Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 242 of 292
Found at i:70287267 original size:79 final size:77
Alignment explanation
Indices: 70287138--70287394 Score: 266
Period size: 79 Copynumber: 3.3 Consensus size: 77
70287128 GAAAACAAAA
** ** * * * *
70287138 TTTGAAAAACAGATTTTGAAAATACCTC-GACATGTGACCCGATGCTCAACTCACATCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAATACCTCAG-CGCGTGAGCCAAGGCTCAACTCACCTCTCGCAAT
*
70287202 GTGAGTTGATTTT
65 ATGAGTTGATTTT
* * * * * *
70287215 TTTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTG--AAAATACCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCGCA
70287279 ATATGAGTTGATTTT
63 ATATGAGTTGATTTT
* * *
70287294 TTTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGATCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATA
70287359 TGAGTTGATTTTTT
66 TGAGTTGA--TTTT
**
70287373 TTTGAAAGGCAGAAATTGAAAA
1 TTTGAAAAACAGAAATTGAAAA
70287395 ACGGAAATTG
Statistics
Matches: 152, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
76 2 0.01
77 60 0.39
79 88 0.58
80 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (77 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTT
Found at i:70287436 original size:170 final size:167
Alignment explanation
Indices: 70287235--70287860 Score: 811
Period size: 170 Copynumber: 3.8 Consensus size: 167
70287225 ATAAATTGAA
* * * * *
70287235 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
* * * *
70287300 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGATCAACTCACCTCTCGCAATATGAGT
66 A-ACAGAAATTGAAAATACCTCA--GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
70287364 TGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
127 TGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* * * *
70287405 AAAATACCTCGGCGTGTGATCTGAGGCTCAACTC-GCTGCTCGCAATACGAGTTGATTTTTTTTA
1 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCT-CTCGCAATACGAGTTGATTTTTTTGA
* *
70287469 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA
65 CAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
70287534 TTTTGTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
130 --TT-TTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* * *
70287575 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTTT
1 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA--TTTTTTTG
* *
70287640 ACAACAAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
64 ACAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
70287705 A---TTTTTTGAAA--C----A-T-ACAAA---AAATTG
129 ATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* * *
70287730 ACAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATACGAATTGATTTTTTTGAC
1 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
*
70287793 AACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
70287858 TTT
131 TTT
70287861 GAAAAAGTAG
Statistics
Matches: 416, Mismatches: 29, Indels: 38
0.86 0.06 0.08
Matches are distributed among these distances:
151 70 0.17
153 33 0.08
154 1 0.00
155 21 0.05
158 4 0.01
159 1 0.00
160 1 0.00
164 1 0.00
166 12 0.03
167 35 0.08
169 23 0.06
170 142 0.34
171 2 0.00
172 70 0.17
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (167 bp):
AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAC
AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
Found at i:70287457 original size:93 final size:93
Alignment explanation
Indices: 70287295--70287467 Score: 231
Period size: 93 Copynumber: 1.9 Consensus size: 93
70287285 GTTGATTTTT
* * *
70287295 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGATCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGATCAACTCACCTCTCGCAATAC
70287360 GAGTTGATTTTTTTTTGAAAGGCAGAAA
66 GAGTTGATTTTTTTTTGAAAGGCAGAAA
* * * * ** * *
70287388 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTC-GCTGCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGATCAACTCACCT-CTCGCAATA
70287452 CGAGTTGATTTTTTTT
65 CGAGTTGATTTTTTTT
70287468 ACAACAGAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (93 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGATCAACTCACCTCTCGCAATAC
GAGTTGATTTTTTTTTGAAAGGCAGAAA
Found at i:70287535 original size:323 final size:312
Alignment explanation
Indices: 70287181--70287860 Score: 732
Period size: 323 Copynumber: 2.1 Consensus size: 312
70287171 GTGACCCGAT
* * * **
70287181 GCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTG-A-A-AAA-T-ATAAATTG-AA-AAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGAAATTGAAAAACGGAAATAAAA
* * *
70287239 TACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGA
66 TACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTTGAAA-A
* * *
70287303 CAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGATCAACTCACCTCTCGCAATATGAGTTGA
130 CAAAAATTAAAAATACCTCA--GCGTG-GCCTAAGGATCAACTCACCTCTCGCAATATGAGTTGA
* * *
70287367 TTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGATCTGAGGC
192 ---TTTTTTGAAA--C----A-T-AAAAA---AAATTGAAAATACCTCAGCGTGT--CCCGAGGC
* * * *
70287432 TCAACTC-GCTGCTCGCAATACGAGTTGATTTTTTTTACAACAGAAATTGAAATTACCTCAGCGT
241 TCAACTCACCT-CTCGCAATACGAATTGATTTTTTTGACAACAGAAATTGAAAATACCTCAGCGT
70287496 GTCCTGAG
305 GTCCTGAG
*
70287504 GCTCAACTCACCTTTCGCAATATGAGTTGATTTTGTTTTTTTGAAAGGCAGAAATTGAAAAACGG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTTTG-AA-G-AGAAATTGAAAAACGG
* * *
70287569 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTT
58 AAA-T-AAAATACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCGCAATACGAGTTGA-TTT
* * * * *
70287634 TTTTTTACAACAAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
120 TTTTTGAAAACAAAAATTAAAAATACCTCAGCGTGGCCTAAGGATCAACTCACCTCTCGCAATAT
* *
70287699 GAGTTGATTTTTTGAAACATACAAAAAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCAC
185 GAGTTGATTTTTTGAAACATAAAAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCAC
*
70287764 CTCTCGCAATACGAATTGATTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCTTGAG
250 CTCTCGCAATACGAATTGATTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCTGAG
70287827 GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
70287861 GAAAAAGTAG
Statistics
Matches: 305, Mismatches: 31, Indels: 47
0.80 0.08 0.12
Matches are distributed among these distances:
318 4 0.01
323 126 0.41
324 2 0.01
325 21 0.07
328 12 0.04
329 1 0.00
330 2 0.01
333 1 0.00
334 4 0.01
335 1 0.00
336 15 0.05
337 2 0.01
338 2 0.01
339 36 0.12
340 49 0.16
341 18 0.06
342 9 0.03
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (312 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGAAATTGAAAAACGGAAATAAAA
TACCTCAGCGTGTGACCTGAAGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTTGAAAAC
AAAAATTAAAAATACCTCAGCGTGGCCTAAGGATCAACTCACCTCTCGCAATATGAGTTGATTTT
TTGAAACATAAAAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
CGAATTGATTTTTTTGACAACAGAAATTGAAAATACCTCAGCGTGTCCTGAG
Found at i:70287543 original size:76 final size:75
Alignment explanation
Indices: 70287398--70287860 Score: 300
Period size: 74 Copynumber: 5.9 Consensus size: 75
70287388 TTGAAAAACG
* * *
70287398 GAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCGCTGCTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCCCTGCTCGCAATACGAGTTGATTT
70287463 TTTTTACAACA
65 TTTTTACAACA
* * *
70287474 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCT-TTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGA---
70287537 TGTTTTTTTGA-AAGGCA
62 T-TTTTTTT-ACAA--CA
** *** * * * *
70287554 GAAATTGAAAA-A-CGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCG
1 GAAATTGAAAATACCTCAGCGTG----TACCT----GAG-G--CTCA-ACTC-CCT-G---CTCG
70287617 CAATACGAGTTGATTTTTTTTTTACAACA
49 CAATACGAGTTGA--TTTTTTTTACAACA
* * *
70287646 AAAATTAAAAATACCTCAGCGTGT-CCTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATTT
**
70287709 TTTGAAACATACAA
65 TTT-TTACA-AC-A
* * * *
70287723 AAAATTGACAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCT-CTCGCAATACGAATTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATTT
*
70287786 TTTTGACAACA
65 TTTTTACAACA
* *
70287797 GAAATTGAAAATACCTCAGCGTGT-CTTGAGGCTCAACTCACCT-CTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTC-CCTGCTCGCAATACGAGTTGATTT
70287860 T
65 T
70287861 GAAAAAGTAG
Statistics
Matches: 310, Mismatches: 45, Indels: 66
0.74 0.11 0.16
Matches are distributed among these distances:
74 94 0.30
75 7 0.02
76 43 0.14
77 63 0.20
78 13 0.04
79 2 0.01
80 12 0.04
81 6 0.02
82 4 0.01
83 3 0.01
84 1 0.00
85 2 0.01
87 2 0.01
88 1 0.00
89 3 0.01
90 4 0.01
91 6 0.02
92 11 0.04
93 2 0.01
94 13 0.04
95 3 0.01
96 15 0.05
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (75 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCCCTGCTCGCAATACGAGTTGATTTT
TTTTACAACA
Found at i:70287736 original size:77 final size:74
Alignment explanation
Indices: 70287569--70287860 Score: 406
Period size: 74 Copynumber: 3.9 Consensus size: 74
70287559 TGAAAAACGG
* *
70287569 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA--TT
*
70287634 TTTTTTACAACAA
62 TTTTTGACAACAA
* *
70287647 AAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTT
70287711 TGAAACATACAAA
66 TG--ACA-AC-AA
* * *
70287724 AAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATACGAATTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTT
*
70287789 TGACAACAG
66 TGACAACAA
* *
70287798 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
70287861 GAAAAAGTAG
Statistics
Matches: 193, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
73 6 0.03
74 59 0.31
75 5 0.03
76 39 0.20
77 56 0.29
78 28 0.15
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (74 bp):
AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTT
TGACAACAA
Found at i:70287847 original size:151 final size:153
Alignment explanation
Indices: 70287569--70287860 Score: 471
Period size: 151 Copynumber: 1.9 Consensus size: 153
70287559 TGAAAAACGG
* * * *
70287569 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATACGAATTGA-TTT
*
70287634 TTTTTTACAACAAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
64 TTTTTGACAACAAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
70287699 GAGTTGATTTTTTGAAACATACAAA
129 GAGTTGATTTTTTGAAACATACAAA
*
70287724 AAATTGACAATACCTCAGCGTGT-CCCGAGGCTCAACTCACCTCTCGCAATACGAATTGA-TTTT
