Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 17 of 189
Found at i:5582867 original size:6 final size:6
Alignment explanation
Indices: 5582858--5582882 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5582848 AATAAAAAAA
5582858 ATCAAT ATCAAT ATCAAT ATCAAT A
1 ATCAAT ATCAAT ATCAAT ATCAAT A
5582883 CATCAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATCAAT
Found at i:5587075 original size:4 final size:4
Alignment explanation
Indices: 5587066--5587093 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
5587056 AACCATAATA
5587066 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
5587094 CAGTTTCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:5592643 original size:20 final size:22
Alignment explanation
Indices: 5592620--5592659 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5592610 ATATCATATT
5592620 TTTAAAT-AATT-TTAAAATTA
1 TTTAAATAAATTATTAAAATTA
*
5592640 TTTATATAAATTATTAAAAT
1 TTTAAATAAATTATTAAAAT
5592660 ATAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAATAAATTATTAAAATTA
Found at i:5598604 original size:18 final size:19
Alignment explanation
Indices: 5598581--5598616 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
5598571 TATTTTTGAA
5598581 ATTAAAAAAATT-AAAATT
1 ATTAAAAAAATTCAAAATT
5598599 ATTAAAAAAATTCAAAAT
1 ATTAAAAAAATTCAAAAT
5598617 AAACATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTAAAAAAATTCAAAATT
Found at i:5605776 original size:22 final size:21
Alignment explanation
Indices: 5605749--5605790 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5605739 CAAATTAGAA
* *
5605749 TAAAATTAACATTTATTGTTT
1 TAAAAATAACATCTATTGTTT
*
5605770 TAAAAATAGCATCTATTGTTT
1 TAAAAATAACATCTATTGTTT
5605791 AGCAAAATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAAAATAACATCTATTGTTT
Found at i:5627216 original size:20 final size:20
Alignment explanation
Indices: 5627191--5627242 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
5627181 AACAGACTTA
*
5627191 ATTTAATATATATTTTAATT
1 ATTTAATATATATTTAAATT
*
5627211 ATTTAAAATATATTTAAATT
1 ATTTAATATATATTTAAATT
5627231 -TTATAATATATA
1 ATT-TAATATATA
5627243 AAATAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTAATATATATTTAAATT
Found at i:5627233 original size:18 final size:19
Alignment explanation
Indices: 5627191--5627241 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
5627181 AACAGACTTA
* *
5627191 ATTTAATATATATTTTAATT
1 ATTTAAAATATA-TTTAAAT
5627211 ATTTAAAATATATTTAAAT
1 ATTTAAAATATATTTAAAT
*
5627230 -TTTATAATATAT
1 ATTTAAAATATAT
5627242 AAAATAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 11 0.39
19 6 0.21
20 11 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTAAAATATATTTAAAT
Found at i:5629689 original size:24 final size:25
Alignment explanation
Indices: 5629656--5629715 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
5629646 ATTGAGTAGG
5629656 TATAT-TAAACAA-GT-TAATATATA
1 TATATATAAACAATGTATAATA-ATA
5629679 TATATATAAACAATTGTATAATAATA
1 TATATATAAACAA-TGTATAATAATA
5629705 TAT-TA-AAACAA
1 TATATATAAACAA
5629716 ATATATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
23 5 0.15
24 13 0.39
25 2 0.06
26 8 0.24
27 5 0.15
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (25 bp):
TATATATAAACAATGTATAATAATA
Found at i:5629788 original size:3 final size:3
Alignment explanation
Indices: 5629753--5629833 Score: 58
Period size: 3 Copynumber: 26.3 Consensus size: 3
5629743 ATAAGAAAAC
* * * * *
5629753 ATA ATA CTA ACA ATA GTA TTA ATA A-A TATA ATA ATA ATA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
*
5629797 GATA ATA ATG ATA ATA ATA ATA ACTAA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA A
5629834 ATTGCTAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
2 2 0.03
3 53 0.87
4 4 0.07
5 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:5631452 original size:44 final size:45
Alignment explanation
Indices: 5631297--5631725 Score: 182
Period size: 44 Copynumber: 9.8 Consensus size: 45
5631287 GGTTTTAGTT
* * * * * **
5631297 TGCTCCACTGCAATGTTAGGGAGATAAAAT-CTGAAATTCCTCGGTC
1 TGCTCCACTGTAATCTCAGGGAGATAAGATCCTGATATT--TCAATC
* * *
5631343 TGTTCCACAGTAATCTCAGGGAGATAAGA-CCTG--A-TGCAATC
1 TGCTCCACTGTAATCTCAGGGAGATAAGATCCTGATATTTCAATC
* ** * * * *
5631384 TACTCTGCTGTAA-CTTTAGAGAGATAAGATCCT-TTATTTTAATC
1 TGCTCCACTGTAATC-TCAGGGAGATAAGATCCTGATATTTCAATC
* * * * *
5631428 CGCTCCACTGTAATCTTAGGGAGATAGGAT--T-ACTAGCTTCGATC
1 TGCTCCACTGTAATCTCAGGGAGATAAGATCCTGA-TA-TTTCAATC
* * **
5631472 TGCTCCACTGTAATCTCAGGGAGATAACAT-CTGAAATTCTTCGGTC
1 TGCTCCACTGTAATCTCAGGGAGATAAGATCCTGATA-T-TTCAATC
* * * * *
5631518 TGTTCCTCTGTAATCTCAGGGAAATAAGA-CCTGGTA---CGATC
1 TGCTCCACTGTAATCTCAGGGAGATAAGATCCTGATATTTCAATC
* * * * *
5631559 TACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATTTTAATC
1 TGCTCCACTGTAATC-TCAGGGAGATAAGATCCTGATATTTCAATC
* * *
5631603 CGCTCCACTGTAATCTCAGGGAGATAGGATTACT-ATA-TTCAATC
1 TGCTCCACTGTAATCTCAGGGAGATAAGA-TCCTGATATTTCAATC
* * **
5631647 TGCTTCGCTGTAATCTCAGGGAGATAAGAT-CTGCA-ATTCTTCGGTC
1 TGCTCCACTGTAATCTCAGGGAGATAAGATCCTG-ATA-T-TTCAATC
* * *
5631693 TGTTCCACCGTAATCTCAGGGAAATAAGA-CCTG
1 TGCTCCACTGTAATCTCAGGGAGATAAGATCCTG
5631726 GTGCGATCTA
Statistics
Matches: 286, Mismatches: 71, Indels: 52
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.01
41 50 0.17
42 9 0.03
43 6 0.02
44 116 0.41
45 9 0.03
46 94 0.33
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (45 bp):
TGCTCCACTGTAATCTCAGGGAGATAAGATCCTGATATTTCAATC
Found at i:5631588 original size:175 final size:175
Alignment explanation
Indices: 5631297--5631764 Score: 729
Period size: 175 Copynumber: 2.7 Consensus size: 175
5631287 GGTTTTAGTT
* * * *
5631297 TGCTCCACTGCAATGTTAGGGAGATAAAATCTGAAATTCCTCGGTCTGTTCCACAGTAATCTCAG
1 TGCTCCACTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTGTTCCACAGTAATCTCAG
* * * * *
5631362 GGAGATAAGACCTGATGCAATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAAT
66 GGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
* * *
5631427 CCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCGATC
131 CCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGATTCAATC
* * *
5631472 TGCTCCACTGTAATCTCAGGGAGATAACATCTGAAATTCTTCGGTCTGTTCCTCTGTAATCTCAG
1 TGCTCCACTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTGTTCCACAGTAATCTCAG
*
5631537 GGAAATAAGACCTGGTACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
66 GGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
*
5631602 CCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATATTCAATC
131 CCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGATTCAATC
* * * * *
5631647 TGCTTCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACCGTAATCTCAG
1 TGCTCCACTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTGTTCCACAGTAATCTCAG
*
5631712 GGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAAAGATAAGATC
66 GGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
5631765 ATTTCTTCAA
Statistics
Matches: 268, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
175 268 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (175 bp):
TGCTCCACTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTGTTCCACAGTAATCTCAG
GGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
CCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGATTCAATC
Found at i:5631878 original size:87 final size:87
Alignment explanation
Indices: 5631768--5632026 Score: 331
Period size: 87 Copynumber: 3.0 Consensus size: 87
5631758 TAAGATCATT
* * * **
5631768 TCTTCAATCAGCTTCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAA
1 TCTTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGTTTTCGATCTGCTTCACTGTTAA
5631833 CGCAGGAAGGCAAGATCTGCTA
66 CGCAGGAAGGCAAGATCTGCTA
* * *
5631855 TCTTCAATCAGCTCCACTACAACCGATGGAGACAATGCTTTGTTTTCAATCTGCTTCACTGTTAA
1 TCTTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGTTTTCGATCTGCTTCACTGTTAA
* *
5631920 CGCAGGAAGGCCAGATTTGCTA
66 CGCAGGAAGGCAAGATCTGCTA
* * * * *
5631942 TCATCAACCAGTTCCACCGCAACCGATGGAGACAAAGC-TTGTATCTTCGATCTGCTTCACTGTC
1 TCTTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGT-T-TTCGATCTGCTTCACTGTT
* * *
5632006 AAGGTAGGAAGACAAGATCTG
64 AACGCAGGAAGGCAAGATCTG
5632027 TTGTCTTTGA
Statistics
Matches: 148, Mismatches: 22, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
86 4 0.03
87 111 0.75
88 33 0.22
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (87 bp):
TCTTCAATCAGCTCCACTGCAACCGATGGAGACAAAGCTTTGTTTTCGATCTGCTTCACTGTTAA
CGCAGGAAGGCAAGATCTGCTA
Found at i:5633183 original size:21 final size:21
Alignment explanation
Indices: 5633157--5633203 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
5633147 GGTATAGCAG
5633157 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
5633178 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
5633199 GATCA
1 GATCA
5633204 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:5633332 original size:12 final size:10
Alignment explanation
Indices: 5633297--5633331 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
5633287 CCATTTTTAC
5633297 TTTTTCA-TT
1 TTTTTCATTT
5633306 TTTTTCATTT
1 TTTTTCATTT
5633316 TTTTTCATCTT
1 TTTTTCAT-TT
5633327 TTTTT
1 TTTTT
5633332 TGACTCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.29
10 10 0.42
11 7 0.29
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:5634228 original size:1 final size:1
Alignment explanation
Indices: 5634222--5634265 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
5634212 GATTGATTTG
* * * *
5634222 TTTTTTTTATTTTTTATTTTTTTTATTTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5634266 GAGTCTGAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.07, C:0.02, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:5634236 original size:9 final size:9
Alignment explanation
Indices: 5634222--5634263 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
5634212 GATTGATTTG
5634222 TTTTTTTTA
1 TTTTTTTTA
5634231 --TTTTTTA
1 TTTTTTTTA
5634238 TTTTTTTTA
1 TTTTTTTTA
*
5634247 TTTTTTTTC
1 TTTTTTTTA
5634256 TTTTTTTT
1 TTTTTTTT
5634264 TTGAGTCTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 7 0.23
9 23 0.77
