Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 208 of 427
Found at i:58351501 original size:20 final size:20
Alignment explanation
Indices: 58351439--58351502 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
58351429 ACTGTCTTAA
*
58351439 ATTTGTTATTTTGCATGATT
1 ATTTGTTATTCTGCATGATT
** *
58351459 ATTTGAGA-TCTGC-T-CTT
1 ATTTGTTATTCTGCATGATT
58351476 AAATTTGTTATTCTGCATGATT
1 --ATTTGTTATTCTGCATGATT
58351498 ATTTG
1 ATTTG
58351503 AGATCTACTT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 10 0.31
20 16 0.50
21 1 0.03
22 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (20 bp):
ATTTGTTATTCTGCATGATT
Found at i:58353658 original size:106 final size:105
Alignment explanation
Indices: 58353404--58354048 Score: 986
Period size: 106 Copynumber: 6.2 Consensus size: 105
58353394 ATTTTAAAAT
* * * *
58353404 TTTTATTTTATTTTGAAATTACCGAATTAAATTAAAATGTATTTAAAGTTTTA-TTTGAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATTT
* ** *
58353468 TATTTGATTTTAATTTAATCACGGAAAATGTTTTGTCTAC
66 TACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
*
58353508 TTTTA--TT-TTTTTAAATTACCTAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATTT
*
58353570 TACTTGATTTTAATTTACTCACTAAAAATATTTTGTCTAC
66 TACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
* *
58353610 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTT-ATTTTTAAATTACCTAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATT
*
58353675 TTA-TTAGATTTTAATTTAATCACAAAAAATATTTTGTCTAC
65 TTACTT-GATTTTAATTTAATCACTAAAAATATTTTGTCTAC
*
58353716 TTTTATTTTATTTTTTAAATTACCTAACTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTA-TTTTTAAATTACCTAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATT
58353781 TTA-TTAGATTTTAATTTAATCAC-AAAAATATTTTGTCTAC
65 TTACTT-GATTTTAATTTAATCACTAAAAATATTTTGTCTAC
58353821 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTA-TTTTTAAATTACCTAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATT
*
58353886 TTACTTGATTTTAATTTAATCACTAAAAATATTTTTTCTAC
65 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
** * *
58353927 TTTTATTTTATTTTTAAAATTACCTAATTAAATTAATTTTTCTTTAAAGTTTTATTTCAAATATT
1 TTTTATTTTATTTTT-AAATTACCTAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATT
*
58353992 TTACTTGATTTTAATTTAATCACTAAAAATA--TTGCCTAC
65 TTACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
58354031 -TTTATTTTATTTTTAAAT
1 TTTTATTTTATTTTTAAAT
58354049 ATTTTTTTAT
Statistics
Matches: 507, Mismatches: 24, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
101 39 0.08
102 56 0.11
103 14 0.03
104 13 0.03
105 109 0.21
106 276 0.54
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.53
Consensus pattern (105 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATTT
TACTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
Found at i:58353877 original size:211 final size:210
Alignment explanation
Indices: 58353404--58354048 Score: 1004
Period size: 211 Copynumber: 3.1 Consensus size: 210
58353394 ATTTTAAAAT
* * *
58353404 TTTTATTTTATTTTGAAATTACCGAATTAAATTAAAATGTATTTAAAGTTTTA-TTTGAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAAATGTATTTAAAGTTTTATTTTAAATATTT
** *
58353468 TATTTGATTTTAATTTAATCACGGAAAATGTTTTGTCTACTTTTA---T-TTTTTTAAATTACCT
66 TA-TTGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACCT
*
58353529 AATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTACTCACTA
130 AATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACTA
58353594 AAAATATTTTGTCTAC
195 AAAATATTTTGTCTAC
*
58353610 TTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTT-ATTTTTAAATTACCTAATTAAATTAAAATGTATTTAAAGTTTTATTTTAAATATT
58353675 TTATTAGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
65 TTATT-GATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
* *
58353740 TAACTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATTTTA-TTAGATTTTAATTTAATCAC
129 TAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATTTTACTT-GATTTTAATTTAATCAC
58353804 -AAAAATATTTTGTCTAC
193 TAAAAATATTTTGTCTAC
*
58353821 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTA-TTTTTAAATTACCTAATTAAATTAAAATGTATTTAAAGTTTTATTTTAAATATT
* * *
58353886 TTACTTGATTTTAATTTAATCACTAAAAATATTTTTTCTACTTTTATTTTATTTTTAAAATTACC
65 TTA-TTGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
* * *
58353951 TAATTAAATTAATTTTTCTTTAAAGTTTTATTTCAAATATTTTACTTGATTTTAATTTAATCACT
129 TAATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACT
*
58354016 AAAAATA--TTGCCTAC
194 AAAAATATTTTGTCTAC
58354031 -TTTATTTTATTTTTAAAT
1 TTTTATTTTATTTTTAAAT
58354049 ATTTTTTTAT
Statistics
Matches: 406, Mismatches: 21, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
206 9 0.02
207 43 0.11
208 58 0.14
209 9 0.02
210 8 0.02
211 196 0.48
212 83 0.20
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.53
Consensus pattern (210 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAAATGTATTTAAAGTTTTATTTTAAATATTT
TATTGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACCTA
ATTAAATTAAATTGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACTAA
AAATATTTTGTCTAC
Found at i:58353979 original size:317 final size:310
Alignment explanation
Indices: 58353404--58354048 Score: 1019
Period size: 317 Copynumber: 2.1 Consensus size: 310
58353394 ATTTTAAAAT
* * *
58353404 TTTTATTTTATTTTGAAATTACCGAATTAAATTAAAATGTATTTAAAGTTTTATTTGAATATTTT
1 TTTTATTTTATTTTTAAATTACCGAACTAAATTAAAATGTATTTAAAGTTTTATTTAAATATTTT
* * *
58353469 ATTTGATTTTAATTTAATCACGGAAAATGTTTTGTCTACTTTTATTTTTTTAAATTACCTAATTA
66 ATTAGATTTTAATTTAATCACGAAAAATATTTTGTCTACTTTTATTTTTTTAAATTACCTAATTA
* *
58353534 AATTAAATTGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTACTCACTAAAAAT
131 AATTAAAATGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACTAAAAAT
58353599 ATTTTGTCTACTTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTA
196 ATTTTGTCTACTTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTA
* *
58353664 TTTTAAATATTTTA-TTAGATTTTAATTTAATCACAAAAAATATTTTGTCTAC
261 TTTCAAATATTTTACTT-GATTTTAATTTAATCACAAAAAATA--TTGCCTAC
* *
58353716 TTTTATTTTATTTTTTAAATTACCTAACTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTA-TTTTTAAATTACCGAACTAAATTAAAATGTATTTAAAGTTTTA-TTTAAATATT
58353781 TTATTAGATTTTAATTTAATCAC-AAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
64 TTATTAGATTTTAATTTAATCACGAAAAATATTTTGTCTACTTTTA---T-TTTTTTAAATTACC
58353845 TAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACT
125 TAATTAAATTAAAATGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACT
* * * *
58353910 AAAAATATTTTTTCTACTTTTATTTT-ATTTTTAAAATTACCTAATTAAATTAATTTTTCTTTAA
190 AAAAATATTTTGTCTACTTTTATTTTAATTTTT-AAATTACCTAATTAAATTAAATTGTATTTAA
*
58353974 AGTTTTATTTCAAATATTTTACTTGATTTTAATTTAATCACTAAAAATATTGCCTAC
254 AGTTTTATTTCAAATATTTTACTTGATTTTAATTTAATCACAAAAAATATTGCCTAC
58354031 -TTTATTTTATTTTTAAAT
1 TTTTATTTTATTTTTAAAT
58354049 ATTTTTTTAT
Statistics
Matches: 308, Mismatches: 17, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
312 10 0.03
313 68 0.22
314 40 0.13
315 7 0.02
316 7 0.02
317 174 0.56
318 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.53
Consensus pattern (310 bp):
TTTTATTTTATTTTTAAATTACCGAACTAAATTAAAATGTATTTAAAGTTTTATTTAAATATTTT
ATTAGATTTTAATTTAATCACGAAAAATATTTTGTCTACTTTTATTTTTTTAAATTACCTAATTA
AATTAAAATGTCTTTAAAGTTTTATTTTAAATATTTTACTTGATTTTAATTTAATCACTAAAAAT
ATTTTGTCTACTTTTATTTTAATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTA
TTTCAAATATTTTACTTGATTTTAATTTAATCACAAAAAATATTGCCTAC
Found at i:58354163 original size:9 final size:9
Alignment explanation
Indices: 58354149--58354358 Score: 60
Period size: 9 Copynumber: 22.7 Consensus size: 9
58354139 TCCCATCAAC
58354149 AACTTACAT
1 AACTTACAT
58354158 AACTTACAT
1 AACTTACAT
58354167 AA--TACAT
1 AACTTACAT
*
58354174 AAATATATATCAT
1 -AA-CT-TA-CAT
58354187 ATA-TTACAT
1 A-ACTTACAT
*
58354196 AAATTACAT
1 AACTTACAT
** * *
58354205 AAGATAAAC
1 AACTTACAT
58354214 AACTTACAT
1 AACTTACAT
*
58354223 AATTTACAT
1 AACTTACAT
58354232 AACTTACAT
1 AACTTACAT
58354241 ATA-TAATACAT
1 A-ACT--TACAT
*
58354252 AAATATATATCAT
1 -AA-CT-TA-CAT
* *
58354265 ATCGTACAT
1 AACTTACAT
*
58354274 AATTTACAT
1 AACTTACAT
58354283 AA-TT-CGGAT
1 AACTTAC--AT
*
58354292 AACTTACAC
1 AACTTACAT
* *
58354301 AATTTAAAT
1 AACTTACAT
58354310 AACTTACAT
1 AACTTACAT
58354319 AA--TACAT
1 AACTTACAT
* *
58354326 AA-ATATAT
1 AACTTACAT
* *
58354334 ATCATATCAT
1 AACTTA-CAT
58354344 AACTTACAT
1 AACTTACAT
58354353 AACTTA
1 AACTTA
58354359 ATTATACTTA
Statistics
Matches: 152, Mismatches: 27, Indels: 44
0.68 0.12 0.20
Matches are distributed among these distances:
7 13 0.09
8 10 0.07
9 92 0.61
10 13 0.09
11 8 0.05
12 8 0.05
13 8 0.05
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:58354235 original size:18 final size:18
Alignment explanation
Indices: 58354152--58354321 Score: 83
Period size: 18 Copynumber: 9.0 Consensus size: 18
58354142 CATCAACAAC
58354152 TTACATAACTTACATAA-
1 TTACATAACTTACATAAT
* *
58354169 -TACATAAATATATATCATAT
1 TTACATAACT-TACAT-A-AT
* *
58354189 ATTACATAAATTACATAAG
1 -TTACATAACTTACATAAT
* * *
58354208 ATAAACAACTTACATAAT
1 TTACATAACTTACATAAT
58354226 TTACATAACTTACATATAT
1 TTACATAACTTACATA-AT
* * *
58354245 AATACATAAATATATATCATAT
1 -TTACATAACT-TACAT-A-AT
* *
58354267 CGTACATAATTTACATAAT
1 -TTACATAACTTACATAAT
*** *
58354286 TCGGATAACTTACACAAT
1 TTACATAACTTACATAAT
*
58354304 TTAAATAACTTACATAAT
1 TTACATAACTTACATAAT
58354322 ACATAAATAT
Statistics
Matches: 114, Mismatches: 29, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
16 8 0.07
17 4 0.04
18 53 0.46
19 6 0.05
20 10 0.09
21 12 0.11
22 21 0.18
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.35
Consensus pattern (18 bp):
TTACATAACTTACATAAT
Found at i:58354241 original size:74 final size:74
Alignment explanation
Indices: 58354147--58354340 Score: 246
Period size: 78 Copynumber: 2.6 Consensus size: 74
58354137 AATCCCATCA
* *
58354147 ACAACTTACATAACTTACATAATACATAAATATATATCATATATTACATAAATTACATAAGAT-A
1 ACAATTTACATAACTTACATAATACATAAATATATATCATATAGTACATAAATTACATAA-ATCA
58354211 AACAACTTAC
65 AACAACTTAC
* * * *
58354221 ATAATTTACATAACTTACATATATAATACATAAATATATATCATATCGTACATAATTTACATAAT
1 ACAATTTACATAACTTAC----ATAATACATAAATATATATCATATAGTACATAAATTACATAAA
** *
58354286 TCGGATAACTTAC
62 TCAAACAACTTAC
*
58354299 ACAATTTAAATAACTTACATAATACATAAATATATATCATAT
1 ACAATTTACATAACTTACATAATACATAAATATATATCATAT
58354341 CATAACTTAC
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
74 40 0.38
77 1 0.01
78 63 0.61
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (74 bp):
ACAATTTACATAACTTACATAATACATAAATATATATCATATAGTACATAAATTACATAAATCAA
ACAACTTAC
Found at i:58371053 original size:31 final size:31
Alignment explanation
Indices: 58371007--58371073 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
58370997 TGGTTGTATT
* *
58371007 TTTTATCCTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATACTAAATTTGCTGTATTTGGCTGCA
* * * *
58371038 TTTTATACTATATTTGTTGTATTTGGTTGGA
1 TTTTATACTAAATTTGCTGTATTTGGCTGCA
58371069 TTTTA
1 TTTTA
58371074 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.09, G:0.16, T:0.57
Consensus pattern (31 bp):
TTTTATACTAAATTTGCTGTATTTGGCTGCA
Found at i:58372393 original size:29 final size:29
Alignment explanation
Indices: 58372330--58372437 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
58372320 TTCACATACC
* * *
