Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 90 of 187
Found at i:26906967 original size:9 final size:9
Alignment explanation
Indices: 26906955--26907102 Score: 149
Period size: 9 Copynumber: 16.6 Consensus size: 9
26906945 TGATATATAT
26906955 TTATGTAAG
1 TTATGTAAG
*
26906964 TTATATAAG
1 TTATGTAAG
26906973 TTATGTAAG
1 TTATGTAAG
26906982 TTATGTAAG
1 TTATGTAAG
*
26906991 TTATGATATG
1 TTATG-TAAG
* * *
26907001 ATATAT-AT
1 TTATGTAAG
26907009 TTATGTAAG
1 TTATGTAAG
26907018 TTATGTAAG
1 TTATGTAAG
26907027 TTATGTAAG
1 TTATGTAAG
* *
26907036 TTATATAAT
1 TTATGTAAG
*
26907045 TTATGATATG
1 TTATG-TAAG
* * *
26907055 ATATAT-AT
1 TTATGTAAG
26907063 TTATGTAA-
1 TTATGTAAG
26907071 TTATGTAAG
1 TTATGTAAG
*
26907080 TTATATAAG
1 TTATGTAAG
26907089 TTATGTAAG
1 TTATGTAAG
26907098 TTATG
1 TTATG
26907103 ATCCAAAGTT
Statistics
Matches: 111, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
8 16 0.14
9 84 0.76
10 11 0.10
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:26906976 original size:18 final size:18
Alignment explanation
Indices: 26906928--26907102 Score: 151
Period size: 18 Copynumber: 9.8 Consensus size: 18
26906918 ATCCAAATTT
* *
26906928 TTATGTAAGTTATGATATG
1 TTATATAAGTTATG-TAAG
* *
26906947 ATATAT-ATTTATGTAAG
1 TTATATAAGTTATGTAAG
26906964 TTATATAAGTTATGTAAG
1 TTATATAAGTTATGTAAG
* *
26906982 TTATGTAAGTTATGATATG
1 TTATATAAGTTATG-TAAG
* *
26907001 ATATAT-ATTTATGTAAG
1 TTATATAAGTTATGTAAG
*
26907018 TTATGTAAGTTATGTAAG
1 TTATATAAGTTATGTAAG
* *
26907036 TTATATAATTTATGATATG
1 TTATATAAGTTATG-TAAG
* *
26907055 ATATAT-ATTTATGTAA-
1 TTATATAAGTTATGTAAG
* *
26907071 TTATGTAAGTTATATAAG
1 TTATATAAGTTATGTAAG
*
26907089 TTATGTAAGTTATG
1 TTATATAAGTTATG
26907103 ATCCAAAGTT
Statistics
Matches: 125, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
16 4 0.03
17 25 0.20
18 77 0.62
19 19 0.15
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (18 bp):
TTATATAAGTTATGTAAG
Found at i:26907120 original size:54 final size:54
Alignment explanation
Indices: 26906928--26907104 Score: 311
Period size: 54 Copynumber: 3.3 Consensus size: 54
26906918 ATCCAAATTT
*
26906928 TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATGTAAG
26906982 TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATGTAAG
* * *
26907036 TTATATAATTTATGATATGATATATATTTATGTAA-TTATGTAAGTTATATAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATGTAAG
26907089 TTATGTAAGTTATGAT
1 TTATGTAAGTTATGAT
26907105 CCAAAGTTTT
Statistics
Matches: 117, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 31 0.26
54 86 0.74
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (54 bp):
TTATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATGTAAG
Found at i:26907173 original size:13 final size:13
Alignment explanation
Indices: 26907155--26907180 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26907145 GATTATCATT
26907155 TTTAAATTTTAAC
1 TTTAAATTTTAAC
26907168 TTTAAATTTTAAC
1 TTTAAATTTTAAC
26907181 CCTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAAATTTTAAC
Found at i:26907198 original size:13 final size:14
Alignment explanation
Indices: 26907159--26907205 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
26907149 ATCATTTTTA
*
26907159 AATTTTAACT-TTA
1 AATTTTAACTCTTT
*
26907172 AATTTTAACCCTTT
1 AATTTTAACTCTTT
26907186 AATTTT-ACTCTTTT
1 AATTTTAACTC-TTT
26907200 AATTTT
1 AATTTT
26907206 TAAATTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTTAACTCTTT
Found at i:26908466 original size:27 final size:28
Alignment explanation
Indices: 26908430--26908483 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
26908420 GTAATATAAT
*
26908430 AAAAAAATTACATTAGATATA-ATTTTA
1 AAAAAAATTACATTAAATATATATTTTA
26908457 AAAAAAATTACATTAAATATATATTTT
1 AAAAAAATTACATTAAATATATATTTT
26908484 TTACTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (28 bp):
AAAAAAATTACATTAAATATATATTTTA
Found at i:26911155 original size:18 final size:18
Alignment explanation
Indices: 26911132--26911174 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
26911122 ATAGACAGTT
26911132 GAATAAGT-TGACTATTAA
1 GAATAAGTAT-ACTATTAA
*
26911150 GAATAAGTATCCTATTAA
1 GAATAAGTATACTATTAA
26911168 GAATAAG
1 GAATAAG
26911175 AGAAAATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (18 bp):
GAATAAGTATACTATTAA
Found at i:26929690 original size:31 final size:32
Alignment explanation
Indices: 26929633--26929692 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
26929623 ATATATAAAA
**
26929633 AAAAGAATGAAAGAACAAAGGTAAGTTTGTTC
1 AAAAGAATGAAAGAACAAAGAAAAGTTTGTTC
26929665 AAAAGAAT-AAA-AAGCAAAGAAAAGTTTG
1 AAAAGAATGAAAGAA-CAAAGAAAAGTTTG
26929693 CCCAAAGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 15 0.60
32 8 0.32
ACGTcount: A:0.57, C:0.05, G:0.20, T:0.18
Consensus pattern (32 bp):
AAAAGAATGAAAGAACAAAGAAAAGTTTGTTC
Found at i:26955104 original size:17 final size:17
Alignment explanation
Indices: 26955078--26955111 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26955068 AATAGTAAGA
*
26955078 ATTTTATTAAATTATAT
1 ATTTTATTAAATCATAT
*
26955095 ATTTTGTTAAATCATAT
1 ATTTTATTAAATCATAT
26955112 TTAATAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTATTAAATCATAT
Found at i:26955182 original size:18 final size:17
Alignment explanation
Indices: 26955159--26955211 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
26955149 ATATATTATG
*
26955159 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
26955177 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
26955194 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
26955212 TTAATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:26955211 original size:117 final size:119
Alignment explanation
Indices: 26954858--26955177 Score: 581
Period size: 117 Copynumber: 2.7 Consensus size: 119
26954848 AATACTAAGA
*
26954858 ATTTTATTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGA
1 ATTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGA
26954923 TTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATAT
66 TTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATAT
*
26954977 ATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATG
1 A-TTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATG
*
26955042 A-TTTAGTAAA-TCATATAAGAATATTTAATAGTAAGAATTTTATTAAATTATAT
65 ATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATAT
*
26955095 ATTTTGTTAAATCATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGA
1 ATTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGA
26955160 TTTTAGTAAATTCATATA
66 TTTTAGTAAATTCATATA
26955178 TTTTATTAAA
Statistics
Matches: 193, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
117 62 0.32
118 52 0.27
119 17 0.09
120 62 0.32
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (119 bp):
ATTTTGTTAAATTATATTTAATAATTATTATTTTAAATTATATTTTATAGTATTATATATTATGA
TTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAATTATAT
Found at i:26955468 original size:16 final size:15
Alignment explanation
Indices: 26955447--26955499 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 15
26955437 AGAATTACCT
26955447 ATTACGTCTCTATTCC
1 ATTACG-CTCTATTCC
26955463 ATTACGCATCTATTCC
1 ATTACGC-TCTATTCC
*
26955479 ATTACACCTCTATTCC
1 ATTAC-GCTCTATTCC
26955495 ATTAC
1 ATTAC
26955500 AACGAACCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.25, C:0.32, G:0.04, T:0.40
Consensus pattern (15 bp):
ATTACGCTCTATTCC
Found at i:26955500 original size:16 final size:16
Alignment explanation
Indices: 26955454--26955500 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
26955444 CCTATTACGT
*
26955454 CTCTATTCCATTACGC
1 CTCTATTCCATTACAC
*
26955470 ATCTATTCCATTACAC
1 CTCTATTCCATTACAC
26955486 CTCTATTCCATTACA
1 CTCTATTCCATTACA
26955501 ACGAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.26, C:0.34, G:0.02, T:0.38
Consensus pattern (16 bp):
CTCTATTCCATTACAC
Found at i:26955762 original size:26 final size:26
Alignment explanation
Indices: 26955733--26955784 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
26955723 AATATATAGA
26955733 TAAACAATATTTA-TCTTTATGATAAT
1 TAAA-AATATTTATTCTTTATGATAAT
* *
26955759 TAAATATATTTATTTTTTATGATAAT
1 TAAAAATATTTATTCTTTATGATAAT
26955785 AATTATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (26 bp):
TAAAAATATTTATTCTTTATGATAAT
Found at i:26956113 original size:19 final size:20
Alignment explanation
Indices: 26956089--26956126 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26956079 TATTTTAAAT
26956089 TTTAAAAT-AAAAATAAAAA
1 TTTAAAATCAAAAATAAAAA
*
26956108 TTTAAAATCAAAACTAAAA
1 TTTAAAATCAAAAATAAAA
26956127 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
TTTAAAATCAAAAATAAAAA
Found at i:26956127 original size:19 final size:18
Alignment explanation
