Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 23 of 328
Found at i:6853978 original size:20 final size:20
Alignment explanation
Indices: 6853943--6853999 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
6853933 GAAAGAAAAA
6853943 AAAAGAAGGGGA--GGGAGAG
1 AAAAG-AGGGGAGGGGGAGAG
*
6853962 AAAAGA-GGGAGCGGGGAAAG
1 AAAAGAGGGGAG-GGGGAGAG
6853982 AAAAGAGGGGAGGGGGAG
1 AAAAGAGGGGAGGGGGAG
6854000 CTCCGGCCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 4 0.12
18 1 0.03
19 5 0.16
20 17 0.53
21 5 0.16
ACGTcount: A:0.44, C:0.02, G:0.54, T:0.00
Consensus pattern (20 bp):
AAAAGAGGGGAGGGGGAGAG
Found at i:6855326 original size:14 final size:14
Alignment explanation
Indices: 6855307--6855368 Score: 72
Period size: 14 Copynumber: 4.5 Consensus size: 14
6855297 GGGTTGATTT
* *
6855307 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
6855321 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
6855335 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
* *
6855349 TT-AAGAACAGAAT
1 TTGAAAAACAGAAA
6855362 TTGAAAA
1 TTGAAAA
6855369 GACCTCAGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
13 10 0.25
14 30 0.75
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:6855520 original size:77 final size:75
Alignment explanation
Indices: 6855356--6855581 Score: 294
Period size: 77 Copynumber: 3.0 Consensus size: 75
6855346 AAATTAAGAA
* * * *
6855356 CAGAATTTGAAAAGACCTCAGTGTGTGGCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGA-
1 CAGAAATTGAAAAG-CCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
6855420 TTTTTGAAAAG
65 TTTTTGAAAAG
* *
6855431 TAGAAATTGAAAACGCCTCAGCGTGTGACCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGAT
1 CAGAAATTGAAAA-GCCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
6855496 TCTTTTGAAAAG
65 T-TTTTGAAAAG
** * **
6855508 CAGAAATTGAAAATAG-CTCAGCACGTGAGCAAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 CAGAAATTG-AAA-AGCCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
6855572 TTTTTTGAAA
64 TTTTTTGAAA
6855582 CTTAACTTGA
Statistics
Matches: 133, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
75 56 0.42
76 10 0.08
77 62 0.47
78 4 0.03
79 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (75 bp):
CAGAAATTGAAAAGCCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTGAAAAG
Found at i:6855732 original size:168 final size:165
Alignment explanation
Indices: 6855467--6856396 Score: 572
Period size: 160 Copynumber: 5.7 Consensus size: 165
6855457 GACCCGAGGC
* *
6855467 TCAACTCATCTCTCGCAATATGAGTTGATTCTTTTG-AAA-AG-CAGAAATTGAAAATAGCTCAG
1 TCAACTCATTTCTCGCAATATGAGTTGA---TTTTGAAAACAGACAGAAATTGAAAATACCTCAG
** * * * *
6855529 CACGTGAGCAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAACTTAACTTGAAA
63 CACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGAGTTGA-TTTTTGAAACATAAATTGAAA
* *
6855594 -A-GCAGA-T-T-TTGAAAAT-ACCTCGATATGT-GACTGAAGGT-
127 TACGCA-ACTGTCTTGAAAATCAACTC-ATATCTCG-C--AA--TA
**
6855632 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAACAGAAATTGAAAATACCTCAG
1 TCAACTCATTTCTCGCAATATGAGTTGATTTTGA-AAACAG--ACAGAAATTGAAAATACCTCAG
*
6855697 CACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGGGTTGATTTTTGAAACATAAATTGAAAT
63 CACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAACATAAATTGAAA-
* *** *
6855762 TACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATA
127 TA-CGCAAC-TGTCTTGAAAATCAACTCATATCTCGCAATA
* * * * * ** *
6855803 TGAGCTGATTTTCTTGGAA-A--ACATGA-ATTG-AAA-AG-CAGAAATTGAAAATACCTCAG--
1 TCAACTCA-TTTCTCGCAATATGAGTTGATTTTGAAAACAGACAGAAATTGAAAATACCTCAGCA
*
6855859 CGTG-CCCTGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAACATAAATTGAAATT
65 CGTGAGCC-GAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAACATAAATTGAAA-T
* *** *
6855923 ACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATA
128 A-CGCAAC-TGTCTTGAAAATCAACTCATATCTCGCAATA
* * * * * ** *
6855963 TGAGCTGATTTTCTTG-AA-A-AACATGA-ATTG-AAA-AG-CAGAAATTGAAAATACCTCAG--
1 TCAACTCA-TTTCTCGCAATATGAGTTGATTTTGAAAACAGACAGAAATTGAAAATACCTCAGCA
* * * *
6856019 CGTG-CCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAACTTAACTTGAAA-
65 CGTGAGCC-GAGGCTCAACTCACTTCTTGCAATATGAGTTGA-TTTTTGAAACATAAATTGAAAT
* *
6856082 A-GCAGA-T-T-TTGAAAAT-ACCTCGATATGT-GACTGAAGGT-
128 ACGCA-ACTGTCTTGAAAATCAACTC-ATATCTCG-C--AA--TA
*
6856120 TCAACTCACTTCTCGCAATATGAGTTGATTTTGACAAACAGAAACAGAAATTGAAAATACCTCAG
1 TCAACTCATTTCTCGCAATATGAGTTGATTTTGA-AAACAG--ACAGAAATTGAAAATACCTCAG
*
6856185 CACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGGGTTGATTTTTGAAACATAAATTGAAAT
63 CACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAACATAAATTGAAA-
* *** *
6856250 TACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATA
127 TA-CGCAAC-TGTCTTGAAAATCAACTCATATCTCGCAATA
* * * * * ** *
6856291 TGAGCTGATTTTCTTGGAA-A--ACATGA-ATT-AAAA-AG-CAGAAATTGAAAATACCTCAG--
1 TCAACTCA-TTTCTCGCAATATGAGTTGATTTTGAAAACAGACAGAAATTGAAAATACCTCAGCA
* * * *
6856347 CGTG-CCCTGAGGCTTAACTCACTTCTCGCAATATGGGTTGATTTTTGAAA
65 CGTGAGCC-GAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAA
6856397 AAAAAACAAA
Statistics
Matches: 640, Mismatches: 71, Indels: 113
0.78 0.09 0.14
Matches are distributed among these distances:
153 5 0.01
154 10 0.02
155 1 0.00
156 8 0.01
157 9 0.01
158 3 0.00
159 12 0.02
160 238 0.37
161 19 0.03
162 50 0.08
163 2 0.00
164 3 0.00
165 33 0.05
166 27 0.04
167 39 0.06
168 98 0.15
169 12 0.02
170 4 0.01
171 16 0.03
172 19 0.03
173 2 0.00
174 20 0.03
175 10 0.02
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (165 bp):
TCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGACAGAAATTGAAAATACCTCAGCAC
GTGAGCCGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAACATAAATTGAAATACG
CAACTGTCTTGAAAATCAACTCATATCTCGCAATA
Found at i:6855801 original size:71 final size:72
Alignment explanation
Indices: 6855672--6855814 Score: 175
Period size: 71 Copynumber: 2.0 Consensus size: 72
6855662 TTGACAAACA
* * *
6855672 GAAACAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGGGT
1 GAAACAGAAATTGAAAATACCTCA-CACGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAGC
6855737 TGATTTTT
65 TGATTTTT
* * * *
6855745 GAAACATAAATTGAAATTACCTCA-ACGTG-TCTTGAGGCTCAACTCA-TCTCTCGCAATATGAG
1 GAAACAGAAATTGAAAATACCTCACACGTGAGC-CGAGGCTCAACTCACT-TCTCGCAATATGAG
6855807 CTGATTTT
64 CTGATTTT
6855815 CTTGGAAAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
70 2 0.03
71 37 0.61
73 22 0.36
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (72 bp):
GAAACAGAAATTGAAAATACCTCACACGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAGCT
GATTTTT
Found at i:6855901 original size:160 final size:160
Alignment explanation
Indices: 6855676--6856396 Score: 970
Period size: 160 Copynumber: 4.4 Consensus size: 160
6855666 CAAACAGAAA
*
6855676 CAGAAATTGAAAATACCTCAGCACGTGAGCC-GAGGCTCAACTCACTTCTTGCAATATGGGTTGA
1 CAGAAATTGAAAATACCTCAG--CGTG-CCCTGAGGCTCAACTCACTTCTTGCAATATGGGTTGA
6855740 TTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATG
63 TTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATG
6855805 AGCTGATTTTCTTGGAAAACATGAATTGAAAAG
128 AGCTGATTTTCTTGGAAAACATGAATTGAAAAG
*
6855838 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTTGCAATATGGGTTGATTT
6855903 TTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGC
66 TTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGC
*
6855968 TGATTTTCTTGAAAAACATGAATTGAAAAG
131 TGATTTTCTTGGAAAACATGAATTGAAAAG
* *
6855998 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTTGCAATATGGGTTGA-TT
* * * *
6856063 TTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGAC-TGAAGGTTCAACTC
65 TTTGAAAC---A--T----A--A-A--TTGAAATTACCTC-A-ACGTGTCTTG-AGGCTCAACTC
*
6856127 A-CTTCTCGCAATATGAGTTGA--TT-TT-GACAAAC----A--G-AAA-
113 ATC-TCTCGCAATATGAGCTGATTTTCTTGGA-AAACATGAATTGAAAAG
*
6856164 CAGAAATTGAAAATACCTCAGCACGTGAGCC-GAGGCTCAACTCACTTCTTGCAATATGGGTTGA
1 CAGAAATTGAAAATACCTCAG--CGTG-CCCTGAGGCTCAACTCACTTCTTGCAATATGGGTTGA
6856228 TTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATG
63 TTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATG
*
6856293 AGCTGATTTTCTTGGAAAACATGAATTAAAAAG
128 AGCTGATTTTCTTGGAAAACATGAATTGAAAAG
* *
6856326 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTTAACTCACTTCTCGCAATATGGGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTTGCAATATGGGTTGATTT
6856391 TTGAAA
66 TTGAAA
6856397 AAAAAACAAA
Statistics
Matches: 498, Mismatches: 22, Indels: 80
0.83 0.04 0.13
Matches are distributed among these distances:
151 33 0.07
152 4 0.01
153 14 0.03
154 6 0.01
155 3 0.01
156 1 0.00
158 2 0.00
159 4 0.01
160 238 0.48
161 13 0.03
162 43 0.09
164 2 0.00
166 22 0.04
167 13 0.03
168 36 0.07
169 2 0.00
170 2 0.00
172 1 0.00
173 2 0.00
174 6 0.01
175 14 0.03
176 4 0.01
177 33 0.07
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (160 bp):
CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTTGCAATATGGGTTGATTT
TTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGC
TGATTTTCTTGGAAAACATGAATTGAAAAG
Found at i:6855926 original size:71 final size:71
Alignment explanation
Indices: 6855841--6855974 Score: 198
Period size: 71 Copynumber: 1.9 Consensus size: 71
6855831 TGAAAAGCAG
* * *
6855841 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCA-CTTCTTGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCATC-TCTCGCAATATGAGCTGATTTTT