1 AAATTGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATACGAATTGATTTTT
* * *
70287787 TTTGACAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
66 TTTGACAACAAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
70287852 GTTGATTTT
131 GTTGATTTT
70287861 GAAAAAGTAG
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
151 74 0.58
153 33 0.26
155 21 0.16
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (153 bp):
AAATTGAAAATACCTCAGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATACGAATTGATTTTT
TTTGACAACAAAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTGAAACATACAAA
Found at i:70287929 original size:54 final size:54
Alignment explanation
Indices: 70287829--70287934 Score: 153
Period size: 54 Copynumber: 1.9 Consensus size: 54
70287819 GTCTTGAGGC
*
70287829 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTA-AAATTGAAAAGGT
*
70287883 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGTTGATT-TTGAA-AAAGTAAAATTGAAAA
70287935 CAGAAATTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
54 34 0.72
55 9 0.19
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:70287979 original size:140 final size:140
Alignment explanation
Indices: 70287788--70288312 Score: 812
Period size: 140 Copynumber: 3.9 Consensus size: 140
70287778 ATTGATTTTT
* * *
70287788 TTGACAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
70287853 TTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
70287918 ACAACGTAAA
131 ACAACGTAAA
70287928 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
70287993 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
70288058 ACAACGTAAA
131 ACAACGTAAA
70288068 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
**
70288133 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGA-AATT-A
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
70288196 A-AAC----A
131 ACAACGTAAA
* * *
70288201 -T----A-A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
70288259 TTGATTTTGAAAAA-CAAAAATTAAAAGGCTT-AACTCACCTCTCGCAATATGAGT
66 CTGATTTTGAAAAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGCAATATGAGT
70288313 CAATTTAAAA
Statistics
Matches: 371, Mismatches: 13, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
125 34 0.09
126 67 0.18
127 1 0.00
128 1 0.00
132 1 0.00
133 1 0.00
137 3 0.01
138 2 0.01
139 2 0.01
140 259 0.70
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:70288069 original size:54 final size:54
Alignment explanation
Indices: 70287969--70288074 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
70287959 GACCTGAGGC
*
70287969 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
70288023 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
70288075 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:70288375 original size:122 final size:122
Alignment explanation
Indices: 70288066--70288405 Score: 495
Period size: 126 Copynumber: 2.8 Consensus size: 122
70288056 GAACAACGTA
* * * *
70288066 AATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
1 AATTTAAAACATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
70288131 AGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTG
66 AGTTGATTTTGAAAAA--AAAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTC
* *
70288190 AAATTAAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AATTTAAAACAT--AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
*
70288255 TGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTT-AACTCACCTCTCGCAATATGAG-TC
64 TGAGTTGATTTTGAAAAA-AAAAATTAAAAGG-TTCAACCCACCTCTCGCAATATGAGTTC
* * *
70288314 AATTTAAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATG
1 AATTTAAAACATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
70288379 AGTTGATTTTGAAAAAAAAAATTAAAA
66 AGTTGATTTTGAAAAAAAAAATTAAAA
70288406 ATACCTCAAC
Statistics
Matches: 197, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
121 11 0.06
122 65 0.33
124 21 0.11
125 33 0.17
126 67 0.34
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (122 bp):
AATTTAAAACATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTGAAAAAAAAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTC
Found at i:70288431 original size:71 final size:70
Alignment explanation
Indices: 70288284--70288458 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
70288274 AAAAATTAAA
* * * * * * *
70288284 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
70288348 CCCCG
66 CCCCG
*
70288353 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAAAAAAAACTAAAAATACCTCAACGT
* **
70288418 GTCTTG
65 GCCCCG
70288424 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
70288459 CCCTTGAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.07
71 60 0.65
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAAAAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:70296747 original size:12 final size:12
Alignment explanation
Indices: 70296727--70296762 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
70296717 TGGGATATGC
*
70296727 AATGTATGAATG
1 AATGCATGAATG
70296739 AATGCATGAATG
1 AATGCATGAATG
70296751 AATGCATGAATG
1 AATGCATGAATG
70296763 TCAAATGAAT
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:70298489 original size:37 final size:38
Alignment explanation
Indices: 70298389--70298490 Score: 95
Period size: 37 Copynumber: 2.6 Consensus size: 38
70298379 ATATATTTGG
70298389 TAATAATAATA--TAAAATAATAA-TATGTACATAAAAA
1 TAATAATAATATCTAAAATAA-AAGTATGTACATAAAAA
* *
70298425 TACATATATATATATGCATATAATAAAAGTATGTA-ATAATAA
1 TA-ATA-ATA-ATAT-C-TAAAATAAAAGTATGTACATAAAAA
*
70298467 TAATAATAATATCTACAATAAAAG
1 TAATAATAATATCTAAAATAAAAG
70298491 AAAATATTAG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 7 0.13
40 3 0.05
41 3 0.05
42 10 0.18
43 13 0.24
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (38 bp):
TAATAATAATATCTAAAATAAAAGTATGTACATAAAAA
Found at i:70298525 original size:13 final size:13
Alignment explanation
Indices: 70298507--70298536 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
70298497 TTAGGAAACG
70298507 TACATAAAAAATA
1 TACATAAAAAATA
*
70298520 TACATAAAAAATT
1 TACATAAAAAATA
70298533 TACA
1 TACA
70298537 ACAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (13 bp):
TACATAAAAAATA
Found at i:70298584 original size:25 final size:25
Alignment explanation
Indices: 70298537--70298589 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
70298527 AAAATTTACA
*
70298537 ACAATAATATAAAATAATGATATGT
1 ACAATAATATAAAATAATGATATAT
70298562 ACAAT-ATATAAATATATAT-ATATAT
1 ACAATAATATAAA-ATA-ATGATATAT
70298587 ACA
1 ACA
70298590 TATGTACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 7 0.28
25 16 0.64
26 2 0.08
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.34
Consensus pattern (25 bp):
ACAATAATATAAAATAATGATATAT
Found at i:70298742 original size:34 final size:35
Alignment explanation
Indices: 70298679--70298745 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
70298669 ACACAATATG
*
70298679 GTATTTAAAATATATATATATATGTATATATAATA
1 GTATTTAAAATATATATATATATGAATATATAATA
70298714 GTATTTAAGAATATATA-ATA-A-GAAATATATAA
1 GTATTTAA-AATATATATATATATG-AATATATAA
70298746 CTAATGGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 1 0.03
34 9 0.31
35 11 0.38
36 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (35 bp):
GTATTTAAAATATATATATATATGAATATATAATA
Found at i:70299288 original size:23 final size:23
Alignment explanation
Indices: 70299258--70299306 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
70299248 GGTTTCTTGG
70299258 TTTTTTTTTT-GGGGTTAGGTTT
1 TTTTTTTTTTGGGGGTTAGGTTT
70299280 TTTTTTTTTTGGGGGTTAGGTTT
1 TTTTTTTTTTGGGGGTTAGGTTT
70299303 TTTT
1 TTTT
70299307 GGGGGGACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.04, C:0.00, G:0.27, T:0.69
Consensus pattern (23 bp):
TTTTTTTTTTGGGGGTTAGGTTT
Found at i:70310467 original size:18 final size:17
Alignment explanation
Indices: 70310444--70310488 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
70310434 TAAAAAGTAG
70310444 TATATAATATTTTAAAT
1 TATATAATATTTTAAAT
* * *
70310461 ATATATAAAAGTTTACAT
1 -TATATAATATTTTAAAT
70310479 TATATAATAT
1 TATATAATAT
70310489 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TATATAATATTTTAAAT
Found at i:70310696 original size:24 final size:25
Alignment explanation
Indices: 70310643--70310696 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
70310633 ATTACTTTAT
* * * *
70310643 ATATTTTAAAATTTTACATATTTTT
1 ATATTTCAAAATATTACATAATTTG
70310668 A-ATTTCAAAATATTA-ATAATTTG
1 ATATTTCAAAATATTACATAATTTG
70310691 ATATTT
1 ATATTT
70310697 TATAATAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 7 0.29
24 16 0.67
25 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (25 bp):
ATATTTCAAAATATTACATAATTTG
Found at i:70315505 original size:17 final size:17
Alignment explanation
Indices: 70315483--70315516 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
70315473 GGTTAGATAA
70315483 ATTAAACTAATGGTAAC
1 ATTAAACTAATGGTAAC
70315500 ATTAAACTAATGGTAAC
1 ATTAAACTAATGGTAAC
70315517 CATGGCAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
ATTAAACTAATGGTAAC
Found at i:70317392 original size:10 final size:9
Alignment explanation
Indices: 70317372--70317401 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
70317362 TTCTATTTCC
70317372 AAAAT-AAA
1 AAAATAAAA
70317380 AAAATAAAA
1 AAAATAAAA
70317389 AAAATAAAA
1 AAAATAAAA
70317398 AAAA
1 AAAA
70317402 CAGAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAATAAAA
Found at i:70321047 original size:33 final size:34
Alignment explanation
Indices: 70321010--70321085 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 34
70321000 AAAAAATCAA
*
70321010 TTTAAAGA-AAAAATGTTGAGATTAATCCTTTCT
1 TTTAAAAATAAAAATGTTGAGATTAATCCTTTCT
70321043 TTTAAAAAATAAAAATGTTGAGATTAATCCTTTCT
1 TTT-AAAAATAAAAATGTTGAGATTAATCCTTTCT
70321078 TTTAAAAA
1 TTTAAAAA
70321086 ATAATTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
33 3 0.08
34 9 0.22
35 28 0.70
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.39
Consensus pattern (34 bp):
TTTAAAAATAAAAATGTTGAGATTAATCCTTTCT
Found at i:70321058 original size:35 final size:35
Alignment explanation
Indices: 70321018--70321089 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