Indices: 26956084--26956140 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
26956074 CAAGTTATTT
*
26956084 TAAATTTTAAAATAAAAA
1 TAAAATTTAAAATAAAAA
*
26956102 TAAAAATTTAAAATCAAAAC
1 T-AAAATTTAAAAT-AAAAA
*
26956122 TAAAA-TAAATAATAAAAA
1 TAAAATTTAA-AATAAAAA
26956140 T
1 T
26956141 TGGATTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 9 0.28
19 18 0.56
20 5 0.16
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATTTAAAATAAAAA
Found at i:26956847 original size:72 final size:72
Alignment explanation
Indices: 26956727--26956991 Score: 230
Period size: 72 Copynumber: 3.7 Consensus size: 72
26956717 AATAAATAAA
* * * * * *
26956727 AAACTAAACTAACCTTCTAAAAACATATTAC-CGAATAAAAGATTTTACTTAAAATCAAAACTCA
1 AAACTAAAATAACCTTCTAAAAACATATAACTTGAATAAACGGTTTTACTTAATATCAAAACTCA
26956791 ATAAATC
66 ATAAATC
* ** * * *
26956798 AAATTAATTTAATCTTCTCAAAACATATAACTTGAATAAACGGTTTTACTTAATATCGAAACTCA
1 AAACTAAAATAACCTTCTAAAAACATATAACTTGAATAAACGGTTTTACTTAATATCAAAACTCA
* * *
26956863 ATGAGTT
66 ATAAATC
* * * * * *
26956870 GAACTAAAATAGCCTTTTTAAAAACACATAA-TTGAATAAACGGTTCTACTTAATATCAAAATTC
1 AAACTAAAATAACC-TTCTAAAAACATATAACTTGAATAAACGGTTTTACTTAATATCAAAACTC
*
26956934 AATAAATT
65 AATAAATC
* * * * ** * *
26956942 GAACTAAATTAACTTTTTAAAAACGCATAA-TTGAACAAGCGGTTTTACTT
1 AAACTAAAATAACCTTCTAAAAACATATAACTTGAATAAACGGTTTTACTT
26956992 TGTATAACAG
Statistics
Matches: 157, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
71 57 0.36
72 87 0.55
73 13 0.08
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (72 bp):
AAACTAAAATAACCTTCTAAAAACATATAACTTGAATAAACGGTTTTACTTAATATCAAAACTCA
ATAAATC
Found at i:26956991 original size:71 final size:71
Alignment explanation
Indices: 26956759--26956991 Score: 252
Period size: 72 Copynumber: 3.3 Consensus size: 71
26956749 ACATATTACC
* * * ** * * * *
26956759 GAATAAAAGATTTTACTTAAAATCAAAACTCAATAAATCAAATTAATTTAA-TCTTCTCAAAACA
1 GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTAACT-TTTTAAAAACA
*
26956823 TATAACTT
65 CATAA-TT
* * * * *
26956831 GAATAAACGGTTTTACTTAATATCGAAACTCAATGAGTTGAACTAAAATAGCCTTTTTAAAAACA
1 GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTA-ACTTTTTAAAAACA
26956896 CATAATT
65 CATAATT
* * *
26956903 GAATAAACGGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAACTTTTTAAAAACGC
1 GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTAACTTTTTAAAAACAC
26956968 ATAATT
66 ATAATT
* *
26956974 GAACAAGCGGTTTTACTT
1 GAATAAACGGTTTTACTT
26956992 TGTATAACAG
Statistics
Matches: 133, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
71 34 0.26
72 85 0.64
73 13 0.10
74 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (71 bp):
GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATTGAACTAAATTAACTTTTTAAAAACAC
ATAATT
Found at i:26957520 original size:23 final size:23
Alignment explanation
Indices: 26957490--26957534 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
26957480 AGTTTGCAAG
26957490 TATAGGACAATGAAGGCTTTAAA
1 TATAGGACAATGAAGGCTTTAAA
26957513 TATAGGACAATGAAGGCTTTAA
1 TATAGGACAATGAAGGCTTTAA
26957535 CAGTTTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (23 bp):
TATAGGACAATGAAGGCTTTAAA
Found at i:26959318 original size:37 final size:37
Alignment explanation
Indices: 26959268--26959351 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 37
26959258 TGTATCAAAT
* *
26959268 AAAAGGGAATTGGGAAAAATGGCACCGTTTGCGGAAG
1 AAAAGGGAATTGGGAAAAACGGCACCGTTTGCGAAAG
*
26959305 AAAAGGGAATTGGGAAAAACGGCATCGTTTGCGAAAG
1 AAAAGGGAATTGGGAAAAACGGCACCGTTTGCGAAAG
26959342 AAAAGGGAAT
1 AAAAGGGAAT
26959352 CAGTTTGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.42, C:0.10, G:0.33, T:0.15
Consensus pattern (37 bp):
AAAAGGGAATTGGGAAAAACGGCACCGTTTGCGAAAG
Found at i:26967540 original size:10 final size:10
Alignment explanation
Indices: 26967525--26967557 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
26967515 CTCTTATTAA
26967525 AATTATAAAT
1 AATTATAAAT
26967535 AATTATAAAT
1 AATTATAAAT
*
26967545 AATAATAAAT
1 AATTATAAAT
26967555 AAT
1 AAT
26967558 AAATTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AATTATAAAT
Found at i:26967594 original size:18 final size:18
Alignment explanation
Indices: 26967547--26967594 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
26967537 TTATAAATAA
26967547 TAATAAATAA-TAAATTT
1 TAATAAATAATTAAATTT
* *
26967564 TATTAAATTATTAAATTT
1 TAATAAATAATTAAATTT
*
26967582 TAATAAAAAATTA
1 TAATAAATAATTA
26967595 TTAAAAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATAAATAATTAAATTT
Found at i:26968812 original size:22 final size:23
Alignment explanation
Indices: 26968787--26968831 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
26968777 AAAGAGAGAA
26968787 ATTCAAGAAAAGAGA-AAAATAG
1 ATTCAAGAAAAGAGACAAAATAG
*
26968809 ATTCAAGAAGAGAGACAAAATAG
1 ATTCAAGAAAAGAGACAAAATAG
26968832 CAAGGAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.60, C:0.07, G:0.20, T:0.13
Consensus pattern (23 bp):
ATTCAAGAAAAGAGACAAAATAG
Found at i:26968835 original size:20 final size:20
Alignment explanation
Indices: 26968777--26968835 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 20
26968767 ATTGACAAAG
*
26968777 AAAGAGAGAAAT--TCAAGA
1 AAAGAGAAAAATAGTCAAGA
26968795 AAAGAGAAAAATAGATTCAAGA
1 AAAGAGAAAAATAG--TCAAGA
*
26968817 AGAGAGACAAAATAG-CAAG
1 AAAGAGA-AAAATAGTCAAG
26968836 GAGGATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 11 0.32
20 4 0.12
22 12 0.35
23 7 0.21
ACGTcount: A:0.61, C:0.07, G:0.22, T:0.10
Consensus pattern (20 bp):
AAAGAGAAAAATAGTCAAGA
Found at i:26982354 original size:2 final size:2
Alignment explanation
Indices: 26982347--26982375 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26982337 AAAACAAATA
26982347 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26982376 AATTATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26982468 original size:2 final size:2
Alignment explanation
Indices: 26982463--26982538 Score: 68
Period size: 2 Copynumber: 39.5 Consensus size: 2
26982453 GTACACACAC
* * * * *
26982463 AT AT AT AT AT AT AG A- AT AT -T CT A- AA AT AT AA AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
**
26982502 AT AT AT AT AT AT AT AT AT AT AT AT AT GC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26982539 AAAGAAATAT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
1 3 0.05
2 57 0.95
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:26984835 original size:24 final size:25
Alignment explanation
Indices: 26984790--26984839 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
26984780 CACAGGTATT
26984790 TACATGAGATATATGAAAATGATTTG
1 TACATGAGATATAT-AAAATGATTTG
* *
26984816 TACATGATATATAT-ACATGATTTG
1 TACATGAGATATATAAAATGATTTG
26984840 GAAATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
26 13 0.59
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (25 bp):
TACATGAGATATATAAAATGATTTG
Found at i:26987747 original size:33 final size:32
Alignment explanation
Indices: 26987688--26987775 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 32
26987678 AGTAATAGTC
* *
26987688 TGGGCCTGAGCCCTAT-TCAGTGACAGTACAGTG
1 TGGGCCTTAGCCCAATAT-AGT-ACAGTACAGTG
26987721 TGGGCCTTAGCCCAATATAGT--A--ACAGTG
1 TGGGCCTTAGCCCAATATAGTACAGTACAGTG
*
26987749 TGGGCTTTAGCCCAATATAGTAACAGT
1 TGGGCCTTAGCCCAATATAGT-ACAGT
26987776 GTAGTGCAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
28 26 0.57
30 1 0.02
31 1 0.02
33 17 0.37
34 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (32 bp):
TGGGCCTTAGCCCAATATAGTACAGTACAGTG
Found at i:26987751 original size:28 final size:28
Alignment explanation
Indices: 26987715--26987777 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
26987705 CAGTGACAGT
26987715 ACAGTGTGGGCCTTAGCCCAATATAGTA
1 ACAGTGTGGGCCTTAGCCCAATATAGTA
*
26987743 ACAGTGTGGGCTTTAGCCCAATATAGTA
1 ACAGTGTGGGCCTTAGCCCAATATAGTA
26987771 ACAGTGT
1 ACAGTGT
26987778 AGTGCAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATATAGTA
Found at i:26987934 original size:26 final size:26
Alignment explanation
Indices: 26987856--26987936 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
26987846 AACACACCAA
*
26987856 TATCACAGCAAAGCTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAACAG
* * * *
26987882 CATCGCAGCAGAGCTGCCAGTATCAG
1 TATCACAGCAAAGCTGCCAGTAACAG
*
26987908 TATCACAGCAAAGCTACCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
26987934 TAT
1 TAT
26987937 ATGTGGCAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAACAG
Found at i:26988225 original size:27 final size:26
Alignment explanation
Indices: 26988170--26988412 Score: 324
Period size: 27 Copynumber: 9.1 Consensus size: 26
26988160 GGGTATAATA
*
26988170 GTCATTTTAACCTATGGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