6855905 GAAACAT
65 GAAACAT
* * *
6855912 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTT
6855975 CTTGAAAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 55 0.98
72 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:6856063 original size:89 final size:85
Alignment explanation
Indices: 6855912--6856237 Score: 316
Period size: 89 Copynumber: 3.8 Consensus size: 85
6855902 TTTGAAACAT
* * *
6855912 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TCTCTCGCAATATGAGCTGATTTTC
1 AAATTGAAAATACCTCAACGTG-CCTGAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT-
6855976 TTGAAAAACATGAA-TTGAAAAGCAG
63 TTG--AAAC-TGAACTTGAAAAGCAG
*
6856001 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTG-CCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
*
6856066 GAAACTTAACTTGAAAAGCAG
65 GAAACTGAACTTGAAAAGCAG
** * * *
6856087 ATTTTGAAAATACCTCGATATGTGACTGAAGGTTCAACTCACTTCTCGCAATATGAGTTGA--TT
1 AAATTGAAAATACCTC-A-ACGTGCCTG-AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
* *
6856150 TTG--AC-AAAC-AG-AAA-CAG
63 TTGAAACTGAACTTGAAAAGCAG
* *
6856167 AAATTGAAAATACCTCAGCACGTGAGCC-GAGGCTCAACTCACTTCTTGCAATATGGGTTGA-TT
1 AAATTGAAAATACCTCA--ACGT--GCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
6856230 TTTGAAAC
62 TTTGAAAC
6856238 ATAAATTGAA
Statistics
Matches: 204, Mismatches: 22, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
79 1 0.00
80 49 0.24
81 9 0.04
82 3 0.01
83 5 0.02
84 2 0.01
85 3 0.01
86 34 0.17
87 4 0.02
88 37 0.18
89 56 0.27
90 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (85 bp):
AAATTGAAAATACCTCAACGTGCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTG
AAACTGAACTTGAAAAGCAG
Found at i:6856075 original size:488 final size:489
Alignment explanation
Indices: 6855500--6856396 Score: 1679
Period size: 488 Copynumber: 1.8 Consensus size: 489
6855490 GTTGATTCTT
* *
6855500 TTGAAAAGCAGAAATTGAAAATAGCTCAGCACGTGAGCAAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAATTGAAAATACCTCAG-ACGTGACCAAAGGCTCAACTCACCTCTCGCAATAT
6855565 GAGTTGATTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGAAG
65 GAGTTGATTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGAAG
6855630 GTTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAACAGAAATTGAAAATACCTC
130 GTTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAACAGAAATTGAAAATACCTC
6855695 AGCACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGGGTTGATTTTTGAAACATAAATTGAA
195 AGCACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGGGTTGATTTTTGAAACATAAATTGAA
6855760 ATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTCTTGGAAAAC
260 ATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTCTTGGAAAAC
* *
6855825 ATGAATTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTTGCAA
325 ATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
6855890 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTC
390 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTC
6855955 TCGCAATATGAGCTGATTTTCTTGAAAAACATGAA
455 TCGCAATATGAGCTGATTTTCTTGAAAAACATGAA
* ** *
6855990 TTGAAAAGCAGAAATTGAAAATACCTCAG-CGTGCCCTGAGGCTCAACTCACTTCTCGCAATATG
1 TTGAAAAGCAGAAATTGAAAATACCTCAGACGTGACCAAAGGCTCAACTCACCTCTCGCAATATG
6856054 AGTTGATTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGAAGG
66 AGTTGATTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGAAGG
*
6856119 TTCAACTCACTTCTCGCAATATGAGTTGATTTTGACAAACAGAAACAGAAATTGAAAATACCTCA
131 TTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAACAGAAATTGAAAATACCTCA
6856184 GCACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGGGTTGATTTTTGAAACATAAATTGAAA
196 GCACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGGGTTGATTTTTGAAACATAAATTGAAA
6856249 TTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTCTTGGAAAACA
261 TTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTCTTGGAAAACA
*
6856314 TGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTTAACTCACTTCTCGCAAT
326 TGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAAT
*
6856379 ATGGGTTGATTTTTGAAA
391 ATGAGTTGATTTTTGAAA
6856397 AAAAAACAAA
Statistics
Matches: 396, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
488 368 0.93
490 28 0.07
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (489 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAGACGTGACCAAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGAAGG
TTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAACAGAAATTGAAAATACCTCA
GCACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGGGTTGATTTTTGAAACATAAATTGAAA
TTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTCTTGGAAAACA
TGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAAT
ATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCT
CGCAATATGAGCTGATTTTCTTGAAAAACATGAA
Found at i:6856289 original size:71 final size:72
Alignment explanation
Indices: 6856160--6856302 Score: 175
Period size: 71 Copynumber: 2.0 Consensus size: 72
6856150 TTGACAAACA
* * *
6856160 GAAACAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACTTCTTGCAATATGGGT
1 GAAACAGAAATTGAAAATACCTCA-CACGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAGC
6856225 TGATTTTT
65 TGATTTTT
* * * *
6856233 GAAACATAAATTGAAATTACCTCA-ACGTG-TCTTGAGGCTCAACTCA-TCTCTCGCAATATGAG
1 GAAACAGAAATTGAAAATACCTCACACGTGAGC-CGAGGCTCAACTCACT-TCTCGCAATATGAG
6856295 CTGATTTT
64 CTGATTTT
6856303 CTTGGAAAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
70 2 0.03
71 37 0.61
73 22 0.36
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (72 bp):
GAAACAGAAATTGAAAATACCTCACACGTGAGCCGAGGCTCAACTCACTTCTCGCAATATGAGCT
GATTTTT
Found at i:6869469 original size:34 final size:35
Alignment explanation
Indices: 6869359--6869524 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
6869349 TCCTCATTGA
** *
6869359 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
6869394 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
6869434 AATACCATACCTACATTTCACAGCT-AGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
6869468 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
6869503 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
6869525 CTTTTCCATG
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
34 27 0.23
35 59 0.51
38 1 0.01
39 7 0.06
40 21 0.18
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:6869483 original size:74 final size:73
Alignment explanation
Indices: 6869354--6869524 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
6869344 GGTTTTCCTC
** * * **
6869354 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
6869419 CAGTATGG
66 CAGTATGG
*
6869427 ATTTGATAATACCATACCTACATTTCACAGCT-AGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
6869490 ACTCAGTATGG
63 ACTCAGTATGG
6869501 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
6869525 CTTTTCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
69 21 0.24
72 2 0.02
73 4 0.05
74 39 0.44
75 22 0.25
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:6872853 original size:24 final size:25
Alignment explanation
Indices: 6872811--6872859 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
6872801 CTCACTTCTA
*
6872811 ATATACATCATTTCAAACTTAATTTT
1 ATATACATAATTTCAAAC-TAATTTT
6872837 ATATACA-AATTTC-AACTAATTTT
1 ATATACATAATTTCAAACTAATTTT
6872860 CACATGACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 3 0.14
25 5 0.23
26 7 0.32
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATACATAATTTCAAACTAATTTT
Found at i:6873478 original size:11 final size:11
Alignment explanation
Indices: 6873445--6873511 Score: 56
Period size: 10 Copynumber: 6.4 Consensus size: 11
6873435 ATGATTTTAG
6873445 AATT-ATAAAA
1 AATTCATAAAA
*
6873455 ATTATTCAAAAAA
1 A--ATTCATAAAA
6873468 ACATT-ATAAAA
1 A-ATTCATAAAA
6873479 AATTCAT-AAA
1 AATTCATAAAA
6873489 AATTCAT-AAA
1 AATTCATAAAA
6873499 AATT--TAAAA
1 AATTCATAAAA
6873508 AATT
1 AATT
6873512 AGTATTGAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
8 1 0.02
9 7 0.14
10 21 0.43
11 8 0.16
12 6 0.12
13 6 0.12
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (11 bp):
AATTCATAAAA
Found at i:6873478 original size:24 final size:22
Alignment explanation
Indices: 6873445--6873502 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
6873435 ATGATTTTAG
6873445 AATTATAAAAATTATTCAAAAAA
1 AATTATAAAAATTATTC-AAAAA
*
6873468 ACATTATAAAAA--ATTCATAAA
1 A-ATTATAAAAATTATTCAAAAA
6873489 AATTCATAAAAATT
1 AATT-ATAAAAATT
6873503 TAAAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 3 0.10
21 12 0.40
22 4 0.13
23 1 0.03
24 10 0.33
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTATAAAAATTATTCAAAAA
Found at i:6873930 original size:2 final size:2
Alignment explanation
Indices: 6873923--6873948 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6873913 AATGAAAATG
6873923 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6873949 TACGTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6875942 original size:60 final size:61
Alignment explanation
Indices: 6875828--6875967 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 61
6875818 AGTTAGTATC
* * * * *
6875828 AAGGTTCAAATTGGTACTTAAGGATTTGTTTTGGTCCAATTAAGTACTTGAACTTGGCTTT
1 AAGGTTCAAATTAGTACTTAAAGATTTATTTTGGTCCAATTAAGTACCTAAACTTGGCTTT
* * * * *