70321008 AATTTAAAGA
70321018 AAAAATGTTGAGATTAATCCTTTCTTTTAAAAAAT
1 AAAAATGTTGAGATTAATCCTTTCTTTTAAAAAAT
70321053 AAAAATGTTGAGATTAATCCTTTCTTTTAAAAAAT
1 AAAAATGTTGAGATTAATCCTTTCTTTTAAAAAAT
70321088 AA
1 AA
70321090 TTTAAGTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (35 bp):
AAAAATGTTGAGATTAATCCTTTCTTTTAAAAAAT
Found at i:70330240 original size:96 final size:96
Alignment explanation
Indices: 70330069--70330255 Score: 225
Period size: 96 Copynumber: 1.9 Consensus size: 96
70330059 TTTTTGCCCC
*
70330069 TCTTAGCCCTCTTGGTTTCGACATTTCCCTAGCTCGAACCAAGCTTCTTGGGCACCTCGTCTGCT
1 TCTTAGCCCTCTTGGCTTCGACATTTCCCTAGCTCGAACCAAGCTTCTTGGGCACCTCGTCTGCT
* * *
70330134 CCATCGTTCCCCTTGATGATAGACTTGCTTA
66 CCATCGTTCCCATGGATGACAGACTTGCTTA
* * * * * *
70330165 TCTTTGCCCTCTTGGCTTCGGCCTTTTCCTTGCTCGAACCAAGCTTTTTGGGC-CC-CGTATCTG
1 TCTTAGCCCTCTTGGCTTCGACATTTCCCTAGCTCGAACCAAGCTTCTTGGGCACCTCG--TCTG
* * *
70330228 TTTCATCTTTCCCATGGATGACAGACTT
64 CTCCATCGTTCCCATGGATGACAGACTT
70330256 CCTCGGGCAC
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 2 0.03
95 2 0.03
96 72 0.95
ACGTcount: A:0.14, C:0.32, G:0.18, T:0.36
Consensus pattern (96 bp):
TCTTAGCCCTCTTGGCTTCGACATTTCCCTAGCTCGAACCAAGCTTCTTGGGCACCTCGTCTGCT
CCATCGTTCCCATGGATGACAGACTTGCTTA
Found at i:70339709 original size:2 final size:2
Alignment explanation
Indices: 70339702--70339728 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
70339692 CATTACTTGA
70339702 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
70339729 AATTTTCAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70347827 original size:46 final size:46
Alignment explanation
Indices: 70347775--70348262 Score: 710
Period size: 46 Copynumber: 10.6 Consensus size: 46
70347765 GCTTTCTGAA
* *
70347775 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
***
70347821 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
70347867 ATGAAATGTGTAAGACCATGTTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
70347913 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
70347959 ATGAAATGTGTAAGACCATGATTGAAAGATACCCTGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
70348005 ATAAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
70348051 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
70348097 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * ** * *
70348142 CGGGAATGAGTAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** *
70348188 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
70348234 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGA
70348263 CACTAGGGCA
Statistics
Matches: 397, Mismatches: 43, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
45 38 0.10
46 359 0.90
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:70349606 original size:11 final size:12
Alignment explanation
Indices: 70349590--70349618 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
70349580 AAAACCCTAA
70349590 TTTTTCTTT-CC
1 TTTTTCTTTCCC
70349601 TTTTTCTTTCCC
1 TTTTTCTTTCCC
70349613 TTTTTC
1 TTTTTC
70349619 CTTCTCTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:70349758 original size:25 final size:26
Alignment explanation
Indices: 70349697--70349760 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 26
70349687 ATTATATTAT
70349697 TATAT-TATATTATAATAATTACTTAAA
1 TATATGTATA-TATAATAATTAC-TAAA
*
70349724 TAATAAGTATATATAATAATTA-TAAA
1 T-ATATGTATATATAATAATTACTAAA
70349750 TATATGTATAT
1 TATATGTATAT
70349761 TATTTATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 9 0.27
26 5 0.15
27 1 0.03
28 14 0.42
29 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (26 bp):
TATATGTATATATAATAATTACTAAA
Found at i:70349799 original size:17 final size:17
Alignment explanation
Indices: 70349759--70349808 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
70349749 ATATATGTAT
*
70349759 ATTATTTATACACATCGAA
1 ATTATTTTTAC-CA-CGAA
* *
70349778 GTTATTTTTGCCACGAA
1 ATTATTTTTACCACGAA
70349795 ATTATTTTTACCAC
1 ATTATTTTTACCAC
70349809 ATATGTCAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 16 0.62
18 2 0.08
19 8 0.31
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (17 bp):
ATTATTTTTACCACGAA
Found at i:70350773 original size:18 final size:18
Alignment explanation
Indices: 70350750--70350787 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
70350740 AACGTCTCCG
*
70350750 ATACTGTTGCCGCCACCA
1 ATACTGTAGCCGCCACCA
70350768 ATACTGTAGCCGCCACCA
1 ATACTGTAGCCGCCACCA
70350786 AT
1 AT
70350788 GGAGGGTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (18 bp):
ATACTGTAGCCGCCACCA
Found at i:70360142 original size:77 final size:78
Alignment explanation
Indices: 70360056--70360208 Score: 238
Period size: 77 Copynumber: 2.0 Consensus size: 78
70360046 TTCAGACTAA
** * *
70360056 AATTATAATGAATAATACTTTTAAGTGTTAATGTGAATAAATTAATATAAC-TGAAAGGG-AAAT
1 AATTATAATGAATAATACTCCTAAGTATTAAAGTGAATAAATTAATAT-ACTTGAAAGGGAAAAT
*
70360119 CATGAATTAAACTT
65 CATAAATTAAACTT
70360133 AATTATAATGAATAATACTCCTAAGTATTAAAGTGAATAAATTAATATACTTGAAAGGGAAAATC
1 AATTATAATGAATAATACTCCTAAGTATTAAAGTGAATAAATTAATATACTTGAAAGGGAAAATC
70360198 ATAAATTAAAC
66 ATAAATTAAAC
70360209 GTAGTGTAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
76 2 0.03
77 52 0.75
78 15 0.22
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.33
Consensus pattern (78 bp):
AATTATAATGAATAATACTCCTAAGTATTAAAGTGAATAAATTAATATACTTGAAAGGGAAAATC
ATAAATTAAACTT
Found at i:70367144 original size:40 final size:40
Alignment explanation
Indices: 70367031--70367162 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
70367021 CTCAAGAATA
* ** *
70367031 TAAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
70367071 CAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
70367111 TAAAGTGAATAGGATTTATTCCTGATTCACTATGGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
* *
70367151 TAAGGCGGATAG
1 TAAAGTGGATAG
70367163 CTTTTGACCT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTAACT
Found at i:70367227 original size:78 final size:78
Alignment explanation
Indices: 70367133--70367284 Score: 232
Period size: 78 Copynumber: 1.9 Consensus size: 78
70367123 GATTTATTCC
* * *
70367133 TGATTCACTATGGTAACTTAAGGCGGATAGCTTTTGACCTAAAAAGGTAATCCTGATTCGCTACA
1 TGATTCACTATGGTAACCTAAGGCGGATAGCATTTGACCTAAAAAGGTAATCCTGATTCACTACA
70367198 GTTACATGATATA
66 GTTACATGATATA
* * * * *
70367211 TGATTCATTATGGTAACCTAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTATA
1 TGATTCACTATGGTAACCTAAGGCGGATAGCATTTGACCTAAAAAGGTAATCCTGATTCACTACA
70367276 GTTACATGA
66 GTTACATGA
70367285 GATGTGACTC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (78 bp):
TGATTCACTATGGTAACCTAAGGCGGATAGCATTTGACCTAAAAAGGTAATCCTGATTCACTACA
GTTACATGATATA
Found at i:70371951 original size:14 final size:16
Alignment explanation
Indices: 70371929--70371969 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
70371919 TTATTTTAAC
*
70371929 TAATGTAATAA-A-TA
1 TAATATAATAATAGTA
70371943 TAATATAATAATAGTA
1 TAATATAATAATAGTA
70371959 TAATAATAATA
1 TAAT-ATAATA
70371970 TAGAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 10 0.43
15 1 0.04
16 6 0.26
17 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (16 bp):
TAATATAATAATAGTA
Found at i:70371960 original size:11 final size:11
Alignment explanation
Indices: 70371934--70371971 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
70371924 TTAACTAATG
70371934 TAATA-AAT-A
1 TAATATAATAA
70371943 TAATATAATAA
1 TAATATAATAA
*
70371954 TAGTATAATAA
1 TAATATAATAA
70371965 TAATATA
1 TAATATA
70371972 GAATATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 5 0.20
10 3 0.12
11 17 0.68
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TAATATAATAA
Found at i:70375887 original size:46 final size:46
Alignment explanation
Indices: 70375840--70376050 Score: 280
Period size: 46 Copynumber: 4.6 Consensus size: 46
70375830 GCTCTCTGAT
* * *
70375840 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
70375886 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * ***
70375932 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGTGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
70375978 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGGC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
70376024 A-GAAAATGAGTAAGACCATAGTTGAAA
1 ATG-AAATGAGTAAGACCATGGTTGAAA
70376051 TGCACAATGG
Statistics
Matches: 145, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 144 0.99
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:70376369 original size:16 final size:17
Alignment explanation
Indices: 70376348--70376380 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
70376338 ATGATGGTGC
70376348 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
70376364 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
70376381 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:70378734 original size:40 final size:40
Alignment explanation
Indices: 70378645--70378782 Score: 109
Period size: 40 Copynumber: 3.4 Consensus size: 40
70378635 GACTATGTTC
*
70378645 GGCACTAAGTGTGCGGTTCGAAATAGCTTCGGCTACAAAT
1 GGCACTAAGTGTGCGGTTCGAAATAGCCTCGGCTACAAAT
* * * *
70378685 GGCATTAAGTGTGCGAGTT-GGAATAGCCTCGGCTATATGA-
1 GGCACTAAGTGTGCG-GTTCGAAATAGCCTCGGCTACA-AAT
* * * * * * *
70378725 GGCACTAAGTGTGTGATACGAGATAGCTTCGGTTTATTAAAAT
1 GGCACTAAGTGTGCGGTTCGAAATAGCCTCGG-CTA--CAAAT
70378768 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
70378783 AGATTGTTAC
Statistics
Matches: 75, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
39 1 0.01
40 52 0.69
41 6 0.08
42 1 0.01
43 15 0.20
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGGTTCGAAATAGCCTCGGCTACAAAT
Found at i:70380306 original size:68 final size:70
Alignment explanation
Indices: 70380234--70380431 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
70380224 ACACCCTGTA
* * * *
70380234 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
70380296 ATAAAT
65 ATAAAT
*
70380302 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
70380367 ATAAAT
65 ATAAAT
*
70380373 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
70380432 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:70380345 original size:41 final size:41
