Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 426 of 444
Found at i:123150043 original size:18 final size:18
Alignment explanation
Indices: 123150016--123150081 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
123150006 GGTTTTTTTA
*
123150016 TTTTTATTTTTTGTTAGG
1 TTTTTCTTTTTTGTTAGG
* *
123150034 TTTTTCTTTTTTCTT--C
1 TTTTTCTTTTTTGTTAGG
123150050 TTTTT-TTTTTTGGGGTTAGG
1 TTTTTCTTTTTT---GTTAGG
123150070 TTTTTCTTTTTT
1 TTTTTCTTTTTT
123150082 TTTTTTTGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
15 6 0.16
16 5 0.14
18 15 0.41
20 5 0.14
21 6 0.16
ACGTcount: A:0.05, C:0.06, G:0.14, T:0.76
Consensus pattern (18 bp):
TTTTTCTTTTTTGTTAGG
Found at i:123150080 original size:27 final size:29
Alignment explanation
Indices: 123150041--123150101 Score: 108
Period size: 27 Copynumber: 2.2 Consensus size: 29
123150031 AGGTTTTTCT
123150041 TTTTTCTTCTTTTTTTTTTTGGGGTTAGG
1 TTTTTCTTCTTTTTTTTTTTGGGGTTAGG
123150070 TTTTTCTT-TTTTTTTTTTT-GGGTTAGG
1 TTTTTCTTCTTTTTTTTTTTGGGGTTAGG
123150097 TTTTT
1 TTTTT
123150102 TGGGGGGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 13 0.41
28 11 0.34
29 8 0.25
ACGTcount: A:0.03, C:0.05, G:0.18, T:0.74
Consensus pattern (29 bp):
TTTTTCTTCTTTTTTTTTTTGGGGTTAGG
Found at i:123151306 original size:77 final size:78
Alignment explanation
Indices: 123151137--123151356 Score: 228
Period size: 77 Copynumber: 2.7 Consensus size: 78
123151127 ATGTGACCCG
* * * *** * *
123151137 AGGCTCAACTCACATTTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTAAAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATT--GAAAATACCT
* * * *
123151202 CAGTGTGTGATCTGA
64 CAGCGCGTGAGCTCA
* *
123151217 A-GCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAATAGCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAATACCTCA
123151281 GCGCGTGAGC-CA
66 GCGCGTGAGCTCA
123151293 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATTTTTTTTTGAAAGGCAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG----A--TTTTTTTGAAAGGCAGAAATTGAAAA
123151357 ACGGAAATTG
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
76 2 0.02
77 45 0.38
79 43 0.36
80 1 0.01
81 1 0.01
83 26 0.22
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (78 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAATACCTCA
GCGCGTGAGCTCA
Found at i:123151315 original size:244 final size:249
Alignment explanation
Indices: 123150759--123151327 Score: 748
Period size: 254 Copynumber: 2.3 Consensus size: 249
123150749 ACAGACATTA
123150759 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
** * * * *
123150824 TGATTTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTGAAGGTTC
66 TGA-TTTTTGAAACAGAACTTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCGAAGGCTC
*
123150889 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACTCAACTCAACTCA
130 AACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGA--CAACTCAACTCA
123150954 ACTCTCGCAGAAATTAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
193 ACTCTCGCAG-AATT-AAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
* * *
123151013 AAAAAAAAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
123151078 TGATTTTTGAAAACAGAA-TCTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCG-AGGC
66 TGATTTTTG-AAACAGAACT-TGAAAAACAGATTTTGAAAATACCTCGACATGTGA-CCGAAGGC
* * * * *
123151141 TCAACTCACATTTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTAAAA-A-AA-T-ACCT
128 TCAACTCACATCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAGACAACTCAACT
* * * * *
123151202 C-AGTGT-G-TG-ATCT-GAAGCTCAATTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
191 CAACTCTCGCAGAAT-TAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
* *
123151256 AAAGGCAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAA-ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
123151321 TTGATTT
65 TTGATTT
123151328 ATTTTTTTTT
Statistics
Matches: 283, Mismatches: 25, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
243 12 0.04
244 93 0.33
245 2 0.01
246 1 0.00
247 1 0.00
248 1 0.00
249 3 0.01
250 4 0.01
251 1 0.00
252 2 0.01
253 7 0.02
254 132 0.47
255 3 0.01
256 21 0.07
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (249 bp):
AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGAAACAGAACTTGAAAAACAGATTTTGAAAATACCTCGACATGTGACCGAAGGCTCA
ACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGACAACTCAACTCAACT
CTCGCAGAATTAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
Found at i:123151494 original size:74 final size:76
Alignment explanation
Indices: 123151360--123151505 Score: 197
Period size: 74 Copynumber: 1.9 Consensus size: 76
123151350 TTGAAAAACG
* * **
123151360 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCATTATATAAGTTG-ATT
1 GAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCACAATATAAGTTGAATT
123151424 TTTTTGACAACA
65 TTTTTGACAACA
* * * *
123151436 GAAATTGAAATTATCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
1 GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCACAATATAAGTTGAATTT
123151500 TTTTGA
66 TTTTGA
123151506 AAAATATAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
74 30 0.49
75 10 0.16
76 21 0.34
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (76 bp):
GAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCACAATATAAGTTGAATTT
TTTTGACAACA
Found at i:123151517 original size:76 final size:75
Alignment explanation
Indices: 123151354--123151522 Score: 196
Period size: 76 Copynumber: 2.2 Consensus size: 75
123151344 CAGAAATTGA
* * * **
123151354 AAAACGGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCATTATATAAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCACAATATAAGT
123151419 TGATTTTTTTG
65 TGATTTTTTTG
* * * * *
123151430 ACAACAGAAATTGAAATTATCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCACAATATAAGTT
123151494 GAATTTTTTTG
66 G-ATTTTTTTG
* *
123151505 AAAAATATAAATTGAAAA
1 -AAAACAGAAATTGAAAA
123151523 GCAGAAATTG
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
74 30 0.39
75 9 0.12
76 38 0.49
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (75 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCACAATATAAGTT
GATTTTTTTG
Found at i:123151612 original size:73 final size:73
Alignment explanation
Indices: 123151527--123151665 Score: 226
Period size: 73 Copynumber: 1.9 Consensus size: 73
123151517 TGAAAAGCAG
* *
123151527 AAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCATATCTCGCAATATGAGTTAATTTTT
123151591 GACAAACAA
65 GACAAACAA
* *
123151600 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATATCTCGTAATATGAGTTAATTTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATATCTCGCAATATGAGTTAATTTTTG
123151665 A
66 A
123151666 AAAATAGATT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 59 0.97
74 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (73 bp):
AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATATCTCGCAATATGAGTTAATTTTTG
ACAAACAA
Found at i:123151733 original size:158 final size:161
Alignment explanation
Indices: 123151194--123151765 Score: 530
Period size: 158 Copynumber: 3.5 Consensus size: 161
123151184 TAAATTAAAA
** * *
123151194 AAATACCTCAGTGTGTGATCTGAAGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTTTGA-A
1 AAATACCTCA--GTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACA
* * * * * * *
123151258 AGGCAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGT
62 A-ACAAAAATTGAAATTACCTCA--GCGTG-TCCTGAGGCTCAACTCACATCTCGCAATATGAGT
*** * * **
123151322 TGATTTATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
123 TGA---A---TTTTTTGAAAAATATAAATTGAAAAGCAAAAATTG
* * * *** *
123151367 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCATTATATAAGTTGATTTTTTTGAC
1 -AAATACCTC--AGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAC
* * *
123151432 -AACAGAAATTGAAATTATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
61 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGA
*
123151496 ATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTG
126 A-TTTTTTGAAAAATATAAATTGAAAAGCAAAAATTG
** * *
123151533 AAATTACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGACAAAC
1 AAA-TACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAC
* *
123151598 AAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATATCTCGTAATATGAGTT-AA-TT
65 AAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGAATTT
*
123151661 TTTG-AAAA-ATAGATTGAAACA-CAAAAATTG
130 TTTGAAAAATATAAATTGAAA-AGCAAAAATTG
* *
123151691 ACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 A-AATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAC
*
123151756 ATAAATTGAA
65 AAAAATTGAA
123151766 CAGAAATTGA
Statistics
Matches: 345, Mismatches: 45, Indels: 32
0.82 0.11 0.08
Matches are distributed among these distances:
158 83 0.24
159 7 0.02
160 6 0.02
162 10 0.03
163 57 0.17
164 32 0.09
165 3 0.01
166 36 0.10
168 1 0.00
170 2 0.01
171 37 0.11
173 18 0.05
174 53 0.15
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (161 bp):
AAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACA
AAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACATCTCGCAATATGAGTTGAATTTT
TTGAAAAATATAAATTGAAAAGCAAAAATTG
Found at i:123151814 original size:84 final size:81
Alignment explanation
Indices: 123151595--123151909 Score: 336
Period size: 77 Copynumber: 3.8 Consensus size: 81
123151585 ATTTTTGACA
* * *
123151595 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATATCTCGTAATATGAGTTAAT
1 AACAAAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
*
123151660 TTTTGAAAAATAGATTG
65 TTTTGAAAAATAAATTG
* * * **
123151677 AAACACAAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 --A-ACAAAAATTGA-AATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
123151742 GATTTTTGAAAAACATAAATTG
62 GATTTTTG-AAAA-ATAAATTG
* * *
123151764 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAAAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
***
123151829 TTTT---TTTTGAAA--G
65 TTTTGAAAAAT-AAATTG
* * *
123151842 -ACAAAAATTGAAAATACCTCAGCATGTCTTGAGTCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAAAAATTG-AAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
123151906 TTTT
65 TTTT
123151910 TTGAAAAAAA
Statistics
Matches: 201, Mismatches: 23, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
77 60 0.30
78 4 0.02
79 1 0.00
80 3 0.01
83 2 0.01
84 58 0.29
85 60 0.30
86 6 0.03
87 7 0.03
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (81 bp):
AACAAAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATT
TTTGAAAAATAAATTG
