Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 190 of 297
Found at i:64345077 original size:18 final size:17
Alignment explanation
Indices: 64345054--64345089 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
64345044 CATGTGGCCT
64345054 GCCCGTATAGGCCCACAC
1 GCCCGTAT-GGCCCACAC
*
64345072 GCCCGTGTGGCCCACAC
1 GCCCGTATGGCCCACAC
64345089 G
1 G
64345090 ACCTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.17, C:0.44, G:0.28, T:0.11
Consensus pattern (17 bp):
GCCCGTATGGCCCACAC
Found at i:64350938 original size:24 final size:24
Alignment explanation
Indices: 64350850--64350986 Score: 113
Period size: 24 Copynumber: 5.8 Consensus size: 24
64350840 ATCCCGGTTA
*
64350850 AAGGTTCTTTGTGAACTTCCCGTT
1 AAGGTTCTTTGTGAACTTCCCGAT
* * * *
64350874 AAATTGGCTCTTTGTGAGCTTTCTGAT
1 -AA--GGTTCTTTGTGAACTTCCCGAT
* **
64350901 -AGTGCTCGCT-TGAACTTCCCGAT
1 AAG-GTTCTTTGTGAACTTCCCGAT
*
64350924 ATGGTTCTTTGTGAACTTCCCGAT
1 AAGGTTCTTTGTGAACTTCCCGAT
*
64350948 ACGGTTC--T-TGAACTTCCCGAT
1 AAGGTTCTTTGTGAACTTCCCGAT
64350969 AAGGTTCTTTGTGAACTT
1 AAGGTTCTTTGTGAACTT
64350987 TCCCATTATG
Statistics
Matches: 88, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
21 19 0.22
22 1 0.01
23 16 0.18
24 32 0.36
25 3 0.03
27 17 0.19
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (24 bp):
AAGGTTCTTTGTGAACTTCCCGAT
Found at i:64350961 original size:21 final size:21
Alignment explanation
Indices: 64350909--64350977 Score: 93
Period size: 21 Copynumber: 3.1 Consensus size: 21
64350899 ATAGTGCTCG
*
64350909 CTTGAACTTCCCGATATGGTT
1 CTTGAACTTCCCGATAAGGTT
*
64350930 CTTTGTGAACTTCCCGATACGGTT
1 C--T-TGAACTTCCCGATAAGGTT
64350954 CTTGAACTTCCCGATAAGGTT
1 CTTGAACTTCCCGATAAGGTT
64350975 CTT
1 CTT
64350978 TGTGAACTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 22 0.51
22 1 0.02
23 1 0.02
24 19 0.44
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (21 bp):
CTTGAACTTCCCGATAAGGTT
Found at i:64369163 original size:21 final size:22
Alignment explanation
Indices: 64369137--64369188 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
64369127 AGAAAATCTT
64369137 AAAATTTTATGA-TATTTTTAA
1 AAAATTTTATGATTATTTTTAA
* *
64369158 ACAATTTTATGATTTTTTTTAA
1 AAAATTTTATGATTATTTTTAA
64369180 AAAATTTTA
1 AAAATTTTA
64369189 GGGATTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
AAAATTTTATGATTATTTTTAA
Found at i:64369194 original size:23 final size:22
Alignment explanation
Indices: 64369137--64369196 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
64369127 AGAAAATCTT
* *
64369137 AAAATTTTATGA-TATTTTTAA
1 AAAATTTTAGGATTTTTTTTAA
* *
64369158 ACAATTTTATGATTTTTTTTAA
1 AAAATTTTAGGATTTTTTTTAA
64369180 AAAATTTTAGGGATTTT
1 AAAATTTTA-GGATTTT
64369197 ATGAATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.33
22 16 0.48
23 6 0.18
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (22 bp):
AAAATTTTAGGATTTTTTTTAA
Found at i:64369876 original size:38 final size:38
Alignment explanation
Indices: 64369825--64369899 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
64369815 AGAAGAATCC
* *
64369825 AAAAAATGTGAAACAAATCAAGCCTTA-TAAAATTGAA
1 AAAAAATGAGAAACAAATCAAGCCTTAGAAAAATTGAA
64369862 AAAAAATTGAGAAACAAATCAAGCCTTAGAAAAATTGA
1 AAAAAA-TGAGAAACAAATCAAGCCTTAGAAAAATTGA
64369900 TTAAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 6 0.18
38 20 0.59
39 8 0.24
ACGTcount: A:0.57, C:0.11, G:0.12, T:0.20
Consensus pattern (38 bp):
AAAAAATGAGAAACAAATCAAGCCTTAGAAAAATTGAA
Found at i:64374176 original size:3 final size:3
Alignment explanation
Indices: 64374162--64374204 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
64374152 ATATAAAAGT
* * *
64374162 ATA ATG ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ACA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
64374205 CATGAACAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:64375982 original size:44 final size:44
Alignment explanation
Indices: 64375906--64376804 Score: 685
Period size: 44 Copynumber: 20.0 Consensus size: 44
64375896 CAAAGTATCG
* ** * * *
64375906 CTTCAATCTACTGTACTGCAACTTTAGGGAGATGAGATTTGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAT
* * * * *
64375950 CTTTAATTTGCTCCACTACAACTTCAGAGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAT
* * * * *
64375994 CTTCAATCTACTCCACTACAACTTCAGAGAGATGAGAATCGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAT
** *
64376038 CTTCAATCTGCTCCACTATAACTTCA-AGGAGATAAGATTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGTAT
* * * * * *
64376082 CTTTAATTTGCTCTACTGCAACTTTAGATATATAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TAT
*
64376127 CTTCAATCTGCTCCACTGCAACTTCA-AGGAGATAAGATTTATAACTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAG----AT---TTGTAT
* * * *
64376178 CTTTAATCTGTTCCACTGCAACTTCAG-GAAAATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAG-AGATAAGATTTG-TAT
* * * *
64376223 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATGAGATTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAT
* * * *
64376267 CTTCAATTTACTCCATTGCAACTTCAGAGAGATAA-AGTTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTTGTAT
* * * *
64376311 CTTTAATCTGCTCTATTGCAACTTCAGAGATATAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TAT
* * *
64376356 CTTCAATCAGGTCCACTGCAACTTCA-AGGAGATTAGATTTGTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTG-TAT
* * * ** *
64376401 CTTCAATCTGCTCTACTGCAACTTTAGTGAGATGGGATTTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAT
* * * *
64376445 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAT
* ** *
64376489 CTTTAATCTGCTGTACTGCAACTTTAGAGAGATAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TAT
* *
64376534 CTTCAATCTACTCCACTACAACTTCA-AGGAGATAAGATTTGTAACTT
1 CTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGT-A--T
* * * * * * *
64376581 ACAGCTTTAATCTGTTCCATTGTAACTTCAGGGAAATAAGATTCGCTAT
1 ----CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TAT
* * * * * * * *
64376630 CTTTAATTTGCTCCACTGTAACTTTAAAGAGATGAGACTGGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAT
* * * * * * * *
64376674 CTGCAATCTACTCCAGTACAACTTGAGGGAGATAAGGTTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAT
* * * ** *
64376718 CTTTAATTTGCTCTACTATAACTTCAGAGAGATAAGATTTACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT-GTAT
* *
64376763 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGT
64376805 GATTTCACTG
Statistics
Matches: 666, Mismatches: 157, Indels: 64
0.75 0.18 0.07
Matches are distributed among these distances:
43 2 0.00
44 349 0.52
45 239 0.36
46 1 0.00
47 3 0.00
49 3 0.00
50 1 0.00
51 64 0.10
52 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAT
Found at i:64376232 original size:96 final size:96
Alignment explanation
Indices: 64375986--64376269 Score: 325
Period size: 96 Copynumber: 3.0 Consensus size: 96
64375976 GAGAGATAAG
* * * * * *
64375986 ACTTGTAACTTCAATCTACTCCACTACAACTTCAGAGAGATGAGAATCG-TATCTTCAATCTGCT
1 ACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAATCTGCT
*
64376050 CCACTATAACTTCAAGGAGATAAG----AT-
66 CCACTGTAACTTCAAGGAGATAAGATTTATA
* * * * * *
64376076 --TTGTAACTTTAATTTGCTCTACTGCAACTTTAGATATATAAGATTTGCTATCTTCAATCTGCT
1 ACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAATCTGCT
*
64376139 CCACTGCAACTTCAAGGAGATAAGATTTATA
66 CCACTGTAACTTCAAGGAGATAAGATTTATA
* *
64376170 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAG-GAAAATAAGATTCGCTATCTTCAATCTGC
1 ACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGAG-AAATAAGATTCGCTATCTTCAATCTGC
* * *
64376234 TCCACTGTAACTTCAGGGAGATGAGATTTGTA
65 TCCACTGTAACTTCAAGGAGATAAGATTTATA
64376266 ACTT
1 ACTT
64376270 CAATTTACTC
Statistics
Matches: 160, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
88 36 0.22
89 37 0.23
93 2 0.01
96 85 0.53
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (96 bp):
ACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAATCTGCT
CCACTGTAACTTCAAGGAGATAAGATTTATA
Found at i:64376301 original size:229 final size:228
Alignment explanation
Indices: 64375944--64376477 Score: 602
Period size: 229 Copynumber: 2.4 Consensus size: 228
64375934 GAGATGAGAT
* * *
64375944 TTGTATCTTTAATTTGCTCCACTACAACTTCAGAGAGATAAGACTTGTAACTTCAATCTACTCCA
1 TTGTAGCTTTAATCTGCTCCACTACAACTTCAGAGAAATAAGACTTGTAACTTCAATCTACTCCA
* * *
64376009 CTACAACTTCAGAGAGATGAGAATCGTATCTTCAATCTGCTCCACTATAACTTCAAGGAGAT-AA
66 CTACAACTTCAGAGAGATGAGAATCGTAACTTCAATCTACTCCACTACAACTTCAAGGAGATAAA
* * * *
64376073 GATTTGTAACTTTAATTTGCTCTACTGCAACTTTAGATATATAAGATTTGCTATCTTCAATCTGC
131 G-TTTGTAACTTTAATCTGCTCTACTGCAACTTCAGAGATATAAGATTTGCTATCTTCAATCAGC
64376138 TCCACTGCAACTTCAAGGAGATAAGATTTATAAC
195 TCCACTGCAACTTCAAGGAGATAAGATTTATAAC
* * * *
64376172 TTGTAGCTTTAATCTGTTCCACTGCAACTTCAG-GAAAATAAGA-TTCGCTATCTTCAATCTGCT
1 TTGTAGCTTTAATCTGCTCCACTACAACTTCAGAG-AAATAAGACTT-G-TAACTTCAATCTACT
** * * * * * *
64376235 CCACTGTAACTTCAGGGAGATGAGATTTGTAACTTCAATTTACTCCATTGCAACTTC-AGAGAGA
63 CCACTACAACTTCAGAGAGATGAGAATCGTAACTTCAATCTACTCCACTACAACTTCAAG-GAGA
* *
64376299 TAAAGTTTGTAGCTTTAATCTGCTCTATTGCAACTTCAGAGATATAAGATTTGCTATCTTCAATC
127 TAAAGTTTGTAACTTTAATCTGCTCTACTGCAACTTCAGAGATATAAGATTTGCTATCTTCAATC
* *
64376364 AGGTCCACTGCAACTTCAAGGAGATTAGA-TT-T---
192 AGCTCCACTGCAACTTCAAGGAGATAAGATTTATAAC
* * * * * * * * ** *
64376396 GT-TATCTTCAATCTGCTCTACTGCAACTTTAGTGAGATGGGATTTGTAACTTCAATCTACTCCA
1 TTGTAGCTTTAATCTGCTCCACTACAACTTCAGAGAAATAAGACTTGTAACTTCAATCTACTCCA
* *
64376460 CTGCAACTTCAGGGAGAT
66 CTACAACTTCAGAGAGAT
64376478 AAGGTTTGTA
Statistics
Matches: 261, Mismatches: 38, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
222 33 0.13
223 31 0.12
224 4 0.02
227 4 0.02
228 41 0.16
229 145 0.56
230 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (228 bp):
TTGTAGCTTTAATCTGCTCCACTACAACTTCAGAGAAATAAGACTTGTAACTTCAATCTACTCCA
CTACAACTTCAGAGAGATGAGAATCGTAACTTCAATCTACTCCACTACAACTTCAAGGAGATAAA
GTTTGTAACTTTAATCTGCTCTACTGCAACTTCAGAGATATAAGATTTGCTATCTTCAATCAGCT
CCACTGCAACTTCAAGGAGATAAGATTTATAAC
Found at i:64376442 original size:178 final size:176
Alignment explanation
Indices: 64375906--64376804 Score: 680
Period size: 178 Copynumber: 5.0 Consensus size: 176
64375896 CAAAGTATCG
* ** * * * * * *
64375906 CTTCAATCTACTGTACTGCAACTTTAGGGAGAT-GAGATTTGTATCTTTAATTTGCTCCACTACA
1 CTTCAATTTACTCCACTGCAACTTCAGAGAGATAAAG-TTTGTAGCTTTAATCTGCTCCACTGCA
* * * *
64375970 ACTTCAGAGAGATAAGACTTG-TAACTTCAATCTACTCCACTACAACTTCAGAGAGATGAGAATC
65 ACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTCAG-GAGATAAGATTC
* *
64376034 G-TATCTTCAATCTGCTCCACTATAACTTCAAGGAGATAAGATTTGTAA
129 GTTATCTTCAATCTGCTCCACTGTAACTT-AAGGAGATGAGATTTGTAA
* * * * * * * *
64376082 CTTTAATTTGCTCTACTGCAACTTTAGATATAT-AAGATTTGCTATCTTCAATCTGCTCCACTGC
1 CTTCAATTTACTCCACTGCAACTTCAGAGAGATAAAG-TTTG-TAGCTTTAATCTGCTCCACTGC
* * * ** * *
64376146 AACTTCA-AGGAGATAAGATTTATAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGAAAA
64 AACTTCAGA-GAGATAAGA-TT-T-GC---TATCTTCAATCTACTCCACTACAACTTCAGG-AGA
* *
64376210 TAAGATTCGCTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATGAGATTTGTAA
121 TAAGATTCGTTATCTTCAATCTGCTCCACTGTAACTT-AAGGAGATGAGATTTGTAA
* * *
64376267 CTTCAATTTACTCCATTGCAACTTCAGAGAGATAAAGTTTGTAGCTTTAATCTGCTCTATTGCAA
1 CTTCAATTTACTCCACTGCAACTTCAGAGAGATAAAGTTTGTAGCTTTAATCTGCTCCACTGCAA
* * * * *
64376332 CTTCAGAGATATAAGATTTGCTATCTTCAATC-AGGTCCACTGCAACTTCAAGGAGATTAGATTT
66 CTTCAGAGAGATAAGATTTGCTATCTTCAATCTA-CTCCACTACAACTTC-AGGAGATAAGATTC
* * * *
64376396 GTTATCTTCAATCTGCTCTACTGCAACTTTAGTGAGATGGGATTTGTAA
129 GTTATCTTCAATCTGCTCCACTGTAACTTAAG-GAGATGAGATTTGTAA
* * * **
64376445 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTGTACTGCAA
1 CTTCAATTTACTCCACTGCAACTTCAGAGAGATAAAGTTTGTAGCTTTAATCTGCTCCACTGCAA
* *
64376510 CTTTAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTG
66 CTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTC-AGGAGATAAGATTCG
* * * * * * * * *
64376575 TAACTTACAGCTTTAATCTGTTCCATTGTAACTTCAGGGAAATAAGATTCGCTAT
130 ----TT--ATCTTCAATCTGCTCCACTGTAACTT-AAGGAGATGAGATTTG-TAA
* * * * * * * * * ** * * *
64376630 CTTTAATTTGCTCCACTGTAACTTTAAAGAGAT-GAGACTGGTATCTGCAATCTACTCCAGTACA
1 CTTCAATTTACTCCACTGCAACTTCAGAGAGATAAAG-TTTGTAGCTTTAATCTGCTCCACTGCA
* * * * * * * * * *
64376694 ACTTGAGGGAGATAAGGTTTG-TAGCTTTAATTTGCTCTACTATAACTTCAGAGAGATAAGATTT
65 ACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTCAG-GAGATAAGATTC
** * * *
64376758 ACTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGT
129 GTTATCTTCAATCTGCTCCACTGTAAC-TTAAGGAGATGAGATTTGT
64376805 GATTTCACTG
Statistics
Matches: 584, Mismatches: 111, Indels: 55
0.78 0.15 0.07
Matches are distributed among these distances:
176 34 0.06
177 37 0.06
178 223 0.38
179 7 0.01
180 1 0.00
181 1 0.00
182 3 0.01
183 5 0.01
184 131 0.22
185 139 0.24
186 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (176 bp):
CTTCAATTTACTCCACTGCAACTTCAGAGAGATAAAGTTTGTAGCTTTAATCTGCTCCACTGCAA
CTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTCAGGAGATAAGATTCGT
TATCTTCAATCTGCTCCACTGTAACTTAAGGAGATGAGATTTGTAA
Found at i:64376705 original size:229 final size:229
Alignment explanation
Indices: 64376375--64376804 Score: 599
Period size: 229 Copynumber: 1.9 Consensus size: 229
64376365 GGTCCACTGC
* * * * * ** * *
64376375 AACTTCAAGGAGATTAGATTTGTTATCTTCAATCTGCTCTACTGCAACTTTAGTGAGATGGGATT
1 AACTTCAAGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTTAAAGAGATGAGACT
* * * *
64376440 TGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTGTAC
66 GGTAACTGCAATCTACTCCACTACAACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTAC
* * *
64376505 TGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTCAAGGAGATAAG
131 TACAACTTCAGAGAGATAAGATTTACTATCTTCAATCTACTCCACTACAACTTCAAGGAGATAAG
64376570 ATTTGTAACTTACAGCTTTAATCTGTTCCATTGT
196 ATTTGTAACTTACAGCTTTAATCTGTTCCATTGT
* * * *
64376604 AACTTCAGGGAAATAAGATTCGCTATCTTTAATTTGCTCCACTGTAACTTTAAAGAGATGAGACT
1 AACTTCAAGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTTAAAGAGATGAGACT
* * * *
64376669 GGTATCTGCAATCTACTCCAGTACAACTTGAGGGAGATAAGGTTTGTAGCTTTAATTTGCTCTAC
66 GGTAACTGCAATCTACTCCACTACAACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTAC
* * * * *
64376734 TATAACTTCAGAGAGATAAGATTTACTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAG
131 TACAACTTCAGAGAGATAAGATTTACTATCTTCAATCTACTCCACTACAACTTCAAGGAGATAAG
64376799 ATTTGT
196 ATTTGT
64376805 GATTTCACTG
Statistics
Matches: 172, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
229 172 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (229 bp):
AACTTCAAGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTTAAAGAGATGAGACT
GGTAACTGCAATCTACTCCACTACAACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTAC
TACAACTTCAGAGAGATAAGATTTACTATCTTCAATCTACTCCACTACAACTTCAAGGAGATAAG
ATTTGTAACTTACAGCTTTAATCTGTTCCATTGT
Found at i:64376755 original size:407 final size:407
Alignment explanation
Indices: 64375905--64376804 Score: 1185
Period size: 407 Copynumber: 2.2 Consensus size: 407
64375895 TCAAAGTATC
* * * * * * * * * *
64375905 GCTTCAATCTACTGTACTGCAACTTTAGGGAGATGAGATTTG-TATCTTTAATTTGCTCCACTAC
1 GCTTTAATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
*
64375969 AACTTC-AGAGAGATAAGACTTG-TAACTTCAATCTACTCCACTACAACTTCAGAGAGATGAGAA
66 AACTTCAAG-GAGATAAGATTTGTTAACTTCAATCTACTCCACTACAACTTCAGAGAGATGAGAA
* * * *
64376032 TCGTATCTTCAATCTGCTCCACTATAACTTCAAGGAGATAAGATTTGTAACTTTAATTTGCTCTA
130 TCGTAACTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTGTAACTTTAATCTGCTCTA
* * * *
64376097 CTGCAACTTTAGATATATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAA
195 CTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTCAAGGAGATAA
**
64376162 GATTTATAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTCGCTATCTTC
260 GATTTATAACTTACAGCTTTAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTCGCTATCTTC
** * * * * * *
64376227 AATCTGCTCCACTGTAACTTCAGGGAGATGAGATTTGTAACTTCAATTTACTCCATTGCAACTTC
325 AATCTGCTCCACTGTAACTTCAAAGAGATGAGACTGGTAACTGCAATCTACTCCAGTACAACTTC
64376292 AGAGAGATAAAGTTTGTA
390 AGAGAGATAAAGTTTGTA
* * * * *
64376310 GCTTTAATCTGCTCTATTGCAACTTCAGAGATATAAGATTTGCTATCTTCAATCAGGTCCACTGC
1 GCTTTAATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
* * * * * * * * *
64376375 AACTTCAAGGAGATTAGATTTGTTATCTTCAATCTGCTCTACTGCAACTTTAGTGAGATGGGATT
66 AACTTCAAGGAGATAAGATTTGTTAACTTCAATCTACTCCACTACAACTTCAGAGAGATGAGAAT
* * * * * *
64376440 TGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTGTAC
131 CGTAACTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTGTAACTTTAATCTGCTCTAC
64376505 TGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTCAAGGAGATAAG
196 TGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTCAAGGAGATAAG
* * * * *
64376570 ATTTGTAACTTACAGCTTTAATCTGTTCCATTGTAACTTCAGGGAAATAAGATTCGCTATCTTTA
261 ATTTATAACTTACAGCTTTAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTCGCTATCTTCA
* * * *
64376635 ATTTGCTCCACTGTAACTTTAAAGAGATGAGACTGGTATCTGCAATCTACTCCAGTACAACTTGA
326 ATCTGCTCCACTGTAACTTCAAAGAGATGAGACTGGTAACTGCAATCTACTCCAGTACAACTTCA
* *
64376700 GGGAGATAAGGTTTGTA
391 GAGAGATAAAGTTTGTA
* * *
64376717 GCTTTAATTTGCTCTACTATAACTTCAGAGAGATAAGATTTACTATCTTCAATCTGCTCCACTGC
1 GCTTTAATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
* *
64376782 AACTTTAGGGAGATAAGATTTGT
66 AACTTCAAGGAGATAAGATTTGT
64376805 GATTTCACTG
Statistics
Matches: 423, Mismatches: 69, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
405 34 0.08
406 34 0.08
407 355 0.84
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (407 bp):
GCTTTAATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGC
AACTTCAAGGAGATAAGATTTGTTAACTTCAATCTACTCCACTACAACTTCAGAGAGATGAGAAT
CGTAACTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTGTAACTTTAATCTGCTCTAC
TGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTACAACTTCAAGGAGATAAG
ATTTATAACTTACAGCTTTAATCTGTTCCACTGCAACTTCAGGAAAATAAGATTCGCTATCTTCA
ATCTGCTCCACTGTAACTTCAAAGAGATGAGACTGGTAACTGCAATCTACTCCAGTACAACTTCA
GAGAGATAAAGTTTGTA
Found at i:64383865 original size:86 final size:86
Alignment explanation
Indices: 64383720--64383892 Score: 310
Period size: 86 Copynumber: 2.0 Consensus size: 86
64383710 GGTTAATGAA
* *
64383720 TTGGGATTTTAGAGTGTTTATGAAAAACATTGTTGTCTCCTTCTCCAAAAGAGGTGGTTGGACTT
1 TTGGGATTTTAGAGTGTTTATGAAAAACATTGTTGCCTCCTTCTCCAAAAGAAGTGGTTGGACTT
64383785 GCGTTGCCACCTCTCTCCATC
66 GCGTTGCCACCTCTCTCCATC
* *
64383806 TTGGGATTTTAGAGTGTTTATGAAAAGCATTGTTGCCTCCTTCTCCAGAAGAAGTGGTTGGACTT
1 TTGGGATTTTAGAGTGTTTATGAAAAACATTGTTGCCTCCTTCTCCAAAAGAAGTGGTTGGACTT
64383871 GCGTTGCCACCTCTCTCCATC
66 GCGTTGCCACCTCTCTCCATC
64383892 T
1 T
64383893 CTAAGCATAT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (86 bp):
TTGGGATTTTAGAGTGTTTATGAAAAACATTGTTGCCTCCTTCTCCAAAAGAAGTGGTTGGACTT
GCGTTGCCACCTCTCTCCATC
Found at i:64384898 original size:19 final size:20
Alignment explanation
Indices: 64384874--64384925 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
64384864 AGGGTCTTTT
*
64384874 ATGAAATTTAATGCAT-ATG-
1 ATGAAATGTAATGC-TGATGA
64384893 ATGAAATGTAATGCTGATGA
1 ATGAAATGTAATGCTGATGA
64384913 ATGAAATG-AATGC
1 ATGAAATGTAATGC
64384926 AAAAAAGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 21 0.70
20 8 0.27
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGAAATGTAATGCTGATGA
Found at i:64385320 original size:21 final size:21
Alignment explanation
Indices: 64385291--64385330 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
64385281 TGCAATGTGG
*
64385291 TCTTGAGCTCTTCTATCTTTT
1 TCTTCAGCTCTTCTATCTTTT
64385312 TCTTCAGCTCTTCTATCTT
1 TCTTCAGCTCTTCTATCTT
64385331 ATTTAGGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.28, G:0.07, T:0.55
Consensus pattern (21 bp):
TCTTCAGCTCTTCTATCTTTT
Found at i:64385740 original size:21 final size:21
Alignment explanation
Indices: 64385714--64385785 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
64385704 GTTTCTTCTT
64385714 CCAACTATTCTATCTTTTTCC
1 CCAACTATTCTATCTTTTTCC
* * *
64385735 CCAACTCCAAACTCCTCTCTTCTT--
1 CCAACT----A-TTCTATCTTTTTCC
64385759 CCAACTATTCTATCTTTTTCC
1 CCAACTATTCTATCTTTTTCC
64385780 CCAACT
1 CCAACT
64385786 CCAAACTCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
19 9 0.24
20 1 0.03
21 12 0.32
24 6 0.16
25 1 0.03
26 9 0.24
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.40
Consensus pattern (21 bp):
CCAACTATTCTATCTTTTTCC
Found at i:64385756 original size:45 final size:45
Alignment explanation
Indices: 64385707--64385797 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
64385697 ACGCATTGTT
64385707 TCTTCTTCCAACTATTCTATCTTTTTCCCCAACTCCAAACTCCTC
1 TCTTCTTCCAACTATTCTATCTTTTTCCCCAACTCCAAACTCCTC
64385752 TCTTCTTCCAACTATTCTATCTTTTTCCCCAACTCCAAACTCCTC
1 TCTTCTTCCAACTATTCTATCTTTTTCCCCAACTCCAAACTCCTC
64385797 T
1 T
64385798 TTTCAAAGTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.41
Consensus pattern (45 bp):
TCTTCTTCCAACTATTCTATCTTTTTCCCCAACTCCAAACTCCTC
Found at i:64385799 original size:24 final size:24
Alignment explanation
Indices: 64385726--64385800 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
64385716 AACTATTCTA
64385726 TCTTTTTCCCCAACTCCAAACTCC
1 TCTTTTTCCCCAACTCCAAACTCC
** *
64385750 TCTCTTCTT--CCAACT--ATTCT-A
1 TCT-TT-TTCCCCAACTCCAAACTCC
64385771 TCTTTTTCCCCAACTCCAAACTCC
1 TCTTTTTCCCCAACTCCAAACTCC
64385795 TCTTTT
1 TCTTTT
64385801 CAAAGTCTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 9 0.24
22 3 0.08
23 3 0.08
24 15 0.39
25 2 0.05
26 2 0.05
ACGTcount: A:0.19, C:0.40, G:0.00, T:0.41
Consensus pattern (24 bp):
TCTTTTTCCCCAACTCCAAACTCC
Found at i:64390035 original size:5 final size:5
Alignment explanation
Indices: 64390025--64390049 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
64390015 TACCAACCTA
64390025 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
64390050 TTTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:64391449 original size:3 final size:3
Alignment explanation
Indices: 64391429--64391483 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
64391419 ATATGAAAGT
* *
64391429 ATA ATG ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
64391477 ACA ATA A
1 ATA ATA A
