Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 313 of 770
Found at i:95588207 original size:16 final size:16
Alignment explanation
Indices: 95588188--95588218 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95588178 CTTATTCACT
95588188 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
95588204 TACTTACTTACTTAA
1 TACTCACTTACTTAA
95588219 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:95588224 original size:20 final size:20
Alignment explanation
Indices: 95588185--95588224 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
95588175 AAACTTATTC
* *
95588185 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
95588205 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
95588225 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:95588538 original size:53 final size:54
Alignment explanation
Indices: 95588457--95588664 Score: 233
Period size: 55 Copynumber: 3.8 Consensus size: 54
95588447 ATCCTTTTGT
* * *
95588457 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA
* * * *
95588510 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GA
* * * *
95588565 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA
* * *
95588618 AACCTTACCCATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 AA-CTTA-CCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
95588665 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 47 0.36
54 5 0.04
55 73 0.57
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA
Found at i:95588610 original size:108 final size:110
Alignment explanation
Indices: 95588455--95588654 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
95588445 GTATCCTTTT
* *
95588455 GTAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCA-C
1 GTAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACC
95588517 CAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 CAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* ** *
95588563 GTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCC
1 GTAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCC
*
95588628 ATTGCCATGCCTTGGCATGGTCTTACA
66 AATGCCATGCCTTGGCATGGTCTTACA
95588655 CGGTATCCTT
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.61
109 3 0.04
110 28 0.34
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (110 bp):
GTAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCC
AATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:95588664 original size:55 final size:52
Alignment explanation
Indices: 95588410--95588664 Score: 223
Period size: 55 Copynumber: 4.8 Consensus size: 52
95588400 ACATGGGTAC
* * * * **
95588410 CTTACCATTTCCATGACTTGTCATGGTCTTATGTGGTATCCTT---TT-GTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAG-AA
* * *
95588459 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAA
* * *
95588512 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAG-AA
* * * *
95588567 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAG-AA
* * *
95588620 CCTTACCCATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTA-CCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
95588665 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
52 4 0.02
53 45 0.27
54 8 0.05
55 72 0.43
56 2 0.01
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (52 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAA
Found at i:95589325 original size:55 final size:54
Alignment explanation
Indices: 95589071--95589325 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
95589061 ACACGGGTAC
* *
95589071 CTTACC-ATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
95589120 CTTACC-ATTGCCATGTCTTGACATGGTTTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
95589173 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * * * *
95589228 CTTATCAATT-CCATGTCTTGACATGCTTTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
95589281 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
95589326 AAACCCTAAT
Statistics
Matches: 165, Mismatches: 27, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
49 39 0.24
52 4 0.02
53 43 0.26
54 14 0.08
55 62 0.38
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:95589658 original size:662 final size:662
Alignment explanation
Indices: 95588390--95590369 Score: 3710
Period size: 662 Copynumber: 3.0 Consensus size: 662
95588380 CCACTTGGAA
* * **
95588390 TACTAAGGATACATGGGTACCTTACCATTTCCATGACTTGTCATGGTCTTATGTGGTATCCTTTT
1 TACTAAGGATACACGGGTACCTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTT
* *
95588455 GTAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATGAACTCACCAA
66 GAAACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTAGCCTTGCCTTATGAACTCACCAA
*
95588520 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTATCAATGCCATGTCT
131 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTATCAATTCCATGTCT
* * *
95588585 TGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCCATTGCCATGCCTTGGCATGGTC
196 TGACATGCTTTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGCCATGCCTTGGCATGGTC
* *
95588650 TTACACGGTATCCTTAAACCCTAATGTAATGACATTTGT-TCCTACACATTCCTAAAGTTCAACC
261 TTACACGGTATCCTTAAACCCTAATGTCATGACATTTGTATCCTACACATTCCTAAGGTTCAACC
95588714 GGGACTTTCTGAAATTTCTTCTCCGTCAATTCATGCTTAAGTCTTCTTTGAATAATTTCATAAAA
326 GGGACTTTCTGAAATTTCTTCTCCGTCAATTCATGCTTAAGTCTTCTTTGAATAATTTCATAAAA
*
95588779 TAAATGTACACATGCTGGAAATTAACAAAATTAACATAAAATAATAGAATATTGCATTTATTTAC
391 TAAATATACACATGCTGGAAATTAACAAAATTAACATAAAATAATAGAATATTGCATTTATTTAC
* *
95588844 CGCAAACTTACCTCGAAACAAAATACGATCAACTATATCGATTTAGTCCACTATCTTTTTCTTTC
456 TGCAAACTTACCTCGAAACAAAATACGATCAACTGTATCGATTTAGTCCACTATCTTTTTCTTTC
95588909 CCCGGTCTAACTCCGGATTTTGTTCTTCTTGATCTATAATAAAAAATTTAGCTTATTTAATACTC
521 CCCGGTCTAACTCCGGATTTTGTTCTTCTTGATCTATAATAAAAAATTTAGCTTATTTAATACTC
*
95588974 ACATTTATTAAAACAATCCTTGACCCAAACTTTGGCAAAATTACATTTTTACCCCTAAACTTTCA
586 ACATTTATTAAAACAGTCCTTGACCCAAACTTTGGCAAAATTACATTTTTACCCCTAAACTTTCA
95589039 CATATTTAAAAT
651 CATATTTAAAAT
95589051 TACTAAGGATACACGGGTACCTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTT
1 TACTAAGGATACACGGGTACCTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTT
95589116 GAAACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTAGCCTTGCCTTATGAACTCACCAA
66 GAAACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTAGCCTTGCCTTATGAACTCACCAA
95589181 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTATCAATTCCATGTCT
131 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTATCAATTCCATGTCT
95589246 TGACATGCTTTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGCCATGCCTTGGCATGGTC
196 TGACATGCTTTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGCCATGCCTTGGCATGGTC
*
95589311 TTACACGGTATCCTTAAACCCTAATGTCATGACATTTGTATCCTACACATTCCTAAGGTTCAACT
261 TTACACGGTATCCTTAAACCCTAATGTCATGACATTTGTATCCTACACATTCCTAAGGTTCAACC
95589376 GGGACTTTCTGAAATTTCTTCTCCGTCAATTCATGCTTAAGTCTTCTTTGAATAATTTCATAAAA
326 GGGACTTTCTGAAATTTCTTCTCCGTCAATTCATGCTTAAGTCTTCTTTGAATAATTTCATAAAA
95589441 TAAATATACACATGCTGGAAATTAACAAAATTAACATAAAATAATAGAATATTGCATTTATTTAC
391 TAAATATACACATGCTGGAAATTAACAAAATTAACATAAAATAATAGAATATTGCATTTATTTAC
*
95589506 TGCAAACTTACCTCGAAACAAAATACGATCAACTGTATCGATTTAGTCCACTATCTTTTTATTTC
456 TGCAAACTTACCTCGAAACAAAATACGATCAACTGTATCGATTTAGTCCACTATCTTTTTCTTTC
* *
95589571 CCCGGTCTAACTCTGGATTTTTTTCTTCTTGATCTATAATAAAAAATTTAGCTTATTTAATACTC
521 CCCGGTCTAACTCCGGATTTTGTTCTTCTTGATCTATAATAAAAAATTTAGCTTATTTAATACTC
95589636 ACATTTATTAAAACAGTCCTTGACCCAAACTTTGGCAAAATTACATTTTTACCCCTAAACTTTCA
586 ACATTTATTAAAACAGTCCTTGACCCAAACTTTGGCAAAATTACATTTTTACCCCTAAACTTTCA
95589701 CATATTTAAAAT
651 CATATTTAAAAT
*
95589713 TACTAAGGATACACGGGTACCTTACCATTGCCATGACTTGTCATAGTCTTACATGGTATCCTTTT
1 TACTAAGGATACACGGGTACCTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTT
*
95589778 GAAACTTACCATTGCCATGTCTTAACATGGTTTTACATGGTAGCCTTGCCTTATGAACTCACCAA
66 GAAACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTAGCCTTGCCTTATGAACTCACCAA
*
95589843 TGGCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTATCAATTCCATGTCT
131 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTATCAATTCCATGTCT
95589908 TGACATGCTTTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGCCATGCCTTGGCATGGTC
196 TGACATGCTTTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGCCATGCCTTGGCATGGTC
95589973 TTACACGGTATCCTTAAACCCTAATGTCATGACATTTGTATCCTACACATTCCTAAGGTTCAACC
261 TTACACGGTATCCTTAAACCCTAATGTCATGACATTTGTATCCTACACATTCCTAAGGTTCAACC
*
95590038 GGGACTTTCTGAAATTTCTTCTCCGTCAATTCATGGTTAAGTCTTCTTTGAATAATTTCATAAAA
326 GGGACTTTCTGAAATTTCTTCTCCGTCAATTCATGCTTAAGTCTTCTTTGAATAATTTCATAAAA
95590103 TAAATATACACATGCTGGAAATTAACAAAATTAACATAAAATAATAGAATATTGCATTTATTTAC
391 TAAATATACACATGCTGGAAATTAACAAAATTAACATAAAATAATAGAATATTGCATTTATTTAC
*
95590168 TGCAAACTTACCTCGAAACAAAATACGATCAACTGTCTCGATTTAGTCCACTATCTTTTTCTTTC
456 TGCAAACTTACCTCGAAACAAAATACGATCAACTGTATCGATTTAGTCCACTATCTTTTTCTTTC
95590233 CCCGGTCTAACTCCGGATTTTGTTCTTCTTGATCTATAATAAAAAATTTAGCTTATTTAATACTC
521 CCCGGTCTAACTCCGGATTTTGTTCTTCTTGATCTATAATAAAAAATTTAGCTTATTTAATACTC
* *
95590298 ACATTTATTAAAACAGTTCTTGACCCAAACTTTGGCAAAATTACATTTTTGCCCCTAAACTTTCA
586 ACATTTATTAAAACAGTCCTTGACCCAAACTTTGGCAAAATTACATTTTTACCCCTAAACTTTCA
95590363 CATATTT
651 CATATTT
95590370 GCACTTTTGC
Statistics
Matches: 1287, Mismatches: 31, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
661 288 0.22
662 999 0.78
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (662 bp):
TACTAAGGATACACGGGTACCTTACCATTGCCATGACTTGTCATGGTCTTACATGGTATCCTTTT
GAAACTTACCATTGCCATGTCTTGACATGGTTTTACATGGTAGCCTTGCCTTATGAACTCACCAA
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTTATCAATTCCATGTCT
TGACATGCTTTTACATGATTTCCTTGCCTTAGAAACCTTACCAATTGCCATGCCTTGGCATGGTC
TTACACGGTATCCTTAAACCCTAATGTCATGACATTTGTATCCTACACATTCCTAAGGTTCAACC
GGGACTTTCTGAAATTTCTTCTCCGTCAATTCATGCTTAAGTCTTCTTTGAATAATTTCATAAAA
TAAATATACACATGCTGGAAATTAACAAAATTAACATAAAATAATAGAATATTGCATTTATTTAC
