignment explanation
Indices: 112081529--112081571 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
112081519 AGTATATTTA
*
112081529 TTATTACTATTATTATTATCG
1 TTATTACTATTATCATTA-CG
112081550 TTATTACTATTATCATTACG
1 TTATTACTATTATCATTACG
112081570 TT
1 TT
112081572 TCCACATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (20 bp):
TTATTACTATTATCATTACG
Found at i:112081621 original size:14 final size:14
Alignment explanation
Indices: 112081602--112081634 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
112081592 TTGCTATTAC
112081602 TATTTATCTAATTT-
1 TATTTATCT-ATTTA
112081616 TATTTATCTATTTA
1 TATTTATCTATTTA
112081630 TATTT
1 TATTT
112081635 CTATTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTATCTATTTA
Found at i:112081679 original size:3 final size:3
Alignment explanation
Indices: 112081671--112081705 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
112081661 GTATTTCTAT
112081671 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
112081706 TGTTTTTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:112081738 original size:26 final size:28
Alignment explanation
Indices: 112081683--112081747 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
112081673 ATTATTATTA
*
112081683 TTATTATTATTATTATTATTATTTGTTT
1 TTATTACTATTATTATTATTATTTGTTT
*
112081711 TTACTTACTATTATT-TT-TTTTTTG-TT
1 TTA-TTACTATTATTATTATTATTTGTTT
112081737 TTATTACTATT
1 TTATTACTATT
112081748 TTACTGTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 8 0.24
26 5 0.15
27 6 0.18
28 5 0.15
29 10 0.29
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.71
Consensus pattern (28 bp):
TTATTACTATTATTATTATTATTTGTTT
Found at i:112081851 original size:12 final size:12
Alignment explanation
Indices: 112081813--112081853 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
112081803 TTCGTTGTTA
*
112081813 TTATTATTATCA
1 TTATTATTATCT
*
112081825 TTATTACTATCT
1 TTATTATTATCT
*
112081837 TTATTATTATTT
1 TTATTATTATCT
112081849 TTATT
1 TTATT
112081854 TTTTGCTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTATTATCT
Found at i:112082025 original size:24 final size:23
Alignment explanation
Indices: 112081982--112082066 Score: 89
Period size: 24 Copynumber: 3.6 Consensus size: 23
112081972 TCTAAACCGT
* *
112081982 TTTTCTATGTTATTCATTTTAAAA
1 TTTT-TATATTATTTATTTTAAAA
*
112082006 TTTTTATATTATTTATTTTTAAAC
1 TTTTTATATTATTTA-TTTTAAAA
* *
112082030 TCTTTATATTATTTAGTTTAAAA
1 TTTTTATATTATTTATTTTAAAA
*
112082053 TTTTATACATTATT
1 TTTT-TATATTATT
112082067 CATTCGAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
23 18 0.35
24 33 0.65
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTTATATTATTTATTTTAAAA
Found at i:112083494 original size:22 final size:23
Alignment explanation
Indices: 112083469--112083514 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
112083459 CAACCAAACC
112083469 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
112083491 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
112083514 A
1 A
112083515 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:112083520 original size:23 final size:23
Alignment explanation
Indices: 112083476--112083520 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
112083466 ACCAATTCAA
*
112083476 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
112083499 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
112083521 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:112086701 original size:28 final size:28
Alignment explanation
Indices: 112086670--112086784 Score: 115
Period size: 28 Copynumber: 4.1 Consensus size: 28
112086660 GGAGCTTACA
*
112086670 AAATAGAAAGCTCGCACGAAGCAA-AGCT
1 AAATAGAAAGCTCGCACAAAG-AAGAGCT
*
112086698 AAATAGAAAGCTCACACAAAGAAGAGCT
1 AAATAGAAAGCTCGCACAAAGAAGAGCT
* * * *
112086726 AAACAGAGAGCTCGCATAAAGTAGAGCT
1 AAATAGAAAGCTCGCACAAAGAAGAGCT
* * * * *
112086754 AAACAGAGAGTTCGCATAAAGTAGAGCT
1 AAATAGAAAGCTCGCACAAAGAAGAGCT
112086782 AAA
1 AAA
112086785 ACATTTGTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 2 0.03
28 76 0.97
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (28 bp):
AAATAGAAAGCTCGCACAAAGAAGAGCT
Found at i:112087630 original size:57 final size:58
Alignment explanation
Indices: 112087526--112087641 Score: 144
Period size: 57 Copynumber: 2.0 Consensus size: 58
112087516 TAGGAATGTA
* * * * *
112087526 AAAATGGAGAAATGGGAAATATTTGGAAATGATTATGATTTTATCCAAAATGAAAATG
1 AAAATAGAGAAATGGGAAACATTTGAAAATGAATATGATTTTATCCAAAATAAAAATG
* * * *
112087584 AAAATAGAGAAAT-GGAACCATTTGAAAATGAATGTGGTTTTCTCCAAAATAAAAATG
1 AAAATAGAGAAATGGGAAACATTTGAAAATGAATATGATTTTATCCAAAATAAAAATG
112087641 A
1 A
112087642 CCTGTAAACG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 37 0.76
58 12 0.24
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (58 bp):
AAAATAGAGAAATGGGAAACATTTGAAAATGAATATGATTTTATCCAAAATAAAAATG
Found at i:112092107 original size:19 final size:19
Alignment explanation
Indices: 112092083--112092131 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
112092073 CGAAAAATGA
112092083 TTTCTGGAAAATAACTTAT
1 TTTCTGGAAAATAACTTAT
*
112092102 TTTCTGGAAAATAATTTAT
1 TTTCTGGAAAATAACTTAT
112092121 TTTCTGGAAAA