64391484 CAACAACAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:64391713 original size:5 final size:4
Alignment explanation
Indices: 64391669--64391732 Score: 55
Period size: 4 Copynumber: 16.5 Consensus size: 4
64391659 AATTTTAAAT
* *
64391669 ATAA ATAGA AGAA AT-A ATAA GTAA ATAA ATAA ATAA ATAAA ATAA A-AA
1 ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA
*
64391717 AT-A ATAC ATAA A-AA AT
1 ATAA ATAA ATAA ATAA AT
64391733 TAGACAAGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
3 12 0.25
4 29 0.60
5 7 0.15
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:64395352 original size:53 final size:53
Alignment explanation
Indices: 64395280--64395387 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
64395270 TACCTTTCCT
* * * *
64395280 TTTTAAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCC
1 TTTTAAACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCC
* * *
64395333 TTTTGAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCC
1 TTTTAAACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCC
64395386 TT
1 TT
64395388 ACAGTAGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.39
Consensus pattern (53 bp):
TTTTAAACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCC
Found at i:64401991 original size:55 final size:54
Alignment explanation
Indices: 64401835--64402038 Score: 212
Period size: 53 Copynumber: 3.8 Consensus size: 54
64401825 TTCCTTTTTA
* * * *
64401835 AACTTACCATTGCCATGTCTTAACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
64401888 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
64401942 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCCTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
64401997 AACTTACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATC
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
64402039 ATTAAGCCCT
Statistics
Matches: 120, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.38
54 34 0.28
55 41 0.34
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:64405243 original size:22 final size:23
Alignment explanation
Indices: 64405198--64405249 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
64405188 AAAGGTAGTA
*
64405198 AATAAAAAAATTAAATATAATTT
1 AATATAAAAATTAAATATAATTT
**
64405221 AATATAAAAATTAAA-ATCTTTT
1 AATATAAAAATTAAATATAATTT
64405243 AATATAA
1 AATATAA
64405250 TTTAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AATATAAAAATTAAATATAATTT
Found at i:64408235 original size:43 final size:43
Alignment explanation
Indices: 64408101--64408247 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 43
64408091 AATGAAAGTA
* * * * *
64408101 TCCCAGACGTGGTCTTACATGCT-ATCTCATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACG-TAATCACATATCGATTCCAATG
* * * * *
64408144 TCCTAGACAGGGTCTTACACG-AGTCAAATA-CGATGT-CGATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGAT-TCCAATG
64408185 TCCCAGACATGGTCTTACACGTAATCACATATCGATTCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATTCCAATG
*
64408228 TCCCAGACGTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
64408248 AAGAACACAT
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 26 0.31
42 13 0.16
43 44 0.53
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATATCGATTCCAATG
Found at i:64415733 original size:7 final size:7
Alignment explanation
Indices: 64415721--64415745 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
64415711 ACTTGTTTCA
64415721 TATTTAG
1 TATTTAG
64415728 TATTTAG
1 TATTTAG
64415735 TATTTAG
1 TATTTAG
64415742 TATT
1 TATT
64415746 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:64417493 original size:40 final size:40
Alignment explanation
Indices: 64417448--64417679 Score: 376
Period size: 40 Copynumber: 5.8 Consensus size: 40
64417438 ATAACCACAA
* * * *
64417448 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
64417488 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
64417528 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
64417568 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
64417608 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
64417648 GCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
64417680 CATTCAAATG
Statistics
Matches: 182, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 177 0.97
41 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:64419676 original size:18 final size:18
Alignment explanation
Indices: 64419653--64419695 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
64419643 TGCCAGGCGC
*
64419653 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
64419671 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
64419689 GTTTCCT
1 GTATCCT
64419696 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:64420006 original size:21 final size:21
Alignment explanation
Indices: 64419943--64420013 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
64419933 TCACAACCGG
* * *
64419943 AGCAACCACAATCCCTGCCGG
1 AGCAACCACAACCCCAGCCGA
* *
64419964 AGCAACCACAACCCCCGTCGA
1 AGCAACCACAACCCCAGCCGA
*
64419985 ATCAACCACAACCCCAGCCGA
1 AGCAACCACAACCCCAGCCGA
*
64420006 AGTAACCA
1 AGCAACCA
64420014 AGAATGAATC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.35, C:0.44, G:0.14, T:0.07
Consensus pattern (21 bp):
AGCAACCACAACCCCAGCCGA
Found at i:64423543 original size:126 final size:126
Alignment explanation
Indices: 64423264--64423599 Score: 439
Period size: 126 Copynumber: 2.7 Consensus size: 126
64423254 GGCCAAGCAT
* *
64423264 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCTTC
1 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCATC
* * **
64423329 CTGCTTGAAGCATTTTTTTG-CACTATTTGTTCAGAAAAGTCTTCTTGAAATTATTTTTTCAG
66 CTGCTTGAAGC--CTTTTTGACACTATATGTTCAGAAAAGTCTTCTCAAAATTATTTTTTCAG
* * * * * *
64423391 GAACTACTATAGATGAACAGTA--TCCACGTGGGAGTTTTTTTCAGAAATTTTGCTGACACTGCA
1 GAACTACTGTAGA--AAAAGAACGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCA
*
64423454 TCCTGCTTGAAGCGTTTTTGACACTATATGTTCAGAAACA-TCTTCTCAAAATTATTTTTTCAG
64 TCCTGCTTGAAGCCTTTTTGACACTATATGTTCAGAAA-AGTCTTCTCAAAATTATTTTTTCAG
* *
64423517 GAACTATTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCATAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCATC
* *
64423582 ATCCTTGAA-CCTTTTTGA
66 CTGCTTGAAGCCTTTTTGA
64423600 ATAATTTTTC
Statistics
Matches: 181, Mismatches: 22, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
124 5 0.03
125 14 0.08
126 95 0.52
127 63 0.35
129 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTCAAAAATTTTGCTGACATTGCATC
CTGCTTGAAGCCTTTTTGACACTATATGTTCAGAAAAGTCTTCTCAAAATTATTTTTTCAG
Found at i:64425569 original size:30 final size:30
Alignment explanation
Indices: 64425535--64425598 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
64425525 ACGGGCTGAG
*
64425535 CACACACCCGTGTGATCCACACGAGCTGGC
1 CACACACCCCTGTGATCCACACGAGCTGGC
* *
64425565 CACACGCCCCTGTGATCCACACGGGCTGGC
1 CACACACCCCTGTGATCCACACGAGCTGGC
64425595 CACA
1 CACA
64425599 TGCCCATGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.42, G:0.23, T:0.12
Consensus pattern (30 bp):
CACACACCCCTGTGATCCACACGAGCTGGC
Found at i:64440853 original size:5 final size:5
Alignment explanation
Indices: 64440843--64440903 Score: 68
Period size: 5 Copynumber: 11.0 Consensus size: 5
64440833 CATTGAGTCC
64440843 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTTT ATTTTT ATTATT AGTTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT A-TTTT ATT-TT A--TTTT
64440893 ATTTTT ATTTT
1 A-TTTT ATTTT
64440904 TCTGTTTATT
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
5 27 0.52
6 20 0.38
7 3 0.06
8 2 0.04
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:64440875 original size:6 final size:6
Alignment explanation
Indices: 64440844--64440921 Score: 83
Period size: 6 Copynumber: 13.5 Consensus size: 6
64440834 ATTGAGTCCA
*
64440844 TTTTA- TTTTA- TTTTA- TTTTA- TTTTAT TTTTAT TTTTAT TATTAGT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T
* * *
64440889 TTTTAT TTTTAT TTTTCT GTTTAT TTGTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
64440922 CTTAAACTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
5 20 0.32
6 38 0.60
7 5 0.08
ACGTcount: A:0.17, C:0.01, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:64440884 original size:25 final size:25
Alignment explanation
Indices: 64440844--64440904 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
64440834 ATTGAGTCCA
64440844 TTTTA-TTTTA-TTTTATT-TTA--
1 TTTTATTTTTATTTTTATTATTAGT
64440864 TTTTATTTTTATTTTTATTATTAGT
1 TTTTATTTTTATTTTTATTATTAGT
64440889 TTTTATTTTTATTTTT
1 TTTTATTTTTATTTTT
64440905 CTGTTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.14
21 5 0.14
22 7 0.19
23 3 0.08
25 16 0.44
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (25 bp):
TTTTATTTTTATTTTTATTATTAGT
Found at i:64442859 original size:29 final size:29
Alignment explanation
Indices: 64442819--64442918 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 29
64442809 AATGTGACTA
*
64442819 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
64442848 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
64442877 GGCCTAAGGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
64442905 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
64442919 GATACAGGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 15 0.25
29 46 0.75
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:64442916 original size:28 final size:29
Alignment explanation
Indices: 64442804--64442918 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
64442794 GTGAGCATCA
* * *
64442804 ATATGAATGTGA-CTAGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
64442832 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
64442861 ATAT-ACAGGTGATTTGGGCCTAAGGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
64442890 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
64442918 A
1 A
64442919 GATACAGGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:64442924 original size:57 final size:58
Alignment explanation
Indices: 64442819--64442927 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 58
64442809 AATGTGACTA
* *
64442819 GGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATTTG
* * *
64442877 GGCCTAAGGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 GGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
64442928 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (58 bp):
GGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATTTG
Found at i:64448984 original size:26 final size:26
Alignment explanation
Indices: 64448953--64449060 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
64448943 TGAAATTCCC
*
64448953 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
64448979 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
64449005 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
64449031 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
64449057 ATCA
1 ATCA
64449061 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:64451588 original size:25 final size:25
Alignment explanation