TGCAAACTTACCTCGAAACAAAATACGATCAACTGTATCGATTTAGTCCACTATCTTTTTCTTTC
CCCGGTCTAACTCCGGATTTTGTTCTTCTTGATCTATAATAAAAAATTTAGCTTATTTAATACTC
ACATTTATTAAAACAGTCCTTGACCCAAACTTTGGCAAAATTACATTTTTACCCCTAAACTTTCA
CATATTTAAAAT
Found at i:95589987 original size:55 final size:54
Alignment explanation
Indices: 95589733--95589987 Score: 215
Period size: 55 Copynumber: 4.8 Consensus size: 54
95589723 ACACGGGTAC
* * *
95589733 CTTACC-ATTGCCATGACTTGTCATAGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
95589782 CTTACC-ATTGCCATGTCTTAACATGGTTTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * * *
95589835 CTCACCAA-TGGCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * * * *
95589890 CTTATCAATT-CCATGTCTTGACATGCTTTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
95589943 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
95589988 AAACCCTAAT
Statistics
Matches: 160, Mismatches: 32, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
49 37 0.23
52 4 0.03
53 41 0.26
54 14 0.09
55 61 0.38
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:95594277 original size:40 final size:39
Alignment explanation
Indices: 95594232--95594439 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
95594222 CGGAATACAA
*
95594232 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
95594272 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
95594312 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
95594352 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
95594392 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
95594432 CCGGATAT
1 CCGGATAT
95594440 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:95594372 original size:80 final size:81
Alignment explanation
Indices: 95594232--95594437 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
95594222 CGGAATACAA
* * *
95594232 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
95594296 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
95594312 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
95594375 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
95594392 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
95594438 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:95600886 original size:80 final size:80
Alignment explanation
Indices: 95600802--95600950 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
95600792 TATGGTAACC
* * * *
95600802 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
95600866 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
95600882 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
95600947 CCGG
66 CCGG
95600951 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:95600892 original size:40 final size:38
Alignment explanation
Indices: 95600843--95600950 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
95600833 ATCACGATTT
*
95600843 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
95600883 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
95600923 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
95600951 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:95606137 original size:28 final size:28
Alignment explanation
Indices: 95606097--95606168 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
95606087 AAAATTGTAC
* *
95606097 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
95606125 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
95606154 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
95606169 GATTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.45
29 20 0.50
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:95615817 original size:29 final size:29
Alignment explanation
Indices: 95615784--95615848 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
95615774 GTGACGAGAT
95615784 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
95615813 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
95615842 CGGCACT
1 TGGCACT
95615849 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:95615954 original size:2 final size:2
Alignment explanation
Indices: 95615949--95615983 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
95615939 GTGCGTACTC
*
95615949 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95615984 CTCCGATCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95623462 original size:29 final size:29
Alignment explanation
Indices: 95623429--95623493 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
95623419 GTGACGAGAT
95623429 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
95623458 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
95623487 CGGCACT
1 TGGCACT
95623494 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:95623599 original size:2 final size:2
Alignment explanation
Indices: 95623594--95623628 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
95623584 GTGCGTACTC
*
95623594 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95623629 CTCCGATCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95625132 original size:80 final size:80
Alignment explanation
Indices: 95624999--95625149 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
95624989 AGGGGTGTTA
* *
95624999 CACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 CACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCCC
95625064 GGATATAGCTGCTAG
66 GGATATAGCTGCTAG
* * ** * *
95625079 CACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAGC
1 CACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAGC
95625142 CCGGATAT
64 CCGGATAT
95625150 CATTCAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (80 bp):
CACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCCC
GGATATAGCTGCTAG
Found at i:95625149 original size:40 final size:40
Alignment explanation
Indices: 95624999--95625149 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
95624989 AGGGGTGTTA
* *
95624999 CACAAATGCCTTCGGGTCTTAGCCCGGATAGAA-TGACTC-G
1 CACAATTGCCTTCGGGTCTTAGCCCGGATATAACTG-C-CAG
* *
95625039 CACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTGCTAG
1 CAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTGCCAG
* * *
95625079 CACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAG
1 CACAATTGCCTTCGGGTCTTAGCCCGGATATAACTGCCAG
* * *
95625119 CATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 CACAATTGCCTTCGGGTCTTAGCCCGGATAT
95625150 CATTCAATTT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 89 0.94
41 4 0.04
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CACAATTGCCTTCGGGTCTTAGCCCGGATATAACTGCCAG
Found at i:95627454 original size:43 final size:44
Alignment explanation
Indices: 95627406--95627507 Score: 108
Period size: 43 Copynumber: 2.4 Consensus size: 44
95627396 AATTACCGAG
*
95627406 ATGTGATTAT-GTGTAAAACCAT-GTCTGGGAC-ATTGGCATC-ATT
1 ATGTGATTATCATGTAAAACCATAG-CTGGG-CTATTGGCATCGA-T
*
95627449 ATGTGA-TATCATGTAAGACCATAGCTGGGCTATTGGCATCGAT
1 ATGTGATTATCATGTAAAACCATAGCTGGGCTATTGGCATCGAT
*
95627492 ATGTGA-TAACATGTAA
1 ATGTGATTATCATGTAA
95627508 GATCATATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
42 4 0.08
43 46 0.88
44 2 0.04
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (44 bp):
ATGTGATTATCATGTAAAACCATAGCTGGGCTATTGGCATCGAT
Found at i:95627825 original size:18 final size:18
Alignment explanation
Indices: 95627802--95627843 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
95627792 ATTTGTATAT
95627802 GGCTTACTAAGCTTGTAA
1 GGCTTACTAAGCTTGTAA
*
95627820 GGCTTACTAAGCTTTTAA
1 GGCTTACTAAGCTTGTAA
95627838 GGCTTA
1 GGCTTA
95627844 TTCTGTGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (18 bp):
GGCTTACTAAGCTTGTAA
Found at i:95629318 original size:16 final size:16
Alignment explanation
Indices: 95629269--95629318 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
95629259 AGATAGGACG
* *
95629269 TGGTATTTAGATGTAC
1 TGGTATGTAGATGTAA
*
95629285 TAGTATGTAGATGTAA
1 TGGTATGTAGATGTAA
95629301 TGGTATGTAGATGTAA
1 TGGTATGTAGATGTAA
95629317 TG
1 TG
95629319 ACCCTATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.30, C:0.02, G:0.28, T:0.40
Consensus pattern (16 bp):
TGGTATGTAGATGTAA
Found at i:95629734 original size:14 final size:13
Alignment explanation
Indices: 95629711--95629740 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
95629701 CATGCAAATT
95629711 AAAAAGAAGAAAG
1 AAAAAGAAGAAAG
95629724 AAAAAGTAAGAAAG
1 AAAAAG-AAGAAAG
95629738 AAA
1 AAA
95629741 GAAAGGTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (13 bp):
AAAAAGAAGAAAG
Found at i:95631105 original size:20 final size:20
Alignment explanation
Indices: 95631073--95631123 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
95631063 AGCTCCGTTC
95631073 AGCTTAAAT-CAGCTCACTTG
1 AGCTT-AATCCAGCTCACTTG
**
95631093 AGCTTAATCCAGCTCGTTTG
1 AGCTTAATCCAGCTCACTTG
*
95631113 AGCTCAATCCA
1 AGCTTAATCCA
95631124 TTCATTTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (20 bp):
AGCTTAATCCAGCTCACTTG
Found at i:95633742 original size:6 final size:6
Alignment explanation
Indices: 95633740--95633880 Score: 67
Period size: 6 Copynumber: 22.3 Consensus size: 6
95633730 GTTGAAAAAG
* *
95633740 AAAGAA AATGAA AAAGAA AAATGAA AAATGAA AAAGAAA AAAGAA ATGAGAA
1 AAAGAA AAAGAA AAAGAA AAA-GAA AAA-GAA AAAG-AA AAAGAA A-AAGAA
* *
95633792 AAAGAA ACCAA-AA ATAGCA AAAG-- AAAGAA AAGAGAA AACGAGAGA
1 AAAGAA A--AAGAA AAAGAA AAAGAA AAAGAA AA-AGAA AA--AGA-A
* * * *
95633837 AGAA-AA ATAAGAA AATGAA AATGAA AATG-A AAATAA AAAGAA AA
1 A-AAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AA
95633881 GTTTGATTGC
Statistics
Matches: 109, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.04
5 4 0.04
6 54 0.50
7 37 0.34
8 7 0.06
9 2 0.02
10 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:95633743 original size:20 final size:18
Alignment explanation
Indices: 95633720--95633778 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 18
95633710 AAGGAAAATA