Found at i:123151990 original size:55 final size:55
Alignment explanation
Indices: 123151887--123152037 Score: 250
Period size: 55 Copynumber: 2.7 Consensus size: 55
123151877 TCAACTCATT
* *
123151887 TCTCGCAATATGAGTTGATTTTTTTGAAA-AAAAGAAATTAAAAGGCTTAACTCACC
1 TCTCGCAACATGAGTTGA--TTTTTGAAACAACAGAAATTAAAAGGCTTAACTCACC
123151943 TCTCGCAACATGAGTTGATTTTTGAAACAACAGAAATTAAAAGGCTTAACTCACC
1 TCTCGCAACATGAGTTGATTTTTGAAACAACAGAAATTAAAAGGCTTAACTCACC
*
123151998 TCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATTAA
1 TCTCGCAACATGAGTTGATTTTTGAAACAACAGAAATTAA
123152038 GAATACCTCA
Statistics
Matches: 91, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
54 9 0.10
55 65 0.71
56 17 0.19
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.30
Consensus pattern (55 bp):
TCTCGCAACATGAGTTGATTTTTGAAACAACAGAAATTAAAAGGCTTAACTCACC
Found at i:123152174 original size:71 final size:69
Alignment explanation
Indices: 123151984--123152305 Score: 259
Period size: 71 Copynumber: 4.5 Consensus size: 69
123151974 AGAAATTAAA
* * * * * * *
123151984 AGGCTTAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATTAAGAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATTT--AA-AACATAAACTAAAAATACATCAG
*
123152049 CGTGACC-TA
61 CGTG-CCTTG
** * * * * * *
123152058 AGGCTTGACTCACTTCTCGCAGTTTGAGTCAAAATTTGAAACATAAACTAAAAATACTTCAGCGC
1 AGGCTCAACTCACCTCTCGCAATATGAGT--TAATTTAAAACATAAACTAAAAATACATCA--GC
*
123152123 GTGGCTTG
62 GTGCCTTG
** *
123152131 AGGCTTGACTCACCTCTCGCAATATGAGTTAATTTAAAACATAAACTAAAAATACCTCAGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTAAAACATAAACTAAAAATACATCAGCGTGC
**
123152196 CCCG
66 CTTG
* * * * *
123152200 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACATCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-AATTT-AAAACATAAACTAAAAATACATCAGCGT
*
123152265 GTCTTG
64 GCCTTG
* *
123152271 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTT
123152306 CCCTTGAAAA
Statistics
Matches: 203, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
69 34 0.17
70 7 0.03
71 100 0.49
72 2 0.01
73 32 0.16
74 27 0.13
75 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (69 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTAAAACATAAACTAAAAATACATCAGCGTGC
CTTG
Found at i:123152252 original size:142 final size:142
Alignment explanation
Indices: 123151984--123152305 Score: 353
Period size: 142 Copynumber: 2.2 Consensus size: 142
123151974 AGAAATTAAA
* * * *
123151984 AGGCTTAACTCACCTCTCGCAACATGAGTTGATTTTTGAAACAACAAAAATTAAGAATACCTCAG
1 AGGCTTAACTCACCTCTCGCAATATGAGTT-A-ATTT-AAACAACAAAAACTAAAAATACCTCAG
* ** * * *
123152049 CGTGACCTAAGGCTTGACTCACTTCTCGCAGTTTGAGTCAAAATTTGAAACATAAACTAAAAATA
63 CGTGACCCAAGGCTCAACTCACTTCTCGCAATATGAGTCAAAATTTGAAACAAAAACTAAAAATA
* *
123152114 CTTCAGCGCGTGGCTTG
128 CATCA--ACGTGGCTTG
* *
123152131 AGGCTTGACTCACCTCTCGCAATATGAGTTAATTT-AA-AACATAAACTAAAAATACCTCAGCGT
1 AGGCTTAACTCACCTCTCGCAATATGAGTTAATTTAAACAACAAAAACTAAAAATACCTCAGCGT
* * ** * *
123152194 GCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT-TGATTTTGAAAACAAAAATTAAAAATACA
66 GACCCAAGGCTCAACTCACTTCTCGCAATATGAGTCAAAATTTG-AAACAAAAACTAAAAATACA
*
123152258 TCAACGTGTCTTG
130 TCAACGTGGCTTG
* * *
123152271 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 AGGCTTAACTCACCTCTCGCAATATGAGTTAATTT
123152306 CCCTTGAAAA
Statistics
Matches: 149, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
140 39 0.26
141 5 0.03
142 71 0.48
143 2 0.01
145 3 0.02
146 1 0.01
147 28 0.19
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (142 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTTAATTTAAACAACAAAAACTAAAAATACCTCAGCGT
GACCCAAGGCTCAACTCACTTCTCGCAATATGAGTCAAAATTTGAAACAAAAACTAAAAATACAT
CAACGTGGCTTG
Found at i:123161065 original size:10 final size:11
Alignment explanation
Indices: 123161026--123161065 Score: 52
Period size: 10 Copynumber: 4.0 Consensus size: 11
123161016 GTATTTAAAA
123161026 ATATATA-TAT
1 ATATATAGTAT
123161036 ATATATA-TAT
1 ATATATAGTAT
123161046 ATATAT-GTAT
1 ATATATAGTAT
123161056 ATA-ATAGTAT
1 ATATATAGTAT
123161066 TTAAGAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.07
10 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (11 bp):
ATATATAGTAT
Found at i:123161077 original size:2 final size:2
Alignment explanation
Indices: 123161026--123161058 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
123161016 GTATTTAAAA
*
123161026 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
123161059 ATAGTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:123162979 original size:20 final size:20
Alignment explanation
Indices: 123162956--123163005 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
123162946 AAATCCAAAT
123162956 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* *
123162976 TAAAATCCTAAAATTCGGGA
1 TAAAATACTAAAATTCAGGA
123162996 TAAGAATACT
1 TAA-AATACT
123163006 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:123164226 original size:2 final size:2
Alignment explanation
Indices: 123164219--123164267 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
123164209 CACCAAGTAG
123164219 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
123164261 TA TA TA T
1 TA TA TA T
123164268 TGAAGCTTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:123176514 original size:25 final size:25
Alignment explanation
Indices: 123176419--123176530 Score: 111
Period size: 25 Copynumber: 4.5 Consensus size: 25
123176409 ACGAACACAC
*
123176419 CACAGCTCGTATGAGCTTTTCGATT
1 CACAGCTCGTATGAGCTTATCGATT
** * *
123176444 TGCAGCTCGTGA-GAGTTTACCGATT
1 CACAGCTCGT-ATGAGCTTATCGATT
*
123176469 CTCAGCTCGTATGAGCTTATCGATT
1 CACAGCTCGTATGAGCTTATCGATT
* *
123176494 CACAGCTCGTGA-GAGCATATCGTTT
1 CACAGCTCGT-ATGAGCTTATCGATT
*
123176519 CATAGCTCGTAT
1 CACAGCTCGTAT
123176531 AAGCAAATAT
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.03
25 66 0.94
26 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTATCGATT
Found at i:123176526 original size:50 final size:50
Alignment explanation
Indices: 123176421--123176530 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
123176411 GAACACACCA
* ** **
123176421 CAGCTCGTATGAGCTTTTCGATTTGCAGCTCGTGAGAGTTTACCGATTCT
1 CAGCTCGTATGAGCTTATCGATTCACAGCTCGTGAGAGCATACCGATTCT
* *
123176471 CAGCTCGTATGAGCTTATCGATTCACAGCTCGTGAGAGCATATCGTTTCAT
1 CAGCTCGTATGAGCTTATCGATTCACAGCTCGTGAGAGCATACCGATTC-T
123176522 -AGCTCGTAT
1 CAGCTCGTAT
123176531 AAGCAAATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
50 51 0.98
51 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTATCGATTCACAGCTCGTGAGAGCATACCGATTCT
Found at i:123177158 original size:2 final size:2
Alignment explanation
Indices: 123177153--123177182 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
123177143 TATATATATA
123177153 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
123177183 GTCTTATCAT
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):
TG
Found at i:123179337 original size:16 final size:16
Alignment explanation
Indices: 123179316--123179347 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
123179306 TGCCAAGTAC
123179316 AAATAAGGCAAGTTTT
1 AAATAAGGCAAGTTTT
123179332 AAATAAGGCAAGTTTT
1 AAATAAGGCAAGTTTT
123179348 GTGACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
AAATAAGGCAAGTTTT
Found at i:123186472 original size:19 final size:19
Alignment explanation
Indices: 123186452--123186493 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
123186442 TTGTTTTGCA
*
123186452 TTCATTCATTTGCATTACAT
1 TTCA-TCATGTGCATTACAT
*
123186472 TTCATCATGTGCATTAAAT
1 TTCATCATGTGCATTACAT
123186491 TTC
1 TTC
123186494 GTGAAAAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (19 bp):
TTCATCATGTGCATTACAT
Found at i:123194627 original size:86 final size:86
Alignment explanation
Indices: 123194479--123194827 Score: 443
Period size: 86 Copynumber: 4.0 Consensus size: 86
123194469 AGAATGGTGT
* * * *
123194479 AACAGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAGATC
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATC
*
123194543 TTATCTCCCTAAGCAGTAGTGG-
66 TTAAC-CCCTAAGCAGTAG-GGA
* * * *
123194565 AGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGTAGTAGGGTAACAGGTTGAA-TTACAGATC
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATC
123194629 TTAACCCCCTAAGCAGTAGGGA
66 TTAA-CCCCTAAGCAGTAGGGA
* ** * * *
123194651 AACAGATCGAAGGCGAAGGGCCTTAACCCCCTAAGCAGCAAGGTAACAAGCTGAATTTACAGATC
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATC
*
123194716 TTAACCCCCAAGCAGTAGGGA
66 TTAACCCCTAAGCAGTAGGGA
** *
123194737 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATC
1 AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATC
* * *
123194802 TTAACCCCCAAAGTAGTAGGGT
66 TTAA-CCCCTAAGCAGTAGGGA
123194824 AACA
1 AACA
123194828 AGCTGGAAAT
Statistics
Matches: 237, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
85 2 0.01
86 203 0.86
87 32 0.14
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (86 bp):
AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATC
TTAACCCCTAAGCAGTAGGGA
Found at i:123194805 original size:43 final size:42
Alignment explanation
Indices: 123194507--123194832 Score: 209
Period size: 44 Copynumber: 7.6 Consensus size: 42
123194497 AACCTTAAAT
* * * * *
123194507 CCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTAACC
* * * * *
123194549 CCCTAAGCAGTAGTGG-AGC-AGATCGAA-GACGAAGAACCTTAAAC
1 CCCTAAGCAGTAG-GGTAACAAGCT-GAATTAC--AG-ATCTTAACC
* * *
123194593 CCCTAAGTAGTAGGGTAACAGGTTGAATTACAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTAACC
* * ** **
123194635 CCCTAAGCAGTAGGGAAAC-AGATCGAA-GGCGAAGGGCCTTAACC
1 CCCTAAGCAGTAGGGTAACAAGCT-GAATTAC--A-GATCTTAACC
* *
123194679 CCCTAAGCAGCAAGGTAACAAGCTGAATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAAGCTGAA-TTACAGATCTTAACC
* * * **
123194722 CCC-AAGCAGTAGGGAAAC-AGATCGAA-GACGAAGGGCCTTAACC
1 CCCTAAGCAGTAGGGTAACAAGCT-GAATTAC--A-GATCTTAACC
123194765 CCCTAAGCAGTAGGGTAACAAGCTGAATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAAGCTGAA-TTACAGATCTTAACC
* *
123194808 CCCAAAGTAGTAGGGTAACAAGCTG
1 CCCTAAGCAGTAGGGTAACAAGCTG
123194833 GAAATCAAAT
Statistics
Matches: 215, Mismatches: 46, Indels: 45
0.70 0.15 0.15
Matches are distributed among these distances:
40 2 0.01
41 9 0.04
42 61 0.28
43 62 0.29
44 68 0.32
45 10 0.05
46 3 0.01
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAAGCTGAATTACAGATCTTAACC
Found at i:123199582 original size:19 final size:19
Alignment explanation
Indices: 123199558--123199595 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