Alignment explanation
Indices: 70380300--70380417 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
70380290 TGAAAGATAA
70380300 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
70380341 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70380371 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70380412 ATGTAG
1 ATGTAG
70380418 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:70380357 original size:71 final size:71
Alignment explanation
Indices: 70380268--70380431 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70380258 GAGATGTATC
70380268 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70380333 AGGACA
66 AGGACA
70380339 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70380404 AGGACA
66 AGGACA
70380410 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
70380432 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:70387876 original size:68 final size:70
Alignment explanation
Indices: 70387804--70388001 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
70387794 ACACCCTGTA
* * * *
70387804 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
70387866 ATAAAT
65 ATAAAT
*
70387872 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
70387937 ATAAAT
65 ATAAAT
*
70387943 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
70388002 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:70387915 original size:41 final size:41
Alignment explanation
Indices: 70387870--70387987 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
70387860 TGAAAGATAA
70387870 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
70387911 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70387941 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
70387982 ATGTAG
1 ATGTAG
70387988 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:70387927 original size:71 final size:71
Alignment explanation
Indices: 70387838--70388001 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70387828 GAGATGTATC
70387838 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70387903 AGGACA
66 AGGACA
70387909 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
70387974 AGGACA
66 AGGACA
70387980 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
70388002 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:70391894 original size:29 final size:30
Alignment explanation
Indices: 70391862--70391918 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
70391852 TAGTTAAACC
70391862 TAAATTT-TAAAATTAAAAAAATAAAAAAA
1 TAAATTTCTAAAATTAAAAAAATAAAAAAA
*
70391891 TAAATTTCTAAAATTAAAAATATAAAAA
1 TAAATTTCTAAAATTAAAAAAATAAAAA
70391919 CTAAATTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (30 bp):
TAAATTTCTAAAATTAAAAAAATAAAAAAA
Found at i:70391923 original size:29 final size:29
Alignment explanation
Indices: 70391861--70391925 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
70391851 ATAGTTAAAC
70391861 CTAAATTTTAAAATTAAAAAAATAAAAAA
1 CTAAATTTTAAAATTAAAAAAATAAAAAA
* *
70391890 ATAAATTTCTAAAATTAAAAATAT-AAAAA
1 CTAAATTT-TAAAATTAAAAAAATAAAAAA
70391919 CTAAATT
1 CTAAATT
70391926 CAGGAAAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 18 0.56
30 14 0.44
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (29 bp):
CTAAATTTTAAAATTAAAAAAATAAAAAA
Found at i:70392998 original size:3 final size:3
Alignment explanation
Indices: 70392990--70393030 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
70392980 AAAGCTAGGT
70392990 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
70393031 TGCTTCTCCA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:70404339 original size:2 final size:2
Alignment explanation
Indices: 70404332--70404379 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
70404322 TTGCGATGGG
70404332 AT AT AT AT 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 AT AT AT AT
70404374 AT AT AT
1 AT AT AT
70404380 GTTATGTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70409601 original size:27 final size:27
Alignment explanation
Indices: 70409542--70409601 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
70409532 CATTTTTCAA
70409542 TTTA-AAAAATAAAAAATATAATTAAT
1 TTTATAAAAATAAAAAATATAATTAAT
*
70409568 TTT-TAAAAATGAAAATAA-ATAA-TATT
1 TTTATAAAAAT-AAAA-AATATAATTAAT
70409594 TTTATAAA
1 TTTATAAA
70409602 CTAAATTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
26 15 0.52
27 12 0.41
28 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
TTTATAAAAATAAAAAATATAATTAAT
Found at i:70411299 original size:52 final size:52
Alignment explanation
Indices: 70411216--70411321 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
70411206 TCAAATATCA
*
70411216 AATATAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
1 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
70411268 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
1 AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
70411320 AA
1 AA
70411322 CTTTTTTTGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (52 bp):
AATACAGTCTAGTTTCAGCATTGCACTATAAATTTGGTTGTCTTGAAAGAAC
Found at i:70414075 original size:13 final size:15
Alignment explanation
Indices: 70414057--70414088 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
70414047 CTAAGGTATG
70414057 GCTAGTTT-A-CCTA
1 GCTAGTTTAATCCTA
70414070 GCTAGTTTAATCCTA
1 GCTAGTTTAATCCTA
70414085 GCTA
1 GCTA
70414089 TCTCCAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (15 bp):
GCTAGTTTAATCCTA
Found at i:70435011 original size:21 final size:21
Alignment explanation
Indices: 70434985--70435025 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
70434975 TCCAGCAACC
*
70434985 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
70435006 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
70435026 CTGTCCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:70441196 original size:43 final size:42
Alignment explanation
Indices: 70441146--70441228 Score: 157
Period size: 43 Copynumber: 2.0 Consensus size: 42
70441136 ACTGAGAACC
70441146 GGGCAATAAATTCACTATAATAGATAGGATAGGAGAAAAGTCA
1 GGGCAATAAATTCACTATAATAGATAGGATA-GAGAAAAGTCA
70441189 GGGCAATAAATTCACTATAATAGATAGGATAGAGAAAAGT
1 GGGCAATAAATTCACTATAATAGATAGGATAGAGAAAAGT
70441229 TAAATTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 9 0.22
43 31 0.77
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.22
Consensus pattern (42 bp):
GGGCAATAAATTCACTATAATAGATAGGATAGAGAAAAGTCA
Found at i:70441867 original size:22 final size:22
Alignment explanation
Indices: 70441838--70441895 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
70441828 TATTAAAATT
70441838 TATTTTAAATATATACTA-TTA
1 TATTTTAAATATATACTAGTTA
* *
70441859 TATATTTAAAT-TTTATTAGTTA
1 TAT-TTTAAATATATACTAGTTA
*
70441881 TATTTTAATTATATA
1 TATTTTAAATATATA
70441896 TTTGAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTTAAATATATACTAGTTA
Found at i:70443558 original size:10 final size:10
Alignment explanation
Indices: 70443545--70443577 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
70443535 TTATAACTTT
*
70443545 TTTTTAATTA
1 TTTTTAATAA
70443555 TTTTTAATAA
1 TTTTTAATAA
70443565 TTTTTAA-AA
1 TTTTTAATAA
70443574 TTTT
1 TTTT
70443578 AAAAGCGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:70452418 original size:15 final size:16
Alignment explanation
Indices: 70452398--70452431 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
70452388 ATCATTAAAC
70452398 AAAAATATATAAT-AT
1 AAAAATATATAATAAT
*
70452413 AAAAATATTTAATAAT
1 AAAAATATATAATAAT
70452429 AAA
1 AAA
70452432 TTAAAATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAATATATAATAAT
Found at i:70472737 original size:15 final size:17
Alignment explanation
Indices: 70472717--70472748 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
70472707 AAGATTAGTA
70472717 AAATAT-TAAAA-AAAT
1 AAATATATAAAAGAAAT
70472732 AAATATATAAAAGAAAT
1 AAATATATAAAAGAAAT
70472749 TCTAACCCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATATATAAAAGAAAT
Found at i:70484341 original size:41 final size:40
Alignment explanation
Indices: 70484279--70484360 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 40
70484269 CAATACTTTT
70484279 TTATTAAAAAAATATATAAAGTAAAAGATTAAAATAATTA
1 TTATTAAAAAAATATATAAAGTAAAAGATTAAAATAATTA
* *
70484319 TTATTAAAAAATTTATTTAAAGTAAAAGATTAAAATAATTA
1 TTATTAAAAAA-ATATATAAAGTAAAAGATTAAAATAATTA
70484360 T
1 T
70484361 CAAACACATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 11 0.28
41 28 0.72
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (40 bp):
TTATTAAAAAAATATATAAAGTAAAAGATTAAAATAATTA
Found at i:70486416 original size:20 final size:22
Alignment explanation
Indices: 70486383--70486423 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
70486373 CAATGTTTTC
*
70486383 TTTTTCATT-TTTAATAGATTA
1 TTTTTCATTCTTAAATAGATTA
70486404 TTTTT-ATTCTTAAATAGATT
1 TTTTTCATTCTTAAATAGATT
70486424 TAATAGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTTTCATTCTTAAATAGATTA
Found at i:70489305 original size:2 final size:2
Alignment explanation
Indices: 70489298--70489325 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
70489288 GCTCTTGCAC
70489298 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
70489326 GTTTGCACAT
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):
AT
Found at i:70490183 original size:40 final size:40
Alignment explanation
Indices: 70490033--70490176 Score: 159
Period size: 40 Copynumber: 3.6 Consensus size: 40
70490023 CGAATGATGT
* * * *
70490033 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATA
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
* *
70490073 CGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAATC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
70490113 CGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
70490153 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
70490177 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 77 0.89
41 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:70490183 original size:80 final size:80
Alignment explanation
Indices: 70490033--70490199 Score: 173
Period size: 80 Copynumber: 2.1 Consensus size: 80
70490023 CGAATGATGT
* * *