95633720 AAAGAATGAAGTTGAAAAAG
1 AAAGAATGAA--TGAAAAAG
95633740 AAAGAA--AATGAAAAAG
1 AAAGAATGAATGAAAAAG
95633756 AAA-AATGAAAAATGAAAAAG
1 AAAGAATG---AATGAAAAAG
95633776 AAA
1 AAA
95633779 AAAGAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.06
16 11 0.32
18 2 0.06
20 19 0.56
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (18 bp):
AAAGAATGAATGAAAAAG
Found at i:95633762 original size:13 final size:13
Alignment explanation
Indices: 95633740--95633798 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
95633730 GTTGAAAAAG
95633740 AAAG-AAAATGAA
1 AAAGAAAAATGAA
95633752 AAAGAAAAATGAA
1 AAAGAAAAATGAA
95633765 AAATGAAAAA-GAA
1 AAA-GAAAAATGAA
*
95633778 AAA-AGAAATGAGAA
1 AAAGAAAAAT--GAA
95633792 AAAGAAA
1 AAAGAAA
95633799 CCAAAAATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 4 0.10
12 4 0.10
13 17 0.44
14 12 0.31
15 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (13 bp):
AAAGAAAAATGAA
Found at i:95633779 original size:20 final size:20
Alignment explanation
Indices: 95633744--95633880 Score: 79
Period size: 20 Copynumber: 6.8 Consensus size: 20
95633734 AAAAAGAAAG
95633744 AAAATGAAAAAGAAAAATGA
1 AAAATGAAAAAGAAAAATGA
95633764 AAAATGAAAAAGAAAAA--A
1 AAAATGAAAAAGAAAAATGA
* * **
95633782 GAAATGAGAAAA-AGAAACCA
1 AAAATGA-AAAAGAAAAATGA
* *
95633802 AAAATAGCAAAAGAAAGAAAAGA
1 AAAAT-GAAAAAG-AA-AAATGA
* * *
95633825 GAAAACGAGAGAAGAAAAATAA
1 -AAAATGA-AAAAGAAAAATGA
*
95633847 GAAAATGAAAATG-AAAATG-
1 -AAAATGAAAAAGAAAAATGA
95633866 AAAAT-AAAAAGAAAA
1 AAAATGAAAAAGAAAA
95633881 GTTTGATTGC
Statistics
Matches: 90, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
17 5 0.06
18 19 0.21
19 4 0.04
20 31 0.34
21 4 0.04
22 12 0.13
23 7 0.08
24 8 0.09
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (20 bp):
AAAATGAAAAAGAAAAATGA
Found at i:95633870 original size:18 final size:17
Alignment explanation
Indices: 95633847--95633880 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
95633837 AGAAAAATAA
*
95633847 GAAAATGAAAATGAAAAT
1 GAAAAT-AAAAAGAAAAT
95633865 GAAAATAAAAAGAAAA
1 GAAAATAAAAAGAAAA
95633881 GTTTGATTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (17 bp):
GAAAATAAAAAGAAAAT
Found at i:95635876 original size:22 final size:22
Alignment explanation
Indices: 95635840--95635901 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
95635830 TTTAGCCGTT
** *
95635840 CTATCTACGATGTTGAGTTATC
1 CTATCTACGGCGTTGAGCTATC
* * *
95635862 TTGTCTACGGCGTTGAGCTGTC
1 CTATCTACGGCGTTGAGCTATC
95635884 CTATCTACGGCGTTGAGC
1 CTATCTACGGCGTTGAGC
95635902 CGTCCTGTTG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (22 bp):
CTATCTACGGCGTTGAGCTATC
Found at i:95635906 original size:22 final size:22
Alignment explanation
Indices: 95635865--95635907 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
95635855 AGTTATCTTG
*
95635865 TCTACGGCGTTGAGCTGTCCTA
1 TCTACGGCGTTGAGCCGTCCTA
95635887 TCTACGGCGTTGAGCCGTCCT
1 TCTACGGCGTTGAGCCGTCCT
95635908 GTTGTCTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.30, G:0.28, T:0.30
Consensus pattern (22 bp):
TCTACGGCGTTGAGCCGTCCTA
Found at i:95642461 original size:55 final size:53
Alignment explanation
Indices: 95642353--95642561 Score: 213
Period size: 55 Copynumber: 3.9 Consensus size: 53
95642343 ATTAGGGTTT
* ** * *
95642353 AAGGATATCATGTAAGACCATGCCAAGGTATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTTATAAGGC
* * *
95642408 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTAATATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TATAAGGC
* * * * * *
95642463 AAAGG-TCCCATGTAAGACTATGCCGAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
* * *
95642516 AAGGATACCATGTAAGACCATGTCTAGACATGGCAATGGTAAGTTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTT
95642562 CAAAAGGATA
Statistics
Matches: 127, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
52 4 0.03
53 43 0.34
54 7 0.06
55 69 0.54
56 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
Found at i:95642559 original size:108 final size:110
Alignment explanation
Indices: 95642361--95642560 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 110
95642351 TTAAGGATAT
* *
95642361 CATGTAAGACCATGCCAAGGTATGGAAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGAC
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
*
95642426 CATGTCAAGACATGGCATTGATAAGTTAATATAAGGCAAAGGTCC
66 CATGTCAAGACATGGCAATGATAAGTTAATATAAGGCAAAGGTCC
* * * *
95642471 CATGTAAGACTATGCCGAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGA
* *
95642533 CCATGTCTAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
95642561 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.60
109 7 0.09
110 22 0.28
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTAATATAAGGCAAAGGTCC
Found at i:95648410 original size:10 final size:11
Alignment explanation
Indices: 95648395--95648442 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
95648385 ATTTTGATGT
*
95648395 ACATGATTTG-
1 ACATGATATGC
95648405 ACATGATATGC
1 ACATGATATGC
95648416 ACATGATATG-
1 ACATGATATGC
*
95648426 -TATGATATGC
1 ACATGATATGC
95648436 ACATGAT
1 ACATGAT
95648443 GTATTCATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:95654764 original size:30 final size:30
Alignment explanation
Indices: 95654730--95654826 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
95654720 AGCTCACTCC
*
95654730 TAGCTCACTTTCAACTCACGAGCTAAACCT
1 TAGCTCACTTTCAGCTCACGAGCTAAACCT
* * * * * *
95654760 TAGCTCAATTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCACTTTCAGCTCACGAGCTAAACCT
* *
95654790 CAGTTCATCTTT-AGCTCACGAGCTAAACCT
1 TAGCTCA-CTTTCAGCTCACGAGCTAAACCT
95654820 TAGCTCA
1 TAGCTCA
95654827 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
30 46 0.94
31 3 0.06
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (30 bp):
TAGCTCACTTTCAGCTCACGAGCTAAACCT
Found at i:95660943 original size:39 final size:39
Alignment explanation
Indices: 95660900--95660976 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
95660890 ACATATTTCC
* * **
95660900 AGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAATTCT
1 AGCACATAGCCTACGGACCTTAAGTCCGAATATAATTCT
95660939 AGCACATAGCCTACGGACCTTAAGTCCGAATATAATTC
1 AGCACATAGCCTACGGACCTTAAGTCCGAATATAATTC
95660977 ATCACTGAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (39 bp):
AGCACATAGCCTACGGACCTTAAGTCCGAATATAATTCT
Found at i:95666485 original size:46 final size:46
Alignment explanation
Indices: 95666418--95666543 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
95666408 AACCCGCCCC
* * * *
95666418 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
95666464 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
95666510 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
95666544 TGCTCAACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:95666562 original size:46 final size:45
Alignment explanation
Indices: 95666420--95666562 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 45
95666410 CCCGCCCCTA
* * ** * *
95666420 AGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
* *** *
95666465 AAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
95666511 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
95666558 AGTGA
1 AGTGA
95666563 CATGTCACTT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:95666999 original size:30 final size:30
Alignment explanation
Indices: 95666965--95667024 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
95666955 ATTTAGTACG
95666965 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
95666995 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
95667025 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:95672090 original size:39 final size:39
Alignment explanation
Indices: 95672047--95672190 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
95672037 ACATATTTCT
* *
95672047 AGCACGTAGCCTGCGGACCTTAAGTCTGGTTATAATTCC
1 AGCACATAGCCTGCGGACCTTAAGTCCGGTTATAATTCC
* *
95672086 AGCACATAGCCTACGGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCTTAAGTCCGGTTATAATTCC
* *
95672125 AGCACATAGCCTGCAGACCTTAAGACCGGTTATAATTCC
1 AGCACATAGCCTGCGGACCTTAAGTCCGGTTATAATTCC
95672164 AGCACATAGCCTGCGGACCTTAAGTCC
1 AGCACATAGCCTGCGGACCTTAAGTCC
95672191 AGATATACTT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCTTAAGTCCGGTTATAATTCC
Found at i:95672129 original size:78 final size:78
Alignment explanation
Indices: 95672033--95672197 Score: 249
Period size: 78 Copynumber: 2.1 Consensus size: 78
95672023 GGACTTTAGC
* * * * * * *
95672033 CCGGACATATTTCTAGCACGTAGCCTGCGGACCTTAAGTCTGGTTATAATTCCAGCACATAGCCT
1 CCGGATATAATTCCAGCACATAGCCTGCAGACCTTAAGACCGGTTATAATTCCAGCACATAGCCT
95672098 ACGGACCTTAAGT
66 ACGGACCTTAAGT
95672111 CCGGATATAATTCCAGCACATAGCCTGCAGACCTTAAGACCGGTTATAATTCCAGCACATAGCCT
1 CCGGATATAATTCCAGCACATAGCCTGCAGACCTTAAGACCGGTTATAATTCCAGCACATAGCCT
*
95672176 GCGGACCTTAAGT
66 ACGGACCTTAAGT
*
95672189 CCAGATATA
1 CCGGATATA
95672198 CTTCATCACT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (78 bp):
CCGGATATAATTCCAGCACATAGCCTGCAGACCTTAAGACCGGTTATAATTCCAGCACATAGCCT
ACGGACCTTAAGT
Found at i:95676614 original size:30 final size:28
Alignment explanation
Indices: 95676560--95676616 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
95676550 TTTCTTCCAC
* *
95676560 ACTTTCTTTTTGCTCACTCTCTTTTTCA
1 ACTTTCTTTTTGCACACACTCTTTTTCA
95676588 ACTTTACTTTCTTGCACACACTCTTTTTC
1 ACTTT-CTTT-TTGCACACACTCTTTTTC
95676617 TTTTTCGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 4 0.16
30 16 0.64
ACGTcount: A:0.14, C:0.30, G:0.04, T:0.53
Consensus pattern (28 bp):
ACTTTCTTTTTGCACACACTCTTTTTCA
Found at i:95677688 original size:11 final size:10
Alignment explanation
Indices: 95677672--95677776 Score: 54
Period size: 10 Copynumber: 10.0 Consensus size: 10
95677662 TTATTTTCAA
*
95677672 AATTTTTTCT
1 AATTTTTTTT
*
95677682 AA-TTTTTTC
1 AATTTTTTTT
*
95677691 GA-TTTTTTT
1 AATTTTTTTT