1 TTTCTGGAAAA
112092132 GCAAATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (19 bp):
TTTCTGGAAAATAACTTAT
Found at i:112092140 original size:19 final size:19
Alignment explanation
Indices: 112092083--112092141 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
112092073 CGAAAAATGA
*
112092083 TTTCTGGAAAATAACT-TAT
1 TTTCTGGAAAACAA-TATAT
* *
112092102 TTTCTGGAAAATAATTTAT
1 TTTCTGGAAAACAATATAT
112092121 TTTCTGGAAAAGCAA-ATAT
1 TTTCTGGAAAA-CAATATAT
112092140 TT
1 TT
112092142 CTTGGTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.03
19 33 0.92
20 2 0.06
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (19 bp):
TTTCTGGAAAACAATATAT
Found at i:112092601 original size:15 final size:15
Alignment explanation
Indices: 112092581--112092634 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
112092571 ATACTACAAA
112092581 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
112092596 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
112092613 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
112092630 ATATT
1 ATATT
112092635 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:112092698 original size:16 final size:16
Alignment explanation
Indices: 112092667--112092703 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
112092657 ATGTGAATAA
112092667 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
112092683 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
112092699 TATTA
1 TATTA
112092704 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:112092755 original size:22 final size:22
Alignment explanation
Indices: 112092715--112092770 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
112092705 AATAAAATTG
*
112092715 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
112092735 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
112092757 TATTAATAATTTAT
1 AAATAATAAATTAT
112092771 TATATGAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:112092770 original size:16 final size:16
Alignment explanation
Indices: 112092749--112092781 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
112092739 AATAAATTAT
*
112092749 ATTTATTATATTAATA
1 ATTTATTATATGAATA
112092765 ATTTATTATATGAATA
1 ATTTATTATATGAATA
112092781 A
1 A
112092782 ATATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:112104675 original size:16 final size:17
Alignment explanation
Indices: 112104644--112104676 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
112104634 TTAATATTTC
*
112104644 AATTTTATTTAATAATA
1 AATTTTATTAAATAATA
112104661 AATTTT-TTAAATAATA
1 AATTTTATTAAATAATA
112104677 TTTTTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTTTATTAAATAATA
Found at i:112104718 original size:15 final size:15
Alignment explanation
Indices: 112104651--112104754 Score: 62
Period size: 15 Copynumber: 7.2 Consensus size: 15
112104641 TTCAATTTTA
112104651 TTTAATAATAAAT-T
1 TTTAATAATAAATAT
*
112104665 TTTTA-AAT-AATAT
1 TTTAATAATAAATAT
*
112104678 TTT--TGA-AAATA-
1 TTTAATAATAAATAT
* *
112104689 TTCAAT-ATTAATAT
1 TTTAATAATAAATAT
112104703 TTTAATAATAAATATT
1 TTTAATAATAAATA-T
*
112104719 TATTACATTTATAAATAT
1 T-TTA-A-TAATAAATAT
*
112104737 ATTAATAATAAATAT
1 TTTAATAATAAATAT
112104752 TTT
1 TTT
112104755 GTAGTATAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 23
0.67 0.10 0.23
Matches are distributed among these distances:
11 2 0.03
12 9 0.13
13 12 0.18
14 9 0.13
15 17 0.25
16 3 0.04
17 6 0.09
18 2 0.03
19 8 0.12
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (15 bp):
TTTAATAATAAATAT
Found at i:112105168 original size:23 final size:22
Alignment explanation
Indices: 112105133--112105179 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
112105123 CCTAGTATAA
112105133 AAATATGAATATTTTAATTAAAT
1 AAATATGAATA-TTTAATTAAAT
* * *
112105156 AAATTTGAGTATTTATTTAAAT
1 AAATATGAATATTTAATTAAAT
112105178 AA
1 AA
112105180 TGCTTAGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (22 bp):
AAATATGAATATTTAATTAAAT
Found at i:112110292 original size:51 final size:51
Alignment explanation
Indices: 112110230--112110365 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
112110220 TTGAAACATG
*
112110230 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * **
112110281 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
112110332 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
112110366 TTGATGGTAG
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:112113191 original size:51 final size:51
Alignment explanation
Indices: 112113129--112113264 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 51
112113119 TTGAAACATG
*
112113129 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * **
112113180 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
112113231 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
112113265 TTGATGGTAG
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:112117064 original size:19 final size:19
Alignment explanation
Indices: 112117028--112117064 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
112117018 TAATTAGGCT
* *
112117028 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