70490033 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATACGGACTAAGATCCGAAGGCATTCGT
1 CGGGTTAAGTCCCGAAGGCTCTGTGCTAAGTGACTATATACGGACTAAGATCCGAAGGCATTCGA
*
70490098 GCGAGTTA-CTAAATC
66 ACGAG-TAGCTAAATC
* * * *
70490113 CGGGTTAAGTCCCGAAGGCATCTGTGC-GAGTTACTATA-ACCGGGCTATG-TCCCGAAGGCATT
1 CGGGTTAAGTCCCGAAGGC-TCTGTGCTAAGTGACTATATA-CGGACTAAGAT-CCGAAGGCATT
* *
70490175 TGAACGAGTAGCTATATC
63 CGAACGAGTAGCTAAATC
70490193 C-GGTTAA
1 CGGGTTAA
70490200 ACTCCGAAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
79 10 0.14
80 57 0.78
81 6 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
CGGGTTAAGTCCCGAAGGCTCTGTGCTAAGTGACTATATACGGACTAAGATCCGAAGGCATTCGA
ACGAGTAGCTAAATC
Found at i:70496491 original size:46 final size:46
Alignment explanation
Indices: 70496441--70496616 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
70496431 TGGTTGAGCA
70496441 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
70496487 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
70496532 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
70496580 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70496617 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70496597 original size:93 final size:93
Alignment explanation
Indices: 70496438--70496609 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
70496428 GGATGGTTGA
* *
70496438 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
70496503 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
70496531 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
70496596 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
70496610 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:70500939 original size:40 final size:40
Alignment explanation
Indices: 70500788--70500932 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 40
70500778 CGAATGATGT
* * *
70500788 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
70500828 CCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* * * *
70500867 TCCAGGTTAAGTCCCGAAGGGATCTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
70500908 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
70500933 AACGAGTAGC
Statistics
Matches: 84, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
39 2 0.02
40 73 0.87
41 9 0.11
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:70506629 original size:53 final size:52
Alignment explanation
Indices: 70506482--70506641 Score: 187
Period size: 52 Copynumber: 3.1 Consensus size: 52
70506472 TGACGGAAAA
* * * *
70506482 GATGTGATACATGATTCCGTATAAGACCATAGCCGGGCTACGGCATCGGTAC
1 GATGTGATTCGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
* * * * *
70506534 CATGTGATTCGT-ATCCCCGTATAAGACCATAGCTGGGCTATGGTATCGGTGT
1 GATGTGATTCGTGAT-TCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
* * *
70506586 GATGTGATTATGTGATTCCGTATAAGACCATATCCGGGATATGGCATCGGTAT
1 GATGTGATT-CGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
70506639 GAT
1 GAT
70506642 ATGTGGTCCG
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
51 2 0.02
52 48 0.55
53 36 0.41
54 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (52 bp):
GATGTGATTCGTGATTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAT
Found at i:70512497 original size:46 final size:46
Alignment explanation
Indices: 70512430--70512611 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
70512420 AGTGTGCTTT
*
70512430 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
70512476 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
70512522 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
70512568 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
70512612 TCATGTCAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 123 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:70518442 original size:2 final size:2
Alignment explanation
Indices: 70518435--70518464 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
70518425 ATGAAATTAG
70518435 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
70518465 ACCCAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:70519269 original size:30 final size:31
Alignment explanation
Indices: 70519229--70519294 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
70519219 AGTTTATATC
* * *
70519229 TTTATAATTTTTA-AATGATTAAATTAAATT
1 TTTATAATTTTTAGAAAGATTAAAATAAAAT
*
70519259 TTTATTATTTTTAGAAAGATTAAAATAAAAT
1 TTTATAATTTTTAGAAAGATTAAAATAAAAT
70519290 TTTAT
1 TTTAT
70519295 CTTTAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (31 bp):
TTTATAATTTTTAGAAAGATTAAAATAAAAT
Found at i:70519580 original size:20 final size:20
Alignment explanation
Indices: 70519542--70519578 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
70519532 TTAAAAAACC
*
70519542 TATTTTAAATTTTAATTTAT
1 TATTTTAAATATTAATTTAT
70519562 TATTTTAAA-ATTAATTT
1 TATTTTAAATATTAATTT
70519579 TACATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTAAATATTAATTTAT
Found at i:70520794 original size:24 final size:24
Alignment explanation
Indices: 70520767--70520818 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
70520757 ATAAATGTTT
*
70520767 AGATTCATATACAAATGCAGACAC
1 AGATTCAGATACAAATGCAGACAC
* *
70520791 AGATTCAGATACAAGTGCAGACGC
1 AGATTCAGATACAAATGCAGACAC
70520815 AGAT
1 AGAT
70520819 CCTACCTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (24 bp):
AGATTCAGATACAAATGCAGACAC
Found at i:70521011 original size:25 final size:25
Alignment explanation
Indices: 70520977--70521026 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
70520967 AAAATTGCAG
70520977 TAAAACTACTAGAACACACTTCCTC
1 TAAAACTACTAGAACACACTTCCTC
*
70521002 TAAAACTACTAGAAGACACTTCCTC
1 TAAAACTACTAGAACACACTTCCTC
70521027 CATCACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.30, G:0.06, T:0.24
Consensus pattern (25 bp):
TAAAACTACTAGAACACACTTCCTC
Found at i:70533213 original size:29 final size:29
Alignment explanation
Indices: 70533181--70533238 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
70533171 GTTCATAAGA
70533181 AAGAAACCCCCTCCCCCAAGTTCCAAAAT
1 AAGAAACCCCCTCCCCCAAGTTCCAAAAT
70533210 AAGAAACCCCCTCCCCCAAGTTCCAAAAT
1 AAGAAACCCCCTCCCCCAAGTTCCAAAAT
70533239 TTGATGCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.41, G:0.07, T:0.14
Consensus pattern (29 bp):
AAGAAACCCCCTCCCCCAAGTTCCAAAAT
Found at i:70543111 original size:3 final size:3
Alignment explanation
Indices: 70543103--70543449 Score: 153
Period size: 3 Copynumber: 115.0 Consensus size: 3
70543093 AAAGGAAAAT
* * *
70543103 ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA CT- ATA GTA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
70543149 AAA AGGT- ATA ATA ATA CATTA GATA GTA A-A A-A AGGTA ATA ATA ATA
1 ATA A--TA ATA ATA ATA -A-TA -ATA ATA ATA ATA A--TA ATA ATA ATA
* * * * * *
70543195 ATA ATA ATG ATA ATA GTG ATA TTA GTA ATA ATA ATA ATA ATA GAAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * * * * *
70543241 ATA TTA GTA CGTTA CTA ACA ATA ATA TATG TTA ATA ACA ATA ATA A-C
1 ATA ATA ATA --ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * * * *
70543288 ATA A-A A-A ATA ATA AT- ATG GTA A-A AGTTA GTA ATA GT- ATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA
* * * ** *
70543330 ATA AAA ATA ATA CTA ATGA A-A ATA ATA CTA ACG GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
70543375 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * *
70543420 ATA AAA ATA ATA GTA ATA ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
70543450 TTAAAAAATA
Statistics
Matches: 255, Mismatches: 64, Indels: 50
0.69 0.17 0.14
Matches are distributed among these distances:
2 21 0.08
3 215 0.84
4 11 0.04
5 8 0.03
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:70544558 original size:38 final size:37
Alignment explanation
Indices: 70544508--70544587 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 37
70544498 GTTAAGTCTG
* *
70544508 TTGGGTTTGGGTATTGGGTTTTCATGGATTTAGGGAT
1 TTGGGTTTGGGTATTGGGTTGTAATGGATTTAGGGAT
* *
70544545 TTGGGTTTTGGGTATTTGGTTGTAATGGGTTTAGGGAT
1 TTGGG-TTTGGGTATTGGGTTGTAATGGATTTAGGGAT
70544583 TTGGG
1 TTGGG
70544588 GAGGTTGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 5 0.13
38 33 0.87
ACGTcount: A:0.12, C:0.01, G:0.40, T:0.46
Consensus pattern (37 bp):
TTGGGTTTGGGTATTGGGTTGTAATGGATTTAGGGAT
Found at i:70545234 original size:64 final size:64
Alignment explanation
Indices: 70545133--70545258 Score: 207
Period size: 64 Copynumber: 2.0 Consensus size: 64
70545123 AAAGAGTAAA
* ** *
70545133 AAATTGAAAATACCTCAGTGTGTGACCTAAGGCTCAACTCACCTCTCGTAATATGAGTTGATAG
1 AAATTAAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATAG
*
70545197 AAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGAT
1 AAATTAAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGAT
70545259 TTTTTTGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (64 bp):
AAATTAAAAATACCTCAGCATGTGACCCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATAG
Found at i:70545472 original size:74 final size:75
Alignment explanation
Indices: 70545197--70545509 Score: 439
Period size: 75 Copynumber: 4.2 Consensus size: 75
70545187 GAGTTGATAG
*** * * *
70545197 AAATTAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGTGCGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
70545262 TTTGAAACAT
66 TTTGAAACAT
* * *
70545272 AAACTAAAAATACCTCAGTGCGTGATTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGTGCGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
70545337 TTTGAAACAT
66 TTTGAAACAT
* * * * *
70545347 AAATTGAAAATACCTCAGTGCGTGATTTGAGGCTCAACTCACTTCTTGCAATATGAGATGATTTT
1 AAATTAAAAATACCTCAGTGCGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
70545412 TTTGAAACAT
66 TTTGAAACAT
* * *
70545422 AAATTGAAAATACCTCAGTGTGTGA-CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAGTGCGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
70545486 TTTGAAAAACAA
66 TTTG--AAACAT
70545498 AAATTAAAAATA
1 AAATTAAAAATA
70545510 TCAGGAAACA
Statistics
Matches: 216, Mismatches: 20, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
74 39 0.18
75 161 0.75
76 16 0.07
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (75 bp):
AAATTAAAAATACCTCAGTGCGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAACAT
Found at i:70556280 original size:3 final size:3
Alignment explanation
Indices: 70556036--70556268 Score: 110
Period size: 3 Copynumber: 77.3 Consensus size: 3
70556026 AAAAGCAAAT
* * *
70556036 ATA AT- ATA ATA ATA ATA TTA A-A ATA A-A GTA ATTA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* * *
70556079 CTA TATA A-A TATA TATA TGTA CATA TATA ATA A-A ATA TTA ATA ATA
1 ATA -ATA ATA -ATA -ATA -ATA -ATA -ATA ATA ATA ATA ATA ATA ATA
* * * *
70556125 ATA ATA ATA ATA ATA ATA GTA ATA ATA TGTA TTA A-A AGGTA A-A AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA A--TA ATA ATA
* * * * *
70556171 ATA ATA GTA ATA ATA AT- TTA A-A A-A ATG ATA ATA GTA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
70556216 AAA ATA ATA GTG ATA ATA ATGA TTA ATA CA-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA -ATA ATA ATA ATA ATA ATA
70556262 ATA ATA A
1 ATA ATA A
70556269 AACAGATAAT
Statistics
Matches: 174, Mismatches: 38, Indels: 36
0.70 0.15 0.15
Matches are distributed among these distances:
2 18 0.10
3 131 0.75
4 23 0.13
5 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:70556463 original size:3 final size:3
Alignment explanation
Indices: 70556455--70556774 Score: 242
Period size: 3 Copynumber: 106.0 Consensus size: 3
70556445 AAAGGAAAAT
70556455 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
70556503 ATA ATA AGGT- ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
70556549 ATA ATA ATA ATA ATA ATG ATA ATA GTG AT- ATA AGTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* * * * * * * *
70556594 ATA ATA GAAA ATA TTA GTA CGTTA ATA ACA ATA ATA TATG TTA ATA ACA
1 ATA ATA -ATA ATA ATA ATA --ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * * * *
70556643 ATA ATA A-C ATA AAA ATA ATA AT- ATG GTA AAA ATTA GTA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
* * * * **
70556686 ATG TTA ATA A-A ATA ATA GTA ATGA A-A ATA ATA CTA ACG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * *
70556730 ATA ATA ATA ATA GA-A ATA AAA ATA ATA GTA ATG ATA TTA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
70556775 TTAAAAAATA
Statistics
Matches: 248, Mismatches: 51, Indels: 36
0.74 0.15 0.11
Matches are distributed among these distances:
2 13 0.05
3 220 0.89
4 12 0.05
5 3 0.01
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:70557703 original size:38 final size:37
Alignment explanation
Indices: 70557654--70557733 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
70557644 GTTAAGTCTG
* * *
70557654 TTGGGTTTGGGTTTTGGGTTTTCATGGATTTAGAGAT
1 TTGGGTTTGGGTATTGGGTTGTAATGGATTTAGAGAT
* *
70557691 TTGGGTATTGGGTATTGGGTTGTAATGGGTTTAGGGAT
1 TTGGGT-TTGGGTATTGGGTTGTAATGGATTTAGAGAT
70557729 TTGGG
1 TTGGG
70557734 GAGGTTGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 6 0.16
38 31 0.84
ACGTcount: A:0.14, C:0.01, G:0.40, T:0.45
Consensus pattern (37 bp):
TTGGGTTTGGGTATTGGGTTGTAATGGATTTAGAGAT
Found at i:70558791 original size:45 final size:45
Alignment explanation
Indices: 70558715--70558822 Score: 125
Period size: 45 Copynumber: 2.4 Consensus size: 45
70558705 TTTCGCCTGT
70558715 TAGGCTCG-AGGCCCG-ATATCAGTTCACCGGCATTATAGCCTAC
1 TAGGCTCGAAGGCCCGAATATCAGTTCACCGGCATTATAGCCTAC
** *
70558758 TAGGCTCGAAGGCCCGAATAGT-A-TCTCACCGGCATTATAGTTTGC
1 TAGGCTCGAAGGCCCGAATA-TCAGT-TCACCGGCATTATAGCCTAC
* *
70558803 TAAGCTCAAAGGCCCGAATA
1 TAGGCTCGAAGGCCCGAATA
70558823 ATCAAGTCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
43 8 0.14
44 8 0.14
45 39 0.70
46 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (45 bp):
TAGGCTCGAAGGCCCGAATATCAGTTCACCGGCATTATAGCCTAC
Found at i:70559200 original size:43 final size:43
Alignment explanation
Indices: 70559153--70559263 Score: 186
Period size: 43 Copynumber: 2.6 Consensus size: 43
70559143 CGGCATTACG
* *
70559153 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGTATGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
*
70559196 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
*
70559239 CTTGCTAGGCACGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
70559264 TAATACCAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.13
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAA
Found at i:70559360 original size:75 final size:76
Alignment explanation
Indices: 70559267--70559408 Score: 250
Period size: 75 Copynumber: 1.9 Consensus size: 76
70559257 CCGAATATAA
* * *
70559267 TACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATACCAGCACGAAG-CTGCGGGATTTAA
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
70559331 CCCGGATATTT
66 CCCGGATATTT
70559342 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
70559407 CC
66 CC
70559409 TTGATATACA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
75 48 0.76
76 15 0.24
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (76 bp):
TACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
CCCGGATATTT
Found at i:70559416 original size:38 final size:38
Alignment explanation
Indices: 70559256--70559408 Score: 245
Period size: 38 Copynumber: 4.1 Consensus size: 38
70559246 GGCACGAAGG
* * * *
70559256 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
70559294 CCCGGATATAATACCAGCACGAAG-CTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
**
70559331 CCCGGATATTTTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
70559369 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
70559407 CC
1 CC
70559409 TTGATATACA
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
37 34 0.32
38 72 0.68
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:70567539 original size:7 final size:7
Alignment explanation
Indices: 70567527--70567551 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
70567517 AAATTTTAAA
70567527 AAAATAT
1 AAAATAT
70567534 AAAATAT
1 AAAATAT
70567541 AAAATAT
1 AAAATAT
70567548 AAAA
1 AAAA
70567552 AATTCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:70567653 original size:8 final size:8
Alignment explanation
Indices: 70567635--70567738 Score: 50
Period size: 8 Copynumber: 12.2 Consensus size: 8
70567625 CTCATTTTTG
70567635 AATTCTTAT
1 AATT-TTAT
70567644 AATTTTAT
1 AATTTTAT
*
70567652 AATTTTGT
1 AATTTTAT
*
70567660 AATTTAAACT
1 AATTT-TA-T
**
70567670 TTTTTTAT
1 AATTTTAT
* *
70567678 ACTTTTAA
1 AATTTTAT
*
70567686 AATTTTAA
1 AATTTTAT
70567694 AATATTT-T
1 AAT-TTTAT
70567702 AATTGTTTAT
1 AA-T-TTTAT
70567712 ATATTTTCA-
1 A-ATTTT-AT
*
70567721 ATTTTTAT
1 AATTTTAT
70567729 AATTTTAT
1 AATTTTAT
70567737 AA
1 AA
70567739 GATTTAAACT
Statistics
Matches: 73, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
7 1 0.01
8 47 0.64
9 16 0.22
10 8 0.11
11 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (8 bp):
AATTTTAT
Found at i:70567717 original size:17 final size:16
Alignment explanation
Indices: 70567695--70567735 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
70567685 AAATTTTAAA
70567695 ATATTTTAATTGTTTAT
1 ATATTTTAATT-TTTAT
70567712 ATATTTTCAATTTTTAT
1 ATATTTT-AATTTTTAT
70567729 A-ATTTTA
1 ATATTTTA
70567736 TAAGATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.04
16 5 0.22
17 13 0.57
18 4 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (16 bp):
ATATTTTAATTTTTAT
Found at i:70585606 original size:17 final size:18
Alignment explanation
Indices: 70585562--70585607 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
70585552 CCGCAACAGT
70585562 AAAAAAAATACTGAAAAAG
1 AAAAAAAATA-TGAAAAAG
*
70585581 AAAAAAAAT-TGAAAACG
1 AAAAAAAATATGAAAAAG
70585598 AAAAAAAATA
1 AAAAAAAATA
70585608 AAAAATAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 16 0.64
19 9 0.36
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.11
Consensus pattern (18 bp):
AAAAAAAATATGAAAAAG
Found at i:70585724 original size:12 final size:13
Alignment explanation
Indices: 70585709--70585743 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
70585699 TATGCATTAT
70585709 TAAAATATT-AAA
1 TAAAATATTAAAA
70585721 TAAAATATTAAAA
1 TAAAATATTAAAA
70585734 TAAAAATATT
1 T-AAAATATT
70585744 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 4 0.19
14 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAATATTAAAA
Found at i:70586188 original size:224 final size:216
Alignment explanation
Indices: 70585799--70586270 Score: 773
Period size: 224 Copynumber: 2.1 Consensus size: 216
70585789 GCCTATGTAC
* *
70585799 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGCAAATTCAGTAA
1 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGCAAATTAACTAA
*
70585864 TATGATTATATATATATATAGATATTTAGGCATGTATCACATTACAAAAACAAAAATTTAAATAC
66 TATGATTATATATATATATAGATATTTAGGCATGTATCACATTAAAAAAACAAAAATTTAAATAC
* *
70585929 TTATACCTAATAAAGCATGTATCTCATTACAATAATAGTTATTTTTCAAATAACATATTGTTTTA
131 TTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTA
70585994 TAATTTTATTTCTTATTTAAT
196 TAATTTTATTTCTTATTTAAT
* * * *
70586015 ATTTTAGTTTAATTTTAATAATGCATACTTTATCTGGATAAAGTATGTATTAGTAGATTAACTAA
1 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGCAAATTAACTAA
*
70586080 TATGATTATATATATATATATATATATATAGATTTACGCATGTATCACATTAAAAAAACAAAAAT
66 TATGATTATATATATATATAGATAT-T-TAG------GCATGTATCACATTAAAAAAACAAAAAT
70586145 TTAAATACTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATA
123 TTAAATACTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATA
70586210 TTGTTTTATAATTTTATTTCTTATTTAAT
188 TTGTTTTATAATTTTATTTCTTATTTAAT
*
70586239 ATTTTAATTTAATTTTAATAATGCATATTTTA
1 ATTTTAATTTAATTTTAATAATGCATACTTTA
70586271 ATTTTATTTT
Statistics
Matches: 236, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
216 83 0.35
217 1 0.00
218 3 0.01
224 149 0.63
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (216 bp):
ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGCAAATTAACTAA
TATGATTATATATATATATAGATATTTAGGCATGTATCACATTAAAAAAACAAAAATTTAAATAC
TTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTA
TAATTTTATTTCTTATTTAAT
Found at i:70586381 original size:17 final size:18
Alignment explanation
Indices: 70586359--70586400 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
70586349 CTATTTTTTA
70586359 TTTTTTTCGTTTTCAAT-
1 TTTTTTTCGTTTTCAATG
* *
70586376 TTTTTTTCTTTTTCAGTG
1 TTTTTTTCGTTTTCAATG
70586394 TTTTTTT
1 TTTTTTT