6875889 AAGGTTCAATTTAGTATTTAAAG-TTTATTTTGGTCCGATTAGGTACCTAAACTTGGTTTT
1 AAGGTTCAAATTAGTACTTAAAGATTTATTTTGGTCCAATTAAGTACCTAAACTTGGCTTT
** *
6875949 TTGGTTCAAAGTAGTACTT
1 AAGGTTCAAATTAGTACTT
6875968 TTAGTGTATT
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
60 45 0.70
61 19 0.30
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (61 bp):
AAGGTTCAAATTAGTACTTAAAGATTTATTTTGGTCCAATTAAGTACCTAAACTTGGCTTT
Found at i:6878133 original size:6 final size:6
Alignment explanation
Indices: 6878124--6878149 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6878114 TTTATATTTA
6878124 TTTAAT TTTAAT TTTAAT TTTAAT TT
1 TTTAAT TTTAAT TTTAAT TTTAAT TT
6878150 AAAAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:6878599 original size:31 final size:29
Alignment explanation
Indices: 6878562--6878620 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
6878552 AAACAGTTAC
*
6878562 TAAACTATTCAAAAGTTTTCAGTTAAGTCAG
1 TAAACTATTC-AAAGTTTT-AATTAAGTCAG
6878593 TAAACTATTCAAAGTTTTAATTAAGTCA
1 TAAACTATTCAAAGTTTTAATTAAGTCA
6878621 TTAGGTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 9 0.33
30 8 0.30
31 10 0.37
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (29 bp):
TAAACTATTCAAAGTTTTAATTAAGTCAG
Found at i:6880913 original size:98 final size:98
Alignment explanation
Indices: 6880735--6880914 Score: 274
Period size: 98 Copynumber: 1.8 Consensus size: 98
6880725 GTCTCAATTG
* *
6880735 AGTTATTAAATTATTAAAATGCCTTTATTTTAACAAAACAATAAATGTTAACTCAAGGATATTTT
1 AGTTATTAAATTATTAAAATGCCTTTATTTTAACAAAACAATAAATCTTAACTCAAGAATATTTT
*
6880800 TATTCTTTTATATAAAATATCAAATCCCAAATC
66 TATTCTTTTACATAAAATATCAAATCCCAAATC
* **
6880833 AGTTGTTAAATTATTAAAAT-ATTCTTATTTTAACAAAACAATAAATCTTAACTCAAGAATATTT
1 AGTTATTAAATTATTAAAATGCCT-TTATTTTAACAAAACAATAAATCTTAACTCAAGAATATTT
6880897 TTA-TCTTTTTACATAAAA
65 TTATTC-TTTTACATAAAA
6880915 CCTAGAAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
97 3 0.04
98 71 0.96
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.41
Consensus pattern (98 bp):
AGTTATTAAATTATTAAAATGCCTTTATTTTAACAAAACAATAAATCTTAACTCAAGAATATTTT
TATTCTTTTACATAAAATATCAAATCCCAAATC
Found at i:6881392 original size:18 final size:18
Alignment explanation
Indices: 6881369--6881406 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
6881359 TACTTCTAAG
6881369 AAATAC-TTTGAGGACAAA
1 AAATACTTTTGA-GACAAA
6881387 AAATACTTTTGAGACAAA
1 AAATACTTTTGAGACAAA
6881405 AA
1 AA
6881407 TATTTCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.24
Consensus pattern (18 bp):
AAATACTTTTGAGACAAA
Found at i:6885072 original size:29 final size:31
Alignment explanation
Indices: 6885035--6885104 Score: 99
Period size: 29 Copynumber: 2.3 Consensus size: 31
6885025 AATAGTTTAT
6885035 ATTTTTATAATTTTA-AAAAATTAAAT-TAA
1 ATTTTTATAATTTTATAAAAATTAAATATAA
*
6885064 ATTTTTATAATTTTATAAGAATTAAATATAA
1 ATTTTTATAATTTTATAAAAATTAAATATAA
*
6885095 TTTTATTATA
1 ATTT-TTATA
6885105 TATTAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 15 0.42
30 10 0.28
31 6 0.17
32 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (31 bp):
ATTTTTATAATTTTATAAAAATTAAATATAA
Found at i:6886939 original size:41 final size:41
Alignment explanation
Indices: 6886894--6886981 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 41
6886884 AGCAAAATGC
6886894 AATATGACCCTTAGTACAAAAACCTATACTATGCTTTTACT
1 AATATGACCCTTAGTACAAAAACCTATACTATGCTTTTACT
*
6886935 AATATGACTCTTAGTACAAAAACCTATACTATGCTTTTACT
1 AATATGACCCTTAGTACAAAAACCTATACTATGCTTTTACT
*
6886976 TATATG
1 AATATG
6886982 TATTGCACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (41 bp):
AATATGACCCTTAGTACAAAAACCTATACTATGCTTTTACT
Found at i:6887217 original size:16 final size:17
Alignment explanation
Indices: 6887147--6887220 Score: 51
Period size: 18 Copynumber: 4.1 Consensus size: 17
6887137 AAAATAAAAA
*
6887147 ATAAAAAATTAAATTGAT
1 ATAAAAAATTAAACT-AT
* *
6887165 ACATAAAACTATTAAAATAAT
1 --ATAAAA-AATTAAACT-AT
*
6887186 ATATAAAATTGAAACTAT
1 ATAAAAAATT-AAACTAT
6887204 ATAAAAAATT-AACTAT
1 ATAAAAAATTAAACTAT
6887220 A
1 A
6887221 AAATATATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
16 7 0.16
18 14 0.31
19 9 0.20
20 6 0.13
21 9 0.20
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAAAAAATTAAACTAT
Found at i:6887672 original size:17 final size:17
Alignment explanation
Indices: 6887650--6887683 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6887640 AAGCTAAAGT
*
6887650 TAAATTTTAATCGGTAA
1 TAAATTTTAATCAGTAA
6887667 TAAATTTTAATCAGTAA
1 TAAATTTTAATCAGTAA
6887684 ATAACTCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (17 bp):
TAAATTTTAATCAGTAA
Found at i:6888004 original size:27 final size:26
Alignment explanation
Indices: 6887969--6888019 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
6887959 TATAAATTAA
*
6887969 ATCATAATTATTT-TTAAATGTATAACT
1 ATCACAATT-TTTATTAAAT-TATAACT
6887996 ATCACAATTTTTATTAAATTATAA
1 ATCACAATTTTTATTAAATTATAA
6888020 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (26 bp):
ATCACAATTTTTATTAAATTATAACT
Found at i:6888057 original size:43 final size:44
Alignment explanation
Indices: 6887966--6888058 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 44
6887956 AATTATAAAT
* * ** *
6887966 TAAATCATAATTATTTTTAAATGTATAACTATCACAATTTTTAT
1 TAAATTATAATTATTTTAAAATGTATAACTATCACAATTGCTAC
* *
6888010 TAAATTATAATTATTTTAAAAT-TATAA-TGTCACAATTGGCTCC
1 TAAATTATAATTATTTTAAAATGTATAACTATCACAATT-GCTAC
6888053 TAAATT
1 TAAATT
6888059 TTCAGTCAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
42 9 0.22
43 12 0.29
44 20 0.49
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (44 bp):
TAAATTATAATTATTTTAAAATGTATAACTATCACAATTGCTAC
Found at i:6888189 original size:10 final size:10
Alignment explanation
Indices: 6888170--6888203 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
6888160 TTCTAATCAA
6888170 TAAAAA-AAT
1 TAAAAATAAT
6888179 TAAAAATAAT
1 TAAAAATAAT
*
6888189 TAAAAATAAA
1 TAAAAATAAT
6888199 TAAAA
1 TAAAA
6888204 CTTATTCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:6893278 original size:89 final size:92
Alignment explanation
Indices: 6893157--6893342 Score: 324
Period size: 95 Copynumber: 2.0 Consensus size: 92
6893147 AGGTGCCCTA
6893157 TTGGTCACTTCTATGTTATTATTTG-TTAT-TA-TATATTATGGTGTCTATATGTTCAGTATTTA
1 TTGGTCACTTCTATGTTATTATTTGTTTATATATTATATTATGGTGTCTATATGTTCAGTATTTA
6893219 TTCAGTTCAATGAACAGTTGATTTTGT
66 TTCAGTTCAATGAACAGTTGATTTTGT
6893246 TTGGTCACTTCTATGTTATTATTTGTTATTATATATTTATATTATGGTGTCTATATGTTCAGTAT
1 TTGGTCACTTCTATGTTATTATTTG-T-TTATATA-TTATATTATGGTGTCTATATGTTCAGTAT
6893311 TTATTCAGTTCAATGAACAGTTGATTTTGT
63 TTATTCAGTTCAATGAACAGTTGATTTTGT
6893341 TT
1 TT
6893343 TCTTTTTGCA
Statistics
Matches: 91, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
89 25 0.27
92 4 0.04
93 2 0.02
95 60 0.66
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (92 bp):
TTGGTCACTTCTATGTTATTATTTGTTTATATATTATATTATGGTGTCTATATGTTCAGTATTTA
TTCAGTTCAATGAACAGTTGATTTTGT
Found at i:6894950 original size:151 final size:153
Alignment explanation
Indices: 6894596--6895018 Score: 480
Period size: 151 Copynumber: 2.7 Consensus size: 153
6894586 TTTCTTTTTC
* *
6894596 CTTTTCCTTTATTCC-TTTGTCCTCATGAATGGA-TCTTACAGCTTTAACCATCTTGAACTGCAT
1 CTTTTCCTTTA-TCCTTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCTTGAACTG--T
* * * * * * * * *
6894659 AAAATGGAACGATTATATAATGCAAGTGGAAGTGAGTGAATCGAACCAATTTGAACTCTGCAGAC
63 AAAAT-GAA--ATTATATGATACAAGCGGATGTGATTGAACCAAACCAAGTTGAACTCTGAAGAC
* * *
6894724 GGTTAAAGTGTATCATGTCTTACCTTGTT
125 GGATAAAGCGTATCATCTCTTACCTTGTT
*
6894753 CTTTTCCTTTATCCTTTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCATGAACTGTAA
1 CTTTTCCTTTATCC-TTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCTTGAACTGTAA
* * *
6894818 AAGTGAAA-TATACGGTACAAGCGGATGTGATTGAACCAAACCAAGTTG-ACAT-TGAAGATGGA
65 AA-TGAAATTATATGATACAAGCGGATGTGATTGAACCAAACCAAGTTGAAC-TCTGAAGACGGA
*
6894880 TAAAGCGTATCATCTCTTACTTTG-T
128 TAAAGCGTATCATCTCTTACCTTGTT
* * *
6894905 CTTTTCATTTATCCTTTTCTCCTCATGAATGAATTCTTACAGCTTTTACAATCTTGAACTGTAAT
1 CTTTTCCTTTATCCTTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCTTGAACTGTAA-
*
6894970 AATGAAACAATTGTATGATACAAGCGGATGTGATTGAACCAAACCAAGT
65 AATG--A-AATTATATGATACAAGCGGATGTGATTGAACCAAACCAAGT
6895019 CGACGCTGAA
Statistics
Matches: 230, Mismatches: 26, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
151 49 0.21
152 16 0.07
153 31 0.13
154 33 0.14
155 36 0.16
156 3 0.01
157 19 0.08
158 17 0.07
159 26 0.11
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (153 bp):
CTTTTCCTTTATCCTTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCTTGAACTGTAAA
ATGAAATTATATGATACAAGCGGATGTGATTGAACCAAACCAAGTTGAACTCTGAAGACGGATAA
AGCGTATCATCTCTTACCTTGTT
Found at i:6897378 original size:2 final size:2
Alignment explanation
Indices: 6897371--6897409 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6897361 ACACATGATA
6897371 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6897410 AGAAGTACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6898243 original size:2 final size:2
Alignment explanation
Indices: 6898238--6898270 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6898228 CTATATAACC
6898238 TA 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 TA T