123199548 TTTGCAACTT
123199558 CAGAAACCTTATTTCCTTC
1 CAGAAACCTTATTTCCTTC
123199577 CAGAAACCTTATTTCCTTC
1 CAGAAACCTTATTTCCTTC
123199596 TTCTTGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (19 bp):
CAGAAACCTTATTTCCTTC
Found at i:123203000 original size:25 final size:25
Alignment explanation
Indices: 123202969--123203018 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
123202959 ATAAGATTAC
123202969 TTATTTTTACTCTCTTTTGCTCGAT
1 TTATTTTTACTCTCTTTTGCTCGAT
*
123202994 TTATTTTTACTCTTTTTTGCTCGAT
1 TTATTTTTACTCTCTTTTGCTCGAT
123203019 GATTTAGATA
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:0.12, C:0.18, G:0.08, T:0.62
Consensus pattern (25 bp):
TTATTTTTACTCTCTTTTGCTCGAT
Found at i:123203300 original size:16 final size:16
Alignment explanation
Indices: 123203275--123203321 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
123203265 TACCTTCTTT
* *
123203275 TATATAATATATGAGA
1 TATATTATATATGACA
* *
123203291 TATATTATATGTCACA
1 TATATTATATATGACA
123203307 TATA-TATATATGACA
1 TATATTATATATGACA
123203322 GTTGTGTGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (16 bp):
TATATTATATATGACA
Found at i:123216399 original size:39 final size:40
Alignment explanation
Indices: 123216297--123216483 Score: 238
Period size: 40 Copynumber: 4.7 Consensus size: 40
123216287 TATTCGAATG
* * *
123216297 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
* *
123216338 ATATCCGGACTAAAT-CCG-AGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
123216376 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
123216415 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
123216455 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
123216484 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
37 1 0.01
38 19 0.15
39 41 0.32
40 53 0.42
41 13 0.10
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:123216439 original size:79 final size:79
Alignment explanation
Indices: 123216297--123216481 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 79
123216287 TATTCGAATG
* * *
123216297 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAATCCGAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAATCCGAGGCAT
123216362 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* * ** *
123216376 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGG
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAAT-CCG-AGG
123216438 CATTTGTGCGAGTTACT
63 CATTTGTGCGAGTTACT
* *
123216455 ATAACCGGGCTATGTCCCGAAGGCATT
1 ATATCCGGGCTAAGTCCCGAAGGCATT
123216482 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
77 17 0.19
78 19 0.21
79 42 0.46
80 13 0.14
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAATCCGAGGCAT
TTGTGCGAGTTACT
Found at i:123224449 original size:39 final size:40
Alignment explanation
Indices: 123224346--123224532 Score: 240
Period size: 40 Copynumber: 4.7 Consensus size: 40
123224336 TATTCGAATG
* *
123224346 ATATCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT
*
123224385 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
123224425 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
123224464 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
123224504 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
123224533 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
39 48 0.37
40 76 0.58
41 7 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:123224484 original size:79 final size:80
Alignment explanation
Indices: 123224346--123224530 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 80
123224336 TATTCGAATG
* * *
123224346 ATATCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCA
123224410 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* * **
123224425 A-ATTCCGGGCTAAGCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATA-TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGG
123224487 CATTTGTGCGAGTTACT
64 CATTTGTGCGAGTTACT
* *
123224504 ATAACCGGGCTATGTCCCGAAGGCATT
1 ATATCCGGGCTAAG-CCCGAAGGCATT
123224531 TGAACGAGTA
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.02
79 71 0.77
80 19 0.21
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:123227277 original size:53 final size:53
Alignment explanation
Indices: 123227219--123227325 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
123227209 AAATGAACGT
123227219 AGGTTTCCAAAAATGAAAATGAAAATTTGCAATTCTACATAGGGTTACTTAAA
1 AGGTTTCCAAAAATGAAAATGAAAATTTGCAATTCTACATAGGGTTACTTAAA
123227272 AGGTTTCCAAAAATGAAAATGAAAATTTGCAATTCTACATAGGGTTACTTAAA
1 AGGTTTCCAAAAATGAAAATGAAAATTTGCAATTCTACATAGGGTTACTTAAA
123227325 A
1 A
123227326 CACTATAGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (53 bp):
AGGTTTCCAAAAATGAAAATGAAAATTTGCAATTCTACATAGGGTTACTTAAA
Found at i:123230485 original size:32 final size:32
Alignment explanation
Indices: 123230444--123230510 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
123230434 AAAGCCATGA
* *
123230444 GGAACTAATCCTTCTATGGGGGATTAGCGAGT
1 GGAACTAATCCTTCTATAGGGGATTAGCAAGT
123230476 GGAACTAATCCTTCTATAGGGGATTAGCAAGT
1 GGAACTAATCCTTCTATAGGGGATTAGCAAGT
123230508 GGA
1 GGA
123230511 GGCATGATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (32 bp):
GGAACTAATCCTTCTATAGGGGATTAGCAAGT
Found at i:123234175 original size:27 final size:27
Alignment explanation
Indices: 123234143--123234197 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
123234133 CTCCTTACAT
123234143 ACCAATTCAATATTAACCATGAATCAA
1 ACCAATTCAATATTAACCATGAATCAA
123234170 ACCAATTCAATATTAACCATGAATCAA
1 ACCAATTCAATATTAACCATGAATCAA
123234197 A
1 A
123234198 TTCTTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (27 bp):
ACCAATTCAATATTAACCATGAATCAA
Found at i:123234615 original size:19 final size:19
Alignment explanation
Indices: 123234587--123234645 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
123234577 ATACTGGCGT
*
123234587 ACAAAATGCATCTTGGCAC
1 ACAAAGTGCATCTTGGCAC
**
123234606 AGGAAGTGCATGC-TGGCAC
1 ACAAAGTGCAT-CTTGGCAC
123234625 ACAAAGTGCATCTTGGCAC
1 ACAAAGTGCATCTTGGCAC
123234644 AC
1 AC
123234646 GGAGCACGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 31 0.94
20 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (19 bp):
ACAAAGTGCATCTTGGCAC
Found at i:123239242 original size:13 final size:13
Alignment explanation
Indices: 123239226--123239281 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
123239216 TTTTTTTTTT
123239226 AAGTGTTTTTGAA
1 AAGTGTTTTTGAA
*
123239239 AAGTG-TTGTGAAA
1 AAGTGTTTTTG-AA
123239252 AAGTGTTTTT-AA
1 AAGTGTTTTTGAA
**
123239264 GAAGTACTTTTGAA
1 -AAGTGTTTTTGAA
123239278 AAGT
1 AAGT
123239282 TTGATTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 6 0.17
13 24 0.69
14 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.39
Consensus pattern (13 bp):
AAGTGTTTTTGAA
Found at i:123241583 original size:16 final size:17
Alignment explanation
Indices: 123241562--123241609 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
123241552 TAAAATTGGG
123241562 TTGAAAAATT-ATTTAA
1 TTGAAAAATTAATTTAA
123241578 TTGAAAAATTAATTT-A
1 TTGAAAAATTAATTTAA
*
123241594 TT--TAAATTAATTTAA
1 TTGAAAAATTAATTTAA
123241609 T
1 T
123241610 AAATAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.34
15 2 0.07
16 13 0.45
17 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (17 bp):
TTGAAAAATTAATTTAA
Found at i:123241602 original size:14 final size:14
Alignment explanation
Indices: 123241583--123241626 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
123241573 TTTAATTGAA
123241583 AAATTAATTTATTT
1 AAATTAATTTATTT
*
123241597 AAATTAATTTA-AT
1 AAATTAATTTATTT
*
123241610 AAATAATATTTATTT
1 AAATTA-ATTTATTT
123241625 AA
1 AA
123241627 GGAAATAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 6 0.24
14 16 0.64
15 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATTAATTTATTT
Found at i:123242420 original size:26 final size:26
Alignment explanation
Indices: 123242384--123242435 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
123242374 AAATTCTATG
123242384 TATGTCTTTTTCTACCTTGCTTCAAT
1 TATGTCTTTTTCTACCTTGCTTCAAT
123242410 TATGTCTTTTTCTACCTTGCTTCAAT
1 TATGTCTTTTTCTACCTTGCTTCAAT
123242436 CTTTTACTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.54
Consensus pattern (26 bp):
TATGTCTTTTTCTACCTTGCTTCAAT
Found at i:123250329 original size:13 final size:15
Alignment explanation
Indices: 123250307--123250344 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
123250297 GTATATTCTG
123250307 TTTTTGTATATA-TA
1 TTTTTGTATATATTA
123250321 TTTTT-TATATATTA
1 TTTTTGTATATATTA
123250335 TTTTATGTAT
1 TTTT-TGTAT
123250345 TTTCTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.29
14 11 0.52
15 1 0.05
16 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTTTGTATATATTA
Found at i:123250523 original size:26 final size:25
Alignment explanation
Indices: 123250479--123250544 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
123250469 GTATTTTATT
* *
123250479 TGTATAGTTTCTTTAAAATCTTTAA
1 TGTATATTTTCTTTAAAATCTGTAA
* *
123250504 TGTATATTTTCTTTCCAAATCTGTCA
1 TGTATATTTTCTTT-AAAATCTGTAA
123250530 TGTAAATATTTTCTT
1 TGT--ATATTTTCTT
123250545 CTAATTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.38
26 11 0.32
28 10 0.29
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (25 bp):
TGTATATTTTCTTTAAAATCTGTAA
Found at i:123250580 original size:27 final size:27
Alignment explanation
Indices: 123250535--123250587 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
123250525 TGTCATGTAA
* *
123250535 ATATTTTCTTCTAATTTATTTTTATAT
1 ATATTTTCTTCTAAATTATTTGTATAT
123250562 ATATTTTCTT-TAAAATTATTTGTATA
1 ATATTTTCTTCT-AAATTATTTGTATA
123250588 ATTTGGTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATTTTCTTCTAAATTATTTGTATAT
Found at i:123250672 original size:13 final size:13
Alignment explanation
Indices: 123250654--123250678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123250644 TTTGTATAAA
123250654 TATTATTTTCATT
1 TATTATTTTCATT
123250667 TATTATTTTCAT
1 TATTATTTTCAT
123250679 ATAAATACGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTATTTTCATT
Found at i:123252704 original size:19 final size:18
Alignment explanation
Indices: 123252682--123252727 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
123252672 ATTTCTTTCT
*
123252682 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTGCAT-CA
*
123252701 TTTGCATAACATTGCATCA
1 TTTGCAT-TCATTGCATCA
123252720 TTTGCATT
1 TTTGCATT
123252728 AGATTTTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.46
Consensus pattern (18 bp):
TTTGCATTCATTGCATCA
