Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 58 of 279
Found at i:19322170 original size:27 final size:27
Alignment explanation
Indices: 19322140--19322300 Score: 216
Period size: 27 Copynumber: 6.0 Consensus size: 27
19322130 CCTTAATCGA
* * *
19322140 TAAAATGATTATTTTTCCCTTATGAGG
1 TAAAATGACTGTTTTTCCCTTATGTGG
*
19322167 TAAAATGATTGTTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTTCCCTTATGTGG
* *
19322194 TAAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTTCCCTTATGTGG
19322221 TAAAATGACTGTTTTGT-CCTTATGTGG
1 TAAAATGACTGTTTT-TCCCTTATGTGG
**
19322248 TAAAATGACAATTTTTCCCTTATGTGG
1 TAAAATGACTGTTTTTCCCTTATGTGG
* *
19322275 TAAAATGACTGTTTTGCCCTTGTGTG
1 TAAAATGACTGTTTTTCCCTTATGTG
19322301 ATGGATATAT
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 118 0.99
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTTCCCTTATGTGG
Found at i:19322242 original size:81 final size:81
Alignment explanation
Indices: 19322140--19322295 Score: 242
Period size: 81 Copynumber: 1.9 Consensus size: 81
19322130 CCTTAATCGA
* ***
19322140 TAAAATGATTATTTTTCCCTTATGAGGTAAAATGATTGTTTTTCCCTTATGTGGTAAAATGACTG
1 TAAAATGACTATTTTTCCCTTATGAGGTAAAATGACAATTTTTCCCTTATGTGGTAAAATGACTG
19322205 TTTTGCCCTTATATGG
66 TTTTGCCCTTATATGG
* *
19322221 TAAAATGACTGTTTTGT-CCTTATGTGGTAAAATGACAATTTTTCCCTTATGTGGTAAAATGACT
1 TAAAATGACTATTTT-TCCCTTATGAGGTAAAATGACAATTTTTCCCTTATGTGGTAAAATGACT
19322285 GTTTTGCCCTT
65 GTTTTGCCCTT
19322296 GTGTGATGGA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
81 67 0.99
82 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (81 bp):
TAAAATGACTATTTTTCCCTTATGAGGTAAAATGACAATTTTTCCCTTATGTGGTAAAATGACTG
TTTTGCCCTTATATGG
Found at i:19322665 original size:18 final size:18
Alignment explanation
Indices: 19322642--19322686 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
19322632 TACTGTTTAA
19322642 ACTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
* *
19322660 ACTGTTATTGTACTGATT
1 ACTGTTACTGCACTGATT
*
19322678 ACTATTACT
1 ACTGTTACT
19322687 ACAATGGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.44
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:19323477 original size:42 final size:42
Alignment explanation
Indices: 19323426--19323508 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
19323416 ATGAAATCTC
*
19323426 ATATCGATGCCATA-TCTTAGATATGGTCTTACACGTAGTCTT
1 ATATCGATGCCATATTC-CAGATATGGTCTTACACGTAGTCTT
*
19323468 ATATTGATGCCATATTCCAGATATGGTCTTACACGTAGTCT
1 ATATCGATGCCATATTCCAGATATGGTCTTACACGTAGTCT
19323509 CATTAATCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 36 0.95
43 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (42 bp):
ATATCGATGCCATATTCCAGATATGGTCTTACACGTAGTCTT
Found at i:19324022 original size:39 final size:38
Alignment explanation
Indices: 19323960--19324038 Score: 131
Period size: 39 Copynumber: 2.1 Consensus size: 38
19323950 AATCACCTAG
* *
19323960 CAAAAGTTGTTATCATATTCCAAACATGCATTTTCTAC
1 CAAAAGTTGTTACCATATTCCAAACATACATTTTCTAC
19323998 CAAAAGTTGTTTACCATATTCCAAACATACATTTTCTAC
1 CAAAAGTTG-TTACCATATTCCAAACATACATTTTCTAC
19324037 CA
1 CA
19324039 TTAGACATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 9 0.24
39 29 0.76
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (38 bp):
CAAAAGTTGTTACCATATTCCAAACATACATTTTCTAC
Found at i:19327207 original size:18 final size:18
Alignment explanation
Indices: 19327184--19327219 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19327174 GCTCCTCTCA
19327184 ACTGATCAAACAAGTCAT
1 ACTGATCAAACAAGTCAT
19327202 ACTGATCAAACAAGTCAT
1 ACTGATCAAACAAGTCAT
19327220 CAATCCTTGG
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:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (18 bp):
ACTGATCAAACAAGTCAT
Found at i:19339212 original size:34 final size:34
Alignment explanation
Indices: 19339169--19339237 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
19339159 TACCTGAGTC
19339169 ATCTCAAATTGGATTTACACACAATTCATCTTTG
1 ATCTCAAATTGGATTTACACACAATTCATCTTTG
*
19339203 ATCTCAAATTTGATTTACACACAATTCATCTTTG
1 ATCTCAAATTGGATTTACACACAATTCATCTTTG
19339237 A
1 A
19339238 CGTACTCGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.39
Consensus pattern (34 bp):
ATCTCAAATTGGATTTACACACAATTCATCTTTG
Found at i:19339436 original size:42 final size:42
Alignment explanation
Indices: 19339315--19339437 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
19339305 GATAACATAC
** *
19339315 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATATCCCAGATATGGTCTTACACATAGTCTCGTAT
* * * * *
19339357 CGATGTCAATAGCCCAGCTATGGTCTTATACGA-AGTCTCGTAT
1 CAATG-CCATATCCCAGATATGGTCTTACAC-ATAGTCTCGTAT
19339400 CAATGCCATATCCCAGATATGGTCTTACACATAGTCTC
1 CAATGCCATATCCCAGATATGGTCTTACACATAGTCTC
19339438 ATATTGATGT
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 31 0.48
43 33 0.51
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACATAGTCTCGTAT
Found at i:19339454 original size:42 final size:42
Alignment explanation
Indices: 19339322--19339479 Score: 133
Period size: 42 Copynumber: 3.8 Consensus size: 42
19339312 TACCAATGCC
** * *
19339322 ATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGTCA
1 ATATCCCAGATATGGTCTTACACATAGTCTCATATCGATGT-A
* * * * * **
19339365 ATAGCCCAGCTATGGTCTTATACGA-AGTCTCGTATCAATGCC
1 ATATCCCAGATATGGTCTTACAC-ATAGTCTCATATCGATGTA
* *
19339407 ATATCCCAGATATGGTCTTACACATAGTCTCATATTGATGTT
1 ATATCCCAGATATGGTCTTACACATAGTCTCATATCGATGTA
* * *
19339449 GTATCCC--ATATGGTTTTACACGTAGTCTCAT
1 ATATCCCAGATATGGTCTTACACATAGTCTCAT
19339480 TAACTCTAAT
Statistics
Matches: 93, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
40 22 0.24
41 1 0.01
42 38 0.41
43 32 0.34
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (42 bp):
ATATCCCAGATATGGTCTTACACATAGTCTCATATCGATGTA
Found at i:19342212 original size:20 final size:20
Alignment explanation
Indices: 19342187--19342224 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19342177 AATTTTGTAC
19342187 TTTA-TTATTATTATTAATCA
1 TTTATTTATT-TTATTAATCA
19342207 TTTATTTATTTTATTAAT
1 TTTATTTATTTTATTAAT
19342225 ATTATTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTATTTATTTTATTAATCA
Found at i:19345170 original size:61 final size:61
Alignment explanation
Indices: 19345100--19345305 Score: 412
Period size: 61 Copynumber: 3.4 Consensus size: 61
19345090 AGCTATTGAC
19345100 CTGAAATCATATTCCGATGTGTTACATGAGTATAGCACTTATGTGCACATTATCCGTGTAT
1 CTGAAATCATATTCCGATGTGTTACATGAGTATAGCACTTATGTGCACATTATCCGTGTAT
19345161 CTGAAATCATATTCCGATGTGTTACATGAGTATAGCACTTATGTGCACATTATCCGTGTAT
1 CTGAAATCATATTCCGATGTGTTACATGAGTATAGCACTTATGTGCACATTATCCGTGTAT
19345222 CTGAAATCATATTCCGATGTGTTACATGAGTATAGCACTTATGTGCACATTATCCGTGTAT
1 CTGAAATCATATTCCGATGTGTTACATGAGTATAGCACTTATGTGCACATTATCCGTGTAT
19345283 CTGAAATCATATTCCGATGTGTT
1 CTGAAATCATATTCCGATGTGTT
19345306 CAACAGGAGA
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 145 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (61 bp):
CTGAAATCATATTCCGATGTGTTACATGAGTATAGCACTTATGTGCACATTATCCGTGTAT
Found at i:19353433 original size:28 final size:28
Alignment explanation
Indices: 19353393--19353459 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
19353383 TGTACAGTAT
* * *
19353393 TTAGTGTGTGAGATATCAAGTGTGGTAC
1 TTAGTGTGCGAGATATCAAGTATGGCAC
*
19353421 TTAGTGTGCGAGATATCGAGTATGGCAC
1 TTAGTGTGCGAGATATCAAGTATGGCAC
*
19353449 TTAGTGCGCGA
1 TTAGTGTGCGA
19353460 CCCATTGAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.24, C:0.12, G:0.33, T:0.31
Consensus pattern (28 bp):
TTAGTGTGCGAGATATCAAGTATGGCAC
Found at i:19355262 original size:79 final size:81
Alignment explanation
Indices: 19355153--19355335 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
19355143 TACTCGTTCA
* *
19355153 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
19355216 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
19355233 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
19355296 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
19355312 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
19355336 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:19355335 original size:40 final size:40
Alignment explanation
Indices: 19355132--19355335 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
19355122 CGGAATTTAA
** *
19355132 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19355172 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19355212 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
19355251 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
19355291 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19355331 CCGGA
1 CCGGA
19355336 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19360722 original size:27 final size:26
Alignment explanation
Indices: 19360678--19360729 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19360668 CTCGCTGCAA
*
19360678 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
19360705 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
19360730 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:19360800 original size:73 final size:67
Alignment explanation
Indices: 19360660--19360802 Score: 169
Period size: 73 Copynumber: 2.0 Consensus size: 67
19360650 AGGAAGCGTC
* * * * *
19360660 CTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAAT
1 CTGGCAGCCTCGCTACAATCTGGTGGCCTCACCACATATATCTGTTCTGGTGACCTAGCCACAAT
19360725 AT
66 AT
* *
19360727 CTGGCAGCCTCGCTACAATCTGGTGGCTTCCACACACATATATATATCTGTTCTGGTGGCCTAGC
1 CTGGCAGCCTCGCTACAATCTGGTGGCCT-CAC-CAC----ATATATCTGTTCTGGTGACCTAGC
19360792 CACAATAT
60 CACAATAT
19360800 CTG
1 CTG
19360803 TATCTGGTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
67 27 0.43
68 2 0.03
69 3 0.05
73 31 0.49
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.29
Consensus pattern (67 bp):
CTGGCAGCCTCGCTACAATCTGGTGGCCTCACCACATATATCTGTTCTGGTGACCTAGCCACAAT
AT
Found at i:19360822 original size:27 final size:26
Alignment explanation
Indices: 19360770--19360829 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
19360760 ACACATATAT
*
19360770 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
19360796 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
19360823 ATATCTG
1 ATATCTG
19360830 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:19370075 original size:218 final size:218
Alignment explanation
Indices: 19369697--19370128 Score: 801
Period size: 218 Copynumber: 2.0 Consensus size: 218
19369687 GAGGGAGAAA
*
19369697 GAGCTTTATGCGAAATTCAGTAAGTGTGAGTTCTGGTTGAGAGAGGTAACTTTCTTGGGGCATGT
1 GAGCTTTATGCGAAATTCAGTAAGTATGAGTTCTGGTTGAGAGAGGTAACTTTCTTGGGGCATGT
*
19369762 TGTCTCTGCTAAAGGGATCAAGGTGGACCCTCGAAAGATTGAAGCGATTCTGGAATGGAAGCCAC
66 TGTCTCTGCTAAAGGGATCAAGGTGGACCCTCGAAAGATTGAAGCGATTCTGGAATAGAAGCCAC
19369827 CGAGGTTAGTGTCAGAAATTCGAATTTTTCTGGGTTTAGCTGGGTACTATAGAAGGTTTGTGGAA
131 CGAGGTTAGTGTCAGAAATTCGAATTTTTCTGGGTTTAGCTGGGTACTATAGAAGGTTTGTGGAA
19369892 GGATTTTCTGTGATGGCAGGAAG
196 GGATTTTCTGTGATGGCAGGAAG
19369915 GAGCTTTATGCGAAATTCAGTAAGTATGAGTTCTGGTTGAGAGAGGTAACTTTCTTGGGGCATGT