112117047 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
112117065 AAAAAAATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:112122206 original size:24 final size:24
Alignment explanation
Indices: 112122179--112122226 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
112122169 AAACAAATAA
112122179 CCTAATTGAAATCAAAGTAAAATT
1 CCTAATTGAAATCAAAGTAAAATT
112122203 CCTAATTGAAATCAAAGTAAAATT
1 CCTAATTGAAATCAAAGTAAAATT
112122227 AAAAAGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.29
Consensus pattern (24 bp):
CCTAATTGAAATCAAAGTAAAATT
Found at i:112124331 original size:25 final size:27
Alignment explanation
Indices: 112124294--112124347 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
112124284 TCAAACATGC
112124294 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
112124320 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
112124346 AT
1 AT
112124348 AATAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:112124355 original size:26 final size:26
Alignment explanation
Indices: 112124326--112124385 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
112124316 GGGTATTTCG
* *
112124326 GTAATTTTGC-ACCTAGGGGTATAATA
1 GTAATTTTCCAACATAGGGG-ATAATA
*
112124352 GTAATTTTCCATACATAGGGGATTATA
1 GTAATTTTCCA-ACATAGGGGATAATA
112124379 GTAATTT
1 GTAATTT
112124386 AGCTATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 12 0.41
28 8 0.28
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (26 bp):
GTAATTTTCCAACATAGGGGATAATA
Found at i:112125865 original size:26 final size:26
Alignment explanation
Indices: 112125834--112125941 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
112125824 TGAAATGCCC
*
112125834 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
112125860 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
112125886 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
112125912 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
112125938 ATCA
1 ATCA
112125942 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:112126432 original size:70 final size:75
Alignment explanation
Indices: 112126358--112126533 Score: 202
Period size: 70 Copynumber: 2.3 Consensus size: 75
112126348 ATGTGAACAA
*
112126358 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATT-AT-G-AATTATATGAATATTTGA
1 ATTGGAAATTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAAATATATGAATATTTGA
112126418 AA-GTATATTG
65 AATGTATATTG
* *
112126428 ATTGGAAATTAAAAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 ATTGGAAATTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAAATATATGAATATT
112126493 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
112126507 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAATTAA-AAGTGATTTGAATT
112126534 TGACTGGAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
70 27 0.30
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 17 0.19
79 18 0.20
80 13 0.15
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.38
Consensus pattern (75 bp):
ATTGGAAATTAAAAGTGATTTGAATTGAATAAATTGAATTAATAGAAAATATATGAATATTTGAA
ATGTATATTG
Found at i:112126561 original size:13 final size:14
Alignment explanation
Indices: 112126541--112126579 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
112126531 ATTTGACTGG
112126541 AAATGAATTAAA-A
1 AAATGAATTAAATA
*
112126554 ATATGAATTAAATA
1 AAATGAATTAAATA
112126568 AAAGTGAATTAA
1 AAA-TGAATTAA
112126580 TTTTTGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAATGAATTAAATA
Found at i:112126926 original size:23 final size:23
Alignment explanation
Indices: 112126892--112126980 Score: 103
Period size: 23 Copynumber: 4.0 Consensus size: 23
112126882 ATTGGCATGC
112126892 CAGGCACTTTATGTGTCGTATAT
1 CAGGCACTTTATGTGTCGTATAT
* *
112126915 CAGACACTTTATGTGTCGTATTT
1 CAGGCACTTTATGTGTCGTATAT
* **
112126938 CAGGCACCTCGTGTGTCGT-T-T
1 CAGGCACTTTATGTGTCGTATAT
*
112126959 TAGGCAC-TTATGTGTCGTATAT
1 CAGGCACTTTATGTGTCGTATAT
112126981 TGATAGGTAC
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 9 0.16
21 8 0.15
22 2 0.04
23 36 0.65
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (23 bp):
CAGGCACTTTATGTGTCGTATAT
Found at i:112133313 original size:13 final size:14
Alignment explanation
Indices: 112133278--112133317 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
112133268 TATTACAAAA
112133278 TGTCTTTGTTTTTCT
1 TGTCTTTG-TTTTCT
*
112133293 TTTCTTTGTTTT-T
1 TGTCTTTGTTTTCT
112133306 TGTCTTTGTTTT
1 TGTCTTTGTTTT
112133318 GTAGGTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 4 0.17
15 7 0.30
ACGTcount: A:0.00, C:0.10, G:0.12, T:0.78
Consensus pattern (14 bp):
TGTCTTTGTTTTCT
Found at i:112140634 original size:17 final size:17
Alignment explanation
Indices: 112140614--112140648 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
112140604 TGGATCAATA
112140614 TTTGTAATTTTGGCAAC
1 TTTGTAATTTTGGCAAC
112140631 TTTGTAATTTTGGCAAC
1 TTTGTAATTTTGGCAAC
112140648 T
1 T
112140649 CCGATCCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (17 bp):
TTTGTAATTTTGGCAAC
Found at i:112140957 original size:44 final size:46
Alignment explanation
Indices: 112140903--112140996 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