Indices: 64451554--64451604 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
64451544 TTATGTTAAA
*
64451554 TGATGAATTTGGAATGTTGATTGAT
1 TGATGAATTTCGAATGTTGATTGAT
64451579 TGATGAATTTCGAATGTTGATTGAT
1 TGATGAATTTCGAATGTTGATTGAT
64451604 T
1 T
64451605 ATTAAAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.45
Consensus pattern (25 bp):
TGATGAATTTCGAATGTTGATTGAT
Found at i:64453358 original size:47 final size:47
Alignment explanation
Indices: 64453307--64453557 Score: 137
Period size: 47 Copynumber: 5.3 Consensus size: 47
64453297 TAATGTAAAG
* *
64453307 CATGTCTGGGACATGCACCAACCACATTATGAGAGCCAGTGTAAGAC
1 CATGTCTGGGACATGCATCAACCACATTAAGAGAGCCAGTGTAAGAC
* * *
64453354 CATGTTTGGGATATGGCATCAA--A-ATTGAGACGAGAGCTAGTGTAAGA-
1 CATGTCTGGGACAT-GCATCAACCACATT-A-A-GAGAGCCAGTGTAAGAC
* * * * *
64453401 CATGTCCGGGACATGCATCGACCTCGTGAAGTA-AGCCAGTGTAAGAC
1 CATGTCTGGGACATGCATCAACCACATTAAG-AGAGCCAGTGTAAGAC
* ** * * *
64453448 CATGTCTAGGACATGGCATTGA-CAC-GTACAGAGGTGTCAGTGTAAGAC
1 CATGTCTGGGACAT-GCATCAACCACATTA-AGA-GAGCCAGTGTAAGAC
* ** *
64453496 CATGTCTGAGACATAGCAT---TGAC-TTGAGACATGAGCCAGTGTAAGAC
1 CATGTCTGGGACAT-GCATCAACCACATT-A-AGA-GAGCCAGTGTAAGAC
64453543 CATGTCTGGGACATG
1 CATGTCTGGGACATG
64453558 GCATTGGTAT
Statistics
Matches: 157, Mismatches: 32, Indels: 31
0.71 0.15 0.14
Matches are distributed among these distances:
45 3 0.02
46 27 0.17
47 70 0.45
48 56 0.36
49 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (47 bp):
CATGTCTGGGACATGCATCAACCACATTAAGAGAGCCAGTGTAAGAC
Found at i:64453562 original size:47 final size:47
Alignment explanation
Indices: 64453339--64453563 Score: 188
Period size: 47 Copynumber: 4.8 Consensus size: 47
64453329 CACATTATGA
* * ** * *
64453339 GAGCCAGTGTAAGACCATGTTTGGGATATGGCATCAAAATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT-TGACTCGAGAC-AT
* * * *
64453387 GAGCTAGTGTAAGA-CATGTCCGGGACAT-GCATCGACCTCGTGA-AGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGA-CTCGAGACA-T
* * * * * *
64453433 AAGCCAGTGTAAGACCATGTCTAGGACATGGCATTGACACGTACAGAG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTCG-AGACAT
* * * * *
64453481 GTGTCAGTGTAAGACCATGTCTGAGACATAGCATTGACTTGAGACAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTCGAGACAT
64453528 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTG
64453564 GTATTATACC
Statistics
Matches: 137, Mismatches: 33, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 20 0.15
47 61 0.45
48 53 0.39
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTCGAGACAT
Found at i:64460194 original size:13 final size:13
Alignment explanation
Indices: 64460176--64460200 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64460166 GTAAGTGATT
64460176 TTGATGATTTTTC
1 TTGATGATTTTTC
64460189 TTGATGATTTTT
1 TTGATGATTTTT
64460201 GTACTTTTAG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:64461070 original size:48 final size:51
Alignment explanation
Indices: 64461011--64461139 Score: 167
Period size: 48 Copynumber: 2.6 Consensus size: 51
64461001 TGAAGTAAGC
* * * *
64461011 CAATGTAAGACCATGTCTAGGACATGGCATC-GGCACGTATAA-AG-GTGT
1 CAATGTAAGACCATGTCTGGGACATGGCATCTGACACGAATAAGAGAGAGT
*
64461059 CAATGTAAGACCATGTCTGGGACATGGCA-CTGACACGAATAAGCGAGAGT
1 CAATGTAAGACCATGTCTGGGACATGGCATCTGACACGAATAAGAGAGAGT
* *
64461109 TAGTGTAAGACCATGTCTGGGACATGGCATC
1 CAATGTAAGACCATGTCTGGGACATGGCATC
64461140 AACTTGAGAC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
47 1 0.01
48 37 0.53
49 1 0.01
50 30 0.43
51 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (51 bp):
CAATGTAAGACCATGTCTGGGACATGGCATCTGACACGAATAAGAGAGAGT
Found at i:64465689 original size:20 final size:20
Alignment explanation
Indices: 64465656--64465694 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
64465646 GCCATATGAT
64465656 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATGGTATC
64465676 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATGGTAT
64465695 TTTGAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATC
Found at i:64481289 original size:2 final size:2
Alignment explanation
Indices: 64481282--64481318 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
64481272 GTCACATATT
64481282 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
64481319 TATATATTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:64482294 original size:25 final size:25
Alignment explanation
Indices: 64482246--64482304 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
64482236 TAGGATAATC
64482246 AAATGCCA-TCTAGATTCTGAAATG
1 AAATGCCATTCTAGATTCTGAAATG
* *
64482270 ATATGTCATTCTAG-TTCTGATAATG
1 AAATGCCATTCTAGATTCTGA-AATG
64482295 AAATGCCATT
1 AAATGCCATT
64482305 TTTTAGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (25 bp):
AAATGCCATTCTAGATTCTGAAATG
Found at i:64483699 original size:9 final size:9
Alignment explanation
Indices: 64483685--64483717 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
64483675 GTTAAACGAA
64483685 TCGAGTTAT
1 TCGAGTTAT
64483694 TCGAGTTAAT
1 TCGAGTT-AT
64483704 T-GAGTTAT
1 TCGAGTTAT
64483712 TCGAGT
1 TCGAGT
64483718 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 3 0.14
9 16 0.73
10 3 0.14
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:64483784 original size:9 final size:9
Alignment explanation
Indices: 64483767--64483803 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
64483757 TGAGTTTTCG
64483767 AATTCGAAT
1 AATTCGAAT
*
64483776 AACTCGAAT
1 AATTCGAAT
64483785 AATTCGAAT
1 AATTCGAAT
64483794 AATTCGAAT
1 AATTCGAAT
64483803 A
1 A
64483804 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:64486557 original size:20 final size:20
Alignment explanation
Indices: 64486532--64486570 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
64486522 TCAAATGCAC
64486532 TTTGAATTACTCGATTTCGG
1 TTTGAATTACTCGATTTCGG
*
64486552 TTTGAATTATTCGATTTCG
1 TTTGAATTACTCGATTTCG
64486571 AGTTCGGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.49
Consensus pattern (20 bp):
TTTGAATTACTCGATTTCGG
Found at i:64487625 original size:45 final size:45
Alignment explanation
Indices: 64487574--64487663 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
64487564 AGAATAAAGA
64487574 ATAAATATTCAAAATAATAATGATAATCGATAAAAGTAATATATT
1 ATAAATATTCAAAATAATAATGATAATCGATAAAAGTAATATATT
*
64487619 ATAAATATTCAAAATAATAATGATAATTGATAAAAGTAATATATT
1 ATAAATATTCAAAATAATAATGATAATCGATAAAAGTAATATATT
64487664 TTAATCTTGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (45 bp):
ATAAATATTCAAAATAATAATGATAATCGATAAAAGTAATATATT
Found at i:64496285 original size:2 final size:2
Alignment explanation
Indices: 64496278--64496302 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
64496268 TACCCAGATA
64496278 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
64496303 ACCAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:64502050 original size:17 final size:17
Alignment explanation
Indices: 64502028--64502060 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
64502018 CATCTCGCAT
*
64502028 TTTATTTCTTTTATTAC
1 TTTATTTATTTTATTAC
64502045 TTTATTTATTTTATTA
1 TTTATTTATTTTATTA
64502061 TTAATATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTTATTAC
Found at i:64508841 original size:89 final size:88
Alignment explanation
Indices: 64508748--64509054 Score: 239
Period size: 89 Copynumber: 3.4 Consensus size: 88
64508738 AGCCACTAAT
* *
64508748 CTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAATATAGCAAATCTTATCTCTCCAAAATTATG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAATATAGCAAATCTTATCTCTCCAAAATT-TG
64508813 GTAGAGCAGATTGAAATTATAAAC
65 GTAGAGCAGATTGAAATTATAAAC
* * * * * ** *
64508837 CTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGT-TA-CAAATCCTATAC-C-CCTGAAGTT
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAA-TATAGCAAATCTTAT-CTCTCCAAAATTT
* * * *
64508898 -GTAGTGGGATGGGTTGAAATCATTATGGCAAAT
64 GGTAG-AGCA--GATTG-AA--ATTAT---AAAC
* * **
64508931 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAACCTTATCTCTCTGAAATTGTG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAATATAGCAAATCTTATCTCTCCAAAATT-TG
* *
64508996 GTAGAGCAAATT-AAAGTTACAAAC
65 GTAGAGCAGATTGAAA-TTATAAAC
* * *
64509020 CTTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAA
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAA
64509055 GTTACAAATC
Statistics
Matches: 168, Mismatches: 32, Indels: 36
0.71 0.14 0.15
Matches are distributed among these distances:
85 4 0.02
86 3 0.02
87 5 0.03
88 14 0.08
89 71 0.42
90 1 0.01
91 6 0.04
92 3 0.02
93 2 0.01
94 37 0.22
95 11 0.07
96 4 0.02
97 3 0.02
98 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (88 bp):
CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAATATAGCAAATCTTATCTCTCCAAAATTTGG
TAGAGCAGATTGAAATTATAAAC
Found at i:64508864 original size:44 final size:44
Alignment explanation
Indices: 64508705--64509355 Score: 331
Period size: 44 Copynumber: 14.4 Consensus size: 44
64508695 ATGGCAGATA
* ***
64508705 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACT-AATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTA-TAAATC
* *
64508749 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTG-AATATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAT-TA-TAAATC
** * * *
64508794 TTATCTCTCCAAAATTATG--GTAGAGCAGATTGAAATTATAAACC
1 TTATCTC-CCTGAAGT-TGCAGTGGAGCAGATTGAAATTATAAATC
* * * * *
64508838 TTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATAAATC
* * *
64508882 CTATAC-CCCTGAAGTTGTAGTGG-G-ATGGGTTGAAATCATTATGGCAAATC
1 TTAT-CTCCCTGAAGTTGCAGTGGAGCA--GATTG-AA--ATTAT---AAATC
* * *
64508932 TTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGA-TAGCAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTA-TAAATC
* * ** * * * *
64508977 TTATCTCTCTGAAATTGTGGTAGAGCAAATT-AAAGTTACAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTATAAATC
* * * * * *
64509021 TTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATAAATC
* ** * *
64509065 CTATAC-CCCTGAAGTTATAATGG-G-ATGGGTTGAAATCATTATGGTAAATC
1 TTAT-CTCCCTGAAGTTGCAGTGGAGCA--GATTG-AA--ATTA---TAAATC
* * *** *
64509115 TTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGCCATTAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATAAATC
* * * *
64509159 TTATCTTCTTGAAGTTGCAGTGAAGCAGATTGAAGA-TAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTA-TAAATC
* * * *
64509204 TTATCTCTCTGAAGTTGCAGTAGAGCATA-TGAAAATTATAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAATTATAAATC
* * *
64509248 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTATAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATAAATC
* * ** ** **
64509292 TTATCTCTCTAAAGTTATAGTGGAGCATTTTGAAATTAGCGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTA-TAAATC
*
64509337 TTATCTCTCTGAAGTTGCA
1 TTATCTCCCTGAAGTTGCA
64509356 ATAGAGTAAA
Statistics
Matches: 467, Mismatches: 99, Indels: 81
0.72 0.15 0.13
Matches are distributed among these distances:
42 4 0.01
43 10 0.02
44 257 0.55
45 114 0.24
46 8 0.02
47 11 0.02
48 1 0.00
49 6 0.01
50 52 0.11
51 2 0.00
52 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTATAAATC
Found at i:64508947 original size:94 final size:94
Alignment explanation
Indices: 64508837--64509149 Score: 313
Period size: 94 Copynumber: 3.4 Consensus size: 94
64508827 AATTATAAAC
* * * *
64508837 CTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGTTACAAATCCTATACCCCTGAAGTTGTAG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACAAATCCTATACCCCTGAAGTTGTAG
64508902 TGGGATGGGTTGAAATCATTATGGCAAAT
66 TGGGATGGGTTGAAATCATTATGGCAAAT
* * *
64508931 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAA-CCT-TATCTCTCTGAAATTG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTA-CAAATCCTATA-C-CCCTGAAGTTG
* * ** * *
64508994 TGGT-AGA-GCAAATT-AAA--GTTA---CAAAC
63 TAGTGGGATG--GGTTGAAATCATTATGGCAAAT
* * * * *
64509020 CTTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAAGTTACAAATCCTATACCCCTGAAGTTATAA
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACAAATCCTATACCCCTGAAGTTGTAG
*
64509085 TGGGATGGGTTGAAATCATTATGGTAAAT
66 TGGGATGGGTTGAAATCATTATGGCAAAT
* * *
64509114 CTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAG
64509150 CCATTAATCT
Statistics
Matches: 174, Mismatches: 30, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
88 16 0.09
89 48 0.28
90 3 0.02
91 3 0.02
92 3 0.02
93 3 0.02
94 80 0.46
95 18 0.10
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (94 bp):
CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACAAATCCTATACCCCTGAAGTTGTAG
TGGGATGGGTTGAAATCATTATGGCAAAT
Found at i:64509000 original size:183 final size:183
Alignment explanation
Indices: 64508745--64509149 Score: 623
Period size: 183 Copynumber: 2.2 Consensus size: 183
64508735 TGAAGCCACT
* * *
64508745 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAATATAGCAAATCTTATCTCTCCAAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAACCTTATCTCTCCAAAATT
* * * *
64508810 ATGGTAGAGCAGATTGAAA-TTATAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGT
66 ATGGTAGAGCAAATT-AAAGTTACAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTTGAAGT
* *
64508874 TACAAATCCTATACCCCTGAAGTTGTAGTGGGATGGGTTGAAATCATTATGGCA
130 TACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
* **
64508928 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAACCTTATCTCTCTGAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAACCTTATCTCTCCAAAATT
* * * *
64508993 GTGGTAGAGCAAATTAAAGTTACAAACCTTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAAGTT
66 ATGGTAGAGCAAATTAAAGTTACAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTTGAAGTT
*
64509058 ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGTA
131 ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
* *
64509111 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
64509150 CCATTAATCT
Statistics
Matches: 201, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
182 3 0.01
183 198 0.99
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (183 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAACCTTATCTCTCCAAAATT
ATGGTAGAGCAAATTAAAGTTACAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTTGAAGTT
ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
Found at i:64509209 original size:183 final size:183
Alignment explanation
Indices: 64508745--64509222 Score: 552
Period size: 183 Copynumber: 2.6 Consensus size: 183
64508735 TGAAGCCACT
* * * * * **
64508745 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAATATAGCAAATCTTATCTCTCCAAAATT
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAGCAAACCTTATCTCTCTGAAATT
*** * * * * * * *
64508810 ATGGTAGAGCAGATTGAAA-TTATAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGT
66 GCAGTAGAGCAAATT-AAAGATACAAACCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGT
* *
64508874 TACAAATCCTATACCCCTGAAGTTGTAGTGGGATGGGTTGAAATCATTATGGCA
130 TACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
*
64508928 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAACCTTATCTCTCTGAAATT
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAGCAAACCTTATCTCTCTGAAATT
** * *
64508993 GTGGTAGAGCAAATTAAAGTTACAAACCTTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAAGTT
66 GCAGTAGAGCAAATTAAAGATACAAACCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGTT
*
64509058 ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGTA
131 ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
* * * * ** * *
64509111 AATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGCCA-TTAATCTTATCT-TCTTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAGCAAACCTTATCTCTC-TGAAAT
* * *
64509174 TGCAGT-GAAGCAGATTGAAGATAGCAAATCTTATCT-CTCTGAAGTTGCA
65 TGCAGTAG-AGCAAATTAAAGATA-CAAACCTTATCTCCT-TGAAGTTGCA
64509223 GTAGAGCATA
Statistics
Matches: 258, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
181 3 0.01
182 35 0.14
183 220 0.85
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (183 bp):
AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAGCAAACCTTATCTCTCTGAAATT
GCAGTAGAGCAAATTAAAGATACAAACCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGTT
ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
Found at i:64509326 original size:89 final size:88
Alignment explanation
Indices: 64509155--64509355 Score: 246
Period size: 89 Copynumber: 2.3 Consensus size: 88
64509145 TGAAGCCATT
*
64509155 AATCTTATCT-TCTTGAAGTTGCAGTGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGT
1 AATCTTATCTCTC-TGAAGTTGCAGTGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTAAAGT
* *
64509219 TGCAGTAGAGCATATGAAAATTA-T
65 TACAGTAGAGCATATG-AAATTACG
* * * *
64509243 AAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-TAGATCTTATCTCTCTAAAGT
1 AA-TCTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTAAAGT
* * *
64509307 TATAGTGGAGCATTTTGAAATTAGCG
65 TACAGTAGAGCA-TATGAAATTA-CG
64509333 AATCTTATCTCTCTGAAGTTGCA
1 AATCTTATCTCTCTGAAGTTGCA
64509356 ATAGAGTAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
88 35 0.36
89 59 0.60
90 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (88 bp):
AATCTTATCTCTCTGAAGTTGCAGTGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTAAAGTT
ACAGTAGAGCATATGAAATTACG
Found at i:64509385 original size:133 final size:133
Alignment explanation
Indices: 64509113--64509414 Score: 328
Period size: 133 Copynumber: 2.3 Consensus size: 133
64509103 TTATGGTAAA
* *
64509113 TCTTATCTC-CTTGAAGTTGCAGTGGAGTAGATTGAAGCCATTAATCTTATCTTCTTGAAGTTGC
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGTAGATTGAAGCCATTAATCTTATCTTCTTAAAGTTAC
* * *
64509177 AGTGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCATATGAAAATTA
65 AGTGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAATAGAGCAAATGAAAACTA
*
64509242 TAAG
130 GAAG
* **
64509246 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-TAGATCTTATC-TCTCTAAAGTTA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGCCATTA-ATCTTATCTTCT-TAAAGTTA
* * ** * * * *
64509309 TAGTGGAGCATTTTGAA-ATTAGCGAATCTTATCTCTCTGAAGTTGCAATAGAGTAAATTAAAGC
64 CAGTGAAGCAGATTGAAGA-TAGCAAATCTTATCTCTCTGAAGTTGCAATAGAGCAAATGAAAAC
64509373 TACGAA-
128 TA-GAAG
* * *
64509379 TGTTATCT-TCCTCAAGTTGCAGCGGAGTAGATTGAA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGTAGATTGAA
64509415 ACCACAATTC
Statistics
Matches: 142, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
132 7 0.05
133 132 0.93
134 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (133 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGCCATTAATCTTATCTTCTTAAAGTTACA
GTGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAATAGAGCAAATGAAAACTAG
AAG
Found at i:64511169 original size:17 final size:17
Alignment explanation
Indices: 64511147--64511179 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
64511137 CATCTCGCAT
*
64511147 TTTATTTCTTTTATTAC
1 TTTATTTATTTTATTAC
64511164 TTTATTTATTTTATTA
1 TTTATTTATTTTATTA
64511180 TTAATATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTTATTAC
Found at i:64524134 original size:20 final size:20
Alignment explanation
Indices: 64524099--64524139 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
64524089 TAATGTAAAA
64524099 TAAAAAAATTACAAT-ATTT
1 TAAAAAAATTACAATAATTT
64524118 TAAAATAAATATA-AATAATTT
1 TAAAA-AAAT-TACAATAATTT
64524139 T
1 T
64524140 GTTTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAAAATTACAATAATTT
Found at i:64526607 original size:17 final size:16
Alignment explanation
Indices: 64526582--64526616 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
64526572 TATTTGGAAC
*
64526582 TTTGTATTTTTAATATT
1 TTTGAATTTTTAAT-TT
64526599 TTTGAATTTTTAATTT
1 TTTGAATTTTTAATTT
64526615 TT
1 TT
64526617 ATAGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTGAATTTTTAATTT
Found at i:64538765 original size:18 final size:19
Alignment explanation
Indices: 64538724--64538772 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
64538714 AACGTTATTA
64538724 TTTTTAAAAATTATAACAT
1 TTTTTAAAAATTATAACAT
* *
64538743 ATTTTAAAAATTAT-ATAT
1 TTTTTAAAAATTATAACAT
*
64538761 TTTTTAATAATT
1 TTTTTAAAAATT
64538773 TTATTTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTAAAAATTATAACAT
Found at i:64538800 original size:27 final size:26
Alignment explanation
Indices: 64538752--64538806 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
64538742 TATTTTAAAA
64538752 ATTATATATTTTTTAATAATTTTATTT
1 ATTATATATTTTTTAATAATTTT-TTT
64538779 ATTATA-ATTTTTTGAA-ATATTTTTTT
1 ATTATATATTTTTT-AATA-ATTTTTTT
64538805 AT
1 AT
64538807 ATTTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
ATTATATATTTTTTAATAATTTTTTT
Found at i:64542986 original size:46 final size:46
Alignment explanation
Indices: 64542936--64543028 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
64542926 TTACTTTAAT
*
64542936 TAAACTCAATTTATTATCAACATGCTTAATAACATCTGAAAAAACA
1 TAAACTCAATTTATTATCAACATGCTTAATAACATCCGAAAAAACA
64542982 TAAACTCAATTTATTATCAACATGCTTAATAACATCCGAAAAAACA
1 TAAACTCAATTTATTATCAACATGCTTAATAACATCCGAAAAAACA
64543028 T
1 T
64543029 TCCATAAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.30
Consensus pattern (46 bp):
TAAACTCAATTTATTATCAACATGCTTAATAACATCCGAAAAAACA
Found at i:64562579 original size:144 final size:144
Alignment explanation
Indices: 64562250--64562583 Score: 366
Period size: 144 Copynumber: 2.3 Consensus size: 144
64562240 AGGGTAAATT
* * * ** * **
64562250 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATGTTGAGGCCAATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGGCCAATGCCATGTCCCA
* * * *
64562315 GACATGGTCTTACACTAGCTCTCGTCTCAATACCGATGCCATATCCCAGACATGGTCTTACACTG
66 GACATGGTCTTACACTAGCTCTCGACACAATACCAATGCCATATCCCAAACATGGTCTTACACTG
* * **
64562380 GCTCTTATGTTGTG
131 GCTCTCATATCATG
* * * * ** * *
64562394 GCTGATACCATGCCCCAGACATGGTTTTACACTAGTGCACATATCAATGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGGCCAATGCCATGTCCCA
* * * * *
64562459 GACATGGTCTTACACTGGCTCTC-ACA-ACATCGCCAATGCTATGTTCCAAACATGGTCTTACAC
66 GACATGGTCTTACACTAGCTCTCGACACA-AT-ACCAATGCCATATCCCAAACATGGTCTTACAC
64562522 TGGCTCTCATATCATG
129 TGGCTCTCATATCATG
*
64562538 GCCGATGCCATGTCCCAGACATGGTCTTACACTACCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