6898271 TCACACCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6898462 original size:23 final size:23
Alignment explanation
Indices: 6898436--6898483 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
6898426 AAAAGAGATG
6898436 TTATATTAATTCAAAATCATGTA
1 TTATATTAATTCAAAATCATGTA
6898459 TTATATTAATTCAAAATCATGTA
1 TTATATTAATTCAAAATCATGTA
6898482 TT
1 TT
6898484 TTTCAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (23 bp):
TTATATTAATTCAAAATCATGTA
Found at i:6898772 original size:2 final size:2
Alignment explanation
Indices: 6898767--6898800 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6898757 TGGTGTGTGA
6898767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6898801 TTAAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6900840 original size:20 final size:22
Alignment explanation
Indices: 6900806--6900845 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6900796 TTTACTTAGA
*
6900806 TTTTAGTTATAAAAT-ATATAT
1 TTTTAGTAATAAAATGATATAT
6900827 TTTTAGTAAT-AAATGATAT
1 TTTTAGTAATAAAATGATAT
6900846 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTAGTAATAAAATGATATAT
Found at i:6900981 original size:12 final size:12
Alignment explanation
Indices: 6900964--6900988 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6900954 TACATTTGTA
6900964 ATATAAGTATTT
1 ATATAAGTATTT
6900976 ATATAAGTATTT
1 ATATAAGTATTT
6900988 A
1 A
6900989 ATTATTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATATAAGTATTT
Found at i:6902988 original size:46 final size:46
Alignment explanation
Indices: 6902936--6903208 Score: 316
Period size: 46 Copynumber: 6.0 Consensus size: 46
6902926 GCTTTCTGAA
** * *
6902936 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
6902982 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
6903028 ATGAAAAGAATAAGACTATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * ** *
6903074 -GGGAATGAATAAGACCATGGTTGAAAAATACCATGGCAATGTAAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
6903119 ATGAAATGAACAGGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
6903165 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
6903209 TCAAAGATAA
Statistics
Matches: 193, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
45 38 0.20
46 155 0.80
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:6903140 original size:91 final size:91
Alignment explanation
Indices: 6902947--6903191 Score: 328
Period size: 91 Copynumber: 2.7 Consensus size: 91
6902937 TGAAATGTGT
* ** * *
6902947 AAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGA-CGGAAATGAGTAAGACCATGGTTGAAAAAT
* *
6903012 ACCATGGCAACGTGACATGAAAAGAAT
65 ACCATGGCAACGTAACATGAAAAGAAC
* * *
6903039 AAGACTATGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAAATA
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACGGAAATGAGTAAGACCATGGTTGAAAAATA
* *
6903104 CCATGGCAATGTAACATGAAATGAAC
66 CCATGGCAACGTAACATGAAAAGAAC
* * * *
6903130 AGGACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAGTAAGACCATAGTTGAAA
1 AAGACCATGGTTGAAAGATACCATGGCAACATGAC-GGAAATGAGTAAGACCATGGTTGAAA
6903192 GACACTATGG
Statistics
Matches: 133, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
91 79 0.59
92 54 0.41
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (91 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACGGAAATGAGTAAGACCATGGTTGAAAAATA
CCATGGCAACGTAACATGAAAAGAAC
Found at i:6903192 original size:137 final size:137
Alignment explanation
Indices: 6902946--6903208 Score: 357
Period size: 137 Copynumber: 1.9 Consensus size: 137
6902936 ATGAAATGTG
* * * ***
6902946 TAAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAAACACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGA
* * * *
6903011 TACCATGGCAACGTGACATGAAAAGAATAAGACTATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACCTGACATGAAAAGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
6903076 GAATGAA
131 GAATGAA
* ** *
6903083 TAAGACCATGGTTGAAAAATACCATGGCAATGTAACATGAAATGAACAGGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAAACACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGA
* * *
6903148 TACCATGGCAACCTGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
66 TACCATGGCAACCTGACATGAAAA-GAATAAGACCATAGTTGAAAGACACCATGGCAACATG
6903209 TCAAAGATAA
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
136 5 0.05
137 103 0.95
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAAACACCATGGCAACATAACATGAAATGAACAAGACCATGGTTGAAAGA
TACCATGGCAACCTGACATGAAAAGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
GAATGAA
Found at i:6903510 original size:16 final size:17
Alignment explanation
Indices: 6903489--6903521 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6903479 ATGATGAAGC
6903489 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
6903505 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
6903522 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:6905721 original size:20 final size:21
Alignment explanation
Indices: 6905687--6905740 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
6905677 TGATGATATT
*
6905687 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
6905708 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
6905728 TTTTATTATTTTA
1 TTATATTATTTTA
6905741 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:6905746 original size:11 final size:11
Alignment explanation
Indices: 6905730--6905757 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6905720 ATGAGATATT
6905730 TTATTATTTTA
1 TTATTATTTTA
6905741 TTATTATTTTA
1 TTATTATTTTA
6905752 TTATTA
1 TTATTA
6905758 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:6917374 original size:27 final size:26
Alignment explanation
Indices: 6917331--6917388 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
6917321 AAACACCATG
*
6917331 AAAA-ATAATAGAAAATATAAATTTTA
1 AAAATATAATAGAAAATA-AAATTATA
* *
6917357 AAAATATAATATATAATAAAATTATA
1 AAAATATAATAGAAAATAAAATTATA
*
6917383 TAAATA
1 AAAATA
6917389 ATTTAACATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
AAAATATAATAGAAAATAAAATTATA
Found at i:6917490 original size:26 final size:26
Alignment explanation
Indices: 6917452--6917508 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
6917442 AATATTAAAT
* *
6917452 TATTTATACAATTT-TATTGTATATTA
1 TATTTTTAAAATTTGTATT-TATATTA
*
6917478 TATTTTTAAAATTTGTATTTTTATTA
1 TATTTTTAAAATTTGTATTTATATTA
6917504 T-TTTT
1 TATTTT
6917509 AATGATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.15
26 19 0.70
27 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (26 bp):
TATTTTTAAAATTTGTATTTATATTA
Found at i:6918800 original size:27 final size:27
Alignment explanation
Indices: 6918762--6918821 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
6918752 AATCACCGTC
*
6918762 ATCATTGCGATTAGGTTTGGGTGAGTT
1 ATCATCGCGATTAGGTTTGGGTGAGTT
6918789 ATCATCGCGATTAGGTTTGGGTGAGTT
1 ATCATCGCGATTAGGTTTGGGTGAGTT
6918816 ATCATC
1 ATCATC
6918822 ACGCCTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (27 bp):
ATCATCGCGATTAGGTTTGGGTGAGTT
Found at i:6922140 original size:26 final size:27
Alignment explanation
Indices: 6922078--6922131 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
6922068 TTTCACAAGT
*
6922078 AAATTTTAAAAATTGTCATGTATTTTA
1 AAATTTTAAAAATTATCATGTATTTTA
6922105 AAATTTTAAAAATTATCATGTATTTTA
1 AAATTTTAAAAATTATCATGTATTTTA
6922132 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.48
Consensus pattern (27 bp):
AAATTTTAAAAATTATCATGTATTTTA
Found at i:6930694 original size:38 final size:38
Alignment explanation
Indices: 6930620--6930694 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
6930610 ACTTAAAAAG
6930620 ATAATTTGATAATTTTAGACGTAAATAAAAGTAAAATT
1 ATAATTTGATAATTTTAGACGTAAATAAAAGTAAAATT
6930658 ATAATTTGATAATTTTAGACGTAAATAAAAGTAAAAT
1 ATAATTTGATAATTTTAGACGTAAATAAAAGTAAAAT
6930695 ATATTTAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.36
Consensus pattern (38 bp):
ATAATTTGATAATTTTAGACGTAAATAAAAGTAAAATT
Found at i:6931140 original size:33 final size:33
Alignment explanation
Indices: 6931095--6931157 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
6931085 TTTTTGTTTG
6931095 AAATGATACTTTAACGTGCCACATCAGCTTTTA
1 AAATGATACTTTAACGTGCCACATCAGCTTTTA
*
6931128 AAATGATGCTTTAACGTGCCACATCAGCTT
1 AAATGATACTTTAACGTGCCACATCAGCTT
6931158 ACCGTTACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (33 bp):
AAATGATACTTTAACGTGCCACATCAGCTTTTA
Found at i:6932899 original size:2 final size:2
Alignment explanation
Indices: 6932892--6932916 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6932882 GGCCACATGC
6932892 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6932917 AGGTGGGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6936370 original size:2 final size:2
Alignment explanation
Indices: 6936351--6936432 Score: 68
Period size: 2 Copynumber: 43.0 Consensus size: 2
6936341 TTCACTAATT
* * *
6936351 TA TA TA TG TA TA TG TA TA TA TA TA TA TA TA TA TA AA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6936392 T- TT TA TCA T- TA -A TA T- TGA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
6936431 TA
1 TA
6936433 ATTTTATCAT
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
1 6 0.09
2 57 0.88
3 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6937134 original size:2 final size:2
Alignment explanation