70586401 TACTGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.76
Consensus pattern (18 bp):
TTTTTTTCGTTTTCAATG
Found at i:70590013 original size:25 final size:26
Alignment explanation
Indices: 70589985--70590033 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
70589975 TTAGTATGAG
*
70589985 TGGGAAAGT-ATAAGGGTAGTCGACT
1 TGGGAAAGTAAAAAGGGTAGTCGACT
* *
70590010 TGGGGAAGTAAAAATGGTAGTCGA
1 TGGGAAAGTAAAAAGGGTAGTCGA
70590034 AACAATACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.35, C:0.06, G:0.37, T:0.22
Consensus pattern (26 bp):
TGGGAAAGTAAAAAGGGTAGTCGACT
Found at i:70592742 original size:18 final size:18
Alignment explanation
Indices: 70592690--70592748 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
70592680 ATAATTTTGA
70592690 TTTATAATTTTTAAATTT
1 TTTATAATTTTTAAATTT
* * **
70592708 TTCAAAAAAATTT-AATTT
1 TT-TATAATTTTTAAATTT
*
70592726 TTTATAATTTTTAAATTA
1 TTTATAATTTTTAAATTT
70592744 TTTAT
1 TTTAT
70592749 TCACATGGTA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
17 6 0.20
18 18 0.60
19 6 0.20
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTATAATTTTTAAATTT
Found at i:70593894 original size:3 final size:3
Alignment explanation
Indices: 70593888--70593913 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
70593878 TAAAAGTATG
70593888 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
70593914 TCTACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:70594130 original size:30 final size:30
Alignment explanation
Indices: 70594081--70594156 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
70594071 AATAGTAATA
*
70594081 ATTTATAATAATA-ATATATACACAAT-ATGGT
1 ATTTA-AA-AATATATATATACA-AATAATAGT
* *
70594112 ATTTAAAAATATATATATATATATAATAGT
1 ATTTAAAAATATATATATACAAATAATAGT
*
70594142 ATTTAAGAATATATA
1 ATTTAAAAATATATA
70594157 CATAAGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 6 0.15
30 28 0.72
31 5 0.13
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (30 bp):
ATTTAAAAATATATATATACAAATAATAGT
Found at i:70594132 original size:32 final size:30
Alignment explanation
Indices: 70594094--70594156 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
70594084 TATAATAATA
70594094 ATATATACACAATATGGTATTTAAAAATATAT
1 ATATATACACAATA--GTATTTAAAAATATAT
* * *
70594126 ATATATATATAATAGTATTTAAGAATATAT
1 ATATATACACAATAGTATTTAAAAATATAT
70594156 A
1 A
70594157 CATAAGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 16 0.57
32 12 0.43
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (30 bp):
ATATATACACAATAGTATTTAAAAATATAT
Found at i:70594208 original size:39 final size:39
Alignment explanation
Indices: 70594122--70594208 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
70594112 ATTTAAAAAT
* * *
70594122 ATATATATATATATAATAGTATTTAAGAATATATACATA
1 ATATATATATATATAATAGCATTAAAAAATATATACATA
* * *
70594161 AGAAATATATA-ACTAATGGCATTAAAAAATATATACATA
1 ATATATATATATA-TAATAGCATTAAAAAATATATACATA
70594200 ATATATATA
1 ATATATATA
70594209 AAATACCTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.36
Consensus pattern (39 bp):
ATATATATATATATAATAGCATTAAAAAATATATACATA
Found at i:70594734 original size:17 final size:16
Alignment explanation
Indices: 70594714--70594751 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
70594704 TTTTCTTCTT
70594714 TTTTTTTGGGGGTTAGG
1 TTTTTTTGGGGG-TAGG
*
70594731 TTTTTTTTGGGGTAGG
1 TTTTTTTGGGGGTAGG
70594747 TTTTT
1 TTTTT
70594752 CTTTTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.05, C:0.00, G:0.34, T:0.61
Consensus pattern (16 bp):
TTTTTTTGGGGGTAGG
Found at i:70594734 original size:18 final size:16
Alignment explanation
Indices: 70594713--70594751 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 16
70594703 TTTTTCTTCT
70594713 TTTTTTTTGGGGGTTAGG
1 TTTTTTTT-GGGG-TAGG
70594731 TTTTTTTTGGGGTAGG
1 TTTTTTTTGGGGTAGG
70594747 TTTTT
1 TTTTT
70594752 CTTTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.43
17 4 0.19
18 8 0.38
ACGTcount: A:0.05, C:0.00, G:0.33, T:0.62
Consensus pattern (16 bp):
TTTTTTTTGGGGTAGG
Found at i:70594756 original size:18 final size:19
Alignment explanation
Indices: 70594712--70594756 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
70594702 TTTTTTCTTC
70594712 TTTTTTTTTGGGGGTTAGG
1 TTTTTTTTTGGGGGTTAGG
70594731 -TTTTTTTT-GGGG-TAGG
1 TTTTTTTTTGGGGGTTAGG
70594747 TTTTTCTTTT
1 TTTTT-TTTT
70594757 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.17
17 8 0.33
18 12 0.50
ACGTcount: A:0.04, C:0.02, G:0.29, T:0.64
Consensus pattern (19 bp):
TTTTTTTTTGGGGGTTAGG
Found at i:70594765 original size:15 final size:16
Alignment explanation
Indices: 70594747--70594782 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
70594737 TTGGGGTAGG
70594747 TTTTTCTTT-TCTTTTT
1 TTTTTCTTTGT-TTTTT
70594763 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
70594779 TTTT
1 TTTT
70594783 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:70594766 original size:16 final size:15
Alignment explanation
Indices: 70594747--70594782 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
70594737 TTGGGGTAGG
70594747 TTTTTCTTTTCTTTTT
1 TTTTTC-TTTCTTTTT
*
70594763 TTTTTCTTTGTTTTT
1 TTTTTCTTTCTTTTT
70594778 TTTTT
1 TTTTT
70594783 GGGTTAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (15 bp):
TTTTTCTTTCTTTTT
Found at i:70595535 original size:88 final size:83
Alignment explanation
Indices: 70595428--70596005 Score: 290
Period size: 88 Copynumber: 7.0 Consensus size: 83
70595418 AACAGACATT
** * *
70595428 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
70595493 TTGATTTTTTGAAACTTAACTTG
65 TTGATTTTTTGAAA---AAC-TG
* * * ** *
70595516 AAAAGCAGATTTTGAAAATACCTCGATATGTGA-CTGGAGGTTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
*
70595580 GTTGA-TTTTTGAAAAACAG
64 GTTGATTTTTTGAAAAACTG
* * * * ** *** *
70595599 AAATTAAAAGA--CT-CAACTCAACTCTCGCA-GAAATTAAAAAGCTCAACTCACCTCTCGCAAT
1 AAA--AACAGATTTTGAAAAT--AC-CTCGCACGTGA-GCCAAGGCTCAACTCACCTCTCGCAAT
70595660 ATGAGTTGAATTTTTTTG-AAAA---
60 ATGAGTTG-A-TTTTTTGAAAAACTG
** * *
70595682 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
*
70595747 TTGA-TTTTTGAAAACAGAATTTG
65 TTGATTTTTTG--AA-A-AA-CTG
* * * * * * *
70595770 AAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACATCTCGCAATGTGAG
1 AAAAACAGATTTTGAAAATACCTCG-CACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
70595835 TTGATTTTTTTGAAAAA-T-
65 TTGA-TTTTTTGAAAAACTG
* *** *** * *
70595853 --ATA-A-ATTGAAAAAATACCTCTGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGA
70595913 GTTGATTTTTTTG--AAA--G
64 GTTGA-TTTTTTGAAAAACTG
* * * * * * *
70595930 ATAGA-A-A--TTGAAAATAGCTCAGCGCATGAGCCAAGGGTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGATTTTGAAAATACCTC-GCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
70595991 TTGATTTTTTGAAAA
65 TTGATTTTTTGAAAA
70596006 CAGAAATTGA
Statistics
Matches: 382, Mismatches: 71, Indels: 84
0.71 0.13 0.16
Matches are distributed among these distances:
76 9 0.02
77 46 0.12
78 2 0.01
79 64 0.17
80 3 0.01
81 11 0.03
82 38 0.10
83 14 0.04
84 41 0.11
85 9 0.02
86 6 0.02
87 19 0.05
88 114 0.30
90 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (83 bp):
AAAAACAGATTTTGAAAATACCTCGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAAACTG
Found at i:70595632 original size:30 final size:30
Alignment explanation
Indices: 70595596--70595657 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
70595586 TTTTGAAAAA
70595596 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
70595626 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
70595656 CA
1 CA
70595658 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:70595982 original size:77 final size:75
Alignment explanation
Indices: 70595807--70596146 Score: 361
Period size: 72 Copynumber: 4.5 Consensus size: 75
70595797 ATGTAACCCG
* * * *
70595807 AGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG--AAAATACCT
* * *
70595872 CTGTGTGTGATCTGA
63 C--AGCGTGATCTCA
* *
70595887 A-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
*
70595951 GCGCATGAGC-CA
65 GCG--TGATCTCA
* * *
70595963 AGGGTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
**
70596027 CGTG-TCTTG
66 CGTGATCTCA
** * *
70596036 AGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
* *
70596099 CGTG-TCCCG
66 CGTGATCTCA
*
70596108 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
70596147 TTTGAAAGGC
Statistics
Matches: 224, Mismatches: 29, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
72 65 0.29
73 30 0.13
74 4 0.02
75 23 0.10
76 12 0.05
77 41 0.18
78 3 0.01
79 45 0.20
80 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
CGTGATCTCA
Found at i:70596295 original size:74 final size:75
Alignment explanation
Indices: 70596172--70596332 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 75
70596162 TTGAAAAATG
*
70596172 GAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
1 GAAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
70596237 TTTTGACAACA
65 TTTTGACAACA
* * *
70596248 GAAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTT
70596311 TTTTGA-AAGGCA
65 TTTTGACAA--CA
70596323 -AAATTGAAAA
1 GAAATTGAAAA
70596333 ACGGAAATTG
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
73 2 0.03
74 51 0.66
75 3 0.04
76 21 0.27
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGACTTT
TTTGACAACA
Found at i:70596350 original size:164 final size:165
Alignment explanation
Indices: 70596002--70596659 Score: 940
Period size: 164 Copynumber: 4.0 Consensus size: 165
70595992 TGATTTTTTG
* * * ** *
70596002 AAAACAGAAATTGAAAATACCTCAACGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
70596065 TGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACA
66 TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
70596129 ATATGAGTTGATTTTTTTTTTGAAAGGCAGAAATTGA
131 ATATGAGTTGA--TTTTTTTTGAAAGGCAGAAATTGA
* *
70596166 AAAATGGAAATTGAAAATACCTCGACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
70596231 TGACTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
70596296 AATATGAGTTGA-TTTTTTTGAAAGGCA-AAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
* * *
70596330 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *
70596395 TGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