Found at i:123256908 original size:64 final size:65
Alignment explanation
Indices: 123256784--123256912 Score: 197
Period size: 64 Copynumber: 2.0 Consensus size: 65
123256774 CATACAATAG
123256784 CACATCTAGTTAGGAGCATTTGATTTCATTTCAATCATAGCACCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTCATTTCAATCATAGCACCCTAATTATTTGACATAAGCAT
** * * * *
123256849 CACATCTAGTTAGGAGCATTTGA-TTCATTTCGGTTATAGTATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTTCATTTCAATCATAGCACCCTAATTATTTGACATAAGCAT
123256913 AGATATATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
64 35 0.60
65 23 0.40
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (65 bp):
CACATCTAGTTAGGAGCATTTGATTTCATTTCAATCATAGCACCCTAATTATTTGACATAAGCAT
Found at i:123257062 original size:43 final size:44
Alignment explanation
Indices: 123256983--123257077 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
123256973 AGATACCAGC
**** *
123256983 CTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGA-TACAGGT
1 CTTATCTCTCTGAAGTTGCAGAGAGCAGACCAAAGATTACAGAT
* *
123257026 CTTATCTTTCTGAAGTTGCAG-GAAGCAGACCAAAGATTTCAGAT
1 CTTATCTCTCTGAAGTTGCAGAG-AGCAGACCAAAGATTACAGAT
123257070 CTTATCTC
1 CTTATCTC
123257078 CATGTATCGG
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.02
43 29 0.69
44 12 0.29
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (44 bp):
CTTATCTCTCTGAAGTTGCAGAGAGCAGACCAAAGATTACAGAT
Found at i:123257284 original size:176 final size:176
Alignment explanation
Indices: 123256977--123257720 Score: 1069
Period size: 176 Copynumber: 4.2 Consensus size: 176
123256967 CGGTGAAGAT
* *
123256977 ACCAGCCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAGGTCTTATCTTTCTGAAGT
1 ACCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTTCTGAAGT
* * *
123257042 TGCAGGAAGCAGACC-AAAGATTTCAGATCTTATCTCCATGTATCGGCTATGGAGAAGATAAAAA
66 TGCAGGAAGCAGACCGAAA-ATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAA
* *
123257106 ATGGCGAGTCTTATCTCTATATATCGGCTATGGAGCAGATTTTAGCC
130 ATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
* * *
123257153 ACTAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGTTGAAGATATAGGTCTTATCTTTCTGAAGT
1 ACCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTTCTGAAGT
* * * * *
123257218 TGTAGGAAGCAGACCGAAGATTTCAGATCTTATCTCCATGTATCGGTTATGAAGCAGATCAAAAA
66 TGCAGGAAGCAGACCGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAA
* *
123257283 TGGCGAATCTTATCTCCATGTATCGGCTATGAAGCAGATTTTAGCC
131 TGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
** * * * * * *
123257329 ACCAGCCTTATCTCTCTGAAGTTGTAGTAAAACAGGCTCAATATGCAAGTCTTATCTTTCTGAAG
1 ACCAGCCTTATCTCTCTGAAGTTACAG-AGAGCAGGTTGAAGATACAAGTCTTATCTTTCTGAAG
* * * * *
123257394 TTGTAGGAAGCGGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAG
65 TTGCAGGAAGCAGACCGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAA
*
123257459 ATGGCGAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCC
130 ATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
* *
123257506 ACCAGTCTTATCTCTCTGAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGT
1 ACCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTTCTGAAGT
* * * * *
123257571 TGCAGGAAGCGGACTGAAAATTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGA
66 TGCAGGAAGCAGACCGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAA
* *
123257636 TGGTGAGTCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCC
131 TGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
*
123257682 ACCAGCCTTATCTCTCTG-AGGTAGCAAGAGAGCAGGTTG
1 ACCAGCCTTATCTCTCTGAAGTTA-C-AGAGAGCAGGTTG
123257721 TGTATCGGCT
Statistics
Matches: 512, Mismatches: 52, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
175 4 0.01
176 339 0.66
177 169 0.33
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (176 bp):
ACCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTTCTGAAGT
TGCAGGAAGCAGACCGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAA
TGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
Found at i:123257674 original size:353 final size:352
Alignment explanation
Indices: 123256977--123257700 Score: 1099
Period size: 353 Copynumber: 2.1 Consensus size: 352
123256967 CGGTGAAGAT
* * * * *
123256977 ACCAGCCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGATACAGGTCTTATCTTTCTGAAGT
1 ACCAGCCTTATCTCTCTGAAGTTGCAGAAAACAGGCTCAAGATACAAGTCTTATCTTTCTGAAGT
*
123257042 TGCAGGAAGCAGACCAAAGATTTCAGATCTTATCTCCATGTATCGGCTATGGAGAAGATAAAAAA
66 TGCAGGAAGCAGACCAAAGATTACAGATCTTATCTCCATGTATCGGCTATGGAGAAGATAAAAAA
*
123257107 TGGCGAGTCTTATCTCTATATATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGA
131 TGGCGAGTCTTATCTCTATATATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGA
* * * * *
123257172 AGTTACAGAGAGCAGGTTGAAGATATAGGTCTTATCTTTCTGAAGTTGTAGGAAGCAGACCGAAG
196 AGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACCGAAA
* * *
123257237 ATTTCAGATCTTATCTCCATGTATCGGTTATGAAGCAGATCAAAAATGGCGAATCTTATCTCCAT
261 ATTACAAATCTTATCTCCATGTATCGGCTATGAAGCAGATCAAAAATGGCGAATCTTATCTCCAT
*
123257302 GTATCGGCTATGAAGCAGATTTTAGCC
326 GTATCGACTATGAAGCAGATTTTAGCC
* * *
123257329 ACCAGCCTTATCTCTCTGAAGTTGTAGTAAAACAGGCTCAATATGCAAGTCTTATCTTTCTGAAG
1 ACCAGCCTTATCTCTCTGAAGTTGCAG-AAAACAGGCTCAAGATACAAGTCTTATCTTTCTGAAG
* * * * **
123257394 TTGTAGGAAGCGGACTGAAA-ATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAA
65 TTGCAGGAAGCAGAC-CAAAGATTACAGATCTTATCTCCATGTATCGGCTATGGAGAAGATAAAA
* * *
123257458 GATGGCGAGTCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCT
129 AATGGCGAGTCTTATCTCTATATATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCT
* *
123257523 GAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCGGACTGA
194 GAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACCGA
* * * * *
123257588 AAATTACAAATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGTGAGTCTTATCTCC
259 AAATTACAAATCTTATCTCCATGTATCGGCTATGAAGCAGATCAAAAATGGCGAATCTTATCTCC
*
123257653 ATGTATCGACTATGGAGCAGATTTTAGCC
324 ATGTATCGACTATGAAGCAGATTTTAGCC
123257682 ACCAGCCTTATCTCTCTGA
1 ACCAGCCTTATCTCTCTGA
123257701 GGTAGCAAGA
Statistics
Matches: 334, Mismatches: 36, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
352 26 0.08
353 305 0.91
354 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (352 bp):
ACCAGCCTTATCTCTCTGAAGTTGCAGAAAACAGGCTCAAGATACAAGTCTTATCTTTCTGAAGT
TGCAGGAAGCAGACCAAAGATTACAGATCTTATCTCCATGTATCGGCTATGGAGAAGATAAAAAA
TGGCGAGTCTTATCTCTATATATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGA
AGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACCGAAA
ATTACAAATCTTATCTCCATGTATCGGCTATGAAGCAGATCAAAAATGGCGAATCTTATCTCCAT
GTATCGACTATGAAGCAGATTTTAGCC
Found at i:123257762 original size:67 final size:67
Alignment explanation
Indices: 123257654--123257854 Score: 321
Period size: 67 Copynumber: 3.0 Consensus size: 67
123257644 CTTATCTCCA
123257654 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
1 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
123257719 TG
66 TG
* * *
123257721 TGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGATAGCAAGAGAGCAGGT
1 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
123257786 TG
66 TG
* * * * * *
123257788 TGTATCGAATATGAAGCAGATATTAGCCAACAGCCTTATCTCTCTAAGGTAACAAGAGAGCAGGT
1 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
123257853 TG
66 TG
123257855 AAGATATAGG
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 122 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (67 bp):
TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
TG
Found at i:123259524 original size:16 final size:15
Alignment explanation
Indices: 123259490--123259528 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
123259480 TGAATTGTTG
* *
123259490 TATATTATGTTTTTG
1 TATATTATATTTTTA
123259505 TATATATATATTTTTA
1 TATAT-TATATTTTTA
123259521 TATATTAT
1 TATATTAT
123259529 TTTATGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (15 bp):
TATATTATATTTTTA
Found at i:123259716 original size:26 final size:25
Alignment explanation
Indices: 123259672--123259737 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
123259662 GTATTTTATT
* *
123259672 TGTATAGTTTCTTTAAAATCTTTAA
1 TGTATATTTTCTTTAAAATCTGTAA
* *
123259697 TGTATATTTTCTTTCCAAATCTGTCA
1 TGTATATTTTCTTT-AAAATCTGTAA
123259723 TGTAAATATTTTCTT
1 TGT--ATATTTTCTT
123259738 CTAATTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.38
26 11 0.32
28 10 0.29
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (25 bp):
TGTATATTTTCTTTAAAATCTGTAA
Found at i:123259773 original size:27 final size:27
Alignment explanation
Indices: 123259728--123259780 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
123259718 TGTCATGTAA
* *
123259728 ATATTTTCTTCTAATTTATTTTTATAT
1 ATATTTTCTTCTAAATTATTTGTATAT
123259755 ATATTTTCTT-TAAAATTATTTGTATA
1 ATATTTTCTTCT-AAATTATTTGTATA
123259781 ATTTGGTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATTTTCTTCTAAATTATTTGTATAT
Found at i:123259865 original size:13 final size:13
Alignment explanation
Indices: 123259847--123259871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
123259837 TTTGTATATA
123259847 TATTATTTTCATT
1 TATTATTTTCATT
123259860 TATTATTTTCAT
1 TATTATTTTCAT
123259872 ATAAATACGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTATTTTCATT
Found at i:123263366 original size:20 final size:22
Alignment explanation
Indices: 123263308--123263366 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
123263298 ATTGGTGTAC
*
123263308 TCTCATAATTTTTTG-ATATTT
1 TCTCATAATTTTTTGTATATTG
** *
123263329 TCTCATAATAATTGGTATA-TG
1 TCTCATAATTTTTTGTATATTG
123263350 T-TCATAATTTTTTGTAT
1 TCTCATAATTTTTTGTAT
123263367 TCCCTTAGAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 13 0.43
21 14 0.47
22 3 0.10
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.56
Consensus pattern (22 bp):
TCTCATAATTTTTTGTATATTG
Found at i:123265511 original size:40 final size:40
Alignment explanation
Indices: 123265442--123265573 Score: 126
Period size: 40 Copynumber: 3.3 Consensus size: 40
123265432 CCCTCACAAA
*
123265442 TTTTGGTATCTT-TTC-TTGTTGTTTGGTATTCTTCCATAAT
1 TTTTGGTA-CTTCTTCATT-TTTTTTGGTATTCTTCCATAAT
* * *
123265482 TTTTGGTACTTCTTCATTTTTTTTTGTATTC-CCTCGTAAT
1 TTTTGGTACTTCTTCATTTTTTTTGGTATTCTTC-CATAAT
* * * * **
123265522 TTTTGGCACTTCCTCATATTTTATGGTATTCTTTTATAAT
1 TTTTGGTACTTCTTCATTTTTTTTGGTATTCTTCCATAAT
123265562 TTTTGGTACTTC
1 TTTTGGTACTTC
123265574 CTCTTATTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
39 4 0.05
40 68 0.92
41 2 0.03
ACGTcount: A:0.14, C:0.15, G:0.12, T:0.58