Indices: 6937127--6937170 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
6937117 GTTTGTCTTT
*
6937127 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6937169 TA
1 TA
6937171 AAATCAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6940115 original size:14 final size:15
Alignment explanation
Indices: 6940076--6940116 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
6940066 AATACATGAC
*
6940076 AAAATATAATATTTT
1 AAAATATAATATATT
6940091 AAACATA-AATA-ATT
1 AAA-ATATAATATATT
6940105 AAAATATAATAT
1 AAAATATAATAT
6940117 GATATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
13 3 0.14
14 9 0.41
15 7 0.32
16 3 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAATATAATATATT
Found at i:6941067 original size:21 final size:22
Alignment explanation
Indices: 6941036--6941084 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
6941026 TGTCAAATAC
*
6941036 AAATACTATATTAAAT-AAAAA
1 AAATACAATATTAAATCAAAAA
* *
6941057 TAATACAATATTACATCAAAAA
1 AAATACAATATTAAATCAAAAA
6941079 AAATAC
1 AAATAC
6941085 CAAATTGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATACAATATTAAATCAAAAA
Found at i:6943192 original size:3 final size:3
Alignment explanation
Indices: 6943184--6943208 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6943174 CAAGCACATC
6943184 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
6943209 GTATGTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6945706 original size:2 final size:2
Alignment explanation
Indices: 6945699--6945726 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6945689 CAATGTTATT
6945699 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
6945727 GTGATGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6946450 original size:26 final size:26
Alignment explanation
Indices: 6946395--6946450 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
6946385 TTATAATGTT
* *
6946395 TTTATAAATTTTCTACTTTTTAATAT
1 TTTATAAATTTTCTACTTTTTAAAAA
6946421 TTTAT-AATTTTCTTA-TTTTTATAAAA
1 TTTATAAATTTTC-TACTTTTTA-AAAA
6946447 TTTA
1 TTTA
6946451 AATATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTATAAATTTTCTACTTTTTAAAAA
Found at i:6946488 original size:10 final size:9
Alignment explanation
Indices: 6946476--6946538 Score: 65
Period size: 9 Copynumber: 6.8 Consensus size: 9
6946466 ACTTGTAATT
6946476 TTTTTATAA
1 TTTTTATAA
6946485 TTTTTA-ATA
1 TTTTTATA-A
*
6946494 TTTTTATTGA
1 TTTTTA-TAA
6946504 TTTTTATAA
1 TTTTTATAA
*
6946513 TTCTTAATAA
1 TT-TTTATAA
6946523 TTTTTATAA
1 TTTTTATAA
*
6946532 ATTTTAT
1 TTTTTAT
6946539 TAAAATGAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
8 1 0.02
9 29 0.64
10 15 0.33
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:6946525 original size:19 final size:19
Alignment explanation
Indices: 6946481--6946531 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
6946471 TAATTTTTTT
*
6946481 ATAATTTTTA-ATATTTTTA
1 ATAATTTTTATA-ATTCTTA
* *
6946500 TTGATTTTTATAATTCTTA
1 ATAATTTTTATAATTCTTA
6946519 ATAATTTTTATAA
1 ATAATTTTTATAA
6946532 ATTTTATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 25 0.96
20 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
ATAATTTTTATAATTCTTA
Found at i:6946536 original size:28 final size:28
Alignment explanation
Indices: 6946477--6946538 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6946467 CTTGTAATTT
* * *
6946477 TTTTATAATTTTTAATATTTTTATTGAT
1 TTTTATAATTCTTAATATTTTTATTAAA
6946505 TTTTATAATTCTTAATAATTTTTA-TAAA
1 TTTTATAATTCTTAAT-ATTTTTATTAAA
6946533 TTTTAT
1 TTTTAT
6946539 TAAAATGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 23 0.77
29 7 0.23
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTATAATTCTTAATATTTTTATTAAA
Found at i:6947264 original size:64 final size:65
Alignment explanation
Indices: 6947159--6947294 Score: 240
Period size: 64 Copynumber: 2.1 Consensus size: 65
6947149 AAATGGATTA
*
6947159 ATTTAACCATTATACTATTAAAAAGAATTAAATAAAACTAAATT-AGAATAGAATTAACATTTAC
1 ATTTAAACATTATACTATTAAAAAGAATTAAATAAAACTAAATTGA-AATAGAATTAACATTTAC
6947223 T
65 T
6947224 ATTTAAACATTATACTATT-AAAAGAATTAAATAAAACTAAATTGAAATAGAATTAACATTTACT
1 ATTTAAACATTATACTATTAAAAAGAATTAAATAAAACTAAATTGAAATAGAATTAACATTTACT
6947288 ATTTAAA
1 ATTTAAA
6947295 GAATGTCACT
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
64 50 0.72
65 19 0.28
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (65 bp):
ATTTAAACATTATACTATTAAAAAGAATTAAATAAAACTAAATTGAAATAGAATTAACATTTACT
Found at i:6948422 original size:20 final size:20
Alignment explanation
Indices: 6948385--6948423 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6948375 TTTAATAATA
* *
6948385 TTAAAAAAATTCATAAAATT
1 TTAAAAAAATACAGAAAATT
*
6948405 TTAAAAAAATAGAGAAAAT
1 TTAAAAAAATACAGAAAAT
6948424 CGAAATGCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (20 bp):
TTAAAAAAATACAGAAAATT
Found at i:6952922 original size:18 final size:18
Alignment explanation
Indices: 6952899--6952933 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6952889 GCATAATATA
*
6952899 ATTAAAATATATTAAAAT
1 ATTAAAATAAATTAAAAT
*
6952917 ATTAAAGTAAATTAAAA
1 ATTAAAATAAATTAAAA
6952934 GTTTTACAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
ATTAAAATAAATTAAAAT
Found at i:6955109 original size:10 final size:12
Alignment explanation
Indices: 6955072--6955109 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
6955062 CTAATACATT
6955072 TATACATATATA
1 TATACATATATA
*
6955084 TATATATATATA
1 TATACATATATA
6955096 TATACA-ATAT-
1 TATACATATATA
6955106 TATA
1 TATA
6955110 AAAAACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 4 0.17
11 4 0.17
12 16 0.67
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (12 bp):
TATACATATATA
Found at i:6955236 original size:21 final size:19
Alignment explanation
Indices: 6955205--6955249 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
6955195 GTGGCCGGAG
6955205 CTCCCCCTCCCCTCTTTTCT
1 CTCCCCCT-CCCTCTTTTCT
*
6955225 TTCCCCGCTCCCTCTTTTCT
1 CTCCCC-CTCCCTCTTTTCT
6955245 CTCCC
1 CTCCC
6955250 TCCCCTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.00, C:0.58, G:0.02, T:0.40
Consensus pattern (19 bp):
CTCCCCCTCCCTCTTTTCT
Found at i:6955261 original size:19 final size:18
Alignment explanation
Indices: 6955209--6955261 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
6955199 CCGGAGCTCC
*
6955209 CCCTCCCCTCTTTTCTTT
1 CCCTCCCCTCTTTTCTCT
*
6955227 CCCCGCTCCCTCTTTTCTCT
1 -CCCTC-CCCTCTTTTCTCT
6955247 CCCTCCCCTTCTTTT
1 CCCTCCCC-TCTTTT
6955262 TTTTTCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 14 0.48
20 12 0.41
ACGTcount: A:0.00, C:0.53, G:0.02, T:0.45
Consensus pattern (18 bp):
CCCTCCCCTCTTTTCTCT
Found at i:6956224 original size:23 final size:22
Alignment explanation
Indices: 6956192--6956237 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
6956182 ATAAGTTTTA
6956192 ATTATTATATTTT-ATATATATT
1 ATTATTATATTTTAATAT-TATT
6956214 ATTATGTATATTTTAATATTATT
1 ATTAT-TATATTTTAATATTATT
6956237 A
1 A
6956238 GGTATCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTATTATATTTTAATATTATT
Found at i:6956250 original size:23 final size:22
Alignment explanation
Indices: 6956197--6956242 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 22
6956187 TTTTAATTAT
*
6956197 TATATTTTATATATATTATTATG
1 TATATTTT-TATATATTATTAGG
6956220 TATA-TTTTA-ATATTATTAGG
1 TATATTTTTATATATTATTAGG
6956240 TAT
1 TAT
6956243 CTATTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 3 0.14
23 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (22 bp):
TATATTTTTATATATTATTAGG
Found at i:6973984 original size:35 final size:35
Alignment explanation
Indices: 6973957--6974122 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
6973947 CATGGCAAAG
*
6973957 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
6973992 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
6974027 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
6974067 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
6974102 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
6974123 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:6974076 original size:75 final size:75
Alignment explanation
Indices: 6973957--6974127 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
6973947 CATGGCAAAG
** *
6973957 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
6974016 CCATACTGAGC
65 CCATACCGAGC
6974027 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
6974092 CATACCGAGT
66 CATACCGAGC
**
6974102 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
6974128 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:6979702 original size:31 final size:29
Alignment explanation
Indices: 6979667--6979779 Score: 84
Period size: 31 Copynumber: 3.7 Consensus size: 29
6979657 TTTCTTAAAA
6979667 TTTTTGAAAATTTTAATTATACTCCTTAATT
1 TTTTTGAAAATTTTAATTA-ACT-CTTAATT
* * *
6979698 TTTTT-TAAATTCTCATTCAACTCTTAATT
1 TTTTTGAAAATTTTAATT-AACTCTTAATT
** **
6979727 TGTTTTTTAAATTTTAATTAAACATTCTTAAAG
1 T-TTTTGAAAATTTTAATT-AAC--TCTTAATT
*
6979760 TTTTTGAAAATTTTCATTAA
1 TTTTTGAAAATTTTAATTAA
6979780 TCTCACATAC
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
29 8 0.12
30 16 0.24
31 21 0.32
32 14 0.21
33 7 0.11
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTTTGAAAATTTTAATTAACTCTTAATT
Found at i:6985168 original size:30 final size:32