ACGTcount: A:0.07, C:0.02, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:5634243 original size:16 final size:15
Alignment explanation
Indices: 5634222--5634265 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
5634212 GATTGATTTG
5634222 TTTTTTTTATTTTTT
1 TTTTTTTTATTTTTT
5634237 ATTTTTTTTATTTTTT
1 -TTTTTTTTATTTTTT
5634253 TTCTTTTTT-TTTT
1 TT-TTTTTTATTTT
5634266 GAGTCTGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.22
16 21 0.78
ACGTcount: A:0.07, C:0.02, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTTTTTATTTTTT
Found at i:5638900 original size:3 final size:3
Alignment explanation
Indices: 5638892--5638945 Score: 56
Period size: 3 Copynumber: 17.3 Consensus size: 3
5638882 ATTAATAAAT
* *
5638892 ATA ATA ATA ATA GTA A-A GATA ATA ATG ATA ATA ATA ATA ACTAA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-T-A ATA
5638939 ATA ATA A
1 ATA ATA A
5638946 ATTGCTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 1 0.02
3 37 0.86
4 3 0.07
5 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5638940 original size:11 final size:10
Alignment explanation
Indices: 5638884--5638947 Score: 57
Period size: 9 Copynumber: 6.8 Consensus size: 10
5638874 ACAATAGTAT
5638884 TAATAAAT-A
1 TAATAAATAA
5638893 TAAT-AATAA
1 TAATAAATAA
* *
5638902 TAGTAAA-GA
1 TAATAAATAA
*
5638911 TAAT-AATGA
1 TAATAAATAA
5638920 TAAT-AATAA
1 TAATAAATAA
5638929 TAACTAAATAA
1 TAA-TAAATAA
5638940 TAATAAAT
1 TAATAAAT
5638948 TGCTAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
8 5 0.11
9 25 0.54
10 8 0.17
11 8 0.17
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (10 bp):
TAATAAATAA
Found at i:5641300 original size:114 final size:113
Alignment explanation
Indices: 5641130--5641731 Score: 841
Period size: 114 Copynumber: 5.3 Consensus size: 113
5641120 AAAATAAGCA
5641130 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
* ** *
5641194 TTGTTGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
5641243 TTAGCGGCGTTTTTGAGGAAGCGCCGCCAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
*** * *
5641308 TCATTGATTTAGTGGCATTTTTAAGAAAGCGCCGCTAATGCTCATGGCT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * * *
5641357 TTAGCGGTGTTTTTGAGAAAGCACCGCAAAAAAACCTTAGCCCAACGATGCCGTTTTGTGAGCTC
1 TTAGCGGCGTTTTTG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
* *
5641422 TCGGGGATTTAGTGGCGCTTTCATA-AAAGCGCCGCTAATGCTCAGGGCT
65 TCGGGGATTTAGTGGCGTTTTTA-AGAAAGCGCCGCTAATGCTCAGGGCT
5641471 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTT-GGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTT
* * *
5641536 TCGGGGATTTA-CGGCGTTTTTAGGAAAGCGCCGCTAATGCTCAGGACT
65 TCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
5641584 TTAGCGGCGTTTTTGGCAAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTCTAAGCT
1 TTAGCGGCGTTTTTGG--AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
** * **
5641649 TTCAAGGATTTAGTGGCGTTTTTATGAAAGCGCCGCTAATGCTCAGGTTT
64 TTCGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
*
5641699 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAAAAA
1 TTAGCGGCGTTTTT-GGAAAGCGCCGCAAAAAA
5641732 TATTTTATCT
Statistics
Matches: 441, Mismatches: 40, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
112 2 0.00
113 71 0.16
114 317 0.72
115 49 0.11
116 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCTTT
CGGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:5642005 original size:15 final size:14
Alignment explanation
Indices: 5641976--5642027 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
5641966 CATATTTTAA
* *
5641976 GGTTTATGGAGTAT
1 GGTTTAGGGATTAT
5641990 GAGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
*
5642005 GGATTAGGGATTAT
1 GGTTTAGGGATTAT
*
5642019 GGATTAGGG
1 GGTTTAGGG
5642028 TTTGGTATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.37
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:5642013 original size:14 final size:14
Alignment explanation
Indices: 5641994--5642027 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
5641984 GAGTATGAGT
5641994 TTAGGGATTATGGA
1 TTAGGGATTATGGA
5642008 TTAGGGATTATGGA
1 TTAGGGATTATGGA
5642022 TTAGGG
1 TTAGGG
5642028 TTTGGTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.35
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:5642692 original size:135 final size:143
Alignment explanation
Indices: 5642532--5642926 Score: 454
Period size: 135 Copynumber: 2.7 Consensus size: 143
5642522 TTCAAAATGA
*
5642532 AATAGCGGCATTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAATAAAAAAA
1 AATAGCGGCGTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAATAAAAAAA
*
5642597 TTTTATAACAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAAATTTT-GCGGCG-TTTT-T-A
66 TTTTA-AATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAAATTTTAGCGGCGTTTTTGTAA
5642658 AA-G-G-T-A-AGC
130 AACGCGCTAAGAGC
5642667 AATAGCGGCGTTTTTATAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
1 AATAGCGGCGTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAC-AAATAAAAAA
* * * ** *
5642731 ATTTTAGAATAGCAAAACGACATAATTTTGTTCAAAATG-AAAATTTTTTAGCGGTGTTTTTGTG
65 ATTTTA-AATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAAATTTTAGCGGCGTTTTTGT-
5642795 AAAAACGCCGCTAAAGGTGAGC
128 -AAAACG-CGCT-AA---GAGC
* *
5642817 AATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAA-ATAAAATAA
1 AATAGCGGCGTTTT-TATAAAAACGCCGCAAAAAATAAATCAATTTA-TAAAAAACA-AATA-AA
* *
5642881 AAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGAAA
62 AAAATTTTAA--ATAGCAAAACGGCGTCATTTTGTTCAAAATGAAA
5642927 TAGCGGCGTT
Statistics
Matches: 219, Mismatches: 16, Indels: 30
0.83 0.06 0.11
Matches are distributed among these distances:
134 33 0.15
135 76 0.35
136 4 0.02
137 1 0.00
140 3 0.01
141 1 0.00
143 1 0.00
144 1 0.00
146 1 0.00
150 17 0.08
151 14 0.06
152 21 0.10
153 18 0.08
154 26 0.12
155 2 0.01
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (143 bp):
AATAGCGGCGTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAATAAAAAAA
TTTTAAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAAATTTTAGCGGCGTTTTTGTAAA
ACGCGCTAAGAGC
Found at i:5642977 original size:107 final size:108
Alignment explanation
Indices: 5642817--5643033 Score: 316
Period size: 107 Copynumber: 2.0 Consensus size: 108
5642807 AAAGGTGAGC
*
5642817 AATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATTAAAAAAATAAAAT--A
1 AATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTA-TAAAAAAACAAAATAAA
* * * *
5642880 AAAAATTTTAAGCATAACAAAACGGCGTCATTTTGTTCAAAGTGA
65 AAAAAATTT-AGAATAACAAAACGGCATCATTTTGTTCAAAATGA
*
5642925 AATAGCGGCGTTTT-TATAAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAAACAAAATAAA
1 AATAGCGGCGTTTTGTAT-AAAAACGCCACAAAAAATAAATCAATTTATAAAAAAACAAAATAAA
*
5642988 AAAAAATTTAGAATAGCAAAACGGCATCATTTTGTTCAAAATGA
65 AAAAAATTTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
5643032 AA
1 AA
5643034 ATTTTTTAGG
Statistics
Matches: 99, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
106 13 0.13
107 53 0.54
108 33 0.33
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (108 bp):
AATAGCGGCGTTTTGTATAAAAACGCCACAAAAAATAAATCAATTTATAAAAAAACAAAATAAAA
AAAAATTTAGAATAACAAAACGGCATCATTTTGTTCAAAATGA
Found at i:5643075 original size:124 final size:127
Alignment explanation
Indices: 5642909--5643294 Score: 466
Period size: 136 Copynumber: 3.0 Consensus size: 127
5642899 AAACGGCGTC
* * *
5642909 ATTTTGTTCAAAGTGA--AATAGCGGCGTTTT-TATAAAAAACGCCGCAAAAATAAATCAATTTA
1 ATTTTGTTTAAGGTGAGCAATAGCGGCGTTTTGTAT-AAAAACGCCACAAAAATAAATCAATTTA
*
5642971 -TAAAAAAACAAAATAAAAAAAAATTTAGAATAGCAAAACGGCATCATTTTGTTCAAAATGAAA
65 TTAAAAAAATAAAAT-AAAAAAAATTTAGAATAGCAAAACGGCATCATTTTGTTCAAAATGAAA
*
5643034 A-TTT-TTT-AGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCATAAAAAATAAATCAATTTA
1 ATTTTGTTTAAGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCA-CAAAAATAAATCAATTTA
*
5643096 TTAAAAAAATAAAATAAAAAAAA-TTAAAATAGCAAAACGGCATCATTTTGTTCAAAATGAAA
65 TTAAAAAAATAAAATAAAAAAAATTTAGAATAGCAAAACGGCATCATTTTGTTCAAAATGAAA
*
5643158 ATTTTTTAGCGGCGTTTAAAGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCTACAAAAAATAA
1 A--TTTT------GTTT-AAGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCAC-AAAAATAA
* * * * * *
5643223 ATCTATTTATTAAAAAAATAAAAT-AAAAAATTTTAAGCATAACAAAACGACGTCATTTTGTTCA
56 ATCAATTTATTAAAAAAATAAAATAAAAAAAATTT-AGAATAGCAAAACGGCATCATTTTGTTCA
5643287 AAATGAAA
120 AAATGAAA
5643295 TAATGGCGTT
Statistics
Matches: 226, Mismatches: 15, Indels: 28
0.84 0.06 0.10
Matches are distributed among these distances:
122 5 0.02
123 2 0.01
124 65 0.29
125 29 0.13
126 13 0.06
127 3 0.01
134 3 0.01
135 6 0.03
136 68 0.30
137 32 0.14
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (127 bp):
ATTTTGTTTAAGGTGAGCAATAGCGGCGTTTTGTATAAAAACGCCACAAAAATAAATCAATTTAT
TAAAAAAATAAAATAAAAAAAATTTAGAATAGCAAAACGGCATCATTTTGTTCAAAATGAAA
Found at i:5643117 original size:14 final size:15
Alignment explanation
Indices: 5643098--5643126 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5643088 TCAATTTATT
5643098 AAAAAAA-TAAAATA
1 AAAAAAATTAAAATA
5643112 AAAAAAATTAAAATA
1 AAAAAAATTAAAATA
5643127 GCAAAACGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAATTAAAATA
Found at i:5643315 original size:108 final size:104
Alignment explanation
Indices: 5643191--5643398 Score: 258
Period size: 104 Copynumber: 2.0 Consensus size: 104
5643181 GAGCAATAGC
* * * *
5643191 GGCGTTTTGTATAAAAACGCTACAAAAAATAAATCTATTTATTAAAAAAATAAAAT-AAAAAATT
1 GGCGTTTTGTATAAAAACGCCAC-AAAAATAAATCAATTTA-T-AAAAAACAAAATAAAAAAAAT
* *
5643255 TTAAGCATAACAAAACGACGTCATTTTGTTCAAAATGAAATAAT
63 TTAA-AATAACAAAACG-CGTCATTCTGTTCAAAATGAAATAAT
*
5643299 GGCGTTTT-TATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAATTT
1 GGCGTTTTGTAT-AAAAACGCCACAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAATTT
* * *
5643363 AAAATCACAAAATGGGTCATTCTGTTCAAAATGAAA
65 AAAATAACAAAACGCGTCATTCTGTTCAAAATGAAA
5643399 AATTATTTGC
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
104 20 0.23
105 20 0.23
106 12 0.14
107 19 0.22
108 17 0.19
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (104 bp):
GGCGTTTTGTATAAAAACGCCACAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAAATTTA
AAATAACAAAACGCGTCATTCTGTTCAAAATGAAATAAT