112140893 ATTACAACAT
* *
112140903 CATTCTATTCAACCAAACACA-AGAA-TAC-CATTACAGTTTTATTC
1 CATTCCATTCAACCAAACA-ATAGAATTACTCATTACAGTTCTATTC
* *
112140947 CATTCCATTCAACCAAACAATTGAATTACTGATTACAGTTCTATTC
1 CATTCCATTCAACCAAACAATAGAATTACTCATTACAGTTCTATTC
112140993 CATT
1 CATT
112140997 ACAACTCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 3 0.07
46 18 0.42
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (46 bp):
CATTCCATTCAACCAAACAATAGAATTACTCATTACAGTTCTATTC
Found at i:112140999 original size:16 final size:16
Alignment explanation
Indices: 112140978--112141033 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
112140968 TGAATTACTG
*
112140978 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
112140994 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
112141010 GTTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
112141026 ATTACAGC
1 ATTACAGC
112141034 GAACCAAACG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:112176073 original size:6 final size:6
Alignment explanation
Indices: 112176062--112176090 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
112176052 TTTCAACTTG
112176062 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
112176091 GCGTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:112176097 original size:18 final size:18
Alignment explanation
Indices: 112176062--112176101 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
112176052 TTTCAACTTG
*
112176062 TTTTTCTTTTTCTTTTTC
1 TTTTTCTTTTTCTGTTTC
112176080 TTTTTCTTTTTGC-GTTTC
1 TTTTTCTTTTT-CTGTTTC
112176098 TTTT
1 TTTT
112176102 GCACTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTTTCTTTTTCTGTTTC
Found at i:112178684 original size:46 final size:45
Alignment explanation
Indices: 112178634--112178806 Score: 208
Period size: 46 Copynumber: 3.8 Consensus size: 45
112178624 TGGTTGAGCA
112178634 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* * * *
112178680 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
*
112178725 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
*
112178773 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
112178807 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:112178790 original size:93 final size:93
Alignment explanation
Indices: 112178631--112178801 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
112178621 GGATGGTTGA
* *
112178631 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAGT
112178696 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
112178724 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAGT
112178789 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
112178802 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:112182989 original size:9 final size:9
Alignment explanation
Indices: 112182975--112183018 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
112182965 ATAATCAAAA
112182975 TGAGAGAGT
1 TGAGAGAGT
*
112182984 TGAGAGACT
1 TGAGAGAGT
* *
112182993 TAAGAGGGTT
1 TGAGAGAG-T
112183003 TGAGAGAGT
1 TGAGAGAGT
112183012 TGAGAGA
1 TGAGAGA
112183019 AGGATGTGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.34, C:0.02, G:0.41, T:0.23
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:112184533 original size:124 final size:124
Alignment explanation
Indices: 112184311--112184541 Score: 363
Period size: 124 Copynumber: 1.9 Consensus size: 124
112184301 TTCCATTAAG
* *
112184311 AGTGTTCTTGTAATTATAATACTCTAAAATTTGTATGTTATGAGCTCATTAAGAATACATTACTC
1 AGTGTTCTCGTAATTATAACACTCTAAAATTTGTATGTTATGAGCTCATTAAGAATACATTACTC
* *
112184376 ATCATTCCCTTATCATTACATGTATCTAACACTTTAATCTTAGGATGAAATTATTTTAT
66 ATCATTCCCTTATCATTACAAGTACCTAACACTTTAATCTTAGGATGAAATTATTTTAT
* * * *
112184435 AGTGTTCTCGTAATTATAACACTCTAAAATTTTTATGTTATGAGTTCATTAAGAGTATATTACTC
1 AGTGTTCTCGTAATTATAACACTCTAAAATTTGTATGTTATGAGCTCATTAAGAATACATTACTC
* * *
112184500 ATCCTTCCCTTATTATTACAAGTACCTAGCACTTTAATCTTA
66 ATCATTCCCTTATCATTACAAGTACCTAACACTTTAATCTTA
112184542 AGTTTCCATC
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
124 96 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (124 bp):
AGTGTTCTCGTAATTATAACACTCTAAAATTTGTATGTTATGAGCTCATTAAGAATACATTACTC
ATCATTCCCTTATCATTACAAGTACCTAACACTTTAATCTTAGGATGAAATTATTTTAT
Found at i:112185969 original size:16 final size:16
Alignment explanation
Indices: 112185948--112186002 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
112185938 GACCTTTTAG
112185948 ATTTTTGAATATTTTT
1 ATTTTTGAATATTTTT
** ** *
112185964 ATTTTTCTACCTTTTAG
1 ATTTTTGAATATTTT-T
112185981 ATTTTTGAATATTTTT
1 ATTTTTGAATATTTTT
112185997 ATTTTT
1 ATTTTT
112186003 CTATCTTTAT
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
16 17 0.61
17 11 0.39
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.67
Consensus pattern (16 bp):
ATTTTTGAATATTTTT
Found at i:112185981 original size:33 final size:33
Alignment explanation
Indices: 112185939--112186010 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
112185929 ACGTATAAAG
112185939 ACCTTTTAGATTTTTGAATATTTTTATTTTTCT
1 ACCTTTTAGATTTTTGAATATTTTTATTTTTCT
112185972 ACCTTTTAGATTTTTGAATATTTTTATTTTTCT
1 ACCTTTTAGATTTTTGAATATTTTTATTTTTCT
*
112186005 ATCTTT
1 ACCTTT