Alignment explanation
Indices: 6985133--6985204 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 32
6985123 ATTTTGCTTA
* *
6985133 AGACTAAAATTTTAA-AATTCAAAAAGTATAG
1 AGACTAAAATTTGAATAATTCAAAAAGAATAG
*
6985164 -GACTAAAA-TTGAATAATTCAATAAGAATAG
1 AGACTAAAATTTGAATAATTCAAAAAGAATAG
*
6985194 AGACTACAATT
1 AGACTAAAATT
6985205 GATCAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 4 0.12
30 22 0.65
31 7 0.21
32 1 0.03
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (32 bp):
AGACTAAAATTTGAATAATTCAAAAAGAATAG
Found at i:6988507 original size:10 final size:9
Alignment explanation
Indices: 6988495--6988589 Score: 79
Period size: 10 Copynumber: 10.3 Consensus size: 9
6988485 ACATGTGGAA
6988495 AAAAATTAT
1 AAAAATTAT
6988504 AAAAA--AT
1 AAAAATTAT
*
6988511 AAAAATCAAT
1 AAAAAT-TAT
6988521 AAAAATTAT
1 AAAAATTAT
*
6988530 AACAATTAT
1 AAAAATTAT
*
6988539 -TAAATTAT
1 AAAAATTAT
6988547 AATAAAATTAT
1 -A-AAAATTAT
*
6988558 AAAATTTATT
1 AAAAATTA-T
*
6988568 AAAAATTAGA
1 AAAAATTA-T
6988578 AAAAATTAT
1 AAAAATTAT
6988587 AAA
1 AAA
6988590 TTGCATAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
7 7 0.10
8 6 0.09
9 24 0.35
10 25 0.36
11 7 0.10
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:6988542 original size:19 final size:17
Alignment explanation
Indices: 6988495--6988580 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 17
6988485 ACATGTGGAA
*
6988495 AAAAATTATAAAA-AAT
1 AAAAATTATAAAATTAT
*
6988511 AAAAATCAATAAAAATTAT
1 AAAAAT-TAT-AAAATTAT
* *
6988530 AACAATTATTAAATTAT
1 AAAAATTATAAAATTAT
6988547 AATAAAATTATAAAATTTATT
1 -A-AAAATTATAAAA-TTA-T
*
6988568 AAAAATTAGAAAA
1 AAAAATTATAAAA
6988581 AATTATAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
16 6 0.11
17 9 0.16
18 7 0.13
19 28 0.51
20 4 0.07
21 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.31
Consensus pattern (17 bp):
AAAAATTATAAAATTAT
Found at i:6988566 original size:28 final size:27
Alignment explanation
Indices: 6988494--6988589 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 27
6988484 GACATGTGGA
* * *
6988494 AAAAAATTATAAAA-AATAAAAATCA-
1 AAAAAATTATAAAATTATTAAAATTAG
*
6988519 ATAAAAATTATAACAATTATT-AAATTAT
1 A-AAAAATTATAA-AATTATTAAAATTAG
6988547 AATAAAATTATAAAATTTATTAAAAATTAG
1 AA-AAAATTATAAAA-TTATT-AAAATTAG
6988577 AAAAAATTATAAA
1 AAAAAATTATAAA
6988590 TTGCATAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
25 1 0.02
26 11 0.19
27 10 0.17
28 18 0.31
29 11 0.19
30 8 0.14
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (27 bp):
AAAAAATTATAAAATTATTAAAATTAG
Found at i:6988600 original size:29 final size:30
Alignment explanation
Indices: 6988540--6988601 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
6988530 AACAATTATT
* * *
6988540 AAATTATAATAAAATTATAAAATTTATTAA
1 AAATTAGAATAAAATTATAAAATTCATAAA
6988570 AAATTAGAA-AAAATTAT-AAATTGCATAAA
1 AAATTAGAATAAAATTATAAAATT-CATAAA
6988599 AAA
1 AAA
6988602 AAAGCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.18
29 15 0.54
30 8 0.29
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATTAGAATAAAATTATAAAATTCATAAA
Found at i:6988856 original size:29 final size:29
Alignment explanation
Indices: 6988821--6988883 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
6988811 TCTTTATATT
6988821 TTTTATAAACTTCTTAC-AACTTTATAAAA
1 TTTTAT-AACTTCTTACGAACTTTATAAAA
* * *
6988850 TTTTATAATTTTTTACGATCTTTATAAAA
1 TTTTATAACTTCTTACGAACTTTATAAAA
6988879 TTTTA
1 TTTTA
6988884 GAATTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTTATAACTTCTTACGAACTTTATAAAA
Found at i:6988910 original size:21 final size:19
Alignment explanation
Indices: 6988850--6988922 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
6988840 CTTTATAAAA
6988850 TTTTATAATTTTTTACGAT
1 TTTTATAATTTTTTACGAT
* **
6988869 CTTTATAAAATTTTA-GAAT
1 TTTTATAATTTTTTACG-AT
6988888 TTTTATAATTTTTTTTACGAT
1 TTTTATAA--TTTTTTACGAT
*
6988909 TTTTGTAATTTTTT
1 TTTTATAATTTTTT
6988923 TCTAATTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.02
19 27 0.63
21 14 0.33
22 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:6988951 original size:28 final size:27
Alignment explanation
Indices: 6988914--6988982 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 27
6988904 ACGATTTTTG
* * *
6988914 TAATTTTTTTCTAATTTTAGATAAAATT
1 TAATATTTTTATATTTTTA-ATAAAATT
*
6988942 TAAATATTTTTATATTTTTATTAAAATT
1 T-AATATTTTTATATTTTTAATAAAATT
6988970 TAATATTTTTATA
1 TAATATTTTTATA
6988983 ACATTTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 12 0.33
28 9 0.25
29 15 0.42
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
TAATATTTTTATATTTTTAATAAAATT
Found at i:6988977 original size:19 final size:19
Alignment explanation
Indices: 6988953--6989001 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
6988943 AAATATTTTT
6988953 ATATTTTTATTAAAATTTA
1 ATATTTTTATTAAAATTTA
*
6988972 ATATTTTTA-TAACATTTA
1 ATATTTTTATTAAAATTTA
*
6988990 TTAATTTTTATT
1 AT-ATTTTTATT
6989002 TTTATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 9 0.35
19 16 0.62
20 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATATTTTTATTAAAATTTA
Found at i:6988989 original size:28 final size:28
Alignment explanation
Indices: 6988935--6988993 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
6988925 TAATTTTAGA
**
6988935 TAAAATTTAAATATTTTTATATTTTTAT
1 TAAAATTTAAATATTTTTATACATTTAT
6988963 TAAAATTT-AATATTTTTATAACATTTAT
1 TAAAATTTAAATATTTTTAT-ACATTTAT
6988991 TAA
1 TAA
6988994 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
TAAAATTTAAATATTTTTATACATTTAT
Found at i:6990806 original size:10 final size:10
Alignment explanation
Indices: 6990791--6990909 Score: 65
Period size: 10 Copynumber: 12.4 Consensus size: 10
6990781 TCATAACATA
6990791 TTTATAATAT
1 TTTATAATAT
*
6990801 TTTATAATAG
1 TTTATAATAT
* *
6990811 TTAATAGT-T
1 TTTATAATAT
6990820 TTTAT-ATAT
1 TTTATAATAT
*
6990829 TTT-TAAAAT
1 TTTATAATAT
*
6990838 TTTATGATAT
1 TTTATAATAT
*
6990848 TTAATAAT-T
1 TTTATAATAT
6990857 TTTATAGAT-T
1 TTTATA-ATAT
*
6990867 TTCTATCAT-T
1 TT-TATAATAT
* * *
6990877 TTCA-AAAAA
1 TTTATAATAT
6990886 TTTATAATAT
1 TTTATAATAT
6990896 TTTAATAAT-T
1 TTT-ATAATAT
6990906 TTTA
1 TTTA
6990910 GGCTAAAACT
Statistics
Matches: 81, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
8 3 0.04
9 25 0.31
10 45 0.56
11 8 0.10
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (10 bp):
TTTATAATAT
Found at i:6990840 original size:19 final size:20
Alignment explanation
Indices: 6990811--6990868 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 20
6990801 TTTATAATAG
*
6990811 TTAATAGTTTTTATATATTT
1 TTAATAATTTTTATATATTT
6990831 TTAA-AA-TTTTATGATA--T
1 TTAATAATTTTTAT-ATATTT
*
6990848 TTAATAATTTTTATAGATTT
1 TTAATAATTTTTATATATTT
6990868 T
1 T
6990869 CTATCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
17 5 0.16
18 10 0.32
19 10 0.32
20 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTAATAATTTTTATATATTT
Found at i:6990840 original size:37 final size:37
Alignment explanation
Indices: 6990788--6990868 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
6990778 TTTTCATAAC
* * *
6990788 ATATTTATAATATTTTATAATAGTTAATAGTTTTTAT
1 ATATTTTTAAAATTTTATAATAGTTAATAATTTTTAT
* *
6990825 ATATTTTTAAAATTTTATGATATTTAATAATTTTTAT
1 ATATTTTTAAAATTTTATAATAGTTAATAATTTTTAT
*
6990862 AGATTTT
1 ATATTTT
6990869 CTATCATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (37 bp):
ATATTTTTAAAATTTTATAATAGTTAATAATTTTTAT
Found at i:6990988 original size:37 final size:35
Alignment explanation
Indices: 6990919--6990988 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 35
6990909 AGGCTAAAAC
**
6990919 TTTTATAATAATTTTAATTTTTTCATTTTTTTTCA
1 TTTTATAATAATTTTAATTTTTTCATAATTTTTCA
6990954 TTTTAT-ATAATTTCTAAGTTATTTTCATAATTTTT
1 TTTTATAATAATTT-TAA-TT-TTTTCATAATTTTT
6990989 ATATATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 7 0.23
35 9 0.30
36 2 0.07
37 12 0.40
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (35 bp):
TTTTATAATAATTTTAATTTTTTCATAATTTTTCA
Found at i:6991800 original size:12 final size:12
Alignment explanation
Indices: 6991779--6991813 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6991769 AAAATGCTGA
*
6991779 AATCAAAATCAT
1 AATCAGAATCAT
*
6991791 CATCAGAATCAT
1 AATCAGAATCAT
6991803 AATCAGAATCA
1 AATCAGAATCA
6991814 CTTACTTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (12 bp):
AATCAGAATCAT
Found at i:6995720 original size:107 final size:103
Alignment explanation
Indices: 6995516--6995722 Score: 272
Period size: 103 Copynumber: 2.0 Consensus size: 103
6995506 TATAAATACA
* * * * *
6995516 ACATATTAATCTAGTAGGAAATCCTCACAGTTAAACATAGACTTGATTTAGCTAATCATGTGCAA
1 ACATATTAATCTAGTAGGAAAGCCACACAGTTAAACATAGACTTAATCTAGCAAATCATGTGCAA
*
6995581 AATCATAGATCAAGTAATCAACAATAGAACTAATTTAT
66 AATCAAAGATCAAGTAATCAACAATAGAACTAATTTAT
* *
6995619 ACATATTAATCTAGTAGGTACGCCACACAGTTAAACATAGACTTAATCTAGCCAAATAGCCATGT
1 ACATATTAATCTAGTAGGAAAGCCACACAGTTAAACATAGACTTAATCTAG-CAAAT---CATGT
* *
6995684 -CTGAAATCAAAGATCAAGTAATTAACAATAGAACTAATT
62 GC-AAAATCAAAGATCAAGTAATCAACAATAGAACTAATT
6995723 GATATCAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
103 45 0.51
104 4 0.04
106 1 0.01
107 39 0.44
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (103 bp):
ACATATTAATCTAGTAGGAAAGCCACACAGTTAAACATAGACTTAATCTAGCAAATCATGTGCAA