1 GAGCTTTATGCGAAATTCAGTAAGTATGAGTTCTGGTTGAGAGAGGTAACTTTCTTGGGGCATGT
* * *
19369980 TGTCTCTGCTGAAGGGATCAAGGTGGTCCCTCGAAAGATTGAAGCGATTCTGGAGTAGAAGCCAC
66 TGTCTCTGCTAAAGGGATCAAGGTGGACCCTCGAAAGATTGAAGCGATTCTGGAATAGAAGCCAC
**
19370045 CGAGGTTAGTGTTGGAAATTCGAATTTTTCTGGGTTTAGCTGGGTACTATAGAAGGTTTGTGGAA
131 CGAGGTTAGTGTCAGAAATTCGAATTTTTCTGGGTTTAGCTGGGTACTATAGAAGGTTTGTGGAA
19370110 GGATTTTCTGTGATGGCAG
196 GGATTTTCTGTGATGGCAG
19370129 CGCCTTTGAC
Statistics
Matches: 207, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
218 207 1.00
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.31
Consensus pattern (218 bp):
GAGCTTTATGCGAAATTCAGTAAGTATGAGTTCTGGTTGAGAGAGGTAACTTTCTTGGGGCATGT
TGTCTCTGCTAAAGGGATCAAGGTGGACCCTCGAAAGATTGAAGCGATTCTGGAATAGAAGCCAC
CGAGGTTAGTGTCAGAAATTCGAATTTTTCTGGGTTTAGCTGGGTACTATAGAAGGTTTGTGGAA
GGATTTTCTGTGATGGCAGGAAG
Found at i:19371600 original size:71 final size:71
Alignment explanation
Indices: 19371484--19371620 Score: 274
Period size: 71 Copynumber: 1.9 Consensus size: 71
19371474 AACAACAGTT
19371484 ATCAGGCAAGTATTCGAATGGCTCCTTATGAGGCACTGTATGGGCGAAGATGTCGTACACCTAGT
1 ATCAGGCAAGTATTCGAATGGCTCCTTATGAGGCACTGTATGGGCGAAGATGTCGTACACCTAGT
19371549 TTAGTC
66 TTAGTC
19371555 ATCAGGCAAGTATTCGAATGGCTCCTTATGAGGCACTGTATGGGCGAAGATGTCGTACACCTAGT
1 ATCAGGCAAGTATTCGAATGGCTCCTTATGAGGCACTGTATGGGCGAAGATGTCGTACACCTAGT
19371620 T
66 T
19371621 GTTGGAGTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (71 bp):
ATCAGGCAAGTATTCGAATGGCTCCTTATGAGGCACTGTATGGGCGAAGATGTCGTACACCTAGT
TTAGTC
Found at i:19373430 original size:49 final size:47
Alignment explanation
Indices: 19373282--19373446 Score: 294
Period size: 47 Copynumber: 3.5 Consensus size: 47
19373272 TGACTCCTAA
* *
19373282 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
19373329 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
19373376 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACAT
19373425 TCATCACATCGGCCATTAGGCC
1 TCATCACATCGGCCATTAGGCC
19373447 ATACTATCAT
Statistics
Matches: 114, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
47 74 0.65
49 40 0.35
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (47 bp):
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
Found at i:19376872 original size:40 final size:40
Alignment explanation
Indices: 19376827--19377062 Score: 212
Period size: 40 Copynumber: 5.9 Consensus size: 40
19376817 CGAATACACG
* * * *
19376827 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* ** *
19376867 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
19376907 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
19376947 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
19376987 GTAACTC-GCACCAATGC-CTTC-GGATCTTAGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATAT-A
* *
19377028 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
19377063 CATCATTCGA
Statistics
Matches: 160, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.02
40 139 0.87
41 18 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:19377048 original size:120 final size:120
Alignment explanation
Indices: 19376827--19377062 Score: 270
Period size: 120 Copynumber: 2.0 Consensus size: 120
19376817 CGAATACACG
* * *
19376827 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGATATAACACCAGCACCAATGCTCTTCGGGA
*
19376892 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
66 TTTAGCACGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACA
* * * *
19376947 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TC-GCACCAATGC-CTTC-
1 TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGA--TA-TAACACCAGCACCAATGCTCTTCG
* *
19377008 GGATCTTAGTC-CGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
63 GGAT-TTAG-CACGGATAT-ATCAC-TAGCACGAAAGCTCTTCGGAACTTAGCCCGGA
19377063 CATCATTCGA
Statistics
Matches: 99, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
119 3 0.03
120 65 0.66
121 18 0.18
122 9 0.09
123 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
TCACCAGCATGAATACTCTTCGGGACCTAGCCCGGATATAACACCAGCACCAATGCTCTTCGGGA
TTTAGCACGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGATACA
Found at i:19377407 original size:29 final size:29
Alignment explanation
Indices: 19377368--19377446 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
19377358 CTTAATAATC
*
19377368 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
19377398 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
19377427 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
19377447 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:19377489 original size:43 final size:43
Alignment explanation
Indices: 19377428--19377530 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
19377418 TGCATTTCAA
19377428 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
19377471 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
19377514 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
19377531 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:19379446 original size:37 final size:37
Alignment explanation
Indices: 19379396--19379474 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19379386 TTATTACGAA
* * *
19379396 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
19379433 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
19379470 GTCTT
1 GTCTT
19379475 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:19379700 original size:49 final size:49
Alignment explanation
Indices: 19379595--19379723 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
19379585 CTTCGGGACT
* * * *
19379595 TATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
19379642 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
19379691 TATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATATACACT-TTCACATCCATCACAT
19379724 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 1 0.01
49 35 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:19383133 original size:27 final size:26
Alignment explanation
Indices: 19383089--19383140 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19383079 CTCGCTGCAA
*
19383089 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
19383116 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
19383141 GCAGCCTCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:19387780 original size:30 final size:30
Alignment explanation
Indices: 19387746--19387803 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19387736 TTTTCGTGCA
* *
19387746 TAGGGATAAAATGGTCATTTTGCCAAAGTC
1 TAGGGACAAAATGGTCATTTTACCAAAGTC
*
19387776 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGACAAAATGGTCATTTTACCAAAG
19387804 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (30 bp):
TAGGGACAAAATGGTCATTTTACCAAAGTC
Found at i:19389111 original size:55 final size:55
Alignment explanation
Indices: 19389041--19389174 Score: 189
Period size: 55 Copynumber: 2.4 Consensus size: 55
19389031 GCACTTAAAA
* *
19389041 TTTAAAGTCAGTGTTGTACATGGGCAGGCCACATGGGCGTGTGTCATGGCCGTGT
1 TTTAAAGTCAGTGTTGTACATGGGCAGGCCACACGGGCGTGTGTCATAGCCGTGT
* ** *
19389096 TTTAAAGTCAATGTTGTACACAGGTAGGCCACACGGGCGTGTGTCATAGCCGTGT
1 TTTAAAGTCAGTGTTGTACATGGGCAGGCCACACGGGCGTGTGTCATAGCCGTGT
*
19389151 TTTAAAG-CTAGTGTTGCACATGGG
1 TTTAAAGTC-AGTGTTGTACATGGG
19389175 TTAAGGGCAC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 1 0.01
55 67 0.99
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (55 bp):
TTTAAAGTCAGTGTTGTACATGGGCAGGCCACACGGGCGTGTGTCATAGCCGTGT
Found at i:19393062 original size:27 final size:27
Alignment explanation
Indices: 19393030--19393318 Score: 301
Period size: 27 Copynumber: 10.7 Consensus size: 27
19393020 TACATCACAT
* *
19393030 AGGGCAAAACAGTCATCTTACCATATG
1 AGGGCAAAACAGTCATTTTACCATATA
* * * * * *
19393057 GGGGCAAAATAGTTATCTTACTACATA
1 AGGGCAAAACAGTCATTTTACCATATA
* * *
19393084 AGAGCAAAACAGTCATTTCACCACATA
1 AGGGCAAAACAGTCATTTTACCATATA
*
19393111 AGGGCAAAACAGTCATTTTACTATATA
1 AGGGCAAAACAGTCATTTTACCATATA
* *
19393138 AGGGCAAAATAGTC-TTCTTACCACATA
1 AGGGCAAAACAGTCATT-TTACCATATA
* * * * *
19393165 AGAGCAAAATAGTCATTTCACCACAGA
1 AGGGCAAAACAGTCATTTTACCATATA
*
19393192 AGGGCAAAACAGTCATTTTACTATATTA
1 AGGGCAAAACAGTCATTTTACCATA-TA
* * * * *
19393220 GGGGTAAAATAATTATTTTACCATATA
1 AGGGCAAAACAGTCATTTTACCATATA
*
19393247 AGGGCAAAACAATCATTTTACCATATA
1 AGGGCAAAACAGTCATTTTACCATATA
*
19393274 AGGGCAAAACTGTCATTTTACCATATA
1 AGGGCAAAACAGTCATTTTACCATATA
*
19393301 AGGGCAAATCAGTCATTT
1 AGGGCAAAACAGTCATTT
19393319 AGTCAATTTA
Statistics
Matches: 216, Mismatches: 43, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.01
27 192 0.89
28 22 0.10
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (27 bp):
AGGGCAAAACAGTCATTTTACCATATA
Found at i:19393121 original size:81 final size:81
Alignment explanation
Indices: 19393025--19393308 Score: 374
Period size: 81 Copynumber: 3.5 Consensus size: 81
19393015 ATATATACAT
* ** *
19393025 CACAT-AGGGCAAAACAGTCATCTTACCATATGGGGGCAAAATAGTTATCTTACTACATAAGAGC
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAATAGTTATCTTACCACATAAGAGC
19393089 AAAACAGTCATTTCAC
66 AAAACAGTCATTTCAC
*
19393105 CACATAAGGGCAAAACAGTCATTTTACTATATAAGGGCAAAATAGTCT-TCTTACCACATAAGAG
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAATAGT-TATCTTACCACATAAGAG
*
19393169 CAAAATAGTCATTTCAC
65 CAAAACAGTCATTTCAC
* * * * * * * *
19393186 CACAGAAGGGCAAAACAGTCATTTTACTATATTAGGGGTAAAATAATTATTTTACCATATAAGGG
1 CACATAAGGGCAAAACAGTCATTTTACCATA-TAAGGGCAAAATAGTTATCTTACCACATAAGAG
* *
19393251 CAAAACAATCATTTTAC
65 CAAAACAGTCATTTCAC
* *
19393268 CATATAAGGGCAAAACTGTCATTTTACCATATAAGGGCAAA
1 CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAA
19393309 TCAGTCATTT
Statistics
Matches: 178, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
80 5 0.03
81 106 0.60
82 67 0.38
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (81 bp):
CACATAAGGGCAAAACAGTCATTTTACCATATAAGGGCAAAATAGTTATCTTACCACATAAGAGC
AAAACAGTCATTTCAC
Found at i:19393331 original size:109 final size:109
Alignment explanation
Indices: 19393030--19393318 Score: 271
Period size: 109 Copynumber: 2.7 Consensus size: 109
19393020 TACATCACAT
* * * ** * * * * *
19393030 AGGGCAAAACAGTCATCTTACCATATGGGGGCAAAATAGTTATCTT-ACTACATAAGAGCAAAAC
1 AGGGCAAAACAATCTTCTTACCACATAAGAGCAAAATAGTCAT-TTCACCACAGAAGGGCAAAAC
* * * * * * * * *
19393094 AGTCATTTCACCACA-TAAGGGCAAAACAGTCATTTTACTATATA
65 AGTCATTTTACAATATTAGGGGTAAAATAATTATTTTACCATATA
* *
19393138 AGGGCAAAATAGTCTTCTTACCACATAAGAGCAAAATAGTCATTTCACCACAGAAGGGCAAAACA
1 AGGGCAAAACAATCTTCTTACCACATAAGAGCAAAATAGTCATTTCACCACAGAAGGGCAAAACA
*
19393203 GTCATTTTACTATATTAGGGGTAAAATAATTATTTTACCATATA
66 GTCATTTTACAATATTAGGGGTAAAATAATTATTTTACCATATA
* * * * * *
19393247 AGGGCAAAACAATCATT-TTACCATATAAGGGCAAAACT-GTCATTTTACCATATAAGGGCAAAT
1 AGGGCAAAACAATC-TTCTTACCACATAAGAGCAAAA-TAGTCATTTCACCACAGAAGGGCAAAA
19393310 CAGTCATTT
64 CAGTCATTT
19393319 AGTCAATTTA
Statistics
Matches: 150, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
107 2 0.01
108 63 0.42
109 82 0.55