58372330 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
58372358 T-TCATATGGCCCATTAGGCCCAAATCACA
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
58372387 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
58372416 TTTATATAGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
58372438 GTTAGATTCA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.24
29 52 0.73
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:58372687 original size:16 final size:16
Alignment explanation
Indices: 58372662--58372708 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
58372652 GTAGCCAAAC
*
58372662 TTTCGACTTTTTGGCA
1 TTTCGACTTTTCGGCA
*
58372678 TTTCGGCTTTTCGGCA
1 TTTCGACTTTTCGGCA
*
58372694 TTTCGACATTTCGGC
1 TTTCGACTTTTCGGC
58372709 TTTTGCCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (16 bp):
TTTCGACTTTTCGGCA
Found at i:58372689 original size:24 final size:24
Alignment explanation
Indices: 58372662--58372712 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
58372652 GTAGCCAAAC
* * *
58372662 TTTCGACTTTTTGGCATTTCGGCT
1 TTTCGACATTTCGACATTTCGGCT
*
58372686 TTTCGGCATTTCGACATTTCGGCT
1 TTTCGACATTTCGACATTTCGGCT
58372710 TTT
1 TTT
58372713 GCCGATTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.22, G:0.20, T:0.49
Consensus pattern (24 bp):
TTTCGACATTTCGACATTTCGGCT
Found at i:58372691 original size:8 final size:8
Alignment explanation
Indices: 58372674--58372708 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
58372664 TCGACTTTTT
58372674 GGCATTTC
1 GGCATTTC
*
58372682 GGCTTTTC
1 GGCATTTC
58372690 GGCATTTC
1 GGCATTTC
*
58372698 GACATTTC
1 GGCATTTC
58372706 GGC
1 GGC
58372709 TTTTGCCGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.11, C:0.26, G:0.26, T:0.37
Consensus pattern (8 bp):
GGCATTTC
Found at i:58375800 original size:40 final size:40
Alignment explanation
Indices: 58375741--58375909 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
58375731 ACGGACTTTA
* * *
58375741 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
58375781 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
58375821 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
58375861 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
58375901 CCCGGATAT
1 CCCGGATAT
58375910 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:58383000 original size:40 final size:40
Alignment explanation
Indices: 58382941--58383109 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
58382931 ACGGACTTTA
* * *
58382941 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
58382981 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
58383021 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
58383061 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
58383101 CCCGGATAT
1 CCCGGATAT
58383110 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:58388865 original size:49 final size:48
Alignment explanation
Indices: 58388801--58389147 Score: 549
Period size: 49 Copynumber: 7.2 Consensus size: 48
58388791 ATGATAGTAT
58388801 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
58388849 CATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
58388898 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
58388947 CATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
58388996 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-
1 -ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
58389044 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT-
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
58389091 ATGTGAT-AGGACCGAGTGGTCAACGTGATGGATGTGAAAGTGTATA-A
1 ATGTGATAAGG-CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
58389138 ATGTGATAAG
1 ATGTGATAAG
58389148 TCCCGAAGGG
Statistics
Matches: 286, Mismatches: 9, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
46 3 0.01
47 90 0.31
48 2 0.01
49 191 0.67
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (48 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:58390035 original size:58 final size:58
Alignment explanation
Indices: 58389945--58390061 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
58389935 CCATGCGAAA
*
58389945 ATGGCTTAAGTATACTTTGATCATAGCATTATAATCGTTTTGTATGTTGTCCGTCGAG
1 ATGGCTTAAGTATACTTTGATCATAGCATTATAATCGTTTTGTATGTTGTCCATCGAG
58390003 ATGGCTTAAGTATACTTTGATCATAGCATTATAATCGTTTTGTATGTTGTCCATCGAG
1 ATGGCTTAAGTATACTTTGATCATAGCATTATAATCGTTTTGTATGTTGTCCATCGAG
58390061 A
1 A
58390062 GGTATGGAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.41
Consensus pattern (58 bp):
ATGGCTTAAGTATACTTTGATCATAGCATTATAATCGTTTTGTATGTTGTCCATCGAG
Found at i:58391249 original size:28 final size:29
Alignment explanation
Indices: 58391217--58391331 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
58391207 TACCTGTATC
* * *
58391217 TGGCCCATTAAG-CCTAATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
58391245 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
58391274 TGGCCCATTAGGCCCAAATCAAATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
58391303 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
58391331 T
1 T
58391332 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.31
29 50 0.68
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:58391278 original size:57 final size:58
Alignment explanation
Indices: 58391208--58391318 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
58391198 AAATTCACAT
* * *
58391208 ACCTGTATCTGGCCCATTAAG-CCTAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCAAATTCATATGGCCCATTAGGCCCAAATC
* * *
58391265 ACCTGTATATGGCCCATTAGGCCCAAATCAAATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCAAATTCATATGGCCCATTAGGCCCA
58391319 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 19 0.40
58 28 0.60
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCAAATTCATATGGCCCATTAGGCCCAAATC
Found at i:58393058 original size:40 final size:40
Alignment explanation
Indices: 58392994--58393161 Score: 232
Period size: 40 Copynumber: 4.2 Consensus size: 40
58392984 TCTTCGGAAT
* * *
58392994 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
*
58393033 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
58393073 TTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
58393113 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
58393153 TTAGCCCGG
1 TTAGCCCGG
58393162 GTATCATTCA
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 4 0.03
40 111 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:58401223 original size:20 final size:20
Alignment explanation
Indices: 58401198--58401238 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
58401188 TACTAATACC
58401198 TTTAATCACATTCTTTCATA
1 TTTAATCACATTCTTTCATA
58401218 TTTAATCACATTCTTTCATA
1 TTTAATCACATTCTTTCATA
58401238 T
1 T
58401239 GGTGACTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAATCACATTCTTTCATA
Found at i:58401302 original size:2 final size:2
Alignment explanation
Indices: 58401295--58401320 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58401285 CGAATTCATT
58401295 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
58401321 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:58401609 original size:39 final size:39
Alignment explanation
Indices: 58401550--58401638 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
58401540 TTTAACCCGA
* * **
58401550 ATATTTTTCCAGCATGTAGCCTGTGGACCTCAAGTCCGG
1 ATATTTTTCTAGCATATAGCCTACGGACCTCAAGTCCGG
* * *
58401589 ATATATTTCTAGCATATAGCCTACGGATCTCATGTCCGG
1 ATATTTTTCTAGCATATAGCCTACGGACCTCAAGTCCGG
58401628 ATATTTTTCTA
1 ATATTTTTCTA
58401639 TCTCAAACAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (39 bp):
ATATTTTTCTAGCATATAGCCTACGGACCTCAAGTCCGG
Found at i:58403406 original size:45 final size:45
Alignment explanation
Indices: 58403342--58403432 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
58403332 ACATGCAAGT
58403342 CCACCTTTTTGACAACATGCATTAATAGACCACTTTACAATTTAG
1 CCACCTTTTTGACAACATGCATTAATAGACCACTTTACAATTTAG
58403387 CCACCTTTTTGACAACATGCATTAATAGACCACTTTACAATTTAG
1 CCACCTTTTTGACAACATGCATTAATAGACCACTTTACAATTTAG
58403432 C
1 C
58403433 TATCACATTT
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:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (45 bp):
CCACCTTTTTGACAACATGCATTAATAGACCACTTTACAATTTAG
Found at i:58409335 original size:39 final size:39
Alignment explanation
Indices: 58409292--58409382 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
58409282 TCTTTAACCG
* * *
58409292 GGATATTTTTCTAGCATGTAGCCTGCGGACCTCAAGTTC
1 GGATATTTTTCTAGCATATAGCCTACGGACCTCAAGTCC
* * *
58409331 GGATATATTTCTAGCATATAGCCTACGGATCTCATGTCC
1 GGATATTTTTCTAGCATATAGCCTACGGACCTCAAGTCC
58409370 GGATATTTTTCTA
1 GGATATTTTTCTA
58409383 TCTCAAACAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (39 bp):
GGATATTTTTCTAGCATATAGCCTACGGACCTCAAGTCC
Found at i:58421422 original size:3 final size:3
Alignment explanation
Indices: 58421414--58421476 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
58421404 ATTTAGCTCT
58421414 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
58421462 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
58421477 AGTCCCTATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:58425279 original size:23 final size:24
Alignment explanation
Indices: 58425247--58425293 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
58425237 AGTTAAATAT
*
58425247 TATTTGATTAATATTTTACTTAGA
1 TATTTGATTAATAGTTTACTTAGA
* *
58425271 TATTT-ATTATTAGTTTATTTAGA
1 TATTTGATTAATAGTTTACTTAGA
58425294 AAATAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (24 bp):
TATTTGATTAATAGTTTACTTAGA
Found at i:58432619 original size:25 final size:25
Alignment explanation
Indices: 58432585--58432639 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
58432575 TCAATGCAGT
* *
58432585 CTATCTATAGTAGTCTCAGTATATA
1 CTATCTATAGCAGTCTCAGGATATA
* *
58432610 CTATCTATAGCAGTTTTAGGATATA
1 CTATCTATAGCAGTCTCAGGATATA
58432635 CTATC
1 CTATC
58432640 AAAAATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (25 bp):
CTATCTATAGCAGTCTCAGGATATA
Found at i:58437225 original size:27 final size:24
Alignment explanation
Indices: 58437174--58437233 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
58437164 TTTACCTTCC
*
58437174 TCTTTCTTTTTCCCATTTTCCTTT
1 TCTTTCTTTTTCCCATTTTACTTT
*
58437198 TCTTTCTTTTTCTTTCCATTTTATTTT
1 TCTTTCTTTTTC---CCATTTTACTTT
58437225 TC-TTCTTTT
1 TCTTTCTTTT
58437234 ACTTCCTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 12 0.39
26 7 0.23
27 12 0.39
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (24 bp):
TCTTTCTTTTTCCCATTTTACTTT
Found at i:58441976 original size:18 final size:18
Alignment explanation
Indices: 58441953--58441988 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58441943 AGAATATCAC
58441953 ATAATATAGAACTCTTTT
1 ATAATATAGAACTCTTTT
58441971 ATAATATAGAACTCTTTT
1 ATAATATAGAACTCTTTT
58441989 GCTCCCCCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (18 bp):
ATAATATAGAACTCTTTT
Found at i:58442422 original size:49 final size:49
Alignment explanation
Indices: 58442366--58442590 Score: 281
Period size: 49 Copynumber: 4.5 Consensus size: 49
58442356 CTAGTACGCA
*
58442366 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACACG
** ** *
58442415 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCTGGTACACG
* * * ***
58442465 TAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGTTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCTGGTACACG
* *
58442516 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACACG
58442565 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
58442591 CGTGACCTCA
Statistics
Matches: 147, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
49 68 0.46
50 43 0.29
51 34 0.23
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACACG
Found at i:58442874 original size:27 final size:27
Alignment explanation
Indices: 58442844--58442897 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
58442834 TCATACAACC
* *
58442844 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
58442871 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
58442898 TTACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:58455207 original size:40 final size:39
Alignment explanation
Indices: 58455162--58455291 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
58455152 CGGAATATAA
58455162 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
58455202 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
58455242 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
58455282 CCGGATATAA
1 CCGGATATAA
58455292 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:58455306 original size:40 final size:40
Alignment explanation
Indices: 58455178--58455329 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
58455168 ATAACCATGT
* * *
58455178 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
58455218 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
58455258 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
58455298 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
58455330 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:58455312 original size:80 final size:80
Alignment explanation
Indices: 58455178--58455327 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
58455168 ATAACCATGT
*
58455178 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
58455242 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
58455258 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
58455321 CCCGGAT
64 CCCGGAT
58455328 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:58458004 original size:18 final size:20
Alignment explanation
Indices: 58457968--58458011 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
58457958 TGATGAAAGT
58457968 TAATTACTATTATTATTATC
1 TAATTACTATTATTATTATC
*
58457988 TAATTA-TA-TATTTTTATC
1 TAATTACTATTATTATTATC
*
58458006 AAATTA
1 TAATTA
58458012 ACTTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 2 0.09
20 6 0.27
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTACTATTATTATTATC
Found at i:58459007 original size:15 final size:15
Alignment explanation
Indices: 58458971--58459018 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
58458961 ATATATTATG
*
58458971 TTTAAA-TT-TAATA
1 TTTAAATTTATAAAA
*
58458984 TTTATATTTATAAAA
1 TTTAAATTTATAAAA
*
58458999 TTTAAATTTATATAA
1 TTTAAATTTATAAAA
58459014 TTTAA
1 TTTAA
58459019 GATCTAACGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 5 0.17
14 2 0.07
15 22 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTAAATTTATAAAA
Found at i:58460198 original size:34 final size:34
Alignment explanation
Indices: 58460135--58460230 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 34
58460125 TTATAATTTT
*
58460135 TTTTAAA-AAAATT-ATTAAATT-TGGTTTAGGA
1 TTTTAAAGAAAATTAATTAAATTAAGGTTTAGGA
* *
58460166 TTTTAAAGTAAATTAATTAAATTAAGGTTTAGGG
1 TTTTAAAGAAAATTAATTAAATTAAGGTTTAGGA
*
58460200 TTTTTAAGAAAATTAATTAAATTAAGGTTTA
1 TTTTAAAGAAAATTAATTAAATTAAGGTTTA
58460231 AGGTTTTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
31 7 0.12
32 5 0.09
33 8 0.14
34 37 0.65
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.44
Consensus pattern (34 bp):
TTTTAAAGAAAATTAATTAAATTAAGGTTTAGGA
Found at i:58460566 original size:126 final size:127
Alignment explanation
Indices: 58460334--58460856 Score: 687
Period size: 127 Copynumber: 4.1 Consensus size: 127
58460324 TTTGGTTTTT
* * * * *
58460334 TTTTTCTACAGTAGTTTCTGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAAATAGTG-ACATA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTAAAAA
* * * *
58460398 AATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTAAAAAAAGCTCTCACATGGACGCTC
66 AATGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
** * *
58460460 TTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAATACGATTCTGAAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTAAAAA
* *
58460525 AATGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTAGACGCTC
66 AATGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
* *
58460587 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTAAAAA
* * * * *
58460652 AACGCTTCAAGTAGTATGTACTGTCAACAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
66 AATGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
* * * *
58460714 CTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGT-AAAA
* * * * * * *
58460779 ACA--CTTCAAGCAGTATGCACAGTTAGAAAAATTACT-TAAAAATCTC-CTATGTGGACGCTC
65 AAATGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTC-ACGTGGACGCTC
*
58460839 TTTTTCTACAGCAGTTCC
1 TTTTTCTACAGTAGTTCC
58460857 CGCTTGGCCT
Statistics
Matches: 350, Mismatches: 44, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
124 1 0.00
125 35 0.10
126 81 0.23
127 227 0.65
128 6 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (127 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTAAAAA
AATGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
Found at i:58468707 original size:29 final size:30
Alignment explanation
Indices: 58468634--58468708 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
58468624 TTTACAGACT
* * *
58468634 ATTATAAAAATTATAAAAAAAATTAATTAAA
1 ATTACAAAAATT-GAAAAAAAATTAAATAAA
* * *
58468665 ATTACATAAA-TGAAAAAATATTAAATAAT
1 ATTACAAAAATTGAAAAAAAATTAAATAAA
58468694 ATT-CAAAAATTGAAA
1 ATTACAAAAATTGAAA
58468709 TTAACCCTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
28 5 0.14
29 22 0.61
30 1 0.03
31 8 0.22
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (30 bp):
ATTACAAAAATTGAAAAAAAATTAAATAAA
Found at i:58475026 original size:31 final size:31
Alignment explanation
Indices: 58474982--58475053 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
58474972 TTGAGATGCA
58474982 CAAAATATGTTAATTTCATAACAGTACTTTTTC
1 CAAAA-AT-TTAATTTCATAACAGTACTTTTTC
*
58475015 CAAAAATTTAATTTCATAACATTACTTTTTC
1 CAAAAATTTAATTTCATAACAGTACTTTTTC
58475046 CAAAAATT
1 CAAAAATT
58475054 CTCTCTTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 31 0.82
32 2 0.05
33 5 0.13
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (31 bp):
CAAAAATTTAATTTCATAACAGTACTTTTTC
Found at i:58476925 original size:15 final size:16
Alignment explanation
Indices: 58476893--58476928 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
58476883 GATAGAATAA
58476893 AATTTAAATTTTTAAT
1 AATTTAAATTTTTAAT
*
58476909 AATTTATATTTTT-AT
1 AATTTAAATTTTTAAT
58476924 AATTT
1 AATTT
58476929 TTAAGAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
AATTTAAATTTTTAAT
Found at i:58476999 original size:18 final size:19
Alignment explanation
Indices: 58476963--58477001 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
58476953 GAGTAAAGTA
**
58476963 TAATTTTATTTTATTAATT
1 TAATTTTATTTTAAAAATT
58476982 TAATTTT-TTTTAAAAATT
1 TAATTTTATTTTAAAAATT
58477000 TA
1 TA
58477002 TAAAGCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TAATTTTATTTTAAAAATT
Found at i:58478731 original size:49 final size:48
Alignment explanation
Indices: 58478579--58478848 Score: 255
Period size: 49 Copynumber: 5.6 Consensus size: 48
58478569 TATGTGTGCT
* * *
58478579 AGTGTAAGACATGTATGGGACAT-GCATCG-GCC-ATATTATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCCGATA-TATGAGAGCC
* * * *
58478625 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATGCA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACC-CGATATATG-AGAGCC
* * *
58478673 AGTGGAAGACCTGTTTGGGACATGGCATCGACACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATATATGAGAGCC
* * * *
58478722 AGTGTAAGACCTGTCTGGGACATGGCGTCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACC-CGATATATGAGAGCC
* ** * *
58478771 AGTGTAAGACCTGTCTGGGGCATGGCATCGA-CTTAGATATGTGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCCGATATATGAGAGCC
* *
58478818 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
58478849 GCATCGTACC
Statistics
Matches: 185, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
46 28 0.15
47 21 0.11
48 47 0.25
49 88 0.48
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCCGATATATGAGAGCC
Found at i:58478798 original size:98 final size:96
Alignment explanation
Indices: 58478576--58478850 Score: 315
Period size: 98 Copynumber: 2.9 Consensus size: 96
58478566 TGATATGTGT
* * * * * *
58478576 GCTAGTGTAAGACATGTATGGGACAT-GCATCGGC-CATATTATGAGAGCCAGTGTAAGACATGT
1 GCTAGTGGAAGACCTGTCTGGGACATGGCATCGACACAGA-TATGAGAGCCAGTGTAAGACCTGT
*
58478639 CTGGGACAT-GCATCGGCCTCGAGATATGCAA
65 CTGGGACATGGCATCGGCCTCGAGATATGAAA
* *
58478670 GCTAGTGGAAGACCTGTTTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACCTG
1 GCTAGTGGAAGACCTGTCTGGGACATGGCATCGACACAGAT--ATGAGAGCCAGTGTAAGACCTG
* *
58478735 TCTGGGACATGGCGTCGGCCTCGATATATGAAA
64 TCTGGGACATGGCATCGGCCTCGAGATATGAAA
* * ** *
58478768 G-TCAGTGTAAGACCTGTCTGGGGCATGGCATCGACTTAGATATGTGAGCCAGTGTAAGACCATG
1 GCT-AGTGGAAGACCTGTCTGGGACATGGCATCGACACAGATATGAGAGCCAGTGTAAGACC-TG
* *
58478832 TTTGGAACATGGCATCGGC
64 TCTGGGACATGGCATCGGC
58478851 ATCGTACCCT
Statistics
Matches: 154, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
94 23 0.15
95 8 0.05
96 21 0.14
97 50 0.32
98 52 0.34
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (96 bp):
GCTAGTGGAAGACCTGTCTGGGACATGGCATCGACACAGATATGAGAGCCAGTGTAAGACCTGTC
TGGGACATGGCATCGGCCTCGAGATATGAAA
Found at i:58478842 original size:146 final size:143
Alignment explanation
Indices: 58478579--58478848 Score: 339
Period size: 146 Copynumber: 1.9 Consensus size: 143
58478569 TATGTGTGCT
*
58478579 AGTGTAAGACATGTATGGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTATGGGACATGCATCGGCCATATTATGAAAGCCAGTGTAAGACATGTCTGGG
* * *
58478644 ACATGCATCGGCCTCGAGATATGCAAGCTAGTGGAAGACCTGTTTGGGACATGGCATCGACACCG
66 ACATGCATCGGACTCGAGATATGCAAGCCAGTGGAAGACCTGTTTGGAACATGGCATCGACACCG
58478709 ATAGATGAGAGCC
131 ATAGATGAGAGCC
* * * * *
58478722 AGTGTAAGACCTGTCTGGGACATGGCGTCGGCC-TCGATATATGAAAGTCAGTGTAAGACCTGTC
1 AGTGTAAGACATGTATGGGACAT-GCATCGGCCAT--AT-TATGAAAGCCAGTGTAAGACATGTC
* * ** *
58478786 TGGGGCATGGCATC-GACT-TAGATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
62 TGGGACAT-GCATCGGACTCGAGATATGCAAGCCAGTGGAAGACC-TGTTTGGAACATGGCATCG
58478849 GCATCGTACC
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
143 22 0.21
144 8 0.07
145 22 0.21
146 50 0.47
147 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (143 bp):
AGTGTAAGACATGTATGGGACATGCATCGGCCATATTATGAAAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGACTCGAGATATGCAAGCCAGTGGAAGACCTGTTTGGAACATGGCATCGACACCG
ATAGATGAGAGCC
Found at i:58481422 original size:33 final size:32
Alignment explanation
Indices: 58481355--58481435 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
58481345 TAAAATGAGA
** *
58481355 TTTTAGGTTTCTTAAAAGTTGGAGAAAAAATT
1 TTTTAGGTCCCTTAAAAGTTGGACAAAAAATT
58481387 TTTTAGGTCCCTTAAAAGTTGGTAC-AAAAATT