Found at i:5646363 original size:142 final size:142
Alignment explanation
Indices: 5646107--5646390 Score: 541
Period size: 142 Copynumber: 2.0 Consensus size: 142
5646097 TTGTTTTATA
*
5646107 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCTTAA
1 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCCTAA
5646172 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
66 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
5646237 TGCATAATGGTC
131 TGCATAATGGTC
*
5646249 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCATTGATATTGCAAATTTCCATCCTAA
1 ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCCTAA
*
5646314 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAATATTTTGATTGTACTTAGAATAATAG
66 GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
5646379 TGCATAATGGTC
131 TGCATAATGGTC
5646391 GTGTTCTTTC
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 139 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (142 bp):
ATGCAGCATACTCACAGGAAATTTGGATCTGATAATTTCACTGATATTGCAAATTTCCATCCTAA
GTTTGAAATTTAAGTGTCAACTTGTAATATACTCGATAACATTTTGATTGTACTTAGAATAATAG
TGCATAATGGTC
Found at i:5646999 original size:43 final size:43
Alignment explanation
Indices: 5646919--5647160 Score: 256
Period size: 43 Copynumber: 5.7 Consensus size: 43
5646909 ATAATTTTTT
* * * ** *
5646919 TAAAGGTTAT-GTTTTTAGCGGCGTTTTTGCGAGAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
** * * * *
5646961 TAAATATAATGGTCTTTAGCGGCCTTTGTGATAAAAGCGTCGA
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* *
5647004 TAAAGGTCATGGTCTATAGCGGCGTTTGTGATAAAAGCGCCGT
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
* * * *
5647047 TAAAGGTCATAGTCTATAGCGGCGTTTGTGAAAAAAGCGCCGT
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
** *
5647090 TAAAGGTCATGGT-TTATAGCGGCGTTTGTG-GGAAAGTGCCGC
1 TAAAGGTCATGGTCTT-TAGCGGCGTTTGTGATAAAAGCGCCGC
*
5647132 TAAAGGTCATGGCCTTTAGCGGCGTTTGT
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGT
5647161 TTCTAAAAAC
Statistics
Matches: 170, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 41 0.24
43 129 0.76
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
Found at i:5647042 original size:86 final size:85
Alignment explanation
Indices: 5646934--5647160 Score: 283
Period size: 86 Copynumber: 2.6 Consensus size: 85
5646924 GTTATGTTTT
* * ** * * *
5646934 TAGCGGCGTTTTTGCGAGAAGCGCCGCTAAATATAATGGTCTTTAGCGGCCTTTGTGATAAAAGC
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAAAAAAGC
*
5646999 GTCGATAAAGGTCATGGTCTA
65 GCCGATAAAGGTCATGGTCTA
* * * *
5647020 TAGCGGCGTTTGTGATAAAAGCGCCGTTAAAGGTCATAGTCTATAGCGGCGTTTGTGAAAAAAGC
1 TAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAAAAAAGC
* *
5647085 GCCGTTAAAGGTCATGGTTTA
65 GCCGATAAAGGTCATGGTCTA
* * *
5647106 TAGCGGCGTTTGTGGGAAAGTGCCGCTAAAGGTCATGGCCTTTAGCGGCGTTTGT
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGT
5647161 TTCTAAAAAC
Statistics
Matches: 119, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
85 34 0.29
86 85 0.71
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (85 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGAAAAAAGCG
CCGATAAAGGTCATGGTCTA
Found at i:5648324 original size:68 final size:68
Alignment explanation
Indices: 5648215--5648383 Score: 266
Period size: 68 Copynumber: 2.5 Consensus size: 68
5648205 CTTAGAATCG
* * *
5648215 GAAGTCCGTCAGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGGCAACA
1 GAAGTCTGCCAGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACA
5648280 AAT
66 AAT
** *
5648283 GAAGTCTGGTAGGACAATAAACATGAGATTATATTGTGTAAGACCATAGCTAGGCTATGACAACA
1 GAAGTCTGCCAGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACA
5648348 AAT
66 AAT
* *
5648351 GAAGTCTGCCAAGACAATAAATATGAGATTATA
1 GAAGTCTGCCAGGACAATAAACATGAGATTATA
5648384 AGATGTAATT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 92 1.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (68 bp):
GAAGTCTGCCAGGACAATAAACATGAGATTATACTGTGTAAGACCATAGCTAGGCTATGACAACA
AAT
Found at i:5653695 original size:20 final size:19
Alignment explanation
Indices: 5653667--5653728 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
5653657 TAAAAGTCCA
5653667 AAAAATATATATATTTAAT
1 AAAAATATATATATTTAAT
* *
5653686 AAAAAGTATATTTGATTAAAAAT
1 AAAAA-TATATAT-ATT--TAAT
*
5653709 AAAAATATAAATATTTAAT
1 AAAAATATATATATTTAAT
5653728 A
1 A
5653729 TAATTCGGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 9 0.26
20 6 0.18
21 6 0.18
22 5 0.15
23 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAAATATATATATTTAAT
Found at i:5653713 original size:42 final size:40
Alignment explanation
Indices: 5653612--5653728 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 40
5653602 GGCCCGGCCC
*
5653612 ATATTTGATTAAAAAT--AAA-ATATATATTTAAT-ATAT
1 ATATTTGATTAAAAATAAAAATATATATATTTAATAAAAT
*
5653648 A-ATTTGGATTAAAAGTCCAAAAAATATATATATTTAATAAAAAGT
1 ATATTT-GATTAAAAAT---AAAAATATATATATTTAAT-AAAA-T
*
5653693 ATATTTGATTAAAAATAAAAATATAAATATTTAATA
1 ATATTTGATTAAAAATAAAAATATATATATTTAATA
5653729 TAATTCGGGC
Statistics
Matches: 66, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
35 4 0.06
36 10 0.15
41 4 0.06
42 31 0.47
44 2 0.03
45 11 0.17
46 4 0.06
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (40 bp):
ATATTTGATTAAAAATAAAAATATATATATTTAATAAAAT
Found at i:5655450 original size:19 final size:19
Alignment explanation
Indices: 5655426--5655480 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
5655416 CAACACATAT
5655426 CTGGCACACGAAGTGCATC
1 CTGGCACACGAAGTGCATC
* *
5655445 CTGGCACACGAGGTACATC
1 CTGGCACACGAAGTGCATC
*
5655464 CTGGCACA-GAAGCGCAT
1 CTGGCACACGAAGTGCAT
5655481 AATCCCGTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.15
Consensus pattern (19 bp):
CTGGCACACGAAGTGCATC
Found at i:5655949 original size:11 final size:11
Alignment explanation
Indices: 5655933--5655959 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5655923 TATATACATT
5655933 ATTTAATCTTG
1 ATTTAATCTTG
5655944 ATTTAATCTTG
1 ATTTAATCTTG
5655955 ATTTA
1 ATTTA
5655960 CATTTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (11 bp):
ATTTAATCTTG
Found at i:5658358 original size:3 final size:3
Alignment explanation
Indices: 5658350--5658399 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
5658340 AAAGGAAAGG
5658350 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
5658398 AG
1 AG
5658400 GAGGAGAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:5658554 original size:11 final size:11
Alignment explanation
Indices: 5658535--5658569 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
5658525 ATCTTGTTAT
5658535 TATATTTTTTTG
1 TATA-TTTTTTG
5658547 TATATTTTTTG
1 TATATTTTTTG
5658558 TATATTTTTTG
1 TATATTTTTTG
5658569 T
1 T
5658570 TGTTAGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (11 bp):
TATATTTTTTG
Found at i:5658755 original size:38 final size:39
Alignment explanation
Indices: 5658660--5658739 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 39
5658650 TTTTTAGGGT
*
5658660 TTAGTTATTAAT-A--ATTATTGTTACTTAGTATTATTG
1 TTAGTTATTAATAATTATTATTGTTACTTAGTATGATTG
*
5658696 TTAGTTATTAATAATTATTATT-TTAGTTAGTATGATTG
1 TTAGTTATTAATAATTATTATTGTTACTTAGTATGATTG
5658734 TTAGTT
1 TTAGTT
5658740 TTTACACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 12 0.31
37 1 0.03
38 20 0.51
39 6 0.15
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.56
Consensus pattern (39 bp):
TTAGTTATTAATAATTATTATTGTTACTTAGTATGATTG
Found at i:5658792 original size:37 final size:38
Alignment explanation
Indices: 5658745--5658833 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 38
5658735 TAGTTTTTAC
*
5658745 ACTA-TATTATTGTT-GGT-TATTATTTTTAGTAAAAC
1 ACTATTATTATTGTTAGGTATATTATTTTTAGTAAAAA
* *
5658780 CCTAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAA
1 ACT-ATTATTATTGTTAGGTA-TATTATTTTTAGTAAAAA
5658820 ACTATTATTATTGT
1 ACTATTATTATTGT
5658834 GTTAGTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
35 2 0.04
36 1 0.02
37 10 0.22
38 2 0.04
39 11 0.24
40 19 0.42
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.52
Consensus pattern (38 bp):
ACTATTATTATTGTTAGGTATATTATTTTTAGTAAAAA
Found at i:5660496 original size:25 final size:25
Alignment explanation
Indices: 5660446--5660504 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
5660436 TAATTAAATT
**
5660446 TATACAAAAAATTACAAACTTTGTAA
1 TATA-AAAAAATTACAAACTGAGTAA
5660472 TATAAAAAAA-TACAAACTAGAGTAA
1 TATAAAAAAATTACAAACT-GAGTAA
*
5660497 TATCAAAA
1 TATAAAAA
5660505 CCGCAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 8 0.28
25 17 0.59
26 4 0.14
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.25
Consensus pattern (25 bp):
TATAAAAAAATTACAAACTGAGTAA
Found at i:5663010 original size:160 final size:159
Alignment explanation
Indices: 5662596--5663292 Score: 1134
Period size: 160 Copynumber: 4.4 Consensus size: 159
5662586 TAATTTCAAT
* * *
5662596 GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTT
* * *
5662661 TATATTATTTTAGTACATAAAGTTTAAAATGTATTAATTTAGTGTGTGTTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGT-TTTTTATATAAATTTAG
* * *
5662726 --CAAAAACCCTTATTTTGGTCATTTATTC
130 TAAAAAAACCCTTATTTTGGCCATTTGTTC
* *
5662754 GTATTTTTCTTATTTTCGGATTTTATTACTTT-AAAAAATATAGTATTTTTATATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTT
5662818 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
5662883 AAAAAAACCCCTTATTTTGGCCATTTGTTC
131 AAAAAAA-CCCTTATTTTGGCCATTTGTTC
5662913 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTT
*
5662978 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGCTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
* *
5663043 AAAAAAAACCCTTATTTTGGCCCTCTGTTC
131 -AAAAAAACCCTTATTTTGGCCATTTGTTC
* * **
5663073 ATATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTTGTATTTTGATTATT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTT-ATTATT
5663138 TTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTT-TATAAATTTAG
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAG
5663202 TAAAAAAACCCTTATTTTGGCCATTTGTTC
130 TAAAAAAACCCTTATTTTGGCCATTTGTTC
* *
5663232 GTATTTTTCTT-TCTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCATTTTTTATT
1 GTATTTTTCTTAT-TTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATT
5663293 TCTTTTCGTA
Statistics
Matches: 504, Mismatches: 28, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
156 17 0.03
157 73 0.14
158 40 0.08
159 129 0.26
160 180 0.36
161 65 0.13
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (159 bp):
GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTT
TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
AAAAAAACCCTTATTTTGGCCATTTGTTC
Found at i:5663257 original size:319 final size:317
Alignment explanation
Indices: 5662596--5663292 Score: 1159
Period size: 319 Copynumber: 2.2 Consensus size: 317
5662586 TAATTTCAAT
* *
5662596 GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTT
*
5662661 TATATTATTTTAGTACATAAAGTTTAAAATGTATTAATTTAGTGTGTGTTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAAAGTTTAAAATGTATTAATTTAGTGTGTCTTTTTATATAAATTTAG
* * * * *
5662726 CAAAAACCCTTATTTTGGTCATTTATTCGTATTTTTCTTATTTTCGGATTTTATTACTTTAAAAA
131 AAAAAACCCTTATTTTGGCCATCTATTCATATTTTTCTTATTTTCAGATTTTATTACTTTAAAAA
*
5662791 ATATAGTATTTTTATATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATT
196 ATATACTATTTTTATATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATT
5662856 TTAGTGTGTTTTTTATATAAATTTAGTAAAAAAACCCCTTATTTTGGCCATTTGTTC
261 TTAGTGTGTTTTTTATATAAATTTAGTAAAAAAACCCCTTATTTTGGCCATTTGTTC
*
5662913 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTT
1 GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTT
* * *
5662978 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTG-CTTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAAAGTTTAAAATGTATTAATTTAGTGTGTCTTTTTATATAAATTTAG
* *
5663042 TAAAAAAAACCCTTATTTTGGCCCTCTGTTCATATTTTTCTTATTTTCAGATTTTATTACTTTCA
131 ---AAAAAACCCTTATTTTGGCCATCTATTCATATTTTTCTTATTTTCAGATTTTATTACTTT-A
*
5663107 AAAAATATACTATTTTTGTATTTTGATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTA
192 AAAAATATACTATTTTTATATTTT-ATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTA
5663172 TTATTTTAGTGTGTTTTTT-TATAAATTTAGTAAAAAAA-CCCTTATTTTGGCCATTTGTTC
256 TTATTTTAGTGTGTTTTTTATATAAATTTAGTAAAAAAACCCCTTATTTTGGCCATTTGTTC
*
5663232 GTATTTTTCTT-TCTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCATTTTTTATT
1 GTATTTTTCTTAT-TTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATT
5663293 TCTTTTCGTA
Statistics
Matches: 356, Mismatches: 18, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
316 17 0.05
317 105 0.29
318 1 0.00
319 132 0.37
320 42 0.12
321 59 0.17
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (317 bp):
GTATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCATATTTTATTATTT
TATATTATTTTAGTACATAAAGTTTAAAATGTATTAATTTAGTGTGTCTTTTTATATAAATTTAG
AAAAAACCCTTATTTTGGCCATCTATTCATATTTTTCTTATTTTCAGATTTTATTACTTTAAAAA
ATATACTATTTTTATATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATT
TTAGTGTGTTTTTTATATAAATTTAGTAAAAAAACCCCTTATTTTGGCCATTTGTTC
Found at i:5663341 original size:29 final size:28
Alignment explanation
Indices: 5663295--5663354 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
5663285 TTTTTATTTC
*
5663295 TTTTCGTATTTTATTTTTTCATACATATT
1 TTTTCGTATTTTATTTTTTAATAC-TATT
5663324 TTTTCGGTATTTTA-TTTTTAATACTATT
1 TTTTC-GTATTTTATTTTTTAATACTATT
5663352 TTT
1 TTT
5663355 GTAAAAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 7 0.24
29 14 0.48
30 8 0.28
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.67
Consensus pattern (28 bp):
TTTTCGTATTTTATTTTTTAATACTATT
Found at i:5663478 original size:30 final size:30
Alignment explanation
Indices: 5663444--5663564 Score: 138
Period size: 30 Copynumber: 4.4 Consensus size: 30
5663434 AAATAAAATA
5663444 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
5663474 AAATAAT--AACATA-AA--TA-AT---A-
1 AAATAATAAAACATAGAATGTACATAACAT
* *
5663494 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
5663524 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
5663554 AAA-AATTAAAA
1 AAATAA-TAAAA
5663565 TTAAATTCTG
Statistics
Matches: 76, Mismatches: 4, Indels: 22
0.75 0.04 0.22
Matches are distributed among these distances:
20 7 0.09
21 1 0.01
22 5 0.07
23 1 0.01
24 2 0.03
25 4 0.05
26 2 0.03
27 2 0.03
28 6 0.08
29 3 0.04
30 43 0.57
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:5663484 original size:12 final size:12
Alignment explanation
Indices: 5663467--5663499 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
5663457 TAGAATGTAC
5663467 ATAACATAAATA
1 ATAACATAAATA
5663479 ATAACATAAATA
1 ATAACATAAATA
*
5663491 ATAAAATAA
1 ATAACATAA
5663500 TAAGACATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:5663806 original size:3 final size:3
Alignment explanation
Indices: 5663798--5663919 Score: 76
Period size: 3 Copynumber: 41.3 Consensus size: 3
5663788 CTTCTCTCCC
* * * *
5663798 TCT TCT TCT TCT CCT TC- TCT TTT TCT TTT TCCT TTT TCT TCCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT T-CT TCT
* * * * * *
5663844 GCG CCT CCT TCC CCT TCT TCT TCT TC- TCT TC- TCT TC- TCT TC- TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
5663888 TCT TCT TCT T-T TCT TCT TCT CTCAT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT -TC-T TCT TCT T
5663920 TCCTGTAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
2 12 0.13
3 70 0.76
4 9 0.10
5 1 0.01
ACGTcount: A:0.01, C:0.37, G:0.02, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:5663861 original size:52 final size:52
Alignment explanation
Indices: 5663759--5663867 Score: 118
Period size: 52 Copynumber: 2.1 Consensus size: 52
5663749 AAAAAAATTA
* * **
5663759 CCTTC-CTTTATTTTTTTCCTTTCTTTTTCCTTCTCTCCCTCTTCTTCTTCT
1 CCTTCTCTTTATTTTTTTCCTTTCTTCTTCCTTCTCGCCCTCTTCCCCTTCT
5663810 CCTTCTCTTT-TTCTTTTTCCTTT-TTCTTCCTTCT-GCGCCTCCTTCCCCTTCT
1 CCTTCTCTTTATT-TTTTTCCTTTCTTCTTCCTTCTCGC-CCT-CTTCCCCTTCT
*
5663862 TCTTCT
1 CCTTCT
5663868 TCTCTTCTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
50 1 0.02
51 20 0.41
52 28 0.57
ACGTcount: A:0.01, C:0.38, G:0.02, T:0.60
Consensus pattern (52 bp):
CCTTCTCTTTATTTTTTTCCTTTCTTCTTCCTTCTCGCCCTCTTCCCCTTCT
Found at i:5663875 original size:5 final size:5
Alignment explanation
Indices: 5663859--5663909 Score: 66
Period size: 5 Copynumber: 9.6 Consensus size: 5
5663849 TCCTTCCCCT
*
5663859 TCTTC TTCTTC TCTTC TCTTC TCTTC TCTTC TTCTTC TTTTC TTCTTC
1 TCTTC -TCTTC TCTTC TCTTC TCTTC TCTTC -TCTTC TCTTC -TCTTC
5663907 TCT
1 TCT
5663910 CATTCTTCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
5 27 0.66
6 14 0.34
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (5 bp):
TCTTC
Found at i:5663915 original size:11 final size:10
Alignment explanation
Indices: 5663857--5663918 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
5663847 CCTCCTTCCC
5663857 CTTCT-TCTT
1 CTTCTCTCTT
5663866 CTTCTCT-TCT
1 CTTCTCTCT-T
5663876 CTTCTCT-TCT
1 CTTCTCTCT-T
5663886 CTTCT-TCTT
1 CTTCTCTCTT
5663895 CTT-T-TCTT
1 CTTCTCTCTT
5663903 CTTCTCTCATT
1 CTTCTCTC-TT
5663914 CTTCT
1 CTTCT
5663919 TTCCTGTAGC
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.17
9 12 0.26
10 20 0.43
11 7 0.15
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (10 bp):
CTTCTCTCTT
Found at i:5664954 original size:21 final size:21
Alignment explanation
Indices: 5664906--5664954 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
5664896 ATATGACGCG
*
5664906 CTAAAAAATAATTTAAAAATA
1 CTAAAAAATAAATTAAAAATA
* *
5664927 TTCAAAAATAAATTATAAAAT-
1 CTAAAAAATAAATTA-AAAATA
5664948 CTAAAAA
1 CTAAAAA
5664955 GTTCATAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (21 bp):
CTAAAAAATAAATTAAAAATA
Found at i:5679797 original size:23 final size:24
Alignment explanation
Indices: 5679744--5679797 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
5679734 CTTTTTAAAA
* **
5679744 AAATTATATGCTTTTAATTTTTTT
1 AAATTATATGCTTTTAAGTTTTAG
*
5679768 AAA-TATAT-TTTTTAAGTTTTAG
1 AAATTATATGCTTTTAAGTTTTAG
5679790 AAATTATA
1 AAATTATA
5679798 ATTATAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 13 0.52
23 9 0.36
24 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (24 bp):
AAATTATATGCTTTTAAGTTTTAG
Found at i:5680155 original size:31 final size:31
Alignment explanation
Indices: 5680120--5680180 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
5680110 AGTTAGACAT
* *
5680120 TAAACTAGACAATTGTTTCTACATTGGAGCC
1 TAAACTAGACAATTATTTCCACATTGGAGCC
* *
5680151 TAAACTAGGCAATTATTTCCATATTGGAGC
1 TAAACTAGACAATTATTTCCACATTGGAGC
5680181 TTCAACTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (31 bp):
TAAACTAGACAATTATTTCCACATTGGAGCC
Found at i:5690075 original size:19 final size:20
Alignment explanation
Indices: 5690033--5690078 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
5690023 CAGAAAATGG
5690033 TTTTTGGAAAATGATTTACT
1 TTTTTGGAAAATGATTTACT
5690053 TTTTTGGAAAATGATTTACT
1 TTTTTGGAAAATGATTTACT
5690073 TTTTTG
1 TTTTTG
5690079 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.54
Consensus pattern (20 bp):
TTTTTGGAAAATGATTTACT
Found at i:5693733 original size:36 final size:36
Alignment explanation
Indices: 5693662--5693733 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 36
5693652 AATAATATAT
* **
5693662 TTTTATATATTTTCAATAATTTTAATTTTTAGAATA
1 TTTTATATATTTTCAAAAATTTTAAAATTTAGAATA
*
5693698 TTTTATATATTTTTTAAAAATTTTAAAATTT-GAATA
1 TTTTATATA-TTTTCAAAAATTTTAAAATTTAGAATA
5693734 ATTAATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 14 0.45
37 17 0.55
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (36 bp):
TTTTATATATTTTCAAAAATTTTAAAATTTAGAATA
Found at i:5699448 original size:17 final size:17
Alignment explanation
Indices: 5699411--5699458 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
5699401 GAATTTAGAA
*
5699411 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
5699427 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
5699444 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
5699459 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:5700696 original size:13 final size:13
Alignment explanation
Indices: 5700678--5700709 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5700668 TTTCCAGCAA
5700678 TTATGAATTTATT
1 TTATGAATTTATT
5700691 TTATGAATTTATT
1 TTATGAATTTATT
*