110 3 0.02
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (109 bp):
AGGGCAAAACAATCTTCTTACCACATAAGAGCAAAATAGTCATTTCACCACAGAAGGGCAAAACA
GTCATTTTACAATATTAGGGGTAAAATAATTATTTTACCATATA
Found at i:19395127 original size:39 final size:40
Alignment explanation
Indices: 19395032--19395293 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
19395022 TTGAATGATG
*
19395032 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
19395070 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
19395111 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
19395150 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19395189 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
19395228 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
19395267 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
19395294 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19404193 original size:40 final size:40
Alignment explanation
Indices: 19404104--19404367 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
19404094 TTGAATGATG
* *
19404104 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
19404143 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
19404183 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19404222 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19404262 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
19404302 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19404343 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19404368 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19404385 original size:120 final size:118
Alignment explanation
Indices: 19404104--19404400 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
19404094 TTGAATGATG
* *
19404104 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
19404164 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
19404222 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
19404287 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
19404343 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
19404401 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:19409753 original size:18 final size:18
Alignment explanation
Indices: 19409730--19409764 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19409720 TAGCCTATTA
19409730 CAGTAACAGTAAATAGTG
1 CAGTAACAGTAAATAGTG
*
19409748 CAGTAACAGTAAGTAGT
1 CAGTAACAGTAAATAGT
19409765 ATGCAAGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (18 bp):
CAGTAACAGTAAATAGTG
Found at i:19410152 original size:27 final size:27
Alignment explanation
Indices: 19410095--19410172 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
19410085 GAAAAATAGT
*
19410095 CATTTTACC-TCATAAGGGCAAAACCAT
1 CATTTTACCAT-ATAAGGGCAAAACCAC
* **
19410122 CATTTTACCATATAAGGGCAAAGCTGC
1 CATTTTACCATATAAGGGCAAAACCAC
* * *
19410149 CATTTTAACACATAACGGCAAAAC
1 CATTTTACCATATAAGGGCAAAAC
19410173 AGTCAGTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (27 bp):
CATTTTACCATATAAGGGCAAAACCAC
Found at i:19410201 original size:27 final size:27
Alignment explanation
Indices: 19410171--19410264 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
19410161 TAACGGCAAA
* *
19410171 ACAGTCAGTTTACCTTATAGGGCTATT
1 ACAGTCATTTTACCCTATAGGGCTATT
*
19410198 ACAGTCATTTTACCCTATAGGGGTATT
1 ACAGTCATTTTACCCTATAGGGCTATT
* *
19410225 TCAGTCATTTTATCCTATGAGGG-TACTT
1 ACAGTCATTTTACCCTAT-AGGGCTA-TT
*
19410253 -CAATCATTTTAC
1 ACAGTCATTTTAC
19410265 AAATCGGGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 52 0.90
28 6 0.10
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (27 bp):
ACAGTCATTTTACCCTATAGGGCTATT
Found at i:19410642 original size:27 final size:27
Alignment explanation
Indices: 19410612--19410711 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 27
19410602 GGAAAAATAG
19410612 TCATTTTACCTCATAAGGGCAAAACGA
1 TCATTTTACCTCATAAGGGCAAAACGA
*
19410639 TCATTTTACCAT-ATAAGGGCAAAGCTG-
1 TCATTTTACC-TCATAAGGGCAAAAC-GA
* *
19410666 TCATTTTAACACATAAGGGCAAAAC-A
1 TCATTTTACCTCATAAGGGCAAAACGA
* *
19410692 GTCAGTTTACCTTAT-AGGGC
1 -TCATTTTACCTCATAAGGGC
19410712 TATTACAGTC
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
26 5 0.08
27 53 0.88
28 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (27 bp):
TCATTTTACCTCATAAGGGCAAAACGA
Found at i:19410719 original size:27 final size:27
Alignment explanation
Indices: 19410689--19410782 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
19410679 TAAGGGCAAA
*
19410689 ACAGTCAGTTTACCTTATAGGGCTATT
1 ACAGTCATTTTACCTTATAGGGCTATT
* *
19410716 ACAGTCATTTTACCCTATAGGGGTATT
1 ACAGTCATTTTACCTTATAGGGCTATT
* *
19410743 TCAGTCATTTTATCTTATGAGGG-TACTT
1 ACAGTCATTTTACCTTAT-AGGGCTA-TT
*
19410771 -TAGTCATTTTAC
1 ACAGTCATTTTAC
19410783 AAATCGGGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
27 51 0.89
28 6 0.11
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (27 bp):
ACAGTCATTTTACCTTATAGGGCTATT
Found at i:19410727 original size:54 final size:54
Alignment explanation
Indices: 19410610--19410711 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
19410600 AGGGAAAAAT
* * *
19410610 AGTCATTTTACCTCATAAGGGCAAAACGATCATTTTACCATATAAGGGCAAAGC
1 AGTCATTTTAACACATAAGGGCAAAACGATCAGTTTACCATATAAGGGCAAAGC
* *
19410664 TGTCATTTTAACACATAAGGGCAAAAC-AGTCAGTTTACCTTAT-AGGGC
1 AGTCATTTTAACACATAAGGGCAAAACGA-TCAGTTTACCATATAAGGGC
19410712 TATTACAGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 6 0.14
54 36 0.86
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (54 bp):
AGTCATTTTAACACATAAGGGCAAAACGATCAGTTTACCATATAAGGGCAAAGC
Found at i:19410806 original size:518 final size:521
Alignment explanation
Indices: 19409823--19410869 Score: 1938
Period size: 518 Copynumber: 2.0 Consensus size: 521
19409813 TACACTCCAT
*
19409823 GTGGGGATATAATCAACCCACCTATCCCTACACTCTAGAATTAGGACCGGTTGCAGCACTAAACA
1 GTGGGGATATAATCAACCCACCCATCCCTACACTCTAGAATTAGGACCGGTTGCAGCACTAAACA
19409888 GTATTTGCAGCAGTGCTGCCACTATAATAGGCTCAGAGCCATCAGTGATTTGCAGCAGAGCTGCC
66 GTATTTGCAGCAGTGCTGCCACTATAATAGGCTCAGAGCCATCAGTGATTTGCAGCAGAGCTGCC
19409953 AGTACAGCACACTTCCTCCAATCATATATAAACCCATCCCCATCCCCATGCAATGCATCATGCAA
131 AGTACAGCACACTTCCTCCAATCATATATAAA--CA-CCCCATCCCCATGCAATGCATCATGCAA
*
19410018 CATGTCATGTCATATCATAATATTAAACATGCATAACATAGGGGCAAAATAGTCATCCTACGTAA
193 CATGTCATGTCATATCATAATATTAAACATACATAACATAGGGGCAAAATAGTCATCCTACGTAA
19410083 GGGAAAAATAGTCATTTTACCTCATAAGGGCAAAACCATCATTTTACCATATAAGGGCAAAGCTG
258 GGGAAAAATAGTCATTTTACCTCATAAGGGCAAAACCATCATTTTACCATATAAGGGCAAAGCTG
19410148 CCATTTTAACACATAACGGCAAAACAGTCAGTTTACCTTATAGGGCTATTACAGTCATTTTACCC
323 CCATTTTAACACATAACGGCAAAACAGTCAGTTTACCTTATAGGGCTATTACAGTCATTTTACCC
19410213 TATAGGGGTATTTCAGTCATTTTATCCTATGAGGGTACTTCAATCATTTTACAAATCGGGGTCTT
388 TATAGGGGTATTTCAGTCATTTTATCCTATGAGGGTACTTCAATCATTTTACAAATCGGGGTCTT
19410278 AATGACCAAACAGATGGTCCATCGTCGCCTTAAGCGACTTAAGTAACCTACACAGACATAACGGT
453 AATGACCAAACAGATGGTCCATCGTCGCCTTAAGCGACTTAAGTAACCTACACAGACATAACGGT
19410343 GCAA
518 GCAA
19410347 GTGGGGATATAATCAACCCACCCATCCCTACACTCTAGAATTAGGACCGGTTGCAGCACTAAACA
1 GTGGGGATATAATCAACCCACCCATCCCTACACTCTAGAATTAGGACCGGTTGCAGCACTAAACA
* *
19410412 GTATTTGCAGCAGTGCTGCTAGTATAATAGGCTCAGAGCCATCAGTGATTTGCAGCAGAGCTGCC
66 GTATTTGCAGCAGTGCTGCCACTATAATAGGCTCAGAGCCATCAGTGATTTGCAGCAGAGCTGCC
*
19410477 AGTACAGCACACTTCCTCCAATGATATAT-AA-A-CCCATCCCCATGCAATGCATCATGCAACAT
131 AGTACAGCACACTTCCTCCAATCATATATAAACACCCCATCCCCATGCAATGCATCATGCAACAT
19410539 GTCATGTCATATCATAATATTAAACATACATAACATAGGGGCAAAATAGTCATCCTACGTAAGGG
196 GTCATGTCATATCATAATATTAAACATACATAACATAGGGGCAAAATAGTCATCCTACGTAAGGG
* *
19410604 AAAAATAGTCATTTTACCTCATAAGGGCAAAACGATCATTTTACCATATAAGGGCAAAGCTGTCA
261 AAAAATAGTCATTTTACCTCATAAGGGCAAAACCATCATTTTACCATATAAGGGCAAAGCTGCCA
*
19410669 TTTTAACACATAAGGGCAAAACAGTCAGTTTACCTTATAGGGCTATTACAGTCATTTTACCCTAT
326 TTTTAACACATAACGGCAAAACAGTCAGTTTACCTTATAGGGCTATTACAGTCATTTTACCCTAT
* * *
19410734 AGGGGTATTTCAGTCATTTTATCTTATGAGGGTACTTTAGTCATTTTACAAATCGGGGTCTTAAT
391 AGGGGTATTTCAGTCATTTTATCCTATGAGGGTACTTCAATCATTTTACAAATCGGGGTCTTAAT
*
19410799 GACCAAACAGATGGTCCATCGTCGCCTTGAGCGACTTAAGTAACCTACACAGACATAACGGTGCA
456 GACCAAACAGATGGTCCATCGTCGCCTTAAGCGACTTAAGTAACCTACACAGACATAACGGTGCA
19410864 A
521 A
19410865 GTGGG
1 GTGGG
19410870 CTTAAGGCCC
Statistics
Matches: 511, Mismatches: 12, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
518 353 0.69
520 1 0.00
523 2 0.00
524 155 0.30
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (521 bp):
GTGGGGATATAATCAACCCACCCATCCCTACACTCTAGAATTAGGACCGGTTGCAGCACTAAACA
GTATTTGCAGCAGTGCTGCCACTATAATAGGCTCAGAGCCATCAGTGATTTGCAGCAGAGCTGCC
AGTACAGCACACTTCCTCCAATCATATATAAACACCCCATCCCCATGCAATGCATCATGCAACAT
GTCATGTCATATCATAATATTAAACATACATAACATAGGGGCAAAATAGTCATCCTACGTAAGGG
AAAAATAGTCATTTTACCTCATAAGGGCAAAACCATCATTTTACCATATAAGGGCAAAGCTGCCA
TTTTAACACATAACGGCAAAACAGTCAGTTTACCTTATAGGGCTATTACAGTCATTTTACCCTAT
AGGGGTATTTCAGTCATTTTATCCTATGAGGGTACTTCAATCATTTTACAAATCGGGGTCTTAAT
GACCAAACAGATGGTCCATCGTCGCCTTAAGCGACTTAAGTAACCTACACAGACATAACGGTGCA
A
Found at i:19411504 original size:40 final size:40
Alignment explanation
Indices: 19411460--19411539 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
19411450 AGTGTTAGAA
19411460 AAACCCTTAACAACCACCTAACCGAAAAATCGACTACCAC
1 AAACCCTTAACAACCACCTAACCGAAAAATCGACTACCAC
19411500 AAACCCTTAACAACCACCTAACCGAAAAATCGACTACCAC
1 AAACCCTTAACAACCACCTAACCGAAAAATCGACTACCAC
19411540 TTGCCTTAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.38, G:0.05, T:0.12
Consensus pattern (40 bp):
AAACCCTTAACAACCACCTAACCGAAAAATCGACTACCAC
Found at i:19416814 original size:38 final size:38
Alignment explanation
Indices: 19416763--19416848 Score: 118
Period size: 38 Copynumber: 2.3 Consensus size: 38
19416753 ATATTTGATG
* *
19416763 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTAT
* **
19416801 TATATCTGGGTTAAATCCCGTAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTAT
*
19416839 TATATTCGGG
1 TATATCCGGG
19416849 CCTTTGAGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTAT
Found at i:19416896 original size:45 final size:45
Alignment explanation
Indices: 19416841--19417058 Score: 228
Period size: 45 Copynumber: 4.9 Consensus size: 45
19416831 GCTGGTATTA
* *
19416841 TATTCGGGCCTTTGAGCCTAGTAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * * **
19416886 TATTTGGGCCTTTGAGCCTAGCAGGTTATTATGCTAGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * *
19416931 TATTCGAGCCTTTGAGCCCAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * * *
19416976 TATTCGGG-CTTTCGAGCCTCGCAGGCTATAATGCAGGTGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGA-CAC
* * * *
19417021 TAATCGGGTC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
19417059 TTTGAGAAAA
Statistics
Matches: 146, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
43 11 0.08
44 16 0.11
45 117 0.80
46 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:19422007 original size:22 final size:22
Alignment explanation
Indices: 19421981--19422058 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
19421971 CTACAAATAT