1 TTTTAGGTCCCTTAAAAGTTGG-ACAAAAAATT
* *
58481419 TTTT-GGGCCTTTAAAAG
1 TTTTAGGTCCCTTAAAAG
58481436 CTATTTTTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 11 0.26
32 31 0.72
33 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (32 bp):
TTTTAGGTCCCTTAAAAGTTGGACAAAAAATT
Found at i:58481476 original size:31 final size:31
Alignment explanation
Indices: 58481438--58481519 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 31
58481428 TTTAAAAGCT
**
58481438 ATTTTTGTTGGAGCCCTTTAAAAGTT-GGTAA
1 ATTTTTGTT-GAGCCCTTTAAAAGTTAGAAAA
*
58481469 ATTTTTGTTTGA--CTTTTAAAAGTTAGAAAA
1 ATTTTTG-TTGAGCCCTTTAAAAGTTAGAAAA
*
58481499 ATATTT-TTGAGCCCTTTAAAA
1 ATTTTTGTTGAGCCCTTTAAAA
58481520 ACTAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
28 4 0.10
29 11 0.26
30 16 0.38
31 9 0.21
32 2 0.05
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.44
Consensus pattern (31 bp):
ATTTTTGTTGAGCCCTTTAAAAGTTAGAAAA
Found at i:58481542 original size:53 final size:52
Alignment explanation
Indices: 58481482--58481590 Score: 193
Period size: 53 Copynumber: 2.1 Consensus size: 52
58481472 TTTGTTTGAC
58481482 TTTTAAAAGTTAGAAAAATATTTTTGAGCCCT-TTAAAAACTAAAAAAACAATA
1 TTTTAAAAGTTAGAAAAATATTTTTGAG-CCTATTAAAAACT-AAAAAACAATA
58481535 TTTTAAAAGTTAGAAAAATATTTTTGAGCCTATTAAAAACTAAAAAACAATA
1 TTTTAAAAGTTAGAAAAATATTTTTGAGCCTATTAAAAACTAAAAAACAATA
58481587 TTTT
1 TTTT
58481591 GAACCCCTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
52 18 0.33
53 37 0.67
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (52 bp):
TTTTAAAAGTTAGAAAAATATTTTTGAGCCTATTAAAAACTAAAAAACAATA
Found at i:58485371 original size:35 final size:35
Alignment explanation
Indices: 58485332--58485464 Score: 142
Period size: 35 Copynumber: 3.8 Consensus size: 35
58485322 ACTCTCTGTT
*
58485332 TTGGTGTGTTTTAGATGGATTAACTCTTACAAGCA
1 TTGGTGTGTTTTAGAGGGATTAACTCTTACAAGCA
* *
58485367 TTGGTGTG-TTTCGAAGGGATTAACTTTTACAAGCA
1 TTGGTGTGTTTTAG-AGGGATTAACTCTTACAAGCA
** * **
58485402 TTGGTGTGTTGCAGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTTAGAGGGATTAACTCTTACAAGCA
* * * *
58485437 TTGGTGTATTTTGGATGGATCAACTCTT
1 TTGGTGTGTTTTAGAGGGATTAACTCTT
58485465 GTGAGCATCT
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
34 4 0.05
35 73 0.92
36 2 0.03
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (35 bp):
TTGGTGTGTTTTAGAGGGATTAACTCTTACAAGCA
Found at i:58493610 original size:42 final size:42
Alignment explanation
Indices: 58493574--58493711 Score: 181
Period size: 41 Copynumber: 3.3 Consensus size: 42
58493564 TATGAGTTTA
* * *
58493574 CGTGTAAGACCATATCTGGGATATGAAATCGATATGAGATTT
1 CGTGTAAGACCATATCTGGGACATGGAATCGATATGAGAATT
* *
58493616 CATGTAAGACCATTTCTGGGACATGGAATCGATATGAGAATT
1 CGTGTAAGACCATATCTGGGACATGGAATCGATATGAGAATT
* * * *
58493658 -GTGTAAGACCATGTATGGGACATGGCATTGATATGAGAA-T
1 CGTGTAAGACCATATCTGGGACATGGAATCGATATGAGAATT
58493698 CGTGTAAGACCATA
1 CGTGTAAGACCATA
58493712 GTTGGGCTAT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 46 0.55
42 37 0.44
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGACATGGAATCGATATGAGAATT
Found at i:58493733 original size:41 final size:41
Alignment explanation
Indices: 58493618--58493736 Score: 127
Period size: 41 Copynumber: 2.9 Consensus size: 41
58493608 TGAGATTTCA
* * * ** *
58493618 TGTAAGACCATTTCTGGGACATGGAATCGATATGAGAATTG
1 TGTAAGACCATGTATGGGACATGGCATTAATATGAGAATCG
*
58493659 TGTAAGACCATGTATGGGACATGGCATTGATATGAGAATCG
1 TGTAAGACCATGTATGGGACATGGCATTAATATGAGAATCG
58493700 TGTAAGACCATAGT-TGGG-CTATTGGCA-TAATATGAGA
1 TGTAAGACCAT-GTATGGGAC-A-TGGCATTAATATGAGA
58493737 TCCCATATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
40 1 0.01
41 61 0.88
42 7 0.10
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATGTATGGGACATGGCATTAATATGAGAATCG
Found at i:58493941 original size:16 final size:17
Alignment explanation
Indices: 58493920--58493951 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
58493910 AAGCATTGGC
58493920 TTCATGAT-ATTATGAG
1 TTCATGATCATTATGAG
58493936 TTCATGATCATTATGA
1 TTCATGATCATTATGA
58493952 AAGTGACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (17 bp):
TTCATGATCATTATGAG
Found at i:58495513 original size:47 final size:47
Alignment explanation
Indices: 58495297--58495569 Score: 265
Period size: 47 Copynumber: 5.8 Consensus size: 47
58495287 ACATAGGCTG
* *
58495297 TAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAT
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATCT
* * * *
58495345 CACTGTACCGATGCCATGTCCCAGACATGGTCTTACACTG-ACACATC-
1 TAATG--CCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATCT
* * *
58495392 TCATAGCCAATG-CATGTCCCAGACAT-GTCTAACACTGACT-TACATCT
1 TAAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTG-CTCT-CATCT
* * *
58495439 TGAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCT
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATCT
* **
58495485 TAATGCCGTTGCCATGTCCCAGACAT-GTCTTACACTAGCTCTTGTCT
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATCT
* *
58495532 TAATGCCGTTGCCATGTCCCAGTCATGGTCTTACACTG
1 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
58495570 GCTATCATAA
Statistics
Matches: 191, Mismatches: 23, Indels: 23
0.81 0.10 0.10
Matches are distributed among these distances:
44 10 0.05
45 14 0.07
46 52 0.27
47 65 0.34
48 18 0.09
49 1 0.01
50 31 0.16
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATCT
Found at i:58502798 original size:40 final size:40
Alignment explanation
Indices: 58502734--58502939 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
58502724 AACCCAAGTA
* *
58502734 CCTTCAGGATTTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTC-ACT-AGCACAAATG
* *
58502773 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTC-ACTAGCACAAATG
*
58502813 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
*
58502853 CCTTCGGGAATTAGTCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
58502893 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
58502933 CCTTCGG
1 CCTTCGG
58502940 ATCTTAGTCC
Statistics
Matches: 157, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 12 0.08
40 144 0.92
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:58510934 original size:39 final size:40
Alignment explanation
Indices: 58510769--58510933 Score: 248
Period size: 40 Copynumber: 4.2 Consensus size: 40
58510759 AACCCAAGTA
* *
58510769 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
*
58510808 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
58510848 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATG
*
58510888 CCTTC-GGAATTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATG
58510927 CCTTCGG
1 CCTTCGG
58510934 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
39 51 0.43
40 68 0.57
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:58510940 original size:79 final size:80
Alignment explanation
Indices: 58510769--58510945 Score: 249
Period size: 79 Copynumber: 2.2 Consensus size: 80
58510759 AACCCAAGTA
* *
58510769 CCTTCGGGAT-TTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGATCTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGAATTAGCCCGGATATAG
*
58510833 CAACTCGCACAAATG
66 CAACTAGCACAAATG
58510848 CCTTCGGGA-CTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTC-GGAATTAGCCCGGATAT
1 CCTTCGGGATCTTAG-CCGGATATAG-CAACTAGCACAAATGCCTTCGGGAATTAGCCCGGATAT
58510910 AGTC-ACTAGCACAAATG
64 AG-CAACTAGCACAAATG
58510927 CCTTC-GGATCTTAGTCCGG
1 CCTTCGGGATCTTAG-CCGG
58510946 TTATCATCTG
Statistics
Matches: 89, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 28 0.31
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGATCTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGAATTAGCCCGGATATAG
CAACTAGCACAAATG
Found at i:58516026 original size:40 final size:40
Alignment explanation
Indices: 58515962--58516127 Score: 230
Period size: 40 Copynumber: 4.2 Consensus size: 40
58515952 AACCCAAGTA
* * *
58515962 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
58516001 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
58516041 CCTTCGGGACTTAGCCCGGATATAGTCACTAGAACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
58516081 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
58516121 CCTTCGG
1 CCTTCGG
58516128 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
39 12 0.10
40 105 0.89
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:58524059 original size:40 final size:39
Alignment explanation
Indices: 58523995--58524160 Score: 235
Period size: 40 Copynumber: 4.2 Consensus size: 39
58523985 AACACAAGTA
* * *
58523995 CCTTTGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
*
58524034 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
*
58524074 CCTTCGGGACTGAGCCCGGATATAGGCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
*
58524114 CCTTCGGGAATTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
58524154 CCTTCGG
1 CCTTCGG
58524161 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 13 0.11
40 103 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:58526518 original size:12 final size:12
Alignment explanation
Indices: 58526501--58526532 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
58526491 AGGTTAGTAT
58526501 AAAGAATGTGTG
1 AAAGAATGTGTG
58526513 AAAGAATGTGTG
1 AAAGAATGTGTG
58526525 AAAGAATG
1 AAAGAATG
58526533 AAATTAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (12 bp):
AAAGAATGTGTG
Found at i:58533920 original size:12 final size:12
Alignment explanation
Indices: 58533903--58533934 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
58533893 AGGTTAGTAT
58533903 AAAGAATGTGTG
1 AAAGAATGTGTG
58533915 AAAGAATGTGTG
1 AAAGAATGTGTG
58533927 AAAGAATG
1 AAAGAATG
58533935 AAATTAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (12 bp):
AAAGAATGTGTG
Found at i:58535756 original size:50 final size:48
Alignment explanation
Indices: 58535675--58535890 Score: 207
Period size: 46 Copynumber: 4.6 Consensus size: 48
58535665 ATAAGGTGTA
* * *
58535675 ATGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTACATCTCT
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG-TC-TACATCTCG
* * *
58535725 ATGCCTATGCCATGTCCCAGACGTGGTCTTACACT-GAC-ACATCTC-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTCTACATCTCG
* *
58535770 ATAGCCGATG-CATGTCCCAGACAT-GCCTTACACTGGTTTACATCTCG
1 AT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTCTACATCTCG
* * *
58535817 AGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCT-CATCTCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GGTCTACATCTCG
* *
58535863 ATG-CTATTGCCATGTCCCAGACGTGGTC
1 ATGCCGA-TGCCATGTCCCAGACATGGTC
58535891 CCAGACTTAT
Statistics
Matches: 139, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 9 0.06
45 18 0.13
46 60 0.43
47 16 0.12
48 4 0.03
49 1 0.01
50 31 0.22
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTCTACATCTCG
Found at i:58535861 original size:92 final size:96
Alignment explanation
Indices: 58535680--58535849 Score: 235
Period size: 92 Copynumber: 1.8 Consensus size: 96
58535670 GTGTAATGCT
* * * * *
58535680 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTACATCTCTATGCCTATGCCATGTCCCAG
1 GATGCCATGTCCCAAACATGGCCTTACACTGGCTCTTACATCTCGAGGCCGATGCCATGTCCCAA
*
58535745 ACGTGGTCTTACACTGACACATCTCATAGCC
66 ACATGGTCTTACACTGACACATCTCATAGCC
*
58535776 GATG-CATGTCCCAGACAT-GCCTTACACTGG-T-TTACATCTCGAGGCCGATG-CATGTCCCAA