95677700 AAGCTTTTTTTT
1 AA--TTTTTTTT
*
95677712 GAAATTTTTTCGT
1 --AATTTTTT-TT
*
95677725 -ATTTTTTTGA
1 AATTTTTTT-T
*
95677735 AACTTTTTTTG
1 AA-TTTTTTTT
*
95677746 AATTTTTTTG
1 AATTTTTTTT
95677756 AATTTTTTTT
1 AATTTTTTTT
95677766 GAATTTTTTTT
1 -AATTTTTTTT
95677777 TGAAACTTAC
Statistics
Matches: 75, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
9 13 0.17
10 26 0.35
11 13 0.17
12 20 0.27
13 1 0.01
14 2 0.03
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.69
Consensus pattern (10 bp):
AATTTTTTTT
Found at i:95677719 original size:21 final size:22
Alignment explanation
Indices: 95677695--95677784 Score: 60
Period size: 22 Copynumber: 4.1 Consensus size: 22
95677685 TTTTTCGATT
95677695 TTTTTAAGCT-TTTTTTTGAAA-
1 TTTTTAAG-TATTTTTTTGAAAC
**
95677716 TTTTTTCGTATTTTTTTGAAAC
1 TTTTTAAGTATTTTTTTGAAAC
** * **
95677738 TTTTTTTGAATTTTTTTGAATTT
1 TTTTTAAGTATTTTTTTGAA-AC
*
95677761 TTTTTGAA-TTTTTTTTTGAAAC
1 TTTTT-AAGTATTTTTTTGAAAC
95677783 TT
1 TT
95677785 ACTTGATGAG
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
20 1 0.02
21 17 0.32
22 20 0.38
23 15 0.28
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (22 bp):
TTTTTAAGTATTTTTTTGAAAC
Found at i:95677719 original size:22 final size:22
Alignment explanation
Indices: 95677705--95677784 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
95677695 TTTTTAAGCT
*
95677705 TTTTTTTGAAA-TTTTTTCGTA
1 TTTTTTTGAAACTTTTTTAGTA
* *
95677726 TTTTTTTGAAACTTTTTTTGAA
1 TTTTTTTGAAACTTTTTTAGTA
** * *
95677748 TTTTTTTGAATTTTTTTTGAATT
1 TTTTTTTGAAACTTTTTT-AGTA
95677771 TTTTTTTGAAACTT
1 TTTTTTTGAAACTT
95677785 ACTTGATGAG
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 11 0.23
22 24 0.51
23 12 0.26
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.68
Consensus pattern (22 bp):
TTTTTTTGAAACTTTTTTAGTA
Found at i:95677745 original size:33 final size:32
Alignment explanation
Indices: 95677682--95677781 Score: 114
Period size: 33 Copynumber: 3.1 Consensus size: 32
95677672 AATTTTTTCT
*
95677682 AATTTTTTCGATTTTTTT-AAGCTTTTTTTTGA
1 AATTTTTTCGATTTTTTTGAAAC-TTTTTTTGA
95677714 AATTTTTTCGTATTTTTTTGAAACTTTTTTTG-
1 AATTTTTTCG-ATTTTTTTGAAACTTTTTTTGA
* **
95677746 AATTTTTTTGAATTTTTTTTGAATTTTTTTTTGA
1 AATTTTTTCG-A-TTTTTTTGAAACTTTTTTTGA
95677780 AA
1 AA
95677782 CTTACTTGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
32 20 0.34
33 34 0.58
34 5 0.08
ACGTcount: A:0.21, C:0.04, G:0.09, T:0.66
Consensus pattern (32 bp):
AATTTTTTCGATTTTTTTGAAACTTTTTTTGA
Found at i:95678975 original size:63 final size:65
Alignment explanation
Indices: 95678906--95679040 Score: 154
Period size: 67 Copynumber: 2.1 Consensus size: 65
95678896 CTAACTTAAA
* *
95678906 TAAATGAAC-TAACACTTATGCATCA-T-TTAATCC-AGCAACTAGTTTAATTAATAGAAGCAT-
1 TAAATGAACTTAA-ACTCATGCATCACTATT-ATCCTAGAAACTAGTTTAATTAA-AGAAGCATC
95678966 TAT
63 TAT
* *
95678969 TAAATGAACTTTAACTCATGCATCACTAAATTATCCTAGAAACTAGTTTATTTAAAGAAGCATCT
1 TAAATGAACTTAAACTCATGCATCACT--ATTATCCTAGAAACTAGTTTAATTAAAGAAGCATCT
95679034 AT
64 AT
95679036 TAAAT
1 TAAAT
95679041 CAAGTTCATA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
63 20 0.33
64 3 0.05
66 12 0.20
67 26 0.43
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (65 bp):
TAAATGAACTTAAACTCATGCATCACTATTATCCTAGAAACTAGTTTAATTAAAGAAGCATCTAT
Found at i:95682723 original size:40 final size:40
Alignment explanation
Indices: 95682671--95682850 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
95682661 GCCACTAGCT
* * ** *
95682671 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCA
*
95682711 CAAATGCCTTCGGGACTTAGCCC-GGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCA
* *
95682750 CAAATGCCTTCGGGACTTAGCCTAGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCA
* * *
95682790 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCA
*
95682830 CGAATGCCTTCGGGACTTAGC
1 CAAATGCCTTCGGGACTTAGC
95682851 TCGAAATTAG
Statistics
Matches: 128, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.27
40 94 0.73
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCA
Found at i:95682769 original size:79 final size:80
Alignment explanation
Indices: 95682671--95682850 Score: 245
Period size: 79 Copynumber: 2.3 Consensus size: 80
95682661 GCCACTAGCT
* * ** *
95682671 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCC-G
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCAG
*
95682735 GTATAATAACTCGCA
66 ATATAATAACTCGCA
* *
95682750 CAAATGCCTTCGGGACTTAGCCTAGATATAATAGCTCGCACAAATGCCTTCGGGACTTAGCCCAG
1 CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCAG
* * *
95682815 ATATAGTAGCTCGTA
66 ATATAATAACTCGCA
*
95682830 CGAATGCCTTCGGGACTTAGC
1 CAAATGCCTTCGGGACTTAGC
95682851 TCGAAATTAG
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 56 0.64
80 32 0.36
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCAGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCAG
ATATAATAACTCGCA
Found at i:95682876 original size:40 final size:39
Alignment explanation
Indices: 95682671--95682893 Score: 175
Period size: 40 Copynumber: 5.6 Consensus size: 39
95682661 GCCACTAGCT
* *
95682671 CAAATGCCTTCGGGACTTAGCCCG--GTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAATTA--G-AACTCGCA
** * *
95682711 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAATTAGAACTCGCA
* * * * *
95682750 CAAATGCCTTCGGGACTTAGCCTAGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCC-CGAAATTAGAACTCGCA
* * *
95682790 CAAATGCCTTCGGGACTTAGCCC-AGATATAGTAGCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGAAAT-TAG-AACTCGCA
* * * * *
95682830 CGAATGCCTTCGGGACTTAGCTCGAAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGAAATTAG-AACTCGCA
95682870 CAAATGCTCTT-GGGACTTAGCCCG
1 CAAATGC-CTTCGGGACTTAGCCCG
95682894 GTTATCATCC
Statistics
Matches: 153, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 3 0.02
39 30 0.20
40 112 0.73
41 6 0.04
42 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGAAATTAGAACTCGCA
Found at i:95687250 original size:27 final size:27
Alignment explanation
Indices: 95687192--95687302 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
95687182 AGCATTGCTG
** *
95687192 CCAGAACAGATAA-TGTGATAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* * *
95687218 CTAGAACAAATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
95687245 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
95687272 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
95687299 CCAG
1 CCAG
95687303 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 13 0.18
27 58 0.81
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:95687298 original size:54 final size:53
Alignment explanation
Indices: 95687192--95687302 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 53
95687182 AGCATTGCTG
* * * * *
95687192 CCAGAACAGATAATGTGATAGAGTCACTAGAACAAATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAAATAAATGTGGCAGAGCCA
* * * *
95687245 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAAATAAATGTGGCAGAGCCA
95687299 CCAG
1 CCAG
95687303 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
53 12 0.25
54 36 0.75
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAAATAAATGTGGCAGAGCCA
Found at i:95688738 original size:26 final size:26
Alignment explanation
Indices: 95688701--95688778 Score: 115
Period size: 26 Copynumber: 3.1 Consensus size: 26
95688691 CCAACGTTGT
*
95688701 TCTCCCTAATCAGCTCCTAAATCCTC
1 TCTCCCTTATCAGCTCCTAAATCCTC
95688727 TCTCCCTTATCAGCTCCTAAAT-C-C
1 TCTCCCTTATCAGCTCCTAAATCCTC
* *
95688751 TATCCCTTATCACCTCCTAAATCCTC
1 TCTCCCTTATCAGCTCCTAAATCCTC
95688777 TC
1 TC
95688779 CTGATGACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 21 0.46
25 2 0.04
26 23 0.50
ACGTcount: A:0.22, C:0.42, G:0.03, T:0.33
Consensus pattern (26 bp):
TCTCCCTTATCAGCTCCTAAATCCTC
Found at i:95688761 original size:24 final size:24
Alignment explanation
Indices: 95688703--95688775 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
95688693 AACGTTGTTC
* *
95688703 TCCCTAATCAGCTCCTAAATCCTCTC
1 TCCCTTATCAGCTCCTAAAT-C-CTA
95688729 TCCCTTATCAGCTCCTAAATCCTA
1 TCCCTTATCAGCTCCTAAATCCTA
*
95688753 TCCCTTATCACCTCCTAAATCCT
1 TCCCTTATCAGCTCCTAAATCCT
95688776 CTCCTGATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 24 0.55
25 1 0.02
26 19 0.43
ACGTcount: A:0.23, C:0.41, G:0.03, T:0.33
Consensus pattern (24 bp):
TCCCTTATCAGCTCCTAAATCCTA
Found at i:95691441 original size:40 final size:40
Alignment explanation
Indices: 95691397--95691525 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
95691387 TGCTGGAAAT
* * *
95691397 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
95691437 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
95691477 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
95691517 TATATCCGG
1 TATATCCGG
95691526 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:95702241 original size:30 final size:29
Alignment explanation
Indices: 95702147--95702248 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
95702137 TATAGTGAAT
* * *
95702147 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
95702176 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
95702204 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
95702234 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
95702249 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:95716504 original size:70 final size:71
Alignment explanation
Indices: 95716365--95716527 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
95716355 CGATTTGTCT
95716365 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
95716430 CTTTCA
66 CTTTCA
95716436 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTT-GAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
95716500 CTTTCA
66 CTTTCA
95716506 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
95716528 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 58 0.63
71 34 0.37
