Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 148 of 313
Found at i:47144483 original size:100 final size:104
Alignment explanation
Indices: 47144304--47144553 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
47144294 TGATAATAAC
**
47144304 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
47144369 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
47144406 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
47144469 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
47144511 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47144554 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:47144669 original size:13 final size:13
Alignment explanation
Indices: 47144648--47144679 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
47144638 GCTTGGATCA
*
47144648 TCATCAAATAAAT
1 TCATAAAATAAAT
47144661 TCATAAAATAAAT
1 TCATAAAATAAAT
47144674 TCATAA
1 TCATAA
47144680 TTGCTGGAAA
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:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:47151948 original size:50 final size:50
Alignment explanation
Indices: 47151877--47152061 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
47151867 ACATGCCAAA
47151877 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
47151927 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
47151977 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
47152027 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47152062 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:47152177 original size:13 final size:13
Alignment explanation
Indices: 47152156--47152187 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
47152146 GCTTGGATCA
*
47152156 TCATCAAATAAAT
1 TCATAAAATAAAT
47152169 TCATAAAATAAAT
1 TCATAAAATAAAT
47152182 TCATAA
1 TCATAA
47152188 TTGCTGGAAA
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:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:47152434 original size:29 final size:30
Alignment explanation
Indices: 47152397--47152456 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
47152387 GCCCTCGACT
*
47152397 CTAACTTTTT-CAAAATTACAATTTTGCCC
1 CTAAATTTTTACAAAATTACAATTTTGCCC
* *
47152426 CTAAATTTTTACATAATTACATTTTTGCCC
1 CTAAATTTTTACAAAATTACAATTTTGCCC
47152456 C
1 C
47152457 AAGTCTCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.43
Consensus pattern (30 bp):
CTAAATTTTTACAAAATTACAATTTTGCCC
Found at i:47154445 original size:23 final size:23
Alignment explanation
Indices: 47154400--47154446 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
47154390 TAAAAATAAT
*
47154400 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
47154423 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
47154446 A
1 A
47154447 TAATAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:47154464 original size:76 final size:77
Alignment explanation
Indices: 47154348--47154494 Score: 190
Period size: 76 Copynumber: 1.9 Consensus size: 77
47154338 ATAGTTTTTT
*
47154348 ACTAAAAATAATACTAACTAACAATAATAATTAGGGTTTTACTAAAAATAATAACTAACAATAAT
1 ACTAAAAATAATACTAACTAACAATAATAATTAGAGTTTTACTAAAAATAATAACTAACAATAAT
47154413 -ATAATGTAAAA
66 AATAATGTAAAA
* * * **** *
47154424 ACTAACAATCATACTAACTAA-AATAATAATTACGATTTTTACTACTCCTAATAACTAACCATAA
1 ACTAAAAATAATACTAACTAACAATAATAATTA-GAGTTTTACTAAAAATAATAACTAACAATAA
47154488 TAATAAT
65 TAATAAT
47154495 ATTAATTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
75 11 0.18
76 44 0.73
77 5 0.08
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (77 bp):
ACTAAAAATAATACTAACTAACAATAATAATTAGAGTTTTACTAAAAATAATAACTAACAATAAT
AATAATGTAAAA
Found at i:47154671 original size:21 final size:24
Alignment explanation
Indices: 47154639--47154681 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
47154629 AACTAACAAC
47154639 AAAAAACAATAA-AA-AATATACA
1 AAAAAACAATAATAACAATATACA
47154661 AAAAAAC-ATAATAACAATATA
1 AAAAAACAATAATAACAATATA
47154682 ATTCATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.16
Consensus pattern (24 bp):
AAAAAACAATAATAACAATATACA
Found at i:47154764 original size:22 final size:21
Alignment explanation
Indices: 47154723--47154781 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
47154713 TTTCTATTTT
*
47154723 TTTTCT-TCTCTTTCTT-TCTCC
1 TTTTCTAT-TCTTT-TTCTCTCA
47154744 TTTCTCTATTCTTTTTCTCTCA
1 TTT-TCTATTCTTTTTCTCTCA
*
47154766 TTTTCTTTTCTTTTTC
1 TTTTCTATTCTTTTTC
47154782 GACGACTCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 17 0.52
22 15 0.45
23 1 0.03
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTCTATTCTTTTTCTCTCA
Found at i:47154891 original size:27 final size:27
Alignment explanation
Indices: 47154861--47154932 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
47154851 AATGGTGCAG
* * *
47154861 TGGTGCCGCCTGTGGCAGTGGTACCTT
1 TGGTGCCACCTGTGGCAGAGGCACCTT
* * *
47154888 TGGTGCCACCTCTGCCACAGGCACCTT
1 TGGTGCCACCTGTGGCAGAGGCACCTT
* *
47154915 TGGTGTCTCCTGTGGCAG
1 TGGTGCCACCTGTGGCAG
47154933 GCCCTCCACC
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.10, C:0.31, G:0.32, T:0.28
Consensus pattern (27 bp):
TGGTGCCACCTGTGGCAGAGGCACCTT
Found at i:47155355 original size:20 final size:19
Alignment explanation
Indices: 47155332--47155379 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
47155322 TTGTGTTAGT
*
47155332 AAAAAAATGAATGAAAAAG
1 AAAAAAAAGAATGAAAAAG
**
47155351 AAAAAAAAGTTTGAAAAAG
1 AAAAAAAAGAATGAAAAAG
47155370 AAAAAAAAGA
1 AAAAAAAAGA
47155380 GCTGGAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAAAAAAGAATGAAAAAG
Found at i:47155388 original size:20 final size:19
Alignment explanation
Indices: 47155343--47155389 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
47155333 AAAAAATGAA
**
47155343 TGAAAAAGAAAAAAAAGTT
1 TGAAAAAGAAAAAAAAGGC
47155362 TGAAAAAGAAAAAAAAGAGC
1 TGAAAAAGAAAAAAAAG-GC
*
47155382 TGGAAAAG
1 TGAAAAAG
47155390 CAGAAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.66, C:0.02, G:0.21, T:0.11
Consensus pattern (19 bp):
TGAAAAAGAAAAAAAAGGC
Found at i:47159649 original size:23 final size:23
Alignment explanation
Indices: 47159619--47159663 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
47159609 GTATGTTTTG
47159619 AATGTTTGAGATTAAGCAATTTA
1 AATGTTTGAGATTAAGCAATTTA
**
47159642 AATGTTTGAGATTGTGCAATTT
1 AATGTTTGAGATTAAGCAATTT
47159664 GGGTCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.42
Consensus pattern (23 bp):
AATGTTTGAGATTAAGCAATTTA
Found at i:47161245 original size:59 final size:59
Alignment explanation
Indices: 47161178--47161359 Score: 141
Period size: 59 Copynumber: 3.2 Consensus size: 59
47161168 GGAATGCTAC
47161178 AACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAGAGAAGGCAACATGAATGGG
1 AACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAGAGAAGGCAACATGAATGGG
* * **** * * * * **
47161237 AACGGGACTG-CAGGT--GCA---T-C-AC-TTGCCACAGTTGAAGGTTGAAC-GGAATGCTAC
1 AACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAG-AGAAGG--CAACATGAATG--GG
47161291 AACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAGAGAAGGCAACATGAATGGG
1 AACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAGAGAAGGCAACATGAATGGG
47161350 AACGGGACTG
1 AACGGGACTG
47161360 CAGGTGCATC
Statistics
Matches: 84, Mismatches: 24, Indels: 30
0.61 0.17 0.22
Matches are distributed among these distances:
50 4 0.05
51 7 0.08
52 6 0.07
53 4 0.05
54 10 0.12
55 4 0.05
56 2 0.02
57 2 0.02
58 4 0.05
59 20 0.24
60 4 0.05
61 6 0.07
62 7 0.08
63 4 0.05
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.13
Consensus pattern (59 bp):
AACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAGAGAAGGCAACATGAATGGG
Found at i:47161359 original size:113 final size:113
Alignment explanation
Indices: 47161161--47161386 Score: 452
Period size: 113 Copynumber: 2.0 Consensus size: 113
47161151 TAGTTCGAGC
47161161 GTTGAACGGAATGCTACAACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAGAGAAGGCA
1 GTTGAACGGAATGCTACAACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAGAGAAGGCA
47161226 ACATGAATGGGAACGGGACTGCAGGTGCATCACTTGCCACAGTTGAAG
66 ACATGAATGGGAACGGGACTGCAGGTGCATCACTTGCCACAGTTGAAG
47161274 GTTGAACGGAATGCTACAACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAGAGAAGGCA
1 GTTGAACGGAATGCTACAACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAGAGAAGGCA
47161339 ACATGAATGGGAACGGGACTGCAGGTGCATCACTTGCCACAGTTGAAG
66 ACATGAATGGGAACGGGACTGCAGGTGCATCACTTGCCACAGTTGAAG
47161387 TAATAGACCT
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (113 bp):
GTTGAACGGAATGCTACAACGGGACTGAGAGGTAAGAAGGGTACAACACAAACTCAGAGAAGGCA
ACATGAATGGGAACGGGACTGCAGGTGCATCACTTGCCACAGTTGAAG
Found at i:47170197 original size:31 final size:31
Alignment explanation
Indices: 47170162--47170222 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
47170152 TTAACATGGA
47170162 TAAATTTTCTAAA-AGTTT-TTATGATTTTTTT
1 TAAATTTT-TAAATA-TTTATTATGATTTTTTT
*
47170193 TAAATTTTTAAATATTTATTATTATTTTTT
1 TAAATTTTTAAATATTTATTATGATTTTTT
47170223 AACCTTGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (31 bp):
TAAATTTTTAAATATTTATTATGATTTTTTT
Found at i:47171235 original size:254 final size:253
Alignment explanation
Indices: 47170312--47171524 Score: 1981
Period size: 254 Copynumber: 4.8 Consensus size: 253
47170302 TAAAAAAATA
* * * * * *
47170312 AGGGCCAAAATG--AAAAATGTTTAAACATTAGGGGCTAAATTTACCTTCATGCCTAAATATAAA
1 AGGGCCAAAATGAAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATATAAA
* ** * *
47170375 GGCCCAATTGTTAAAAAAATTTTC-AAAAAAACTCCGATAC-CTTTTTTAAAGAATAGAATATCT
66 GCCCCAATTGTT--AAATTTTTTCTAAAAAAACTCTGATACTTTTTTTTAAAGAATAGAATATCT
* *
47170438 TTCTACAACTTTCTTTCTTTTTTCCCTTCAAATGTGTATTCTTAATTCCCCAATGATGGAAAACC
129 TTCTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACC
*
47170503 TTGCCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTT-AAAGATG
194 TTGCCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTG
47170562 AGGGCCAAAATGAAAAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATATA
1 AGGGCCAAAATG--AAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATATA
* *
47170627 AAGCCCCAATTGTTAAATTTTTTTCTAAAAAAACTCGGATACTTTTTTTAAAAGAATAGAATATC
64 AAGCCCCAATTGTTAAA-TTTTTTCTAAAAAAACTCTGATACTTTTTTTTAAAGAATAGAATATC
*
47170692 TTTCTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAAG
128 TTTCTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAAC
* *
47170757 CTTGCCAATGTCGTTAAAAATTTAGAATTTCAATCAAAATTTTCGTAAATTTTAAAAGTTG
193 CTTGCCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTG
*
47170818 -GGGACCAAAATGAAAAAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTACACCTAAATA
1 AGGG-CCAAAATG---AAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATA
47170882 TAAAGCCCCAATTGTTAAATTTTTTCTAAAAAAACTCTGATACTTTTTTTTAAAGAATAGAATAT
62 TAAAGCCCCAATTGTTAAATTTTTTCTAAAAAAACTCTGATACTTTTTTTTAAAGAATAGAATAT
* * *