1 GATGCCATGTCCCAAACATGGCCTTACACTGGCTCTTACATCTCGAGGCCGATGCCATGTCCCAA
58535836 ACAT-GTCTTACACT
66 ACATGGTCTTACACT
58535850 AGCTCTCATC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
90 10 0.15
91 12 0.18
92 16 0.24
93 1 0.01
94 11 0.16
95 13 0.19
96 4 0.06
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGCCTTACACTGGCTCTTACATCTCGAGGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACACATCTCATAGCC
Found at i:58542602 original size:13 final size:13
Alignment explanation
Indices: 58542584--58542610 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58542574 GCTCGACAAA
58542584 GACACGCCCGTGT
1 GACACGCCCGTGT
58542597 GACACGCCCGTGT
1 GACACGCCCGTGT
58542610 G
1 G
58542611 CAAGTGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:58550815 original size:13 final size:13
Alignment explanation
Indices: 58550793--58550829 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
58550783 GGACAAAGAC
58550793 ACGCCCGTGTGAA
1 ACGCCCGTGTGAA
* *
58550806 ACGCCTGTGTGAC
1 ACGCCCGTGTGAA
58550819 ACGCCCGTGTG
1 ACGCCCGTGTG
58550830 CAAGTGCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.19
Consensus pattern (13 bp):
ACGCCCGTGTGAA
Found at i:58553541 original size:47 final size:45
Alignment explanation
Indices: 58553200--58553563 Score: 191
Period size: 46 Copynumber: 7.7 Consensus size: 45
58553190 GGTGTAATGC
* * * *
58553200 CGATGCCATGTCCCAGACATGGTCTTACGCTAGGTCATC-CATCAAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCATATCATGT
* * * *
58553247 CGATGCCATGTCCCAGACATGGTCTTACA-TTGACTATCGAAATCGAGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTC-ATATC-ATGT
* * * * * *
58553296 AGACGCCTTGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCGTGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT--CATAT-CATGT
* * * * *
58553346 CAATGCCATGTCCCAGACATGGTCTTACACTA--ACACATGTCATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATATCAT-GT
* * * * * *
58553392 CGATGAATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATATC-ATGT
* *
58553438 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATC-ATGT
* * * *
58553484 CGTTTCCATGTCCCAGACATTGTCTTACACTGGTTCTCATAAT-ATGGT
1 CG-ATGCATGTCCCAGACA-TGTCTTACACTAGCTCTCAT-ATCAT-GT
*
58553532 CGATGCATGTCCCAAACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
58553564 GCACAAATGA
Statistics
Matches: 250, Mismatches: 49, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
44 10 0.04
45 14 0.06
46 73 0.29
47 60 0.24
48 25 0.10
49 33 0.13
50 33 0.13
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCATGT
Found at i:58560899 original size:38 final size:38
Alignment explanation
Indices: 58560827--58560975 Score: 183
Period size: 38 Copynumber: 3.8 Consensus size: 38
58560817 TCTAGTCACT
* * * *
58560827 AGCACAAAACCTGCGGGACTTTAAGCTCGAATATAATACC
1 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATACC
* * *
58560867 AGCACTAAGCCTGTGGGATTTAACCCGGATATAGTACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
58560905 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
58560943 AGCACGAAGCCTGC-GGACCTTTAAGCCCGGATA
1 AGCACGAAGCCTGCGGGA--TTTAA-CCCGGATA
58560976 CACATCAAAT
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
37 3 0.03
38 61 0.63
39 10 0.10
40 23 0.24
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (38 bp):
AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
Found at i:58560946 original size:76 final size:79
Alignment explanation
Indices: 58560809--58560955 Score: 201
Period size: 76 Copynumber: 1.9 Consensus size: 79
58560799 TAGGTTTAAA
* * * *
58560809 AACCCGAATCTAGTCACTAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAATACCAGCACTA
1 AACCCGAATATAGTCACCAGCACAAAACCTGCGGGACTTTAAGCCCGAATATAATACCAGCACGA
58560874 AGCCTGTGGGATTT
66 AGCCTGTGGGATTT
* * * *
58560888 AACCCGGATATAGT-ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATACCAGCACGA
1 AACCCGAATATAGTCACCAGCACAAAACCTGCGGGACTTTAAGCCCGAATATAATACCAGCACGA
58560950 AGCCTG
66 AGCCTG
58560956 CGGACCTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
76 25 0.42
77 5 0.08
78 18 0.30
79 12 0.20
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (79 bp):
AACCCGAATATAGTCACCAGCACAAAACCTGCGGGACTTTAAGCCCGAATATAATACCAGCACGA
AGCCTGTGGGATTT
Found at i:58560975 original size:78 final size:78
Alignment explanation
Indices: 58560809--58560975 Score: 196
Period size: 78 Copynumber: 2.1 Consensus size: 78
58560799 TAGGTTTAAA
* * * * *
58560809 AACCCGAATCTAGTCACTAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAATACCAGCACTA
1 AACCCGGATATAGT-ACCAGCACAAAACCTGCGGGACTTTAAGCCCGAATATAATACCAGCACGA
*
58560874 AGCCTGTGGGATTT
65 AGCCTGTCGGATTT
* * *
58560888 AACCCGGATATAGTACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATACCAGCACGAA
1 AACCCGGATATAGTACCAGCACAAAACCTGCGGGACTTTAAGCCCGAATATAATACCAGCACGAA
58560951 GCCTG-CGGACCTTT
66 GCCTGTCGGA--TTT
58560965 AAGCCCGGATA
1 AA-CCCGGATA
58560976 CACATCAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
75 3 0.04
76 25 0.33
77 10 0.13
78 26 0.34
79 12 0.16
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.20
Consensus pattern (78 bp):
AACCCGGATATAGTACCAGCACAAAACCTGCGGGACTTTAAGCCCGAATATAATACCAGCACGAA
GCCTGTCGGATTT
Found at i:58567573 original size:46 final size:46
Alignment explanation
Indices: 58567521--58567696 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
58567511 TATTTGGACA
*
58567521 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
58567567 TCCGAACTCGTTGAGTTGAGTTCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* *
58567612 CATCCTAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
58567660 -CTTGAGCTTGTTAAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGG
58567697 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 60 0.56
47 26 0.24
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:58579178 original size:43 final size:42
Alignment explanation
Indices: 58579062--58579178 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 42
58579052 GACTTATGAT
* * * ** *
58579062 TTACGTGTAAGACCACGTCTGAGATGTTAGCATTGTTTTTGA
1 TTACGTGTAAGACCACGTCTGGGAAGTTGGCACAGTATTTGA
*
58579104 TTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCACAGATATTTGA
1 TTACGTGTAAGACCAC-GTCTGGGA-AGTTGGCACAG-TATTTGA
* *
58579147 TTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TTACGTGTAAGACCACGTCTGGGAAGTTGGCA
58579179 ATGTATGAGC
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 32 0.53
44 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCACGTCTGGGAAGTTGGCACAGTATTTGA
Found at i:58582986 original size:80 final size:80
Alignment explanation
Indices: 58582902--58583050 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
58582892 TATGGTAACC
* * * *
58582902 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
58582966 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
58582982 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
58583047 CCGG
66 CCGG
58583051 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:58582992 original size:40 final size:38
Alignment explanation
Indices: 58582943--58583050 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
58582933 ATCACGATTT
*
58582943 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
58582983 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
58583023 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
58583051 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:58588829 original size:47 final size:47
Alignment explanation
Indices: 58588768--58588935 Score: 148
Period size: 47 Copynumber: 3.6 Consensus size: 47
58588758 TCTATAAGTG
58588768 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
* * * * ** * * *
58588815 AACTTGGACTCAACTTAATGAGTTTAGA--CGT--TTGCATCT-ATAA
1 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA-CA
* * *
58588858 GTGAACTCGAACTCAACTAAACGAGCTCGGATGCCTAGTTACATCTCACG
1 ---AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
*
58588908 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGCTCGGA
58588936 CGTTCGCATC
Statistics
Matches: 89, Mismatches: 23, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.09
45 2 0.02
46 21 0.24
47 47 0.53
48 2 0.02
50 7 0.08
51 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACA
Found at i:58588886 original size:93 final size:93
Alignment explanation
Indices: 58588722--58588985 Score: 377
Period size: 93 Copynumber: 2.8 Consensus size: 93
58588712 CCCATAAGCG
* **
58588722 AACTCGGACTCAA-TACAACGAGCTCAGGTGTTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACT-CAACGAGTTCAGACGTTCGCATCTATAAGTGAACTCGGACTCAACTCAA
58588786 CGAGCTCGGATGCCTAGTTACATCTCACA
65 CGAGCTCGGATGCCTAGTTACATCTCACA
* * * * * * *
58588815 AACTTGGACTCAACTTAATGAGTTTAGACGTTTGCATCTATAAGTGAACTCGAACTCAACTAAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCTATAAGTGAACTCGGACTCAACTCAAC
*
58588880 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACA
* * *
58588908 AACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAACTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCTATAAGTGAACTCGGACTCAACTCAAC
*
58588973 GAGTTCGGATGCC
66 GAGCTCGGATGCC
58588986 CAAATATCCG
Statistics
Matches: 148, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
93 147 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCTATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:58588974 original size:46 final size:44
Alignment explanation
Indices: 58588713--58588981 Score: 145
Period size: 46 Copynumber: 5.8 Consensus size: 44
58588703 TGTAACCTGC
*
58588713 CCATAAGCGAACTCGGACTCAA-TACAACGAGCTCAGG-TGTTCGCAT
1 CCATAA-CGAACTCGGACTCAACT-CAACGAGCTC-GGACGTT-GCAT
* * *
58588759 CTATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAA-CGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTGCAT
* * * * * * **
58588809 -C-TCACAAACTTGGACTCAACTTAATGAGTTTAGACGTTTGCAT
1 CCATAACGAACTCGGACTCAACTCAACGAGCTCGGACG-TTGCAT
* * * * *
58588852 CTATAAGTGAACTCGAACTCAACTAAACGAGCTCGGATGCCTAGTTACAT
1 CCATAA-CGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTGCAT
* *
58588902 -C-TCACGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAACGAACTCGGACTCAACTCAACGAGCTCGGACGTT-GCAT
*
58588945 CCATAACTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAC-GAACTCGGACTCAACTCAACGAGCTCGGA
58588982 TGCCCAAATA
Statistics
Matches: 168, Mismatches: 35, Indels: 40
0.69 0.14 0.16
Matches are distributed among these distances:
42 4 0.02
43 8 0.05
44 3 0.02
45 7 0.04
46 80 0.48
47 49 0.29
48 4 0.02
49 1 0.01
50 8 0.05
51 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (44 bp):
CCATAACGAACTCGGACTCAACTCAACGAGCTCGGACGTTGCAT
Found at i:58591084 original size:27 final size:28
Alignment explanation
Indices: 58591054--58591107 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
58591044 TTGCATTATA
58591054 GATCAA-GAAAAATGTGATACAGGTCTT
1 GATCAAGGAAAAATGTGATACAGGTCTT
* *
58591081 GATCAAGGGAAAAATTTGATAGAGGTC
1 GATCAA-GGAAAAATGTGATACAGGTC
58591108 ATTGTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
29 17 0.74
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (28 bp):
GATCAAGGAAAAATGTGATACAGGTCTT
Found at i:58592189 original size:12 final size:12
Alignment explanation
Indices: 58592169--58592202 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58592159 CTGATCGGTT
*
58592169 GGAGGGATTTTA
1 GGAGAGATTTTA
58592181 GGAGAGATTTTA
1 GGAGAGATTTTA
*
58592193 GGAGAAATTT
