Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 330 of 345
Found at i:98725465 original size:14 final size:15
Alignment explanation
Indices: 98725446--98725478 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
98725436 CTATTTCAGG
*
98725446 AAACACCAA-ATCAA
1 AAACACCAACAACAA
98725460 AAACACCAACAACAA
1 AAACACCAACAACAA
98725475 AAAC
1 AAAC
98725479 CAAAGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.67, C:0.30, G:0.00, T:0.03
Consensus pattern (15 bp):
AAACACCAACAACAA
Found at i:98730596 original size:17 final size:17
Alignment explanation
Indices: 98730576--98730610 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
98730566 GTTTTATTAG
98730576 TATAATATATTTAGCAT
1 TATAATATATTTAGCAT
98730593 TATAATATATTTAGCAT
1 TATAATATATTTAGCAT
98730610 T
1 T
98730611 TATTAGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (17 bp):
TATAATATATTTAGCAT
Found at i:98735148 original size:43 final size:43
Alignment explanation
Indices: 98735032--98735155 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
98735022 GATTACCGAG
* * *
98735032 ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCGTT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCGAT
* ***
98735075 ATATGATTTTGTGTAAGACCATGTCTGGGATATTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCGAT
* *
98735118 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCAT
98735156 TGTACGAGCT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 6 0.09
43 62 0.91
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATCGAT
Found at i:98738132 original size:3 final size:3
Alignment explanation
Indices: 98738126--98738220 Score: 66
Period size: 3 Copynumber: 30.7 Consensus size: 3
98738116 ATTATTTCAT
* * * * * * *
98738126 TTA TTA TTA TGA TTA GTG TTA TTA TTA TTA CTA TTA TTA GTC TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
98738174 TTA TTA TTA TTT TTA TTA TGTC TTA TTTA TTTA TTGA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA T-TA TTA -TTA -TTA TT-A TTA TTA TTA TT
98738221 CCTGTTGTTA
Statistics
Matches: 70, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
2 2 0.03
3 56 0.80
4 12 0.17
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:98738184 original size:24 final size:24
Alignment explanation
Indices: 98738126--98738184 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
98738116 ATTATTTCAT
* * *
98738126 TTATTATTATGATTAGTGTTATTA
1 TTATTATTATTATTAGTCTAATTA
*
98738150 TTATTACTATTATTAGTCTAATTA
1 TTATTATTATTATTAGTCTAATTA
98738174 TTATTATTATT
1 TTATTATTATT
98738185 TTTATTATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (24 bp):
TTATTATTATTATTAGTCTAATTA
Found at i:98738207 original size:27 final size:26
Alignment explanation
Indices: 98738117--98738218 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 26
98738107 ATTTGTTTTA
* *
98738117 TTATTTCATTTATTATTATGATTAGTG
1 TTATTT-ATTTATTATTATTATTAGTC
*
98738144 TTA-TTA-TTATTACTATTATTAGTC
1 TTATTTATTTATTATTATTATTAGTC
* *
98738168 -TAATTATTATTATTATTTTTATTATGTC
1 TTATTTA-T-TTATTATTATTATTA-GTC
98738196 TTATTTATTTATTGATT-TTATTA
1 TTATTTATTTATT-ATTATTATTA
98738219 TTCCTGTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
23 2 0.03
24 18 0.29
25 1 0.02
26 2 0.03
27 27 0.44
28 7 0.11
29 5 0.08
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (26 bp):
TTATTTATTTATTATTATTATTAGTC