47170947 CTTTCTACAACTTTATTTCATTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAGTGATGGAAAA
127 CTTTCTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAA
47171012 CCTTGCCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTG
192 CCTTGCCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTG
* *
47171074 GGGGCCAAAATGAAAAAAATGATTAAACATTAGGGTCTGATTTTTATCTTTATACCTAAATATAA
1 AGGGCCAAAATGAAAAAAATGATTAAACATTAGGGGCTGA-TTTTATCTTTATACCTAAATATAA
47171139 AGCCCCAATTGTTAAATTTTTTCTAAAAAAACTCTGATACTTTTTTTTAAAGAATAGAATATCTT
65 AGCCCCAATTGTTAAATTTTTTCTAAAAAAACTCTGATACTTTTTTTTAAAGAATAGAATATCTT
47171204 TCTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACCT
130 TCTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACCT
* *
47171269 TGCCAATGTCGTTAAAAATTTAGCATTTCGATCAAATTTTTCATAAATTTTAAAAGTTG
195 TGCCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTG
* * * *
47171328 AAGGCCAAAATAAAAAAAATGATTAAACATTAGAGGCTGATTTTATCTTTACACCTAAATATAAA
1 AGGGCCAAAATGAAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATATAAA
*
47171393 GCCCCAATTGTTAAATTTTTTTCTAAAAAAAC-CTTGATACTTTTTTTTAAAGAATAGGATATCT
66 GCCCCAATTGTTAAA-TTTTTTCTAAAAAAACTC-TGATACTTTTTTTTAAAGAATAGAATATCT
47171457 TTCTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACC
129 TTCTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACC
47171522 TTG
194 TTG
47171525 GCAAAATTAA
Statistics
Matches: 908, Mismatches: 41, Indels: 24
0.93 0.04 0.02
Matches are distributed among these distances:
250 12 0.01
252 3 0.00
253 72 0.08
254 426 0.47
255 136 0.15
256 187 0.21
257 72 0.08
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (253 bp):
AGGGCCAAAATGAAAAAAATGATTAAACATTAGGGGCTGATTTTATCTTTATACCTAAATATAAA
GCCCCAATTGTTAAATTTTTTCTAAAAAAACTCTGATACTTTTTTTTAAAGAATAGAATATCTTT
CTACAACTTTCTTTCCTTTTTCCCTTCAAATGTGTATTCTTAATTCCCTAATGATGGAAAACCTT
GCCAATGTCGTTAAAAATTTAGCATTTCAATCAAATTTTTCGTAAATTTTAAAAGTTG
Found at i:47177567 original size:11 final size:11
Alignment explanation
Indices: 47177551--47177584 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
47177541 AATATGGTGT
47177551 AAAGAAAATAA
1 AAAGAAAATAA
47177562 AAAGAAAATAA
1 AAAGAAAATAA
* *
47177573 AACGAGAATAA
1 AAAGAAAATAA
47177584 A
1 A
47177585 TAAAAAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.76, C:0.03, G:0.12, T:0.09
Consensus pattern (11 bp):
AAAGAAAATAA
Found at i:47181441 original size:21 final size:21
Alignment explanation
Indices: 47181401--47181456 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
47181391 TTCAATTTAG
**
47181401 ATTAATTAA-TATAATAATAC
1 ATTAATTAATTATTTTAATAC
*
47181421 -TTGATTATATTATTTTAATAC
1 ATTAATTA-ATTATTTTAATAC
47181442 ATTAATTAATTATTT
1 ATTAATTAATTATTT
47181457 ATGACCCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 6 0.21
20 1 0.03
21 16 0.55
22 6 0.21
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTAATTAATTATTTTAATAC
Found at i:47181569 original size:19 final size:19
Alignment explanation
Indices: 47181545--47181582 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47181535 ACAAACTAAA
47181545 TTATTCTAACCCAGTTTTT
1 TTATTCTAACCCAGTTTTT
47181564 TTATTCTAACCCAGTTTTT
1 TTATTCTAACCCAGTTTTT
47181583 GTGGTGTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TTATTCTAACCCAGTTTTT
Found at i:47183345 original size:16 final size:16
Alignment explanation
Indices: 47183324--47183395 Score: 90
Period size: 16 Copynumber: 4.5 Consensus size: 16
47183314 CGTTTAGTTC
47183324 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
47183340 GCTGTAATGGAATAGC
1 GCTGTAATGGAATAGA
* *
47183356 GTTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
* *
47183372 ACTATAATGGAATAGA
1 GCTGTAATGGAATAGA
*
47183388 GCTATAAT
1 GCTGTAAT
47183396 CAGTAATTCA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:47183697 original size:63 final size:61
Alignment explanation
Indices: 47183581--47183701 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 61
47183571 TAAATTTAAT
* * * *
47183581 AATAAATAATTTAGTCATATTTTAATATAATTATTACCAAATATAATTTAATAAAAATGAA
1 AATAAATAATTTAGTAACATTTGAATATAATTATTACAAAATATAATTTAATAAAAATGAA
* *
47183642 AATATATAATTTAGTAACATTCTGAATATAATTATTATTAAAATATGAA-TTAATAAAAAT
1 AATAAATAATTTAGTAACATT-TGAATATAATTATTA-CAAAATAT-AATTTAATAAAAAT
47183702 CATAACATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
61 18 0.35
62 14 0.27
63 17 0.33
64 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (61 bp):
AATAAATAATTTAGTAACATTTGAATATAATTATTACAAAATATAATTTAATAAAAATGAA
Found at i:47191390 original size:9 final size:9
Alignment explanation
Indices: 47191373--47191409 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47191363 TGAGTTTTCG
47191373 AATTCGAAT
1 AATTCGAAT
*
47191382 AACTCGAAT
1 AATTCGAAT
47191391 AATTCGAAT
1 AATTCGAAT
47191400 AATTCGAAT
1 AATTCGAAT
47191409 A
1 A
47191410 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47194880 original size:50 final size:49
Alignment explanation
Indices: 47194796--47195182 Score: 247
Period size: 50 Copynumber: 7.7 Consensus size: 49
47194786 TGAGAGAGTG
* * * *
47194796 AGATTCGTCATTGTGACTTTAATCCT-TTTAACTGCAATGTCGGGAAAGCA
1 AGATTCGCCGTTGTGGCTTTAAT-CTGTTTCACTGCAATGTCGGG-AAGCA
** * * * * *
47194846 AGATTTACCGTTGTGGTTTTAATCTGCTTCACTGCATTGCCAGGGAATGTA
1 AGATTCGCCGTTGTGGCTTTAATCTGTTTCACTGCAATGTC-GGGAA-GCA
* * * * *
47194897 AGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCA
1 AGATTCGCCGTTGTGGCTTTAATCTGTTTCACTGCAATGTCG-GGAAGCA
* * * * * * * *
47194947 GGATACGCCATTGTGGCTTTAATCTGCTCCACTGCATTGCCAGGGAAGTA
1 AGATTCGCCGTTGTGGCTTTAATCTGTTTCACTGCAATGTC-GGGAAGCA
* * * * * * * * *
47194997 ACACTCACCGCTGTGGCTTTAGTATTTTTAACTGTAATGTCGGGGAAGCA
1 AGATTCGCCGTTGTGGCTTTAATCTGTTTCACTGCAATGTC-GGGAAGCA
* * * * * *
47195047 AGATTCACCGATGTGGCTTTAATCTGTTTCGCTGC-ATCGCCTGGGGAGTA
1 AGATTCGCCGTTGTGGCTTTAATCTGTTTCACTGCAAT-GTC-GGGAAGCA
* * * * *
47195097 AGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCA
1 AGATTCGCCGTTGTGGCTTTAATCTGTTTCACTGCAATGTC-GGGAAGCA
* * *
47195147 TGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCA
1 AGATTCGCCGTTGTGGCTTTAATCTGTTTCACTGCA
47195183 CCGCTTGGGA
Statistics
Matches: 245, Mismatches: 85, Indels: 14
0.71 0.25 0.04
Matches are distributed among these distances:
49 4 0.02
50 199 0.81
51 42 0.17
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (49 bp):
AGATTCGCCGTTGTGGCTTTAATCTGTTTCACTGCAATGTCGGGAAGCA
Found at i:47195062 original size:100 final size:100
Alignment explanation
Indices: 47194744--47195182 Score: 438
Period size: 100 Copynumber: 4.4 Consensus size: 100
47194734 TTTGGAAAGT
* * * * * * *
47194744 AAGATTCGCC-ATCGTGGCTTTAATCTGCTCTACTGCACTGGCTGAGAGAGTGAGATTCG-T-CA
1 AAGATTCACCGAT-GTGGCTTTAATCTGCTCCACTGCATTGCCAGGGA-AGTAAGATTCGCTGC-
* *
47194806 TTGT-GACTTTAATCCTTTTAACTGCAATGTCGGGAAAGC
63 -TGTAG-CTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * *
47194845 AAGATTTACCGTTGTGGTTTTAATCTGCTTCACTGCATTGCCAGGGAATGTAAGATTCGCTGCTG
1 AAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCATTGCCAGGGAA-GTAAGATTCGCTGCTG
*
47194910 TAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGC
65 TAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * * * *
47194946 AGGATACGCC-ATTGTGGCTTTAATCTGCTCCACTGCATTGCCAGGGAAGTAACACTCACCGCTG
1 AAGATTCACCGA-TGTGGCTTTAATCTGCTCCACTGCATTGCCAGGGAAGTAAGATTCGCTGCTG
* * * *
47195010 TGGCTTTAGTATTTTTAACTGTAATGTCGGGGAAGC
65 TAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * * * * *
47195046 AAGATTCACCGATGTGGCTTTAATCTGTTTCGCTGCATCGCCTGGGGAGTAAGATTTGCTGTTGT
1 AAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCATTGCCAGGGAAGTAAGATTCGCTGCTGT
47195111 AGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
66 AGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * *
47195146 ATGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCA
1 AAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCA
47195183 CCGCTTGGGA
Statistics
Matches: 276, Mismatches: 55, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
100 154 0.56
101 118 0.43
102 3 0.01
103 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (100 bp):
AAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCATTGCCAGGGAAGTAAGATTCGCTGCTGT
AGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
Found at i:47195136 original size:200 final size:201
Alignment explanation
Indices: 47194821--47195182 Score: 555
Period size: 200 Copynumber: 1.8 Consensus size: 201
47194811 ACTTTAATCC
* * * *
47194821 TTTTAACTGCAATGTCGGGAAAGCAAGATTTACCGTTGTGGTTTTAATCTGCTTCACTGCATTGC
1 TTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGATGTGGCTTTAATCTGCTTCACTGCATCGC
47194886 CAGGGAATGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAGGAT
66 CAGGGAATGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAGGAT
47194951 ACGCCATTGTGGCTTTAATCTGCTCCACTGCATTGCCAGGGAAGTAACACTCACCGCTGTGGCTT
131 ACGCCATTGTGGCTTTAATCTGCTCCACTGCATTGCCAGGGAAGTAACACTCACCGCTGTGGCTT
47195016 TAGTAT
196 TAGTAT
* * * *
47195022 TTTTAACTGTAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTTCGCTGCATCGC
1 TTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGATGTGGCTTTAATCTGCTTCACTGCATCGC
* * * * * *
47195087 CTGGGGA-GTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCATGAT
66 CAGGGAATGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAGGAT
* ** *
47195151 TCGCTGTTGTGGCTTTAATCTGTTCCACTGCA
131 ACGCCATTGTGGCTTTAATCTGCTCCACTGCA
47195183 CCGCTTGGGA
Statistics
Matches: 143, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
200 81 0.57
201 62 0.43
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (201 bp):
TTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGATGTGGCTTTAATCTGCTTCACTGCATCGC
CAGGGAATGTAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAGGAT
ACGCCATTGTGGCTTTAATCTGCTCCACTGCATTGCCAGGGAAGTAACACTCACCGCTGTGGCTT
TAGTAT
Found at i:47195315 original size:44 final size:44
Alignment explanation
Indices: 47195256--47195470 Score: 132
Period size: 44 Copynumber: 4.7 Consensus size: 44
47195246 ACCTGATGCG
* * *
47195256 ATCTACTCTACTGTAA-CTTCAGAGAGATAAAATCTTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAAATCTTTTATTTTA
* * ** * *
47195300 ATCTGCTCCACTGTAATCTCAGGGAGATGAGAT-TACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAAATCTTTTA-TTTTA
* * * *
47195344 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTTAATCTA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAA-A-ATCT---TTTATTTTA
* * *
47195393 ATGC-GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 AT-CTG--CT-C-C-ACTGTAATC-TCAGGGAGATAAAATCTTTTATTTTA
47195442 ATCTGCTCCACTGTAATCTCAGGGAGATA
1 ATCTGCTCCACTGTAATCTCAGGGAGATA
47195471 GGATTACTGG
Statistics
Matches: 128, Mismatches: 26, Indels: 34
0.68 0.14 0.18
Matches are distributed among these distances:
43 3 0.02
44 74 0.58
45 3 0.02
46 2 0.02
47 3 0.02
48 1 0.01
49 15 0.12
50 3 0.02
51 2 0.02
52 3 0.02
53 2 0.02
54 17 0.13
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAAATCTTTTATTTTA
Found at i:47195706 original size:88 final size:88
Alignment explanation
Indices: 47195608--47195835 Score: 377
Period size: 88 Copynumber: 2.6 Consensus size: 88
47195598 GGACTTGTAA
* *
47195608 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGA-TCCACTG
1 TCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAGATCTGTTATCTTTAACCT-ACTCCACTG
47195672 CAACCGATGGAGGCAAGGCTAGGG
65 CAACCGATGGAGGCAAGGCTAGGG
*
47195696 TCTTCGATCTGCTTCACTGTCTATGTAGGAAGGCAAGATCTGTTATCTTTAACCTACTCCACTGC
1 TCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAGATCTGTTATCTTTAACCTACTCCACTGC
*
47195761 AGCCGATGGAGGCAAGGCTAGGG
66 AACCGATGGAGGCAAGGCTAGGG
* * *
47195784 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAAATATGTTATCTTTAA
1 TCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAGATCTGTTATCTTTAA
47195836 TTATTAATTA
Statistics
Matches: 131, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
87 1 0.01
88 130 0.99
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTGCTTCACTGTCTATGCAGGAAGGCAAGATCTGTTATCTTTAACCTACTCCACTGC
AACCGATGGAGGCAAGGCTAGGG
Found at i:47196544 original size:12 final size:12
Alignment explanation
Indices: 47196503--47196546 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
47196493 AAAAAGGAAT
47196503 AATAAGAATAAAA
1 AATAA-AATAAAA
* *
47196516 AACTAAGATAAAT
1 AA-TAAAATAAAA
47196529 AATAAAATAAAA
1 AATAAAATAAAA
47196541 AATAAA
1 AATAAA
47196547 CAAACTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 14 0.54
13 9 0.35
14 3 0.12
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (12 bp):
AATAAAATAAAA
Found at i:47196559 original size:25 final size:25
Alignment explanation
Indices: 47196500--47196560 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
47196490 ATAAAAAAGG
*
47196500 AATAATAAGAATAAAAAACTAAGATA
1 AATAATAA-AATAAAAAACTAAGACA
47196526 AATAATAAAATAAAAAA-TAA-ACA
1 AATAATAAAATAAAAAACTAAGACA
47196549 AACTAATTAAAA
1 AA-TAA-TAAAA
47196561 ATATGAGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 4 0.12
24 6 0.19
25 14 0.44
26 8 0.25
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (25 bp):
AATAATAAAATAAAAAACTAAGACA
Found at i:47196561 original size:44 final size:43
Alignment explanation
Indices: 47196513--47196605 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 43
47196503 AATAAGAATA
*
47196513 AAAAACTAAGA-TAAAT-AATAAAATAAAAAATAAACAAACTAATT
1 AAAAA-TAAGAGTAAATAAAT-AAATAAAAAATAAA-AAAATAATT
* * * *
47196557 AAAAATATGAGTAAGTAAATAAATGAAAACTAAAAAAATAATT
1 AAAAATAAGAGTAAATAAATAAATAAAAAATAAAAAAATAATT
47196600 AAAAAT
1 AAAAAT
47196606 TTAATAGTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
43 18 0.43
44 21 0.50
45 3 0.07
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (43 bp):
AAAAATAAGAGTAAATAAATAAATAAAAAATAAAAAAATAATT
Found at i:47196682 original size:12 final size:12
Alignment explanation
Indices: 47196659--47196756 Score: 63
Period size: 12 Copynumber: 8.2 Consensus size: 12
47196649 AAAACAGTTC
47196659 AAAAATAA-AAT
1 AAAAATAATAAT
47196670 AAAAATAATAAT
1 AAAAATAATAAT
**** *
47196682 AGTGGTAAAAAT
1 AAAAATAATAAT
*
47196694 AAAAAGAATAAT
1 AAAAATAATAAT
** *
47196706 ATTAGTAATAAT
1 AAAAATAATAAT
* *
47196718 AAAAGTAATAGT
1 AAAAATAATAAT
* *
47196730 AATAGTAATAAT
1 AAAAATAATAAT
*
47196742 AACAATAATAAT
1 AAAAATAATAAT
47196754 AAA
1 AAA
47196757 TACAATAAGA
Statistics
Matches: 63, Mismatches: 23, Indels: 1
0.72 0.26 0.01
Matches are distributed among these distances:
11 8 0.13
12 55 0.87
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:47196693 original size:24 final size:24
Alignment explanation
Indices: 47196665--47196797 Score: 101
Period size: 24 Copynumber: 5.6 Consensus size: 24
47196655 GTTCAAAAAT
* *
47196665 AAAATAAAAATAATAATAGTGGTA
1 AAAATAAAAATAATAATAATAGTA
* *
47196689 AAAATAAAAAGAATAATATTAGTA
1 AAAATAAAAATAATAATAATAGTA
* * *
47196713 ATAATAAAAGTAATAGTAATAGTA
1 AAAATAAAAATAATAATAATAGTA
* *
47196737 ATAATAACAATAATAATAA-A-T-
1 AAAATAAAAATAATAATAATAGTA
* * * * *
47196758 ACAATAAGAGTAATAGTAATATTAAA
1 AAAATAAAAATAATAATAATAGT--A
47196784 AAAATAAAAATAAT
1 AAAATAAAAATAAT
47196798 GGTAATACTA
Statistics
Matches: 86, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
21 15 0.17
22 2 0.02
23 2 0.02
24 56 0.65
26 11 0.13
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (24 bp):
AAAATAAAAATAATAATAATAGTA
Found at i:47196741 original size:15 final size:15
Alignment explanation
Indices: 47196700--47196778 Score: 52
Period size: 15 Copynumber: 5.1 Consensus size: 15
47196690 AAATAAAAAG
*
47196700 AATAATATTAGTAAT
1 AATAATAATAGTAAT
47196715 AATAAAAGTAATAGTAAT
1 AAT--AA-TAATAGTAAT
* **
47196733 AGTAATAATAACAAT
1 AATAATAATAGTAAT
*
47196748 AATAATAAATA-CAAT
1 AATAAT-AATAGTAAT
* *
47196763 AAGAGTAATAGTAAT
1 AATAATAATAGTAAT
47196778 A
1 A
47196779 TTAAAAAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
14 4 0.08
15 28 0.55
16 6 0.12
17 2 0.04
18 11 0.22
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.29
Consensus pattern (15 bp):
AATAATAATAGTAAT
Found at i:47197646 original size:19 final size:20
Alignment explanation
Indices: 47197610--47197647 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47197600 CTAATGCGTT
*
47197610 ATTTTCTTGTTGATTTTTTG
1 ATTTTCTTGCTGATTTTTTG
47197630 ATTTTCTTGCT-ATTTTTT
1 ATTTTCTTGCTGATTTTTT
47197648 CTGCCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.11, C:0.08, G:0.11, T:0.71
Consensus pattern (20 bp):
ATTTTCTTGCTGATTTTTTG
Found at i:47198362 original size:44 final size:43
Alignment explanation
Indices: 47198291--47199123 Score: 590
Period size: 44 Copynumber: 18.8 Consensus size: 43
47198281 GCCCATCCTC
* * * * *
47198291 AATCTACTCCATTGCAACCTCAAGGAGATAAGATTAGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATCTTT
* * * * *
47198335 AACCTGCTCCACTGCAATTTCAGGGAGATAAGGCTGGT-TACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTGTAT-CTTT
* * * * *
47198379 AGTCTGCCCCACTACAACTTCAGAGG-GATAAGACTTGCTTTCTTC
1 AATCTGCTCCACTGCAACTTCAG-GGAGATAAGA-TTG-TATCTTT
* *
47198424 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTT
* * *
47198468 AATCTGCTCCACTGCAATTTCAGGGAGATAGGATTAT-TGACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAT--CTTT
** * * * *
47198512 AATCTGCTCCACTAAAATTTTAGGGAGATAAGATTCGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TATCTTT
* * * *
47198557 AGTCTGCTCCACTACAACTTCAGGG-GCATAAGACTAGT-TACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAG-ATAAGA-TTGTAT-CTTT
* * * * * * *
47198601 AGTCTGCCCCATTGCAACTTTAGAGG-GATAATACTTGCTTTCTTC
1 AATCTGCTCCACTGCAACTTCAG-GGAGATAAGA-TTG-TATCTTT
* *
47198646 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTT
* * * * *
47198690 AATCTGCTCCACTACAACCTCAGGGAGATAGGATTAT-TGGATTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAT--CTTT
* * *
47198734 AATTTGCTCCA-TGCAACTTCAGGGAGATAAGATTCGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TATCTTT
* * * * *
47198778 AGTTTGCCCCACTGCAACTTTA-GGAGGATAAGACTTGCTTTCTTT
1 AATCTGCTCCACTGCAACTTCAGGGA-GATAAGA-TTG-TATCTTT
* * *
47198823 AGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTT
* * * *
47198867 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAT-TGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAT--CTTT
*
47198911 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TATCTTT
* * * * * *
47198956 AGTCTGCCCCATTGCAACTTCA-GGAGGATAAGTCTTGCTTTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGA-GATAAG-ATTG-TATCTTT
* * * *
47199001 AGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTATCTTT
** * * *
47199045 AATCCACTCCACTGCAACTTTAGGGAGATAAGATTATTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTATCTTT
*
47199089 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
47199124 CGCCATCTTC
Statistics
Matches: 640, Mismatches: 111, Indels: 76
0.77 0.13 0.09
Matches are distributed among these distances:
43 34 0.05
44 365 0.57
45 225 0.35
46 14 0.02
47 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTATCTTT
Found at i:47198434 original size:89 final size:88
Alignment explanation
Indices: 47198305--47199121 Score: 491
Period size: 89 Copynumber: 9.2 Consensus size: 88
47198295 TACTCCATTG
* * * *
47198305 CAACCTCAAGGAGATAAGA-TTAG-TATCTTCAACCTGCTCCACTGCAATTTCAGGGAGATAAGG
1 CAACTTCAGGGAGATAAGACTT-GTTA-CTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGA
*
47198368 CTGGTTACTTCAGTCTGCCCCACTA
64 CTGGTTACTTCAGTCTGCTCCACTA
* * *
47198393 CAACTTCAGAGG-GATAAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CAACTTCAG-GGAGATAAGACTTG-TTACTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGA
* * * * *
47198457 CTTGTAACTTTAATCTGCTCCACTG
64 CTGGTTACTTCAGTCTGCTCCACTA
* * * * ** * *
47198482 CAATTTCAGGGAGATAGGA-TTATTGACTTTAATCTGCTCCACTAAAATTTTAGGGAGATAAGAT
1 CAACTTCAGGGAGATAAGACTTGTT-ACTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGAC
* **
47198546 TCGCCATCTTCAGTCTGCTCCACTA
65 TGGTTA-CTTCAGTCTGCTCCACTA
* * * * *
47198571 CAACTTCAGGG-GCATAAGACTAGTTACTTCAGTCTGCCCCATTGCAACTTT-AGAGG-GATAAT
1 CAACTTCAGGGAG-ATAAGACTTGTTACTTCAATCTGCTCCACTGCAA-TTTCAG-GGAGATAAG
* * *
47198633 ACTTGCTTTCTTCAGTCTGCTCCACTG
63 AC-TGGTTACTTCAGTCTGCTCCACTA
* * * ** *
47198660 CAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTACAACCTCAGGGAGATAGGA-T
1 CAACTTCAGGGAGATAAGACTTGTTACTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGACT
** * * * *
47198724 TATTGGA-TTTAATTTGCTCCA-TG
66 GGTT--ACTTCAGTCTGCTCCACTA
** * * *
47198747 CAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGTTTGCCCCACTGCAACTTT-A-GGAGGATAA
1 CAACTTCAGGGAGATAAGACTT-GTTA-CTTCAATCTGCTCCACTGCAA-TTTCAGGGA-GATAA
* * * * *
47198809 GACTTGCTTTCTTTAGTTTGCTCCACTG
62 GAC-TGGTTACTTCAGTCTGCTCCACTA
* * * * * *
47198837 CAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-T
1 CAACTTCAGGGAGATAAGACTTGTTACTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGACT
** * * * *
47198901 TATTGGCTTTAATCTGCTCCACTG
66 GGTT-ACTTCAGTCTGCTCCACTA
** * * * * *
47198925 CAACTTCAGGGAGATAAGA-TTCGCCATCTTTAGTCTGCCCCATTGCAACTTCA-GGAGGATAAG
1 CAACTTCAGGGAGATAAGACTT-GTTA-CTTCAATCTGCTCCACTGCAATTTCAGGGA-GATAAG
* * * *
47198988 TCTTGCTTTCTTCAGTCTGCTCCACTG
63 AC-TGGTTACTTCAGTCTGCTCCACTA
* * * * **
47199015 TAACTTTAGGGAGATAAGACTTGTAACTTTAATCCACTCCACTGCAACTTT-AGGGAGATAAGA-
1 CAACTTCAGGGAGATAAGACTTGTTACTTCAATCTGCTCCACTGCAA-TTTCAGGGAGATAAGAC
** * * *
47199078 TTATTAGCTTTAATCTGCTCCACTG
65 TGGTTA-CTTCAGTCTGCTCCACTA
*
47199103 CAACTTTAGGGAGATAAGA
1 CAACTTCAGGGAGATAAGA
47199122 TTCGCCATCT
Statistics
Matches: 566, Mismatches: 125, Indels: 76
0.74 0.16 0.10
Matches are distributed among these distances:
86 2 0.00
87 39 0.07
88 167 0.30
89 271 0.48
90 80 0.14
91 7 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (88 bp):
CAACTTCAGGGAGATAAGACTTGTTACTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAGACT
GGTTACTTCAGTCTGCTCCACTA