19421981 AAAATAATTAGGTAGGAAACAA
1 AAAATAATTAGGTAGGAAACAA
* ** *
19422003 AAAATAAAACTTAAGTAAAAAAAATA
1 AAAAT--AA-TTAGGTAGGAAACA-A
*
19422029 GAAAATAATTAGGTAGGAAACAG
1 -AAAATAATTAGGTAGGAAACAA
19422052 AAAATAA
1 AAAATAA
19422059 AACTTAAGTA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
22 12 0.29
24 12 0.29
25 12 0.29
26 1 0.02
27 5 0.12
ACGTcount: A:0.64, C:0.04, G:0.14, T:0.18
Consensus pattern (22 bp):
AAAATAATTAGGTAGGAAACAA
Found at i:19422028 original size:49 final size:49
Alignment explanation
Indices: 19421975--19422073 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
19421965 CTTAAACTAC
*
19421975 AAATATAAAATAATTAGGTAGGAAACAAAAAATAAAACTTAAGTAAAAA
1 AAATAGAAAATAATTAGGTAGGAAACAAAAAATAAAACTTAAGTAAAAA
*
19422024 AAATAGAAAATAATTAGGTAGGAAACAGAAAATAAAACTTAAGTAAAAA
1 AAATAGAAAATAATTAGGTAGGAAACAAAAAATAAAACTTAAGTAAAAA
19422073 A
1 A
19422074 CTGTCCATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (49 bp):
AAATAGAAAATAATTAGGTAGGAAACAAAAAATAAAACTTAAGTAAAAA
Found at i:19422223 original size:22 final size:22
Alignment explanation
Indices: 19422197--19422241 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
19422187 CCTTTTCTTG
19422197 ACCCTCTTACCTATGTCACGAC
1 ACCCTCTTACCTATGTCACGAC
19422219 ACCCTCTTACCTATGTCACGAC
1 ACCCTCTTACCTATGTCACGAC
19422241 A
1 A
19422242 TGATTTTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.40, G:0.09, T:0.27
Consensus pattern (22 bp):
ACCCTCTTACCTATGTCACGAC
Found at i:19422338 original size:21 final size:21
Alignment explanation
Indices: 19422282--19422339 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
19422272 TTCAAGACTG
*
19422282 TGTCTCAACATCCTCTAGCTA
1 TGTCTCAACATCCTTTAGCTA
*
19422303 TGTCTTAACATCCTTTAGCTA
1 TGTCTCAACATCCTTTAGCTA
*
19422324 TGTCGCAACATCCTTT
1 TGTCTCAACATCCTTT
19422340 GGTTGTGTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.38
Consensus pattern (21 bp):
TGTCTCAACATCCTTTAGCTA
Found at i:19432299 original size:26 final size:26
Alignment explanation
Indices: 19432270--19432320 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
19432260 ATATAACTTG
*
19432270 TATAACTTAAATGGTTATATGATTTT
1 TATAACTTAAATGGCTATATGATTTT
* *
19432296 TATAGCTTGAATGGCTATATGATTT
1 TATAACTTAAATGGCTATATGATTT
19432321 GTACATAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (26 bp):
TATAACTTAAATGGCTATATGATTTT
Found at i:19432939 original size:19 final size:19
Alignment explanation
Indices: 19432915--19432954 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
19432905 GTGTCACACA
19432915 TGGCTGAGACATACGCCCG
1 TGGCTGAGACATACGCCCG
19432934 TGGCTGAGACATACGCCCG
1 TGGCTGAGACATACGCCCG
19432953 TG
1 TG
19432955 TCTTTGGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (19 bp):
TGGCTGAGACATACGCCCG
Found at i:19442219 original size:47 final size:47
Alignment explanation
Indices: 19442158--19442280 Score: 228
Period size: 47 Copynumber: 2.6 Consensus size: 47
19442148 ATCCATAAGT
* *
19442158 GAACTCATAATCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
19442205 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
19442252 GAACTCAGACTCAACTCAACGAGTTCGGA
1 GAACTCAGACTCAACTCAACGAGTTCGGA
19442281 CATTCGCATC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:19442319 original size:46 final size:46
Alignment explanation
Indices: 19442252--19442464 Score: 417
Period size: 46 Copynumber: 4.6 Consensus size: 46
19442242 TACATCTCAC
*
19442252 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
19442298 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
19442344 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
19442390 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
19442436 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
19442465 TGCTCAACCA
Statistics
Matches: 166, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 166 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:19443103 original size:55 final size:55
Alignment explanation
Indices: 19443019--19443129 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
19443009 ATGAACTTAA
19443019 AATTGATCAATTTGCTATTTAAGACCTCCTCATTAATATTCCAAAACAATTTCAT
1 AATTGATCAATTTGCTATTTAAGACCTCCTCATTAATATTCCAAAACAATTTCAT
*
19443074 AATTGGTCAATTTGCTATTTAAGACCTCCTCATTAATATTCCAAAACAATTTCAT
1 AATTGATCAATTTGCTATTTAAGACCTCCTCATTAATATTCCAAAACAATTTCAT
19443129 A
1 A
19443130 CTAAAAACTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (55 bp):
AATTGATCAATTTGCTATTTAAGACCTCCTCATTAATATTCCAAAACAATTTCAT
Found at i:19445213 original size:21 final size:20
Alignment explanation
Indices: 19445189--19445231 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
19445179 TTAATGGTTG
19445189 ATTAA-AATAATAATAGTGTTA
1 ATTAATAATAA-AATA-TGTTA
19445210 ATTAATTAATAAAATATGTTA
1 ATTAA-TAATAAAATATGTTA
19445231 A
1 A
19445232 ATATAAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 11 0.55
22 4 0.20
23 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
ATTAATAATAAAATATGTTA
Found at i:19447314 original size:54 final size:54
Alignment explanation
Indices: 19447256--19447569 Score: 218
Period size: 54 Copynumber: 5.8 Consensus size: 54
19447246 ACCTAAGGGT
* * * *
19447256 AAAATAGTTATTTTACCTCATAATGGAAAAATCGTCATTTTATCACATAAGGCC
1 AAAATAGTCATTTTACCTCATAAGGGCAAAATTGTCATTTTATCACATAAGGCC
* **
19447310 AAAATCA-TTATTTTA--TCAATTAAGGGCAAAATTGTCATTTTATCACATAA-GAA
1 AAAAT-AGTCATTTTACCTC-A-TAAGGGCAAAATTGTCATTTTATCACATAAGGCC
* * * * * *
19447363 AAAATAGTCATTTTGCCAT-ATAAGGGCAAGATTATCATTTTA-CGTCATGAGGGC
1 AAAATAGTCATTTTACC-TCATAAGGGCAAAATTGTCATTTTATC-ACATAAGGCC
* * * * *
19447417 AAAACAGTCATTTTACCTCATGAGGCCAAAATAGTCATTTTATCTCATAAGGGCC
1 AAAATAGTCATTTTACCTCATAAGGGCAAAATTGTCATTTTATCACATAA-GGCC
* * * ** *
19447472 -AAATTGTCA-TTT-CATCGATTAAGGGAAAAAATTGTCATTTTGCCACATAAGGGC
1 AAAATAGTCATTTTACCTC-A-TAAGGG-CAAAATTGTCATTTTATCACATAAGGCC
* *
19447526 AAAATCA-TCATTTTACC-AATTAAGGGTAAAATTGTCATTTTATC
1 AAAAT-AGTCATTTTACCTCA-TAAGGGCAAAATTGTCATTTTATC
19447570 GATTAAGGGT
Statistics
Matches: 202, Mismatches: 39, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
52 7 0.03
53 42 0.21
54 109 0.54
55 39 0.19
56 4 0.02
57 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (54 bp):
AAAATAGTCATTTTACCTCATAAGGGCAAAATTGTCATTTTATCACATAAGGCC
Found at i:19447373 original size:26 final size:27
Alignment explanation
Indices: 19447249--19447569 Score: 163
Period size: 27 Copynumber: 11.9 Consensus size: 27
19447239 TCTTACCACC
* * * *
19447249 TAAGGGTAAAATAGTTATTTTACCTCA
1 TAAGGGAAAAATAGTCATTTTATCACA
* *
19447276 TAATGGAAAAATCGTCATTTTATCACA
1 TAAGGGAAAAATAGTCATTTTATCACA
** *
19447303 TAAGGCCAAAATCA-TTATTTTATCA-A
1 TAAGGGAAAAAT-AGTCATTTTATCACA
* *
19447329 TTAAGGGCAAAATTGTCATTTTATCACA
1 -TAAGGGAAAAATAGTCATTTTATCACA
* ** *
19447357 TAA-GAAAAAATAGTCATTTTGCCATA
1 TAAGGGAAAAATAGTCATTTTATCACA
* * *
19447383 TAAGGGCAAGATTA-TCATTTTA-CGTCA
1 TAAGGG-AAAAATAGTCATTTTATC-ACA
* * * * *
19447410 TGAGGGCAAAACAGTCATTTTACCTCA
1 TAAGGGAAAAATAGTCATTTTATCACA
* ** *
19447437 TGAGGCCAAAATAGTCATTTTATCTCA
1 TAAGGGAAAAATAGTCATTTTATCACA
** * * *
19447464 TAAGGGCCAAATTGTCATTTCATCGA-T
1 TAAGGGAAAAATAGTCATTTTATC-ACA
* **
19447491 TAAGGGAAAAAATTGTCATTTTGCCACA
1 TAAGGG-AAAAATAGTCATTTTATCACA
* *
19447519 TAAGGGCAAAATCA-TCATTTTACCA-A
1 TAAGGGAAAAAT-AGTCATTTTATCACA
* *
19447545 TTAAGGGTAAAATTGTCATTTTATC
1 -TAAGGGAAAAATAGTCATTTTATC
19447570 GATTAAGGGT
Statistics
Matches: 226, Mismatches: 53, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
26 26 0.12
27 174 0.77
28 26 0.12
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
TAAGGGAAAAATAGTCATTTTATCACA
Found at i:19447538 original size:82 final size:82
Alignment explanation
Indices: 19447256--19447578 Score: 220
Period size: 82 Copynumber: 4.0 Consensus size: 82
19447246 ACCTAAGGGT
* * * * * * * ** *
19447256 AAAATAGTTATTTTACCTCATAATGG-AAAAATCGTCATTTTATCACA-TAAGGCCAAAATCATT
1 AAAATTGTCATTTTACCACATAA-GGCCAAAATAGTCATTTTACCA-ATTAAGGGCAAAATTGTC
* * *
19447319 ATTTTATCAATTAAGGG-C
64 ATTTCATCGATTAAGGGAA
* ** * * *
19447337 AAAATTGTCATTTTATCACATAA-GAAAAAATAGTCATTTTGCC-ATATAAGGGCAAGATTATCA
1 AAAATTGTCATTTTACCACATAAGGCCAAAATAGTCATTTTACCAAT-TAAGGGCAAAATTGTCA
* *
19447400 TTTTA-CG-TCATGAGGGCAA
65 TTTCATCGAT--TAAGGG-AA
* * * *
19447419 AACA--GTCATTTTACCTCATGAGGCCAAAATAGTCATTTTATCTC-A-TAAGGGCCAAATTGTC
1 AAAATTGTCATTTTACCACATAAGGCCAAAATAGTCATTTTA-C-CAATTAAGGGCAAAATTGTC
19447480 ATTTCATCGATTAAGGGAA
64 ATTTCATCGATTAAGGGAA
* * *
19447499 AAAATTGTCATTTTGCCACATAAGGGCAAAATCA-TCATTTTACCAATTAAGGGTAAAATTGTCA
1 AAAATTGTCATTTTACCACATAAGGCCAAAAT-AGTCATTTTACCAATTAAGGGCAAAATTGTCA
*
19447563 TTTTATCGATTAAGGG
65 TTTCATCGATTAAGGG
19447579 TCCAGGTACG
Statistics
Matches: 191, Mismatches: 34, Indels: 33
0.74 0.13 0.13
Matches are distributed among these distances:
78 2 0.01
79 2 0.01
80 58 0.30
81 59 0.31
82 66 0.35
83 4 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (82 bp):
AAAATTGTCATTTTACCACATAAGGCCAAAATAGTCATTTTACCAATTAAGGGCAAAATTGTCAT
TTCATCGATTAAGGGAA
Found at i:19447579 original size:27 final size:27
Alignment explanation
Indices: 19447283--19447578 Score: 171
Period size: 27 Copynumber: 11.0 Consensus size: 27
19447273 TCATAATGGA
* *
19447283 AAAATCGTCATTTTATCACA-TAAGGCC
1 AAAATTGTCATTTTATC-CATTAAGGGC
** * *
19447310 AAAATCATTATTTTATCAATTAAGGGC
1 AAAATTGTCATTTTATCCATTAAGGGC
**
19447337 AAAATTGTCATTTTATCACA-TAA-GAA
1 AAAATTGTCATTTTATC-CATTAAGGGC
* *
19447363 AAAATAGTCATTTT-GCCATATAAGGGC
1 AAAATTGTCATTTTATCCAT-TAAGGGC
* * *
19447390 AAGATTATCATTTTA-CGTCA-TGAGGGC
1 AAAATTGTCATTTTATC--CATTAAGGGC
** * * *
19447417 AAAACAGTCATTTTACCTCA-TGAGGCC
1 AAAATTGTCATTTTATC-CATTAAGGGC
*
19447444 AAAATAGTCATTTTATCTCA-TAAGGGC
1 AAAATTGTCATTTTATC-CATTAAGGGC
* * * *
19447471 CAAATTGTCATTTCATCGATTAAGGGAA
1 AAAATTGTCATTTTATCCATTAAGGG-C
* *
19447499 AAAATTGTCATTTT-GCCACATAAGGGC
1 AAAATTGTCATTTTATCCA-TTAAGGGC
** *
19447526 AAAATCATCATTTTA-CCAATTAAGGGT
1 AAAATTGTCATTTTATCC-ATTAAGGGC
*
19447553 AAAATTGTCATTTTATCGATTAAGGG
1 AAAATTGTCATTTTATCCATTAAGGG
19447579 TCCAGGTACG
Statistics
Matches: 209, Mismatches: 45, Indels: 30
0.74 0.16 0.11
Matches are distributed among these distances:
24 2 0.01
25 1 0.00
26 19 0.09
27 163 0.78
28 22 0.11
29 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (27 bp):
AAAATTGTCATTTTATCCATTAAGGGC
Found at i:19449829 original size:29 final size:31
Alignment explanation
Indices: 19449754--19449857 Score: 106
Period size: 31 Copynumber: 3.4 Consensus size: 31
19449744 GGTTTTAAAA
* * * * *
19449754 TATCAGGTACTACGTACTGGTGATTATATTA
1 TATCAGGTACTATGTACCGATGCTTATATTG
*
19449785 TATTAGGTACTATGTACCGATGAC-TATA-T-
1 TATCAGGTACTATGTACCGATG-CTTATATTG
* *
19449814 TATCAGGTACTTTGTATCGATGCTTATATTG
1 TATCAGGTACTATGTACCGATGCTTATATTG
19449845 TATCAGGTACTAT
1 TATCAGGTACTAT
19449858 ATGCCAGTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.02
29 23 0.38
30 2 0.03
31 34 0.57
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (31 bp):
TATCAGGTACTATGTACCGATGCTTATATTG
Found at i:19456111 original size:17 final size:17