Found at i:98745101 original size:55 final size:55
Alignment explanation
Indices: 98744988--98745112 Score: 135
Period size: 55 Copynumber: 2.3 Consensus size: 55
98744978 GTGGGCAATT
** * * * * *
98744988 CTGTCAAAGCAACACGGGCGTGCGACACGCCCGTGGCTATAGACCATGGTCGAAA
1 CTGTCAAAATAACACAGGCGTGCGACACACCCGTGCCCACAGACCATGGTCGAAA
* * * *
98745043 CTGTCAAATTAACACAGGCGTGCGACACACCCGTGCCCACCAG-CCGTGGTTGATA
1 CTGTCAAAATAACACAGGCGTGCGACACACCCGTGCCCA-CAGACCATGGTCGAAA
98745098 CTGTCAAAATAACAC
1 CTGTCAAAATAACAC
98745113 GGGCATGTGC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 56 0.97
56 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.24, T:0.17
Consensus pattern (55 bp):
CTGTCAAAATAACACAGGCGTGCGACACACCCGTGCCCACAGACCATGGTCGAAA
Found at i:98749149 original size:19 final size:19
Alignment explanation
Indices: 98749125--98749170 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
98749115 TGGGAAATCA
98749125 ACACGGGTTGGACTTCCTT
1 ACACGGGTTGGACTTCCTT
98749144 ACACGGGTTGGACTTCCTT
1 ACACGGGTTGGACTTCCTT
98749163 ACACGGGT
1 ACACGGGT
98749171 AGACCACACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.28
Consensus pattern (19 bp):
ACACGGGTTGGACTTCCTT
Found at i:98758794 original size:43 final size:44
Alignment explanation
Indices: 98758745--98758911 Score: 207
Period size: 43 Copynumber: 3.9 Consensus size: 44
98758735 GATTACCGAG
* *
98758745 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCGTTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
98758789 -TGTGATTGCGTGTAAGACCATGTCTAGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
98758831 ATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
98758874 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
98758912 TGTACGAGCT
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 7 0.07
43 100 0.93
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:98762630 original size:52 final size:53
Alignment explanation
Indices: 98762501--98762665 Score: 183
Period size: 52 Copynumber: 3.1 Consensus size: 53
98762491 TCTTACACGG
* ** *
98762501 ATCACATATCATACCGATGCCATATCCCATATATAGTCTTATATGGAGGCACATT
1 ATCACA-ATCATACCGATGCCATAGCCCAGCTATGGTCTTATATGGAGGCACA-T
* * *
98762556 ATCAC-ATCATACCAATGCCATAGCCCAGCCATGGTCTTATATGG-GAGTACAT
1 ATCACAATCATACCGATGCCATAGCCCAGCTATGGTCTTATATGGAG-GCACAT
* * * *
98762608 ATCACAAT-GTACCGATGCCATAGCCAAGCTATGGTCTTATACGGATGCACAT
1 ATCACAATCATACCGATGCCATAGCCCAGCTATGGTCTTATATGGAGGCACAT
98762660 ATCACA
1 ATCACA
98762666 TCTATTCCGT
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
52 49 0.53
53 39 0.42
55 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (53 bp):
ATCACAATCATACCGATGCCATAGCCCAGCTATGGTCTTATATGGAGGCACAT
Found at i:98765523 original size:12 final size:12
Alignment explanation
Indices: 98765502--98765553 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
98765492 TTTAAATATC
98765502 ATTTATTATTAT
1 ATTTATTATTAT
*
98765514 ATTTACTATTAT
1 ATTTATTATTAT
**
98765526 CGTTATTATTAT
1 ATTTATTATTAT
*
98765538 -TATTATTAGTAT
1 AT-TTATTATTAT
98765550 ATTT
1 ATTT
98765554 TACTATTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 31 0.97
13 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (12 bp):
ATTTATTATTAT
Found at i:98765832 original size:14 final size:13
Alignment explanation