Found at i:47198542 original size:133 final size:131
Alignment explanation
Indices: 47198297--47199121 Score: 657
Period size: 133 Copynumber: 6.2 Consensus size: 131
47198287 CCTCAATCTA
* * * * *
47198297 CTCCATTGCAACCTCAAGGAGATAAGA-TTAGTATCTTCAACCTGCTCCACTGCAATTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAATCTGCTCCACTGCAATTTCAGGGA
* ** * * * * *
47198361 GATAAGGCTGGTTACTTCAGTCTGCCCCACTACAACTTCAGAGG-GATAAGACTTGCTTTCTTCA
65 GATAA-GATTATTACTTCAATCTGCTCCACTGCAACTTCAG-GGAGATAAGA-TTGCTATCTTTA
47198425 GTCTG
127 GTCTG
*
47198430 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAATTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAATTTCAGGGAG
* * ** * * * *
47198495 ATAGGATTATTGACTTTAATCTGCTCCACTAAAATTTTAGGGAGATAAGATTCGCCATCTTCAGT
66 ATAAGATTATT-ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTTAGT
47198560 CTG
129 CTG
* * * * * *
47198563 CTCCACTACAACTTCAGGG-GCATAAGACTAGTTACTTCAGTCTGCCCCATTGCAACTTT-AGAG
1 CTCCACTGCAACTTCAGGGAG-ATAAGACTTGTAACTTCAATCTGCTCCACTGCAA-TTTCAG-G
* * * * *
47198626 G-GATAATACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTT
63 GAGATAAGA-TT-ATTACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTT
*
47198689 TAATCTG
125 TAGTCTG
* * * * * * * *
47198696 CTCCACTACAACCTCAGGGAGATAGGA-TTATTGGA-TTTAATTTGCTCCA-TGCAACTTCAGGG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GT-AACTTCAATCTGCTCCACTGCAATTTCAGGG
*** * * * * *
47198758 AGATAAGATTCGCCATCTTCAGTTTGCCCCACTGCAACTTTA-GGAGGATAAGACTTGCTTTCTT
64 AGATAAGATT-ATTA-CTTCAATCTGCTCCACTGCAACTTCAGGGA-GATAAGA-TTGCTATCTT
*
47198822 TAGTTTG
125 TAGTCTG
* * * *
47198829 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGTAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAATTTCAGGGAG
* * * *
47198894 ATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAGT
66 ATAAGATTATT-ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTTAGT
47198959 CTG
129 CTG
* * * ** * *
47198962 CCCCATTGCAACTTCA-GGAGGATAAGTCTTGCTTTCTTCAGTCTGCTCCACTGTAACTTT-AGG
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTG-TAACTTCAATCTGCTCCACTGCAA-TTTCAGG
* * * ** * ** *
47199025 GAGATAAGACTTGTAACTTTAATCCACTCCACTGCAACTTTAGGGAGATAAGATTATTAGCTTTA
63 GAGATAAGA-TTATTACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTTA
*
47199090 ATCTG
127 GTCTG
*
47199095 CTCCACTGCAACTTTAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
47199122 TTCGCCATCT
Statistics
Matches: 555, Mismatches: 108, Indels: 58
0.77 0.15 0.08
Matches are distributed among these distances:
131 9 0.02
132 63 0.11
133 336 0.61
134 138 0.25
135 9 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (131 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTGCAATTTCAGGGAG
ATAAGATTATTACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTTAGTCT
G
Found at i:47198573 original size:178 final size:178
Alignment explanation
Indices: 47198297--47199133 Score: 878
Period size: 178 Copynumber: 4.7 Consensus size: 178
47198287 CCTCAATCTA
* * * * * * *
47198297 CTCCATTGCAACCTCAAGGAGATAAGA-TTAGTATCTTCAA-CCTGCTCCACTGCAATTTCAGGG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAATCC-GCTCCACTACAACTTCAGGG
* ** * * * * **
47198360 AGATAAGGCTGGTTAC-TTCAGTCTGCCCCACTACAACTTCAGAGG-GATAAGACTT-GCTTTCT
64 AGATAA-GATTATTGCATTTAATCTGCTCCACTACAACTTCAG-GGAGATAAGA-TTCGCCATCT
* ** * *
47198422 TCAGTCTGCTCCACTGCAACTTCAGG-GAGATAAGACTTG-TAACTTTAATCTG
126 TCAGTCTGCCCCACTGCAACTTCAGGAG-GATAAGACTTGCTTTCTTCAGTCTG
* * * * * * * *
47198474 CTCCACTGCAATTTCAGGGAGATAGGA-TTATTGACTTTAATCTGCTCCACTAAAATTTTAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTTAATCCGCTCCACTACAACTTCAGGGA
* * * * **
47198538 GATAAGA-T-TCGCCATCTTCAGTCTGCTCCACTACAACTTCAGGG-GCATAAGACTAGTTA-CT
65 GATAAGATTATTG-CAT-TT-AATCTGCTCCACTACAACTTCAGGGAG-ATAAGATTCGCCATCT
* * *
47198599 TCAGTCTGCCCCATTGCAACTTTA-GAGGGATAATACTTGCTTTCTTCAGTCTG
126 TCAGTCTGCCCCACTGCAACTTCAGGA-GGATAAGACTTGCTTTCTTCAGTCTG
* *
47198652 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTACAACCTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAG
* * * *
47198717 ATAGGATTATTGGATTTAATTTGCTCCA-TGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGT
66 ATAAGATTATTGCATTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGT
* * * *
47198781 TTGCCCCACTGCAACTTTAGGAGGATAAGACTTGCTTTCTTTAGTTTG
131 CTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTTCTTCAGTCTG
**
47198829 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGTAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAG
* * *
47198894 ATAGGATTATTGGC-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTTAG
66 ATAAGATTATT-GCATTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAG
* *
47198958 TCTGCCCCATTGCAACTTCAGGAGGATAAGTCTTGCTTTCTTCAGTCTG
130 TCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTTCTTCAGTCTG
* * * * *
47199007 CTCCACTGTAACTTTAGGGAGATAAGACTTGTAACTTTAATCCACTCCACTGCAACTTTAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAG
* *
47199072 ATAAGATTATTAGC-TTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCCATCTTC
66 ATAAGATTATT-GCATTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTC
47199134 TTCAATCCAT
Statistics
Matches: 567, Mismatches: 75, Indels: 35
0.84 0.11 0.05
Matches are distributed among these distances:
174 1 0.00
175 1 0.00
176 24 0.04
177 234 0.41
178 300 0.53
179 5 0.01
180 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (178 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCCGCTCCACTACAACTTCAGGGAG
ATAAGATTATTGCATTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGT
CTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTTCTTCAGTCTG
Found at i:47205412 original size:12 final size:11
Alignment explanation
Indices: 47205344--47205420 Score: 57
Period size: 12 Copynumber: 6.6 Consensus size: 11
47205334 CTAACAGTTG
47205344 AAATAAAAT-A
1 AAATAAAATAA
*
47205354 AACTAATAATAA
1 AAATAA-AATAA
*
47205366 AAAGGAATAATAA
1 AAA-TAA-AATAA
* *
47205379 GAATAAAATCA
1 AAATAAAATAA
*
47205390 AAATAAGATAA
1 AAATAAAATAA
47205401 ATAATAAAATAAA
1 A-AATAAAAT-AA
47205414 AAATAAA
1 AAATAAA
47205421 CAAACTAATT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
10 5 0.10
11 16 0.31
12 18 0.35
13 13 0.25
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:47205429 original size:24 final size:23
Alignment explanation
Indices: 47205380--47205434 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
47205370 GAATAATAAG
* *
47205380 AATAAAATCAAAATAAGATAAAT
1 AATAAAATAAAAATAAGACAAAT
47205403 AATAAAATAAAAAATAA-ACAAACT
1 AATAAAAT-AAAAATAAGACAAA-T
47205427 AATTAAAA
1 AA-TAAAA
47205435 ATATGAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.44
24 10 0.37
25 5 0.19
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (23 bp):
AATAAAATAAAAATAAGACAAAT
Found at i:47205588 original size:3 final size:3
Alignment explanation
Indices: 47205560--47205668 Score: 60
Period size: 3 Copynumber: 36.7 Consensus size: 3
47205550 ATAGTGTAAA
* * * * * *
47205560 AAT AAA AAT AAA AAT ATT ACT AAT AAT AA- AAGT AAT AGT AAT -GT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
* * * ** * * * *
47205604 AAT AAT AAG AAT ATT AAT ATT AAT AAT AAT GGT AAT GAT GAT GAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47205652 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
47205669 ATGCAATAAG
Statistics
Matches: 80, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
2 3 0.04
3 75 0.94
4 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47205608 original size:20 final size:20
Alignment explanation
Indices: 47205583--47205632 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
47205573 ATATTACTAA
47205583 TAATAA-AAGTAATAGTAATG
1 TAATAATAAG-AATAGTAATG
* *
47205603 TAATAATAAGAATATTAATAT
1 TAATAATAAGAATAGTAAT-G
47205624 TAATAATAA
1 TAATAATAA
47205633 TGGTAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
TAATAATAAGAATAGTAATG
Found at i:47206355 original size:13 final size:13
Alignment explanation
Indices: 47206329--47206357 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47206319 CTTTCGTATG
47206329 TTTTCACTGATTT
1 TTTTCACTGATTT
47206342 TTTTC-CTGATTT
1 TTTTCACTGATTT
47206354 TTTT
1 TTTT
47206358 GTCCCCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.10, C:0.14, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTCACTGATTT
Found at i:47208823 original size:22 final size:19
Alignment explanation
Indices: 47208780--47208837 Score: 80
Period size: 22 Copynumber: 2.9 Consensus size: 19
47208770 TAGAGTTTAA
47208780 TTTGTGTAACTATTGAATG
1 TTTGTGTAACTATTGAATG
*
47208799 TTTGTGCAACTATTAGTCAATG
1 TTTGTGTAACTATT-G--AATG
47208821 TTTGTGTAACTATTGAA
1 TTTGTGTAACTATTGAA
47208838 AGATAGAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 15 0.44
20 1 0.03
21 1 0.03
22 17 0.50
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.45
Consensus pattern (19 bp):
TTTGTGTAACTATTGAATG
Found at i:47225861 original size:21 final size:21
Alignment explanation
Indices: 47225835--47225875 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47225825 AGACGAGCAA
* *
47225835 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
47225856 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
47225876 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:47231313 original size:13 final size:13
Alignment explanation
Indices: 47231295--47231340 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
47231285 GATTGGTTTG
*
47231295 ATTAATTTATTTT
1 ATTAATTAATTTT
*
47231308 ATTAATTAATTTG
1 ATTAATTAATTTT
* *
47231321 ATTAACTGATTTT
1 ATTAATTAATTTT
47231334 ATTAATT
1 ATTAATT
47231341 GTTTATTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (13 bp):
ATTAATTAATTTT
Found at i:47231321 original size:26 final size:26
Alignment explanation
Indices: 47231291--47231340 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
47231281 TAGTGATTGG
* *
47231291 TTTGATTAATTTATTTTATTAATTAA
1 TTTGATTAACTGATTTTATTAATTAA
47231317 TTTGATTAACTGATTTTATTAATT
1 TTTGATTAACTGATTTTATTAATT
47231341 GTTTATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (26 bp):
TTTGATTAACTGATTTTATTAATTAA
Found at i:47231898 original size:23 final size:24
Alignment explanation
Indices: 47231850--47231901 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
47231840 GCAATGTTGA
*
47231850 TTTTGTATATTCATGGTGGAGTTT
1 TTTTGTAGATTCATGGTGGAGTTT
47231874 TTTTGTAGATTCATGGTGGAGTTT
1 TTTTGTAGATTCATGGTGGAGTTT
47231898 TTTT
1 TTTT
47231902 TTTTTTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.15, C:0.04, G:0.25, T:0.56
Consensus pattern (24 bp):
TTTTGTAGATTCATGGTGGAGTTT
Found at i:47234006 original size:14 final size:15
Alignment explanation
Indices: 47233987--47234025 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
47233977 AAGCATATCC
47233987 TTTTTAAATAAT-TT
1 TTTTTAAATAATATT
*
47234001 TTTTTAAAAAATATT
1 TTTTTAAATAATATT
47234016 TCTTTTAAAT
1 T-TTTTAAAT