*
26988196 GTCATTTTACCCTATGAAGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
26988223 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
* * *
26988250 GTTATTCTACCATATGGGGTATTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
26988276 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
26988303 ATCATTTTACCCTATTGGGGTATTTCG
1 GTCATTTTACCCTA-TGGGGTATTTCG
*
26988330 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
26988357 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * *
26988384 ATCATTCTACCCTATGGGGGTGTTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
26988411 GT
1 GT
26988413 GTAGATATCG
Statistics
Matches: 198, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
26 38 0.19
27 159 0.80
28 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.40
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:26988276 original size:80 final size:79
Alignment explanation
Indices: 26988182--26988412 Score: 354
Period size: 80 Copynumber: 2.9 Consensus size: 79
26988172 CATTTTAACC
** *
26988182 TATGGGGTATTTCGGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTATGAGGGTATT
1 TATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATG-GGGTATT
*
26988247 TCGGTTATTCTACCA
65 TCGGTCATTCTACCA
26988262 TATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATTGGGGTATT
1 TATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA-TGGGGTATT
*
26988327 TCGGTCATTCTACCC
65 TCGGTCATTCTACCA
* * *
26988342 TATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTGT
1 TAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTAT-GGGGTAT
26988407 TTCGGT
64 TTCGGT
26988413 GTAGATATCG
Statistics
Matches: 140, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
80 76 0.54
81 64 0.46
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (79 bp):
TATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTT
CGGTCATTCTACCA
Found at i:26993189 original size:29 final size:28
Alignment explanation
Indices: 26993133--26993190 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
26993123 GCGGATATCA
* *
26993133 CTTACTGATCACACTTTTGGTAGATACC
1 CTTACTGATCAAACTTTTAGTAGATACC
*
26993161 CTTACTGATCAAACTTTTTAGTGGATACC
1 CTTACTGATCAAAC-TTTTAGTAGATACC
26993190 C
1 C
26993191 GTGATCTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (28 bp):
CTTACTGATCAAACTTTTAGTAGATACC
Found at i:26995001 original size:16 final size:15
Alignment explanation
Indices: 26994982--26995011 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
26994972 TTCATTTCAT
26994982 TTGCATTTAGGTTAAC
1 TTGCATTTA-GTTAAC
26994998 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
26995012 TTAAGTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:26995428 original size:20 final size:20
Alignment explanation
Indices: 26995403--26995478 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
26995393 CCAGATAGAC
26995403 AATGCCACAAAGGCTAGTAG
1 AATGCCACAAAGGCTAGTAG
* *
26995423 AATGCCACCCAAGCCATAGTAG
1 AATGCCA-CAAAGGC-TAGTAG
* * * **
26995445 AATACCACAGAGACTAACAG
1 AATGCCACAAAGGCTAGTAG
26995465 AATGCCACAAAGGC
1 AATGCCACAAAGGC
26995479 AATATAAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 22 0.51
21 9 0.21
22 12 0.28
ACGTcount: A:0.42, C:0.26, G:0.20, T:0.12
Consensus pattern (20 bp):
AATGCCACAAAGGCTAGTAG
Found at i:26995467 original size:42 final size:42
Alignment explanation
Indices: 26995445--26995617 Score: 220
Period size: 42 Copynumber: 4.1 Consensus size: 42
26995435 GCCATAGTAG
* *
26995445 AATACCACAGAGACTAACAGAATGCCACAAAGGCAATATAAA
1 AATACCATAGAGACTAACAGAATGCCACAAAGGCCATATAAA
* *
26995487 AATACCATAGAGGCTAACAGAATGCCACAAAGGCCATATCAA
1 AATACCATAGAGACTAACAGAATGCCACAAAGGCCATATAAA
* *
26995529 AATACCATAGAGACTAACAGAATACCACAAAGGCCATATCAA
1 AATACCATAGAGACTAACAGAATGCCACAAAGGCCATATAAA
* * * * * * * *
26995571 AATACCACAAAGGCTAATAAAATGTCATAAAGGCCATATCAA
1 AATACCATAGAGACTAACAGAATGCCACAAAGGCCATATAAA
26995613 AATAC
1 AATAC
26995618 GCCATAAAGG
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 117 1.00
ACGTcount: A:0.50, C:0.22, G:0.13, T:0.15
Consensus pattern (42 bp):
AATACCATAGAGACTAACAGAATGCCACAAAGGCCATATAAA
Found at i:26995554 original size:20 final size:20
Alignment explanation
Indices: 26995487--26995555 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
26995477 GCAATATAAA
*
26995487 AATACCATAGAGGCTAACAG
1 AATACCATAGAGACTAACAG
* * * * * *
26995507 AATGCCACAAAGGCCATATCAA
1 AATACCATAGA-GAC-TAACAG
26995529 AATACCATAGAGACTAACAG
1 AATACCATAGAGACTAACAG
26995549 AATACCA
1 AATACCA
26995556 CAAAGGCCAT
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
20 19 0.54
21 4 0.11
22 12 0.34
ACGTcount: A:0.48, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
AATACCATAGAGACTAACAG
Found at i:26995557 original size:84 final size:84
Alignment explanation
Indices: 26995445--26995617 Score: 256
Period size: 84 Copynumber: 2.1 Consensus size: 84
26995435 GCCATAGTAG
* * * *
26995445 AATACCACAGAGACTAACAGAATGCCACAAAGGCAATATAAAAATACCATAGAGGCTAACAGAAT
1 AATACCACAGAGACTAACAGAATACCACAAAGGCAATATAAAAATACCACAAAGGCTAACAAAAT
26995510 GCCACAAAGGCCATATCAA
66 GCCACAAAGGCCATATCAA
* * * *
26995529 AATACCATAGAGACTAACAGAATACCACAAAGGCCATATCAAAATACCACAAAGGCTAATAAAAT
1 AATACCACAGAGACTAACAGAATACCACAAAGGCAATATAAAAATACCACAAAGGCTAACAAAAT
* *
26995594 GTCATAAAGGCCATATCAA
66 GCCACAAAGGCCATATCAA
26995613 AATAC
1 AATAC
26995618 GCCATAAAGG
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.50, C:0.22, G:0.13, T:0.15
Consensus pattern (84 bp):
AATACCACAGAGACTAACAGAATACCACAAAGGCAATATAAAAATACCACAAAGGCTAACAAAAT
GCCACAAAGGCCATATCAA
Found at i:26995577 original size:22 final size:22
Alignment explanation
Indices: 26995469--26995617 Score: 112
Period size: 22 Copynumber: 7.0 Consensus size: 22
26995459 TAACAGAATG
* *
26995469 CCACAAAGGCAATATAAAAATA
1 CCACAAAGGCCATATCAAAATA
* * * * *
26995491 CCATAGAGG-C-TAACAGAATG
1 CCACAAAGGCCATATCAAAATA
26995511 CCACAAAGGCCATATCAAAATA
1 CCACAAAGGCCATATCAAAATA
* * * * *
26995533 CCATAGA-GAC-TAACAGAATA
1 CCACAAAGGCCATATCAAAATA
26995553 CCACAAAGGCCATATCAAAATA
1 CCACAAAGGCCATATCAAAATA
* *
26995575 CCACAAAGGCTA-AT-AAAATG
1 CCACAAAGGCCATATCAAAATA
* *
26995595 TCATAAAGGCCATATCAAAATA
1 CCACAAAGGCCATATCAAAATA
26995617 C
1 C
26995618 GCCATAAAGG
Statistics
Matches: 92, Mismatches: 29, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
20 40 0.43
21 9 0.10
22 43 0.47
ACGTcount: A:0.50, C:0.22, G:0.13, T:0.15
Consensus pattern (22 bp):
CCACAAAGGCCATATCAAAATA
Found at i:26995635 original size:24 final size:24
Alignment explanation
Indices: 26995615--26995675 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
26995605 CATATCAAAA
26995615 TACGCCATAAAGGTTAGATCAGAG
1 TACGCCATAAAGGTTAGATCAGAG
*
26995639 TACGCTATAAAGGTTAGATCAGAG
1 TACGCCATAAAGGTTAGATCAGAG
*
26995663 TACACCATAAAGG
1 TACGCCATAAAGG
26995676 ATAGTAGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.21
Consensus pattern (24 bp):
TACGCCATAAAGGTTAGATCAGAG
Found at i:27008674 original size:20 final size:19
Alignment explanation
Indices: 27008649--27008690 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
27008639 TGATAACAAC
27008649 TAATATATAATTATATT-TTA
1 TAATATAT-ATTA-ATTGTTA
27008669 TAATATATATTAATTGTTA
1 TAATATATATTAATTGTTA
27008688 TAA
1 TAA
27008691 ACCTTGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 10 0.48
20 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTGTTA
Found at i:27008798 original size:7 final size:7
Alignment explanation
Indices: 27008786--27008812 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
27008776 AATATATTAA
27008786 TATATTC
1 TATATTC
27008793 TATATTC
1 TATATTC
27008800 TATATTC
1 TATATTC
27008807 TATATT
1 TATATT
27008813 AATTGTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.59
Consensus pattern (7 bp):
TATATTC
Found at i:27016612 original size:17 final size:17
Alignment explanation
Indices: 27016587--27016629 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
27016577 ATAAATGGAT
* *
27016587 CTTTGTAGCTTGTATAC
1 CTTTCTAGCTTGCATAC
27016604 CTTTCTAGCTTGCATAC
1 CTTTCTAGCTTGCATAC
*
27016621 CTTTTTAGC
1 CTTTCTAGC
27016630 ATCCTTTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.47
Consensus pattern (17 bp):
CTTTCTAGCTTGCATAC
Found at i:27024629 original size:37 final size:38
Alignment explanation
Indices: 27024588--27024666 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
27024578 TATACATCAG
27024588 ATTTTAAAATTTTTACAAAATAGTCCCTAAAAT-TCAA
1 ATTTTAAAATTTTTACAAAATAGTCCCTAAAATCTCAA
* ** ** *
27024625 ATTTTACAATTTTTATGATTTAGTCCTTAAAATCTCAA
1 ATTTTAAAATTTTTACAAAATAGTCCCTAAAATCTCAA
27024663 ATTT
1 ATTT
27024667 ACACAATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
37 27 0.77
38 8 0.23