Indices: 98765770--98765831 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 13
98765760 TTTGTTATTA
98765770 ATATTAGTATATGTT
1 ATATTA-TATATG-T
*
98765785 TTATTATATATGT
1 ATATTATATATGT
98765798 ATATATATATATGT
1 ATAT-TATATATGT
*
98765812 ATA-TATTTATGT
1 ATATTATATATGT
98765824 AGTATTAT
1 A-TATTAT
98765832 TAATAGTTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 9 0.22
13 6 0.15
14 21 0.51
15 5 0.12
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (13 bp):
ATATTATATATGT
Found at i:98765939 original size:30 final size:28
Alignment explanation
Indices: 98765884--98765993 Score: 95
Period size: 30 Copynumber: 4.0 Consensus size: 28
98765874 TATTATGTAA
*
98765884 ATATTTTAATACTATATTATTTATATAT
1 ATATTTTAATACTATATTATGTATATAT
* *
98765912 ATATATTTACATATTATTTTATGTATATAT
1 ATAT-TTTA-ATACTATATTATGTATATAT
*
98765942 -T-TTTTAATAACTATATTATG--TATGT
1 ATATTTTAAT-ACTATATTATGTATATAT
** *
98765967 AT-TTTTAACGCTATATTATGTACATAT
1 ATATTTTAATACTATATTATGTATATAT
98765994 TTTAATACTA
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
25 14 0.21
26 9 0.14
27 16 0.24
28 5 0.08
29 5 0.08
30 17 0.26
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (28 bp):
ATATTTTAATACTATATTATGTATATAT
Found at i:98766004 original size:24 final size:24
Alignment explanation
Indices: 98765872--98766004 Score: 104
Period size: 26 Copynumber: 5.1 Consensus size: 24
98765862 CTAATATGTA
*
98765872 TATATTATGTAAATATTTTAATAC
1 TATATTATGTATATATTTTAATAC
* *
98765896 TATATTATTTATATATATATATTTACATAT
1 --TA-TA-TTATGTATATAT-TTTA-ATAC
*
98765926 TATTTTATGTATATATTTTTTAATAAC
1 TATATTATGTATATA--TTTTAAT-AC
* **
98765953 TATATTATGTATGTATTTTTAACGC
1 TATATTATGTATATA-TTTTAATAC
*
98765978 TATATTATGTACATATTTTAATAC
1 TATATTATGTATATATTTTAATAC
98766002 TAT
1 TAT
98766005 GTATATACCA
Statistics
Matches: 86, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
24 10 0.12
25 14 0.16
26 21 0.24
27 21 0.24
28 13 0.15
29 4 0.05
30 3 0.03
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (24 bp):
TATATTATGTATATATTTTAATAC
Found at i:98766159 original size:19 final size:18
Alignment explanation
Indices: 98766110--98766160 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
98766100 TTTTCAATAT
*
98766110 ATATTGTATATATTTTTA
1 ATATAGTATATATTTTTA
*
98766128 ATCTAGTATTATATGTTTTA
1 ATATAGTA-TATAT-TTTTA
98766148 TATATA-TATATAT
1 -ATATAGTATATAT
98766161 ATGTTCACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
20 7 0.26
21 4 0.15
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (18 bp):
ATATAGTATATATTTTTA
Found at i:98766161 original size:21 final size:22
Alignment explanation
Indices: 98766106--98766165 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 22
98766096 ACTGTTTTCA
* *
98766106 ATATATATTGTATATAT-TTTT
1 ATATATAGTATATATATGTTTT
*
98766127 A-ATCTAGTAT-TATATGTTTT
1 ATATATAGTATATATATGTTTT
98766147 ATATATA-TATATATATGTT
1 ATATATAGTATATATATGTT
98766166 CACTACTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.16
20 14 0.44
21 13 0.41
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (22 bp):
ATATATAGTATATATATGTTTT
Found at i:98769501 original size:240 final size:239
Alignment explanation
Indices: 98769078--98769541 Score: 847
Period size: 240 Copynumber: 1.9 Consensus size: 239
98769068 CATCCGAGCT
* * *
98769078 AGAAGTAACAAGACACGAATTTGAACGTGAAAAGGCTAAGTTGTTATGGGATATCAGCTCTCTTC