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:95726359 original size:32 final size:32
Alignment explanation
Indices: 95726318--95726382 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
95726308 CTAGTTACTC
95726318 ACTAATTGCTACAGTACGGCAAGCATAAACTG
1 ACTAATTGCTACAGTACGGCAAGCATAAACTG
95726350 ACTAATTGCTACAGTACGGCAAGCATAAACTG
1 ACTAATTGCTACAGTACGGCAAGCATAAACTG
95726382 A
1 A
95726383 GGATTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (32 bp):
ACTAATTGCTACAGTACGGCAAGCATAAACTG
Found at i:95726754 original size:12 final size:13
Alignment explanation
Indices: 95726737--95726765 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
95726727 CTCTTTGAAG
95726737 TTTAGTTATCCA-
1 TTTAGTTATCCAC
95726749 TTTAGTTATCCAC
1 TTTAGTTATCCAC
95726762 TTTA
1 TTTA
95726766 AAAATTGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (13 bp):
TTTAGTTATCCAC
Found at i:95727767 original size:27 final size:28
Alignment explanation
Indices: 95727729--95727781 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
95727719 AGAGTAAACA
*
95727729 CAATTTGGGCCTAAGCCC-TTTCAGTCT
1 CAATTAGGGCCTAAGCCCATTTCAGTCT
*
95727756 CAATTAGGGCCTTAGCCCATTTCAGT
1 CAATTAGGGCCTAAGCCCATTTCAGT
95727782 AACAGTAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (28 bp):
CAATTAGGGCCTAAGCCCATTTCAGTCT
Found at i:95727816 original size:34 final size:33
Alignment explanation
Indices: 95727762--95727826 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
95727752 GTCTCAATTA
* *
95727762 GGGCCTTAGCCCATTTCAGTAACAGTAGCAGTCT
1 GGGCCTAAGCCCATTACAGTAACAGTA-CAGTCT
* *
95727796 GGGCCTAAGCCTATTACAGTATCAGTACAGT
1 GGGCCTAAGCCCATTACAGTAACAGTACAGT
95727827 ATGCAATCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (33 bp):
GGGCCTAAGCCCATTACAGTAACAGTACAGTCT
Found at i:95743402 original size:53 final size:53
Alignment explanation
Indices: 95743317--95743524 Score: 236
Period size: 53 Copynumber: 3.9 Consensus size: 53
95743307 ATTAGGGTTT
* * * *
95743317 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
* * * * * * *
95743370 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGT-TTATAAGGC
* * * * *
95743425 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
* *
95743478 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTA
95743525 AAAAGGAAAG
Statistics
Matches: 125, Mismatches: 28, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
53 81 0.65
54 5 0.04
55 39 0.31
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTTATAAGGC
Found at i:95748411 original size:40 final size:40
Alignment explanation
Indices: 95748356--95748605 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
95748346 AACATTGGAA
95748356 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
95748396 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
95748436 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
95748476 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
95748516 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
95748555 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
95748596 CTATATCCGG
1 ATATATCCGG
95748606 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:95756584 original size:40 final size:40
Alignment explanation
Indices: 95756529--95756778 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
95756519 AACATTGGAA
95756529 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
95756569 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
95756609 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
95756649 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
95756689 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
95756728 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
95756769 CTATATCCGG
1 ATATATCCGG
95756779 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:95762926 original size:35 final size:35
Alignment explanation
Indices: 95762880--95762950 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
95762870 CAGGCAATAC
95762880 TAAAATAGGAGCTTCAGTTAACAGTGTCTTTAACT
1 TAAAATAGGAGCTTCAGTTAACAGTGTCTTTAACT
*
95762915 TAAAATAGGAGCTTCAGTTAATAGTGTCTTTAACT
1 TAAAATAGGAGCTTCAGTTAACAGTGTCTTTAACT
95762950 T
1 T
95762951 CTCAAAACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (35 bp):
TAAAATAGGAGCTTCAGTTAACAGTGTCTTTAACT
Found at i:95769803 original size:18 final size:18
Alignment explanation
Indices: 95769780--95769814 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
95769770 GACCATCACA
*
95769780 GGCTGTAACAAATTTGAT
1 GGCTGTAACAAACTTGAT
95769798 GGCTGTAACAAACTTGA
1 GGCTGTAACAAACTTGA
95769815 AGGCACTTGA
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:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (18 bp):
GGCTGTAACAAACTTGAT
Found at i:95774032 original size:78 final size:81
Alignment explanation
Indices: 95773919--95774100 Score: 239
Period size: 78 Copynumber: 2.3 Consensus size: 81
95773909 TACTCGTTCA
* *
95773919 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCGTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCGTC-GGATCTTAACCCGG
*
95773982 ATTTAATAAC-TCGCAC
65 ATTTAATAACTTAGCAC
* **
95773998 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCGTCGGATCTTAACCCGGA
* *
95774061 TTTAGTCACTTAGCAC
66 TTTAATAACTTAGCAC
*
95774077 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
95774101 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
77 3 0.03
78 47 0.52
79 29 0.32
80 11 0.12
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCGTCGGATCTTAACCCGGA
TTTAATAACTTAGCAC
Found at i:95774100 original size:40 final size:40
Alignment explanation
Indices: 95773917--95774100 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
95773907 GCTACTCGTT
*
95773917 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
95773957 CAAATGCCGTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
95773997 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
95774035 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
95774076 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
95774101 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 25 0.20
39 20 0.16
40 67 0.54
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:95778534 original size:44 final size:43
Alignment explanation
Indices: 95778484--95778649 Score: 176
Period size: 43 Copynumber: 3.8 Consensus size: 43
95778474 TATGTGATAT
*
95778484 CGTGTAAGACCATGTCTGGGACGTTGGCATTGACT-TTTGTTTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATTGA-TATTTG-TTTA
* *
95778528 CGTGTAAGACCATGTCTGGGACATTGGCA-TCATATCTGATTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATTGATATTTG-TTTA
* * * * * *
95778570 CGTGTAAGACCCTGTCCGGGACAGTGGCATCGATGTTTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATTGATATTTGTTTA
* *
95778613 CATGTAAGACCACGTCTGGGACATTGGCATTGTATAT
1 CGTGTAAGACCATGTCTGGGACATTGGCATTG-ATAT
95778650 GCTTTCCGAG
Statistics
Matches: 99, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 29 0.29
43 39 0.39
44 31 0.31
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATTGATATTTGTTTA
Found at i:95778638 original size:85 final size:86
Alignment explanation
Indices: 95778473--95778642 Score: 229
Period size: 86 Copynumber: 2.0 Consensus size: 86
95778463 AGGATTTTCG
* * * * *
95778473 ATATGTGATATCGTGTAAGACCATGTCTGGGACGTTGGCATTGACTTTTGTTTTACGTGTAAGAC
1 ATATCTGATATCGTGTAAGACCATGTCCGGGACGTTGGCATCGACTTTTGTATTACATGTAAGAC
*
95778538 CATGTCTGGGACATTGGCATC
66 CACGTCTGGGACATTGGCATC
* *
95778559 ATATCTGATTTCGTGTAAGACCCTGTCCGGGACAG-TGGCATCGA-TGTTTG-ATTACATGTAAG
1 ATATCTGATATCGTGTAAGACCATGTCCGGGAC-GTTGGCATCGACT-TTTGTATTACATGTAAG
95778621 ACCACGTCTGGGACATTGGCAT
64 ACCACGTCTGGGACATTGGCAT
95778643 TGTATATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 32 0.43
86 41 0.55
87 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (86 bp):
ATATCTGATATCGTGTAAGACCATGTCCGGGACGTTGGCATCGACTTTTGTATTACATGTAAGAC
CACGTCTGGGACATTGGCATC
Found at i:95804326 original size:41 final size:40
Alignment explanation
Indices: 95804273--95804442 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
95804263 AGTCCGACTC
*
95804273 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
95804312 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
95804352 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
95804397 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
95804436 TTTAGAC
1 -TTAGAC
95804443 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:95812671 original size:41 final size:40
Alignment explanation
Indices: 95812618--95812787 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
95812608 AGTCCGACTC
*
95812618 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
95812657 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
95812697 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
95812742 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
95812781 TTTAGAC
1 -TTAGAC
95812788 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:95819457 original size:48 final size:49
Alignment explanation
Indices: 95819384--95819667 Score: 400
Period size: 48 Copynumber: 6.1 Consensus size: 49
95819374 NNNNNNNNNN
95819384 TTCATCACATCGGCCATTAGGCCTTATCA-ATATATACACACTTTCACA
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
* *
95819432 TTCATCACATTGGCCATTCA-ACCTTATCACATATATACAC-CTTTCACA
1 TTCATCACATCGGCCATT-AGGCCTTATCACATATATACACACTTTCACA
*
95819480 TTCAT-ACAT-GG-CATTA-GCCTTATCACATATATATACACTTT-ACA
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
95819524 --CATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
* *
95819571 TTCATCACATTGGCCATTCA-GCCTTATCACATATATA-ACACCTTCACA
1 TTCATCACATCGGCCATT-AGGCCTTATCACATATATACACACTTTCACA
95819619 TTCATCACATCGGCCATTAGGCCTTATCACATATATA-ACA--TTCACA
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
95819665 TTC
1 TTC
95819668 GCGTAAATCT
Statistics
Matches: 216, Mismatches: 8, Indels: 26