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (38 bp):
ATTTTAAAATTTTTACAAAATAGTCCCTAAAATCTCAA
Found at i:27025249 original size:61 final size:61
Alignment explanation
Indices: 27025170--27025288 Score: 220
Period size: 61 Copynumber: 2.0 Consensus size: 61
27025160 AATCACTTAG
*
27025170 AACATAGAAAATAGTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAA
1 AACATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAA
*
27025231 AACATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAGATTATAAATG
1 AACATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATG
27025289 TAAATAAACA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.34
Consensus pattern (61 bp):
AACATAGAAAATACTTATACACACTTAATTCTTACATTTTCACATCAAATTATAAATGCAA
Found at i:27025583 original size:4 final size:4
Alignment explanation
Indices: 27025576--27025604 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
27025566 TTTTTTATTT
27025576 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
27025605 ATCAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:27028549 original size:16 final size:17
Alignment explanation
Indices: 27028514--27028551 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
27028504 TTGTATGATA
27028514 TGATTAAGATAATTAAT
1 TGATTAAGATAATTAAT
* *
27028531 TGATTAA-ATGATTATT
1 TGATTAAGATAATTAAT
27028547 TGATT
1 TGATT
27028552 GTGCATGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (17 bp):
TGATTAAGATAATTAAT
Found at i:27033294 original size:30 final size:30
Alignment explanation
Indices: 27033258--27033316 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
27033248 TTTTGTTGTG
27033258 AAAACTTATTTGCATCCGTTAGGCAGTTTC
1 AAAACTTATTTGCATCCGTTAGGCAGTTTC
27033288 AAAACTTATTTGCATCCGTTAGGCAGTTT
1 AAAACTTATTTGCATCCGTTAGGCAGTTT
27033317 TTGTTGTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (30 bp):
AAAACTTATTTGCATCCGTTAGGCAGTTTC
Found at i:27040491 original size:50 final size:50
Alignment explanation
Indices: 27040416--27040593 Score: 268
Period size: 50 Copynumber: 3.6 Consensus size: 50
27040406 CATTTGGGTA
*
27040416 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACTGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAT
27040466 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAT
* * * * *
27040516 AAGAGGTCCCTTGTAAGACCATATTTGGGATATGGTGTTAGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAT
* *
27040566 GAGAGGTCTCC-CGTAAGACCATGTCTGG
1 AAGAGGTC-CCATGTAAGACCATGTCTGG
27040594 ATATGACATG
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
50 115 0.98
51 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAT
Found at i:27046831 original size:50 final size:50
Alignment explanation
Indices: 27046751--27047042 Score: 354
Period size: 50 Copynumber: 5.9 Consensus size: 50
27046741 CATTTGGGTA
*
27046751 AAGAGGTCCCATGTAAGACCATGTCAGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
27046801 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
27046851 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * *
27046901 GAGAGGTCCCCCGTAAGACCATGTCTCGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** ** * * * * *
27046951 GAGAATTATCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
* ** *
27047000 AAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
27047043 TGTTATCATC
Statistics
Matches: 210, Mismatches: 31, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
48 1 0.00
49 36 0.17
50 173 0.82
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:27058703 original size:40 final size:39
Alignment explanation
Indices: 27058617--27058726 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 39
27058607 AAATTGAGAC
* * *
27058617 TGATACTGAACTGAATTATGGAA--TACTGAATATTGTTT
1 TGATACTGAATTGAATTGT-GAAGTTACTGAATATTGTTA
27058655 TGAGTACTGAATTGAATTGTGAAGTTACTGAATATTGTTA
1 TGA-TACTGAATTGAATTGTGAAGTTACTGAATATTGTTA
* * *
27058695 TGTATACTGCATTAAACTGTG-AGATTACTGAA
1 TG-ATACTGAATTGAATTGTGAAG-TTACTGAA
27058727 GTAATGAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
38 6 0.10
39 16 0.26
40 38 0.62
41 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (39 bp):
TGATACTGAATTGAATTGTGAAGTTACTGAATATTGTTA
Found at i:27059004 original size:45 final size:45
Alignment explanation
Indices: 27058926--27059082 Score: 210
Period size: 45 Copynumber: 3.5 Consensus size: 45
27058916 ATATGCCGAC
* * * *
27058926 TACTATTACTGTTACTGTTATCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACAGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
*
27058971 TACTGTTACAGTTACTGTTACCGATTCGGCACTTTATGTGTCGAA
1 TACTGTTACAGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
* *
27059016 TACTGTTACCA--TACTGTTACAGATTCGGCACTTTGTGTGTTGAA
1 TACTGTTA-CAGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
* *
27059060 TACTGTTACTGTTACTGCTACCG
1 TACTGTTACAGTTACTGTTACCG
27059083 TTACTGATTA
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
43 1 0.01
44 38 0.39
45 57 0.58
46 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (45 bp):
TACTGTTACAGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
Found at i:27059046 original size:44 final size:44
Alignment explanation
Indices: 27058938--27059068 Score: 185
Period size: 44 Copynumber: 2.9 Consensus size: 44
27058928 CTATTACTGT
*
27058938 TACTGTTATCGATTCGACACTTTGTGTGTCGAATACTGTTA-CAG
1 TACTGTTA-CGATTCGGCACTTTGTGTGTCGAATACTGTTACCAG
*
27058982 TTACTGTTACCGATTCGGCACTTTATGTGTCGAATACTGTTACCA-
1 -TACTGTTA-CGATTCGGCACTTTGTGTGTCGAATACTGTTACCAG
*
27059027 TACTGTTACAGATTCGGCACTTTGTGTGTTGAATACTGTTAC
1 TACTGTTAC-GATTCGGCACTTTGTGTGTCGAATACTGTTAC
27059069 TGTTACTGCT
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.01
44 38 0.48
45 38 0.48
46 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (44 bp):
TACTGTTACGATTCGGCACTTTGTGTGTCGAATACTGTTACCAG
Found at i:27072734 original size:28 final size:28
Alignment explanation
Indices: 27072698--27072753 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
27072688 TGCAGGTTGG
*
27072698 TTCAGACATGGAAATCGACAAGCAAGGT
1 TTCAGACATGGAAATCGAAAAGCAAGGT
27072726 TTCAGACATGGAAATCGAAAAGCAAGGT
1 TTCAGACATGGAAATCGAAAAGCAAGGT
27072754 ACTGAGTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (28 bp):
TTCAGACATGGAAATCGAAAAGCAAGGT
Found at i:27072881 original size:68 final size:68
Alignment explanation
Indices: 27072772--27072912 Score: 264
Period size: 68 Copynumber: 2.1 Consensus size: 68
27072762 TAATTTATGT
*
27072772 ATGATTTTGTAGCTACCTAATTATGATTTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
27072837 GAA
66 GAA
*
27072840 ATGATTTTGTAGCTATCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
27072905 GAA
66 GAA
27072908 ATGAT
1 ATGAT
27072913 ACATCATATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.37
Consensus pattern (68 bp):
ATGATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
GAA
Found at i:27074531 original size:38 final size:37
Alignment explanation
Indices: 27074489--27074590 Score: 118
Period size: 37 Copynumber: 2.7 Consensus size: 37
27074479 TTTTTATATT
*
27074489 ATTATATATTATAATTTTAGTAAATTA-ATATAAGAATA
1 ATTATAT-TTA-AATTTTATTAAATTATATATAAGAATA
* * *
27074527 ATTATATTAAGAATTTTATTAAATTATATTTAATAATA
1 ATTATATTTA-AATTTTATTAAATTATATATAAGAATA
27074565 ATTAT-TTTAAATTATTATTAAATTAT
1 ATTATATTTAAATT-TTATTAAATTAT
27074591 TTATTATTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
36 4 0.07
37 31 0.55
38 21 0.38
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (37 bp):
ATTATATTTAAATTTTATTAAATTATATATAAGAATA
Found at i:27074587 original size:11 final size:11
Alignment explanation
Indices: 27074564--27074596 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
27074554 ATTTAATAAT
27074564 AATTATT-TTA
1 AATTATTATTA
27074574 AATTATTATTA
1 AATTATTATTA
27074585 AATTATTTATTA
1 AATTA-TTATTA
27074597 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 8 0.38
12 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTATTATTA
Found at i:27074767 original size:16 final size:16
Alignment explanation
Indices: 27074748--27074800 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
27074738 TTGAATTACT
* *
27074748 ATTATGCCTATATTCC
1 ATTACGCCTCTATTCC
27074764 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
27074780 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
27074796 ATTAC
1 ATTAC
27074801 AGCGAACCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:27075457 original size:32 final size:32
Alignment explanation
Indices: 27075396--27075457 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
27075386 ATTATATTAA
**
27075396 TTTAAATTTTTTTGAATAATTTTATTATAAGT
1 TTTAAATTTTTTTGAATAATAATATTATAAGT
*
27075428 TTTAATTTTTTTTGAA-AATAATATCTATAA
1 TTTAAATTTTTTTGAATAATAATAT-TATAA
27075458 TTATCTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (32 bp):