1 AGAAGTAACAAGACACAAATTTGAACGTGAAAAGACTAAGTTGTTACGGGATATCAGCTCTCTTC
*
98769143 AAGAGGAAAACTACCAGCTAAAGATCGATGTTCAGATTGAAAAGTCCCAAACCGTGAAAATCCAA
66 AAGAGGAAAACTACCAGCTAAAGATCGATATTCAGATTGAAAAGTCCCAAACCGTGAAAATCCAA
*
98769208 AAAGAAGCTGAGATCGTGAGAAATGACTTAAGGGACCTTCATTTGGAAAATAAGACATTAAGAAG
131 AAAGAAGCTGAGATCGTGAGAAATGACTTAAGGGACCTTCATTTGGAAAATAAGAAATTAAGAAG
98769273 CACTATTAAAAAATAGTGGGTTGGGCAAATTAAGAAGCACTATTA
196 CACTA-TAAAAAATAGTGGGTTGGGCAAATTAAGAAGCACTATTA
*
98769318 AGAAGTAACAAGACACAAATTTGAACGTGAAAAGACTAATTTGTTACGGGATATCAGCTCTCTTC
1 AGAAGTAACAAGACACAAATTTGAACGTGAAAAGACTAAGTTGTTACGGGATATCAGCTCTCTTC
*
98769383 AAGAGGAAAACTACCAGCTAAAGATTGATATTCAGATTGAAAAGTCCCAAACCGTGAAAATCCAA
66 AAGAGGAAAACTACCAGCTAAAGATCGATATTCAGATTGAAAAGTCCCAAACCGTGAAAATCCAA
*
98769448 AGAGAAGCTGAGATCGTGAGAAATGACTTAAGGGACCTTCATTTGGAAAATAAGAAATTAAGAAG
131 AAAGAAGCTGAGATCGTGAGAAATGACTTAAGGGACCTTCATTTGGAAAATAAGAAATTAAGAAG
98769513 CACTATAAAAAATAGTGGGTTGGGCAAAT
196 CACTATAAAAAATAGTGGGTTGGGCAAAT
98769542 CGTCGGCAGA
Statistics
Matches: 216, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
239 24 0.11
240 192 0.89
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.22
Consensus pattern (239 bp):
AGAAGTAACAAGACACAAATTTGAACGTGAAAAGACTAAGTTGTTACGGGATATCAGCTCTCTTC
AAGAGGAAAACTACCAGCTAAAGATCGATATTCAGATTGAAAAGTCCCAAACCGTGAAAATCCAA
AAAGAAGCTGAGATCGTGAGAAATGACTTAAGGGACCTTCATTTGGAAAATAAGAAATTAAGAAG
CACTATAAAAAATAGTGGGTTGGGCAAATTAAGAAGCACTATTA
Found at i:98778528 original size:75 final size:75
Alignment explanation
Indices: 98778442--98779013 Score: 655
Period size: 75 Copynumber: 7.3 Consensus size: 75
98778432 TTTCTGTTTC
* * *
98778442 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGATACGTTGAGGTATTTCCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
98778507 TGTCTTTCAA
66 TGTCTTTCAA
* *
98778517 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
98778582 TGTCTTTCAA
66 TGTCTTTCAA
* * * * *
98778592 AAAAATCAACTCATATTGCAAAAGGTAAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
98778657 TGTCTTTCAA
66 TGTCTTTCAA
* *
98778667 AAAACTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTT
98778731 CTGTCTTTCAA
65 CTGTCTTTCAA
* * * *
98778742 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-TGCTCACAGGCTGAGGTGTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCAAT
*
98778806 TTCTGTTTTTCAA
63 TTCTGTCTTTCAA
* *
98778819 TTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTA
1 -----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
* * *
98778884 TTTTCAATTT-TCGTTTTTTATGTTT
55 TTTTCAATTTCT-GTCTTTCA----A
* * **
98778909 CAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* *
98778974 TGGTTTTTAAAAA
66 T-GTCTTT--CAA
98778987 AAAAATCAAGCTCATATTGCGAGAGGT
1 AAAAATCAA-CTCATATTGCGAGAGGT
98779014 CATACGCTGA
Statistics
Matches: 435, Mismatches: 36, Indels: 48
0.84 0.07 0.09
Matches are distributed among these distances:
74 1 0.00
75 239 0.55
76 9 0.02
77 26 0.06
78 8 0.02
79 77 0.18
80 7 0.02
82 1 0.00
85 1 0.00
86 28 0.06
88 36 0.08
89 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTCTTTCAA
Found at i:98778817 original size:14 final size:14
Alignment explanation
Indices: 98778798--98778826 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
98778788 GGCTGAGGTG
98778798 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