0.86 0.03 0.10
Matches are distributed among these distances:
42 3 0.01
43 4 0.02
44 24 0.11
45 13 0.06
46 35 0.16
47 8 0.04
48 85 0.39
49 43 0.20
50 1 0.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (49 bp):
TTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
Found at i:95819665 original size:139 final size:137
Alignment explanation
Indices: 95819386--95819655 Score: 461
Period size: 139 Copynumber: 1.9 Consensus size: 137
95819376 NNNNNNNNTT
95819386 CATCACATCGGCCATTAGGCCTTATCAATATATACACACTTTCACATTCATCACATTGGCCATTC
1 CATCACATCGGCCATTAGGCCTTATCAATATATACACACTTTCACATTCATCACATTGGCCATTC
95819451 AACCTTATCACATATATACACCTTTCACATTCATACATGGCATTAGCCTTATCACATATATATAC
66 AACCTTATCACATATATACACCTTTCACATTCATACATGGCATTAGCCTTATCACATATATATAC
95819516 ACTTTACA
131 AC-TTACA
95819524 CATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCACATTGGCCATT
1 CATCACATCGGCCATTAGGCCTTATCA-ATATATACACACTTTCACATTCATCACATTGGCCATT
*
95819589 CAGCCTTATCACATATATAACACC-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
65 CAACCTTATCACATATAT-ACACCTTTCACATTCAT-ACAT-GG-CATTA-GCCTTATCACATAT
95819653 ATA
125 ATA
95819656 ACATTCACAT
Statistics
Matches: 125, Mismatches: 1, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
138 27 0.22
139 65 0.52
140 9 0.07
141 2 0.02
142 5 0.04
143 17 0.14
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.31
Consensus pattern (137 bp):
CATCACATCGGCCATTAGGCCTTATCAATATATACACACTTTCACATTCATCACATTGGCCATTC
AACCTTATCACATATATACACCTTTCACATTCATACATGGCATTAGCCTTATCACATATATATAC
ACTTACA
Found at i:95822833 original size:40 final size:39
Alignment explanation
Indices: 95822668--95822851 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
95822658 AAATTGAATG
* * *
95822668 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
95822708 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
95822748 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
95822788 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
95822827 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
95822852 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:95822876 original size:80 final size:81
Alignment explanation
Indices: 95822708--95822896 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
95822698 GCTGGAAATT
* * * *
95822708 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
95822773 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
95822789 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
95822852 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
95822868 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
95822897 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:95830531 original size:40 final size:39
Alignment explanation
Indices: 95830366--95830549 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
95830356 AAATTGAATG
* * *
95830366 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
95830406 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
95830446 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
95830486 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
95830525 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
95830550 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:95830574 original size:80 final size:81
Alignment explanation
Indices: 95830406--95830594 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
95830396 GCTGGAAATT
* * * *
95830406 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
95830471 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
95830487 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
95830550 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
95830566 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
95830595 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:95832838 original size:40 final size:40
Alignment explanation
Indices: 95832789--95833286 Score: 786
Period size: 40 Copynumber: 12.8 Consensus size: 40
95832779 CCAGCATGAT
* * *
95832789 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
95832829 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
95832869 TGCTCTTCGGAACTTAGTCCGG-------A-T---AC-AA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
95832897 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
95832937 TGCTCTTCGGAACTTAGTCCGGATACATCACTAACACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
95832977 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
95833017 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
95833057 TGCTCTTCGGAACTTAGTCCGTATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
95833097 TGCTCTTTGGAACTTAGTCCGTATACATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
95833137 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
95833177 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
95833217 TGCTCTTTGGAACTTAGTCCGTATACATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
95833257 TGCTCTTCGGAACTTAGTCCAGATACATCA
1 TGCTCTTCGGAACTTAGTCCGGATACATCA
95833287 TTCTCAATTC
Statistics
Matches: 428, Mismatches: 18, Indels: 24
0.91 0.04 0.05
Matches are distributed among these distances:
28 24 0.06
29 2 0.00
32 1 0.00
33 1 0.00
35 1 0.00
36 1 0.00
39 2 0.00
40 396 0.93
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:95832899 original size:28 final size:28
Alignment explanation
Indices: 95832867--95832923 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
95832857 CATTAGCACG
95832867 AATGCTCTTCGGAACTTAGTCCGGATAC
1 AATGCTCTTCGGAACTTAGTCCGGATAC
95832895 AATGCTCTTCGGAACTTAGTCCGGATAC
1 AATGCTCTTCGGAACTTAGTCCGGATAC
95832923 A
1 A
95832924 TCACTAGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (28 bp):
AATGCTCTTCGGAACTTAGTCCGGATAC
Found at i:95835222 original size:37 final size:36
Alignment explanation
Indices: 95835172--95835258 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 36
95835162 TACGAAGTCT
* *
95835172 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGAACATAATCCCCACACGTAGTCATCGGGTC
95835208 GTACCCGAACATAATCCCCACACGTAGTCATCGGGTC
1 -TACCCGAACATAATCCCCACACGTAGTCATCGGGTC
95835245 TCACCCGGAACATA
1 T-ACCC-GAACATA
95835259 TTTCCAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 38 0.83
38 7 0.15
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (36 bp):
TACCCGAACATAATCCCCACACGTAGTCATCGGGTC
Found at i:95835431 original size:49 final size:49
Alignment explanation
Indices: 95835327--95835628 Score: 516
Period size: 49 Copynumber: 6.1 Consensus size: 49
95835317 TTTACCACAT
* *
95835327 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
95835376 ATATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 --ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
95835427 ATATATATACACTTTT-ACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACA-TTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
95835476 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
95835525 ATATGTATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
95835574 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
95835623 ATATAT
1 ATATAT
95835629 TATTATGTAC
Statistics
Matches: 241, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
48 3 0.01
49 187 0.78
50 4 0.02
51 47 0.20
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:95849389 original size:49 final size:49
Alignment explanation
Indices: 95849326--95849624 Score: 478
Period size: 49 Copynumber: 6.3 Consensus size: 49
95849316 TTGTATGAGA
*
95849326 TATATATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
95849375 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
95849424 TGTATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
95849473 TGTATATATGTGATAAGGCCTAATGGCCGA--TG-TG-A--TG-AA-TG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
95849514 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
95849561 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
95849610 TATA-A-ATGTGATAAG
1 TATATATATGTGATAAG
95849625 TCCCAAAGGG
Statistics
Matches: 236, Mismatches: 4, Indels: 22
0.90 0.02 0.08
Matches are distributed among these distances:
39 28 0.12
41 4 0.02
42 4 0.02
43 3 0.01
45 3 0.01
46 3 0.01
47 14 0.06
48 1 0.00
49 176 0.75
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:95849508 original size:22 final size:22
Alignment explanation
Indices: 95849480--95849547 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
95849470 GTGTGTATAT
95849480 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
*
95849502 ATGTGATGAATG--TATAT-----
1 ATGTGAT-AAGGCCTA-ATGGCCG
95849519 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
95849541 ATGTGAT
1 ATGTGAT
95849548 GAATGTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 18
0.64 0.04 0.33
Matches are distributed among these distances:
16 3 0.09
17 9 0.26
18 2 0.06
21 2 0.06
22 16 0.46
23 3 0.09
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:95849517 original size:39 final size:39
Alignment explanation
Indices: 95849473--95849602 Score: 170
Period size: 39 Copynumber: 3.1 Consensus size: 39
95849463 TGTGAAAGTG
95849473 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
95849512 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTATATATGTGATAAGGCCTAATGGCCGA--TG-TG-A--TG-AA
95849558 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 -TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
95849600 TGT
1 TGT
95849603 GAAAGTGTAT
Statistics
Matches: 81, Mismatches: 0, Indels: 20
0.80 0.00 0.20
Matches are distributed among these distances:
39 31 0.38
41 4 0.05
42 4 0.05
43 3 0.04
45 3 0.04
46 4 0.05
47 4 0.05
49 28 0.35
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (39 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:95849524 original size:88 final size:88
Alignment explanation
Indices: 95849424--95849602 Score: 340
Period size: 88 Copynumber: 2.0 Consensus size: 88