TTTAAATTTTTTTGAATAATAATATTATAAGT
Found at i:27097889 original size:18 final size:17
Alignment explanation
Indices: 27097866--27097924 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
27097856 AGGAAAGGAG
27097866 AAGAAAAAAATGGAAGAA
1 AAGAAAAAAA-GGAAGAA
* *
27097884 AAGAAAAGAAGGGAGAA
1 AAGAAAAAAAGGAAGAA
* * *
27097901 AAGAGAGAAAGGAAAAA
1 AAGAAAAAAAGGAAGAA
27097918 TAAGAAA
1 -AAGAAA
27097925 GTGGAAAGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 18 0.56
18 14 0.44
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.03
Consensus pattern (17 bp):
AAGAAAAAAAGGAAGAA
Found at i:27097982 original size:17 final size:19
Alignment explanation
Indices: 27097945--27097984 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
27097935 AAAAAAGAAG
*
27097945 AAAAAGGGGAAGATAGTGA
1 AAAAAGGGGAAGATAGAGA
27097964 AAAAAGGGGAA-A-AGAGA
1 AAAAAGGGGAAGATAGAGA
27097981 AAAA
1 AAAA
27097985 TATAAGCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (19 bp):
AAAAAGGGGAAGATAGAGA
Found at i:27098072 original size:25 final size:27
Alignment explanation
Indices: 27098017--27098072 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
27098007 TGCCATATTT
*
27098017 TATAATTCTTATAATTTTTGAAAATTC
1 TATAATTCTTATAATTTTTGAAAATTA
27098044 TATACATT-TTATAA-TTTT-AAAATTA
1 TATA-ATTCTTATAATTTTTGAAAATTA
27098069 TATA
1 TATA
27098073 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 10 0.37
26 4 0.15
27 10 0.37
28 3 0.11
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (27 bp):
TATAATTCTTATAATTTTTGAAAATTA
Found at i:27098117 original size:20 final size:20
Alignment explanation
Indices: 27098076--27098117 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
27098066 TTATATATTT
*
27098076 TTATTTTAAATGATTTTCTA
1 TTATTTTAAATGATTTTATA
*
27098096 TTATTTTTAAT-ATTTTAATA
1 TTATTTTAAATGATTTT-ATA
27098116 TT
1 TT
27098118 TTTCAGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTATTTTAAATGATTTTATA
Found at i:27098167 original size:7 final size:8
Alignment explanation
Indices: 27098098--27098184 Score: 74
Period size: 8 Copynumber: 10.9 Consensus size: 8
27098088 ATTTTCTATT
27098098 ATTTTT-A
1 ATTTTTAA
27098105 ATATTTTAA
1 AT-TTTTAA
*
27098114 TATTTTT-C
1 -ATTTTTAA
*
27098122 AGTTTTATA
1 ATTTTTA-A
27098131 ATTTTTAA
1 ATTTTTAA
* *
27098139 CAATTCT-A
1 -ATTTTTAA
27098147 ATTTTTAA
1 ATTTTTAA
27098155 ATTTTTAA
1 ATTTTTAA
27098163 ATTTTTAA
1 ATTTTTAA
27098171 A-TTTTAA
1 ATTTTTAA
27098178 ATTTTTA
1 ATTTTTA
27098185 TGATTTTTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
7 18 0.28
8 29 0.45
9 15 0.23
10 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (8 bp):
ATTTTTAA
Found at i:27117208 original size:25 final size:25
Alignment explanation
Indices: 27117180--27117335 Score: 76
Period size: 25 Copynumber: 6.2 Consensus size: 25
27117170 TTAAAATCCC
*
27117180 TTGTGGCGTATCATTTGGAAGTACT
1 TTGTGGCGTATCATTTGGAAGCACT
* *
27117205 TTGTGGCGAATTC-TTTGGAAAGCCCT
1 TTGTGGCGTA-TCATTTGG-AAGCACT
*
27117231 TT-TGGCCTATCATTTGGAAAGC-CT
1 TTGTGGCGTATCATTTGG-AAGCACT
* * *
27117255 ATGTGGCGAATTC-TCTGGAAAGC-CT
1 TTGTGGCGTA-TCATTTGG-AAGCACT
* * * *
27117280 TTGTGGTGAATTC-TATGG-AGAACTT
1 TTGTGGCGTA-TCATTTGGAAGCAC-T
*
27117305 TTGTGGCATATCATTTGGAAAGC-CT
1 TTGTGGCGTATCATTTGG-AAGCACT
27117330 TTGTGG
1 TTGTGG
27117336 AGAATTATCT
Statistics
Matches: 103, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
23 2 0.02
24 8 0.08
25 79 0.77
26 12 0.12
27 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (25 bp):
TTGTGGCGTATCATTTGGAAGCACT
Found at i:27117231 original size:50 final size:50
Alignment explanation
Indices: 27117147--27117285 Score: 154
Period size: 50 Copynumber: 2.8 Consensus size: 50
27117137 GAATTATTCT
* ** ** * *
27117147 GAAAGCCTTTGTGATGAATTCTTTTAAAATCCCTTGTGGCGTATCATTTG
1 GAAAGACTTTGTGGCGAATTCTTTGGAAAGCCCTTGTGGCCTATCATTTG
*
27117197 G-AAGTACTTTGTGGCGAATTCTTTGGAAAGCCCTTTTGGCCTATCATTTG
1 GAAAG-ACTTTGTGGCGAATTCTTTGGAAAGCCCTTGTGGCCTATCATTTG
* * * *
27117247 GAAAGCCTATGTGGCGAATTCTCTGGAAAGCCTTTGTGG
1 GAAAGACTTTGTGGCGAATTCTTTGGAAAGCCCTTGTGG
27117286 TGAATTCTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
49 3 0.04
50 68 0.92
51 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (50 bp):
GAAAGACTTTGTGGCGAATTCTTTGGAAAGCCCTTGTGGCCTATCATTTG
Found at i:27117260 original size:75 final size:75
Alignment explanation
Indices: 27117202--27117350 Score: 194
Period size: 75 Copynumber: 2.0 Consensus size: 75
27117192 ATTTGGAAGT
* *
27117202 ACTTTGTGGCGAATTCTTTGGA-AAGCCCTTT-TGGCCTATCATTTGGAAAGCCTATGTGGCGAA
1 ACTTTGTGGCGAATTCTATGGAGAA--CCTTTGTGGCATATCATTTGGAAAGCCTATGTGGCGAA
27117265 TTCTCTGGAAAG
64 TTCTCTGGAAAG
* * * * *
27117277 CCTTTGTGGTGAATTCTATGGAGAACTTTTGTGGCATATCATTTGGAAAGCCTTTGTGGAGAATT
1 ACTTTGTGGCGAATTCTATGGAGAACCTTTGTGGCATATCATTTGGAAAGCCTATGTGGCGAATT
*
27117342 ATCTGGAAA
66 CTCTGGAAA
27117351 TTATTTGTGG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
74 4 0.06
75 58 0.91
76 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (75 bp):
ACTTTGTGGCGAATTCTATGGAGAACCTTTGTGGCATATCATTTGGAAAGCCTATGTGGCGAATT
CTCTGGAAAG
Found at i:27117348 original size:25 final size:25
Alignment explanation
Indices: 27117245--27117350 Score: 90
Period size: 25 Copynumber: 4.2 Consensus size: 25
27117235 GCCTATCATT
* * *
27117245 TGGAAAGCCTATGTGGCGAATTCTC
1 TGGAAAGCCTTTGTGGAGAATTATC
* * *
27117270 TGGAAAGCCTTTGTGGTGAATTCTA
1 TGGAAAGCCTTTGTGGAGAATTATC
* * * *
27117295 TGGAGAA-CTTTTGTGGCA-TATCATT
1 TGGA-AAGCCTTTGTGG-AGAATTATC
27117320 TGGAAAGCCTTTGTGGAGAATTATC
1 TGGAAAGCCTTTGTGGAGAATTATC
27117345 TGGAAA
1 TGGAAA
27117351 TTATTTGTGG
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
24 3 0.05
25 59 0.92
26 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.33
Consensus pattern (25 bp):
TGGAAAGCCTTTGTGGAGAATTATC
Found at i:27118894 original size:11 final size:11
Alignment explanation
Indices: 27118878--27118906 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
27118868 GATATACATA
27118878 AAGAATAAGAC
1 AAGAATAAGAC
27118889 AAGAATAAGAC
1 AAGAATAAGAC
27118900 AAGAATA
1 AAGAATA
27118907 GAGTTTAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.66, C:0.07, G:0.17, T:0.10
Consensus pattern (11 bp):
AAGAATAAGAC
Found at i:27119336 original size:21 final size:21
Alignment explanation
Indices: 27119310--27119363 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
27119300 ACTTCAAAGG
27119310 TGTGTCGCGACATCCCTTGGT
1 TGTGTCGCGACATCCCTTGGT
*
27119331 TGTGTCGCGATATCCCTTGGT
1 TGTGTCGCGACATCCCTTGGT
27119352 TGTGTCGCGACA
1 TGTGTCGCGACA
27119364 CCAAAGGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.11, C:0.26, G:0.30, T:0.33
Consensus pattern (21 bp):
TGTGTCGCGACATCCCTTGGT
Found at i:27121995 original size:19 final size:19
Alignment explanation
Indices: 27121971--27122008 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27121961 ATCGCGGTTC
27121971 AGTGTCATGACACACTATG
1 AGTGTCATGACACACTATG
*
27121990 AGTGTCATGACACAGTATG
1 AGTGTCATGACACACTATG
27122009 TAATTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (19 bp):
AGTGTCATGACACACTATG
Found at i:27133049 original size:10 final size:10
Alignment explanation
Indices: 27133034--27133073 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
27133024 TCGAAAATAA
*
27133034 AAAATTAATC
1 AAAATTAATT
27133044 AAAATTAATTAT
1 AAAATTAA-T-T
27133056 AAAATTAATT
1 AAAATTAATT
27133066 AAAATTAA
1 AAAATTAA
27133074 ACATGTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 17 0.63
11 2 0.07
12 8 0.30
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:27136703 original size:22 final size:19
Alignment explanation
Indices: 27136664--27136705 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
27136654 TGCAAAGTTG
27136664 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
27136683 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
27136705 A
1 A
27136706 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:27136827 original size:30 final size:30
Alignment explanation
Indices: 27136769--27136827 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27136759 CTTTTGAAAA
* * *
27136769 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACACCAAAATTTTAG
27136799 TATTTACAAAAAGAG-CAACCAAAATTTTA
1 TATTTACAAAAAGAGAC-ACCAAAATTTTA
27136828 AAATAGTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
TATTTACAAAAAGAGACACCAAAATTTTAG
Found at i:27151894 original size:25 final size:25
Alignment explanation
Indices: 27151862--27151920 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
27151852 ATGAACGATA
*
27151862 AACGGTAAGTTCCTCCGAGTTGAAT
1 AACGGTAAGTTCCTCCGAGCTGAAT
*
27151887 AACGGTAAGTTTCTCCGAGCTGAAT
1 AACGGTAAGTTCCTCCGAGCTGAAT
*
27151912 AACGATAAG
1 AACGGTAAG