Alignment explanation
Indices: 19456077--19456111 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19456067 CAACTAAAAC
**
19456077 TTAATTTATTATTTATA
1 TTAATTTATTATAAATA
19456094 TTAATTTATTATAAATA
1 TTAATTTATTATAAATA
19456111 T
1 T
19456112 ATCTACTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTAATTTATTATAAATA
Found at i:19456122 original size:28 final size:29
Alignment explanation
Indices: 19456090--19456155 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 29
19456080 ATTTATTATT
*
19456090 TATATTAATTTATTATAAATAT-ATCTAC
1 TATATTAATTTATTATAAATATAATCTAA
* *
19456118 TATA-TAATTTATTTTTAATATAATCTAA
1 TATATTAATTTATTATAAATATAATCTAA
19456146 TATATATAAT
1 TATAT-TAAT
19456156 ATCATTCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 15 0.47
28 13 0.41
30 4 0.12
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (29 bp):
TATATTAATTTATTATAAATATAATCTAA
Found at i:19464731 original size:22 final size:22
Alignment explanation
Indices: 19464691--19464733 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
19464681 GACTATGCGA
*
19464691 TCTGAGCTCATAAGCTATGTGG
1 TCTGAGCTCATAAGATATGTGG
* *
19464713 TCTGAGCTCATGATATATGTG
1 TCTGAGCTCATAAGATATGTG
19464734 ACACATGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (22 bp):
TCTGAGCTCATAAGATATGTGG
Found at i:19472747 original size:28 final size:28
Alignment explanation
Indices: 19472714--19472809 Score: 108
Period size: 28 Copynumber: 3.4 Consensus size: 28
19472704 ATAAATATAT
19472714 GCACTATGTGTGCGAAATTATTAACCGA
1 GCACTATGTGTGCGAAATTATTAACCGA
* * **
19472742 GCACTATGTGTGCTAGATCGGGTGTAA--G-
1 GCACTATGTGTGCGAAAT--TAT-TAACCGA
19472770 GCACTATGTGTGCGAAATTATTAACCGA
1 GCACTATGTGTGCGAAATTATTAACCGA
19472798 GCACTATGTGTG
1 GCACTATGTGTG
19472810 TGAGATCGGG
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 44 0.81
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAAATTATTAACCGA
Found at i:19472829 original size:28 final size:28
Alignment explanation
Indices: 19472742--19472839 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
19472732 TATTAACCGA
19472742 GCACTATGTGTGCT-AGATCGGGTGTAAG
1 GCACTATGTGTG-TGAGATCGGGTGTAAG
* * **
19472770 GCACTATGTGTGCGAAAT--TAT-TAACCG
1 GCACTATGTGTGTGAGATCGGGTGTAA--G
19472797 AGCACTATGTGTGTGAGATCGGGTGTAAG
1 -GCACTATGTGTGTGAGATCGGGTGTAAG
*
19472826 GCACTGTGTGTGTG
1 GCACTATGTGTGTG
19472840 CGAAATTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
25 3 0.06
26 1 0.02
27 1 0.02
28 44 0.81
29 1 0.02
30 1 0.02
31 3 0.06
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGTGAGATCGGGTGTAAG
Found at i:19472845 original size:58 final size:56
Alignment explanation
Indices: 19472714--19472849 Score: 229
Period size: 56 Copynumber: 2.4 Consensus size: 56
19472704 ATAAATATAT
19472714 GCACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCTAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCTAGATCGGGTGTAAG
19472770 GCACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTG-TGAGATCGGGTGTAAG
1 GCACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCT-AGATCGGGTGTAAG
*
19472826 GCACTGTGTGTGTGCGAAATTATT
1 GCAC--TATGTGTGCGAAATTATT
19472850 TAAGGAATAT
Statistics
Matches: 76, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
55 1 0.01
56 58 0.76
58 17 0.22
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (56 bp):
GCACTATGTGTGCGAAATTATTAACCGAGCACTATGTGTGCTAGATCGGGTGTAAG
Found at i:19481971 original size:40 final size:40
Alignment explanation
Indices: 19481926--19482962 Score: 1660
Period size: 40 Copynumber: 25.9 Consensus size: 40
19481916 CGAATACACG
* * * *
19481926 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
19481966 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482006 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482046 TCACTAGCATGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482086 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482126 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482166 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482206 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482246 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482286 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482326 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482366 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482406 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482446 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482486 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482526 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482566 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482606 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482646 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482686 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482726 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482766 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482806 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19482846 TCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482886 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19482926 TCACTAGCATGAATGCTCTTCGGGACTTAACCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
19482963 TTAGTAACTC
Statistics
Matches: 916, Mismatches: 81, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 916 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:19482988 original size:80 final size:80
Alignment explanation
Indices: 19481926--19482962 Score: 1939
Period size: 80 Copynumber: 13.0 Consensus size: 80
19481916 CGAATACACG
* * * * * * * *
19481926 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
* * * *
19481991 TTTAGCACGGATATA
66 CTTAACCCGGATACA
* *
19482006 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482071 CTTAACCCGGATACA
66 CTTAACCCGGATACA
19482086 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482151 CTTAACCCGGATACA
66 CTTAACCCGGATACA
19482166 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482231 CTTAACCCGGATACA
66 CTTAACCCGGATACA
19482246 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482311 CTTAACCCGGATACA
66 CTTAACCCGGATACA
19482326 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482391 CTTAACCCGGATACA
66 CTTAACCCGGATACA
19482406 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482471 CTTAACCCGGATACA
66 CTTAACCCGGATACA
19482486 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482551 CTTAACCCGGATACA
66 CTTAACCCGGATACA
19482566 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482631 CTTAACCCGGATACA
66 CTTAACCCGGATACA
19482646 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482711 CTTAACCCGGATACA
66 CTTAACCCGGATACA
19482726 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482791 CTTAACCCGGATACA
66 CTTAACCCGGATACA
19482806 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482871 CTTAACCCGGATACA
66 CTTAACCCGGATACA
*
19482886 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
19482951 CTTAACCCGGAT
66 CTTAACCCGGAT
19482963 TTAGTAACTC
Statistics
Matches: 940, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 940 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
CTTAACCCGGATACA
Found at i:19483006 original size:39 final size:40
Alignment explanation
Indices: 19482937--19483080 Score: 125
Period size: 40 Copynumber: 3.6 Consensus size: 40
19482927 CACTAGCATG
* *
19482937 AATGCTCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGC-CTTCGGGACTTAACCCGGAATTAGTAACTCGCACA
* *
19482978 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACA
* ** * * *
19483017 AATGCCTT-TGGATCTTAGTCCGG-ATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCACA
*
19483058 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19483081 CATCATTCGA
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 33 0.39
40 34 0.40
41 16 0.19
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACA
Found at i:19486922 original size:53 final size:53
Alignment explanation
Indices: 19486842--19486947 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
19486832 GAAACACCGA
*
19486842 GTGAGTATATAACTCAGTAAGTCATAAGCAATGCACTACCATCCATTAATAAC
1 GTGAGTATATAACTCAGTAAGTCATAAGCAATACACTACCATCCATTAATAAC
19486895 GTGAGTATATAACTCAGTAAGTCATAAGCAATACACTACCATCCATTAATAAC
1 GTGAGTATATAACTCAGTAAGTCATAAGCAATACACTACCATCCATTAATAAC
19486948 ATTATCACAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (53 bp):
GTGAGTATATAACTCAGTAAGTCATAAGCAATACACTACCATCCATTAATAAC
Found at i:19487410 original size:28 final size:28
Alignment explanation
Indices: 19487347--19487469 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
19487337 ATATTAAGTC
*
19487347 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
19487374 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
19487402 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
19487430 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
19487459 CGCACACTTAG
1 CGCACACTTAG
19487470 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:19495654 original size:79 final size:81
Alignment explanation
Indices: 19495552--19495736 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
19495542 GCTACTCATT
* * *
19495552 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
19495615 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
19495632 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
19495696 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
19495712 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19495737 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:19495736 original size:40 final size:40
Alignment explanation
Indices: 19495552--19495736 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
19495542 GCTACTCATT
* *
19495552 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
19495592 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
19495632 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
19495671 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
19495712 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19495737 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:19506759 original size:19 final size:19
Alignment explanation
Indices: 19506732--19506771 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
19506722 GTGAGCATGC
19506732 ATATATGTGATAAGGCCGA
1 ATATATGTGATAAGGCCGA
*
19506751 ATATGTGTGATAAGGCCGA
1 ATATATGTGATAAGGCCGA
19506770 AT
1 AT
19506772 GGCCAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (19 bp):
ATATATGTGATAAGGCCGA
Found at i:19506870 original size:47 final size:47
Alignment explanation
Indices: 19506751--19506930 Score: 272
Period size: 47 Copynumber: 3.8 Consensus size: 47
19506741 ATAAGGCCGA
*
19506751 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGATA-AGGCC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA-ACATG-C
*
19506799 GAATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 --ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
19506848 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* **