47234026 TTTAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 11 0.52
15 3 0.14
16 7 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTTAAATAATATT
Found at i:47234139 original size:16 final size:16
Alignment explanation
Indices: 47234113--47234163 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
47234103 CCTTGATTTT
47234113 TTTTATATTTTTATGTA
1 TTTT-TATTTTTATGTA
47234130 TTTTTATTTTT-TGTA
1 TTTTTATTTTTATGTA
* * *
47234145 ATTATAATTTTATG-A
1 TTTTTATTTTTATGTA
47234160 TTTT
1 TTTT
47234164 CTAAAATCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 15 0.54
16 9 0.32
17 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTTATTTTTATGTA
Found at i:47256039 original size:17 final size:18
Alignment explanation
Indices: 47256017--47256064 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
47256007 GTTTATAAGT
47256017 TTTTATAATATTTTG-AA
1 TTTTATAATATTTTGTAA
* *
47256034 TTTTATAAAATTTGGTAA
1 TTTTATAATATTTTGTAA
47256052 TTTTA-AATATTTT
1 TTTTATAATATTTT
47256065 TATGGATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TTTTATAATATTTTGTAA
Found at i:47256090 original size:18 final size:19
Alignment explanation
Indices: 47256051--47256103 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
47256041 AAATTTGGTA
*
47256051 ATTTTAA-ATATTTTTATGG
1 ATTTTAATAAATTTTTA-GG
47256070 ATTTTAATAAATTTTTA-G
1 ATTTTAATAAATTTTTAGG
*
47256088 ATTTAAAT-AATTTTTA
1 ATTTTAATAAATTTTTA
47256104 ATAATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.26
18 8 0.26
19 7 0.23
20 8 0.26
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
ATTTTAATAAATTTTTAGG
Found at i:47269112 original size:43 final size:42
Alignment explanation
Indices: 47269031--47269112 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
47269021 TTGTGATTTG
** *
47269031 GGTTGGTTTGGGTTTGAAACTGATTCGGGAATCTATTAAGAA
1 GGTTGGTTTGGGTTTGAAACTGATTCAAGAATCGATTAAGAA
*
47269073 GGTTGGTTTAGGGTTTGAAA-TCGATTCAATAATCGATTAA
1 GGTTGGTTT-GGGTTTGAAACT-GATTCAAGAATCGATTAA
47269113 CATGTTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 10 0.29
43 24 0.71
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.37
Consensus pattern (42 bp):
GGTTGGTTTGGGTTTGAAACTGATTCAAGAATCGATTAAGAA
Found at i:47269347 original size:6 final size:6
Alignment explanation
Indices: 47269338--47269485 Score: 134
Period size: 6 Copynumber: 23.7 Consensus size: 6
47269328 TTCAATTTCA
* *
47269338 ATTTTG ATTTTG ATTTTG ATTCTG ATTTTG ATTCTG ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** * *
47269386 ATTTTG ATTTTG ATTTTG ATTTTG AAACACTCACTG ATTCTA ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ----A-T-TTTG ATTTTG ATTTTG
** * * * *
47269434 ATTTTG ATTTCA ATTTTT ATTTCG ATTTCG ATTTTG ATTTCG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
47269482 ATTT
1 ATTT
47269486 AGGGTTATTT
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
6 111 0.95
7 1 0.01
8 1 0.01
10 1 0.01
11 1 0.01
12 2 0.02
ACGTcount: A:0.20, C:0.07, G:0.14, T:0.59
Consensus pattern (6 bp):
ATTTTG
Found at i:47269762 original size:61 final size:61
Alignment explanation
Indices: 47269696--47269823 Score: 188
Period size: 62 Copynumber: 2.1 Consensus size: 61
47269686 GTTATTGTTT
*
47269696 GTTATTAT-TGCCATGTGCATGAC-GAAAATGTTTGTGTTTGTATTAAATTATTTTCCTATTG
1 GTTATTATCTGCCATGTGCATGACAG-AAATGGTTGTGTTTGTATTAAATTATTTT-CTATTG
* * *
47269757 GTTATTGTCTGCCATGTGTATGACAGAAATGGTTGTGTTTGTATTAAATTATTTTGTATTG
1 GTTATTATCTGCCATGTGCATGACAGAAATGGTTGTGTTTGTATTAAATTATTTTCTATTG
47269818 GTTATT
1 GTTATT
47269824 TATGTTGCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
61 18 0.30
62 42 0.69
63 1 0.02
ACGTcount: A:0.23, C:0.08, G:0.20, T:0.48
Consensus pattern (61 bp):
GTTATTATCTGCCATGTGCATGACAGAAATGGTTGTGTTTGTATTAAATTATTTTCTATTG
Found at i:47270035 original size:28 final size:28
Alignment explanation
Indices: 47269994--47270058 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
47269984 CAAGTTGTTT
47269994 CAAAGGATGTATGTCTGTCTACAGGCATG
1 CAAA-GATGTATGTCTGTCTACAGGCATG
47270023 CAAAGATGTATGTCTGTCTACAGGCATG
1 CAAAGATGTATGTCTGTCTACAGGCATG
47270051 CAAAGATG
1 CAAAGATG
47270059 GCTATAGGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 32 0.89
29 4 0.11
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (28 bp):
CAAAGATGTATGTCTGTCTACAGGCATG
Found at i:47270966 original size:24 final size:24
Alignment explanation
Indices: 47270937--47270996 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
47270927 CATGCTATTT
*
47270937 TAGTGAGTGTTTTTAACATGCATG
1 TAGTGACTGTTTTTAACATGCATG
* *
47270961 TAGTGACTATTTTTTAATATGCATG
1 TAGTGACT-GTTTTTAACATGCATG
* *
47270986 CAGTGATTGTT
1 TAGTGACTGTT
47270997 GGTGTGTACG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (24 bp):
TAGTGACTGTTTTTAACATGCATG
Found at i:47271063 original size:25 final size:26
Alignment explanation
Indices: 47271008--47271071 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
47270998 GTGTGTACGC
*
47271008 CTATTTTTTAATATACATACTGTTGA
1 CTATTTTTTAATATACATACAGTTGA
* *
47271034 CTATTTTTTAATATGCATGCAG-TGA
1 CTATTTTTTAATATACATACAGTTGA
*
47271059 GTATTTTTTAATA
1 CTATTTTTTAATA
47271072 ATATGAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 15 0.44
26 19 0.56
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (26 bp):
CTATTTTTTAATATACATACAGTTGA
Found at i:47271133 original size:96 final size:95
Alignment explanation
Indices: 47270946--47271182 Score: 318
Period size: 96 Copynumber: 2.5 Consensus size: 95
47270936 TTAGTGAGTG
* * * * *
47270946 TTTTTAACATGCATGTAGTGACTA-TTTTT--TAATATGCATGCAGTGATTGTTGGTGTGTACGC
1 TTTTTAATATGCATGTAGTGAGTATTTTTTAATAATATGCATGTAGTGATTGTTGGTGTGCACGA
47271008 CTATTTTTTAATATACATACTGTTGACTAT
66 CTATTTTTTAATATACATACTGTTGACTAT
* * * *
47271038 TTTTTAATATGCATGCAGTGAGTATTTTTTAATAATATGAATGTTGTGATTGTTGGTGTGCATGA
1 TTTTTAATATGCATGTAGTGAGTATTTTTTAATAATATGCATGTAGTGATTGTTGGTGTGCACGA
* **
47271103 CTGTTTTTTTAATATACATGTTGTTGACTAT
66 CT-ATTTTTTAATATACATACTGTTGACTAT
* *
47271134 TTTTTAATATACATGTAATGAGTATTTTTTAATAATATGCATGTAGTGA
1 TTTTTAATATGCATGTAGTGAGTATTTTTTAATAATATGCATGTAGTGA
47271183 CTATTTTTTA
Statistics
Matches: 124, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
92 21 0.17
93 5 0.04
95 29 0.23
96 69 0.56
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (95 bp):
TTTTTAATATGCATGTAGTGAGTATTTTTTAATAATATGCATGTAGTGATTGTTGGTGTGCACGA
CTATTTTTTAATATACATACTGTTGACTAT
Found at i:47271178 original size:28 final size:25
Alignment explanation
Indices: 47271107--47271192 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 25
47271097 GCATGACTGT
**
47271107 TTTTTTAATATACATGTTGTTGACTA
1 TTTTTTAATATACATG-TAATGACTA
*
47271133 TTTTTTAATATACATGTAATGAGTA
1 TTTTTTAATATACATGTAATGACTA
*
47271158 TTTTTTAATAATATGCATGTAGTGACTA
1 TTTTTTAAT-ATA--CATGTAATGACTA
47271186 TTTTTTA
1 TTTTTTA
47271193 GGTAGGTGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
25 15 0.29
26 19 0.37
28 18 0.35
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (25 bp):
TTTTTTAATATACATGTAATGACTA
Found at i:47271945 original size:21 final size:22
Alignment explanation
Indices: 47271919--47271970 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
47271909 CAATAGGTTA
*
47271919 CCCCAACTCAAT-TACAAATTG
1 CCCCAACTCAATCAACAAATTG
*
47271940 CCCCAACTC-ATCAACAAGTTG
1 CCCCAACTCAATCAACAAATTG
47271961 CCCCAACTCA
1 CCCCAACTCA
47271971 CCATAAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.35, C:0.40, G:0.06, T:0.19
Consensus pattern (22 bp):
CCCCAACTCAATCAACAAATTG
Found at i:47272762 original size:36 final size:36
Alignment explanation
Indices: 47272683--47272766 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 36
47272673 AGCCATGTGT
* * *
47272683 AACAATATAAGCAACAATATACCAACAGCTATGTAT
1 AACAACATAAGCAACAATATACCAACAGATATGTAC
47272719 AACAACATAAGCAACAATATACCAGTAACA-ATAT-TAC
1 AACAACATAAGCAACAATATACC---AACAGATATGTAC
47272756 AA-AACATAAGC
1 AACAACATAAGC
47272767 TGGTTTTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 31 0.74
37 4 0.10
38 3 0.07
39 4 0.10
ACGTcount: A:0.54, C:0.20, G:0.07, T:0.19
Consensus pattern (36 bp):
AACAACATAAGCAACAATATACCAACAGATATGTAC
Found at i:47278045 original size:43 final size:43
Alignment explanation
Indices: 47277985--47278100 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
47277975 TATGCGTGTT
* * *
47277985 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATC-AATATATGATTA
47278028 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCAATATATGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCAATATATGATTA
*
47278071 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
47278101 TGTACGAGCC
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
42 4 0.06
43 58 0.91
44 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCAATATATGATTA
Found at i:47278353 original size:36 final size:37
Alignment explanation
Indices: 47278304--47278387 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 37
47278294 ACAATTGAAC
* * * * *
47278304 TTATAAGTAATTCGGCCTATTGATGTATTTGTAATA-
1 TTATAAGTGATTCGGCATAATGATATAGTTGTAATAT
47278340 TTATAAGTGATTCGGCATAATGATATAGTTGTAATAT
1 TTATAAGTGATTCGGCATAATGATATAGTTGTAATAT
*
47278377 TTAAAAGTGAT
1 TTATAAGTGAT
47278388 AATTATATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 31 0.76
37 10 0.24
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.42
Consensus pattern (37 bp):
TTATAAGTGATTCGGCATAATGATATAGTTGTAATAT
Found at i:47280094 original size:16 final size:16
Alignment explanation
Indices: 47280073--47280105 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47280063 TGATAAATTA
47280073 TTGAAAATTTTTATTT
1 TTGAAAATTTTTATTT
*
47280089 TTGAAAATTTTTGTTT
1 TTGAAAATTTTTATTT
47280105 T
1 T
47280106 ATTGAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (16 bp):
TTGAAAATTTTTATTT
Found at i:47280993 original size:19 final size:20
Alignment explanation
Indices: 47280969--47281009 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
47280959 GAATTTAGGC
*
47280969 AAATATTGAATAT-AAATTG
1 AAATATTCAATATGAAATTG
47280988 AAATATTCAATATGAAATTG
1 AAATATTCAATATGAAATTG
47281008 AA
1 AA
47281010 TTGTGTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (20 bp):
AAATATTCAATATGAAATTG
Found at i:47284384 original size:25 final size:24
Alignment explanation
Indices: 47284322--47284385 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
47284312 ATGTTACATG
47284322 AAATAAAAATAAT-T--AATAATT
1 AAATAAAAATAATATACAATAATT
*
47284343 AAATGAAAAACT-GTATACAATTAATT
1 AAAT-AAAAA-TAATATACAA-TAATT
47284369 AAATAAAAATAATATAC
1 AAATAAAAATAATATAC
47284386 GTGCAATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
21 4 0.12
22 6 0.18
23 2 0.06
24 1 0.03
25 12 0.35
26 9 0.26
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (24 bp):
AAATAAAAATAATATACAATAATT
Found at i:47289518 original size:8 final size:8
Alignment explanation