Consensus pattern (40 bp):
TTTTGGTACTTCTTCATTTTTTTTGGTATTCTTCCATAAT
Found at i:123266007 original size:76 final size:75
Alignment explanation
Indices: 123265903--123266049 Score: 222
Period size: 76 Copynumber: 1.9 Consensus size: 75
123265893 TCCTCGTATT
* * * *
123265903 TTTTGGTATCCCTCGTAATTTTTTGTACTTCCTCATCTTTTTTAGTATTTCCTCATGATTTTTGA
1 TTTTGGTATCCCTCATAATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCATAATTTTTGA
123265968 TACATCTAAG
66 TACATCTAAG
* * *
123265978 TTTTGGTACTCCCTCATAATTTTTTGTACTTCCTCGTATTTTTTTGTACTTCCTCATAATTTTTT
1 TTTTGGTA-TCCCTCATAATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCATAATTTTTG
123266043 ATACATC
65 ATACATC
123266050 ATCATAAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
75 8 0.12
76 56 0.88
ACGTcount: A:0.18, C:0.20, G:0.09, T:0.53
Consensus pattern (75 bp):
TTTTGGTATCCCTCATAATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCATAATTTTTGA
TACATCTAAG
Found at i:123266042 original size:40 final size:40
Alignment explanation
Indices: 123265476--123266074 Score: 232
Period size: 40 Copynumber: 15.1 Consensus size: 40
123265466 GGTATTCTTC
* * *
123265476 CATAATTTTTGGTACTTCTTCATTTTTTTTTGTA-TTCCCT
1 CATAATTTTTTGTACTTCCTCATATTTTTTTGTACTT-CCT
* * * * * *
123265516 CGTAATTTTTGGCACTTCCTCATATTTTATGGTA-TTCTTT
1 CATAATTTTTTGTACTTCCTCATATTTTTTTGTACTTC-CT
* * * ** *
123265556 TATAATTTTTGGTACTTCCTCTTATTTTTTAAT-TTTCCCT
1 CATAATTTTTTGTACTTCCTCATATTTTTTTGTACTT-CCT
* * * *
123265596 CATAA-TTTTTGATA-TTCTCTCATAGTTTTTTGAACATCTT
1 CATAATTTTTTG-TACTTC-CTCATATTTTTTTGTACTTCCT
** * * *
123265636 CATAATTTTTCATACATCATCATATTTTTTGGTACTTTCTCTT
1 CATAATTTTTTGTACTTCCTCATATTTTTTTGTAC-TTC-C-T
** *
123265679 C-TTTTTTTTCTGTA-TTCTCTCATAATTTTTTGTACTTCCT
1 CATAATTTTT-TGTACTTC-CTCATATTTTTTTGTACTTCCT
* ** * * * * *
123265719 CGT-ACGTTTTGATACATCCTTATAATTTTTAGTACATCCTT
1 CATAATTTTTTG-TACTTCCTCATATTTTTTTGTACTTCC-T
* * * * ** * **
123265760 CTTCATTTTTTATACTTTCTCCGATTTTATAATA-TTCTCT
1 CATAATTTTTTGTACTTCCTCATATTTTTTTGTACTTC-CT
* *
123265800 CATAATTTTCTGTACTT-ATCAT-TTTTTTTAGTA-TTCCCT
1 CATAATTTTTTGTACTTCCTCATATTTTTTT-GTACTT-CCT
* * ** * *
123265839 CGT-ATTTTTTGTA-TTATCTCATA-AGTTTTGTACATCTT
1 CATAATTTTTTGTACTT-CCTCATATTTTTTTGTACTTCCT
* * * * *
123265877 CATAATTTTTTGTGCATCCTCGTATTTTTTGGTA-TCCCT
1 CATAATTTTTTGTACTTCCTCATATTTTTTTGTACTTCCT
* * * *
123265916 CGTAATTTTTTGTACTTCCTCATCTTTTTTAGTATTTCCT
1 CATAATTTTTTGTACTTCCTCATATTTTTTTGTACTTCCT
* * * * *
123265956 CATGA-TTTTTGATACAT-CT-A-A-GTTTTGGTACTCCCT
1 CATAATTTTTTG-TACTTCCTCATATTTTTTTGTACTTCCT
*
123265992 CATAATTTTTTGTACTTCCTCGTATTTTTTTGTACTTCCT
1 CATAATTTTTTGTACTTCCTCATATTTTTTTGTACTTCCT
* * * ** * *
123266032 CATAATTTTTTATACATCATCATAAATTTTGGTACTTTCT
1 CATAATTTTTTGTACTTCCTCATATTTTTTTGTACTTCCT
123266072 CAT
1 CAT
123266075 TACTCTTGGT
Statistics
Matches: 405, Mismatches: 119, Indels: 70
0.68 0.20 0.12
Matches are distributed among these distances:
36 19 0.05
37 10 0.02
38 22 0.05
39 83 0.20
40 205 0.51
41 32 0.08
42 16 0.04
43 18 0.04
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (40 bp):
CATAATTTTTTGTACTTCCTCATATTTTTTTGTACTTCCT
Found at i:123266054 original size:20 final size:20
Alignment explanation
Indices: 123265476--123266074 Score: 206
Period size: 20 Copynumber: 30.1 Consensus size: 20
123265466 GGTATTCTTC
* *
123265476 CATAATTTTTGGTACTTCTT
1 CATAATTTTTTGTACTTCCT
**
123265496 CATTTTTTTTTGTA-TTCCCT
1 CATAATTTTTTGTACTT-CCT
* * *
123265516 CGTAATTTTTGGCACTTCCT
1 CATAATTTTTTGTACTTCCT
* *
123265536 CAT-ATTTTATGGTA-TTCTTT
1 CATAATTTT-TTGTACTTC-CT
* *
123265556 TATAATTTTTGGTACTTCCT
1 CATAATTTTTTGTACTTCCT
* * *
123265576 C-TTATTTTTT-AATTTTCCCT
1 CATAATTTTTTGTA-CTT-CCT
123265596 CATAA-TTTTTGATA-TTCTCT
1 CATAATTTTTTG-TACTTC-CT
* * * *
123265616 CATAGTTTTTTGAACATCTT
1 CATAATTTTTTGTACTTCCT
** * *
123265636 CATAATTTTTCATACATCAT
1 CATAATTTTTTGTACTTCCT
123265656 CAT-ATTTTTTGGTACTTTCTCTT
1 CATAATTTTTT-GTAC-TTC-C-T
**
123265679 C-TTTTTTTTCTGTA-TTCTCT
1 CATAATTTTT-TGTACTTC-CT
123265699 CATAATTTTTTGTACTTCCT
1 CATAATTTTTTGTACTTCCT
* ** *
123265719 CGT-ACGTTTTGATACATCCT
1 CATAATTTTTTG-TACTTCCT
* * *
123265739 TATAATTTTTAGTACATCCTT
1 CATAATTTTTTGTACTTCC-T
* * * *
123265760 CTTCATTTTTTATACTTTCT
1 CATAATTTTTTGTACTTCCT
** **
123265780 C-CGATTTTATAATA-TTCTCT
1 CATAATTTT-TTGTACTTC-CT
* *
123265800 CATAATTTTCTGTACTT-AT
1 CATAATTTTTTGTACTTCCT
*
123265819 CAT-TTTTTTTAGTA-TTCCCT
1 CATAATTTTTT-GTACTT-CCT
* *
123265839 CGT-ATTTTTTGTA-TTATCT
1 CATAATTTTTTGTACTT-CCT
* * *
123265858 CATAA-GTTTTGTACATCTT
1 CATAATTTTTTGTACTTCCT
* *
123265877 CATAATTTTTTGTGCATCCT
1 CATAATTTTTTGTACTTCCT
* *
123265897 CGT-ATTTTTTGGTA-TCCCT
1 CATAATTTTTT-GTACTTCCT
*
123265916 CGTAATTTTTTGTACTTCCT
1 CATAATTTTTTGTACTTCCT
* *
123265936 CAT-CTTTTTTAGTATTTCCT
1 CATAATTTTTT-GTACTTCCT
* * *
123265956 CATGA-TTTTTG-A-TACAT
1 CATAATTTTTTGTACTTCCT
* * *
123265973 C-TAAGTTTTGGTACTCCCT
1 CATAATTTTTTGTACTTCCT
123265992 CATAATTTTTTGTACTTCCT
1 CATAATTTTTTGTACTTCCT
* *
123266012 CGTATTTTTTTGTACTTCCT
1 CATAATTTTTTGTACTTCCT
* * *
123266032 CATAATTTTTTATACATCAT
1 CATAATTTTTTGTACTTCCT
* * *
123266052 CATAAATTTTGGTACTTTCT
1 CATAATTTTTTGTACTTCCT
123266072 CAT
1 CAT
123266075 TACTCTTGGT
Statistics
Matches: 426, Mismatches: 109, Indels: 88
0.68 0.17 0.14
Matches are distributed among these distances:
16 2 0.00
17 9 0.02
18 10 0.02
19 95 0.22
20 236 0.55
21 61 0.14
22 2 0.00
23 10 0.02
24 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (20 bp):
CATAATTTTTTGTACTTCCT
Found at i:123266261 original size:20 final size:20
Alignment explanation
Indices: 123266232--123266276 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
123266222 AAAGTTATGA
123266232 TTTTTGGTATTCCCTCAAAT
1 TTTTTGGTATTCCCTCAAAT
* * *
123266252 TTTTTTGTATTTCCTCATAT
1 TTTTTGGTATTCCCTCAAAT
123266272 TTTTT
1 TTTTT
123266277 AATATACTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.16, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTTTGGTATTCCCTCAAAT
Found at i:123279474 original size:11 final size:11
Alignment explanation
Indices: 123279460--123279499 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
123279450 TGTTTTCTCC
123279460 CTATTTTGCTA
1 CTATTTTGCTA
*
123279471 CTATTTTACTA
1 CTATTTTGCTA
* *
123279482 TTATGTTGCTA
1 CTATTTTGCTA
123279493 CTATTTT
1 CTATTTT
123279500 ATTGTTATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:123279574 original size:30 final size:30
Alignment explanation
Indices: 123279538--123279600 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
123279528 ACTTATTTTA
123279538 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
123279568 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
123279598 TTG
1 TTG
123279601 CTTGTTAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:123283227 original size:37 final size:37
Alignment explanation
Indices: 123283168--123283245 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
123283158 TGTCATAGCG
* * * *
123283168 TGTTATCGGTTGGATTAGCTCTTATGAGCGTTTGGCA
1 TGTTATCGGGTGGAGTACCTCTTATGAGCGATTGGCA
* *
123283205 TGTTATCGGGTGGAGTACCTCTTGTGAGCGATTGGCG
1 TGTTATCGGGTGGAGTACCTCTTATGAGCGATTGGCA
123283242 TGTT
1 TGTT
123283246 TCAGTTGGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.14, C:0.14, G:0.33, T:0.38
Consensus pattern (37 bp):
TGTTATCGGGTGGAGTACCTCTTATGAGCGATTGGCA
Found at i:123284249 original size:12 final size:12
Alignment explanation
Indices: 123284232--123284264 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
123284222 TCAATGTGTT
123284232 ACACGGCCTAGC
1 ACACGGCCTAGC
123284244 ACACGGCCTAGC
1 ACACGGCCTAGC
*
123284256 ACATGGCCT
1 ACACGGCCT
123284265 GTGACAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.12
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:123288848 original size:104 final size:103
Alignment explanation
Indices: 123288655--123288848 Score: 216
Period size: 104 Copynumber: 1.9 Consensus size: 103
123288645 TAAATTAAGT
* *
123288655 TATATTTTTATGAAAGTGTTTTTATCTTTTATATAATAAGTCAATAAAAAATTTATCAAGAAGAT
1 TATATTTTTATGAAAGTGTTTTTATCTTTTATATAATAACTCAATAAAAAATTAATCAAGAAGAT
* * ** *
123288720 ATTTGTAATTGAAATTATTAAAATATATTCCGTTAAAC
66 ACTTGAAATTGAAAAAATGAAAATATATTCCGTTAAAC
* * * *
123288758 TATATTTTTATG-AAGATGTTTTTATATTTTTATATAATAACTCAATACAAAATTAATTATA-AT
1 TATATTTTTATGAAAG-TGTTTTTAT-CTTTTATATAATAACTCAATAAAAAATTAATCA-AGAA
123288821 GATACTT-AAATCT-AAAAAATGATAAATA
63 GATACTTGAAAT-TGAAAAAATGA-AAATA
123288849 ATTAATTTTA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
102 3 0.04
103 30 0.40
104 41 0.55
105 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (103 bp):
TATATTTTTATGAAAGTGTTTTTATCTTTTATATAATAACTCAATAAAAAATTAATCAAGAAGAT
ACTTGAAATTGAAAAAATGAAAATATATTCCGTTAAAC
Found at i:123291292 original size:16 final size:16
Alignment explanation
Indices: 123291271--123291303 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
123291261 CTTTTGGGAA
123291271 ACATCCGATTCCAAAG
1 ACATCCGATTCCAAAG
123291287 ACATCCGATTCCAAAG
1 ACATCCGATTCCAAAG
123291303 A
1 A
123291304 AGAGAGATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.18
Consensus pattern (16 bp):
ACATCCGATTCCAAAG
Found at i:123298304 original size:3 final size:3
Alignment explanation
Indices: 123298296--123298457 Score: 149
Period size: 3 Copynumber: 54.3 Consensus size: 3
123298286 ATAAATAAAT
* * * *
123298296 ATA ATA ATA ATA ATA ATA GTA CTA ATA GTA ATA ATA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
123298344 ATA ATA TATA A-A A-A ATA A-A A-A ATTA ATG ATA TTG ATA CATAA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -AT-A ATA
*
123298389 GA-A ATA GA-A AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA
1 -ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
123298433 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
123298458 AAGTTTTAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
2 12 0.09
3 109 0.82
4 11 0.08
5 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:123298655 original size:15 final size:15
Alignment explanation
Indices: 123298595--123298640 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
123298585 ATATAAATAG
123298595 AAATAGAAATATAAT
1 AAATAGAAATATAAT
123298610 AAATAGAAATATAAT
1 AAATAGAAATATAAT
123298625 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
123298641 ATAGATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:123298660 original size:17 final size:16
Alignment explanation
Indices: 123298573--123298660 Score: 55
Period size: 15 Copynumber: 5.6 Consensus size: 16
123298563 TAATAATGAA
* *
123298573 AATAATATTAGTATAT