5700704 TGATGA
1 TTATGA
5700710 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:5700917 original size:50 final size:50
Alignment explanation
Indices: 5700804--5701045 Score: 313
Period size: 50 Copynumber: 4.7 Consensus size: 50
5700794 ATCTGGGTAA
* * *
5700804 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
5700860 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
5700910 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
5700960 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
**
5701010 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
5701046 TTTGGCATGT
Statistics
Matches: 169, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
50 95 0.56
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:5700993 original size:100 final size:103
Alignment explanation
Indices: 5700804--5701053 Score: 389
Period size: 100 Copynumber: 2.4 Consensus size: 103
5700794 ATCTGGGTAA
*
5700804 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCC---AGATCATGAGAGGTCCC
*
5700869 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
5700910 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCCAGATCATGAGAGGTCCCCTA
*
5700972 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
*
5701010 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
5701054 GTTATTATCA
Statistics
Matches: 135, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
100 53 0.39
101 40 0.30
105 2 0.01
106 40 0.30
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:5703502 original size:22 final size:22
Alignment explanation
Indices: 5703476--5703548 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
5703466 TGGTATTTCA
5703476 GTGAAGAAAACCATACTGAGTT
1 GTGAAGAAAACCATACTGAGTT
*** * **
5703498 GTGAA-AAGTAGGTATAGTGTTTT
1 GTGAAGAA--AACCATACTGAGTT
5703521 AGTGAAGAAAACCATACTGAGTT
1 -GTGAAGAAAACCATACTGAGTT
5703544 GTGAA
1 GTGAA
5703549 AAGTAGGTAT
Statistics
Matches: 35, Mismatches: 12, Indels: 8
0.64 0.22 0.15
Matches are distributed among these distances:
21 2 0.06
22 10 0.29
23 16 0.46
24 5 0.14
25 2 0.06
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.27
Consensus pattern (22 bp):
GTGAAGAAAACCATACTGAGTT
Found at i:5703525 original size:46 final size:46
Alignment explanation
Indices: 5703451--5703589 Score: 226
Period size: 46 Copynumber: 3.0 Consensus size: 46
5703441 CATGGCAAAG
5703451 TGTGAAACA-TAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAA-AGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * *
5703497 TGTGAAAAGTAGGTATAGTGTTTTAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
*
5703543 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
5703589 T
1 T
5703590 ATAGCAATGT
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 84 0.99
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:5715871 original size:13 final size:12
Alignment explanation
Indices: 5715833--5715871 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5715823 AAATTTAAAA
5715833 TTTTTATAACTT
1 TTTTTATAACTT
*
5715845 TTTTTATAAATT
1 TTTTTATAACTT
*
5715857 TTGTTTATATCTT
1 TT-TTTATAACTT
5715870 TT
1 TT
5715872 CATGGTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (12 bp):
TTTTTATAACTT
Found at i:5724037 original size:15 final size:16
Alignment explanation
Indices: 5724017--5724046 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5724007 CTAACAAAAG
5724017 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
5724032 AACCCAATAACCCAC
1 AACCCAATAACCCAC
5724047 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:5725513 original size:16 final size:16
Alignment explanation
Indices: 5725485--5725517 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5725475 TACACTCATG
5725485 TATATGTTTTATATTT
1 TATATGTTTTATATTT
5725501 TATA-GTTTATATATTT
1 TATATGTTT-TATATTT
5725517 T
1 T
5725518 CTTTGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TATATGTTTTATATTT
Found at i:5730684 original size:41 final size:40
Alignment explanation
Indices: 5730627--5730708 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 40
5730617 CGTTACTTGA
5730627 GTCCTCTACAACCCCCGTATCCAAAATGGTATGATATGAAT
1 GTCCTCTACAACCCCCGTATCCAAAAT-GTATGATATGAAT
5730668 GTCCTCTACAACCCCCGTATCCAAAATGTATGATATGAAT
1 GTCCTCTACAACCCCCGTATCCAAAATGTATGATATGAAT
5730708 G
1 G
5730709 CGCGCAATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 14 0.34
41 27 0.66
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (40 bp):
GTCCTCTACAACCCCCGTATCCAAAATGTATGATATGAAT
Found at i:5737808 original size:44 final size:43
Alignment explanation
Indices: 5737710--5738040 Score: 190
Period size: 44 Copynumber: 7.6 Consensus size: 43
5737700 GAAGAATTGC
* * ***
5737710 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATGGT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAA-A-CCA
* * *
5737755 A-ATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAACCA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA
* * * ***
5737797 ATGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCACC-
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAACCA
* * * ** *
5737839 AGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTC-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--CCA
* * *
5737885 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA
* * * *
5737928 GAGATCTTATCTCCCTGAGATTACAGCGGAGAAGATCGAAGA-CA
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGAT-TAAAACCA
** * * **
5737972 CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAA
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAACCA
* *
5738015 AGGATCTTATCTCTCTGAGGTTACAG
1 A-GATCTTATCTCCCTGAGATTACAG
5738041 CAGAGTAGAT
Statistics
Matches: 214, Mismatches: 56, Indels: 33
0.71 0.18 0.11
Matches are distributed among these distances:
41 25 0.12
42 8 0.04
43 34 0.16
44 113 0.53
45 3 0.01
46 31 0.14
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAACCA
Found at i:5737952 original size:131 final size:129
Alignment explanation
Indices: 5737713--5737953 Score: 299
Period size: 131 Copynumber: 1.9 Consensus size: 129
5737703 GAATTGCAGA
* * *
5737713 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATGGTAATCCTATCTCTCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGATGGTAATCCTATCTCCCTGAGATTACA
* *
5737778 GTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGG
66 GTGGAGCAGATTAAAACCAATGATCTTATCTCCCTGAAGTTACAGTAGAGTAGATCGCACCAGG
* * * * * *
5737842 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAAT-TTCAGATCTTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAG-ATGGT-A-ATCCTATCTCCCTGAGATT
* *
5737906 ACAGTGGAGCAGATTGAAGCCAGA-GATCTTATCTCCCTG-AGATTACAG
63 ACAGTGGAGCAGATTAAAACCA-ATGATCTTATCTCCCTGAAG-TTACAG
5737954 CGGAGAAGAT
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
129 33 0.35
130 5 0.05
131 55 0.59
132 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGATGGTAATCCTATCTCCCTGAGATTACA
GTGGAGCAGATTAAAACCAATGATCTTATCTCCCTGAAGTTACAGTAGAGTAGATCGCACCAGG
Found at i:5738021 original size:87 final size:87
Alignment explanation
Indices: 5737891--5738052 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
5737881 TTTCAGATCT
* * ** *
5737891 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
5737956 GAGAAGATCGAAGACACTATCC
66 GAGAAGATCGAAGACACTATCC
* * * *
5737978 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAGGTTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAGAAAGAGATCTTATCTCCCTGAGATTACAGC
*
5738042 AGAGTAGATCG
65 AGAGAAGATCG
5738053 CATCAAGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 60 0.94
88 4 0.06
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGAAAGAGATCTTATCTCCCTGAGATTACAGCA
GAGAAGATCGAAGACACTATCC
Found at i:5738156 original size:218 final size:219
Alignment explanation
Indices: 5737710--5738156 Score: 535
Period size: 218 Copynumber: 2.0 Consensus size: 219
5737700 GAAGAATTGC
* *** *
5737710 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATGGTAATCCTATCTCTCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGAAGATCAAAGACACTAATCCTATCTCCCTGAGATT
* * *
5737775 ACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCA
66 ACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCA
* ** * * * * *
5737840 GGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGT
131 AGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAAAATAAGAGCGTATCTCCCTAAAGT
* ** *
5737905 TACAGTGGAGCAGATTGAAGCCAG
196 TACAGCGGAGCAGACAGAAGACAG
*
5737929 AGATCTTATCTCCCTGAGATTACAGCGGAGAAGATCGAAGACACT-ATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGAAGATCAAAGACACTAATCCTATCTCCCTGAGA-T
* * *
5737992 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATC
65 TACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACC
* * *
5738057 AAGTCTTATTTCCCTGAAGA-TGCAGTGGAACAGACTGAA-AACAATAAG-GCGTGTCTCCCTAA
130 AAGTCTTATTTCCCTG-AGATTACAGTGGAACAGACCGAAGAA-AATAAGAGCGTATCTCCCTAA
** * *
5738119 AGTTGTAGCGGAGCGGACAGAAGATAG
193 AGTTACAGCGGAGCAGACAGAAGACAG
*
5738146 TGATTCTTATC
1 AGA-TCTTATC
5738157 ATGTCTAATC
Statistics
Matches: 192, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
217 33 0.17
218 116 0.60
219 43 0.22
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (219 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGAAGATCAAAGACACTAATCCTATCTCCCTGAGATT
ACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCA
AGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAAAATAAGAGCGTATCTCCCTAAAGT
TACAGCGGAGCAGACAGAAGACAG
Found at i:5738533 original size:15 final size:16
Alignment explanation
Indices: 5738513--5738542 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5738503 CTAACAAAAG
5738513 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
5738528 AACCCAATAACCCAC
1 AACCCAATAACCCAC
5738543 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:5739982 original size:15 final size:16
Alignment explanation
Indices: 5739957--5739988 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
5739947 TACACTCATG
5739957 TATATGTTTTATATTT
1 TATATGTTTTATATTT
5739973 TATA-GTTTTATATTT
1 TATATGTTTTATATTT
5739988 T
1 T
5739989 CTTTGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TATATGTTTTATATTT
Found at i:5741949 original size:7 final size:7