Indices: 47289505--47289529 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
47289495 TTTTAAATAA
47289505 TATTTTAT
1 TATTTTAT
47289513 TATTTTAT
1 TATTTTAT
47289521 TATTTTAT
1 TATTTTAT
47289529 T
1 T
47289530 GTTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:47292606 original size:28 final size:27
Alignment explanation
Indices: 47292573--47292671 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
47292563 TAATGAGATT
*
47292573 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTATAATTGAA
*
47292600 ATGCACTAAGTGTGCGAGTATAATGGTAA
1 A-GCACTAAGTGTGCGAGTATAATTG-AA
* *
47292629 AGCACTAAGTGTGCGAGTGTGATT-ATTA
1 AGCACTAAGTGTGCGAGTATAATTGA--A
47292657 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47292672 TACTTATTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 58 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTATAATTGAA
Found at i:47311459 original size:411 final size:411
Alignment explanation
Indices: 47310697--47311518 Score: 1644
Period size: 411 Copynumber: 2.0 Consensus size: 411
47310687 TCTTTTCCCT
47310697 CCCTGACATCTCTAAATATCAAACAGACCCCCCCCACACACACACAAAAAAAGGAGATTTTGATG
1 CCCTGACATCTCTAAATATCAAACAGACCCCCCCCACACACACACAAAAAAAGGAGATTTTGATG
47310762 ATTTGGAAATTTGGTGAGTAGAATTTAAAATGATAGAATGATTCCTGTGAAATATTTGACGATGA
66 ATTTGGAAATTTGGTGAGTAGAATTTAAAATGATAGAATGATTCCTGTGAAATATTTGACGATGA
47310827 ATTGACAATGATGAATTATAATGGAGGGTTTAGATTAGGACAAACATGGCTCCGATCGTTGACGT
131 ATTGACAATGATGAATTATAATGGAGGGTTTAGATTAGGACAAACATGGCTCCGATCGTTGACGT
47310892 GAATTGCCTTTAAGGTTATTTTGAAGCACCTTGTTTTTTTGTTGATATTTAAGTTGAAAACTCAG
196 GAATTGCCTTTAAGGTTATTTTGAAGCACCTTGTTTTTTTGTTGATATTTAAGTTGAAAACTCAG
47310957 CGAATATTTGAAGGGGAAGTCAGAATCTAGCGCCGCAAGCTAATGCGAATGCCAAAGCGAGAATT
261 CGAATATTTGAAGGGGAAGTCAGAATCTAGCGCCGCAAGCTAATGCGAATGCCAAAGCGAGAATT
47311022 TAGGCATCAGACATTGTCACCATCCGCCCTTGTGCAAAGCTACTTGAAGCACCGGGTCAAGTCCG
326 TAGGCATCAGACATTGTCACCATCCGCCCTTGTGCAAAGCTACTTGAAGCACCGGGTCAAGTCCG
47311087 GGATGATGTGTGTTGACACAA
391 GGATGATGTGTGTTGACACAA
47311108 CCCTGACATCTCTAAATATCAAACAGACCCCCCCCACACACACACAAAAAAAGGAGATTTTGATG
1 CCCTGACATCTCTAAATATCAAACAGACCCCCCCCACACACACACAAAAAAAGGAGATTTTGATG
47311173 ATTTGGAAATTTGGTGAGTAGAATTTAAAATGATAGAATGATTCCTGTGAAATATTTGACGATGA
66 ATTTGGAAATTTGGTGAGTAGAATTTAAAATGATAGAATGATTCCTGTGAAATATTTGACGATGA
47311238 ATTGACAATGATGAATTATAATGGAGGGTTTAGATTAGGACAAACATGGCTCCGATCGTTGACGT
131 ATTGACAATGATGAATTATAATGGAGGGTTTAGATTAGGACAAACATGGCTCCGATCGTTGACGT
47311303 GAATTGCCTTTAAGGTTATTTTGAAGCACCTTGTTTTTTTGTTGATATTTAAGTTGAAAACTCAG
196 GAATTGCCTTTAAGGTTATTTTGAAGCACCTTGTTTTTTTGTTGATATTTAAGTTGAAAACTCAG
47311368 CGAATATTTGAAGGGGAAGTCAGAATCTAGCGCCGCAAGCTAATGCGAATGCCAAAGCGAGAATT
261 CGAATATTTGAAGGGGAAGTCAGAATCTAGCGCCGCAAGCTAATGCGAATGCCAAAGCGAGAATT
47311433 TAGGCATCAGACATTGTCACCATCCGCCCTTGTGCAAAGCTACTTGAAGCACCGGGTCAAGTCCG
326 TAGGCATCAGACATTGTCACCATCCGCCCTTGTGCAAAGCTACTTGAAGCACCGGGTCAAGTCCG
47311498 GGATGATGTGTGTTGACACAA
391 GGATGATGTGTGTTGACACAA
47311519 TTTTTGGATG
Statistics
Matches: 411, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
411 411 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (411 bp):
CCCTGACATCTCTAAATATCAAACAGACCCCCCCCACACACACACAAAAAAAGGAGATTTTGATG
ATTTGGAAATTTGGTGAGTAGAATTTAAAATGATAGAATGATTCCTGTGAAATATTTGACGATGA
ATTGACAATGATGAATTATAATGGAGGGTTTAGATTAGGACAAACATGGCTCCGATCGTTGACGT
GAATTGCCTTTAAGGTTATTTTGAAGCACCTTGTTTTTTTGTTGATATTTAAGTTGAAAACTCAG
CGAATATTTGAAGGGGAAGTCAGAATCTAGCGCCGCAAGCTAATGCGAATGCCAAAGCGAGAATT
TAGGCATCAGACATTGTCACCATCCGCCCTTGTGCAAAGCTACTTGAAGCACCGGGTCAAGTCCG
GGATGATGTGTGTTGACACAA
Found at i:47314384 original size:50 final size:50
Alignment explanation
Indices: 47314313--47314898 Score: 234
Period size: 50 Copynumber: 11.6 Consensus size: 50
47314303 TACATCGCCT
* *
47314313 GGAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTGAATTACAATGTTAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAATGTTAG
* * **** * * *
47314363 GGAAGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCCT-G
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAATG-TTAG
* * * *
47314413 GGAAGTAAGATTCACCGTTGTAGCTTCAATATTTTGAATTACAATGTCAG
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAATGTTAG
* ** * * * *
47314463 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATTGCCT-G
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAATG-TTAG
* * * * * **
47314513 GGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGACTTGCAATGTCGG
1 GG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAATGTTAG
** * * * **** * *
47314564 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCT-G
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAAT-G-TTAG
* * * * * ** **
47314614 GGAAAGTAGGATTCACCGTTGTAGCCTCAATATTTTGAATTGTAATGTCGG
1 GG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAATGTTAG
** * * **** * *
47314665 GGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCT-G
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAAT-G-TTAG
* * * * **
47314715 GGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAATTGCAATGTCGG
1 GG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAATGTTAG
** * * * **** * *
47314766 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGC-ATCGCCT-G
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAAT-G-TTAG
* * * * **
47314816 GGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAATTGCAATGTCGG
1 GG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAATGTTAG
** * *
47314867 GGAAGTGAGATTCACCGTCGTAGCTTCAATCT
1 GGAAGCAAGATTCGCCGTTGTAGCTTCAATCT
47314899 GTTCTGCTGC
Statistics
Matches: 391, Mismatches: 125, Indels: 40
0.70 0.22 0.07
Matches are distributed among these distances:
49 6 0.02
50 238 0.61
51 141 0.36
52 6 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (50 bp):
GGAAGCAAGATTCGCCGTTGTAGCTTCAATCTTTTGAATTACAATGTTAG
Found at i:47314575 original size:101 final size:101
Alignment explanation
Indices: 47314253--47314960 Score: 1019
Period size: 101 Copynumber: 7.0 Consensus size: 101
47314243 TTTGTATAAC
* * * * * * *
47314253 TGCAATGTCAGGGAAGTAAGATTCGCCATCGTAGCTTCAGTCTATTCCACTACATCGCCT-GG-A
1 TGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
* * *
47314316 AGTAAGATTCGCCATTGTAGCTTCAATCTTTTGAAT
66 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAAT
* ** ** * * *
47314352 TACAATGTTAGGGAAGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCGCTGCATTGCCTGGG-A
1 TGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
* * * *
47314416 AGTAAGATTCACCGTTGTAGCTTCAATATTTTGAAT
66 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAAT
* * ** * * *
47314452 TACAATGTCAGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATTGCCTGGGAA
1 TGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
*
47314517 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGACT
66 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAAT
*
47314553 TGCAATGTCGGGGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
1 TGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
* * * *
47314618 AGTAGGATTCACCGTTGTAGCCTCAATATTTTGAAT
66 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAAT
*
47314654 TGTAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
1 TGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
47314719 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAAT
66 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAAT
*
47314755 TGCAATGTCGGGGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
1 TGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
47314820 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAAT
66 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAAT
* *
47314856 TGCAATGTCGGGGAAGTGAGATTCACCGTCGTAGCTTCAATCTGTTCTGCTGCATCGCCTGGG-A
1 TGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
**
47314920 AGTAAGATTCGCCGTTGTGGATTCAATCTTTTGAAT
66 AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAAT
47314956 TGCAA
1 TGCAA
47314961 ACCATGGTTT
Statistics
Matches: 561, Mismatches: 46, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
99 49 0.09
100 136 0.24
101 376 0.67
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (101 bp):
TGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAA
AGTAAGATTCGCCGTTGTGGCCTCAATCTTTTGAAT
Found at i:47318871 original size:32 final size:32
Alignment explanation
Indices: 47318830--47318894 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
47318820 CCTCGGGATG
* *
47318830 CATCTTAATTTGGTTATATCCCGAGAAGCCAT
1 CATCTTAATTTGGTTATATCCAGAGAAACCAT
47318862 CATCTTAATTTGGTTATATCCAGAGAAACCAT
1 CATCTTAATTTGGTTATATCCAGAGAAACCAT
47318894 C
1 C
47318895 CATGAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (32 bp):
CATCTTAATTTGGTTATATCCAGAGAAACCAT
Found at i:47331808 original size:17 final size:17
Alignment explanation
Indices: 47331779--47331828 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
47331769 TCACTCTTCT
47331779 TTTTCTTTC-TTCTTTC
1 TTTTCTTTCTTTCTTTC
*
47331795 TTTTCTTTCTTTCTTCCC
1 TTTTCTTTCTTTCTT-TC
*
47331813 TTAT-TTTCTTTCTTTC
1 TTTTCTTTCTTTCTTTC
47331829 CCTCTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 10 0.34
17 15 0.52
18 4 0.14
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTCTTTCTTTCTTTC
Found at i:47331840 original size:21 final size:20
Alignment explanation
Indices: 47331780--47331839 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
47331770 CACTCTTCTT
* * *
47331780 TTTCTTTCTTCTTTCTTTTC
1 TTTCTTTCTCCCTTATTTTC
47331800 TTTCTTTCTTCCCTTATTTTC
1 TTTCTTTC-TCCCTTATTTTC
47331821 TTTCTTTC-CCTCTTATTTT
1 TTTCTTTCTCC-CTTATTTT
47331840 TGTTGTCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.06
20 16 0.46
21 17 0.49
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTCTTTCTCCCTTATTTTC
Found at i:47347178 original size:32 final size:32
Alignment explanation
Indices: 47347141--47347217 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
47347131 ATGCATGTGT
* * **
47347141 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
47347173 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
47347205 GTAACTTTTCATA
1 GTAACTTTTCATA
47347218 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:47351690 original size:32 final size:32
Alignment explanation
Indices: 47351653--47351729 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
47351643 ATGCATGTGT
* * **
47351653 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
47351685 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
47351717 GTAACTTTTCATA
1 GTAACTTTTCATA
47351730 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:47360108 original size:22 final size:21
Alignment explanation
Indices: 47360083--47360123 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
47360073 TGTATGGTGT
* *
47360083 GATTTGGTTTTGGTATTATATA
1 GATTCGGTTATGGT-TTATATA
47360105 GATTCGGTTATGGTTTATA
1 GATTCGGTTATGGTTTATA