98778812 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
98778826 T
1 T
98778827 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:98778943 original size:79 final size:79
Alignment explanation
Indices: 98778667--98778981 Score: 297
Period size: 79 Copynumber: 3.9 Consensus size: 79
98778657 TGTCTTTCAA
* *
98778667 AAAACTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT-AA-TT
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-TGACACGCTGAGGT-ATTTTCAATTT
* * **
98778730 TC----TGTCT-TTCAAA
63 TCGTTTTTTATGTTC-TC
* * *
98778743 AAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCTGCTCACAGGCTGAGGTGTTTTCAA-TT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCTG---ACACGCTGAGGTATTTTCAATTT
*
98778807 TCTGTTTTTCAATTTCTGTTCGTC
63 TC-G--TTT---TTTATGTTC-TC
98778831 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTATTTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-TGACACGCTGAGGTATTTTCAATTTTC
98778896 GTTTTTTATGTT-TC
65 GTTTTTTATGTTCTC
* *
98778910 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-TGACACGCTGAGGTATTTTCAATTT-T
*
98778975 GGTTTTT
64 CGTTTTT
98778982 AAAAAAAAAA
Statistics
Matches: 204, Mismatches: 17, Indels: 32
0.81 0.07 0.13
Matches are distributed among these distances:
74 1 0.00
75 31 0.15
76 8 0.04
77 17 0.08
79 62 0.30
80 7 0.03
81 7 0.03
84 3 0.01
86 19 0.09
87 8 0.04
88 39 0.19
89 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.35
Consensus pattern (79 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCTGACACGCTGAGGTATTTTCAATTTTCG
TTTTTTATGTTCTC
Found at i:98779469 original size:19 final size:19
Alignment explanation
Indices: 98779428--98779481 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
98779418 TTCAGCCAAC
* *
98779428 ACAGCAATACCCAAAACCCA
1 ACAGCAA-ACCCAATACACA
*
98779448 ACAGCAAACCCAATACATA
1 ACAGCAAACCCAATACACA
*
98779467 ACA-CTAACCCAATAC
1 ACAGCAAACCCAATAC
98779482 CCAATTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 11 0.37
19 12 0.40
20 7 0.23
ACGTcount: A:0.50, C:0.37, G:0.04, T:0.09
Consensus pattern (19 bp):
ACAGCAAACCCAATACACA
Found at i:98780198 original size:25 final size:25
Alignment explanation
Indices: 98780065--98780198 Score: 108
Period size: 25 Copynumber: 5.1 Consensus size: 25
98780055 CTAATATGTA
*
98780065 TATATTATGTAAATA-TTTTAATAC
1 TATATTATGTATATATTTTTAATAC
* *
98780089 TATATTATTTATATATATATTTTTACATAT
1 --TA-TA-TTATGTATATATTTTTA-ATAC
* * *
98780119 TATTTTATGCAGATATTTTTTAATAAC
1 TATATTATGTATATA-TTTTTAAT-AC
* **
98780146 TATATTATGTATGTATTTTTAACGC
1 TATATTATGTATATATTTTTAATAC
*
98780171 TATATTATGTACATATTTTTAATAC
1 TATATTATGTATATATTTTTAATAC
98780196 TAT
1 TAT
98780199 GTATATACCT
Statistics
Matches: 84, Mismatches: 18, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
25 25 0.30
26 19 0.23
27 21 0.25
28 11 0.13
29 5 0.06
30 3 0.04
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (25 bp):
TATATTATGTATATATTTTTAATAC
Found at i:98786863 original size:12 final size:12
Alignment explanation
Indices: 98786763--98786863 Score: 60
Period size: 12 Copynumber: 8.2 Consensus size: 12
98786753 TTTAATTTGG
98786763 TTTTTA-TATTA
1 TTTTTATTATTA
** *
98786774 TTTTTACCATTT
1 TTTTTATTATTA
* *
98786786 TTATTTTTTAATA
1 TT-TTTATTATTA
98786799 TTATTTATTATTA
1 TT-TTTATTATTA
* *
98786812 TATTTACTATTA
1 TTTTTATTATTA