19506895 ATATATGTGATAAGGTAGAATGGCCAATGTGATGAA
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
19506931 CGTGGAAGTG
Statistics
Matches: 123, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
47 79 0.64
49 1 0.01
50 43 0.35
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:19507014 original size:46 final size:46
Alignment explanation
Indices: 19506954--19507080 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 46
19506944 ATATGTGGCG
* *
19506954 AAGCCGAATTGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
* * * * *
19507000 AAGCCGAGTGGCTAATGCAAAACGTGTATGATATGGATACGTGGTA
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
* * * *
19507046 AAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
19507081 TGTATATATA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATACGAGGTA
Found at i:19509741 original size:27 final size:27
Alignment explanation
Indices: 19509705--19509761 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
19509695 GTAATTAAGA
19509705 CCCCAGTTTGTAAAACTACCAAAATAC
1 CCCCAGTTTGTAAAACTACCAAAATAC
* * * *
19509732 CCCCGGTTTGTAAAATTACCCAATTAC
1 CCCCAGTTTGTAAAACTACCAAAATAC
19509759 CCC
1 CCC
19509762 TGTAAAGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.33, G:0.09, T:0.25
Consensus pattern (27 bp):
CCCCAGTTTGTAAAACTACCAAAATAC
Found at i:19511495 original size:28 final size:28
Alignment explanation
Indices: 19511432--19511697 Score: 435
Period size: 28 Copynumber: 9.5 Consensus size: 28
19511422 ATATTAAGTC
* *
19511432 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19511459 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
19511487 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
19511515 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19511543 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19511571 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19511599 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19511627 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19511655 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
19511683 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19511698 GTACAATTTA
Statistics
Matches: 223, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
27 22 0.10
28 201 0.90
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:19519713 original size:28 final size:28
Alignment explanation
Indices: 19519650--19519855 Score: 299
Period size: 28 Copynumber: 7.4 Consensus size: 28
19519640 ATATTAAGTC
* *
19519650 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
19519677 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
19519705 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19519733 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19519761 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
19519789 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
19519816 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
19519845 CGCACACTTAG
1 CGCACACTTAG
19519856 CGCCAATCTC
Statistics
Matches: 166, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
27 42 0.25
28 111 0.67
29 13 0.08
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:19523819 original size:40 final size:40
Alignment explanation
Indices: 19523587--19523812 Score: 291
Period size: 40 Copynumber: 5.7 Consensus size: 40
19523577 TCGAATGATG
* * *
19523587 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
19523627 TCCGAACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
19523667 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
19523707 TCCGGACTAAGATCCGAAGGCAGTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
19523747 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
19523788 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
19523813 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 160 0.94
41 10 0.06
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19531057 original size:26 final size:26
Alignment explanation
Indices: 19531001--19531057 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
19530991 AGAGCCCCTT
*
19531001 TCTCACTTTTTCAATCATCCCTCATC
1 TCTCACTTATTCAATCATCCCTCATC
* * *
19531027 CCTCACTTATTC-ATCATTCTCTCCTC
1 TCTCACTTATTCAATCA-TCCCTCATC
19531053 TCTCA
1 TCTCA
19531058 ATTCTCTTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (26 bp):
TCTCACTTATTCAATCATCCCTCATC
Found at i:19532595 original size:25 final size:25
Alignment explanation
Indices: 19532540--19532597 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
19532530 ATGCTCATGT
* * * **
19532540 GAGCCATATAACGGGAAGCTTATCC
1 GAGCTATATAACAGGAAGCTCATAA
*
19532565 GGGCTATATAACAGGAAGCTCATAA
1 GAGCTATATAACAGGAAGCTCATAA
19532590 GAGCTATA
1 GAGCTATA
19532598 ATTGGGAAGC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (25 bp):
GAGCTATATAACAGGAAGCTCATAA
Found at i:19536063 original size:15 final size:15
Alignment explanation
Indices: 19536043--19536072 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19536033 GCTATTTTTG
19536043 GTATATCTAATTCTT
1 GTATATCTAATTCTT
19536058 GTATATCTAATTCTT
1 GTATATCTAATTCTT
19536073 TCACCCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
GTATATCTAATTCTT
Found at i:19539194 original size:18 final size:18
Alignment explanation
Indices: 19539173--19539207 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19539163 TGTGGCCTGG
*
19539173 AACATGCCCGTGGGGCTC
1 AACATGCCCGTAGGGCTC
*
19539191 AACATGGCCGTAGGGCT
1 AACATGCCCGTAGGGCT
19539208 AGGCCATGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.29, G:0.34, T:0.17
Consensus pattern (18 bp):
AACATGCCCGTAGGGCTC
Found at i:19541037 original size:12 final size:12
Alignment explanation
Indices: 19541012--19541044 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19541002 AAACCCTAAA
*
19541012 TTTTTCTTT-TC
1 TTTTTCTTTCCC
19541023 TTTTTCTTTCCC
1 TTTTTCTTTCCC
19541035 TTTTTCTTTC
1 TTTTTCTTTC
19541045 TTTGTTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:19547342 original size:30 final size:30
Alignment explanation
Indices: 19547307--19547364 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
19547297 AGACTATTCC
* *
19547307 CACACGTGCTGAG-CACACGCCCATGTGGAT
1 CACACGGGCTG-GCCACACACCCATGTGGAT
19547337 CACACGGGCTGGCCACACACCCATGTGG
1 CACACGGGCTGGCCACACACCCATGTGG
19547365 CAGCTGGTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (30 bp):
CACACGGGCTGGCCACACACCCATGTGGAT
Found at i:19557383 original size:56 final size:56
Alignment explanation
Indices: 19557316--19557491 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
19557306 TATTAGTTTA
*
19557316 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
19557372 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
19557428 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
19557484 TTGCCCAT
1 TTGCCCAT
19557492 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:19557702 original size:42 final size:42
Alignment explanation
Indices: 19557643--19558398 Score: 1512
Period size: 42 Copynumber: 18.0 Consensus size: 42
19557633 AAATTCACAT
19557643 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19557685 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19557727 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19557769 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19557811 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19557853 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19557895 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19557937 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19557979 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19558021 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19558063 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19558105 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19558147 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19558189 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19558231 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19558273 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19558315 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19558357 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19558399 TTCACATATT
Statistics
Matches: 714, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 714 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (42 bp):
GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
Found at i:19564875 original size:56 final size:56
Alignment explanation
Indices: 19564808--19565039 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
19564798 TATTAGTTTA
* *
19564808 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
19564864 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
19564920 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
19564976 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
19565032 TTGCCCAT
1 TTGCCCAT
19565040 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:19565250 original size:42 final size:42
Alignment explanation
Indices: 19565191--19565946 Score: 1512
Period size: 42 Copynumber: 18.0 Consensus size: 42
19565181 AAATTCACAT
19565191 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565233 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565275 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565317 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565359 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565401 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565443 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565485 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565527 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565569 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565611 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565653 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565695 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565737 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565779 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565821 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565863 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565905 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
1 GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
19565947 TTCACATATT
Statistics
Matches: 714, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 714 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (42 bp):
GCAATTAACTAAATCGAAGCTTAAAACTTTCACACATTTATA
Found at i:19576654 original size:50 final size:50
Alignment explanation
Indices: 19576354--19576714 Score: 272
Period size: 50 Copynumber: 7.5 Consensus size: 50
19576344 CATGTGTGCT
* *
19576354 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCC-AGAT-TATGAGA-TCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGT-C
* * * * * * * *
19576400 AGTATAAGATCATGTATGGGACATGGCATCGGCATTG--AGACGAGA-AC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
* * * *