Alignment explanation
Indices: 5741937--5741979 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
5741927 CCCAGTCAAA
5741937 TTAATTT
1 TTAATTT
5741944 TTAATTT
1 TTAATTT
5741951 TTAATCTT
1 TTAAT-TT
**
5741959 GGAAATTT
1 -TTAATTT
5741967 TTAATTT
1 TTAATTT
5741974 TTAATT
1 TTAATT
5741980 GCAGTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 23 0.77
8 4 0.13
9 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (7 bp):
TTAATTT
Found at i:5743577 original size:34 final size:35
Alignment explanation
Indices: 5743533--5743599 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
5743523 CAGTAAAATA
*
5743533 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* * *
5743567 TTTTCTGTAAAATTATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
5743600 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:5746332 original size:21 final size:21
Alignment explanation
Indices: 5746307--5746347 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5746297 TCCTATGAAT
* *
5746307 TAAAAAATAACATC-AATTTA
1 TAAAAAAAAAAATCAAATTTA
5746327 TAAAAAAAAAAATCAAATTTA
1 TAAAAAAAAAAATCAAATTTA
5746348 CAATATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAAAAAAAAATCAAATTTA
Found at i:5750038 original size:60 final size:60
Alignment explanation
Indices: 5749945--5750065 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
5749935 AGTCTCATCT
5749945 TTAATTTTTTTATATGATAGATTTGTGAAAAAAAATTCGAAGTACATTTTAGATCAAATA
1 TTAATTTTTTTATATGATAGATTTGTGAAAAAAAATTCGAAGTACATTTTAGATCAAATA
*
5750005 TTAATTTTTTTATATGATAGATTTGTGAAAAAAAATTCGAAGTACATTTTTGATCAAATA
1 TTAATTTTTTTATATGATAGATTTGTGAAAAAAAATTCGAAGTACATTTTAGATCAAATA
5750065 T
1 T
5750066 AAATAGAAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (60 bp):
TTAATTTTTTTATATGATAGATTTGTGAAAAAAAATTCGAAGTACATTTTAGATCAAATA
Found at i:5755858 original size:13 final size:14
Alignment explanation
Indices: 5755825--5755858 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
5755815 TGGAGATATC
5755825 TAAACTTGGTAACT
1 TAAACTTGGTAACT
*
5755839 TATACTTGGT-ACT
1 TAAACTTGGTAACT
5755852 TAAACTT
1 TAAACTT
5755859 TTTCTTGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (14 bp):
TAAACTTGGTAACT
Found at i:5767561 original size:78 final size:78
Alignment explanation
Indices: 5767355--5767577 Score: 236
Period size: 79 Copynumber: 2.8 Consensus size: 78
5767345 TGGTTTTTTG
* * * *
5767355 TATAGTGGAGTCGGAAAATGATGCAAGTCCCATATTAGTTAGGAAGGGTAAAGAGGTATTGGAAT
1 TATAGTGGAGTCGGAAAACGATGCGAGT-CCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAAT
*
5767420 TTATATCTTCTACA
65 ATATATCTTCTACA
* * * * * *
5767434 TACAATGGAGTCGGAAAACGATTGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTC
1 TATAGTGGAGTCGGAAAACGA-TGCGAG-TCCATATTGGTTAGGAAGGGCAAAGAGGTATTGG--
*
5767499 AATATGT-TCTT-TA-A
62 AATATATATCTTCTACA
* * *
5767513 TATAGTAGAGTTGGAAAACGATGCGAGTCCTATATTGGTTAGGAAGGGCAAAGAGGTATTAGAAT
1 TATAGTGGAGTCGGAAAACGATGCGAGTCC-ATATTGGTTAGGAAGGGCAAAGAGGTATTGGAAT
5767578 TGATAAGGGA
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
76 3 0.03
77 3 0.03
78 32 0.27
79 36 0.31
80 34 0.29
81 5 0.04
82 5 0.04
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (78 bp):
TATAGTGGAGTCGGAAAACGATGCGAGTCCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATA
TATATCTTCTACA
Found at i:5767585 original size:26 final size:26
Alignment explanation
Indices: 5767556--5767608 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
5767546 ATTGGTTAGG
*
5767556 AAGGGCAAAGAGGTATTAGAATTGAT
1 AAGGGAAAAGAGGTATTAGAATTGAT
*
5767582 AAGGGAAAAGAGGTATTGGAATTGAT
1 AAGGGAAAAGAGGTATTAGAATTGAT
5767608 A
1 A
5767609 TATTTGAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.23
Consensus pattern (26 bp):
AAGGGAAAAGAGGTATTAGAATTGAT
Found at i:5767704 original size:24 final size:24
Alignment explanation
Indices: 5767677--5767732 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
5767667 GTGAGTCCCA
*
5767677 TATTGGTT-AGGAAGGGCAAAGAGG
1 TATTGGTTGA-GAAGGGAAAAGAGG
*
5767701 TATTGGAGTTGATAAGGGAAAAGAGG
1 TATT-G-GTTGAGAAGGGAAAAGAGG
5767727 TATTGG
1 TATTGG
5767733 AATTAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
24 5 0.19
25 2 0.07
26 19 0.70
27 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.39, T:0.25
Consensus pattern (24 bp):
TATTGGTTGAGAAGGGAAAAGAGG
Found at i:5767756 original size:132 final size:132
Alignment explanation
Indices: 5767518--5767846 Score: 559
Period size: 132 Copynumber: 2.5 Consensus size: 132
5767508 TTTAATATAG
*
5767518 TAGAGTTGGAAAACGATGCGAGTCCTATATTGGTTAGGAAGGGCAAAGAGGTATTAGAATTGATA
1 TAGAGTTGGAAAACGATGCGAGTCCTATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATTGATA
* * *
5767583 AGGGAAAAGAGGTATTGGAATTGATATATTTGAGTCGAAAAATGGTGTGAGTTCCATATTCATAA
66 AGGGAAAAGAGGTATTGGAATTAATATATTCGAGTCAAAAAATGGTGTGAGTTCCATATTCATAA
5767648 AA
131 AA
* * *
5767650 TAGAGTTGGAAAACGATGTGAGTCCCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAGTTGATA
1 TAGAGTTGGAAAACGATGCGAGTCCTATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATTGATA
* *
5767715 AGGGAAAAGAGGTATTGGAATTAATATGTTCGAGTCAAAAAATGGTGTGAGTTCCATATTCATAT
66 AGGGAAAAGAGGTATTGGAATTAATATATTCGAGTCAAAAAATGGTGTGAGTTCCATATTCATAA
*
5767780 AG
131 AA
*
5767782 TAGAGTTGGAAAACGATGCGAGTCCTATATTGTTTAGGAAGGGCAAAGAGGTATTGGAATTGATA
1 TAGAGTTGGAAAACGATGCGAGTCCTATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATTGATA
5767847 TATTCGAGTC
Statistics
Matches: 183, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 183 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.28
Consensus pattern (132 bp):
TAGAGTTGGAAAACGATGCGAGTCCTATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATTGATA
AGGGAAAAGAGGTATTGGAATTAATATATTCGAGTCAAAAAATGGTGTGAGTTCCATATTCATAA
AA
Found at i:5770686 original size:78 final size:79
Alignment explanation
Indices: 5770557--5771138 Score: 256
Period size: 79 Copynumber: 7.7 Consensus size: 79
5770547 GATATGTTCT
* * *
5770557 ATGGAGTC-AGAAAACGATGTGAGTTCCATATTGATTAGGAAGGGAAAAGAGGTCTTGGTTGAAA
1 ATGGAGTCGA-AAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGGTTGATA
*
5770621 TGTTTTTTA-ATACA
65 TGTTTTCTACATACA
* * * *
5770635 ATGGAGTCGAAAAATGATGCGAG-TCTCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATTTA
1 ATGGAGTCGAAAAATGATGTGAGTTC-CATATTGATTAGGAAGGGCAAAGAGGTCTTGG--TTGA
*
5770699 TATG--TTCTACATAGA
63 TATGTTTTCTACATACA
* * * *
5770714 ATGGAATCGAAAAATGATTTGAGTTCCATAATGATTAGGAA-GGCAAAGAGGCCTTGGTTGATAT
1 ATGGAGTCGAAAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGGTTGATAT
5770778 G---T-T-CAT---
66 GTTTTCTACATACA
* ** * * * * * * * *
5770784 -TGGAGTCGGAAAGCGATGTAAGGTCTATATTGGTTAGGAAGTGCGAAGAGGTATTGGACATGAT
1 ATGGAGTCGAAAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGG--TTGAT
** *
5770848 ATG--TTCTATGTTCA
64 ATGTTTTCTACATACA
* * * * *
5770862 GTGGAGTCAAAAAATGATGTGA---CAAATATTGATTTGGAA-GGCAAAGAGGTCTTAGTTGATA
1 ATGGAGTCGAAAAATGATGTGAGTTC-CATATTGATTAGGAAGGGCAAAGAGGTCTTGGTTGATA
5770923 TG---T-T---T--A
65 TGTTTTCTACATACA
* * * *
5770929 ATGGAGTCGGAAAGCAACG-T-TG-G-TCCTATATTGGTTAGGAAGGACGAAGAGGTCTTGGAAT
1 ATGGAGTC-GAAA--AATGATGTGAGTTCC-ATATTGATTAGGAAGGGCAAAGAGGTCTTGG--T
* ** *
5770990 AGATATG--TTCTATGTATA
60 TGATATGTTTTCTACATACA
* * * * * *
5771008 ATGGAGTC-AGAAAATAATGTGAATTCCATATTGATTAGGAAGGGCAAAAAGATTTTGGAATTAA
1 ATGGAGTCGA-AAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGG--TTGA
**
5771072 TATG-TTT-TATGTACA
63 TATGTTTTCTACATACA
* * * * *
5771087 ATAGAATCGAAAAATAATGTGAGTTTCATATT-ATTAGGAAGGAC-AAGAGGTC
1 ATGGAGTCGAAAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTC
5771139 GATATGTTCT
Statistics
Matches: 387, Mismatches: 77, Indels: 81
0.71 0.14 0.15
Matches are distributed among these distances:
67 8 0.02
68 5 0.01
69 45 0.12
70 28 0.07
72 15 0.04
73 6 0.02
74 10 0.03
75 2 0.01
76 22 0.06
77 22 0.06
78 81 0.21
79 129 0.33
80 14 0.04
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (79 bp):
ATGGAGTCGAAAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTCTTGGTTGATAT
GTTTTCTACATACA
Found at i:5770752 original size:79 final size:77
Alignment explanation
Indices: 5770567--5770780 Score: 227
Period size: 78 Copynumber: 2.8 Consensus size: 77
5770557 ATGGAGTCAG
* * * *
5770567 AAAACGATGTGAGTTCCATATTGATTAGGAAGGGAAAAGAGGTCTTGGTTGAAATGTTTTTTAAT
1 AAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTATTGGTTGAAATG-TTTCTAAT
*
5770632 ACAATGGAGTCGA
65 ACAATGGAATCGA
* * * *
5770645 AAAATGATGCGAG-TCTCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATTTATATG-TTCTA
1 AAAATGATGTGAGTTC-CATATTGATTAGGAAGGGCAAAGAGGTATTGG--TTGAAATGTTTCTA
*
5770708 CATAGAATGGAATCGA
63 -ATACAATGGAATCGA
* * ** *
5770724 AAAATGATTTGAGTTCCATAATGATTAGGAA-GGCAAAGAGGCCTTGGTTGATATGTT
1 AAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTATTGGTTGAAATGTT
5770781 CATTGGAGTC
Statistics
Matches: 113, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
76 7 0.06
77 3 0.03
78 58 0.51
79 37 0.33
80 8 0.07
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (77 bp):
AAAATGATGTGAGTTCCATATTGATTAGGAAGGGCAAAGAGGTATTGGTTGAAATGTTTCTAATA
CAATGGAATCGA
Found at i:5770958 original size:146 final size:146
Alignment explanation
Indices: 5770657--5771055 Score: 414
Period size: 146 Copynumber: 2.7 Consensus size: 146
5770647 AATGATGCGA
* * ** ** * *
5770657 GTCTCATATTGGTTAGGAAGGGCAAAGAGGTATTGGAATTTATATGTTCTACATAGAATGGAATC
1 GTCT-ATATTGGTTAGGAAGGACGAAGAGGTATTGGAATAGATATGTTCTATGTATAATGGAGTC
* * * * * * *
5770722 GAAAAATGATTTGAGTTC-CATAATGATTAGGAAGGCAAAGAGGCCTTGGTTGATATGTTCATTG
65 AAAAAATAATGTGA---CAAATATTGATTAGGAAGGCAAAGAGGCCTTAGTTGATATGTTCAATG
* *
5770786 GAGTCGGAAAGCGATGTAAG
127 GAGTCGGAAAGCAACGTAAG
*
5770806 GTCTATATTGGTTAGGAAGTG-CGAAGAGGTATTGGACAT-GATATGTTCTATGT-TCAGTGGAG
1 GTCTATATTGGTTAGGAAG-GACGAAGAGGTATTGGA-ATAGATATGTTCTATGTAT-AATGGAG
* * * *
5770868 TCAAAAAATGATGTGACAAATATTGATTTGGAAGGCAAAGAGGTCTTAGTTGATATGTTTAATGG
63 TCAAAAAATAATGTGACAAATATTGATTAGGAAGGCAAAGAGGCCTTAGTTGATATGTTCAATGG
*
5770933 AGTCGGAAAGCAACGT-TG
128 AGTCGGAAAGCAACGTAAG
*
5770951 GTCCTATATTGGTTAGGAAGGACGAAGAGGTCTTGGAATAGATATGTTCTATGTATAATGGAGTC
1 GT-CTATATTGGTTAGGAAGGACGAAGAGGTATTGGAATAGATATGTTCTATGTATAATGGAGTC
* *