AATCAAAGATCAAGTAATCAACAATAGAACTAATTTAT
Found at i:6999997 original size:38 final size:39
Alignment explanation
Indices: 6999955--7000032 Score: 122
Period size: 38 Copynumber: 2.0 Consensus size: 39
6999945 ATACGGTTTA
*
6999955 TCTTTTTTAGTCTTTCTAA-ATTTTTTTCAAAATTTAAT
1 TCTTTTTTAGTCTCTCTAATATTTTTTTCAAAATTTAAT
*
6999993 TCTTTTTTAGTCTCTCTAATTTTTTTTTTCAAAATTTAAT
1 TCTTTTTTAGTCTCTCTAA-TATTTTTTTCAAAATTTAAT
7000033 CACTTTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 18 0.50
40 18 0.50
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.62
Consensus pattern (39 bp):
TCTTTTTTAGTCTCTCTAATATTTTTTTCAAAATTTAAT
Found at i:7000147 original size:21 final size:22
Alignment explanation
Indices: 7000115--7000161 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
7000105 TTTGATAATT
*
7000115 TTTTATTTTTTTTGAATGCACG
1 TTTTATTTTTTTTGAATACACG
7000137 TTTTATTTTTTTTGAATACACG
1 TTTTATTTTTTTTGAATACACG
7000159 TTT
1 TTT
7000162 CCTTTCAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.09, G:0.11, T:0.62
Consensus pattern (22 bp):
TTTTATTTTTTTTGAATACACG
Found at i:7005751 original size:18 final size:19
Alignment explanation
Indices: 7005730--7005767 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
7005720 CTTTGAAATT
7005730 CTTCATCTCT-CAATTCTA
1 CTTCATCTCTGCAATTCTA
*
7005748 CTTCATCTTTGCAATTCTA
1 CTTCATCTCTGCAATTCTA
7005767 C
1 C
7005768 AGAAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.45
Consensus pattern (19 bp):
CTTCATCTCTGCAATTCTA
Found at i:7008756 original size:131 final size:130
Alignment explanation
Indices: 7008423--7008752 Score: 447
Period size: 131 Copynumber: 2.5 Consensus size: 130
7008413 AAATTCAGTC
* *
7008423 TTTAATTGAACTGAAAGAACACAAAAAGCAAATG-CTGTGCAGTTTGCCAATAGCTAAGAACAG-
1 TTTAATTGAACTGAAAGAACAC-AAAAGCAAA-GACTGT--AGTTT-CAAAGAGCTAAGAACAGC
*
7008486 TAAAATCAACAAAAGGAGCAATCAATAAGAATCAAACAGTACAAAAAAGAGTAAAAACAAACAAA
61 TAAAATCAACAAAAGGAGCAATCAATAAAAATCAAACAGTACAAAAAAGAGTAAAAACAAACAAA
7008551 CCCAT
126 CCCAT
* * *
7008556 TTAAATTTGAACTGAAAGAACACAAAAGCAAAGACTGTAATTTGCAAAGAGCTAAGAACAGC-AG
1 TTTAA-TTGAACTGAAAGAACACAAAAGCAAAGACTGTAGTTT-CAAAGAGCTAAGAACAGCTAA
* * * *
7008620 AATCAACAGAAGGGGCAATCAATAAAAATCAAACAGTACAGAAAA-AGTAAAAACAGACAAACCC
64 AATCAACAAAAGGAGCAATCAATAAAAATCAAACAGTACAAAAAAGAGTAAAAACAAACAAACCC
7008684 AT
129 AT
* *
7008686 TTTAATTGAACTGAAAGAACACGAAAGCAAAGACTGTAGTTT-AAAGAACTAAGAACAGCT-AAA
1 TTTAATTGAACTGAAAGAACACAAAAGCAAAGACTGTAGTTTCAAAGAGCTAAGAACAGCTAAAA
7008749 TCAA
66 TCAA
7008753 TCAATAAGAA
Statistics
Matches: 178, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
127 22 0.12
129 35 0.20
130 24 0.13
131 62 0.35
132 1 0.01
133 17 0.10
134 17 0.10
ACGTcount: A:0.52, C:0.16, G:0.15, T:0.17
Consensus pattern (130 bp):
TTTAATTGAACTGAAAGAACACAAAAGCAAAGACTGTAGTTTCAAAGAGCTAAGAACAGCTAAAA
TCAACAAAAGGAGCAATCAATAAAAATCAAACAGTACAAAAAAGAGTAAAAACAAACAAACCCAT
Found at i:7012388 original size:15 final size:15
Alignment explanation
Indices: 7012368--7012396 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7012358 CACATTTTTC
7012368 ATGTTTTTTTAAAAT
1 ATGTTTTTTTAAAAT
7012383 ATGTTTTTTTAAAA
1 ATGTTTTTTTAAAA
7012397 GGGTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (15 bp):
ATGTTTTTTTAAAAT
Found at i:7013939 original size:19 final size:20
Alignment explanation
Indices: 7013903--7013942 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
7013893 GGGGGATTTT
7013903 TATTTTATTTAATATTAATA
1 TATTTTATTTAATATTAATA
7013923 TATTTATATTT-AT-TTAATA
1 TATTT-TATTTAATATTAATA
7013942 T
1 T
7013943 TAATATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTATTTAATATTAATA
Found at i:7013939 original size:25 final size:24
Alignment explanation
Indices: 7013901--7013948 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
7013891 TCGGGGGATT
7013901 TTTATTTTATTTAATATTAATATA
1 TTTATTTTATTTAATATTAATATA
7013925 TTTATATTTATTTAATATTAATAT
1 TTTAT-TTTATTTAATATTAATAT
7013949 TAACATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTATTTTATTTAATATTAATATA
Found at i:7016777 original size:18 final size:17
Alignment explanation
Indices: 7016756--7016794 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
7016746 GTAACTCATA
7016756 TTTTAAATATTTTATTAT
1 TTTTAAATATTTTA-TAT
* *
7016774 TTTTAGATTTTTTATAT
1 TTTTAAATATTTTATAT
7016791 TTTT
1 TTTT
7016795 TGTATGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTAAATATTTTATAT
Found at i:7021876 original size:20 final size:20
Alignment explanation
Indices: 7021826--7021868 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
7021816 TTTTCATTTA
7021826 TTTTCGTAA-TTTTTATAATG
1 TTTT-GTAATTTTTTATAATG
7021846 TTTTGTAATTTTTTAT-ATG
1 TTTTGTAATTTTTTATAATG
7021865 TTTT
1 TTTT
7021869 TAAAATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.67
Consensus pattern (20 bp):
TTTTGTAATTTTTTATAATG
Found at i:7026354 original size:25 final size:25
Alignment explanation
Indices: 7026320--7026370 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7026310 AAAAGAAAAG
7026320 AAAGGTTCATTCTCCAATTTATTGT
1 AAAGGTTCATTCTCCAATTTATTGT
7026345 AAAGGTTCATTCTCCAATTTATTGT
1 AAAGGTTCATTCTCCAATTTATTGT
7026370 A
1 A
7026371 TTTCAGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (25 bp):
AAAGGTTCATTCTCCAATTTATTGT
Found at i:7029018 original size:3 final size:3
Alignment explanation
Indices: 7029010--7029034 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7029000 TCTTCCTTTT
7029010 CGC CGC CGC CGC CGC CGC CGC CGC C
1 CGC CGC CGC CGC CGC CGC CGC CGC C
7029035 TCCATCTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.32, T:0.00
Consensus pattern (3 bp):
CGC
Found at i:7029706 original size:27 final size:27
Alignment explanation
Indices: 7029651--7029706 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
7029641 CATATTAATT
* * *
7029651 ATTTGAATTAATTATTATTTTTATCAA
1 ATTTGAATTAATTATGATTTATATAAA
7029678 ATTTGAATTAATTATGATATTATA-AAA
1 ATTTGAATTAATTATGAT-TTATATAAA
7029705 AT
1 AT
7029707 AGGGATCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (27 bp):
ATTTGAATTAATTATGATTTATATAAA
Found at i:7036273 original size:20 final size:20
Alignment explanation
Indices: 7036248--7036292 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
7036238 CTTAGGAAAA
7036248 GTAAATCCTTAGAA-ATATTG
1 GTAAATCCTTA-AATATATTG
* *
7036268 GTAAATCGTTAAATATTTTG
1 GTAAATCCTTAAATATATTG
7036288 GTAAA
1 GTAAA
7036293 AACTTTTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (20 bp):
GTAAATCCTTAAATATATTG
Found at i:7037682 original size:31 final size:30
Alignment explanation
Indices: 7037626--7037698 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
7037616 TAGGGACCGG
* *
7037626 ATCAAATTAGTCCCCCTATTATT-AAATGA
1 ATCAAATTAGTCCCCATATTATTAAAAAGA
*
7037655 ATCAAATTAGTCCCTATACTTTATTAAAAAGA
1 ATCAAATTAGTCCCCATA--TTATTAAAAAGA
7037687 ATCAAA-TAGTCC
1 ATCAAATTAGTCC
7037699 AAATTGTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 16 0.42
31 11 0.29
32 11 0.29
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (30 bp):
ATCAAATTAGTCCCCATATTATTAAAAAGA
Found at i:7044858 original size:26 final size:26
Alignment explanation
Indices: 7044820--7044926 Score: 160
Period size: 26 Copynumber: 4.1 Consensus size: 26
7044810 GGTACAAATC
*
7044820 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGATTAGGTAAATGTTCCAT
** *
7044846 GATAATAAATTAGGTAAATATTCCAT
1 GATAATGGATTAGGTAAATGTTCCAT
*
7044872 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGATTAGGTAAATGTTCCAT
*
7044898 GATAATGGTTTAGGTAAATGTTCCAT
1 GATAATGGATTAGGTAAATGTTCCAT
7044924 GAT
1 GAT
7044927 GGGCATTTAA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
GATAATGGATTAGGTAAATGTTCCAT
Found at i:7044898 original size:52 final size:52
Alignment explanation
Indices: 7044820--7044926 Score: 178
Period size: 52 Copynumber: 2.1 Consensus size: 52
7044810 GGTACAAATC
7044820 GATAATGGGTTAGGTAAATGTTCCATGATAATAAATTAGGTAAATATTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGATAATAAATTAGGTAAATATTCCAT
*** *
7044872 GATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCATGATAATAAATTAGGTAAATATTCCAT
7044924 GAT
1 GAT
7044927 GGGCATTTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (52 bp):
GATAATGGGTTAGGTAAATGTTCCATGATAATAAATTAGGTAAATATTCCAT
Found at i:7046622 original size:27 final size:26
Alignment explanation
Indices: 7046582--7046722 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 26
7046572 AGGAAGCGTC
7046582 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
7046609 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
7046636 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
7046663 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* * *
7046690 CTGGTGGCTCTGCCACAATATCTATAT
1 CTGGTGGCTATGCCACATTATCT-GAT
7046717 CTGGTG
1 CTGGTG
7046723 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 9 0.09
27 89 0.89
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:7046664 original size:54 final size:53
Alignment explanation
Indices: 7046582--7046722 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
7046572 AGGAAGCGTC
7046582 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
7046636 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
7046690 CTGGTGGCTCTGCCACAATATCTATATCTGGTG
1 CTGGTGGCTATGCCACATTATCT-GATCTGGTG