19576447 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAGATATGAAAGTT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
* * * *
19576498 AGTCTAAAACCATGTCTGGGACATGGCATCGG-CTTGATAT-T---TGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
* * *
19576543 AGTGTAAGACCATGCCTAGGG-CATGGCATCGGCAC-CGAT-GATGAGAGCC
1 AGTGTAAGACCATGTCT-GGGACATGGCATCGGC-CTCGATATATGAGAGTC
*
19576592 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATATATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
* * ** * * * * *
19576642 AGTGTAAGACCATGTCCGGGATATGGCATCAACTTTGATGTGTGAG-CT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
*
19576690 AGTGTAAGACCATGTCCGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
19576715 ACGTTGGCAT
Statistics
Matches: 249, Mismatches: 48, Indels: 34
0.75 0.15 0.10
Matches are distributed among these distances:
45 27 0.11
46 15 0.06
47 15 0.06
48 71 0.29
49 42 0.17
50 79 0.32
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
Found at i:19583483 original size:36 final size:36
Alignment explanation
Indices: 19583443--19583514 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
19583433 TGTGCAGCAG
*
19583443 TATATCGTACTCATAACCAGTCATGCAAATGTCATT
1 TATATCATACTCATAACCAGTCATGCAAATGTCATT
19583479 TATATCATACTCATAACCAGTCATGCAAATGTCATT
1 TATATCATACTCATAACCAGTCATGCAAATGTCATT
19583515 CATCCACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (36 bp):
TATATCATACTCATAACCAGTCATGCAAATGTCATT
Found at i:19594019 original size:44 final size:44
Alignment explanation
Indices: 19593963--19594049 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
19593953 TTTGATATAG
*
19593963 AGAATGAACATGAAATTGGTTGAGGATATTATGGATTGATTGAA
1 AGAATGAACATGAAATTGGTTGAGGATATTAGGGATTGATTGAA
* *
19594007 AGAATGAGCATGAAATTGGTTGATGATATTAGGGATTGATTGA
1 AGAATGAACATGAAATTGGTTGAGGATATTAGGGATTGATTGA
19594050 TACATGTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.37, C:0.02, G:0.29, T:0.32
Consensus pattern (44 bp):
AGAATGAACATGAAATTGGTTGAGGATATTAGGGATTGATTGAA
Found at i:19604649 original size:20 final size:20
Alignment explanation
Indices: 19604620--19604664 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19604610 AGCACATGTA
* *
19604620 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
19604640 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
19604660 TTCAT
1 TTCAT
19604665 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:19608069 original size:48 final size:47
Alignment explanation
Indices: 19608008--19608115 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 47
19607998 CCATGTCTCG
* * * *
19608008 GACATGGTTTTACACTAGCTCACATGTCGAGGACGATGCCATGCCCTA
1 GACATGGTCTTACACTAGCTCACATCTCCAGGACAATGCCATGCCC-A
* * * *
19608056 GACATGGTCTTACACTAGCTCTCATCTCCATGTCAATGCCATGTCCA
1 GACATGGTCTTACACTAGCTCACATCTCCAGGACAATGCCATGCCCA
19608103 -ACATGGTCTTACA
1 GACATGGTCTTACA
19608116 TTGGCTCTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 13 0.25
47 1 0.02
48 38 0.73
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GACATGGTCTTACACTAGCTCACATCTCCAGGACAATGCCATGCCCA
Found at i:19608155 original size:45 final size:45
Alignment explanation
Indices: 19608041--19608301 Score: 283
Period size: 45 Copynumber: 5.7 Consensus size: 45
19608031 ATGTCGAGGA
* * * * * *
19608041 CGATGCCATGCCCTAGACATGGTCTTACACTAGCTCTCATCTCCATGT
1 CGATGCCATGTCC-A-ACATGGTCTTACACTGGCTCTCA-ATCAACGC
* *
19608089 CAATGCCATGTCCAACATGGTCTTACATTGGCTCTCAATCAACGC
1 CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGC
* * * *
19608134 TGATGCCACGTCCAACATGGTCTTACACTAGCTCTCAATCAATGC
1 CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGC
*
19608179 CGATGCCATGTCCAACATGTTCTTACACTGGCTCTCAATCAACGC
1 CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGC
* * * *
19608224 CGATGTCATGTCCAACATGGTCTTACACTGGCTCT-TAT-AATTGT
1 CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAA-CGC
* *
19608268 CAATGCCATGTTCCAAACATAGTCTTACACTGGC
1 CGATGCCATG-TCC-AACATGGTCTTACACTGGC
19608302 ACACGAAATG
Statistics
Matches: 183, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.01
44 11 0.06
45 119 0.65
46 39 0.21
47 1 0.01
48 11 0.06
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (45 bp):
CGATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGC
Found at i:19608211 original size:90 final size:89
Alignment explanation
Indices: 19608057--19608301 Score: 323
Period size: 90 Copynumber: 2.7 Consensus size: 89
19608047 CATGCCCTAG
* * *
19608057 ACATGGTCTTACACTAGCTCTCATCTCCATGTCAATGCCATGTCCAACATGGTCTTACATTGGCT
1 ACATGGTCTTACACTAGCTCTCA-ATCAATGTCAATGCCATGTCCAACAT-GTCTTACACTGGCT
*
19608122 CTCAATCAACGCTGATGCCACGTCCA
64 CTCAATCAACGCCGATGCCACGTCCA
* *
19608148 ACATGGTCTTACACTAGCTCTCAATCAATGCCGATGCCATGTCCAACATGTTCTTACACTGGCTC
1 ACATGGTCTTACACTAGCTCTCAATCAATGTCAATGCCATGTCCAACATG-TCTTACACTGGCTC
* *
19608213 TCAATCAACGCCGATGTCATGTCCA
65 TCAATCAACGCCGATGCCACGTCCA
* *
19608238 ACATGGTCTTACACTGGCTCT-TAT-AATTGTCAATGCCATGTTCCAAACATAGTCTTACACTGG
1 ACATGGTCTTACACTAGCTCTCAATCAA-TGTCAATGCCATG-TCC-AACAT-GTCTTACACTGG
19608301 C
62 C
19608302 ACACGAAATG
Statistics
Matches: 137, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
88 2 0.01
89 14 0.10
90 80 0.58
91 40 0.29
92 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (89 bp):
ACATGGTCTTACACTAGCTCTCAATCAATGTCAATGCCATGTCCAACATGTCTTACACTGGCTCT
CAATCAACGCCGATGCCACGTCCA
Found at i:19608256 original size:135 final size:139
Alignment explanation
Indices: 19608009--19608258 Score: 328
Period size: 135 Copynumber: 1.8 Consensus size: 139
19607999 CATGTCTCGG
* * *
19608009 ACATGGTTTTACACTAGCTCACATGTCGAGGACGATGCCATGCCCTAGACATGGTCTTACACTAG
1 ACATGGTCTTACACTAGCTCACATATCAAGGACGATGCCATGCCCTAGACATGGTCTTACACTAG
* * * * *
19608074 CTCTCATCTCCATGTCAATGCCATGTCCAACATGGTCTTACATTGGCTCTCAATCAACGCTGATG
66 CTCTCATATCAACGCCAATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGCTGATG
19608139 CCACGTCCA
131 CCACGTCCA
* * * * * *
19608148 ACATGGTCTTACACTAGCTCTCA-ATCAATGCCGATGCCATGTCC-A-ACATGTTCTTACACTGG
1 ACATGGTCTTACACTAGCTCACATATCAAGGACGATGCCATGCCCTAGACATGGTCTTACACTAG
* *
19608210 CTCTCA-ATCAACGCCGATGTCATGTCCAACATGGTCTTACACTGGCTCT
66 CTCTCATATCAACGCCAATGCCATGTCCAACATGGTCTTACACTGGCTCT
19608259 TATAATTGTC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
135 36 0.38
136 21 0.22
137 1 0.01
138 16 0.17
139 21 0.22
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (139 bp):
ACATGGTCTTACACTAGCTCACATATCAAGGACGATGCCATGCCCTAGACATGGTCTTACACTAG
CTCTCATATCAACGCCAATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATCAACGCTGATG
CCACGTCCA
Found at i:19618481 original size:21 final size:21
Alignment explanation
Indices: 19618455--19618503 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
19618445 CAGTTGAAGC
19618455 CGCACAAAAAAAATTATCCAA
1 CGCACAAAAAAAATTATCCAA
** *
19618476 CGCACAATCAGAATTATCCAA
1 CGCACAAAAAAAATTATCCAA
19618497 CGCACAA
1 CGCACAA
19618504 TTTAGAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.49, C:0.29, G:0.08, T:0.14
Consensus pattern (21 bp):
CGCACAAAAAAAATTATCCAA
Found at i:19628849 original size:22 final size:22
Alignment explanation
Indices: 19628824--19628868 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19628814 ATGAGAATAA
19628824 AGAGAG-GATTGAGAATGAATTG
1 AGAGAGAG-TTGAGAATGAATTG
* *
19628846 AGAGATAGTTGAGAGTGAATTG
1 AGAGAGAGTTGAGAATGAATTG
19628868 A
1 A
19628869 AAAAGTGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (22 bp):
AGAGAGAGTTGAGAATGAATTG
Found at i:19629440 original size:7 final size:7
Alignment explanation
Indices: 19629419--19629479 Score: 61
Period size: 7 Copynumber: 8.9 Consensus size: 7
19629409 TATTTTACCA
*
19629419 TGAATCT
1 TGAACCT
*
19629426 TGAGCCT
1 TGAACCT
19629433 TGAACCT
1 TGAACCT
*
19629440 TGGA-CT
1 TGAACCT
*
19629446 CGAACCT
1 TGAACCT
*
19629453 TGAAACT
1 TGAACCT
*
19629460 TAAACCT
1 TGAACCT
19629467 TGAACCT
1 TGAACCT
19629474 TGAACC
1 TGAACC
19629480 CTAAACCCCA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
6 4 0.10
7 38 0.90
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (7 bp):
TGAACCT
Found at i:19629473 original size:21 final size:21
Alignment explanation
Indices: 19629447--19629486 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19629437 CCTTGGACTC
*
19629447 GAACCTTGAAACTTAAACCTT
1 GAACCTTGAAACCTAAACCTT
*
19629468 GAACCTTGAACCCTAAACC
1 GAACCTTGAAACCTAAACC
19629487 CCAAGGTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.23
Consensus pattern (21 bp):
GAACCTTGAAACCTAAACCTT
Found at i:19629523 original size:7 final size:7
Alignment explanation
Indices: 19629513--19629580 Score: 50
Period size: 7 Copynumber: 9.7 Consensus size: 7
19629503 GGATTTGAGA
19629513 TTTAAGG
1 TTTAAGG
19629520 TTT-AGG
1 TTTAAGG
*
19629526 TTTAATG
1 TTTAAGG
*
19629533 TTAAAGG
1 TTTAAGG
*
19629540 TTTGAGG
1 TTTAAGG
*
19629547 -TTACGAG
1 TTTAAG-G
*
19629554 TTTACGG
1 TTTAAGG
*
19629561 TTTAGGG
1 TTTAAGG
19629568 TTTAAGG
1 TTTAAGG
19629575 ATTTAA
1 -TTTAA
19629581 TATTACAGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
6 9 0.19
7 29 0.60
8 10 0.21
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.43
Consensus pattern (7 bp):
TTTAAGG
Found at i:19633183 original size:23 final size:21
Alignment explanation
Indices: 19633145--19633186 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
19633135 TATAAATTTT
19633145 ATAAATTTTAATTAATTTCTA
1 ATAAATTTTAATTAATTTCTA
19633166 ATAATATTTATAATTAATTTC
1 ATAA-ATTT-TAATTAATTTC
19633187 ATGACTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 4 0.21
23 11 0.58
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAAATTTTAATTAATTTCTA
Found at i:19633889 original size:15 final size:15
Alignment explanation
Indices: 19633859--19633888 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19633849 GTTAAAAATT
19633859 ATTAAAATTATAAAA
1 ATTAAAATTATAAAA
19633874 ATTAAAA-TATAAAA
1 ATTAAAATTATAAAA
19633888 A
1 A
19633889 AATTTACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAATTATAAAA
Found at i:19633891 original size:16 final size:15
Alignment explanation
Indices: 19633859--19633892 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
19633849 GTTAAAAATT
*
19633859 ATTAAAATTATAAAA
1 ATTAAAATTAAAAAA
19633874 ATTAAAATATAAAAAA
1 ATTAAAAT-TAAAAAA
19633890 ATT
1 ATT
19633893 TACTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATTAAAATTAAAAAA
Found at i:19642929 original size:12 final size:12
Alignment explanation
Indices: 19642912--19642969 Score: 79
Period size: 12 Copynumber: 5.2 Consensus size: 12
19642902 TTATTTAACT
19642912 TACAAATCAGCC
1 TACAAATCAGCC
*
19642924 TACAAATC--CT
1 TACAAATCAGCC
19642934 TACAAATCAGCC
1 TACAAATCAGCC
19642946 TACAAATC--CC
1 TACAAATCAGCC
19642956 TACAAATCAGCC
1 TACAAATCAGCC
19642968 TA
1 TA
19642970 TATACAGTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 19 0.47
12 21 0.52
ACGTcount: A:0.41, C:0.33, G:0.05, T:0.21
Consensus pattern (12 bp):
TACAAATCAGCC
Found at i:19642935 original size:22 final size:22
Alignment explanation
Indices: 19642910--19642969 Score: 111