5771016 AGAAAATAATGTGA-ATTCCATATTGATTAGGAAGGGCAAA
65 AAAAAATAATGTGACA---AATATTGATTAGGAA-GGCAAA
5771056 AAGATTTTGG
Statistics
Matches: 213, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
145 8 0.04
146 119 0.56
147 1 0.00
148 72 0.34
149 13 0.06
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (146 bp):
GTCTATATTGGTTAGGAAGGACGAAGAGGTATTGGAATAGATATGTTCTATGTATAATGGAGTCA
AAAAATAATGTGACAAATATTGATTAGGAAGGCAAAGAGGCCTTAGTTGATATGTTCAATGGAGT
CGGAAAGCAACGTAAG
Found at i:5776816 original size:56 final size:56
Alignment explanation
Indices: 5776754--5776865 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
5776744 GCTTAAATCT
5776754 GGCCTGGTCAAAATATGAATCTAAAAAATTCATCTATATTTGCAAAAGAGTAACTC
1 GGCCTGGTCAAAATATGAATCTAAAAAATTCATCTATATTTGCAAAAGAGTAACTC
5776810 GGCCTGGTCAAAATATGAATCTAAAAAATTCATCTATATTTGCAAAAGAGTAACTC
1 GGCCTGGTCAAAATATGAATCTAAAAAATTCATCTATATTTGCAAAAGAGTAACTC
5776866 AAGCCTTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (56 bp):
GGCCTGGTCAAAATATGAATCTAAAAAATTCATCTATATTTGCAAAAGAGTAACTC
Found at i:5776925 original size:16 final size:15
Alignment explanation
Indices: 5776904--5776945 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
5776894 TTTTTAAACT
*
5776904 TTTTTATATTATATTA
1 TTTTTATATT-TAATA
5776920 TTTTTATATTTAATA
1 TTTTTATATTTAATA
*
5776935 ATTTTATATTT
1 TTTTTATATTT
5776946 TTTTGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTATATTTAATA
Found at i:5777074 original size:18 final size:16
Alignment explanation
Indices: 5777053--5777090 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 16
5777043 TATAAATTAC
5777053 ATAATATATAAAAATATT
1 ATAA-ATAT-AAAATATT
5777071 AT-AATATAAAATATT
1 ATAAATATAAAATATT
5777086 ATAAA
1 ATAAA
5777091 CTTAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.53
16 6 0.32
17 1 0.05
18 2 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAATATAAAATATT
Found at i:5777083 original size:15 final size:16
Alignment explanation
Indices: 5777058--5777089 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
5777048 ATTACATAAT
5777058 ATATAAAAATATTATA
1 ATATAAAAATATTATA
5777074 ATAT-AAAATATTATA
1 ATATAAAAATATTATA
5777089 A
1 A
5777090 ACTTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATATTATA
Found at i:5780444 original size:17 final size:17
Alignment explanation
Indices: 5780418--5780457 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
5780408 CTTAGAGGAG
*
5780418 TCAAAGGAAAAATATAC
1 TCAAAAGAAAAATATAC
* *
5780435 TCAAAAGAAACATTTAC
1 TCAAAAGAAAAATATAC
5780452 TCAAAA
1 TCAAAA
5780458 TAAGATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.15, G:0.07, T:0.20
Consensus pattern (17 bp):
TCAAAAGAAAAATATAC
Found at i:5794374 original size:22 final size:22
Alignment explanation
Indices: 5794349--5794394 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
5794339 CTTTCTTTTA
*
5794349 TTTATTTTTAAAATTTTAATTT
1 TTTATTTTTAAAATTTTAAATT
*
5794371 TTTATTTTTTAAATTTTAAATT
1 TTTATTTTTAAAATTTTAAATT
5794393 TT
1 TT
5794395 AAATCCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTATTTTTAAAATTTTAAATT
Found at i:5794731 original size:26 final size:30
Alignment explanation
Indices: 5794668--5794730 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
5794658 TTTAAATATT
*
5794668 ATTTTTTATTTAATTATAATATATTTTTAA
1 ATTTTTTATTTAATTATAATATATTTATAA
5794698 ATTTTTTATTT-ATTA-AATATATTTAT-A
1 ATTTTTTATTTAATTATAATATATTTATAA
5794725 ATTTTT
1 ATTTTT
5794731 ACAAAAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 7 0.22
28 10 0.31
29 4 0.12
30 11 0.34
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
ATTTTTTATTTAATTATAATATATTTATAA
Found at i:5796551 original size:18 final size:18
Alignment explanation
Indices: 5796528--5796564 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5796518 AATAGTTTTA
5796528 GCAGAACTAAACTTTCTT
1 GCAGAACTAAACTTTCTT
5796546 GCAGAACTAAACTTTCTT
1 GCAGAACTAAACTTTCTT
5796564 G
1 G
5796565 TTGACTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (18 bp):
GCAGAACTAAACTTTCTT
Found at i:5797339 original size:10 final size:10
Alignment explanation
Indices: 5797321--5797350 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5797311 ATTAACTATT
5797321 TTTTA-AAAA
1 TTTTACAAAA
5797330 TTTTACAAAA
1 TTTTACAAAA
5797340 TTTTACAAAA
1 TTTTACAAAA
5797350 T
1 T
5797351 ATTTTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.25
10 15 0.75
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
TTTTACAAAA
Found at i:5797377 original size:26 final size:27
Alignment explanation
Indices: 5797346--5797417 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
5797336 AAAATTTTAC
*
5797346 AAAATATTTTTTATGTTTTATATTTTT
1 AAAATATTTTTTATATTTTATATTTTT
** *
5797373 -AAATATTTTAAATATTTTTTATTTTT
1 AAAATATTTTTTATATTTTATATTTTT
* *
5797399 AAAATAATTTTTAAATTTT
1 AAAATATTTTTTATATTTT
5797418 TTTATAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (27 bp):
AAAATATTTTTTATATTTTATATTTTT
Found at i:5797389 original size:19 final size:19
Alignment explanation
Indices: 5797365--5797418 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
5797355 TTTATGTTTT
5797365 ATATTTTTAAATATTTT-AA
1 ATATTTTTAAAT-TTTTAAA
*
5797384 ATATTTTT-TATTTTTAAA
1 ATATTTTTAAATTTTTAAA
5797402 ATAATTTTTAAATTTTT
1 AT-ATTTTTAAATTTTT
5797419 TTATAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 4 0.13
18 6 0.20
19 14 0.47
20 6 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTTTTAAATTTTTAAA
Found at i:5798390 original size:60 final size:57
Alignment explanation
Indices: 5798289--5798406 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 57
5798279 TGGTTGGGTA
* * * * * * *
5798289 ACCAAAAAAGAAAAATAATAATTGAATGATCATTTTGTAACTTTTCATAGTTGAGTG
1 ACCAAAAAAGAAAAAAAATAATAGAATGATAATATTATAACTTTTCATAATTAAGTG
5798346 ACCAAAAAAGAATAAAAACCATAATAGAATGATAATATTATAACTTTTCATAATTAAGTG
1 ACCAAAAAAGAA-AAAAA--ATAATAGAATGATAATATTATAACTTTTCATAATTAAGTG
5798406 A
1 A
5798407 TAAAAAATAG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 12 0.24
58 4 0.08
60 35 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (57 bp):
ACCAAAAAAGAAAAAAAATAATAGAATGATAATATTATAACTTTTCATAATTAAGTG
Found at i:5798538 original size:15 final size:16
Alignment explanation
Indices: 5798506--5798540 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5798496 ATCCTAATAA
*
5798506 TATTTACATCTTTTAT
1 TATTTACATCTGTTAT
5798522 TATTTACAT-TGTTAT
1 TATTTACATCTGTTAT
5798537 TATT
1 TATT
5798541 GTAGCAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.63
Consensus pattern (16 bp):
TATTTACATCTGTTAT
Found at i:5801708 original size:23 final size:23
Alignment explanation
Indices: 5801655--5801736 Score: 103
Period size: 23 Copynumber: 3.4 Consensus size: 23
5801645 GAGCCATGAT
5801655 CGGTAAGCTC-ATTCCGAGCTGATAAA
1 CGGTAAGCTCTA-T-CGAGCTG--AAA
5801681 CGGTAAGCTCTATCGAGCTGAAA
1 CGGTAAGCTCTATCGAGCTGAAA
* *
5801704 CGGTAAGCTCTGTAGAGCTGAAA
1 CGGTAAGCTCTATCGAGCTGAAA
5801727 CGGTAAGCTC
1 CGGTAAGCTC
5801737 ATACAAGCTG
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
23 34 0.64
25 7 0.13
26 11 0.21
27 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (23 bp):
CGGTAAGCTCTATCGAGCTGAAA
Found at i:5801745 original size:23 final size:23
Alignment explanation
Indices: 5801655--5801746 Score: 98
Period size: 23 Copynumber: 3.9 Consensus size: 23
5801645 GAGCCATGAT
*
5801655 CGGTAAGCTCATTCCGAGCTGATAAA
1 CGGTAAGCTCA-TACGAGCTG--AAA
5801681 CGGTAAGCTC-TATCGAGCTGAAA
1 CGGTAAGCTCATA-CGAGCTGAAA
*
5801704 CGGTAAGCTCTGTA-GAGCTGAAA
1 CGGTAAGCTC-ATACGAGCTGAAA
*
5801727 CGGTAAGCTCATACAAGCTG
1 CGGTAAGCTCATACGAGCTG
5801747 TGGTGAGTCC
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
22 2 0.03
23 37 0.63
24 1 0.02
25 9 0.15
26 10 0.17
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (23 bp):
CGGTAAGCTCATACGAGCTGAAA
Found at i:5811881 original size:36 final size:36
Alignment explanation
Indices: 5811834--5811988 Score: 157
Period size: 36 Copynumber: 4.0 Consensus size: 36
5811824 GCTAAGCTAC
5811834 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
5811870 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* * *
5811912 CTACCACTTATCACTTTGCCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* * *
5811952 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
5811988 C
1 C
5811989 TAAAGCTACC
Statistics
Matches: 100, Mismatches: 9, Indels: 20
0.78 0.07 0.16
Matches are distributed among these distances:
36 62 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 27 0.27
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:5811921 original size:46 final size:46
Alignment explanation
Indices: 5811870--5812024 Score: 177
Period size: 46 Copynumber: 3.6 Consensus size: 46
5811860 ATAAGTATAG
5811870 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
** *
5811916 CACTTATCACTTTGCCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
5811952 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
5811998 CATTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
5812025 AGTACTCAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
36 26 0.30
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
46 50 0.57
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:5811937 original size:82 final size:82
Alignment explanation
Indices: 5811791--5812024 Score: 384
Period size: 82 Copynumber: 2.9 Consensus size: 82
5811781 TACGTATGAT
* *
5811791 CACTTATCA-TTTGTC-CTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
5811853 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
*
5811870 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGCCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
5811935 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* * *
5811952 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCATTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
5812017 TGATCAGA
66 TGATCAGA
5812025 AGTACTCAAA
Statistics
Matches: 144, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
79 9 0.06
80 5 0.03
81 21 0.15
82 109 0.76
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:5815293 original size:10 final size:10
Alignment explanation
Indices: 5815280--5815363 Score: 59
Period size: 10 Copynumber: 8.4 Consensus size: 10