47360124 AGTATAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.51
Consensus pattern (21 bp):
GATTCGGTTATGGTTTATATA
Found at i:47375049 original size:16 final size:16
Alignment explanation
Indices: 47375028--47375063 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
47375018 AAAAATATTT
47375028 AATTAACTAAACATAA
1 AATTAACTAAACATAA
*
47375044 AATTAACTAAACATGA
1 AATTAACTAAACATAA
47375060 AATT
1 AATT
47375064 CATTGCAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (16 bp):
AATTAACTAAACATAA
Found at i:47375559 original size:20 final size:20
Alignment explanation
Indices: 47375518--47375559 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
47375508 AATGAGCTCG
* *
47375518 AATTAACATTAATAATATAT
1 AATTAACATTAAAAATAAAT
47375538 AATTAAC-TTAAAACATAAAT
1 AATTAACATTAAAA-ATAAAT
47375558 AA
1 AA
47375560 AATATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTAACATTAAAAATAAAT
Found at i:47375576 original size:27 final size:27
Alignment explanation
Indices: 47375522--47375576 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
47375512 AGCTCGAATT
* * * **
47375522 AACATTAATAATATATAATTAACTTAA
1 AACATAAATAAAATATAAATAAAATAA
47375549 AACATAAATAAAATATAAATAAAATAA
1 AACATAAATAAAATATAAATAAAATAA
47375576 A
1 A
47375577 GTTCCTACAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (27 bp):
AACATAAATAAAATATAAATAAAATAA
Found at i:47384222 original size:19 final size:20
Alignment explanation
Indices: 47384198--47384241 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
47384188 CGTGAAAGTC
* *
47384198 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
47384217 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
47384237 -AATGC
1 TAATGC
47384242 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:47387586 original size:14 final size:15
Alignment explanation
Indices: 47387567--47387596 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
47387557 TTTACGACTC
47387567 CACCTTTTT-TCTCT
1 CACCTTTTTATCTCT
47387581 CACCTTTTTATCTCT
1 CACCTTTTTATCTCT
47387596 C
1 C
47387597 CAGCCTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.10, C:0.37, G:0.00, T:0.53
Consensus pattern (15 bp):
CACCTTTTTATCTCT
Found at i:47391159 original size:3 final size:3
Alignment explanation
Indices: 47391151--47391189 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
47391141 TAGCAGTGGT
* * *
47391151 TTC TTC TTC TTT TTC TTA TTC TTC TTC TTC CTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
47391190 ACTCTGTTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:47394252 original size:16 final size:16
Alignment explanation
Indices: 47394228--47394261 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47394218 AAAAATATTC
47394228 AATTAATTACACATGG
1 AATTAATTACACATGG
*
47394244 AATTCATTACACATGG
1 AATTAATTACACATGG
47394260 AA
1 AA
47394262 AAATTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (16 bp):
AATTAATTACACATGG
Found at i:47395528 original size:15 final size:15
Alignment explanation
Indices: 47395508--47395538 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47395498 AAAATATAAA
47395508 ATCAACCTCAAAAGC
1 ATCAACCTCAAAAGC
47395523 ATCAACCTCAAAAGC
1 ATCAACCTCAAAAGC
47395538 A
1 A
47395539 CTTTTGGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.32, G:0.06, T:0.13
Consensus pattern (15 bp):
ATCAACCTCAAAAGC
Found at i:47395907 original size:20 final size:21
Alignment explanation
Indices: 47395866--47395911 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
47395856 ACAACCCAAG
*
47395866 AAAATAAAATACAACAGGCCC
1 AAAATAAAATACAACAGACCC
47395887 AAAA-AAAATACAA-ATGACCC
1 AAAATAAAATACAACA-GACCC
47395907 AAAAT
1 AAAAT
47395912 TTAAACCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 1 0.05
20 17 0.77
21 4 0.18
ACGTcount: A:0.63, C:0.20, G:0.07, T:0.11
Consensus pattern (21 bp):
AAAATAAAATACAACAGACCC
Found at i:47397462 original size:15 final size:16
Alignment explanation
Indices: 47397431--47397463 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47397421 AATATCTTTT
*
47397431 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
47397447 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
47397462 AA
1 AA
47397464 GGCAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:47397930 original size:18 final size:19
Alignment explanation
Indices: 47397888--47397930 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
47397878 CCAAACTTGT
*
47397888 TGTTTTAATAAAATCAAAC
1 TGTTTTAATAAAAACAAAC
*
47397907 TG-TTTATTAAAAAC-AAC
1 TGTTTTAATAAAAACAAAC
47397924 TGTTTTA
1 TGTTTTA
47397931 CGAGGTGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 14 0.67
19 2 0.10
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (19 bp):
TGTTTTAATAAAAACAAAC
Found at i:47398012 original size:35 final size:35
Alignment explanation
Indices: 47397966--47398032 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
47397956 AAAAAATTAA
47397966 AATTTTTATTAAAAACAACCACTTGTCGAGGTTTT
1 AATTTTTATTAAAAACAACCACTTGTCGAGGTTTT
47398001 AATTTTTATTAAAAACAACCACTTGTCGAGGT
1 AATTTTTATTAAAAACAACCACTTGTCGAGGT
47398033 GACCCGATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (35 bp):
AATTTTTATTAAAAACAACCACTTGTCGAGGTTTT
Found at i:47400942 original size:19 final size:19
Alignment explanation
Indices: 47400914--47400953 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
47400904 CGGGAAAATA
*
47400914 TTAGAATATTAAGCATATG
1 TTAGAATATTAAGCACATG
*
47400933 TTAGACTATTAAGCACATG
1 TTAGAATATTAAGCACATG
47400952 TT
1 TT
47400954 TAATGTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TTAGAATATTAAGCACATG
Found at i:47403603 original size:10 final size:10
Alignment explanation
Indices: 47403588--47403612 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47403578 CAAATCTAAC
47403588 ATTATGTAAA
1 ATTATGTAAA
47403598 ATTATGTAAA
1 ATTATGTAAA
47403608 ATTAT
1 ATTAT
47403613 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:47403695 original size:29 final size:29
Alignment explanation
Indices: 47403661--47403838 Score: 294
Period size: 29 Copynumber: 6.3 Consensus size: 29
47403651 AAATTATGTA
*
47403661 AAATTAGGTTAGGGTTAAGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
47403690 AAATTAGGTTAGGGTTTAGGGTTTTTAATT
1 AAATTAGGTTAGGG-TTAGGGTTTTTAATT
*
47403720 AAATTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
47403749 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
47403778 AAATTAGG-T----TTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
47403802 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
47403831 AAATTAGG
1 AAATTAGG
47403839 GTTTTTATTA
Statistics
Matches: 140, Mismatches: 3, Indels: 12
0.90 0.02 0.08
Matches are distributed among these distances:
24 23 0.16
25 1 0.01
28 1 0.01
29 88 0.63
30 27 0.19
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:47403801 original size:53 final size:53
Alignment explanation
Indices: 47403669--47403838 Score: 268
Period size: 53 Copynumber: 3.1 Consensus size: 53
47403659 TAAAATTAGG
* *
47403669 TTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAA
1 TTAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAA
47403723 TTAGGTTATGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAA
1 TTAGG---T--TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAA
47403781 TTAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAA
1 TTAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAA
47403834 TTAGG
1 TTAGG
47403839 GTTTTTATTA
Statistics
Matches: 109, Mismatches: 2, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
53 52 0.48
54 5 0.05
55 1 0.01
58 23 0.21
59 28 0.26
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.46
Consensus pattern (53 bp):
TTAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAA
Found at i:47403810 original size:82 final size:86
Alignment explanation
Indices: 47403661--47403838 Score: 292
Period size: 82 Copynumber: 2.1 Consensus size: 86
47403651 AAATTATGTA
47403661 AAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTA
1 AAATTAGGTTAGGGTTAAGGTTTTTAATTAAA-TA-GTTAGGGTTTAGGGTTTTTAATTAAATTA
*
47403726 GGTTATGGTTAGGGTTTTTAATT
64 GGTTAGGGTTAGGGTTTTTAATT
*
47403749 AAATTAGGTTAGGGTTAGGGTTTTTAATT-AA-A-TTA-GGTTTAGGGTTTTTAATTAAATTAGG
1 AAATTAGGTTAGGGTTAAGGTTTTTAATTAAATAGTTAGGGTTTAGGGTTTTTAATTAAATTAGG
47403810 TTAGGGTTAGGGTTTTTAATT
66 TTAGGGTTAGGGTTTTTAATT
47403831 AAATTAGG
1 AAATTAGG
47403839 GTTTTTATTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
82 54 0.61
83 3 0.03
85 1 0.01
87 2 0.02
88 28 0.32
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (86 bp):
AAATTAGGTTAGGGTTAAGGTTTTTAATTAAATAGTTAGGGTTTAGGGTTTTTAATTAAATTAGG
TTAGGGTTAGGGTTTTTAATT
Found at i:47403924 original size:36 final size:36
Alignment explanation
Indices: 47403884--47403998 Score: 92
Period size: 36 Copynumber: 3.2 Consensus size: 36
47403874 ATATCAAATA
*
47403884 ATATCAAAATAACTCGAAAAAATTTCTATGCCTATT
1 ATATCAAAATAACTCGAAAAAATTTCTATGCATATT
* **** * * *
47403920 ATATC-AAATAAACTTCTATTTTATTAC-AT-CAAATA
1 ATATCAAAAT-AAC-TCGAAAAAATTTCTATGCATATT
*
47403955 ATATCAAAATAACTCGAAAAAATTTCTATGCGTATT
1 ATATCAAAATAACTCGAAAAAATTTCTATGCATATT
*
47403991 ACATCAAA
1 ATATCAAA
47403999 TAAACTTCTA
Statistics
Matches: 55, Mismatches: 19, Indels: 10
0.65 0.23 0.12
Matches are distributed among these distances:
34 7 0.13
35 17 0.31
36 24 0.44
37 7 0.13
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (36 bp):
ATATCAAAATAACTCGAAAAAATTTCTATGCATATT
Found at i:47403950 original size:25 final size:25
Alignment explanation
Indices: 47403916--47404026 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
47403906 TTTCTATGCC
*
47403916 TATTATATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
*
47403941 TATTACATCAAAT-AA-TATC-A--A
1 TATTACATCAAATAAACT-TCTATTT
* * * **
47403962 AATAAC-TCGAAA-AAATTTCTATGCG
1 TATTACATC-AAATAAACTTCTAT-TT
47403987 TATTACATCAAATAAACTTCTATTT
1 TATTACATCAAATAAACTTCTATTT
47404012 TATTACATCAAATAA
1 TATTACATCAAATAA
47404027 TAAATTTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
20 2 0.03
21 11 0.17
22 2 0.03
23 2 0.03
24 4 0.06
25 34 0.52
26 11 0.17
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (25 bp):
TATTACATCAAATAAACTTCTATTT
Found at i:47403951 original size:71 final size:71
Alignment explanation
Indices: 47403844--47404028 Score: 334
Period size: 71 Copynumber: 2.6 Consensus size: 71
47403834 TTAGGGTTTT
*
47403844 TATTACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
47403909 CTATGCC
65 CTATGCC
*
47403916 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
*
47403981 TATGCG
66 TATGCC
47403987 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
47404029 AATTTAAATA
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
71 96 0.88
72 13 0.12
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCC
Found at i:47404456 original size:18 final size:18
Alignment explanation