66 TGA-TATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
*
70596460 AATATGAGTTGATTTTTTTTGAAAGACAGAAATTGA
130 AATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
* *
70596496 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGT
1 AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
* *** * * * *
70596561 TGAAATTAAAACATA-A-AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGT
66 TGATATTTTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
70596624 AATATGAGTTGA-TTTTTTTGACAA--CAGAAATTGA
130 AATATGAGTTGATTTTTTTTGA-AAGGCAGAAATTGA
70596658 AA
1 AA
70596660 TTACCTCAGC
Statistics
Matches: 456, Mismatches: 30, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
162 12 0.03
163 9 0.02
164 226 0.50
165 35 0.08
166 106 0.23
168 68 0.15
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (165 bp):
AAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGT
TGATATTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGA
Found at i:70596417 original size:90 final size:87
Alignment explanation
Indices: 70596248--70596421 Score: 251
Period size: 90 Copynumber: 2.0 Consensus size: 87
70596238 TTTGACAACA
* * *
70596248 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
70596313 TTGAAAGGCAAAATTGAAAAACG
66 TTGAAA-GCAAAATTGAAAAACG
* *
70596336 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTT
70596401 TTTTGACAA-CAGAAATTGAAA
64 TTTTGA-AAGCA-AAATTGAAA
70596422 TTACCTCAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
88 22 0.29
89 2 0.03
90 51 0.66
91 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (87 bp):
GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
TTGAAAGCAAAATTGAAAAACG
Found at i:70596461 original size:74 final size:77
Alignment explanation
Indices: 70596326--70596498 Score: 244
Period size: 76 Copynumber: 2.3 Consensus size: 77
70596316 AAAGGCAAAA
* * * *
70596326 TTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATAC
70596391 GAGTTGA-TTTTT
65 GAGTTGATTTTTT
* * * *
70596403 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
70596466 AGTTGATTTTTT
66 AGTTGATTTTTT
70596478 TTGAAAGACAGAAATTGAAAA
1 TTGAAAGACAGAAATTGAAAA
70596499 ACGGAAATTG
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
74 33 0.39
75 10 0.12
76 37 0.44
77 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (77 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACG
AGTTGATTTTTT
Found at i:70596497 original size:14 final size:14
Alignment explanation
Indices: 70596478--70596512 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
70596468 TTGATTTTTT
*
70596478 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
70596492 TTGAAAAACGGAAA
1 TTGAAAAACAGAAA
70596506 TTGAAAA
1 TTGAAAA
70596513 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:70596935 original size:72 final size:72
Alignment explanation
Indices: 70596488--70596943 Score: 319
Period size: 72 Copynumber: 6.3 Consensus size: 72
70596478 TTGAAAGACA
* * * * * *
70596488 GAAATTGAAAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCA
1 GAAATTGAAAAACAGAAATTGAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACCTCTAGCA
*
70596553 ATACGAGTT
64 ATATGAGTT
* * *
70596562 GAAATT-AAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGTAA
1 GAAATTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
70596626 TATGAGTT
65 TATGAGTT
** * * * *
70596634 GATTTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCA-
1 GA---AATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT-AG
70596697 CAATATGAGTT
62 CAATATGAGTT
** * *** * * * *** * ** * * *
70596708 GATTTTGAAAAAGTAGAAATT-AAAA-GGTTCAACCTACCTCTCGCAATATGAGTTGA-TTCTTG
1 GAAATTGAAAAA-CAGAAATTGAAAATACCTCAGCGTGCC-C-CG-AGGCTCAACTCACCTCTAG
*
70596770 -AACA--ACG-T
62 CAATATGA-GTT
* * *
70596778 -AAATTG-AAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAAT
1 GAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
70596841 ATGAGTT
66 ATGAGTT
*
70596848 GAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
1 GAAATTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAA
70596912 TATGAGTT
65 TATGAGTT
** *
70596920 GATTTTGAAAAACAAAAATT-AAAA
1 GAAATTGAAAAACAGAAATTGAAAA
70596944 GGCTTAACTC
Statistics
Matches: 291, Mismatches: 67, Indels: 51
0.71 0.16 0.12
Matches are distributed among these distances:
66 5 0.02
67 12 0.04
68 12 0.04
69 11 0.04
70 4 0.01
71 24 0.08
72 114 0.39
73 19 0.07
74 85 0.29
75 5 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (72 bp):
GAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTT
Found at i:70597086 original size:71 final size:71
Alignment explanation
Indices: 70596943--70597206 Score: 347
Period size: 70 Copynumber: 3.7 Consensus size: 71
70596933 AAAAATTAAA
* * * * * *
70596943 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCAGTGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
70597006 GCCCCG
66 GCCCCG
* *
70597012 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
* **
70597077 GTCTTG
66 GCCCCG
* * *
70597083 AGGCTCAACTCATCTCTCGCAATATGAGTTGA--TTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ACAAAAATTAAAAATACCTCAGCG
70597146 TGCCCCG
65 TGCCCCG
*
70597153 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
70597207 GGCTTAACTC
Statistics
Matches: 166, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
69 31 0.19
70 61 0.37
71 57 0.34
72 14 0.08
73 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAGCGT
GCCCCG
Found at i:70597164 original size:70 final size:69
Alignment explanation
Indices: 70596943--70597206 Score: 330
Period size: 71 Copynumber: 3.7 Consensus size: 69
70596933 AAAAATTAAA
* ** * * * *
70596943 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAGTGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
70597008 CCCG
66 CCCG
* * *
70597012 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTAAAAACAAAAATTAAAAATACCTCAGCGT
* **
70597077 GTCTTG
64 GCCCCG
* *
70597083 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTAAAACACAAAAATTGAAAATACCTCAGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAA-ACAAAAATTAAAAATACCTCAGCGTG
70597148 CCCCG
65 CCCCG
*
70597153 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT-AAAAACAAAAATTAAAA
70597207 GGCTTAACTC
Statistics
Matches: 166, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
69 33 0.20
70 56 0.34
71 59 0.36
72 14 0.08
73 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTAAAAACAAAAATTAAAAATACCTCAGCGTGC
CCCG
Found at i:70597188 original size:263 final size:257
Alignment explanation
Indices: 70596781--70597373 Score: 1033
Period size: 257 Copynumber: 2.3 Consensus size: 257
70596771 ACAACGTAAA
* * * * * *
70596781 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
70596846 TTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
66 TTG--ATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCA
70596911 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
129 ATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAAT
*
70596976 TTAAAACATAAACTAAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
194 TT-----A-AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
70597041 TGATT
253 TGATT
70597046 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
70597111 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
66 TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
70597176 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
131 ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
70597241 AAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
*
70597303 TTGAAAACAACAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
1 TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
70597368 TTGATT
66 TTGATT
70597374 TTCCTTGAAA
Statistics
Matches: 319, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
257 129 0.40
258 1 0.00
263 127 0.40
265 62 0.19
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (257 bp):
TTGAAAACAAAAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAG
TTGATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
ATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
AAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
Found at i:70604086 original size:3 final size:3
Alignment explanation
Indices: 70604080--70604105 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
70604070 TAAAAGTATG
70604080 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
70604106 TCTACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:70604921 original size:17 final size:16
Alignment explanation
Indices: 70604901--70604938 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
70604891 TTTTTTCTTC
70604901 TTTTTTTTGGGGTTAGG
1 TTTTTTTTGGGG-TAGG
70604918 TTTTTTTTGGGGTAGG
1 TTTTTTTTGGGGTAGG
70604934 TTTTT
1 TTTTT
70604939 CTTTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.05, C:0.00, G:0.32, T:0.63
Consensus pattern (16 bp):
TTTTTTTTGGGGTAGG
Found at i:70604953 original size:16 final size:16
Alignment explanation
Indices: 70604934--70604968 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
70604924 TTGGGGTAGG
70604934 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
70604950 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
70604966 TTT
1 TTT
70604969 AGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:70609475 original size:15 final size:16
Alignment explanation
Indices: 70609455--70609484 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
70609445 GCATTATTGC
70609455 AATT-AAATGTAGTTT
1 AATTAAAATGTAGTTT
70609470 AATTAAAATGTAGTT
1 AATTAAAATGTAGTT
70609485 CACTTAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (16 bp):
AATTAAAATGTAGTTT
Found at i:70610400 original size:29 final size:28
Alignment explanation
Indices: 70610335--70610404 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 28
70610325 TAATAAATAT
* * *
70610335 TTTATTTTCATAATTAATTAATTTTTTA
1 TTTATTTTTATAATTAATTAAATTTTAA
*
70610363 TCCTATTTTTATAATTAATTAAATTTTAA
1 T-TTATTTTTATAATTAATTAAATTTTAA
70610392 TTTATTTTTATAA
1 TTTATTTTTATAA
70610405 AAAATCACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 12 0.33
29 24 0.67
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTATTTTTATAATTAATTAAATTTTAA
Done.