1 AATAATAATAGTAAAT
123298589 AAATAGA-AATAG-AAAT
1 -AATA-ATAATAGTAAAT
123298605 -ATAATAAATAG-AAAT
1 AATAAT-AATAGTAAAT
*
123298620 -ATAATAATAGTAGA-
1 AATAATAATAGTAAAT
123298634 AAT-ATAAATAGATAAAT
1 AATAAT-AATAG-TAAAT
123298651 AATAATAATA
1 AATAATAATA
123298661 TTGGAATAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
13 1 0.02
14 10 0.17
15 23 0.40
16 6 0.10
17 15 0.26
18 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (16 bp):
AATAATAATAGTAAAT
Found at i:123302057 original size:47 final size:47
Alignment explanation
Indices: 123301948--123302058 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
123301938 CCGGGATAAG
*
123301948 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
123301995 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
123302042 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
123302059 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:123305379 original size:14 final size:12
Alignment explanation
Indices: 123305349--123305374 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
123305339 CTGACCCGCC
123305349 TATATTATTTTT
1 TATATTATTTTT
123305361 TATATTATTTTT
1 TATATTATTTTT
123305373 TA
1 TA
123305375 AATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATATTATTTTT
Found at i:123307994 original size:15 final size:15
Alignment explanation
Indices: 123307974--123308006 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
123307964 AAAATTTCGC
*
123307974 TATTAATTTATAAAA
1 TATTAATTAATAAAA
123307989 TATTAATTAATAAAA
1 TATTAATTAATAAAA
123308004 TAT
1 TAT
123308007 CTTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTAATTAATAAAA
Found at i:123309562 original size:21 final size:21
Alignment explanation
Indices: 123309536--123309575 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
123309526 AGCAGCAGCA
*
123309536 TCGCCTCCAACGCCGCCTCAG
1 TCGCCTCCAACGCAGCCTCAG
*
123309557 TCGCCTCCACCGCAGCCTC
1 TCGCCTCCAACGCAGCCTC
123309576 CTAAGGCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.55, G:0.17, T:0.15
Consensus pattern (21 bp):
TCGCCTCCAACGCAGCCTCAG
Found at i:123313193 original size:25 final size:26
Alignment explanation
Indices: 123313164--123313220 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
123313154 TATAAAATTG
* *
123313164 AAATATAAA-AAATAATTTACA-CTAT
1 AAATATAAATAAA-AATTTAAATATAT
123313189 AAATA-AAATAAAAATTTAAATATAT
1 AAATATAAATAAAAATTTAAATATAT
123313214 AAATATA
1 AAATATA
123313221 TGAAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.37
25 16 0.59
26 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (26 bp):
AAATATAAATAAAAATTTAAATATAT
Found at i:123313212 original size:23 final size:23
Alignment explanation
Indices: 123313168--123313218 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
123313158 AAATTGAAAT
* *
123313168 ATAAAAAATAATTTACACTATAA
1 ATAAAAAAAAATTTACAATATAA
*
123313191 ATAAAATAAAAATTTAAATATATAA
1 ATAAAA-AAAAATTTACA-ATATAA
123313216 ATA
1 ATA
123313219 TATGAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 9 0.39
25 8 0.35
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
ATAAAAAAAAATTTACAATATAA
Found at i:123326690 original size:43 final size:43
Alignment explanation
Indices: 123326629--123327099 Score: 237
Period size: 43 Copynumber: 10.7 Consensus size: 43
123326619 TATCATCAGC
* ** *
123326629 CTTATATTCACTGAGCAGGAGTGAAGCAGGCTAAAAACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAATTATCAGAT
* * * *
123326672 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAATTTTGATGAAT
1 CTTATCTTCACTGAGCAGGAGTGAAGCAG-GCTAATTATCA-G-AT
* * * * * * *
123326718 CTTATCTCCAC-GTACCAGTGA-TGGAGCAGATTCCAATCATCAG-C
1 CTTATCTTCACTG-AGCAG-GAGTGAAGCAG--GCTAATTATCAGAT
* *
123326762 CTTATCTTCACTGAGCAGGAGTGGAA-CAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGT-GAAGCAGGCTAATTATCAGAT
* * * *
123326805 CTTATCTTTACTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAAT
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGG-CTAATTATCA-G-AT
* * * * * * * *
123326851 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCCAATCATCAG-C
1 CTTATCTTCACTG-AGCAGGAG-TGAAGCAG--GCTAATTATCAGAT
* * *
123326895 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAATTATCAGAT
* * *
123326938 CTTATCTTCACTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAAT
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGG-CTAATTATCA-G-AT
* * * * * * * *
123326984 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCCAATCATC--AC
1 CTTATCTTCACTG-AGCAGGAG-TGAAGCAG--GCTAATTATCAGAT
* *
123327027 CTTATCTTCACTGAGCAGGAGTGGAA-CAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGT-GAAGCAGGCTAATTATCAGAT
*
123327070 TTTATCTTCACTGAGCAGGAGTGAAGCAGG
1 CTTATCTTCACTGAGCAGGAGTGAAGCAGG
123327100 TCGAATTTTG
Statistics
Matches: 315, Mismatches: 79, Indels: 68
0.68 0.17 0.15
Matches are distributed among these distances:
41 5 0.02
42 20 0.06
43 126 0.40
44 58 0.18
45 22 0.07
46 64 0.20
47 20 0.06
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAATTATCAGAT
Found at i:123326802 original size:133 final size:133
Alignment explanation
Indices: 123326620--123327194 Score: 1021
Period size: 133 Copynumber: 4.3 Consensus size: 133
123326610 GATTACAGAT
* *
123326620 ATCATCAGCCTTATATTCACTGAGCAGGAGT-GAAGCAGGCTAAAAACCAGATCTTATCTTCACT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAA-CAGGCTAAATACCAGATCTTATCTTCACT
* * *
123326684 GAGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCAGTGATGGAGCAGAT
65 GAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGAT
123326749 TCCA
130 TCCA
*
123326753 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTTACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCACTG
123326818 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
123326883 CCA
131 CCA
*
123326886 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCACTG
123326951 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
123327016 CCA
131 CCA
*
123327019 ATCATCA-CCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATTTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCACTG
123327083 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
123327148 CCA
131 CCA
* *
123327151 ATCATCAGCCTTATCTTCACTAAGCAGTAG-GGTAACAGGCTAAA
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGG-AACAGGCTAAA
123327195 GTCTACAGAT
Statistics
Matches: 427, Mismatches: 12, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
132 132 0.31
133 292 0.68
134 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (133 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCACTG
AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
CCA
Found at i:123327160 original size:265 final size:266
Alignment explanation
Indices: 123326620--123327194 Score: 1028
Period size: 265 Copynumber: 2.2 Consensus size: 266
123326610 GATTACAGAT
* *
123326620 ATCATCAGCCTTATATTCACTGAGCAGGAGTGAAGCAGGCTAAAAACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAAACCAGATCTTATCTTCACTG
*
123326685 AGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCAGTGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCAGCGATGGAGCAGATT
*
123326750 CCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTTA
131 CCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCA
123326815 CTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAG
196 CTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAG
123326880 ATTCCA
261 ATTCCA
*
123326886 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAAACCAGATCTTATCTTCACTG
* *
123326951 AGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCAGCGATGGAGCAGATT
*
123327016 CCAATCATCA-CCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATTTTATCTTCA
131 CCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCA
123327080 CTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAG
196 CTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAG
123327145 ATTCCA
261 ATTCCA
* * *
123327151 ATCATCAGCCTTATCTTCACTAAGCAGTAG-GGTAACAGGCTAAA
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGG-AGCAGGCTAAA
123327195 GTCTACAGAT
Statistics
Matches: 297, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
264 2 0.01
265 161 0.54
266 134 0.45
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (266 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAAACCAGATCTTATCTTCACTG
AGCAGGAGTGAAGCAGATCGAATTTTGATGAATCTTATCTCCACGTACCAGCGATGGAGCAGATT
CCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATACCAGATCTTATCTTCA
CTGAGCAGGAGTGAAGCAGGTCGAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAG
ATTCCA
Found at i:123331907 original size:17 final size:17
Alignment explanation
Indices: 123331885--123331924 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
123331875 TATATATATA
*
123331885 TATATTTCAAATTATTT
1 TATATTTCAAATTATTG
* *
123331902 TATATTTTAAGTTATTG
1 TATATTTCAAATTATTG
123331919 TATATT
1 TATATT
123331925 ATATATTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (17 bp):
TATATTTCAAATTATTG
Found at i:123332054 original size:27 final size:28
Alignment explanation
Indices: 123332024--123332080 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
123332014 ATCATATATT
* *
123332024 TTAAACTTCT-TATTAATTATTTTTAAA
1 TTAAACTTATATATTAATTATTTTAAAA
* *
123332051 TT-AATTTATATATTATTTATTTTAAAA
1 TTAAACTTATATATTAATTATTTTAAAA
123332078 TTA
1 TTA
123332081 TTCATATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (28 bp):
TTAAACTTATATATTAATTATTTTAAAA
Found at i:123332087 original size:26 final size:27
Alignment explanation
Indices: 123332034--123332089 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
123332024 TTAAACTTCT
* *
123332034 TATTAATTATTTTTAAATTAATTTATA
1 TATTAATTATTTTAAAATTAATTCATA
*
123332061 TATTATTTATTTTAAAATT-ATTCATA
1 TATTAATTATTTTAAAATTAATTCATA
123332087 TAT
1 TAT
123332090 GTCATTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTAATTATTTTAAAATTAATTCATA
Found at i:123332170 original size:27 final size:26
Alignment explanation
Indices: 123332097--123332190 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
123332087 TATGTCATTC
* * * **
123332097 TTTAATTTGCTTTGTGTATTATAAAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
123332123 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
123332149 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
123332176 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
123332191 TGTTTACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:123334514 original size:50 final size:50
Alignment explanation