112186011 ATTTTGAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.21, C:0.10, G:0.06, T:0.64
Consensus pattern (33 bp):
ACCTTTTAGATTTTTGAATATTTTTATTTTTCT
Found at i:112185995 original size:17 final size:17
Alignment explanation
Indices: 112185942--112185995 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
112185932 TATAAAGACC
112185942 TTTTAGATTTTTGAATA
1 TTTTAGATTTTTGAATA
* ** **
112185959 TTTT-TATTTTTCTACC
1 TTTTAGATTTTTGAATA
112185975 TTTTAGATTTTTGAATA
1 TTTTAGATTTTTGAATA
112185992 TTTT
1 TTTT
112185996 TATTTTTCTA
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.22, C:0.06, G:0.07, T:0.65
Consensus pattern (17 bp):
TTTTAGATTTTTGAATA
Found at i:112186796 original size:30 final size:30
Alignment explanation
Indices: 112186760--112186826 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
112186750 TAACCAACTT
*
112186760 ATTAATTGGGGGAAAAATCTATTATTTAAA
1 ATTAATTGGGGAAAAAATCTATTATTTAAA
112186790 ATTAATTGGGGAAAAAATCTATTATTTAAA
1 ATTAATTGGGGAAAAAATCTATTATTTAAA
112186820 ATTAATT
1 ATTAATT
112186827 TGAAGTCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (30 bp):
ATTAATTGGGGAAAAAATCTATTATTTAAA
Found at i:112189097 original size:22 final size:22
Alignment explanation
Indices: 112189027--112189097 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
112189017 TCTAAAAATT
*
112189027 ATAAAAATATAAATATTAA-AATA
1 ATAAAAATAT-AAT-TTAATCATA
* * * *
112189050 ATAAAATTATATTTTTATCATC
1 ATAAAAATATAATTTAATCATA
*
112189072 ATAAAAATATAATTTAATCTTA
1 ATAAAAATATAATTTAATCATA
112189094 ATAA
1 ATAA
112189098 CTTTATAAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
21 3 0.08
22 25 0.68
23 9 0.24
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATATAATTTAATCATA
Found at i:112191251 original size:30 final size:30
Alignment explanation
Indices: 112191215--112191279 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
112191205 CAACTTAACA
*
112191215 AACAAATGTCTCT-AAAATAATAAAAAAATT
1 AACAAATGCCT-TAAAAATAATAAAAAAATT
*
112191245 AACAAATGCCTTAAAAATAATAACAAAATT
1 AACAAATGCCTTAAAAATAATAAAAAAATT
112191275 AACAA
1 AACAA
112191280 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (30 bp):
AACAAATGCCTTAAAAATAATAAAAAAATT
Found at i:112193208 original size:28 final size:29
Alignment explanation
Indices: 112193158--112193214 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
112193148 TTCTTCAGAT
* *
112193158 TTTGCCACGAAGGCGTTCTTTTAACAAAG
1 TTTGCCACGAAGGCATTCCTTTAACAAAG
*
112193187 TTTGCCAC-AAGGCATTCCTTTAATAAAG
1 TTTGCCACGAAGGCATTCCTTTAACAAAG
112193215 ATGGCAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (29 bp):
TTTGCCACGAAGGCATTCCTTTAACAAAG
Found at i:112193267 original size:29 final size:29
Alignment explanation
Indices: 112193225--112193324 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 29
112193215 ATGGCAATAG
*
112193225 AGATAGCCACAAAGGCATTCATTTAACTT
1 AGATAGCCACAAAGACATTCATTTAACTT
* *
112193254 AGATAGCCACAAAGATATTCATTTAACTG
1 AGATAGCCACAAAGACATTCATTTAACTT
* * * *
112193283 AGATAGCCAAAAACACA-TCCTTTAACAT
1 AGATAGCCACAAAGACATTCATTTAACTT
* *
112193311 AAATCGCCACAAAG
1 AGATAGCCACAAAG
112193325 GCTTTCCTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 18 0.31
29 40 0.69
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.23
Consensus pattern (29 bp):
AGATAGCCACAAAGACATTCATTTAACTT
Found at i:112193400 original size:29 final size:27
Alignment explanation
Indices: 112193223--112193412 Score: 76
Period size: 29 Copynumber: 6.6 Consensus size: 27
112193213 AGATGGCAAT
112193223 AGAGATAGCCACAAAGGCA-TTCATTTAAC
1 AGAGATAGCCACAAA-G-ATTTC-TTTAAC
**
112193252 TTAGATAGCCACAAAGATATTCATTTAAC
1 AGAGATAGCCACAAAGAT-TTC-TTTAAC
* * * * *
112193281 TGAGATAGCCAAAAACACATCCTTTAAC
1 AGAGATAGCCACAAAGA-TTTCTTTAAC
* * * * *
112193309 ATAAATCGCCACAAAGGCTTTCCTATAAC
1 AGAGATAGCCACAAA-GATTT-CTTTAAC
* * ** *
112193338 AGGGGATTGCCACAAAGGCTTCTTGATAAT
1 A-GAGATAGCCACAAAGATTTCTT--TAAC
*
112193368 AGAGATCGCCACAAAGATTTCCATTTAAC
1 AGAGATAGCCACAAAGATTT-C-TTTAAC
* *
112193397 AGAGATCGCTACAAAG
1 AGAGATAGCCACAAAG
112193413 GCTTCATTTC
Statistics
Matches: 120, Mismatches: 31, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
27 1 0.01
28 20 0.17
29 82 0.68
30 15 0.12
31 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.24
Consensus pattern (27 bp):
AGAGATAGCCACAAAGATTTCTTTAAC
Found at i:112194167 original size:46 final size:46
Alignment explanation
Indices: 112194102--112194379 Score: 380
Period size: 46 Copynumber: 6.0 Consensus size: 46
112194092 TTATCTTTGA
* * * * ** *
112194102 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
**
112194148 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
112194194 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* *
112194240 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTGATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
112194286 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
*
112194332 C-TGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CAT-GTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
112194378 CA
1 CA
112194380 GAGAGCACAC
Statistics
Matches: 210, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