27151921 CTCATACAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (25 bp):
AACGGTAAGTTCCTCCGAGCTGAAT
Found at i:27151932 original size:25 final size:25
Alignment explanation
Indices: 27151904--27151951 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
27151894 AGTTTCTCCG
27151904 AGCTGAATAAC-GATAAGCTCATACA
1 AGCTGAATAACAG-TAAGCTCATACA
* *
27151929 AGCTGAGTATCAGTAAGCTCATA
1 AGCTGAATAACAGTAAGCTCATA
27151952 AGAGCTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (25 bp):
AGCTGAATAACAGTAAGCTCATACA
Found at i:27153834 original size:21 final size:22
Alignment explanation
Indices: 27153793--27153834 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
27153783 GATTTTTATG
*
27153793 ATTTTCTTTCTTTGTTGTTTTA
1 ATTTTCTTTCTTTGTTATTTTA
27153815 ATTTT-TTTCTTT-TTAATTTT
1 ATTTTCTTTCTTTGTT-ATTTT
27153835 TCTTGTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 11 0.61
22 5 0.28
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (22 bp):
ATTTTCTTTCTTTGTTATTTTA
Found at i:27156575 original size:50 final size:50
Alignment explanation
Indices: 27156512--27156713 Score: 341
Period size: 50 Copynumber: 4.0 Consensus size: 50
27156502 ATGGGATGTC
* * **
27156512 CTCATGTCGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCT
1 CTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
* * *
27156562 CCCATCTCGGTGCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCT
1 CTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
27156612 CTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
1 CTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
27156662 CTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
1 CTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
27156712 CT
1 CT
27156714 TTACCCAAAA
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 142 1.00
ACGTcount: A:0.19, C:0.32, G:0.23, T:0.26
Consensus pattern (50 bp):
CTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT
Found at i:27156830 original size:13 final size:13
Alignment explanation
Indices: 27156809--27156838 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27156799 GCTTGGATCA
27156809 TCATCAAATAAAT
1 TCATCAAATAAAT
*
27156822 TCATGAAATAAAT
1 TCATCAAATAAAT
27156835 TCAT
1 TCAT
27156839 AATTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:27161438 original size:20 final size:20
Alignment explanation
Indices: 27161413--27161453 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27161403 TTAAAAACAC
27161413 TAATTACCAACCTCTTTATT
1 TAATTACCAACCTCTTTATT
*
27161433 TAATTATCAACCTCTTTATT
1 TAATTACCAACCTCTTTATT
27161453 T
1 T
27161454 GTAGATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTACCAACCTCTTTATT
Found at i:27164023 original size:27 final size:27
Alignment explanation
Indices: 27163985--27164040 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
27163975 TAGCATAACA
27163985 ACTTAATTCATCAACATTAAACCATTC
1 ACTTAATTCATCAACATTAAACCATTC
27164012 ACTTAATTCATCAACATTAAACCATTC
1 ACTTAATTCATCAACATTAAACCATTC
27164039 AC
1 AC
27164041 AAGTGATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (27 bp):
ACTTAATTCATCAACATTAAACCATTC
Found at i:27164473 original size:39 final size:39
Alignment explanation
Indices: 27164413--27164562 Score: 165
Period size: 39 Copynumber: 3.8 Consensus size: 39
27164403 GTAAACATGA
* * *
27164413 CACGAAACTGCTATCAGGAGTACCGAAGTACAACAAGGG
1 CACGTAACTGCGATCAGGAGTACCGAAGTACAACAGGGG
* *
27164452 CACGTAACTGCGATCACGAGTACCGAAGCACAACAGGGG
1 CACGTAACTGCGATCAGGAGTACCGAAGTACAACAGGGG
* * * *
27164491 CACGTAAGTGCGATCAGGGGCACTGAAGTACAACAGGGG
1 CACGTAACTGCGATCAGGAGTACCGAAGTACAACAGGGG
** * * * *
27164530 CACGTATGTGTGATTAGGGGTACCAAAGTACAA
1 CACGTAACTGCGATCAGGAGTACCGAAGTACAA
27164563 TAGTTGTCTA
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.34, C:0.22, G:0.29, T:0.15
Consensus pattern (39 bp):
CACGTAACTGCGATCAGGAGTACCGAAGTACAACAGGGG
Found at i:27164510 original size:20 final size:20
Alignment explanation
Indices: 27164485--27164549 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
27164475 CGAAGCACAA
27164485 CAGGGGCACGTAAGTGCGAT
1 CAGGGGCACGTAAGTGCGAT
* *
27164505 CAGGGGCAC-TGAAGTAC-AA
1 CAGGGGCACGT-AAGTGCGAT
* *
27164524 CAGGGGCACGTATGTGTGAT
1 CAGGGGCACGTAAGTGCGAT
*
27164544 TAGGGG
1 CAGGGG
27164550 TACCAAAGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.26, C:0.17, G:0.40, T:0.17
Consensus pattern (20 bp):
CAGGGGCACGTAAGTGCGAT
Found at i:27164529 original size:19 final size:18
Alignment explanation
Indices: 27164475--27164533 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 18
27164465 TCACGAGTAC
*
27164475 CGAAGCACAACAGGGGCA
1 CGAAGTACAACAGGGGCA
* *
27164493 CGTAAGTGCGATCAGGGGCA
1 CG-AAGTAC-AACAGGGGCA
27164513 CTGAAGTACAACAGGGGCA
1 C-GAAGTACAACAGGGGCA
27164532 CG
1 CG
27164534 TATGTGTGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.09
19 14 0.42
20 15 0.45
21 1 0.03
ACGTcount: A:0.32, C:0.24, G:0.36, T:0.08
Consensus pattern (18 bp):
CGAAGTACAACAGGGGCA
Found at i:27168738 original size:16 final size:16
Alignment explanation
Indices: 27168719--27168750 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27168709 TAAGTTGAAC
27168719 GAAATATAAGGTAAGT
1 GAAATATAAGGTAAGT
27168735 GAAATATAAGGTAAGT
1 GAAATATAAGGTAAGT
27168751 ATTATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (16 bp):
GAAATATAAGGTAAGT
Found at i:27168861 original size:37 final size:36
Alignment explanation
Indices: 27168801--27168892 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 36
27168791 ATATGTGTGG
* *
27168801 AATTGAAATGAATAT-TGACTTGAAAATGGAAAAGTGA
1 AATTGAATTGAA-ATGTGA-TTGAAAATGAAAAAGTGA
*
27168838 AATTTGAATT-AAATTGTGATTGAAAGTGAAAAAGTGA
1 AA-TTGAATTGAAA-TGTGATTGAAAATGAAAAAGTGA
27168875 AATTGAATTGAAATGTGA
1 AATTGAATTGAAATGTGA
27168893 ATTTGGAGAC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
36 13 0.27
37 26 0.54
38 9 0.19
ACGTcount: A:0.47, C:0.01, G:0.22, T:0.30
Consensus pattern (36 bp):
AATTGAATTGAAATGTGATTGAAAATGAAAAAGTGA
Found at i:27173704 original size:39 final size:39
Alignment explanation
Indices: 27173647--27173752 Score: 149
Period size: 39 Copynumber: 2.7 Consensus size: 39
27173637 CATGGCACGA
* * * *
27173647 AAGTGCTATCAAGAGTACCGAAGTACAATAGGGGCACGT
1 AAGTGCAATCAGGGGTACCGAAGTACAATAGGGGCACCT
*
27173686 AAGTGCAATCAGTGGTACCGAAGTACAATAGGGGCACCT
1 AAGTGCAATCAGGGGTACCGAAGTACAATAGGGGCACCT
* *
27173725 AAGTGCGATCAGGGGTACCTAAGTACAA
1 AAGTGCAATCAGGGGTACCGAAGTACAA
27173753 CAGTTATCTA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (39 bp):
AAGTGCAATCAGGGGTACCGAAGTACAATAGGGGCACCT
Found at i:27173714 original size:20 final size:20
Alignment explanation
Indices: 27173661--27173752 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
27173651 GCTATCAAGA
27173661 GTACCGAAGTACAAT-AGGG
1 GTACCGAAGTACAATCAGGG
* * *
27173680 GCA-CGTAAGTGCAATCAGTG
1 GTACCG-AAGTACAATCAGGG
27173700 GTACCGAAGTACAAT-AGGG
1 GTACCGAAGTACAATCAGGG
* * * *
27173719 GCACCTAAGTGCGATCAGGG
1 GTACCGAAGTACAATCAGGG
*
27173739 GTACCTAAGTACAA
1 GTACCGAAGTACAA
27173753 CAGTTATCTA
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
18 2 0.04
19 24 0.43
20 28 0.50
21 2 0.04
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (20 bp):
GTACCGAAGTACAATCAGGG
Found at i:27187658 original size:27 final size:27
Alignment explanation
Indices: 27187612--27187679 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
27187602 GCTGCTGGAT
*
27187612 GAGGGTAAAACGACTCTAATGCCCCTA
1 GAGGGTAAAATGACTCTAATGCCCCTA
27187639 GAGGGTAAAATGAC-CGTAATGCCCCTA
1 GAGGGTAAAATGACTC-TAATGCCCCTA
27187666 GAGGGT-AAATGACT
1 GAGGGTAAAATGACT
27187680 ATTTTGCCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
26 8 0.21
27 30 0.79
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (27 bp):
GAGGGTAAAATGACTCTAATGCCCCTA
Found at i:27187687 original size:26 final size:26
Alignment explanation
Indices: 27187628--27187703 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
27187618 AAAACGACTC
*
27187628 TAATGCCCCTAGAGGGTAAAATGACCG
1 TAATGCCCCTAGAGGGT-AAATGACCA
*
27187655 TAATGCCCCTAGAGGGTAAATGACTA
1 TAATGCCCCTAGAGGGTAAATGACCA
** * *
27187681 TTTTGCCCCTCGAGGTTAAATGA
1 TAATGCCCCTAGAGGGTAAATGA
27187704 TTGATTTGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 26 0.60
27 17 0.40
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (26 bp):
TAATGCCCCTAGAGGGTAAATGACCA
Found at i:27187775 original size:24 final size:24
Alignment explanation
Indices: 27187696--27187781 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
27187686 CCCCTCGAGG
* *
27187696 TTAAATGATTGATTTGTCCGTG-A
1 TTAAATGACTGATTTGTCTGTGAA
* *
27187719 TGAAAATGACTGATTTGTCTGTGAT
1 T-TAAATGACTGATTTGTCTGTGAA
* *
27187744 TTAAATGACTGTTTTGTTTGTGAA
1 TTAAATGACTGATTTGTCTGTGAA