64562584 CCCAAATGTC
Statistics
Matches: 153, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
142 1 0.01
143 3 0.02
144 149 0.97
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (144 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAGGCCAATGCCATGTCCCA
GACATGGTCTTACACTAGCTCTCGACACAATACCAATGCCATATCCCAAACATGGTCTTACACTG
GCTCTCATATCATG
Found at i:64562583 original size:48 final size:48
Alignment explanation
Indices: 64562250--64562570 Score: 299
Period size: 48 Copynumber: 6.7 Consensus size: 48
64562240 AGGGTAAATT
* * * * *
64562250 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATGTTGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCATG
* * * * *
64562298 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-ATG
* * ** * **
64562346 ACCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTTATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* * * * *
64562394 GCTGATACCATGCCCCAGACATGGTTTTACACTAG-TGCACATATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CACATATC-ATG
* * * *
64562442 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
* * * * *
64562490 GCCAATGCTATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
64562538 GCCGATGCCATGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
64562571 ACCACACATA
Statistics
Matches: 217, Mismatches: 49, Indels: 14
0.77 0.17 0.05
Matches are distributed among these distances:
47 5 0.02
48 210 0.97
49 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
Found at i:64568705 original size:32 final size:30
Alignment explanation
Indices: 64568634--64568715 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 30
64568624 GTATACAATT
* *
64568634 GTAACATAAATATTTAATTACTTTTTATTTAA
1 GTAA-ATAGATATTT-ATTACTTATTATTTAA
64568666 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
*
64568698 GTTAATAGATATTTATTA
1 GTAAATAGATATTTATTA
64568716 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
30 10 0.22
31 10 0.22
32 25 0.56
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (30 bp):
GTAAATAGATATTTATTACTTATTATTTAA
Found at i:64578025 original size:51 final size:51
Alignment explanation
Indices: 64577947--64578074 Score: 220
Period size: 51 Copynumber: 2.5 Consensus size: 51
64577937 ATTTCCTCAA
* *
64577947 AGCTCTTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
1 AGCTTTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
64577998 AGCTTTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
1 AGCTTTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
*
64578049 AGCTTTTTTTCTTTCTCTTTTTTTTC
1 AGCTTTTTTTCTTTCT-TTTTCTTTC
64578075 ATCATCATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 65 0.89
52 8 0.11
ACGTcount: A:0.16, C:0.23, G:0.10, T:0.51
Consensus pattern (51 bp):
AGCTTTTTTTCTTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAG
Found at i:64584219 original size:38 final size:39
Alignment explanation
Indices: 64584127--64584225 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 39
64584117 GTGGTTCCTT
*
64584127 ATGGTGTGTAGGGTTGGATGGGTTGATTAAATCCCCATAC
1 ATGGTGTGTAGGGTTGGATGGGTCGATTAAATCCCCA-AC
* * **
64584167 TTGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCC-AC
1 ATGGTGTGTAGGGTTGGATGGGTCGATTAAATCCCCAAC
64584205 ATGGTGTG-ATGGGTTGGATGG
1 ATGGTGTGTA-GGGTTGGATGG
64584226 AGATGGTGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
37 1 0.02
38 19 0.37
40 31 0.61
ACGTcount: A:0.16, C:0.12, G:0.38, T:0.33
Consensus pattern (39 bp):
ATGGTGTGTAGGGTTGGATGGGTCGATTAAATCCCCAAC
Found at i:64585408 original size:32 final size:30
Alignment explanation
Indices: 64585343--64585415 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 30
64585333 TGTAACATAA
* *
64585343 ATATTTATTTACTTTTTATTTAAGTAGATAG
1 ATATTTA-TTACTTATTATTTAAGTAGAAAG
64585374 ATATTTATTACTTATTATTATTAAGTTA-AAAG
1 ATATTTATTACTTATTA-T-TTAAG-TAGAAAG
64585406 ATATTTATTA
1 ATATTTATTA
64585416 ATTAAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.24
31 8 0.22
32 18 0.49
33 2 0.05
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (30 bp):
ATATTTATTACTTATTATTTAAGTAGAAAG
Found at i:64587125 original size:5 final size:5
Alignment explanation
Indices: 64587115--64587143 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
64587105 GTTTAGTAAA
64587115 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
64587144 TATATGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:64594843 original size:14 final size:14
Alignment explanation
Indices: 64594824--64594852 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
64594814 ACTTCTCGTG
64594824 GAATCTTAGTAGGA
1 GAATCTTAGTAGGA
64594838 GAATCTTAGTAGGA
1 GAATCTTAGTAGGA
64594852 G
1 G
64594853 GCATTCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (14 bp):
GAATCTTAGTAGGA
Found at i:64594941 original size:21 final size:21
Alignment explanation
Indices: 64594917--64594967 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
64594907 GAGTGAGTTA
64594917 GATTAATTTATTATTTTAGGT
1 GATTAATTTATTATTTTAGGT
*
64594938 GATTAATTTATTTTTTTAGGT
1 GATTAATTTATTATTTTAGGT
64594959 GATTAATTT
1 GATTAATTT
64594968 GGGATAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (21 bp):
GATTAATTTATTATTTTAGGT
Found at i:64605795 original size:14 final size:14
Alignment explanation
Indices: 64605776--64605802 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
64605766 AAATTTTAAC
64605776 AAAGTAAAATAAAT
1 AAAGTAAAATAAAT
64605790 AAAGTAAAATAAA
1 AAAGTAAAATAAA
64605803 GTTCCTATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (14 bp):
AAAGTAAAATAAAT
Found at i:64609498 original size:79 final size:82
Alignment explanation
Indices: 64609387--64609571 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
64609377 GCTACTCGTT
* *
64609387 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64609450 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
64609467 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
64609530 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
64609547 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64609572 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:64609571 original size:40 final size:40
Alignment explanation
Indices: 64609368--64609571 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
64609358 CGGAATTTAA
** *
64609368 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64609408 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
64609448 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64609487 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
64609527 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
64609567 CCGGA
1 CCGGA
64609572 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64617471 original size:79 final size:82
Alignment explanation
Indices: 64617360--64617544 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
64617350 GCTACTCGTT
* *
64617360 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64617423 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
64617440 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
64617503 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
64617520 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64617545 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:64617544 original size:40 final size:40
Alignment explanation
Indices: 64617341--64617544 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
64617331 CGGAATTTAA
** *
64617341 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64617381 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
64617421 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64617460 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
64617500 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
64617540 CCGGA
1 CCGGA
64617545 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64621813 original size:46 final size:47
Alignment explanation
Indices: 64621724--64621894 Score: 151
Period size: 46 Copynumber: 3.7 Consensus size: 47
64621714 GGGGTAAGGT
* * *
64621724 GCCGATGCCATGTCCCATACATGGTCTTACACT-GACA-GATCTCGTA-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAAATACG-TCTCG-AG
64621770 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAAATTACGTCTCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAAA-TACGTCTCGAG
* * * * *
64621816 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTA--AATACGTCTCGAG
* *
64621862 GCCGATGTCATGTCCTAAACATGGTCTTACACT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT
64621895 GGCTCTCAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
44 10 0.09
45 15 0.14
46 57 0.53
47 15 0.14
48 11 0.10
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAAATACGTCTCGAG
Found at i:64626866 original size:20 final size:20
Alignment explanation
Indices: 64626841--64626883 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
64626831 TTCTAAATGC
64626841 ACTTGTGGAGTTTTTTTCTT
1 ACTTGTGGAGTTTTTTTCTT
64626861 ACTTGTGGAGTTTTTTTCTT
1 ACTTGTGGAGTTTTTTTCTT
64626881 ACT
1 ACT
64626884 CCGTTAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.58
Consensus pattern (20 bp):
ACTTGTGGAGTTTTTTTCTT
Found at i:64628341 original size:166 final size:166
Alignment explanation
Indices: 64628067--64628398 Score: 646
Period size: 166 Copynumber: 2.0 Consensus size: 166
64628057 GACAACATGA
*
64628067 ATAGATAGATTCTGATTTAAAATCCACGTATGTTTATGATGGTTATTATGAAATAAAAGATCAAT
1 ATAGATAGATTCTGATTTAAAATCCACGTATGTTTATGATGGTTATTATAAAATAAAAGATCAAT
*
64628132 AGAGGTGTTTAGAAGTCTGCCCTACCAAATTTGTTACATTCCCTAAAGTAAATGCAAACATAAAG
66 AGAGGTGTTTAGAAGTCTGCCCTACCAAATTTGTTACATTCCCTAAAGTAAATACAAACATAAAG
64628197 AAAATAAAAGATATAATTATGGACCACTGAGAGTAG
131 AAAATAAAAGATATAATTATGGACCACTGAGAGTAG
64628233 ATAGATAGATTCTGATTTAAAATCCACGTATGTTTATGATGGTTATTATAAAATAAAAGATCAAT
1 ATAGATAGATTCTGATTTAAAATCCACGTATGTTTATGATGGTTATTATAAAATAAAAGATCAAT
64628298 AGAGGTGTTTAGAAGTCTGCCCTACCAAATTTGTTACATTCCCTAAAGTAAATACAAACATAAAG
66 AGAGGTGTTTAGAAGTCTGCCCTACCAAATTTGTTACATTCCCTAAAGTAAATACAAACATAAAG
64628363 AAAATAAAAGATATAATTATGGACCACTGAGAGTAG
131 AAAATAAAAGATATAATTATGGACCACTGAGAGTAG
64628399 GAACATAGTA
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 164 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (166 bp):
ATAGATAGATTCTGATTTAAAATCCACGTATGTTTATGATGGTTATTATAAAATAAAAGATCAAT
AGAGGTGTTTAGAAGTCTGCCCTACCAAATTTGTTACATTCCCTAAAGTAAATACAAACATAAAG
AAAATAAAAGATATAATTATGGACCACTGAGAGTAG
Found at i:64629718 original size:297 final size:297
Alignment explanation
Indices: 64629184--64629783 Score: 1191
Period size: 297 Copynumber: 2.0 Consensus size: 297
64629174 GAAGATTTTG
64629184 ACATATTCTTTGAAGCGAATACTGCATATAATTATTTGGAAATTATATTTATTGACTTAGTGGCA
1 ACATATTCTTTGAAGCGAATACTGCATATAATTATTTGGAAATTATATTTATTGACTTAGTGGCA
64629249 TTATAGATTTCATATTGATTTAGACATTTCTAGTAGTAAATGTCATAATAGTACTTATATGTGGA
66 TTATAGATTTCATATTGATTTAGACATTTCTAGTAGTAAATGTCATAATAGTACTTATATGTGGA
64629314 TACAAATTAAAAGGAATGATAATAAAATCATCAATTTGTTATAATTTAGTACAATTGAAATACAA
131 TACAAATTAAAAGGAATGATAATAAAATCATCAATTTGTTATAATTTAGTACAATTGAAATACAA