45 4 0.02
46 202 0.96
47 4 0.02
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:112196490 original size:11 final size:11
Alignment explanation
Indices: 112196475--112196506 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
112196465 ATTAATAAAA
112196475 AAAATAATAAT
1 AAAATAATAAT
*
112196486 GAAATAATAAT
1 AAAATAATAAT
112196497 AAAATAATAA
1 AAAATAATAA
112196507 AATATCTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:112196496 original size:14 final size:12
Alignment explanation
Indices: 112196460--112196506 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
112196450 CTTTTATACT
112196460 AAATAATTAATAA
1 AAATAA-TAATAA
*
112196473 AAAAAATAATAA
1 AAATAATAATAA
112196485 TGAAATAATAAT-A
1 --AAATAATAATAA
112196498 AAATAATAA
1 AAATAATAA
112196507 AATATCTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.30
12 6 0.20
13 6 0.20
14 9 0.30
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:112196533 original size:20 final size:21
Alignment explanation
Indices: 112196480--112196555 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
112196470 TAAAAAAAAT
* *
112196480 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
112196499 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
112196520 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
112196541 TAATCATAAAATATC
1 -AATAATAAAATATC
112196556 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:112197972 original size:56 final size:56
Alignment explanation
Indices: 112197910--112198023 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
112197900 TTATCATTCT
112197910 CAAGTACTATAAAACATTTATCCGTACTTTTACGAGTTCTACTTCATCATAACTAA
1 CAAGTACTATAAAACATTTATCCGTACTTTTACGAGTTCTACTTCATCATAACTAA
*
112197966 CAAGTACTATAAAACATTTATCTGTACTTTTACGAGTTCTACTTCATCATAACTAA
1 CAAGTACTATAAAACATTTATCCGTACTTTTACGAGTTCTACTTCATCATAACTAA
112198022 CA
1 CA
112198024 TTTTTACTCA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (56 bp):
CAAGTACTATAAAACATTTATCCGTACTTTTACGAGTTCTACTTCATCATAACTAA
Found at i:112199512 original size:46 final size:46
Alignment explanation
Indices: 112199447--112199720 Score: 329
Period size: 46 Copynumber: 6.0 Consensus size: 46
112199437 TTATCTTTGA
* * * *
112199447 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
** *
112199493 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
112199539 CACGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
** * * *
112199585 CATGTTATCATGGTATCTTTCAACCATGGTCTTATTGATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
112199631 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAG-
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT-GT
* *
112199677 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
112199721 ATCGGAGAGC
Statistics
Matches: 199, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
45 8 0.04
46 187 0.94
47 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:112199609 original size:92 final size:92
Alignment explanation
Indices: 112199452--112199723 Score: 386
Period size: 92 Copynumber: 3.0 Consensus size: 92
112199442 TTTGACATGA
* * *
112199452 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
*
112199517 CATGGTCTTGTTCATTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGT
* * **
112199544 TGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTCTGTCATGTTATCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
* *
112199609 CATGGTCTTATTGATTTCATATCAGGT
66 CATGGTCTTATTCATTTCATATCACGT
* *
112199636 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAG-CAAGTTGCCATGGTATCTTTCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-T-GTCATGTTGCCATGGTATCTTTCA
**
112199699 ACCATGGTCTTACACATTTCATATC
64 ACCATGGTCTTATTCATTTCATATC
112199724 GGAGAGCACA
Statistics
Matches: 159, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
91 4 0.03
92 154 0.97
93 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCACGT
Found at i:112199710 original size:138 final size:138
Alignment explanation
Indices: 112199462--112199710 Score: 383
Period size: 138 Copynumber: 1.8 Consensus size: 138
112199452 TGCCATAGTG
* * * *
112199462 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTG
1 TCTTTCAACCATGGTCTTACTCATTTTCTATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * *
112199527 TTCATTTCATATCACGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTCTGTCATGTTA
66 CACATTTCATAGCAAGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTCTGTCATGTTA
112199592 TCATGGTA
131 TCATGGTA
* *
112199600 TCTTTCAACCATGGTCTTATTGA-TTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTACTCATTTTC-TATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
*
112199664 ACACATTTCATAGCAAGTTGCCATGGTATCTTTCAACCATGGTCTTA
65 ACACATTTCATAGCAAGTTGCCATGGTATCTTCCAACCATGGTCTTA
112199711 CACATTTCAT
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
137 4 0.04
138 95 0.96
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTACTCATTTTCTATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCATAGCAAGTTGCCATGGTATCTTCCAACCATGGTCTTATTCATTTTCTGTCATGTTA
TCATGGTA
Found at i:112201916 original size:18 final size:20
Alignment explanation