Indices: 123334434--123334760 Score: 528
Period size: 50 Copynumber: 6.5 Consensus size: 50
123334424 CCATGGCAAC
* *
123334434 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
123334484 AAGTAATAAGTGACAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
123334534 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAACTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
123334584 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
123334634 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
123334684 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
123334735 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
123334761 CTGATTAATG
Statistics
Matches: 257, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
50 234 0.91
51 23 0.09
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:123334806 original size:46 final size:46
Alignment explanation
Indices: 123334753--123334844 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
123334743 AGTGGTAGCT
* * *
123334753 TCGGCTACCTGATTAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATTAATGAAAAATGGTAGCTCCGGCTACCTAATCA
* *
123334799 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTAATCA
1 TCGGCTACCTGATTAATGAAAAATGGTAGCTCCGGCTACCTAATCA
123334845 GTGAATAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (46 bp):
TCGGCTACCTGATTAATGAAAAATGGTAGCTCCGGCTACCTAATCA
Found at i:123340123 original size:26 final size:26
Alignment explanation
Indices: 123340087--123340137 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
123340077 TTAAATATTT
123340087 AACATAAATAGCTTTTTT-TTTGAAAG
1 AACATAAATAG-TTTTTTATTTGAAAG
123340113 AACATAAATAGTTTTTTATTTGAAA
1 AACATAAATAGTTTTTTATTTGAAA
123340138 TGAATTAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (26 bp):
AACATAAATAGTTTTTTATTTGAAAG
Found at i:123349067 original size:19 final size:19
Alignment explanation
Indices: 123349039--123349087 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
123349029 GTTTGGGGGA
123349039 AAAGAAAAGGAAAGAAAAG
1 AAAGAAAAGGAAAGAAAAG
* * *
123349058 AAAGAGAAGGAAGGAAAAA
1 AAAGAAAAGGAAAGAAAAG
*
123349077 AAAAAAAAGGA
1 AAAGAAAAGGA
123349088 GGACACAGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGGAAAGAAAAG
Found at i:123367952 original size:23 final size:23
Alignment explanation
Indices: 123367922--123367967 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
123367912 ACATCAACCA
123367922 CAAATATGGATGAATGTACCCAT
1 CAAATATGGATGAATGTACCCAT
*
123367945 CAAATATGGATGAATGTATCCAT
1 CAAATATGGATGAATGTACCCAT
123367968 GTTCTTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (23 bp):
CAAATATGGATGAATGTACCCAT
Found at i:123368024 original size:23 final size:25
Alignment explanation
Indices: 123367980--123368035 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 25
123367970 TCTTTGAACT
123367980 TTCT-TTTTTTTTTCTTTACTTTCTA
1 TTCTCTTTTTTTTTC-TTACTTTCTA
123368005 TTCTCTTTTTTTTTC-T-CTTTCTA
1 TTCTCTTTTTTTTTCTTACTTTCTA
*
123368028 TTTTCTTT
1 TTCTCTTT
123368036 CCTTCTCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 14 0.48
24 1 0.03
25 4 0.14
26 10 0.34
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (25 bp):
TTCTCTTTTTTTTTCTTACTTTCTA
Found at i:123369449 original size:20 final size:20
Alignment explanation
Indices: 123369426--123369492 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
123369416 ACAATATATC
123369426 AATATTTGTAAGGATTTACT
1 AATATTTGTAAGGATTTACT
* * **
123369446 AATATATCTAATAATATATA-T
1 AATATTTGTAAGGAT-T-TACT
123369467 CAATATTTGTAAGGATTTACT
1 -AATATTTGTAAGGATTTACT
123369488 AATAT
1 AATAT
123369493 ATCTAATAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 18 0.51
21 4 0.11
22 13 0.37
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (20 bp):
AATATTTGTAAGGATTTACT
Found at i:123369478 original size:42 final size:42
Alignment explanation
Indices: 123369394--123369502 Score: 168
Period size: 42 Copynumber: 2.6 Consensus size: 42
123369384 CCAAAACATT
* * * *
123369394 TAAGAATTTACCAATATTTCTAA-CA-ATATATCAATATTTG
1 TAAGGATTTACTAATATATCTAATAATATATATCAATATTTG
123369434 TAAGGATTTACTAATATATCTAATAATATATATCAATATTTG
1 TAAGGATTTACTAATATATCTAATAATATATATCAATATTTG
123369476 TAAGGATTTACTAATATATCTAATAAT
1 TAAGGATTTACTAATATATCTAATAAT
123369503 TTACCAAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 20 0.32
41 1 0.02
42 42 0.67
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.41
Consensus pattern (42 bp):
TAAGGATTTACTAATATATCTAATAATATATATCAATATTTG
Found at i:123369504 original size:20 final size:20
Alignment explanation
Indices: 123369439--123369506 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
123369429 ATTTGTAAGG
123369439 ATTTACTAATATATCTAATA
1 ATTTACTAATATATCTAATA
* * **
123369459 ATATATA-TCAATATTTGTAAGG
1 AT-T-TACT-AATATATCTAATA
123369481 ATTTACTAATATATCTAATA
1 ATTTACTAATATATCTAATA
123369501 ATTTAC
1 ATTTAC
123369507 CAAAAAATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
20 19 0.53
21 4 0.11
22 13 0.36
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (20 bp):
ATTTACTAATATATCTAATA
Found at i:123369646 original size:20 final size:21
Alignment explanation
Indices: 123369597--123369716 Score: 70
Period size: 20 Copynumber: 5.9 Consensus size: 21
123369587 TAAAGATTTG
* *
123369597 CCAATATATTTAATATTTTTA
1 CCAAAATATCTAATATTTTTA
*
123369618 TCAAAATATCTAATA-TTTTA
1 CCAAAATATCTAATATTTTTA
* *
123369638 CCAACATATCT-AT-TTATTTG
1 CCAAAATATCTAATATT-TTTA
* * * * **
123369658 TCAATAT-TTTTATAAATTTA
1 CCAAAATATCTAATATTTTTA
123369678 CCAAAATATCTAATA-TTTTA
1 CCAAAATATCTAATATTTTTA
* * *
123369698 ACAAAATAACTAAAATTTT
1 CCAAAATATCTAATATTTT
123369717 GAATTTATCA
Statistics
Matches: 73, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
19 5 0.07
20 48 0.66
21 20 0.27
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.45
Consensus pattern (21 bp):
CCAAAATATCTAATATTTTTA
Found at i:123382335 original size:47 final size:47
Alignment explanation
Indices: 123382266--123382361 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
123382256 CCAAATTCAG
123382266 TTAGCTTGGCATTAAAGTTCATTAAATAAACTGAAACTCAGGCATCT
1 TTAGCTTGGCATTAAAGTTCATTAAATAAACTGAAACTCAGGCATCT
*
123382313 TTAGCTTGGCATTAAAGTTCATTAAATGAACTGAAACTCAGGCATCT
1 TTAGCTTGGCATTAAAGTTCATTAAATAAACTGAAACTCAGGCATCT
123382360 TT
1 TT
123382362 TCTTGTTAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (47 bp):
TTAGCTTGGCATTAAAGTTCATTAAATAAACTGAAACTCAGGCATCT
Found at i:123403988 original size:20 final size:21
Alignment explanation
Indices: 123403965--123404009 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
123403955 AAATTACATC
*
123403965 AAAACTAT-AAAAAAGATTGT
1 AAAACTATCAAAAAAGATTAT
*
123403985 AAAACTATCTAAAAAGATTAT
1 AAAACTATCAAAAAAGATTAT
123404006 AAAA
1 AAAA
123404010 TTAATAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAACTATCAAAAAAGATTAT
Found at i:123404595 original size:20 final size:19
Alignment explanation
Indices: 123404560--123404633 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
123404550 ATATTTCTTG
*
123404560 TAATTTTTATTA--TTTTA
1 TAATTTTTATAACTTTTTA
123404577 TAATTATTTATAACTTTTTA
1 TAATT-TTTATAACTTTTTA
* *
123404597 AAATTTTCAT-ACTTTTTA
1 TAATTTTTATAACTTTTTA
123404615 TGGAATTTTTATAA-TTTTT
1 T--AATTTTTATAACTTTTT
123404634 CATATTTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
17 5 0.11
18 14 0.30
19 4 0.09
20 22 0.48
21 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (19 bp):
TAATTTTTATAACTTTTTA
Found at i:123404640 original size:9 final size:9
Alignment explanation
Indices: 123404546--123404633 Score: 72
Period size: 9 Copynumber: 9.4 Consensus size: 9
123404536 TTTTAATGTA
123404546 TTTTAT-AT
1 TTTTATAAT
*
123404554 TTCTTGTAAT
1 TT-TTATAAT
*
123404564 TTTTATTA-
1 TTTTATAAT
123404572 TTTTATAAT
1 TTTTATAAT
123404581 TATTTATAACT
1 T-TTTATAA-T
*
123404592 TTTTAAAAT
1 TTTTATAAT
* *
123404601 TTTCATACT
1 TTTTATAAT
123404610 TTTTATGGAAT
1 TTTTAT--AAT
123404621 TTTTATAAT
1 TTTTATAAT
123404630 TTTT
1 TTTT
123404634 CATATTTAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
8 9 0.14
9 27 0.43
10 17 0.27
11 10 0.16
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:123407678 original size:22 final size:22
Alignment explanation
Indices: 123407626--123407689 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
123407616 ATTTGAATTT
* *
123407626 TTAAATTTGAAAAATAAAAGTA
1 TTAAATTTCAAAAATAAAAATA
** * *
123407648 CCAACTTTCTAAAATAAAAATA
1 TTAAATTTCAAAAATAAAAATA
123407670 TTAAATTTCAAAAATAAAAA
1 TTAAATTTCAAAAATAAAAA
123407690 GAATACTTAA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (22 bp):
TTAAATTTCAAAAATAAAAATA
Found at i:123408256 original size:16 final size:16
Alignment explanation
Indices: 123408247--123408280 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
123408237 TTTCTATTTT
123408247 TTTGTTTTTCTTGTTA
1 TTTGTTTTTCTTGTTA
*
123408263 TTTGTTTTCCTT-TTA
1 TTTGTTTTTCTTGTTA
123408278 TTT
1 TTT
123408281 TCTATTTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.06, C:0.09, G:0.09, T:0.76
Consensus pattern (16 bp):
TTTGTTTTTCTTGTTA
Found at i:123409962 original size:26 final size:26
Alignment explanation
Indices: 123409926--123409977 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
123409916 TGTCTATTTT
123409926 TTGGATGCCATATTTTTTGAATTATG
1 TTGGATGCCATATTTTTTGAATTATG
123409952 TTGGATGCCATATTTTTTGAATTATG
1 TTGGATGCCATATTTTTTGAATTATG
123409978 AAATAGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (26 bp):
TTGGATGCCATATTTTTTGAATTATG
Found at i:123410684 original size:30 final size:24
Alignment explanation
Indices: 123410618--123410673 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
123410608 TGAGGAATGC
*
123410618 TAAAATTTACAATCATGTGCTAGG
1 TAAACTTTACAATCATGTGCTAGG
123410642 TAAACTTTACAATCATGTGCTAGG
1 TAAACTTTACAATCATGTGCTAGG
123410666 TAAACTTT
1 TAAACTTT
123410674 GCTTTTACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (24 bp):
TAAACTTTACAATCATGTGCTAGG
Found at i:123411785 original size:118 final size:118
Alignment explanation
Indices: 123411568--123411813 Score: 422
Period size: 118 Copynumber: 2.1 Consensus size: 118
123411558 AGAAAAAGAA
*
123411568 AAAAAGATCAATGTCTGCTTTGGGCAATTAATGCATCAATTAGTTTGAGTTGGAAGCTCTGCTTA
1 AAAAA-ATCAATGTCTGCTTTGGGCAATTAATGCATCAATTAGTTTGAGTTCGAAGCTCTGCTTA
123411633 TAGGCATAAAGACAAGCATGGCTAGTTACATAAGTATAATTGCTCCCTCCCCAC
65 TAGGCATAAAGACAAGCATGGCTAGTTACATAAGTATAATTGCTCCCTCCCCAC
* *
123411687 AAAAAATCAATGTCTGCTTTGGGCAATTAATGCATCAATTAGTTTGAGTTCTAGGCTCTGCTTAT
1 AAAAAATCAATGTCTGCTTTGGGCAATTAATGCATCAATTAGTTTGAGTTCGAAGCTCTGCTTAT