64629379 GTTAAAGTAAACCAGAAGTTTACTAATACAAATGCATTTACTACTTGGCGTGACCAGTTAGACTG
196 GTTAAAGTAAACCAGAAGTTTACTAATACAAATGCATTTACTACTTGGCGTGACCAGTTAGACTG
64629444 TCCTGGATTATATATGATGCGAAAATTAATTGAGAAT
261 TCCTGGATTATATATGATGCGAAAATTAATTGAGAAT
64629481 ACATATTCTTTGAAGCGAATACTGCATATAATTATTTGGAAATTATATTTATTGACTTAGTGGCA
1 ACATATTCTTTGAAGCGAATACTGCATATAATTATTTGGAAATTATATTTATTGACTTAGTGGCA
64629546 TTATAGATTTCATATTGATTTAGACATTTCTAGTAGTAAATGTCATAATAGTACTTATATGTGGA
66 TTATAGATTTCATATTGATTTAGACATTTCTAGTAGTAAATGTCATAATAGTACTTATATGTGGA
64629611 TACAAATTAAAAGGAATGATAATAAAATCATCAATTTGTTATAATTTAGTACAATTGAAATACAA
131 TACAAATTAAAAGGAATGATAATAAAATCATCAATTTGTTATAATTTAGTACAATTGAAATACAA
64629676 GTTAAAGTAAACCAGAAGTTTACTAATACAAATGCATTTACTACTTGGCGTGACCAGTTAGACTG
196 GTTAAAGTAAACCAGAAGTTTACTAATACAAATGCATTTACTACTTGGCGTGACCAGTTAGACTG
64629741 TCCTGGATTATATATGATGCGAAAATTAATTGAGAAT
261 TCCTGGATTATATATGATGCGAAAATTAATTGAGAAT
*
64629778 TCATAT
1 ACATAT
64629784 GGACATTCAT
Statistics
Matches: 302, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
297 302 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (297 bp):
ACATATTCTTTGAAGCGAATACTGCATATAATTATTTGGAAATTATATTTATTGACTTAGTGGCA
TTATAGATTTCATATTGATTTAGACATTTCTAGTAGTAAATGTCATAATAGTACTTATATGTGGA
TACAAATTAAAAGGAATGATAATAAAATCATCAATTTGTTATAATTTAGTACAATTGAAATACAA
GTTAAAGTAAACCAGAAGTTTACTAATACAAATGCATTTACTACTTGGCGTGACCAGTTAGACTG
TCCTGGATTATATATGATGCGAAAATTAATTGAGAAT
Found at i:64633486 original size:29 final size:29
Alignment explanation
Indices: 64633446--64633508 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
64633436 AATTAACTTT
* *
64633446 AAAATTTAAAATTTTTAAAAAAATCA-TA
1 AAAATTTAAAATTATAAAAAAAATCATTA
*
64633474 AAAATTATAAAATTATAAAAAAAATTATTA
1 AAAATT-TAAAATTATAAAAAAAATCATTA
64633504 AAAAT
1 AAAAT
64633509 ATCAATACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 6 0.20
29 17 0.57
30 7 0.23
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAATTTAAAATTATAAAAAAAATCATTA
Found at i:64634697 original size:26 final size:26
Alignment explanation
Indices: 64634639--64634697 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 26
64634629 TTAATTTTTA
64634639 TTATTTAAATTTGAAAAAATATATTT
1 TTATTTAAATTTGAAAAAATATATTT
*
64634665 TAAATTTAAATTT-AAAAAA-AGTATTAT
1 T-TATTTAAATTTGAAAAAATA-TATT-T
64634692 TTATTT
1 TTATTT
64634698 TGAATTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
25 1 0.04
26 15 0.54
27 12 0.43
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
TTATTTAAATTTGAAAAAATATATTT
Found at i:64639824 original size:72 final size:72
Alignment explanation
Indices: 64639707--64639854 Score: 296
Period size: 72 Copynumber: 2.1 Consensus size: 72
64639697 TAAGTAGTGA
64639707 TATATAACTTTTGTTTTGATTTGAAGTCCACATAATTGCTAAAAGAGTTCATAGTCCCAACTAAT
1 TATATAACTTTTGTTTTGATTTGAAGTCCACATAATTGCTAAAAGAGTTCATAGTCCCAACTAAT
64639772 ATAATGT
66 ATAATGT
64639779 TATATAACTTTTGTTTTGATTTGAAGTCCACATAATTGCTAAAAGAGTTCATAGTCCCAACTAAT
1 TATATAACTTTTGTTTTGATTTGAAGTCCACATAATTGCTAAAAGAGTTCATAGTCCCAACTAAT
64639844 ATAATGT
66 ATAATGT
64639851 TATA
1 TATA
64639855 ATTAGGTAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (72 bp):
TATATAACTTTTGTTTTGATTTGAAGTCCACATAATTGCTAAAAGAGTTCATAGTCCCAACTAAT
ATAATGT
Found at i:64641767 original size:22 final size:22
Alignment explanation
Indices: 64641742--64641784 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
64641732 TATCCAAACA
64641742 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* *
64641764 ATAATAGTAAAATGGTAGCAA
1 ATAATAATAAAATAGTAGCAA
64641785 AATAGAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:64641797 original size:22 final size:22
Alignment explanation
Indices: 64641749--64641799 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
64641739 ACAATAATAA
* *
64641749 TAAAATAGTAGCAACATAATAG
1 TAAAATAGTAGCAAAATAAGAG
*
64641771 TAAAATGGTAGCAAAATAGAGAG
1 TAAAATAGTAGCAAAATA-AGAG
64641794 -AAAATA
1 TAAAATA
64641800 ATAAGAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.57, C:0.06, G:0.18, T:0.20
Consensus pattern (22 bp):
TAAAATAGTAGCAAAATAAGAG
Found at i:64643374 original size:15 final size:14
Alignment explanation
Indices: 64643356--64643392 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
64643346 TAGTTTAAAA
*
64643356 AATAATAATGATATT
1 AATAATAATAATA-T
64643371 AATAATAATAATAT
1 AATAATAATAATAT
64643385 AATAATAA
1 AATAATAA
64643393 CTATAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
AATAATAATAATAT
Found at i:64643521 original size:17 final size:18
Alignment explanation
Indices: 64643501--64643546 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
64643491 TATAAATAGA
64643501 AATATAATAATAGTAA-T
1 AATATAATAATAGTAATT
* *
64643518 AATATATTAA-ATTAATT
1 AATATAATAATAGTAATT
*
64643535 AATTTAATAATA
1 AATATAATAATA
64643547 AAATAGAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 4 0.17
17 18 0.78
18 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AATATAATAATAGTAATT
Found at i:64644247 original size:15 final size:15
Alignment explanation
Indices: 64644229--64644268 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
64644219 TTAAACATAA
64644229 ATGAAATAAAAAAAC
1 ATGAAATAAAAAAAC
*
64644244 ATGAAA-AGAAAAAC
1 ATGAAATAAAAAAAC
64644258 A-G-AATAAAAAA
1 ATGAAATAAAAAA
64644269 TCACCTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 2 0.09
13 6 0.27
14 8 0.36
15 6 0.27
ACGTcount: A:0.75, C:0.05, G:0.10, T:0.10
Consensus pattern (15 bp):
ATGAAATAAAAAAAC
Found at i:64644982 original size:45 final size:45
Alignment explanation
Indices: 64644933--64645128 Score: 130
Period size: 45 Copynumber: 4.2 Consensus size: 45
64644923 TGCTCTACTA
*
64644933 CAACTTCAGGGAGATGAAACTCGCTTTCTTCAATCTACTCCACTG
1 CAACTTCAGGGAGATGAAACTCGCTATCTTCAATCTACTCCACTG
* * ** *
64644978 CAACTTCAGGGGATCAGATTTGTAACTTG-TAATCTT-AATCTGTTCCACTA
1 CAACTTCA-GGG---AGA--TGAAACTCGCT-ATCTTCAATCTACTCCACTG
* * * * * *
64645028 CAACTTCAAGGAAATGAGATTCACTATCTTCAGTCTACTCCACTG
1 CAACTTCAGGGAGATGAAACTCGCTATCTTCAATCTACTCCACTG
* * * * *
64645073 CAACTTCAGGGAGAT-AAGACTTGATTTCTTCAATCCA-TCCCATTG
1 CAACTTCAGGGAGATGAA-ACTCGCTATCTTCAATCTACT-CCACTG
64645118 CAACTTCAGGG
1 CAACTTCAGGG
64645129 GTATGGGATT
Statistics
Matches: 112, Mismatches: 28, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
44 11 0.10
45 60 0.54
46 5 0.04
49 5 0.04
50 20 0.18
51 11 0.10
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (45 bp):
CAACTTCAGGGAGATGAAACTCGCTATCTTCAATCTACTCCACTG
Found at i:64650248 original size:22 final size:19
Alignment explanation
Indices: 64650222--64650271 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 19
64650212 CATACCATTT
64650222 TAATTAAATTCTTGTCAAAAAA
1 TAATTAAATT-TT-T-AAAAAA
*
64650244 TAATT-AATTTTTATAAAA
1 TAATTAAATTTTTAAAAAA
64650262 TAATTAAATT
1 TAATTAAATT
64650272 ATACTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.38
19 5 0.19
20 2 0.08
21 4 0.15
22 5 0.19
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATTAAATTTTTAAAAAA
Found at i:64685142 original size:29 final size:29
Alignment explanation
Indices: 64685100--64685157 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
64685090 ACTTATCCCC
* *
64685100 GTGATGCTTGTTAGCTTCGTTAACGGCTT
1 GTGATGCTTGTTAGCTTCATTAACAGCTT
64685129 GTGATGCTTGTTAGCTTCATTAACAGCTT
1 GTGATGCTTGTTAGCTTCATTAACAGCTT
64685158 CTCAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (29 bp):
GTGATGCTTGTTAGCTTCATTAACAGCTT
Found at i:64686894 original size:15 final size:14
Alignment explanation
Indices: 64686876--64686912 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
64686866 TAGTTTAAAA
*
64686876 AATAATAATGATATT
1 AATAATAATAATA-T
64686891 AATAATAATAATAT
1 AATAATAATAATAT
64686905 AATAATAA
1 AATAATAA
64686913 CTAAAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
AATAATAATAATAT
Found at i:64687040 original size:20 final size:20
Alignment explanation
Indices: 64687017--64687067 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
64687007 TATAAATAGA
64687017 AATATAATAATAATAGTAA-T
1 AATATAATAATAA-AGTAATT
64687037 AATAT-AT--TAAAGTAATT
1 AATATAATAATAAAGTAATT
*
64687054 AATTTAATAATAAA
1 AATATAATAATAAA
64687068 ATAGCAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
16 5 0.19
17 8 0.31
18 2 0.08
19 2 0.08
20 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATATAATAATAAAGTAATT
Found at i:64692839 original size:27 final size:28
Alignment explanation
Indices: 64692791--64692845 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
64692781 GGGATCCATA
64692791 GATCGAGTTAATGCAACACTA-GGTGTT
1 GATCGAGTTAATGCAACACTAGGGTGTT
**
64692818 GATCGAGTTAATGCAATTCTAGGGTGTT
1 GATCGAGTTAATGCAACACTAGGGTGTT
64692846 AATTAGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GATCGAGTTAATGCAACACTAGGGTGTT
Found at i:64697664 original size:46 final size:46
Alignment explanation
Indices: 64697566--64697774 Score: 194
Period size: 46 Copynumber: 4.5 Consensus size: 46
64697556 GTGTCGATGC
* *
64697566 CATGTCCCAGACATAGTCTTACACTGAC--ACATCTTGTA-GCCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCAATG
**
64697611 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCAATG
* * * * * *
64697657 CAAGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGCCAATG
* * * *
64697703 CTATGTCCCAGACATGGTCTTACAATGGCTTTCATAAT-GTGGCCAATG
1 C-ATGTCCCAGACAT-GTCTTACACTGGCTTACAT-CTCGAGGCCAATG
*
64697751 CATGTCTCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
64697775 AGTGCACAAA
Statistics
Matches: 133, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 58 0.44
47 25 0.19
48 22 0.17
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCAATG
Found at i:64697752 original size:94 final size:92
Alignment explanation
Indices: 64697604--64697776 Score: 231
Period size: 94 Copynumber: 1.9 Consensus size: 92
64697594 ACATCTTGTA
* * **
64697604 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCTGATGCAAGTCCCAAAC
1 GCCAATGCATGTCCCAGACATGTCTTACAATGGCTTACATATCGAGGCCAATGCAAGTCCCAAAC
64697669 ATGTCTTACACTAGCTCTCGTCTCAAT
66 ATGTCTTACACTAGCTCTCGTCTCAAT
* * * *
64697696 GCCAATGCTATGTCCCAGACATGGTCTTACAATGGCTTTCATAAT-GTGGCCAATGCATGTCTCA
1 GCCAATGC-ATGTCCCAGACAT-GTCTTACAATGGCTTACAT-ATCGAGGCCAATGCAAGTCCCA
*
64697760 GACATGTCTTACACTAG
63 AACATGTCTTACACTAG
64697777 TGCACAAATG
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
92 8 0.12
93 13 0.19
94 47 0.68
95 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (92 bp):
GCCAATGCATGTCCCAGACATGTCTTACAATGGCTTACATATCGAGGCCAATGCAAGTCCCAAAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:64705379 original size:46 final size:46
Alignment explanation
Indices: 64705328--64705498 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
64705318 TCGTAGCCGC
* * * *
64705328 TGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAGGCTAA
1 TGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGCCAA
* *
64705374 TGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAA
1 TGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCAA
* * * * **
64705420 TGCCATGTCCCAGACATGGTCTTACAATGGTTCTCATAAT-GTGGCCGAA