Indices: 112201889--112201937 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
112201879 TGAAATATAA
* *
112201889 TAAAATAATAAAATATCTCAT
1 TAAAATAAT-ATATATCTAAT
112201910 TAAAATAATATATATCTAAT
1 TAAAATAATATATATCTAAT
112201930 T-AAATAAT
1 TAAAATAAT
112201938 CATAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 9 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATAATATATATCTAAT
Found at i:112201926 original size:20 final size:21
Alignment explanation
Indices: 112201868--112201948 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
112201858 TAATTAATAA
*
112201868 TAAAATAATAATGAA-ATATAA-
1 TAAAATAATAA--AATATCTAAT
*
112201889 TAAAATAATAAAATATCTCAT
1 TAAAATAATAAAATATCTAAT
*
112201910 TAAAATAAT-ATATATCTAAT
1 TAAAATAATAAAATATCTAAT
*
112201930 TAAATAATCATAAAATATC
1 T-AA-AATAATAAAATATC
112201949 ATCAACATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
19 2 0.04
20 14 0.29
21 22 0.45
22 5 0.10
23 6 0.12
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.33
Consensus pattern (21 bp):
TAAAATAATAAAATATCTAAT
Found at i:112203835 original size:46 final size:46
Alignment explanation
Indices: 112203692--112203835 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
112203682 CCCGCCCATA
* *
112203692 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * *
112203741 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
112203784 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
112203831 AGTGA
1 AGTGA
112203836 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 34 0.44
47 28 0.36
48 6 0.08
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:112208362 original size:13 final size:13
Alignment explanation
Indices: 112208344--112208368 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112208334 AATCACAAAT
112208344 AAATACACATATC
1 AAATACACATATC
112208357 AAATACACATAT
1 AAATACACATAT
112208369 TTTTTTTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATACACATATC
Found at i:112209721 original size:14 final size:14
Alignment explanation
Indices: 112209702--112209745 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
112209692 CATAACTTAT
112209702 ATTATATACATATA
1 ATTATATACATATA
* *
112209716 ATTATATACATTTT
1 ATTATATACATATA
112209730 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
112209746 TATATTGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:112217926 original size:14 final size:14
Alignment explanation
Indices: 112217907--112217950 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
112217897 CATAACTTAT
112217907 ATTATATACATATA
1 ATTATATACATATA
* *
112217921 ATTATATACATTTT
1 ATTATATACATATA
112217935 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
112217951 TATATTGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:112220137 original size:21 final size:21
Alignment explanation
Indices: 112220111--112220179 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
112220101 GGGCACATGC
*
112220111 CCGTGTGGAAGGGCGACACGA
1 CCGTGTAGAAGGGCGACACGA
112220132 CCGTGTAGAAGGGCGACACGA
1 CCGTGTAGAAGGGCGACACGA
*
112220153 CCGTGTAGAAGGGCGACACGC
1 CCGTGTAGAAGGGCGACACGA
112220174 CCGTGT
1 CCGTGT
112220180 GGCGTACACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.23, C:0.26, G:0.39, T:0.12
Consensus pattern (21 bp):
CCGTGTAGAAGGGCGACACGA
Found at i:112221439 original size:48 final size:48
Alignment explanation
Indices: 112221367--112221741 Score: 351
Period size: 48 Copynumber: 7.8 Consensus size: 48
112221357 GTAAACTGCG
* *
112221367 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCC
* * *
112221415 AATGCCATATCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCC
* *
112221463 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATGTTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCC
* * * * *
112221511 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTTTCGATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCC
* * * ** * *
112221559 GATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCATAAC-ATTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGA-GGCC
* * * * * * * **
112221607 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCTCATAAT-GTGGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-GTCGAGGCC
* * * * * * *
112221655 GATGCCATGTTCCAAACATGGTCTTACGCTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-GTCGAGGCC
* * * *
112221703 GATGCCTTGTTCCAAACATGGTCTTACACTAGCACACAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT
112221742 ATCACCTAAA
Statistics
Matches: 283, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
47 1 0.00
48 281 0.99
49 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCC
Found at i:112221531 original size:96 final size:95
Alignment explanation
Indices: 112221367--112221744 Score: 393
Period size: 96 Copynumber: 3.9 Consensus size: 95
112221357 GTAAACTGCG
* * *
112221367 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCACATG-TCGAGGCCAATGCCATATCCCAGA
1 GATGCCATGTCC-AGACATGGTCTTACACTGGCTCACATGAT-GAGGCCGATGCCATGTCCCAAA
*
112221431 CATGGTCTTACACTAGCTCACATGTCGAGGCT
64 CATGGTCTTACACTAGCTCACATATCGAGGCT
* * *