* * *
123411752 AGGCATAAAGACAAGCATGGCTAGTTACGTAAGTATGATTGCTCCCTCTCCAC
66 AGGCATAAAGACAAGCATGGCTAGTTACATAAGTATAATTGCTCCCTCCCCAC
123411805 -AAAAATCAA
1 AAAAAATCAA
123411814 GAAGAATATT
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
117 9 0.07
118 107 0.88
119 5 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (118 bp):
AAAAAATCAATGTCTGCTTTGGGCAATTAATGCATCAATTAGTTTGAGTTCGAAGCTCTGCTTAT
AGGCATAAAGACAAGCATGGCTAGTTACATAAGTATAATTGCTCCCTCCCCAC
Found at i:123430345 original size:14 final size:13
Alignment explanation
Indices: 123430321--123430366 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
123430311 AGAAAGTGAG
123430321 AGAAGAAAAAAAAA
1 AGAA-AAAAAAAAA
*
123430335 GGAAAAAAAAAAA
1 AGAAAAAAAAAAA
* *
123430348 AGAAAAAAGAAGA
1 AGAAAAAAAAAAA
123430361 AGAAAA
1 AGAAAA
123430367 CTGGAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 25 0.89
14 3 0.11
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAA
Found at i:123431594 original size:15 final size:15
Alignment explanation
Indices: 123431533--123431600 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
123431523 TAATTTTTTT
* *
123431533 AATTTAACTCAAAAA
1 AATTTAATTCGAAAA
*
123431548 AATTT-ATTCGAATTA
1 AATTTAATTCGAA-AA
* *
123431563 AATTTCATTTC-ACAA
1 AATTT-AATTCGAAAA
123431578 AATTTAATTCGAAAA
1 AATTTAATTCGAAAA
*
123431593 AATATAAT
1 AATTTAAT
123431601 ATTAATTGAC
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
14 9 0.22
15 27 0.68
16 1 0.03
17 3 0.08
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (15 bp):
AATTTAATTCGAAAA
Found at i:123436282 original size:44 final size:44
Alignment explanation
Indices: 123436234--123436317 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
123436224 AGAGAAATGA
123436234 AAAAT-ATTTAAAAATGATTATGGTTTTCTCCAAAAT-GAAAAAAT
1 AAAATCATTTAAAAATGA-TATGGTTTTC-CCAAAATAGAAAAAAT
* *
123436278 AAAATCATTTGAAAATGATGTGGTTTTCCCAAAATAGAAA
1 AAAATCATTTAAAAATGATATGGTTTTCCCAAAATAGAAA
123436318 TAAAAATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
43 7 0.19
44 18 0.50
45 11 0.31
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (44 bp):
AAAATCATTTAAAAATGATATGGTTTTCCCAAAATAGAAAAAAT
Found at i:123456439 original size:26 final size:25
Alignment explanation
Indices: 123456389--123456446 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
123456379 CTTATTTCAT
*
123456389 TAAATAAAAAAATTTAAAAATATAA
1 TAAATAAAAAAATTTAAAAACATAA
*
123456414 TAAATAAAATATATTTAAAAACATAA
1 TAAATAAAA-AAATTTAAAAACATAA
123456440 -AAATAAA
1 TAAATAAA
123456447 TATTAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 16 0.53
26 14 0.47
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.28
Consensus pattern (25 bp):
TAAATAAAAAAATTTAAAAACATAA
Found at i:123456461 original size:22 final size:22
Alignment explanation
Indices: 123456415--123456478 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 22
123456405 AAAATATAAT
*
123456415 AAAT-AAAATATAT-TTAAAA-
1 AAATAAAAATAAATATTAAAAC
*
123456434 ACATAAAAATAAATATTAAAAC
1 AAATAAAAATAAATATTAAAAC
*
123456456 AAATAAAAAT-AATACTAAAAC
1 AAATAAAAATAAATATTAAAAC
123456477 AA
1 AA
123456479 TTCTTAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.08
20 8 0.21
21 18 0.47
22 9 0.24
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (22 bp):
AAATAAAAATAAATATTAAAAC
Found at i:123456555 original size:15 final size:16
Alignment explanation
Indices: 123456525--123456557 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
123456515 AAATAGTTAT
123456525 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
123456542 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
123456557 A
1 A
123456558 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:123462879 original size:17 final size:17
Alignment explanation
Indices: 123462857--123462891 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
123462847 TGAACAAATT
123462857 TGGGTACTAATTTTATA
1 TGGGTACTAATTTTATA
123462874 TGGGTACTAATTTTATA
1 TGGGTACTAATTTTATA
123462891 T
1 T
123462892 TTAACTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.49
Consensus pattern (17 bp):
TGGGTACTAATTTTATA
Found at i:123462913 original size:20 final size:20
Alignment explanation
Indices: 123462888--123462926 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
123462878 TACTAATTTT
123462888 ATATTTAACT-TTTAAAATAA
1 ATATTTAA-TATTTAAAATAA
*
123462908 ATATTTTATATTTAAAATA
1 ATATTTAATATTTAAAATA
123462927 GTAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTTAATATTTAAAATAA
Found at i:123465143 original size:16 final size:17
Alignment explanation
Indices: 123465117--123465155 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
123465107 GTTAATCTAA
123465117 AATATTATTT-AT-ATT
1 AATATTATTTAATAATT
123465132 AATATATATTTAATAATT
1 AATAT-TATTTAATAATT
123465150 AATATT
1 AATATT
123465156 TTATATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.24
16 5 0.24
17 3 0.14
18 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATATTATTTAATAATT
Found at i:123476109 original size:16 final size:16
Alignment explanation
Indices: 123476090--123476120 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
123476080 ATATTCAATA
*
123476090 ATTTTACTATTATTTG
1 ATTTTAATATTATTTG
123476106 ATTTTAATATTATTT
1 ATTTTAATATTATTT
123476121 ACATAATTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (16 bp):
ATTTTAATATTATTTG
Found at i:123482194 original size:21 final size:22
Alignment explanation
Indices: 123482165--123482213 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
123482155 TAAATAATTT
*
123482165 AAAATTTTATAAA-ATATA-ATA
1 AAAAATTTA-AAATATATATATA
*
123482186 AAAAATTTAAAATATATATATT
1 AAAAATTTAAAATATATATATA
123482208 AAAAAT
1 AAAAAT
123482214 AAATTAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 13 0.54
22 8 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAAATTTAAAATATATATATA
Found at i:123483273 original size:31 final size:31
Alignment explanation
Indices: 123483235--123483293 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
123483225 CTACTTTATT
123483235 TTGATTAATTTTAATT-TTTATACTTTTTGAA
1 TTGATTAATTTTAATTCTTT-TACTTTTTGAA
123483266 TTGATTAATTTTAATTCTTTTACTTTTT
1 TTGATTAATTTTAATTCTTTTACTTTTT
123483294 AAAATTTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.64
Consensus pattern (31 bp):
TTGATTAATTTTAATTCTTTTACTTTTTGAA
Found at i:123484147 original size:21 final size:21
Alignment explanation
Indices: 123484102--123484164 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
123484092 AAAATATAAT
* *
123484102 AAATCAAATATAT-TTAAAA-
1 AAATAAAATAAATATTAAAAC
*
123484121 ACATAAAATAAATATTAAAAC
1 AAATAAAATAAATATTAAAAC
*
123484142 AAATAAAA-ATAATACTAAAAC
1 AAATAAAATA-AATATTAAAAC
123484163 AA
1 AA
123484165 TTCTTAAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 10 0.28
20 7 0.19
21 19 0.53
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAAATAAATATTAAAAC
Found at i:123484241 original size:15 final size:16
Alignment explanation
Indices: 123484211--123484243 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
123484201 AAATAGTTAT
123484211 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
123484228 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
123484243 A
1 A
123484244 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:123487383 original size:39 final size:39
Alignment explanation
Indices: 123487329--123487408 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
123487319 CGAATTCTAT
123487329 GGTTCCCTTTTCATATTCAACTTGAATATGATACATATA
1 GGTTCCCTTTTCATATTCAACTTGAATATGATACATATA
123487368 GGTTCCCTTTTCATATTCAACTTGAATATGATACATATA
1 GGTTCCCTTTTCATATTCAACTTGAATATGATACATATA
123487407 GG
1 GG
123487409 CTAGGACATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (39 bp):
GGTTCCCTTTTCATATTCAACTTGAATATGATACATATA
Found at i:123488603 original size:48 final size:48
Alignment explanation
Indices: 123488547--123488645 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
123488537 TTCAACTTGA
123488547 AATAAAGCTGAAAATTACAGAGTTACAGAAGTTGTGAGATGTGACAAC
1 AATAAAGCTGAAAATTACAGAGTTACAGAAGTTGTGAGATGTGACAAC
123488595 AATAAAGCTGAAAATTACAGAGTTACAGAAGTTGTGAGATGTGACAAC
1 AATAAAGCTGAAAATTACAGAGTTACAGAAGTTGTGAGATGTGACAAC
123488643 AAT
1 AAT
123488646 GCCATTTCTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.23
Consensus pattern (48 bp):
AATAAAGCTGAAAATTACAGAGTTACAGAAGTTGTGAGATGTGACAAC
Found at i:123507224 original size:13 final size:13
Alignment explanation
Indices: 123507200--123507232 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
123507190 ATATATTCCC
123507200 TTAAAA-ATATAT
1 TTAAAATATATAT
123507212 TTAAAATATATAT
1 TTAAAATATATAT
*
123507225 TTCAAATA
1 TTAAAATA
123507233 ATGTAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
TTAAAATATATAT
Found at i:123508458 original size:12 final size:12
Alignment explanation
Indices: 123508441--123508471 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
123508431 ATAGTTTGAT
*
123508441 TGATTCGACTAA
1 TGATTCAACTAA
123508453 TGATTCAACTAA
1 TGATTCAACTAA
123508465 TGATTCA
1 TGATTCA
123508472 GTTCTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (12 bp):
TGATTCAACTAA
Found at i:123508711 original size:30 final size:30
Alignment explanation
Indices: 123508654--123508712 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
123508644 AATAAATTAG
* *
123508654 ATTTGTATATTAACATTTTGTTCGTGTTAA
1 ATTTGTATATTAACATTGTATTCGTGTTAA
* *
123508684 ATTTGTATATTAATATTGTATTTGTGTTA
1 ATTTGTATATTAACATTGTATTCGTGTTA
123508713 TTTTATATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (30 bp):
ATTTGTATATTAACATTGTATTCGTGTTAA
Found at i:123510287 original size:21 final size:20
Alignment explanation
Indices: 123510263--123510301 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
123510253 TGGTGGTATC
*
123510263 AGCACCATCACCAGAAACTCA
1 AGCAACATCACCA-AAACTCA
*
123510284 AGCAACATCAGCAAAACT
1 AGCAACATCACCAAAACT
123510302 TGCTGCACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.46, C:0.33, G:0.10, T:0.10
Consensus pattern (20 bp):
AGCAACATCACCAAAACTCA
Found at i:123513597 original size:31 final size:31
Alignment explanation
Indices: 123513549--123513609 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
123513539 ATGATTATTA
*
123513549 AACTATTGAAAAATTTTTATTTAAGTCATTT
1 AACTATTCAAAAATTTTTATTTAAGTCATTT
* *
123513580 AACTATTCAAAAGTTTTTATTTATGTCATT
1 AACTATTCAAAAATTTTTATTTAAGTCATT
123513610 GGGTTGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (31 bp):
AACTATTCAAAAATTTTTATTTAAGTCATTT
Done.