7046723 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:7049617 original size:11 final size:11
Alignment explanation
Indices: 7049601--7049630 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
7049591 GGATACTACA
7049601 GAAGGTTTGTG
1 GAAGGTTTGTG
7049612 GAAGGTTTGTG
1 GAAGGTTTGTG
7049623 GAAGGTTT
1 GAAGGTTT
7049631 TTCTGTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (11 bp):
GAAGGTTTGTG
Found at i:7052326 original size:46 final size:46
Alignment explanation
Indices: 7052265--7052582 Score: 469
Period size: 46 Copynumber: 6.9 Consensus size: 46
7052255 TTGACATGAC
* * * * * *
7052265 GCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTT
* * *** *
7052311 GTCATGGTATCTTTCAACTATGGTCTTGTTCATTTCATATCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
*
7052357 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGATT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
* *
7052403 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGCT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
*
7052449 GCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAGGCT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
7052494 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
7052540 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
7052583 AGAGCACACT
Statistics
Matches: 251, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
45 48 0.19
46 203 0.81
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTT
Found at i:7052536 original size:137 final size:138
Alignment explanation
Indices: 7052313--7052579 Score: 464
Period size: 137 Copynumber: 1.9 Consensus size: 138
7052303 GTCATGTTGT
* *** *
7052313 CATGGTATCTTTCAACTATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCAT
1 CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCAT
7052378 GGTCTTACACATTTCATATCAGATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
66 GGTCTTACACATTTCATATCAGATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
7052443 TAGGCTGC
131 TAGGCTGC
*
7052451 CATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAGGCTGCCATGGTATCTTTCAACCAT
1 CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCAT
*
7052515 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
66 GGTCTTACACATTTCATATCAGATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
7052580 CAGAGAGCAC
Statistics
Matches: 122, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
137 96 0.79
138 26 0.21
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (138 bp):
CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCAT
GGTCTTACACATTTCATATCAGATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
TAGGCTGC
Found at i:7057640 original size:46 final size:46
Alignment explanation
Indices: 7057578--7057897 Score: 480
Period size: 46 Copynumber: 7.0 Consensus size: 46
7057568 TTTGACATGA
* * * * * *
7057578 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
7057624 TGTCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
7057670 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
7057716 TGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
7057762 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
7057808 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
7057854 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
7057898 AGAGCACACT
Statistics
Matches: 252, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 248 0.98
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:7060742 original size:26 final size:25
Alignment explanation
Indices: 7060713--7060820 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 25
7060703 TGGTACAAAT
7060713 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
* *
7060739 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATG-GTTAGGTAAATGTTCCA
7060765 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
7060791 TGATAATTGTTTAGGTAAATGTTCCA
1 TGATAA-TGGTTAGGTAAATGTTCCA
7060817 TGAT
1 TGAT
7060821 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
25 1 0.01
26 71 0.96
27 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:7060777 original size:52 final size:52
Alignment explanation
Indices: 7060713--7060820 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 52
7060703 TGGTACAAAT
7060713 TGATAATAGGTTAGGTAAATGTTCCATGATAA-TGAATTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATTG-ATTAGGTAAATATTCCA
* * *
7060765 TGATAATGGGTTAGGTAAATGTTCCATGATAATTGTTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATTGATTAGGTAAATATTCCA
7060817 TGAT
1 TGAT
7060821 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 50 0.96
53 2 0.04
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATTGATTAGGTAAATATTCCA
Found at i:7062527 original size:54 final size:53
Alignment explanation
Indices: 7062444--7062584 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
7062434 AGGAAACGTC
7062444 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
* *
7062498 TTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
* *
7062552 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
7062585 ATTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
Found at i:7062580 original size:32 final size:27
Alignment explanation
Indices: 7062444--7062584 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
7062434 AGGAAACGTC
*
7062444 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
7062471 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACATATATCTGA-T
* *
7062498 TTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
7062525 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
7062552 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
7062579 CTGGTG
1 CTGGTG
7062585 ATTTCGTCAC
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.10
27 87 0.86
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:7064428 original size:18 final size:19
Alignment explanation
Indices: 7064388--7064434 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
7064378 TTTCCCGAGA
* *
7064388 ATTTTAATATGCTTCTAGC
1 ATTTTAATATCCTTCAAGC
*
7064407 ATTTTAA-ATCCTTCAAGG
1 ATTTTAATATCCTTCAAGC
7064425 ATTTTAATAT
1 ATTTTAATAT
7064435 AAACTTTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.32, C:0.13, G:0.09, T:0.47
Consensus pattern (19 bp):
ATTTTAATATCCTTCAAGC
Found at i:7070068 original size:31 final size:31
Alignment explanation
Indices: 7070030--7070093 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
7070020 CTTAACATTA
7070030 ACTTAAAT-AAGAACTTTTGAATAATTTAGTG
1 ACTTAAATGAA-AACTTTTGAATAATTTAGTG
7070061 ACTTAAATGAAAACTTTTGAATAATTTAGTG
1 ACTTAAATGAAAACTTTTGAATAATTTAGTG
7070092 AC
1 AC
7070094 CATTTTGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (31 bp):
ACTTAAATGAAAACTTTTGAATAATTTAGTG
Found at i:7074733 original size:22 final size:22
Alignment explanation
Indices: 7074703--7074746 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7074693 TAGATTGTAT
* *
7074703 TTTGTTCTTTCTATTCAAATTA
1 TTTGCTCTTTCTACTCAAATTA
*
7074725 TTTGCTCTTTTTACTCAAATTA
1 TTTGCTCTTTCTACTCAAATTA
7074747 GTCATTACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.57
Consensus pattern (22 bp):
TTTGCTCTTTCTACTCAAATTA
Found at i:7084722 original size:24 final size:24
Alignment explanation
Indices: 7084695--7084744 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
7084685 AACCAACCAT
*
7084695 TAACTCCATCACCCCACTTGCCAC
1 TAACTCCATCACCCCACGTGCCAC
* *
7084719 TAACTTCATCACCCTACGTGCCAC
1 TAACTCCATCACCCCACGTGCCAC
7084743 TA
1 TA
7084745 GGGGTGTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.44, G:0.06, T:0.24
Consensus pattern (24 bp):
TAACTCCATCACCCCACGTGCCAC
Found at i:7084914 original size:9 final size:9
Alignment explanation
Indices: 7084900--7084967 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
7084890 ATAAGTATAA
7084900 AATTAACCG
1 AATTAACCG
*
7084909 AATTAATCG
1 AATTAACCG
*
7084918 AATTACCCG
1 AATTAACCG
*
7084927 AATTACCCG
1 AATTAACCG
* *
7084936 AATTATCCA
1 AATTAACCG
7084945 AATTAACCG
1 AATTAACCG
*
7084954 AATTAACCA
1 AATTAACCG
7084963 AATTA
1 AATTA
7084968 TTTGTATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:7085518 original size:24 final size:26
Alignment explanation
Indices: 7085468--7085520 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
7085458 TTTTTGGAGA
*
7085468 AAAAAGGAGAGAGATTCAAATACAAG
1 AAAAAGGAGAGACATTCAAATACAAG
*
7085494 AAAAA-GAGAGACTTTC-AATACAAG
1 AAAAAGGAGAGACATTCAAATACAAG
7085518 AAA
1 AAA
7085521 TACACAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.44
25 9 0.36
26 5 0.20
ACGTcount: A:0.58, C:0.09, G:0.19, T:0.13
Consensus pattern (26 bp):
AAAAAGGAGAGACATTCAAATACAAG
Found at i:7087276 original size:3 final size:3
Alignment explanation
Indices: 7087268--7087308 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
7087258 TCGATTTTAC
7087268 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7087309 GTCCCATACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7088610 original size:3 final size:3
Alignment explanation
Indices: 7088604--7088649 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
7088594 GGTTTCGACA
*
7088604 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATG ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7088650 ATCTATATAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Done.