**
27187768 TTGTATGACTGATT
1 TTAAATGACTGATT
27187782 CTGAGCATGG
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
23 1 0.02
24 48 0.96
25 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAA
Found at i:27188008 original size:32 final size:32
Alignment explanation
Indices: 27187972--27188110 Score: 143
Period size: 32 Copynumber: 4.3 Consensus size: 32
27187962 GCTTTATACT
* *
27187972 GATCATATTACCGTTACTGATAGCTGTGTGCC
1 GATCATATTACCGCTACTGATGGCTGTGTGCC
* * * *
27188004 GATCATATCACTGCTACTGATGGCTTTCTGCC
1 GATCATATTACCGCTACTGATGGCTGTGTGCC
* * *
27188036 TATCATATTACCGTTACTGATGGATGTGTGCC
1 GATCATATTACCGCTACTGATGGCTGTGTGCC
* * ** *
27188068 GGTCATATCACTACTACTGATGGCTTTGTGCC
1 GATCATATTACCGCTACTGATGGCTGTGTGCC
*
27188100 AATCATATTAC
1 GATCATATTAC
27188111 TATATTTATG
Statistics
Matches: 83, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 83 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (32 bp):
GATCATATTACCGCTACTGATGGCTGTGTGCC
Found at i:27188029 original size:64 final size:64
Alignment explanation
Indices: 27187956--27188110 Score: 213
Period size: 64 Copynumber: 2.4 Consensus size: 64
27187946 TGCGATGATG
* *
27187956 CTGATGGCTTTAT-ACTGATCATATTACCGTTACTGATAGCTGTGTGCCGATCATATCACTGCTA
1 CTGATGGCTTTATGACT-ATCATATTACCGTTACTGATAGATGTGTGCCGATCATATCACTACTA
* * * *
27188020 CTGATGGCTTTCTGCCTATCATATTACCGTTACTGATGGATGTGTGCCGGTCATATCACTACTA
1 CTGATGGCTTTATGACTATCATATTACCGTTACTGATAGATGTGTGCCGATCATATCACTACTA
* * *
27188084 CTGATGGCTTTGTGCCAATCATATTAC
1 CTGATGGCTTTATGACTATCATATTAC
27188111 TATATTTATG
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
64 80 0.98
65 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (64 bp):
CTGATGGCTTTATGACTATCATATTACCGTTACTGATAGATGTGTGCCGATCATATCACTACTA
Found at i:27188381 original size:28 final size:28
Alignment explanation
Indices: 27188335--27188396 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
27188325 ATTACATTGT
* * *
27188335 ACTGATACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTATATAGGGCTAAGGCCCAC
*
27188363 ATTGTTACTATATAGGGCTAAGGCCCAC
1 ACTGTTACTATATAGGGCTAAGGCCCAC
27188391 ACTGTT
1 ACTGTT
27188397 TCTACATGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (28 bp):
ACTGTTACTATATAGGGCTAAGGCCCAC
Found at i:27214721 original size:30 final size:30
Alignment explanation
Indices: 27214685--27214775 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
27214675 GCCCGAACGG
* *
27214685 GTAACCTTGATATAATTTCATCTTGTGTGA
1 GTAACCTTGATATAATGTCAACTTGTGTGA
*
27214715 GTAACCTTGATATAATGTCAGCTTGTGTGA
1 GTAACCTTGATATAATGTCAACTTGTGTGA
* * *
27214745 GCAACCCTAATATAATGTCAACTTGTGTGA
1 GTAACCTTGATATAATGTCAACTTGTGTGA
27214775 G
1 G
27214776 CAACTTAGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (30 bp):
GTAACCTTGATATAATGTCAACTTGTGTGA
Found at i:27217674 original size:22 final size:22
Alignment explanation
Indices: 27217620--27217674 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
27217610 AATTTAAAAC
* * *
27217620 AATATCTTATATATGAAATAAT
1 AATATATTATAAATAAAATAAT
* *
27217642 AATGTACTATAAATAAAATAAT
1 AATATATTATAAATAAAATAAT
*
27217664 AATATTTTATA
1 AATATATTATA
27217675 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (22 bp):
AATATATTATAAATAAAATAAT
Found at i:27222900 original size:19 final size:19
Alignment explanation
Indices: 27222871--27222955 Score: 70
Period size: 19 Copynumber: 4.6 Consensus size: 19
27222861 AAAAAATTTT
27222871 AATAT-TAAAAATTAGAAA
1 AATATATAAAAATTAGAAA
* *
27222889 AATATATAAAAA-TCGTAA
1 AATATATAAAAATTAGAAA
**
27222907 AATATATAAAAATTTTAAA
1 AATATATAAAAATTAGAAA
* *
27222926 ATTTTATAAAAATCATA-AAA
1 AATATATAAAAAT--TAGAAA
27222946 AAT-TATAAAA
1 AATATATAAAA
27222956 CATATAGTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
18 21 0.39
19 27 0.50
20 5 0.09
21 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AATATATAAAAATTAGAAA
Found at i:27222900 original size:20 final size:18
Alignment explanation
Indices: 27222871--27222919 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
27222861 AAAAAATTTT
27222871 AATAT-TAAAAATTAGAAA
1 AATATATAAAAA-TAGAAA
* *
27222889 AATATATAAAAATCGTAA
1 AATATATAAAAATAGAAA
27222907 AATATATAAAAAT
1 AATATATAAAAAT
27222920 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 22 0.79
19 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
AATATATAAAAATAGAAA
Found at i:27223261 original size:39 final size:38
Alignment explanation
Indices: 27223179--27223261 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 38
27223169 GGGTCGTTAA
* ** *
27223179 ATTTTGTATGATTTTTATAAAATTTTACAATTTTTTTT
1 ATTTTTTATGATTTTTATAAAAAATTACAATTTTTTAT
27223217 ATTTTTTATGATTTTTATAAAAAAATT-CTAATTTTTTAT
1 ATTTTTTATGATTTTTAT-AAAAAATTAC-AATTTTTTAT
27223256 ATTTTT
1 ATTTTT
27223262 ATTAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
38 18 0.46
39 21 0.54
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (38 bp):
ATTTTTTATGATTTTTATAAAAAATTACAATTTTTTAT
Found at i:27223262 original size:38 final size:37
Alignment explanation
Indices: 27223179--27223263 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
27223169 GGGTCGTTAA
** *
27223179 ATTTTGTATGATTTTTATAAAATTTTACAATTTTTTTT
1 ATTTT-TATGATTTTTATAAAAAATTACAATTTTTTAT
27223217 ATTTTTTATGATTTTTATAAAAAAATT-CTAATTTTTTAT
1 A-TTTTTATGATTTTTAT-AAAAAATTAC-AATTTTTTAT
27223256 ATTTTTAT
1 ATTTTTAT
27223264 TAAAATTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 21 0.51
39 20 0.49
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (37 bp):
ATTTTTATGATTTTTATAAAAAATTACAATTTTTTAT
Found at i:27223283 original size:30 final size:30
Alignment explanation
Indices: 27223217--27223282 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
27223207 AATTTTTTTT
*
27223217 ATTTTTTATGATTTTTATAAAAAAATTCTA
1 ATTTTTTATGATTTTTATAAAAAAATTATA
* *
27223247 ATTTTTTAT-ATTTTTAT-TAAAATTTAATA
1 ATTTTTTATGATTTTTATAAAAAAATT-ATA
27223276 ATTTTTT
1 ATTTTTT
27223283 TTCTTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 6 0.19
29 17 0.53
30 9 0.28
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (30 bp):
ATTTTTTATGATTTTTATAAAAAAATTATA
Found at i:27223315 original size:19 final size:19
Alignment explanation
Indices: 27223242--27223315 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 19
27223232 TATAAAAAAA
*
27223242 TTCTAATTTTTTATATTTTTA
1 TTCTAA-TTTTTA-ATTTTTT
** *
27223263 TTAAAATTTAATAATTTTTT
1 TTCTAATTT-TTAATTTTTT
*
27223283 TTCT-TTTTTATAATTTTTT
1 TTCTAATTTT-TAATTTTTT
27223302 TTCTAATTTTTAAT
1 TTCTAATTTTTAAT
27223316 AAAAGCAGGG
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
19 20 0.49
20 15 0.37
21 6 0.15
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TTCTAATTTTTAATTTTTT
Found at i:27223524 original size:95 final size:94
Alignment explanation
Indices: 27223336--27223540 Score: 236
Period size: 95 Copynumber: 2.2 Consensus size: 94
27223326 GATTAATTGC
* * * *
27223336 TTTTCTGAAAAATTTTGAGGGTCTTTTTGATACATTTTGAAAGTTAAAGTACCCAATTGAGTGAA
1 TTTTTTGAAAAAGTTTAAGGGCCTTTTTGATACATTTTGAAAGTTAAAGTACCCAATTGAGTGAA
* *
27223401 AAAAATAAAGTAGAGGCTTAATTTTTTTT
66 AAAAATAAAGGAGAGGCTTAATTGTTTTT
* * * * *
27223430 TTTTTTGGAAGAAGTTTAAGGGCCTTTTTGATGCATTTTGAACA-TTCAAGTGCTCAATTGAGTG
1 TTTTTT-GAAAAAGTTTAAGGGCCTTTTTGATACATTTTGAA-AGTTAAAGTACCCAATTGAGTG
* *
27223494 CAAGAAAA-AGAGGA-AGGACTTAATTGTTTTT
64 -AAAAAAATAAAGGAGAGG-CTTAATTGTTTTT
27223525 TTTTTTGAAAAAGTTT
1 TTTTTTGAAAAAGTTT
27223541 GAGGATTTTT
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
94 17 0.18
95 69 0.74
96 7 0.08
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (94 bp):
TTTTTTGAAAAAGTTTAAGGGCCTTTTTGATACATTTTGAAAGTTAAAGTACCCAATTGAGTGAA
AAAAATAAAGGAGAGGCTTAATTGTTTTT
Found at i:27224374 original size:22 final size:21
Alignment explanation
Indices: 27224349--27224418 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 21
27224339 AAATTCAATA
*
27224349 TCAATTTCCTTCAAAAATTATC
1 TCAA-TTCCTTCAAAAATTCTC
27224371 TCAATTCCGTTCAAAAATTCTC
1 TCAATTCC-TTCAAAAATTCTC
*
27224393 TCAAGTTCCTTCCAAAATTCTC
1 TCAA-TTCCTTCAAAAATTCTC
27224415 TCAA
1 TCAA
27224419 ACTCTCAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.09
22 36 0.82
23 4 0.09
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (21 bp):
TCAATTCCTTCAAAAATTCTC
Found at i:27224424 original size:30 final size:30
Alignment explanation
Indices: 27224390--27224448 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
27224380 TTCAAAAATT
* *
27224390 CTCTCAAGTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAAA
27224420 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
27224449 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.36, G:0.02, T:0.32
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:27224446 original size:52 final size:51