5815270 TTTAAATATA
5815280 TTTATAAGTT
1 TTTATAAGTT
*
5815290 TTTA-ATACTT
1 TTTATA-AGTT
*
5815300 TTTCTAA-TT
1 TTTATAAGTT
*
5815309 TTAATATAATTT
1 TT--TATAAGTT
5815321 TTTATAAGTT
1 TTTATAAGTT
5815331 TTTATAA-TT
1 TTTATAAGTT
*
5815340 TCTAT-AGTT
1 TTTATAAGTT
*
5815349 TTTAATAATTT
1 TTT-ATAAGTT
5815360 TTTA
1 TTTA
5815364 CGTTTATATA
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
8 1 0.02
9 15 0.25
10 28 0.47
11 11 0.19
12 4 0.07
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (10 bp):
TTTATAAGTT
Found at i:5815352 original size:41 final size:39
Alignment explanation
Indices: 5815280--5815363 Score: 98
Period size: 41 Copynumber: 2.1 Consensus size: 39
5815270 TTTAAATATA
* * *
5815280 TTTATAAGTTTTTAATACTTTTTCTAATTTTAATATAATTT
1 TTTATAAGTTTTTAATAATTTCTATAATTTT-A-ATAATTT
*
5815321 TTTATAAGTTTTT-ATAATTTCTATAGTTTTTAATAATTT
1 TTTATAAGTTTTTAATAATTTCTATA-ATTTTAATAATTT
5815360 TTTA
1 TTTA
5815364 CGTTTATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 11 0.29
40 10 0.26
41 17 0.45
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (39 bp):
TTTATAAGTTTTTAATAATTTCTATAATTTTAATAATTT
Found at i:5815356 original size:29 final size:31
Alignment explanation
Indices: 5815286--5815363 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 31
5815276 TATATTTATA
*
5815286 AGTTTTTAAT-ACTTTTTCTAATTTTAATAT
1 AGTTTTTAATAACTTTTTATAATTTTAATAT
* * * *
5815316 AATTTTTTATAAGTTTTTATAA-TTT-CTAT
1 AGTTTTTAATAACTTTTTATAATTTTAATAT
*
5815345 AGTTTTTAATAATTTTTTA
1 AGTTTTTAATAACTTTTTA
5815364 CGTTTATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 19 0.49
30 11 0.28
31 9 0.23
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (31 bp):
AGTTTTTAATAACTTTTTATAATTTTAATAT
Found at i:5815368 original size:19 final size:19
Alignment explanation
Indices: 5815280--5815361 Score: 76
Period size: 19 Copynumber: 4.2 Consensus size: 19
5815270 TTTAAATATA
*
5815280 TTTATAAGTTTTTAATACTT
1 TTTAT-AGTTTTTAATAATT
* * *
5815300 TTTCTAATTTTAATATAATTT
1 TTTATAGTTTTTA-ATAA-TT
5815321 TTTATAAGTTTTT-ATAATT
1 TTTAT-AGTTTTTAATAATT
*
5815340 TCTATAGTTTTTAATAATT
1 TTTATAGTTTTTAATAATT
5815359 TTT
1 TTT
5815362 TACGTTTATA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
18 7 0.14
19 20 0.41
20 11 0.22
21 6 0.12
22 5 0.10
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTATAGTTTTTAATAATT
Found at i:5816778 original size:30 final size:30
Alignment explanation
Indices: 5816742--5816798 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
5816732 CAGTCATTGT
5816742 ATGTAATGGAGTAGTTTTGATGTATACAAA
1 ATGTAATGGAGTAGTTTTGATGTATACAAA
5816772 ATGTAATGGAGTAGTTTTGATGTATAC
1 ATGTAATGGAGTAGTTTTGATGTATAC
5816799 GGGCGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.39
Consensus pattern (30 bp):
ATGTAATGGAGTAGTTTTGATGTATACAAA
Found at i:5822005 original size:21 final size:21
Alignment explanation
Indices: 5821964--5822023 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
5821954 AAAACTAATT
*
5821964 TACGAAAATATTTATAATTTATA
1 TACGAAAATA--TAAAATTTATA
**
5821987 TATTAAAATATAAAATTTATA
1 TACGAAAATATAAAATTTATA
5822008 TACGAAAATATAAAAT
1 TACGAAAATATAAAAT
5822024 CCGACCAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 24 0.75
23 8 0.25
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TACGAAAATATAAAATTTATA
Found at i:5822666 original size:54 final size:55
Alignment explanation
Indices: 5822579--5822684 Score: 160
Period size: 54 Copynumber: 1.9 Consensus size: 55
5822569 TAAACTAAGT
* * *
5822579 GGGTACCGGCCATCAGTGTCCCAACACTCAATTTTTTTT-TCAAATCTGGTATAA
1 GGGTACCGGCCACCAGTATCCCAACACCCAATTTTTTTTCTCAAATCTGGTATAA
* *
5822633 GGGTGCCGGCCACCAGTATCCCAGCACCCAATTTTTTTTCTCAAATCTGGTA
1 GGGTACCGGCCACCAGTATCCCAACACCCAATTTTTTTTCTCAAATCTGGTA
5822685 CAAGAATGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 34 0.74
55 12 0.26
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (55 bp):
GGGTACCGGCCACCAGTATCCCAACACCCAATTTTTTTTCTCAAATCTGGTATAA
Found at i:5822710 original size:55 final size:54
Alignment explanation
Indices: 5822587--5822714 Score: 175
Period size: 55 Copynumber: 2.4 Consensus size: 54
5822577 GTGGGTACCG
* * ** *
5822587 GCCATCAGTGTCCCAACACTCAATTTTTTTTTCAAATCTGGTATAAGGGTGCCG
1 GCCATCAGTGTCCCAACACCCAATTTTTTTTTCAAATCTGGTACAAGAATGCCA
* * *
5822641 GCCACCAGTATCCCAGCACCCAATTTTTTTTCTCAAATCTGGTACAAGAATGCCA
1 GCCATCAGTGTCCCAACACCCAATTTTTTTT-TCAAATCTGGTACAAGAATGCCA
5822696 GCCATCAGTGTCCCAACAC
1 GCCATCAGTGTCCCAACAC
5822715 ATGAAAAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 27 0.44
55 35 0.56
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (54 bp):
GCCATCAGTGTCCCAACACCCAATTTTTTTTTCAAATCTGGTACAAGAATGCCA
Found at i:5831270 original size:12 final size:12
Alignment explanation
Indices: 5831253--5831278 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5831243 AAGAGAATGG
5831253 AAAAAAAAAAGA
1 AAAAAAAAAAGA
5831265 AAAAAAAAAAGA
1 AAAAAAAAAAGA
5831277 AA
1 AA
5831279 GAAAGTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:5840792 original size:25 final size:27
Alignment explanation
Indices: 5840764--5840813 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
5840754 TTGTTCACTC
* *
5840764 TTTAAC-TAGTTGAT-TTTAAATTTTT
1 TTTAACTTAATTGATATCTAAATTTTT
5840789 TTTAACTTAATTGATATCTAAATTT
1 TTTAACTTAATTGATATCTAAATTT
5840814 GTATTAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 7 0.33
27 8 0.38
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (27 bp):
TTTAACTTAATTGATATCTAAATTTTT
Found at i:5841054 original size:23 final size:22
Alignment explanation
Indices: 5841028--5841074 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
5841018 ATACTTTGAA
* *
5841028 AAATATATAAAATATTATAATAT
1 AAATATACAAAATA-TATAAAAT
*
5841051 AAATTTACAAAATATATAAAAT
1 AAATATACAAAATATATAAAAT
5841073 AA
1 AA
5841075 TTAGAACTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATATACAAAATATATAAAAT
Found at i:5846774 original size:39 final size:39
Alignment explanation
Indices: 5846704--5846780 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
5846694 ATCTTCACTC
* *
5846704 TCTTCTTCTTCCTCCTCCCTCTTCTCTTCCTCATCTTCT
1 TCTTCTTCTTCCTCCTCCCTCTCCTCTTCCTCAACTTCT
* **
5846743 TCTTCTTCTTCTTCCTCGTTCTCCT-TCTCCTCAACTTC
1 TCTTCTTCTTCCTCCTCCCTCTCCTCT-TCCTCAACTTC
5846781 CATTTGTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.04, C:0.44, G:0.01, T:0.51
Consensus pattern (39 bp):
TCTTCTTCTTCCTCCTCCCTCTCCTCTTCCTCAACTTCT
Found at i:5852534 original size:9 final size:9
Alignment explanation
Indices: 5852514--5852553 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
5852504 TTTGGTTAAA
*
5852514 AATTAACTG
1 AATTAACCG
*
5852523 AATTACCCG
1 AATTAACCG
5852532 AATTAACCG
1 AATTAACCG
*
5852541 AATTAACCA
1 AATTAACCG
5852550 AATT
1 AATT
5852554 GAATCTCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:5852696 original size:18 final size:18
Alignment explanation
Indices: 5852656--5852699 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5852646 AATTTTTATT
* **
5852656 ATTGAGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
5852674 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
5852692 CTTGGGTT
1 ATTGGGTT
5852700 TGGATTGTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:5854357 original size:19 final size:20
Alignment explanation
Indices: 5854333--5854388 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
5854323 TTACATAAAA
5854333 AAAGAAATATAAAAAAAC-T
1 AAAGAAATATAAAAAAACTT
*
5854352 AAAGAATATATTAAAAAACTT
1 AAAGAA-ATATAAAAAAACTT
5854373 AAA-AAATATAAAAAAA
1 AAAGAAATATAAAAAAA
5854389 ACCTACACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.48
20 13 0.39
21 4 0.12
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (20 bp):
AAAGAAATATAAAAAAACTT
Found at i:5854367 original size:20 final size:21
Alignment explanation
Indices: 5854333--5854390 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
5854323 TTACATAAAA
5854333 AAAGAA-ATATAAAAAAAC-T
1 AAAGAATATATAAAAAAACTT
*
5854352 AAAGAATATATTAAAAAACTT
1 AAAGAATATATAAAAAAACTT
*
5854373 AAAAAATATA-AAAAAAAC
1 AAAGAATATATAAAAAAAC
5854391 CTACACAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.18
20 18 0.53
21 10 0.29
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.19
Consensus pattern (21 bp):
AAAGAATATATAAAAAAACTT
Found at i:5854413 original size:24 final size:23
Alignment explanation
Indices: 5854386--5854434 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
5854376 AAATATAAAA
* *
5854386 AAAACCTACACAACCTTAAATCCT
1 AAAACCTACAAAACCCTAAA-CCT
*
5854410 AAAATCTACAAAACCCTAAACCT
1 AAAACCTACAAAACCCTAAACCT
5854433 AA
1 AA
5854435 CCCTACTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (23 bp):
AAAACCTACAAAACCCTAAACCT
Found at i:5857896 original size:21 final size:22
Alignment explanation
Indices: 5857847--5857896 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
5857837 AGTATATATT
* * *
5857847 ATTTTTATTTTATTTTTAGTAA
1 ATTTATATTTTATTTTCACTAA
*
5857869 TTTTATATTTTA-TTTCACTAA
1 ATTTATATTTTATTTTCACTAA
5857890 ATTTATA
1 ATTTATA
5857897 AACATTTGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTATATTTTATTTTCACTAA
Found at i:5858076 original size:16 final size:16
Alignment explanation
Indices: 5858055--5858092 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
5858045 TTTGGTTCGT
5858055 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAAC
* *
5858071 TGTAATTGAATAGAGC
1 TGTAATGGAATAGAAC
5858087 TGTAAT
1 TGTAAT
5858093 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (16 bp):
TGTAATGGAATAGAAC
Found at i:5858307 original size:37 final size:37
Alignment explanation
Indices: 5858254--5858347 Score: 120
Period size: 37 Copynumber: 2.5 Consensus size: 37
5858244 TATTGTTATT
5858254 AAATTTTAATAA-AATTATTAATATAA-ATAATTTAATA
1 AAATTTTAA-AATAATTATTAATA-AATATAATTTAATA
* * *
5858291 ATATTTTAACATAATTATTATTAAATATAATTTAATA
1 AAATTTTAAAATAATTATTAATAAATATAATTTAATA
5858328 AAATTCTTAAAATAATTATT
1 AAATT-TTAAAATAATTATT
5858348 CTTATATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
36 3 0.06
37 33 0.67
38 13 0.27
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (37 bp):
AAATTTTAAAATAATTATTAATAAATATAATTTAATA
Done.