1 GGAGAGATTT
58592203 GTGGGGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (12 bp):
GGAGAGATTTTA
Found at i:58600788 original size:54 final size:54
Alignment explanation
Indices: 58600703--58600826 Score: 149
Period size: 54 Copynumber: 2.3 Consensus size: 54
58600693 GCACTTAAAA
* * * *
58600703 TTTAAGTCAGTGTTGTACACAGGCAGTCCACACAGGCGTGTGCCATGGTCGTGT
1 TTTAAGTCAGTGTTGTACACAGGCAGGCCACACAGGAGTGTGCCATGGACATGT
** * * *
58600757 TTTAAGTCAGTGTTGTACATGGGTAGGCCACACGGGAGTGTGCCGTGGACATGT
1 TTTAAGTCAGTGTTGTACACAGGCAGGCCACACAGGAGTGTGCCATGGACATGT
*
58600811 TCTAAAGTCAGTGTTG
1 T-TTAAGTCAGTGTTG
58600827 CACAGGGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
54 46 0.78
55 13 0.22
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (54 bp):
TTTAAGTCAGTGTTGTACACAGGCAGGCCACACAGGAGTGTGCCATGGACATGT
Found at i:58625690 original size:40 final size:40
Alignment explanation
Indices: 58625611--58625787 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
58625601 CGGATGATAA
* * **
58625611 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* * * * *
58625651 CCGGGCTATGTCCTGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CTATAT
*
58625691 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* *
58625731 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
*
58625771 TC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
58625788 ATACTTGGGT
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 99 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
Found at i:58625749 original size:80 final size:80
Alignment explanation
Indices: 58625611--58625787 Score: 234
Period size: 80 Copynumber: 2.2 Consensus size: 80
58625601 CGGATGATAA
* * * * *
58625611 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCTGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
58625676 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* *
58625691 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
58625756 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
*
58625771 TC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
58625788 ATACTTGGGT
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 70 0.81
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:58632650 original size:55 final size:55
Alignment explanation
Indices: 58632564--58632668 Score: 165
Period size: 55 Copynumber: 1.9 Consensus size: 55
58632554 ACACTTAAAA
*
58632564 TTTAAGTCAGTGTTGTACACGGGCAGTCCACACGGACATGTGCCGTGGCCGTGTT
1 TTTAAGTCAGTGTTGTACACGGGCAGGCCACACGGACATGTGCCGTGGCCGTGTT
* ***
58632619 TTTAAGTCAGTGTTGTACATGGGCAGGCCACACGGGGGTGTGCCGTGGCC
1 TTTAAGTCAGTGTTGTACACGGGCAGGCCACACGGACATGTGCCGTGGCC
58632669 ATGTACTAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (55 bp):
TTTAAGTCAGTGTTGTACACGGGCAGGCCACACGGACATGTGCCGTGGCCGTGTT
Found at i:58632686 original size:55 final size:55
Alignment explanation
Indices: 58632566--58632688 Score: 149
Period size: 55 Copynumber: 2.2 Consensus size: 55
58632556 ACTTAAAATT
* * **
58632566 TAAGTCAGTGTTGTACACGGGCAGTCCACACGGACATGTGCCGTGGCCGTGTTTT
1 TAAGTCAGTGTTGTACACGGGCAGGCCACACGGACATGTGCCGTGGCCATGTTAC
* ***
58632621 TAAGTCAGTGTTGTACATGGGCAGGCCACACGGGGGTGTGCCGTGGCCATG-TAC
1 TAAGTCAGTGTTGTACACGGGCAGGCCACACGGACATGTGCCGTGGCCATGTTAC
*
58632675 TAAGGTTAGTGTTG
1 TAA-GTCAGTGTTG
58632689 CACAGGGACT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 4 0.07
55 54 0.93
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (55 bp):
TAAGTCAGTGTTGTACACGGGCAGGCCACACGGACATGTGCCGTGGCCATGTTAC
Found at i:58657543 original size:10 final size:9
Alignment explanation
Indices: 58657508--58657540 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
58657498 AATAGAATAA
58657508 TAAGAAAAG
1 TAAGAAAAG
58657517 TAAGAAAAG
1 TAAGAAAAG
58657526 TAAGATAAAG
1 TAAGA-AAAG
58657536 TAAGA
1 TAAGA
58657541 TAATAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (9 bp):
TAAGAAAAG
Found at i:58657549 original size:19 final size:17
Alignment explanation
Indices: 58657504--58657551 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
58657494 GAACAATAGA
58657504 ATAATAAGAAAAGTAAG
1 ATAATAAGAAAAGTAAG
*
58657521 AAAAGTAAGATAAAGTAAG
1 ATAA-TAAGA-AAAGTAAG
58657540 ATAATAAAGAAA
1 ATAAT-AAGAAA
58657552 GTGGATTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.12
18 8 0.31
19 15 0.58
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (17 bp):
ATAATAAGAAAAGTAAG
Found at i:58659173 original size:291 final size:291
Alignment explanation
Indices: 58658649--58659221 Score: 1110
Period size: 291 Copynumber: 2.0 Consensus size: 291
58658639 TAGACTCAAT
*
58658649 AAGATTTAATTCTATATCTCATTCATCATCTAATTCTATTTATACTATTCTTGGTGATTTTTCAA
1 AAGATTTAATTCTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCAA
*
58658714 GATCACGTCATTGCGGCTGTTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTTG
66 GATCACGTCATTGCGGCTATTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTTG
*
58658779 TATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAATAGCTA
131 TATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAAAAGCTA
58658844 ATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTCT
196 ATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTCT
58658909 AAGTCCCTATACATGCCATAAATATCTCATA
261 AAGTCCCTATACATGCCATAAATATCTCATA
58658940 AAGATTTAATTCTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCAA
1 AAGATTTAATTCTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCAA
58659005 GATCACGTCATTGCGGCTATTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTTG
66 GATCACGTCATTGCGGCTATTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTTG
58659070 TATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAAAAGCTA
131 TATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAAAAGCTA
58659135 ATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTCT
196 ATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTCT
*
58659200 AAGTCCCTATACATGTCATAAA
261 AAGTCCCTATACATGCCATAAA
58659222 CTAGAACATT
Statistics
Matches: 278, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
291 278 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (291 bp):
AAGATTTAATTCTATATCTCATTCATCATCTAATTCCATTTATACTATTCTTGGTGATTTTTCAA
GATCACGTCATTGCGGCTATTCAATACTGTTTTAATGCTAATTTCACTTTTTCATGATTTCTTTG
TATTAACTACCATTTAGGCATACATAACACTGAAACATGTTCTTCATTAGCCATTTCAAAAGCTA
ATCATTATCAAATATTTACATACCATTCTTTAGCCATATCATAAGGACAGACACACAAAATGTCT
AAGTCCCTATACATGCCATAAATATCTCATA
Found at i:58659858 original size:53 final size:54
Alignment explanation
Indices: 58659777--58659984 Score: 213
Period size: 53 Copynumber: 3.9 Consensus size: 54
58659767 TTTCCATTTT
* * * *
58659777 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
58659830 GAACTCACCAATGCCATACCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * * * * * *
58659884 GTAACTCATCAATTCCATGTCTTGATATGGTCTTACATGATTTCCTTACCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * * *
58659939 GAACTTATCAATGCCATGCCTTGGCATGGTCTTCCATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
58659985 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 43 0.34
54 39 0.31
55 41 0.32
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:58660018 original size:47 final size:47
Alignment explanation
Indices: 58659963--58660085 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
58659953 CATGCCTTGG
* *
58659963 CATGGTCTTCCATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
58660010 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCTAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
58660057 CATGGTCTTACATGATATCCTTGTCTTAC
1 CATGGTCTTACATGATATCCTTGTCTTAC
58660086 ATGGTATCCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:58660084 original size:18 final size:18
Alignment explanation
Indices: 58660061--58660102 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
58660051 TCTAAACATG
*
58660061 GTCTTACATGATATCCTT
1 GTCTTACATGATATCCAT
*
58660079 GTCTTACATGGTATCCAT
1 GTCTTACATGATATCCAT
58660097 GTCTTA
1 GTCTTA
58660103 GTTCCAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (18 bp):
GTCTTACATGATATCCAT
Found at i:58660308 original size:44 final size:44
Alignment explanation
Indices: 58660240--58660325 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
58660230 TCCCCTTAAC
* *
58660240 CGTCAATTCCTCCTTAAATACCATGTTATGAA-CATGGACTTTTT
1 CGTCAATTCCTCCTTAAATACCATGGTA-CAACCATGGACTTTTT
* * *
58660284 CGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CGTCAATTCCTCCTTAAATACCATGGTACAACCATGGACTTT
58660326 GAGATATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (44 bp):
CGTCAATTCCTCCTTAAATACCATGGTACAACCATGGACTTTTT
Found at i:58663932 original size:15 final size:16
Alignment explanation
Indices: 58663905--58663934 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58663895 TTTCTATTAA
58663905 TTTATTAAAATAAAAG
1 TTTATTAAAATAAAAG
58663921 TTTATT-AAATAAAA
1 TTTATTAAAATAAAA
58663935 TATGATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
TTTATTAAAATAAAAG
Found at i:58664006 original size:22 final size:19
Alignment explanation
Indices: 58663967--58664008 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
58663957 TGCAAAGTTG
58663967 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
58663986 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
58664008 A
1 A
58664009 AAGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:58668285 original size:40 final size:40
Alignment explanation
Indices: 58668240--58668369 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
58668230 CGGAATACAA
*
58668240 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAAC
* * * * *
58668280 CCGGATAGAACGACTCGCATGAATGCCTTCGGGTCTTATC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAAC
* *
58668320 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAAC
58668360 CCGGATATAA
1 CCGGATATAA
58668370 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAAC
Found at i:58670334 original size:50 final size:50
Alignment explanation
Indices: 58670261--58670492 Score: 203
Period size: 50 Copynumber: 4.7 Consensus size: 50
58670251 TGAGATGTGT
* *
58670261 TAGTGTAAGACCACGTCTAGGACATCGCATCGGCA-CGGATATGTGAGAGC
1 TAGTGTAAGACCATGTCTAGGACATCGCATCGACATC-GATATGTGAGAGC
* * *
58670311 TAGTATAAGACCATGTCTGGGACATGGCATCGACATCGATATGTGAGAGC
1 TAGTGTAAGACCATGTCTAGGACATCGCATCGACATCGATATGTGAGAGC
* * * * * *
58670361 TAGTGTAAGACCATGTCTAGGACATGGCGTC-AGCCTCCACT-T-CGATAG-
1 TAGTGTAAGACCATGTCTAGGACATCGCATCGA-CATCGA-TATGTGAGAGC
* * *
58670409 TCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTG--ATG-GATGAGC
1 T-AGTGTAAGACCATGTCTAGGACATCGCATCGACATCGATATGTGA-GAGC
* * *
58670457 CAGTGTAAGACCATGTCTAGGACATGGCATCAACAT
1 TAGTGTAAGACCATGTCTAGGACATCGCATCGACAT
58670493 TATACCCTAT
Statistics
Matches: 152, Mismatches: 20, Indels: 22
0.78 0.10 0.11
Matches are distributed among these distances:
46 3 0.02
47 33 0.22
48 3 0.02
49 34 0.22
50 77 0.51
51 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TAGTGTAAGACCATGTCTAGGACATCGCATCGACATCGATATGTGAGAGC
Found at i:58671262 original size:15 final size:13
Alignment explanation
Indices: 58671229--58671261 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
58671219 GACACACGGA
58671229 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
58671242 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
58671255 CGTGTGT
1 CGTGTGT