Alignment explanation
Indices: 27224369--27224470 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 51
27224359 TCAAAAATTA
* * *
27224369 TCTCAATTCCGTTCAAAAATTCTCTCAAGTTCCTTCCAAAATTCTCTCAAAC
1 TCTCAATTCCGTTCAAAAATCCTCTCAAGTTCCTTCAAAAAATCTC-CAAAC
* *
27224421 TCTCAAATTCC-TTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 TCTC-AATTCCGTTCAAAAATCCTCTCAAGTTCCTTCAAAAAATCTCCAAA
27224471 TCCATATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
51 4 0.09
52 34 0.77
53 6 0.14
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.33
Consensus pattern (51 bp):
TCTCAATTCCGTTCAAAAATCCTCTCAAGTTCCTTCAAAAAATCTCCAAAC
Found at i:27224459 original size:21 final size:22
Alignment explanation
Indices: 27224420--27224461 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27224410 TTCTCTCAAA
27224420 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
27224442 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
27224462 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:27224556 original size:23 final size:22
Alignment explanation
Indices: 27224517--27224568 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
27224507 TTTTAAGCAA
* *
27224517 ATTTTT-AAAAATTTTTTTATT
1 ATTTTTAAAAAATATTTTTAAT
*
27224538 TTTTTTAAAAAATAATTTTTAAT
1 ATTTTTAAAAAAT-ATTTTTAAT
27224561 ATTTTTAA
1 ATTTTTAA
27224569 TATTTTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 5 0.20
22 6 0.24
23 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTTAAAAAATATTTTTAAT
Found at i:27224694 original size:14 final size:15
Alignment explanation
Indices: 27224665--27224698 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
27224655 AAATTTTAAA
27224665 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
27224680 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
27224694 TTTTA
1 TTTTA
27224699 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:27227294 original size:125 final size:125
Alignment explanation
Indices: 27227030--27227297 Score: 385
Period size: 125 Copynumber: 2.1 Consensus size: 125
27227020 CCACGAGGGC
* * * * *
27227030 GCGATTTGACATTATTTGCTCAGAAACGTCAAAAAAAATTTATTTCCTACATGACCAATTGTAGC
1 GCGATTTCACACTATTTGCTAAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * * **
27227095 GAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCACATAGCATCCTAGTATCA
66 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAAAA
* * *
27227155 GCGATTTTATACTATTTGCTAAGAAAACGTCAAAAAAAAATTATTTCTTACATGACC-ACTGTAG
1 GCGATTTCACACTATTTGCTAAG-AAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAG
*
27227219 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAAAA
65 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAAAA
*
27227280 GCGATTTCCCACTATTTG
1 GCGATTTCACACTATTTG
27227298 ACCAGATACG
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
125 95 0.75
126 31 0.25
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (125 bp):
GCGATTTCACACTATTTGCTAAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAAAA
Found at i:27229549 original size:1 final size:1
Alignment explanation
Indices: 27229545--27229574 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
27229535 CTTTTTCTTC
27229545 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
27229575 GCATTTGGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:27234273 original size:15 final size:15
Alignment explanation
Indices: 27234253--27234284 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27234243 TTAATAGATC
27234253 AACTGTAACGACCCA
1 AACTGTAACGACCCA
27234268 AACTGTAACGACCCA
1 AACTGTAACGACCCA
27234283 AA
1 AA
27234285 TTTTATTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.12
Consensus pattern (15 bp):
AACTGTAACGACCCA
Found at i:27236064 original size:74 final size:74
Alignment explanation
Indices: 27235943--27236096 Score: 281
Period size: 74 Copynumber: 2.1 Consensus size: 74
27235933 AATCAGATAA
* *
27235943 TGAAAGATGAACTTGATATGTTATGTCGTAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
1 TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
27236008 ATAGCTTAG
66 ATAGCTTAG
27236017 TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
1 TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
*
27236082 GTAGCTTAG
66 ATAGCTTAG
27236091 TGAAAG
1 TGAAAG
27236097 GAAATTAAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (74 bp):
TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
ATAGCTTAG
Found at i:27238325 original size:45 final size:45
Alignment explanation
Indices: 27238263--27238379 Score: 153
Period size: 45 Copynumber: 2.6 Consensus size: 45
27238253 CTATATGGCT
* * * * *
27238263 AAAATTAGTCAGACCATAGCTAAAAGATGTTATGGCACCATGTTA
1 AAAATGAGTAAGACCATAGCTGAAAGATATTATGGCACCATGATA
* * *
27238308 AAAATGATTAAGACCATAGCTGAAAGATATTATGGCATCGTGATA
1 AAAATGAGTAAGACCATAGCTGAAAGATATTATGGCACCATGATA
*
27238353 GAAATGAGTAAGACCATAGCTGAAAGA
1 AAAATGAGTAAGACCATAGCTGAAAGA
27238380 CGCTGGCATC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.24
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAAAGATATTATGGCACCATGATA
Found at i:27248481 original size:21 final size:22
Alignment explanation
Indices: 27248456--27248498 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
27248446 GTTGAGAAAA
27248456 TTATTTAATTAAG-AAATTAAT
1 TTATTTAATTAAGTAAATTAAT
27248477 TTATTTAATTAAGTTAAATTAA
1 TTATTTAATTAAG-TAAATTAA
27248499 ACAATATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
23 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
TTATTTAATTAAGTAAATTAAT
Found at i:27251782 original size:23 final size:22
Alignment explanation
Indices: 27251729--27251785 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
27251719 AGGGTCGCAT
* *
27251729 ACAATGTTCGCATGCTAAACAC
1 ACAAGGTTCGCATACTAAACAC
* *
27251751 ATGAGGGTTCGCATACTAAATCAC
1 A-CAAGGTTCGCATACTAAA-CAC
27251775 ACAAGGTTCGC
1 ACAAGGTTCGC
27251786 TTAATAGTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.81
24 4 0.15
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (22 bp):
ACAAGGTTCGCATACTAAACAC
Found at i:27251854 original size:22 final size:23
Alignment explanation
Indices: 27251787--27251870 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
27251777 AAGGTTCGCT
* * **
27251787 TAATAGTTCATACAGGATTCGTA
1 TAATAGTTCATATAGGGTTCACA
*
27251810 TAATAGTTCACATAGGGTTCACA
1 TAATAGTTCATATAGGGTTCACA
*
27251833 TAATAGTTCATATA-TGTTCACA
1 TAATAGTTCATATAGGGTTCACA
* *
27251855 TACTAATTCATATAGG
1 TAATAGTTCATATAGG
27251871 ATTCGCACAT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
22 19 0.38
23 31 0.62
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (23 bp):
TAATAGTTCATATAGGGTTCACA
Found at i:27251922 original size:36 final size:36
Alignment explanation
Indices: 27251850--27251985 Score: 168
Period size: 36 Copynumber: 3.8 Consensus size: 36
27251840 TCATATATGT
*
27251850 TCACATACT-AA-TTCATATAGGATTCGCACATTAAA
1 TCACATACTAAATTTCATA-AGGGTTCGCACATTAAA
*
27251885 TCACATACTAAATTTCATAAGGGTTCACACATTAAA
1 TCACATACTAAATTTCATAAGGGTTCGCACATTAAA
* * *
27251921 TCACATACTAAATTTCATGAGGGTTCGCATACTAAA
1 TCACATACTAAATTTCATAAGGGTTCGCACATTAAA
* * * *
27251957 TCTCATACTAAAGTACATGAGGGTTCGCA
1 TCACATACTAAATTTCATAAGGGTTCGCA
27251986 TGCTCATATA
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
35 9 0.10
36 75 0.83
37 6 0.07
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (36 bp):
TCACATACTAAATTTCATAAGGGTTCGCACATTAAA
Found at i:27251986 original size:36 final size:36
Alignment explanation
Indices: 27251850--27252019 Score: 154
Period size: 36 Copynumber: 4.9 Consensus size: 36
27251840 TCATATATGT
* * * *
27251850 TCACATACT-AATT-CATATAGGATTCGCACATTAAA
1 TCACATACTAAATTACAT-GAGGGTTCGCATACTAAA
* * * * *
27251885 TCACATACTAAATTTCATAAGGGTTCACACATTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
*
27251921 TCACATACTAAATTTCATGAGGGTTCGCATACTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * *
27251957 TCTCATACTAAAGTACATGAGGGTTCGCATGC----
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* *
27251989 TCATATACTAAATTACATGAGGGTTCACATA
1 TCACATACTAAATTACATGAGGGTTCGCATA
27252020 AAGTTCTCAT
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
32 26 0.22
35 9 0.08
36 79 0.68
37 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (36 bp):
TCACATACTAAATTACATGAGGGTTCGCATACTAAA
Found at i:27252163 original size:24 final size:24
Alignment explanation
Indices: 27252134--27252190 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
27252124 ATTTATTAAG
27252134 GGGTTCGCACAACAATT-CACATAA
1 GGGTTCGCACAACAATTAC-CATAA
**
27252158 GGGTTCGCAGTACAATTACCATAA
1 GGGTTCGCACAACAATTACCATAA
*
27252182 GAGTTCGCA
1 GGGTTCGCA
27252191 TAATAGCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (24 bp):
GGGTTCGCACAACAATTACCATAA
Done.