Period size: 22 Copynumber: 2.7 Consensus size: 22
19642900 TATTATTTAA
19642910 CTTACAAATCAGCCTACAAATC
1 CTTACAAATCAGCCTACAAATC
19642932 CTTACAAATCAGCCTACAAATC
1 CTTACAAATCAGCCTACAAATC
*
19642954 CCTACAAATCAGCCTA
1 CTTACAAATCAGCCTA
19642970 TATACAGTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.40, C:0.33, G:0.05, T:0.22
Consensus pattern (22 bp):
CTTACAAATCAGCCTACAAATC
Found at i:19644554 original size:29 final size:29
Alignment explanation
Indices: 19644512--19644570 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
19644502 TACTTATGTA
19644512 TGAAACATACCTGTATCTGACACTCAAAC
1 TGAAACATACCTGTATCTGACACTCAAAC
* *
19644541 TGAAAGATACCTGTATCTGACTCTCAAAC
1 TGAAACATACCTGTATCTGACACTCAAAC
19644570 T
1 T
19644571 CGTGTAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (29 bp):
TGAAACATACCTGTATCTGACACTCAAAC
Found at i:19648233 original size:124 final size:124
Alignment explanation
Indices: 19648013--19648252 Score: 453
Period size: 124 Copynumber: 1.9 Consensus size: 124
19648003 GGGGACATCG
*
19648013 ATGACCTTAATTAATTAGCTTTGTTGGAATGTTTATCTTTGCAACAACTATATATTACTATTATA
1 ATGACCTTAATTAATTAGCTTCGTTGGAATGTTTATCTTTGCAACAACTATATATTACTATTATA
*
19648078 TTTGTCTGTGCAGGAAATTGAGTTCTCTTTAATAAACAAATAGAAAAAAAAAAAAGTTA
66 TTTGTCTGTGCAGGAAATTGAGTTCTCTTTAATAAACAAAAAGAAAAAAAAAAAAGTTA
19648137 ATGACCTTAATTAATTAGCTTCGTTGGAATGTTTATCTTTGCAACAACTATATATTACTATTATA
1 ATGACCTTAATTAATTAGCTTCGTTGGAATGTTTATCTTTGCAACAACTATATATTACTATTATA
*
19648202 TTTGTCTGTGCAGGAAATTGCGTTCTCTTTAATAAACAAAAAGAAAAAAAA
66 TTTGTCTGTGCAGGAAATTGAGTTCTCTTTAATAAACAAAAAGAAAAAAAA
19648253 GTTAATTGTT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 113 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (124 bp):
ATGACCTTAATTAATTAGCTTCGTTGGAATGTTTATCTTTGCAACAACTATATATTACTATTATA
TTTGTCTGTGCAGGAAATTGAGTTCTCTTTAATAAACAAAAAGAAAAAAAAAAAAGTTA
Found at i:19659385 original size:32 final size:32
Alignment explanation
Indices: 19659344--19659406 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
19659334 ATATTCGTCC
19659344 ATAAAAGTCACCTAGGCTCAGATCATTTGGTG
1 ATAAAAGTCACCTAGGCTCAGATCATTTGGTG
* * * *
19659376 ATAAAAGTCACTTTGTCTCGGATCATTTGGT
1 ATAAAAGTCACCTAGGCTCAGATCATTTGGT
19659407 TGGACTACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (32 bp):
ATAAAAGTCACCTAGGCTCAGATCATTTGGTG
Found at i:19664752 original size:48 final size:48
Alignment explanation
Indices: 19664687--19664848 Score: 211
Period size: 48 Copynumber: 3.4 Consensus size: 48
19664677 GCTGACGCCG
19664687 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCA
1 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCA
* * ** *
19664735 TGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCTGATGCA
1 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCA
* ** * *
19664781 TGTCCCAAACAGGTCTTACACGGGCTTGTATATCTCGAGGTTGATGCA
1 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCA
*
19664829 TGTCCCAGACATGTCTTACA
1 TGTCCCAGACAGGTCTTACA
19664849 TTGGCTCTCA
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
46 36 0.38
47 4 0.04
48 55 0.58
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCA
Found at i:19664800 original size:94 final size:94
Alignment explanation
Indices: 19664687--19664857 Score: 279
Period size: 94 Copynumber: 1.8 Consensus size: 94
19664677 GCTGACGCCG
* *
19664687 TGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATGCATGTCCCAGACATGTCTT
1 TGTCCCAAACAGGTCTTACACGAGCTTGTATATCTCAAGGCTGATGCATGTCCCAGACATGTCTT
19664752 ACACTAGCTCTCGTCTCAATGCTGATGCA
66 ACACTAGCTCTCGTCTCAATGCTGATGCA
* * *
19664781 TGTCCCAAACAGGTCTTACACGGGCTTGTATATCTCGAGGTTGATGCATGTCCCAGACATGTCTT
1 TGTCCCAAACAGGTCTTACACGAGCTTGTATATCTCAAGGCTGATGCATGTCCCAGACATGTCTT
* *
19664846 ACATTGGCTCTC
66 ACACTAGCTCTC
19664858 ATAATGTGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (94 bp):
TGTCCCAAACAGGTCTTACACGAGCTTGTATATCTCAAGGCTGATGCATGTCCCAGACATGTCTT
ACACTAGCTCTCGTCTCAATGCTGATGCA
Found at i:19665584 original size:20 final size:20
Alignment explanation
Indices: 19665559--19665597 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19665549 AAAATTTCAA
19665559 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
19665579 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
19665598 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:19669707 original size:28 final size:28
Alignment explanation
Indices: 19669667--19670548 Score: 1712
Period size: 28 Copynumber: 31.5 Consensus size: 28
19669657 TAAATTGTAC
*
19669667 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669695 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669723 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669751 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669779 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669807 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669835 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669863 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669891 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669919 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669947 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19669975 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670003 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670031 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670059 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670087 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670115 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670143 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670171 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670199 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670227 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670255 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670283 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670311 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670339 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670367 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670395 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670423 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
19670451 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
19670479 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
19670507 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
19670534 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19670549 GACTTAATAT
Statistics
Matches: 850, Mismatches: 4, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
27 24 0.03
28 826 0.97
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:19689936 original size:34 final size:33
Alignment explanation
Indices: 19689898--19689971 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 33
19689888 TCAGTTGCAA
*
19689898 TATCAGTGTGGGCCTTAACCCAATACAATAACAG
1 TATCAGTGTGAGCCTTAACCCAATACAAT-ACAG
* * * *
19689932 TATCAGTGTGAGCCTTAGCCCATTTCAGTACAG
1 TATCAGTGTGAGCCTTAACCCAATACAATACAG
19689965 TATCAGT
1 TATCAGT
19689972 AATGCATACA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 11 0.31
34 24 0.69
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (33 bp):
TATCAGTGTGAGCCTTAACCCAATACAATACAG
Found at i:19701797 original size:37 final size:37
Alignment explanation
Indices: 19701736--19702621 Score: 1722
Period size: 37 Copynumber: 24.0 Consensus size: 37
19701726 TACGTATGAT
* *
19701736 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
19701771 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19701808 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19701845 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19701882 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19701919 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19701956 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19701993 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702030 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702067 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702104 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702141 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702178 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702215 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702252 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702289 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702326 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702363 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702400 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702437 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702474 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702511 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702548 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
19702585 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
19702622 TAAAGCTATC
Statistics
Matches: 844, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
35 9 0.01
36 3 0.00
37 832 0.99
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:19702638 original size:46 final size:46
Alignment explanation
Indices: 19702585--19702755 Score: 234
Period size: 46 Copynumber: 3.6 Consensus size: 46
19702575 TAAGTGTAGC
*
19702585 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
* * **
19702631 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
*
19702677 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
19702729 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
19702756 AGTACTCAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
46 69 0.62
49 2 0.02
52 40 0.36
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
Found at i:19702704 original size:52 final size:52
Alignment explanation
Indices: 19702628--19702749 Score: 172
Period size: 52 Copynumber: 2.3 Consensus size: 52
19702618 TAGCTAAAGC
* * * *
19702628 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* *
19702681 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
19702733 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
19702750 ATCAGAAGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
52 43 0.69
53 19 0.31
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:19709394 original size:53 final size:54
Alignment explanation
Indices: 19709326--19709528 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 54
19709316 TTCCTTTTTA
19709326 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * *
19709379 AACTCACCATTGCCATGACTTGGCATGGTCTTACATGGGATCTTTGTCTTATCG
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
19709433 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
19709488 AACTTACCAATT-CCATGCCTTGGCATGGTCTTCCTTGGTAT
1 AACTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTAT
19709529 TTTTAAACCC
Statistics
Matches: 116, Mismatches: 31, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
53 46 0.40
54 29 0.25
55 41 0.35
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Done.