58671262 GATAAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.21, G:0.39, T:0.33
Consensus pattern (13 bp):
CGTGTGTCTAGGC
Found at i:58675269 original size:40 final size:40
Alignment explanation
Indices: 58675218--58675350 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
58675208 GCGACTCGCT
* * * * *
58675218 CAAAAGCCTTCGGGACATAGCCCGG-TTATAATAGCTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAAGAACTCACA
** *
58675258 CAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAAGAACTCACA
** *
58675298 CAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAAGAACTCACA
*
58675338 AAAATGCCTTCGG
1 CAAATGCCTTCGG
58675351 ATCTTAGTCC
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 81 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAAGAACTCACA
Found at i:58675363 original size:40 final size:40
Alignment explanation
Indices: 58675259--58675403 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
58675249 TAGCTCACAC
*
58675259 AAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCAC
1 AAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCAA
58675299 AAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCAA
1 AAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCAA
** * ** * *
58675339 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAACCCGGATTTGGGAAC-TCGCAA
*
58675380 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAACCCGGA
58675404 CATCATTCGA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 80 0.86
41 10 0.11
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAACCCGGATTTGGGAACTCGCAA
Found at i:58694275 original size:46 final size:46
Alignment explanation
Indices: 58694125--58694522 Score: 165
Period size: 46 Copynumber: 8.4 Consensus size: 46
58694115 TTATTTGTGT
* *
58694125 GCCAGTGTAAGATATGTCTAGGACATGCATCGACCA-C-ACTATGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGA-CATCGA-GATGAGA
* * * * * * *
58694171 GCTAGTGTAACACCATGTCTGGGACATTGCATTGGCATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTAGGACA-TGCATCGACATCGAGATGAGA
* * *
58694219 GCTAGTGTAAGACATGTCTGGGACATGCATCGACGTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGACATCGAGATG-AGA
* *
58694265 GCCAGTGTAAGACATGTCTAGGATATGCATCGGCTAT-GAGAT--G-
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGAC-ATCGAGATGAGA
* * * * *
58694308 TCTCAGTGTAAGACCAAGTCTAGGACATGGCATCGGCA-CG-TAT-AAA
1 GC-CAGTGTAAGA-CATGTCTAGGACAT-GCATCGACATCGAGATGAGA
* * * ** *
58694354 GCTGTTAGTGTAAAACCATGTCTGGGACATGGCATCGACAAGGATATGTGAGA
1 GC---CAGTGTAAGA-CATGTCTAGGACAT-GCATCGACATCGAGA--TGAGA
* * * * ** *
58694407 GCTAGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCGATTTCGATA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGACATCGAGAT-GAGA
** * *
58694456 GTTAGTGTTAGACCATGTCTAGGACATGGCATCGAC-T--TGATGGATGA
1 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGACATCGAGAT-GA-GA
58694503 GCCAGTGTAAGACCATGTCT
1 GCCAGTGTAAGA-CATGTCT
58694523 GGTACATAGC
Statistics
Matches: 276, Mismatches: 54, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 12 0.04
45 14 0.05
46 71 0.26
47 46 0.17
48 55 0.20
49 37 0.13
50 35 0.13
52 1 0.00
53 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCGACATCGAGATGAGA
Found at i:58694422 original size:50 final size:49
Alignment explanation
Indices: 58694312--58694522 Score: 166
Period size: 49 Copynumber: 4.3 Consensus size: 49
58694302 GAGATGTCTC
* * * ** * *
58694312 AGTGTAAGACCAAGTCTAGGACATGGCATCGGCACG-TAT-AAAGCTGTT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACTCGATATGTGAG-AGCT
* * **
58694360 AGTGTAAAACCATGTCTGGGACATGGCATCGACAAGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGAC-TCGATATGTGAGAGCT
* * * *
58694410 AGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCGAT-T-TCGATAGTT
1 AGTGTAAGACCATGTCTAGGACATGGCATC-GACTCGATATGT-GAGAGCT
* * *
58694459 AGTGTTAGACCATGTCTAGGACATGGCATCGACTTG--ATG-GATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACTCGATATGTGA-GAGCT
58694506 AGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCT
58694523 GGTACATAGC
Statistics
Matches: 130, Mismatches: 25, Indels: 17
0.76 0.15 0.10
Matches are distributed among these distances:
46 2 0.02
47 19 0.15
48 34 0.26
49 36 0.28
50 35 0.27
51 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGACTCGATATGTGAGAGCT
Found at i:58694427 original size:98 final size:99
Alignment explanation
Indices: 58694312--58694491 Score: 247
Period size: 99 Copynumber: 1.8 Consensus size: 99
58694302 GAGATGTCTC
*
58694312 AGTGTAAGACCAAGTCTAGGACATGGCATCGG-CACGTATAAAGCT-GTTAGTGTAAAACCATGT
1 AGTGTAAGACCAAGTCTAGGACATGGCATCGGCCACG-ATAAAGATAGTTAGTGTAAAACCATGT
*
58694375 CTGGGACATGGCATCGACAAGGATATGTGAGAGCT
65 CTAGGACATGGCATCGACAAGGATATGTGAGAGCT
* * * *** * *
58694410 AGTGTAAGACCATGTCTAGGACATGGCGTCGGCCTCGATTTCGATAGTTAGTGTTAGACCATGTC
1 AGTGTAAGACCAAGTCTAGGACATGGCATCGGCCACGATAAAGATAGTTAGTGTAAAACCATGTC
58694475 TAGGACATGGCATCGAC
66 TAGGACATGGCATCGAC
58694492 TTGATGGATG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
98 34 0.49
99 36 0.51
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (99 bp):
AGTGTAAGACCAAGTCTAGGACATGGCATCGGCCACGATAAAGATAGTTAGTGTAAAACCATGTC
TAGGACATGGCATCGACAAGGATATGTGAGAGCT
Found at i:58703404 original size:22 final size:24
Alignment explanation
Indices: 58703358--58703425 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
58703348 CATAACAGAT
* * * *
58703358 AAATTAGCATACGCCACAAAAGCC
1 AAATTAGAATATGCCATAAAGGCC
*
58703382 ATATTAG-A-ATGCCATAAAGGCC
1 AAATTAGAATATGCCATAAAGGCC
58703404 AAATTAGAATATGCCATAAAGG
1 AAATTAGAATATGCCATAAAGG
58703426 TCATTGGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 17 0.46
23 2 0.05
24 18 0.49
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (24 bp):
AAATTAGAATATGCCATAAAGGCC
Found at i:58709362 original size:30 final size:30
Alignment explanation
Indices: 58709328--58709385 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
58709318 ATTTTTGGGC
58709328 TTAGGGACTAA-ATTG-AATAAAAGTAAAACT
1 TTAGGG-CTAATATTGTAA-AAAAGTAAAACT
*
58709358 TTAGGGCTAATTTTGTAAAAAAGTAAAA
1 TTAGGGCTAATATTGTAAAAAAGTAAAA
58709386 AATGACCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 4 0.16
30 19 0.76
31 2 0.08
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.29
Consensus pattern (30 bp):
TTAGGGCTAATATTGTAAAAAAGTAAAACT
Found at i:58713687 original size:40 final size:40
Alignment explanation
Indices: 58713600--58713750 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
58713590 AGTTGAATGA
* * * * *
58713600 TATCCGGGCTAAGCCCCAAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * * *
58713640 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
58713681 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
58713720 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
58713751 ACATGCTTAT
Statistics
Matches: 89, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.06
40 77 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.21
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:58713764 original size:40 final size:39
Alignment explanation
Indices: 58713637--58713766 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 39
58713627 ATGCTGGAAA
* * * *
58713637 TTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* * *
58713678 -TACATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GAC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
58713716 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
58713757 TTATATCCGG
1 TTATATCCGG
58713767 TTATATTCCG
Statistics
Matches: 72, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 67 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:58716466 original size:50 final size:49
Alignment explanation
Indices: 58716387--58716507 Score: 140
Period size: 49 Copynumber: 2.4 Consensus size: 49
58716377 AGGAAGTGCA
* *
58716387 AAAAGGGC-TATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCTAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTAACCGAAAAGGGC-TTTGCCCCAG-TTATT
* *
58716437 AAAAGGGCTTTTGCCCCAGTTAATC-AAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTAACCGAAAAGGGCTTTGCCCCAGTTATT
*
58716485 AAAAGAGGC-TAGGCCTCCAGTTA
1 AAAAG-GGCTTATGCC-CCAGTTA
58716508 TATGATAAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
48 14 0.23
49 19 0.31
50 16 0.26
51 13 0.21
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTAACCGAAAAGGGCTTTGCCCCAGTTATT
Found at i:58716478 original size:24 final size:25
Alignment explanation
Indices: 58716387--58716482 Score: 115
Period size: 25 Copynumber: 3.9 Consensus size: 25
58716377 AGGAAGTGCA
* * *
58716387 AAAAGGGC-TATGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTAATC
* * *
58716411 GAAAAGGGCTTTTGCCCTAGTTTATT
1 -AAAAGGGCTTTTGCCCCAGTTAATC
58716437 AAAAGGGCTTTTGCCCCAGTTAATC
1 AAAAGGGCTTTTGCCCCAGTTAATC
58716462 AAAAGGGC-TTTGCCCCAGTTA
1 AAAAGGGCTTTTGCCCCAGTTA
58716483 TTAAAAGAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
24 13 0.21
25 38 0.60
26 12 0.19
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTAATC
Found at i:58716494 original size:24 final size:24
Alignment explanation
Indices: 58716412--58716494 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 24
58716402 CAGTTTACCG
*
58716412 AAAAGGGCTTTTGCCCTAGTTTATT
1 AAAAGGGCTTTTGCCCCAG-TTATT
*
58716437 AAAAGGGCTTTTGCCCCAGTTAATC
1 AAAAGGGCTTTTGCCCCAGTT-ATT
58716462 AAAAGGGC-TTTGCCCCAGTTATT
1 AAAAGGGCTTTTGCCCCAGTTATT
58716485 AAAAGAGGCT
1 AAAAG-GGCT
58716495 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 7 0.13
24 17 0.33
25 28 0.54
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTTTGCCCCAGTTATT
Found at i:58716738 original size:31 final size:31
Alignment explanation
Indices: 58716703--58716766 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
58716693 CGTTTACAGT
*
58716703 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
58716734 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
58716765 AA
1 AA
58716767 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:58724366 original size:20 final size:20
Alignment explanation
Indices: 58724341--58724406 Score: 116
Period size: 20 Copynumber: 3.3 Consensus size: 20
58724331 GTTTTGATAT
58724341 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
58724361 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
58724381 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
58724401 ACATGA
1 ACATGA
58724407 CGTATTCATA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:58724368 original size:11 final size:11
Alignment explanation
Indices: 58724352--58724406 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
58724342 CATGATTGAT
58724352 ATGATATGCAC
1 ATGATATGCAC
*
58724363 ATGATATG--T
1 ATGATATGCAC
58724372 ATGATATGCAC
1 ATGATATGCAC
*
58724383 ATGATATG--T
1 ATGATATGCAC
58724392 ATGATATGCAC
1 ATGATATGCAC
58724403 ATGA
1 ATGA
58724407 CGTATTCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 16 0.44
11 20 0.56
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:58724516 original size:26 final size:23
Alignment explanation
Indices: 58724455--58724537 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 23
58724445 AGGAAGCGCA
* *
58724455 AAAAGGGCTATGCCCCAATTTACC
1 AAAAGGGCTTTGCCCC-ATTTATC
58724479 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGC-TTTGCCCCA-TTTATC
*
58724505 AAAAGGGCCTTT-CCCCATTTATT
1 AAAAGGG-CTTTGCCCCATTTATC
58724528 AAAAGAGGCT