Indices: 47404429--47404464 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47404419 CGGAAAAGGA
* *
47404429 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
47404447 TACATATAAGGGCTAGGG
1 TACATATAAGGGCTAGGG
47404465 AACACACCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.36, T:0.25
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:47404538 original size:13 final size:13
Alignment explanation
Indices: 47404520--47404556 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
47404510 TGTTGAATTG
47404520 CTGCGTCAGGTGA
1 CTGCGTCAGGTGA
47404533 CTGCGTCAGGTGA
1 CTGCGTCAGGTGA
47404546 CTGCGTC-GGTG
1 CTGCGTCAGGTG
47404557 CTCTCGTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.11, C:0.24, G:0.41, T:0.24
Consensus pattern (13 bp):
CTGCGTCAGGTGA
Found at i:47405140 original size:7 final size:7
Alignment explanation
Indices: 47405128--47405152 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47405118 TTATGTACAT
47405128 AATACTA
1 AATACTA
47405135 AATACTA
1 AATACTA
47405142 AATACTA
1 AATACTA
47405149 AATA
1 AATA
47405153 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:47408069 original size:22 final size:21
Alignment explanation
Indices: 47408032--47408087 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
47408022 TAGGAAACTG
*
47408032 CATCTTATTCTAATCTGTTCTA
1 CATCTTA-TCTGATCTGTTCTA
* *
47408054 CATCTGTATCTGATCTGTTTTG
1 CATCT-TATCTGATCTGTTCTA
47408076 CATCTTATCTGA
1 CATCTTATCTGA
47408088 ATTGTTATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.23
22 21 0.70
23 2 0.07
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.48
Consensus pattern (21 bp):
CATCTTATCTGATCTGTTCTA
Found at i:47409634 original size:26 final size:26
Alignment explanation
Indices: 47409564--47409634 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
47409554 GTTGGTTTGG
* *
47409564 CGAACTGGTGTTTAGCAGTTAAGTTA
1 CGAACTGGTGTTCACCAGTTAAGTTA
** *
47409590 CGAACTGGTGTTCGTCAGTTAAGTTG
1 CGAACTGGTGTTCACCAGTTAAGTTA
*
47409616 TGAACTGGTGTTCACCAGT
1 CGAACTGGTGTTCACCAGT
47409635 CAAAGTTAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (26 bp):
CGAACTGGTGTTCACCAGTTAAGTTA
Found at i:47410440 original size:12 final size:12
Alignment explanation
Indices: 47410425--47410450 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47410415 CCGAAACTTC
47410425 AAAAGAAAAGAA
1 AAAAGAAAAGAA
47410437 AAAAGAAAAGAA
1 AAAAGAAAAGAA
47410449 AA
1 AA
47410451 GTTAGGTTCG
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:47411183 original size:44 final size:44
Alignment explanation
Indices: 47411116--47411237 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 44
47411106 GCTGAAATGT
*
47411116 GATTT-CGTGTAAGACCACA-TCTGGGACGTTGGCATCG-ATTTGA
1 GATTTACGTGTAAGACCA-AGTCTGGGACGTTGGCATCGTATAT-A
* * *
47411159 GATTTACGTGTAAGACCAAGTCTGGGACATTAGCGTCGTATATA
1 GATTTACGTGTAAGACCAAGTCTGGGACGTTGGCATCGTATATA
**
47411203 -A-TTACGTGTAAGACCCTGTCTGGGACAG-TGGCATC
1 GATTTACGTGTAAGACCAAGTCTGGGAC-GTTGGCATC
47411238 ATTATTTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
42 28 0.42
43 7 0.11
44 28 0.42
45 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (44 bp):
GATTTACGTGTAAGACCAAGTCTGGGACGTTGGCATCGTATATA
Found at i:47411259 original size:43 final size:43
Alignment explanation
Indices: 47411162--47411314 Score: 155
Period size: 43 Copynumber: 3.6 Consensus size: 43
47411152 GATTTGAGAT
** * * * * *
47411162 TTACGTGTAAGACCAAGTCTGGGACATTAGCGTC-GTATATAA
1 TTACGTGTAAGACCCTGTCTGGGACAATGGCATCATTATTTAA
*
47411204 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATCATTATTTAA
1 TTACGTGTAAGACCCTGTCTGGGACAATGGCATCATTATTTAA
* * * *
47411247 TTATGTGTAAGACTCTGTCTGAGACAATGGCATCATTATTTGA
1 TTACGTGTAAGACCCTGTCTGGGACAATGGCATCATTATTTAA
* * * *
47411290 TTACATTTAAGACCATGGCTGGGAC
1 TTACGTGTAAGACCCTGTCTGGGAC
47411315 GTTGGCATTG
Statistics
Matches: 91, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 29 0.32
43 62 0.68
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (43 bp):
TTACGTGTAAGACCCTGTCTGGGACAATGGCATCATTATTTAA
Found at i:47413380 original size:91 final size:91
Alignment explanation
Indices: 47413285--47413466 Score: 355
Period size: 91 Copynumber: 2.0 Consensus size: 91
47413275 ATGTAAAGGG
47413285 GGATTCGATGGAAGATAAAAAAACATTGCTGAATCAATAAAAATCGAAAATCTTTGAAGAAAGGT
1 GGATTCGATGGAAGATAAAAAAACATTGCTGAATCAATAAAAATCGAAAATCTTTGAAGAAAGGT
47413350 TCCTATTTTTCTTTTTTCATTCGGTC
66 TCCTATTTTTCTTTTTTCATTCGGTC
*
47413376 GGATTCGATGGAAGATAAAAAATCATTGCTGAATCAATAAAAATCGAAAATCTTTGAAGAAAGGT
1 GGATTCGATGGAAGATAAAAAAACATTGCTGAATCAATAAAAATCGAAAATCTTTGAAGAAAGGT
47413441 TCCTATTTTTCTTTTTTCATTCGGTC
66 TCCTATTTTTCTTTTTTCATTCGGTC
47413467 TCCAAATTTA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 90 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (91 bp):
GGATTCGATGGAAGATAAAAAAACATTGCTGAATCAATAAAAATCGAAAATCTTTGAAGAAAGGT
TCCTATTTTTCTTTTTTCATTCGGTC
Found at i:47414098 original size:4 final size:4
Alignment explanation
Indices: 47414089--47414132 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
47414079 CTCTTAATCC
* * * *
47414089 TTTA TTTA TTTA GTTA TTTG TTTG TTTA TTTA TATA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
47414133 AAATTTTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:47414368 original size:16 final size:16
Alignment explanation
Indices: 47414347--47414381 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47414337 CTTTTACATG
*
47414347 TATTTCATTATTTTCA
1 TATTTCATAATTTTCA
*
47414363 TATTTCATAATTTTTA
1 TATTTCATAATTTTCA
47414379 TAT
1 TAT
47414382 ACCTACATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTCATAATTTTCA
Found at i:47419075 original size:21 final size:20
Alignment explanation
Indices: 47419047--47419085 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
47419037 TATATTTTTT
*
47419047 ATATTTTTATTTTTTATTGC
1 ATATTTTTAGTTTTTATTGC
*
47419067 ATATGTTTTGGTTTTTATT
1 ATAT-TTTTAGTTTTTATT
47419086 TATAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (20 bp):
ATATTTTTAGTTTTTATTGC
Found at i:47419473 original size:51 final size:51
Alignment explanation
Indices: 47419397--47419602 Score: 412
Period size: 51 Copynumber: 4.0 Consensus size: 51
47419387 AAAAAATTAA
47419397 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
1 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
47419448 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
1 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
47419499 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
1 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
47419550 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
1 TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
47419601 TA
1 TA
47419603 ATTTACCCAA
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 155 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (51 bp):
TAGTTGATTGAACAAAATAGAACTAAAGGCATAATTGAGTGACTATTTTAG
Found at i:47426247 original size:6 final size:6
Alignment explanation
Indices: 47426236--47426261 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47426226 TCTCCTCAAA
47426236 ATCCCC ATCCCC ATCCCC ATCCCC AT
1 ATCCCC ATCCCC ATCCCC ATCCCC AT
47426262 TTATAAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.62, G:0.00, T:0.19
Consensus pattern (6 bp):
ATCCCC
Found at i:47431105 original size:11 final size:11
Alignment explanation
Indices: 47431083--47431140 Score: 80
Period size: 11 Copynumber: 5.2 Consensus size: 11
47431073 AACTAATCAT
47431083 CTCTCAAATTTC
1 CTCTC-AATTTC
47431095 CTCTCAATTTC
1 CTCTCAATTTC
*
47431106 CTCTAAATTTC
1 CTCTCAATTTC
*
47431117 CTCTCAATTTG
1 CTCTCAATTTC
*
47431128 CTCTCAAATTC
1 CTCTCAATTTC
47431139 CT
1 CT
47431141 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:47431113 original size:22 final size:23
Alignment explanation
Indices: 47431083--47431159 Score: 99
Period size: 22 Copynumber: 3.4 Consensus size: 23
47431073 AACTAATCAT
47431083 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
47431106 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
47431128 CTCTCAAA-TTCCT-TCCAAATTT-
1 CTCTCAAATTTCCTCT-C-AATTTC
47431150 CTCTCAAATT
1 CTCTCAAATT
47431160 CATATTTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
21 1 0.02
22 35 0.71
23 13 0.27
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:47431132 original size:33 final size:33
Alignment explanation
Indices: 47431082--47431156 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
47431072 AAACTAATCA
* *
47431082 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
*
47431115 TCCTCTCAATTTGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
47431149 TCTCTCAA
1 TCTCTCAA
47431157 ATTCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.43
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:47431157 original size:11 final size:11
Alignment explanation
Indices: 47431082--47431159 Score: 74
Period size: 11 Copynumber: 7.0 Consensus size: 11
47431072 AAACTAATCA
47431082 TCTCTCAAATT
1 TCTCTCAAATT
47431093 TCCTCTC-AATT
1 T-CTCTCAAATT
47431104 TC-CTCTAAATT
1 TCTCTC-AAATT
47431115 TCCTCTC-AATT
1 T-CTCTCAAATT
47431126 TGCTCTCAAATT
1 T-CTCTCAAATT
*
47431138 CCT-TCCAAATT
1 TCTCT-CAAATT
47431149 TCTCTCAAATT
1 TCTCTCAAATT
47431160 CATATTTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
9 3 0.05
10 2 0.04
11 37 0.66
12 11 0.20
13 3 0.05
ACGTcount: A:0.24, C:0.31, G:0.01, T:0.44
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:47432840 original size:18 final size:18
Alignment explanation
Indices: 47432813--47432852 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
47432803 CAGGTGCGTT
*
47432813 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
47432831 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
47432849 TCCT
1 TCCT
47432853 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:47433132 original size:21 final size:21
Alignment explanation
Indices: 47433108--47433156 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
47433098 AGATGTCGTA
* *
47433108 CCGAAAGAACCAGAATCC-CCG
1 CCGAAAGAACAACAA-CCACCG
*
47433129 CCGAAGGAACAACAACCACCG
1 CCGAAAGAACAACAACCACCG
47433150 CCGAAAG
1 CCGAAAG
47433157 CTAGAGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.41, C:0.37, G:0.20, T:0.02
Consensus pattern (21 bp):
CCGAAAGAACAACAACCACCG
Found at i:47435190 original size:21 final size:24
Alignment explanation
Indices: 47435142--47435207 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
47435132 CAAATAATAA
*
47435142 AATAATACAGCATAACTTTTAAGT
1 AATAATACAGAATAACTTTTAAGT
* *
47435166 AATAATACATAATAA-TTTTAGAAT
1 AATAATACAGAATAACTTTTA-AGT
47435190 AATAATACACG-ATAACTT
1 AATAATACA-GAATAACTT
47435208 CAAAAATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 5 0.14
24 28 0.80
25 2 0.06
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (24 bp):
AATAATACAGAATAACTTTTAAGT
Done.