112221463 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATGTTGAGGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCC-AGACATGGTCTTACACTGGCTCACATGATGAGGCCGATGCCATGTCCCAAAC
* * * *
112221528 ATGGTCTTACACTAGCTCTCGTTTCGATGCT
65 ATGGTCTTACACTAGCTCACATATCGAGGCT
* * ** * * *
112221559 GATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCAT-AACATTGTCGATGCCATGTTCCAAA
1 GATGCCATGT-CCAGACATGGTCTTACACTGGCTCACATGATGA-GGCCGATGCCATGTCCCAAA
* * * * *
112221623 CATGGTCTTATACTGGCTCTCATAAT-GTGGTT
64 CATGGTCTTACACTAGCTCACAT-ATCGAGGCT
* * * * * * *
112221655 GATGCCATGTTCCAAACATGGTCTTACGCTGGCTCTCATAATGTGGCCGATGCCTTGTTCCAAAC
1 GATGCCATG-TCCAGACATGGTCTTACACTGGCTCACATGATGAGGCCGATGCCATGTCCCAAAC
*
112221720 ATGGTCTTACACTAGCACACATATC
65 ATGGTCTTACACTAGCTCACATATC
112221745 ACCTAAATGA
Statistics
Matches: 238, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
95 3 0.01
96 229 0.96
97 6 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (95 bp):
GATGCCATGTCCAGACATGGTCTTACACTGGCTCACATGATGAGGCCGATGCCATGTCCCAAACA
TGGTCTTACACTAGCTCACATATCGAGGCT
Found at i:112224391 original size:5 final size:5
Alignment explanation
Indices: 112224381--112224432 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
112224371 TAATTTAGCC
* * * *
112224381 ATTTT ATTTT ATTTT ATTGT ATTGT ATTTA ATTTTT GTTTT AGTTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT A-TTTT ATTTT
112224433 TAATTACTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 31 0.79
6 8 0.21
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:112242585 original size:44 final size:43
Alignment explanation
Indices: 112242453--112242615 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 43
112242443 CAAAACCAAC
* * * *
112242453 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAGT
* * * * *
112242496 GTCCCAGATAGGGTCTTACACGAACTTATATAT-GATGCC-GAT
1 GTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAG-T
* * *
112242538 GTCCTAGACATGATCTTACACGCAAATCACAAATCGATGCCAGT
1 GTCCCAGACATGGTCTTACACG-AAATCACATATCGATGCCAGT
* * *
112242582 GTCCCAGACGTGGTCTTACATGAAATTACATATC
1 GTCCCAGACATGGTCTTACACGAAATCACATATC
112242616 TGAATCCTAT
Statistics
Matches: 93, Mismatches: 23, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 25 0.27
43 42 0.45
44 25 0.27
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCACATATCGATGCCAGT
Found at i:112242954 original size:12 final size:12
Alignment explanation
Indices: 112242937--112242961 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112242927 AAATTAAACT
112242937 TATTTAATCAAA
1 TATTTAATCAAA
112242949 TATTTAATCAAA
1 TATTTAATCAAA
112242961 T
1 T
112242962 TCATCCAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTTAATCAAA
Found at i:112243744 original size:13 final size:13
Alignment explanation
Indices: 112243726--112243752 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
112243716 CACAAACGAT
112243726 AAAATTTTCACAC
1 AAAATTTTCACAC
112243739 AAAATTTTCACAC
1 AAAATTTTCACAC
112243752 A
1 A
112243753 TATATAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:112247571 original size:23 final size:20
Alignment explanation
Indices: 112247529--112247571 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
112247519 AGTTTAGTAT
112247529 ACATACTAGTACAACTTGTA
1 ACATACTAGTACAACTTGTA
112247549 ACATACTCAAGTACATACTTGTA
1 ACATACT--AGTACA-ACTTGTA
112247572 CAATTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
22 6 0.30
23 7 0.35
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (20 bp):
ACATACTAGTACAACTTGTA
Found at i:112250145 original size:14 final size:14
Alignment explanation
Indices: 112250126--112250152 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
112250116 TACTTGTTCT
112250126 TGTTCTTAATTATG
1 TGTTCTTAATTATG
112250140 TGTTCTTAATTAT
1 TGTTCTTAATTAT
112250153 TGCTTTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:112251526 original size:25 final size:25
Alignment explanation
Indices: 112251498--112251546 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
112251488 CCAGAGGACC
* *
112251498 AATCATATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
112251523 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
112251547 AATAGTAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:112253659 original size:40 final size:40
Alignment explanation
Indices: 112253615--112253820 Score: 182
Period size: 40 Copynumber: 5.2 Consensus size: 40
112253605 GTGCATTTAG
* * * *
112253615 GGGTACCAAAGTACAATTAGGGGAACTGATATGCAAAAAA
1 GGGTACCAAAGTACAATCAGGGGCACTGATGTGCAAACAA
* * * * *
112253655 GGGTAACAGAGTACAA-CTAGGGGCATTGATGTGCAAATAG
1 GGGTACCAAAGTACAATC-AGGGGCACTGATGTGCAAACAA
* * * *
112253695 GGGTACCGAAGTACAAACAGGGCCACTAATGTGCAAACAA
1 GGGTACCAAAGTACAATCAGGGGCACTGATGTGCAAACAA
* *
112253735 GGGTACCGAAGTACAATCAGGGGCACTGATGTGCAAACAG
1 GGGTACCAAAGTACAATCAGGGGCACTGATGTGCAAACAA
** * * ** *
112253775 GGGTACTGAAGTAAAAAT-AGGGGCACTAATGTAAAAACAT
1 GGGTACCAAAGT-ACAATCAGGGGCACTGATGTGCAAACAA
112253815 GGGTAC
1 GGGTAC
112253821 TTCATCATTT
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
40 132 0.96
41 5 0.04
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.17
Consensus pattern (40 bp):
GGGTACCAAAGTACAATCAGGGGCACTGATGTGCAAACAA
Done.