1 AAAAG-GGCT
58724538 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
23 12 0.24
24 7 0.14
25 19 0.37
26 13 0.25
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCATTTATC
Found at i:58733896 original size:6 final size:6
Alignment explanation
Indices: 58733873--58733926 Score: 56
Period size: 6 Copynumber: 8.8 Consensus size: 6
58733863 TATCAAAACT
* * *
58733873 AGAATC AAAATG AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
58733922 AGAAT
1 AGAAT
58733927 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 1 0.03
6 34 0.87
7 3 0.08
8 1 0.03
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:58734083 original size:27 final size:27
Alignment explanation
Indices: 58734043--58734159 Score: 166
Period size: 27 Copynumber: 4.3 Consensus size: 27
58734033 CAGCATGGCT
*
58734043 ACCAGAATAGATA-TTGTGGCAGAGCC
1 ACCAGAACAGATATTTGTGGCAGAGCC
58734069 ACCAGATACAGATA-TTGTGGCAGAGCC
1 ACCAGA-ACAGATATTTGTGGCAGAGCC
*
58734096 ACCAGAACAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATTTGTGGCAGAGCC
* *
58734123 ACCAGAAATAGATATTTGTGGCATAGCC
1 ACCAG-AACAGATATTTGTGGCAGAGCC
58734151 ACCAGAACA
1 ACCAGAACA
58734160 CTTCCTCCAT
Statistics
Matches: 84, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
26 13 0.15
27 45 0.54
28 26 0.31
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
ACCAGAACAGATATTTGTGGCAGAGCC
Found at i:58734495 original size:27 final size:27
Alignment explanation
Indices: 58734361--58734501 Score: 176
Period size: 27 Copynumber: 5.2 Consensus size: 27
58734351 GGGCAAAATG
* * * *
58734361 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
**
58734388 GTAATTCTACCCTAC-AGAGGTATTTTG
1 GTAATTCTACCCTACAAG-GGTATTTCA
*
58734415 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
58734442 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
58734469 GTAATTCTACCCTACAAGAGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
58734496 ATAATT
1 GTAATT
58734502 TTGTAAATCG
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 96 0.96
28 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:58745371 original size:29 final size:29
Alignment explanation
Indices: 58745236--58745367 Score: 210
Period size: 29 Copynumber: 4.6 Consensus size: 29
58745226 GTGACGAGAT
58745236 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
58745265 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
58745294 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
58745323 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
58745352 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
58745368 AGCTCGGAGG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 96 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58745383 original size:87 final size:86
Alignment explanation
Indices: 58745236--58745424 Score: 202
Period size: 87 Copynumber: 2.2 Consensus size: 86
58745226 GTGACGAGAT
** * * * *
58745236 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACT
*
58745301 AAGTGTGCGTGCTGGAAATATA-
66 AAGTGTGCGGGCT-GAAAT-TAC
** * *
58745323 TGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTGGGTGTGCGAGCTCGG-AGGGTATGGCAC
1 TGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTAAGTGTGCGAGCT-GGAAAGATATGGCAC
** *
58745387 TGTGTGTGCGGGCTTAAATTAC
65 TAAGTGTGCGGGCTGAAATTAC
58745409 GTGGCACTAAGTGTGC
1 -TGGCACTAAGTGTGC
58745425 GAAATCGAGT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
85 2 0.02
86 4 0.05
87 77 0.91
88 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (86 bp):
TGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACT
AAGTGTGCGGGCTGAAATTAC
Found at i:58752759 original size:29 final size:29
Alignment explanation
Indices: 58752624--58752755 Score: 210
Period size: 29 Copynumber: 4.6 Consensus size: 29
58752614 GTGACGAGAT
58752624 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
58752653 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
58752682 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
58752711 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
58752740 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
58752756 AGCTCGGAGG
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 96 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:58752771 original size:87 final size:86
Alignment explanation
Indices: 58752624--58752812 Score: 202
Period size: 87 Copynumber: 2.2 Consensus size: 86
58752614 GTGACGAGAT
** * * * *
58752624 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACT
*
58752689 AAGTGTGCGTGCTGGAAATATA-
66 AAGTGTGCGGGCT-GAAAT-TAC
** * *
58752711 TGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTGGGTGTGCGAGCTCGG-AGGGTATGGCAC
1 TGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTAAGTGTGCGAGCT-GGAAAGATATGGCAC
** *
58752775 TGTGTGTGCGGGCTTAAATTAC
65 TAAGTGTGCGGGCTGAAATTAC
58752797 GTGGCACTAAGTGTGC
1 -TGGCACTAAGTGTGC
58752813 GAAATCGAGT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
85 2 0.02
86 4 0.05
87 77 0.91
88 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (86 bp):
TGGCACTAAGTGTGCAAGCTGGAAAAATACGGCACTAAGTGTGCGAGCTGGAAAGATATGGCACT
AAGTGTGCGGGCTGAAATTAC
Found at i:58757313 original size:522 final size:522
Alignment explanation
Indices: 58756329--58757948 Score: 3141
Period size: 522 Copynumber: 3.1 Consensus size: 522
58756319 TCTGCCTTCA
58756329 AACATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTTCATGCCAAACACATC
1 AACATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTTCATGCCAAACACATC
*
58756394 AAAGAAAAACACACCTCCCAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTA
66 AAAGAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTA
58756459 CTCATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAAC
131 CTCATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAAC
58756524 TTAAGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATA
196 TTAAGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATA
58756589 TAACAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGA
261 TAACAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGA
*
58756654 TAGTGTGGCGAACTTCCTTGAAGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAA
326 TAGTGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAA
* *
58756719 TTAACACGCACACACAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAGATGA
391 TTAACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGA
58756784 ATATTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTT
456 ATATTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTT
58756849 AT
521 AT
*
58756851 AACATGCATAATTTGTATAATCATTTCAGGTACTAAACTTACCTTAATTTCATGCCAAACACATC
1 AACATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTTCATGCCAAACACATC
58756916 AAAGAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTA
66 AAAGAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTA
58756981 CTCATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAAC
131 CTCATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAAC
58757046 TTAAGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATA
196 TTAAGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATA
58757111 TAACAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGA
261 TAACAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGA
*
58757176 TAGTGTGGCGAACTTCCTTGACGATCCCCGAGCCCGTAACTAGCTTTCCAAAATCAATAAAAAAA
326 TAGTGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAA
58757241 TTAACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGA
391 TTAACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGA
58757306 ATATTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTT
456 ATATTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTT
58757371 AT
521 AT
* *
58757373 AACATGCATAATTTGTATAATCATTTCAGGTACTAAACTTAGCTTAATTTCATGCCAAACACATC
1 AACATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTTCATGCCAAACACATC
58757438 AAAGAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTA
66 AAAGAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTA
58757503 CTCATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAAC
131 CTCATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAAC
*
58757568 TTAAGCATAATGATTAAGCCATTTTCACATTGCCTAATATATACAACTCAAAATCAAACATAATA
196 TTAAGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATA
58757633 TAACAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGA
261 TAACAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGA
* *
58757698 TAGTGTGGCGAACTTCCTTGACGATCCCTGAGCTTGTAACTAGCTTTCCAAAATCAATAAAAAAA
326 TAGTGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAA
58757763 TTAACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGA
391 TTAACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGA
58757828 ATATTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTT
456 ATATTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTT
58757893 AT
521 AT
58757895 AACATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTTCATG
1 AACATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTTCATG
58757949 AACATAACTT
Statistics
Matches: 1085, Mismatches: 13, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
522 1085 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (522 bp):
AACATGCATAATTTGTATAATCATTTCAAGTACTAAACTTACCTTAATTTCATGCCAAACACATC
AAAGAAAAACACACCTCCTAAATTAAGCTAATTTTATGGCCTAATATGCATCATGCATTGCATTA
CTCATTACCGAATCACCAAAACCAAACACATCAAACATATTAACCATGAACATATAAAACCAAAC
TTAAGCATAATGATTAAGCCATTTTCACATGGCCTAATATATACAACTCAAAATCAAACATAATA
TAACAAGCCTATACATGCCATATGTTCAAAGTTTCAAACTTATAAAATACCAAAATAATGATCGA
TAGTGTGGCGAACTTCCTTGACGATCCCCGAGCTCGTAACTAGCTTTCCAAAATCAATAAAAAAA
TTAACACGCACACATAGTAAGCTTAAATAGCTTAGTAAGTCATAAGAAAATATATCAACAAATGA
ATATTAACATTATAATATCACTTGGCCGAATTTAAACAATCACATGTACATATAAATCACCTTTT
AT
Found at i:58758138 original size:43 final size:42
Alignment explanation
Indices: 58758090--58758235 Score: 127
Period size: 42 Copynumber: 3.4 Consensus size: 42
58758080 TCCCAGACGA
* * *
58758090 GGTCTTACATGTAATCA-ACTATCGATGCCACTGTCCAAGACAG
1 GGTCTTACACGAAATCATA-TA-CGATGCCAATGTCCAAGACAG
* *
58758133 GGTCTTACACGAAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCATATACGATGCCAATGTCCAAGACAG
* * *
58758175 GGTCTTACACATAAATC-TCTAATCGATGCCAATGTCCTAGAC-G
1 GGTCTTACAC-GAAATCATAT-A-CGATGCCAATGTCCAAGACAG
* *
58758218 TAGTCTTACACAAAATCA
1 -GGTCTTACACGAAATCA
58758236 CATATCGTAA
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
42 30 0.35
43 28 0.33
44 28 0.33
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCATATACGATGCCAATGTCCAAGACAG
Found at i:58758173 original size:42 final size:43
Alignment explanation
Indices: 58758080--58758242 Score: 149
Period size: 43 Copynumber: 3.8 Consensus size: 43
58758070 AATGCCTACA
* * *
58758080 TCCCAGACGAGGTCTTACATGTAATCA-ACTATCGATGCCACTG
1 TCCCAGACGAGGTCTTACACGAAATCATA-TATCGATGCCAATG
*
58758123 TCCAAGAC-AGGGTCTTACACGAAATCATATA-CGATGCCAATG
1 TCCCAGACGA-GGTCTTACACGAAATCATATATCGATGCCAATG
* *
58758165 TCCCAGAC-ATGGTCTTACACATAAATC-TCTAATCGATGCCAATG
1 TCCCAGACGA-GGTCTTACAC-GAAATCATAT-ATCGATGCCAATG
* * *
58758209 TCCTAGACGTA-GTCTTACACAAAATCACATATCG
1 TCCCAGACG-AGGTCTTACACGAAATCATATATCG
58758243 TAATCTTATG
Statistics
Matches: 100, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
42 31 0.31
43 39 0.39
44 29 0.29
46 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
TCCCAGACGAGGTCTTACACGAAATCATATATCGATGCCAATG
Done.