1 TG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGCC-AA
* *
64705469 -GCATGTCTCAGACATGTCTTACATTAGCTC
1 TGCATGTCCCAGACATGTCTTACACTAGCTC
64705499 ACAAATGACC
Statistics
Matches: 102, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
46 52 0.51
47 28 0.27
48 19 0.19
49 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
TGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGCCAA
Found at i:64710479 original size:19 final size:19
Alignment explanation
Indices: 64710443--64710481 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
64710433 CTCTCCAGTC
*
64710443 ATTTTCATATCATCTCAAG
1 ATTTTCATACCATCTCAAG
* *
64710462 ATTTTCATGCCATGTCAAG
1 ATTTTCATACCATCTCAAG
64710481 A
1 A
64710482 GTTACATGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (19 bp):
ATTTTCATACCATCTCAAG
Found at i:64710489 original size:19 final size:20
Alignment explanation
Indices: 64710457--64710494 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
64710447 TCATATCATC
* *
64710457 TCAAGATTTTCATG-CCATG
1 TCAAGAGTTACATGTCCATG
64710476 TCAAGAGTTACATGTCCAT
1 TCAAGAGTTACATGTCCAT
64710495 TGAATTATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (20 bp):
TCAAGAGTTACATGTCCATG
Found at i:64721491 original size:19 final size:19
Alignment explanation
Indices: 64721467--64721504 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
64721457 GCCATGTGTG
64721467 CTACACAACCTAGAACACA
1 CTACACAACCTAGAACACA
*
64721486 CTACACGACCTAGAACACA
1 CTACACAACCTAGAACACA
64721505 GGCGTGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.37, G:0.08, T:0.11
Consensus pattern (19 bp):
CTACACAACCTAGAACACA
Found at i:64723680 original size:53 final size:54
Alignment explanation
Indices: 64723595--64723705 Score: 197
Period size: 53 Copynumber: 2.1 Consensus size: 54
64723585 GGCTTGAACC
64723595 AATTGAATCAAAACATAGAACTAGAAAAAGTTTTCCTTTCAGGGTGAAAATAGA
1 AATTGAATCAAAACATAGAACTAGAAAAAGTTTTCCTTTCAGGGTGAAAATAGA
* *
64723649 AATT-AATCAAAACATAGAACTAGAAAAAGTTTTCCTTTTAGGGTGAAAATGGA
1 AATTGAATCAAAACATAGAACTAGAAAAAGTTTTCCTTTCAGGGTGAAAATAGA
64723702 AATT
1 AATT
64723706 TTCTTTTCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 51 0.93
54 4 0.07
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.28
Consensus pattern (54 bp):
AATTGAATCAAAACATAGAACTAGAAAAAGTTTTCCTTTCAGGGTGAAAATAGA
Found at i:64724508 original size:10 final size:10
Alignment explanation
Indices: 64724483--64724511 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
64724473 TATTTCTCTT
64724483 TTTCTATTCA
1 TTTCTATTCA
64724493 -TTCTATTCA
1 TTTCTATTCA
64724502 TTTCTATTCA
1 TTTCTATTCA
64724512 AACAAGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:64733548 original size:15 final size:15
Alignment explanation
Indices: 64733530--64733559 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64733520 TCATTTTCCT
*
64733530 TTTTTTTAATATTTA
1 TTTTTATAATATTTA
64733545 TTTTTATAATATTTA
1 TTTTTATAATATTTA
64733560 AAATTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATAATATTTA
Found at i:64733623 original size:12 final size:12
Alignment explanation
Indices: 64733606--64733632 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
64733596 TTCAAACGGT
64733606 TTTTTTAAATTG
1 TTTTTTAAATTG
64733618 TTTTTTAAATTG
1 TTTTTTAAATTG
64733630 TTT
1 TTT
64733633 ATTATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTTTTAAATTG
Found at i:64733742 original size:80 final size:82
Alignment explanation
Indices: 64733566--64733762 Score: 274
Period size: 80 Copynumber: 2.4 Consensus size: 82
64733556 TTTAAAATTT
* * * *
64733566 ATATTTTAAATGTTTTATAATATCTATTTATTCAAACGGTTTTTTTAAATTGTTTTTTAAATTGT
1 ATATTTTAAATGTTTTATAATATTTATTTATTTAAACGATTTTTTTAAATTGTTTATTAAATTGT
64733631 TTATTATTTGTTTTATA
66 TTATTATTTGTTTTATA
* * * *
64733648 ATATTTTAATTGTTTTATAATATTTCTTTATTTAAAC-ATTTTTTTAATTTGTTTATT-ATTTGT
1 ATATTTTAAATGTTTTATAATATTTATTTATTTAAACGATTTTTTTAAATTGTTTATTAAATTG-
*
64733711 TTTCTTATTT-TTTTATA
65 TTTATTATTTGTTTTATA
*
64733728 ATATTTTAAATGTTTTATAATATTTGTTTATTTAA
1 ATATTTTAAATGTTTTATAATATTTATTTATTTAA
64733763 TTTTTTTTAA
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
80 44 0.43
81 26 0.25
82 33 0.32
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (82 bp):
ATATTTTAAATGTTTTATAATATTTATTTATTTAAACGATTTTTTTAAATTGTTTATTAAATTGT
TTATTATTTGTTTTATA
Found at i:64733922 original size:16 final size:17
Alignment explanation
Indices: 64733907--64733938 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
64733897 ATAAACAAAT
64733907 TAAA-AAATATT-TAAA
1 TAAACAAATATTATAAA
64733922 TAAACAAATATTATAAA
1 TAAACAAATATTATAAA
64733939 ACATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 7 0.47
17 4 0.27
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAACAAATATTATAAA
Found at i:64733956 original size:49 final size:47
Alignment explanation
Indices: 64733879--64734072 Score: 119
Period size: 49 Copynumber: 4.0 Consensus size: 47
64733869 AAACATTTAT
** *
64733879 AATATTATAAAACAAATAATAAACAAATTAAAAAATATTTAAATAAACA
1 AATATTATAAAACATTTAA-AAATAAATT-AAAAATATTTAAATAAACA
* * *
64733928 AATATTATAAAACATTTAAAATATAAATTTAAAATA-TTATA-AAATA
1 AATATTATAAAACATTTAAAA-ATAAATTAAAAATATTTAAATAAACA
* * * *
64733974 AATA--ATAAACCATTTTAAAAA-AATTTCAAAAACAAGACGTTTGAATAAACA
1 AATATTATAAAACA-TTTAAAAATAAATT---AAA-AATA--TTTAAATAAACA
* * *
64734025 TATATTATAAAACATTTAAAATATTAATTTAAAATATTATAAAATAAA
1 AATATTATAAAACATTTAAAA-ATAAATTAAAAATATT-T-AAATAAA
64734073 AAACCAAATA
Statistics
Matches: 109, Mismatches: 20, Indels: 31
0.68 0.12 0.19
Matches are distributed among these distances:
43 4 0.04
44 8 0.07
45 7 0.06
46 10 0.09
47 7 0.06
48 10 0.09
49 24 0.22
50 12 0.11
51 9 0.08
52 7 0.06
53 8 0.07
54 3 0.03
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.32
Consensus pattern (47 bp):
AATATTATAAAACATTTAAAAATAAATTAAAAATATTTAAATAAACA
Found at i:64734034 original size:81 final size:83
Alignment explanation
Indices: 64733843--64734050 Score: 214
Period size: 81 Copynumber: 2.5 Consensus size: 83
64733833 ATTTATTTAA
* * *
64733843 AAACGTTTGAATAAATAAATATTATAAAACATTTATAATATTATAAAACAAATAATAAACAAATT
1 AAACGTTTGAATAAACATATATTAT-AAACATTTAAAATATTATAAAACAAATAATAAACAAATT
64733908 AAAAAATATTTAAATAAAC
65 AAAAAATATTTAAATAAAC
* ** * *
64733927 AAA--TATT--ATAAAACATTTAAAATATAA-ATTTAAAATATTATAAAATAAATAATAAACCAT
1 AAACGT-TTGAAT-AAACATATATTATA-AACATTTAAAATATTATAAAACAAATAATAAA-CAA
* *
64733987 TTTAAAAAA-ATTTCAA-AAAC
62 ATTAAAAAATATTTAAATAAAC
64734007 AAGACGTTTGAATAAACATATATTATAAAACATTTAAAATATTA
1 AA-ACGTTTGAATAAACATATATTAT-AAACATTTAAAATATTA
64734051 ATTTAAAATA
Statistics
Matches: 100, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
80 6 0.06
81 37 0.37
82 23 0.23
83 15 0.15
84 19 0.19
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.32
Consensus pattern (83 bp):
AAACGTTTGAATAAACATATATTATAAACATTTAAAATATTATAAAACAAATAATAAACAAATTA
AAAAATATTTAAATAAAC
Found at i:64734054 original size:13 final size:13
Alignment explanation
Indices: 64734038--64734063 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64734028 ATTATAAAAC
64734038 ATTTAAAATATTA
1 ATTTAAAATATTA
64734051 ATTTAAAATATTA
1 ATTTAAAATATTA
64734064 TAAAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTAAAATATTA
Found at i:64741574 original size:18 final size:17
Alignment explanation
Indices: 64741535--64741574 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
64741525 GGATTCATTA
*
64741535 AAGTTGTGGAGTTTGTT
1 AAGTTGTGGAGTTAGTT
*
64741552 GAGTTGGTGGAGTTAGTT
1 AAGTT-GTGGAGTTAGTT
64741570 AAGTT
1 AAGTT
64741575 TGTTAGGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (17 bp):
AAGTTGTGGAGTTAGTT
Found at i:64749525 original size:27 final size:27
Alignment explanation
Indices: 64749474--64749527 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
64749464 GATGCGCGAA
*
64749474 TTTATTTATATGTATAAATTAAAATAT
1 TTTATTTATAGGTATAAATTAAAATAT
64749501 TTTATTTAT-GGT-TAATATTATAAATAT
1 TTTATTTATAGGTATAA-ATTA-AAATAT
64749528 GGATGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.12
26 6 0.25
27 15 0.62
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (27 bp):
TTTATTTATAGGTATAAATTAAAATAT
Found at i:64749591 original size:24 final size:24
Alignment explanation
Indices: 64749537--64749591 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
64749527 TGGATGAAAA
* *
64749537 AGTG-TTTATGGAATCTATTAATT
1 AGTGTTTTATGAAATCTATTAATG
* * *
64749560 TGTTTTTTATGAAATCTATTTATG
1 AGTGTTTTATGAAATCTATTAATG
64749584 AGTGTTTT
1 AGTGTTTT
64749592 GATTTTTTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.25, C:0.04, G:0.16, T:0.55
Consensus pattern (24 bp):
AGTGTTTTATGAAATCTATTAATG
Found at i:64752851 original size:43 final size:44
Alignment explanation
Indices: 64752751--64752852 Score: 161
Period size: 44 Copynumber: 2.3 Consensus size: 44
64752741 CAGATCACAT
*
64752751 TTATCACTTGTCACTGATTAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* * *
64752795 TTATCACTCGTCACTGATCAGATAAGTGTAG-TTAGGCTACCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
64752838 TTATCACTTGTCACT
1 TTATCACTTGTCACT
64752853 TGTCACTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 24 0.45
44 29 0.55
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (44 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:64754450 original size:14 final size:14
Alignment explanation
Indices: 64754431--64754464 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
64754421 TTGGTATCAA
64754431 ATTGGTTGAAATGG
1 ATTGGTTGAAATGG
**
64754445 ATTGGTTGATTTGG
1 ATTGGTTGAAATGG
64754459 ATTGGT
1 ATTGGT
64754465 CTTGGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (14 bp):
ATTGGTTGAAATGG
Found at i:64758359 original size:46 final size:46
Alignment explanation
Indices: 64758190--64758365 Score: 166
Period size: 46 Copynumber: 3.8 Consensus size: 46
64758180 TCTAACCCGC
* * * *
64758190 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGAATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
64758236 CCATAAGTGAACTCGGACTCAACTCAATGAGCTTGGATACCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--A-C--GTTCGCAT
*
64758286 CTCA-CA---AACTCGGACTCAACTCAACGAG-TCCGGACGTTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCT-CGGACGTTCGCAT
*
64758329 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
64758366 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
42 5 0.05
43 5 0.05
44 1 0.01
45 1 0.01
46 60 0.56
47 24 0.22
48 1 0.01
50 5 0.05
51 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:64762775 original size:51 final size:51
Alignment explanation
Indices: 64762694--64762810 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
64762684 ACTTCTGATC
* *
64762694 AGTGACAAGTGATAAGTTGTAGCCTCAGCTACACTTATCTAATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAACCAGTGACA
** * *
64762745 AGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGACCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAACCAGTGACA
64762796 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
64762811 ATGTGATCCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAACCAGTGACA
Done.