95849414 TGTGAAAGTG
*
95849424 TGTATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTGTATATATGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATATATATGTGATAA
95849489 GGCCTAATGGCCGATGTGATGAA
66 GGCCTAATGGCCGATGTGATGAA
*
95849512 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATATATATGTGATAA
95849577 GGCCTAATGGCCGATGTGATGAA
66 GGCCTAATGGCCGATGTGATGAA
95849600 TGT
1 TGT
95849603 GAAAGTGTAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (88 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATATATATGTGATAA
GGCCTAATGGCCGATGTGATGAA
Found at i:95850682 original size:39 final size:39
Alignment explanation
Indices: 95850639--95850717 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
95850629 AATGGTATTA
95850639 AATAGTGAATAAATTATGTAAATGAACCTTGATGAATCT
1 AATAGTGAATAAATTATGTAAATGAACCTTGATGAATCT
95850678 AATAGTGAATAAATTATGTAAATGAACCTTGATGAATCT
1 AATAGTGAATAAATTATGTAAATGAACCTTGATGAATCT
95850717 A
1 A
95850718 CTTCCATATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (39 bp):
AATAGTGAATAAATTATGTAAATGAACCTTGATGAATCT
Found at i:95856353 original size:40 final size:39
Alignment explanation
Indices: 95856226--95856355 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
95856216 ATGCTGGAAA
* *
95856226 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
95856266 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
95856306 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
95856346 TTATATCCGG
1 TTATATCCGG
95856356 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:95864412 original size:40 final size:39
Alignment explanation
Indices: 95864285--95864414 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
95864275 ATGCTGGAAA
* *
95864285 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
95864325 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
95864365 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
95864405 TTATATCCGG
1 TTATATCCGG
95864415 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:95875621 original size:27 final size:28
Alignment explanation
Indices: 95875565--95875634 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
95875555 AAATTTGTAC
95875565 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
95875593 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
95875620 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
95875635 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:95888658 original size:41 final size:41
Alignment explanation
Indices: 95888613--95888730 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
95888603 TGAAAGATAA
95888613 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
95888654 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
95888684 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
95888725 ATGTAG
1 ATGTAG
95888731 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:95888669 original size:71 final size:71
Alignment explanation
Indices: 95888581--95888744 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
95888571 GAGATGTATC
95888581 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
95888646 AGGACA
66 AGGACA
95888652 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
95888717 AGGACA
66 AGGACA
95888723 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
95888745 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:95893677 original size:27 final size:28
Alignment explanation
Indices: 95893621--95893690 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
95893611 AAATTTGTAC
95893621 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
95893649 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
95893676 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
95893691 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:95897329 original size:126 final size:126
Alignment explanation
Indices: 95897100--95897331 Score: 401
Period size: 126 Copynumber: 1.8 Consensus size: 126
95897090 GGCTCGACAC
95897100 TCGGGTTCCTCCACACCGCGGCCCAAGAATCATCCTTGACCCTCATTGGCCAGATGTCTCCATAA
1 TCGGGTTCCTCCACACCGCGGCCCAAGAATCATCCTTGACCCTCATTGGCCAGATGTCTCCATAA
* *
95897165 GGCATCTTGAGCATGCTTAGCATGAGGATGATCAAAAAGCACCGAAGAACCTATCCTCACT
66 GGCATCTCGAGAATGCTTAGCATGAGGATGATCAAAAAGCACCGAAGAACCTATCCTCACT
* * * *
95897226 TCGGGTTCCTCTACACCGCGGCCTAAGAATTATCCTTGACCCTCGTTGGCCAGATGTCTCCATAA
1 TCGGGTTCCTCCACACCGCGGCCCAAGAATCATCCTTGACCCTCATTGGCCAGATGTCTCCATAA
*
95897291 GGCATCTCGAGAATGCTTAGCATGAGGATGATCGAAAAGCA
66 GGCATCTCGAGAATGCTTAGCATGAGGATGATCAAAAAGCA
95897332 TCGAGGAGTA
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 99 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (126 bp):
TCGGGTTCCTCCACACCGCGGCCCAAGAATCATCCTTGACCCTCATTGGCCAGATGTCTCCATAA
GGCATCTCGAGAATGCTTAGCATGAGGATGATCAAAAAGCACCGAAGAACCTATCCTCACT
Found at i:95899664 original size:11 final size:11
Alignment explanation
Indices: 95899648--95899673 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95899638 TCACACGAGC
95899648 CCAAGTTTAGT
1 CCAAGTTTAGT
95899659 CCAAGTTTAGT
1 CCAAGTTTAGT
95899670 CCAA
1 CCAA
95899674 TTCGGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (11 bp):
CCAAGTTTAGT
Found at i:95901807 original size:2 final size:2
Alignment explanation
Indices: 95901802--95901831 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
95901792 CAACAAAATG
95901802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95901832 GAATACCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95908754 original size:27 final size:26
Alignment explanation
Indices: 95908719--95908830 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
95908709 AGCATGGCTG
* *
95908719 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
95908745 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
95908773 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
95908800 CCAGATCAGATAATTGTGTCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
95908827 CCAG
1 CCAG
95908831 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:95908811 original size:54 final size:54
Alignment explanation
Indices: 95908719--95908830 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
95908709 AGCATGGCTG
* *
95908719 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
95908773 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGTCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
95908827 CCAG
1 CCAG
95908831 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:95910099 original size:22 final size:22
Alignment explanation
Indices: 95910072--95910113 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
95910062 CAAAAGAAGC
* *
95910072 AAAGAATAACAAATGGAGAGAA
1 AAAGAAAAACAAAAGGAGAGAA
*
95910094 AAAGAAAAATAAAAGGAGAG
1 AAAGAAAAACAAAAGGAGAG
95910114 GAAGAGTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAGAAAAACAAAAGGAGAGAA
Found at i:95914123 original size:47 final size:47
Alignment explanation
Indices: 95914054--95914348 Score: 455
Period size: 47 Copynumber: 6.3 Consensus size: 47
95914044 CCCTTCGGGA
* * * *
95914054 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
95914101 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
95914148 CTTATCACATATATACACTTCCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
95914195 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
95914242 CTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
95914289 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
95914336 CTTATCACATATA
1 CTTATCACATATA
95914349 CATATCTTGT
Statistics
Matches: 228, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 228 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:95924804 original size:29 final size:28
Alignment explanation
Indices: 95924771--95924873 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
95924761 TACTCAATCA
*
95924771 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
95924800 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
95924829 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
95924858 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
95924874 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:95932570 original size:20 final size:20
Alignment explanation
Indices: 95932510--95932570 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
95932500 ATAAATATGG
*
95932510 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
95932530 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
95932550 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
95932570 T
1 T
95932571 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:95932649 original size:24 final size:24
Alignment explanation
Indices: 95932620--95932691 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
95932610 GAGGAAGTGA
95932620 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
95932644 GAAAGGGCTTTTTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
95932668 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
95932692 ATGATAAAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 28 0.72
25 11 0.28
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:95932921 original size:31 final size:31
Alignment explanation
Indices: 95932883--95932946 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
95932873 CGTTTACAGT
95932883 AAAGGCTTCGACCCAGTACTATGAAATATGA
1 AAAGGCTTCGACCCAGTACTATGAAATATGA
* ** *
95932914 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGACCCAGTACTATGAAATATGA
95932945 AA
1 AA
95932947 CATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTACTATGAAATATGA
Found at i:95937739 original size:49 final size:49
Alignment explanation
Indices: 95937619--95937942 Score: 513
Period size: 49 Copynumber: 6.5 Consensus size: 49
95937609 GTACATAATA
*
95937619 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAA-GTATAT
*
95937670 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATAT
*
95937719 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAA-G--TATAT
*
95937772 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATAT
* * *
95937821 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATAT
95937870 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATAT
* *
95937919 ATATATGTGATAAAGCCGAATGGC
1 ATATATGTGATAAGGCCTAATGGC
95937943 TAATGTGAAT
Statistics
Matches: 256, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
49 163 0.64
50 6 0.02
51 41 0.16
52 3 0.01
53 43 0.17
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTATAT
Found at i:95937830 original size:102 final size:100
Alignment explanation
Indices: 95937619--95937942 Score: 589
Period size: 102 Copynumber: 3.2 Consensus size: 100
95937609 GTACATAATA
95937619 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAG
95937684 GCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
66 GCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
95937719 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATATGTGATA
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG--TATATATATATGTGATA
95937784 AGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
64 AGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
95937821 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG--TATATATATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAG
*
95937884 GCCTAATGGCCGACGTGATGAATGTGAAAGTATAT
66 GCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
* *
95937919 ATATATGTGATAAAGCCGAATGGC
1 ATATATGTGATAAGGCCTAATGGC
95937943 TAATGTGAAT
Statistics
Matches: 219, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
98 73 0.33
100 46 0.21
102 100 0.46
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.30
Consensus pattern (100 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAG
GCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
Found at i:95937893 original size:151 final size:149
Alignment explanation
Indices: 95937619--95937942 Score: 535
Period size: 151 Copynumber: 2.2 Consensus size: 149
95937609 GTACATAATA
*
95937619 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATATGTGATAAG
* *
95937684 GCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
66 GCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGT
95937749 GATGAATGTGAAAATGTATATAT
131 GATGAATGTG-AAA-G--TATAT
*
95937772 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAA-GTGTATATATATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATATGTGATAAG
*
95937835 GCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGT
66 GCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGT
95937900 GATGAATGTGAAAGTATAT
131 GATGAATGTGAAAGTATAT
* *
95937919 ATATATGTGATAAAGCCGAATGGC
1 ATATATGTGATAAGGCCTAATGGC
95937943 TAATGTGAAT
Statistics
Matches: 164, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
147 27 0.16
149 1 0.01
150 3 0.02
151 91 0.55
152 3 0.02
153 39 0.24
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.30
Consensus pattern (149 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATATGTGATAAG
GCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGACGT
GATGAATGTGAAAGTATAT
Found at i:95938046 original size:37 final size:36
Alignment explanation
Indices: 95937991--95938077 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
95937981 AACTTGGAAA
95937991 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
95938029 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
95938066 TATGTCCGGGTA
1 TATGTCCGGGTA
95938078 AGACTTCATA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:95944034 original size:9 final size:8
Alignment explanation
Indices: 95944003--95944036 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
95943993 AGTCCCTAAT
95944003 TCACAAAA
1 TCACAAAA
95944011 TCACAAAA
1 TCACAAAA
95944019 TCACAAAA
1 TCACAAAA
95944027 TACACAAAA
1 T-CACAAAA
95944036 T
1 T
95944037 TTCTATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (8 bp):
TCACAAAA
Found at i:95949617 original size:21 final size:22
Alignment explanation
Indices: 95949572--95949626 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
95949562 TGTAGGGCTT
*
95949572 ACATGCCCGTGTAGTCCAAGGG
1 ACATGCCCGTGTAGACCAAGGG
**
95949594 ACATGCCCGTGT-GACCCTGGG
1 ACATGCCCGTGTAGACCAAGGG
*
95949615 ACAAGCCCGTGT
1 ACATGCCCGTGT
95949627 TAGAGACTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.18
Consensus pattern (22 bp):
ACATGCCCGTGTAGACCAAGGG
Found at i:95952204 original size:28 final size:28
Alignment explanation
Indices: 95952172--95952236 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
95952162 ATTTACTAGA
* * *
95952172 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATATATACAAAATGACCATT
* *
95952200 ATACCCCTATATGTACAAAATGACCTTT
1 ATACCCCTATATATACAAAATGACCATT
95952228 ATACCCCTA
1 ATACCCCTA
95952237 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (28 bp):
ATACCCCTATATATACAAAATGACCATT
Found at i:95952398 original size:27 final size:28
Alignment explanation
Indices: 95952340--95952429 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
95952330 AGGAAGCGTC
*
95952340 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
95952368 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
95952395 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
95952424 CTGGTG
1 CTGGTG
95952430 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:95952440 original size:29 final size:28
Alignment explanation
Indices: 95952350--95952440 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
95952340 CTGGTGGCTA
* * *
95952350 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
95952378 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
95952405 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
95952434 TGTCACA
1 TGCCACA
95952441 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:95952448 original size:55 final size:56
Alignment explanation
Indices: 95952340--95952454 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
95952330 AGGAAGCGTC
* * *
95952340 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
95952395 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
95952451 CTGG
1 CTGG
95952455 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:95952912 original size:19 final size:19
Alignment explanation
Indices: 95952888--95952926 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
95952878 TTTTAATTAT
* *
95952888 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
95952907 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
95952926 T
1 T
95952927 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:95956732 original size:40 final size:40
Alignment explanation
Indices: 95956695--95956875 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
95956685 GCTACTCGTT
*
95956695 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
95956735 CAAATGCCTTCAGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
95956775 CCAATGCCTTCGGG-CTTAGTCCGG-AATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * * *
95956813 CAAATGCCTTC-GGATCTTAGTGCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
95956854 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
95956876 AGACATCATT
Statistics
Matches: 119, Mismatches: 15, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
37 2 0.02
38 22 0.18
39 17 0.14
40 65 0.55
41 13 0.11
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:95956839 original size:78 final size:80
Alignment explanation
Indices: 95956697--95956875 Score: 222
Period size: 78 Copynumber: 2.3 Consensus size: 80
95956687 TACTCGTTCA
* *
95956697 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGTAATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
* *
95956762 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* ***
95956777 AATGCCTTCGGG-CTTAGTCCGG-AATAGTAACTCGCACAAATGCCTTC-GGATCTTAGTGCGGA
1 AATGCCTTCGGGACTTAGCCCGGTAATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCCGGA
*
95956839 TATAGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
95956855 AAAGCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
95956876 AGACATCATT
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
77 3 0.04
78 51 0.60
79 19 0.22
80 12 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGTAATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:95963344 original size:28 final size:28
Alignment explanation
Indices: 95963312--95963376 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
95963302 ATTTACTAGA
*
95963312 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
95963340 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
95963368 ATACCCCTA
1 ATACCCCTA
95963377 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:95963523 original size:28 final size:27
Alignment explanation
Indices: 95963482--95963571 Score: 99
Period size: 27 Copynumber: 3.2 Consensus size: 27
95963472 AGGAAGCGTC
**
95963482 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAA-TATCTGTT
**
95963510 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCCCTGCCACAAATATCTGTT
* *
95963537 CTGGTGGCGCTGCCACAAAATATCTATAT
1 CTGGTGGCCCTGCCAC-AAATATCTGT-T
95963566 CTGGTG
1 CTGGTG
95963572 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (27 bp):
CTGGTGGCCCTGCCACAAATATCTGTT
Found at i:95963582 original size:29 final size:28
Alignment explanation
Indices: 95963492--95963582 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
95963482 CTGGTGGCTA
* * * *
95963492 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTATTCTGGTGACGC
** * *
95963520 TGCCAC-GTATATCTGTTCTGGTGGCGC
1 TGCCACAAAATATCTATTCTGGTGACGC
*
95963547 TGCCACAAAATATCTATATCTGGTGACTC
1 TGCCACAAAATATCTAT-TCTGGTGACGC
*
95963576 TGTCACA
1 TGCCACA
95963583 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 23 0.45
28 13 0.25
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTATTCTGGTGACGC
Done.