**
98786824 TCGTTATTATTA
1 TTTTTATTATTA
*
98786836 TTGTTATTAGTATA
1 TTTTTATTA-T-TA
*
98786850 TTTTTACTATTA
1 TTTTTATTATTA
98786862 TT
1 TT
98786864 AGAATTATTT
Statistics
Matches: 69, Mismatches: 17, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
11 6 0.09
12 35 0.51
13 19 0.28
14 9 0.13
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (12 bp):
TTTTTATTATTA
Found at i:98787133 original size:14 final size:13
Alignment explanation
Indices: 98787071--98787132 Score: 63
Period size: 14 Copynumber: 4.5 Consensus size: 13
98787061 TTTGTTATTA
98787071 ATATTAGTATATGTT
1 ATATTA-TATATG-T
*
98787086 TTATTATATATGT
1 ATATTATATATGT
98787099 ATATATATATATGT
1 ATAT-TATATATGT
*
98787113 ATA-TATTTATGT
1 ATATTATATATGT
98787125 AGTATTAT
1 A-TATTAT
98787133 TAATAGTTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 9 0.22
13 6 0.15
14 21 0.51
15 5 0.12
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (13 bp):
ATATTATATATGT
Found at i:98796718 original size:53 final size:51
Alignment explanation
Indices: 98796661--98796793 Score: 153
Period size: 52 Copynumber: 2.5 Consensus size: 51
98796651 TATCTCATAT
*
98796661 ATGGTCTTATAC-GGAGACACATTATCAC-ATCATACCGATGCCATAACCCAGCC
1 ATGGTCTTATACGGGAG-CACA-TATCACAATC--ACCGATGCCATAACCCAACC
* * *
98796714 ATGGTCTTATACGGGAGTACATATCACAATGCACCGATGCCATAGCCCAACT
1 ATGGTCTTATACGGGAGCACATATCACAAT-CACCGATGCCATAACCCAACC
* *
98796766 AAGGTCTTATACGGGCGCACATATCACA
1 ATGGTCTTATACGGGAGCACATATCACA
98796794 CCTATTCCGT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
52 48 0.69
53 17 0.24
54 5 0.07
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (51 bp):
ATGGTCTTATACGGGAGCACATATCACAATCACCGATGCCATAACCCAACC
Found at i:98811895 original size:19 final size:17
Alignment explanation
Indices: 98811873--98811907 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
98811863 AATAAAAGAA
98811873 AAACTAGAAAACAAAAATT
1 AAACTA-AAAA-AAAAATT
98811892 AAACTAAAAAAAAAAT
1 AAACTAAAAAAAAAAT
98811908 AAAATGCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.74, C:0.09, G:0.03, T:0.14
Consensus pattern (17 bp):
AAACTAAAAAAAAAATT
Found at i:98815149 original size:25 final size:25
Alignment explanation
Indices: 98815115--98815165 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
98815105 TTCCTTATAA
**
98815115 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
98815140 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
98815165 A
1 A
98815166 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:98815164 original size:12 final size:12
Alignment explanation
Indices: 98815118--98815165 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
98815108 CTTATAAACT
98815118 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
98815130 TTCTATTAGGACT
1 TTAAATTAGGA-A
98815143 TTAAATTAGGAA
1 TTAAATTAGGAA
*
98815155 TTAGATTAGGA
1 TTAAATTAGGA
98815166 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:98819800 original size:25 final size:25
Alignment explanation
Indices: 98819766--98819816 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
98819756 TTCCTTATAA
**
98819766 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
98819791 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
98819816 A
1 A
98819817 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:98819815 original size:12 final size:12
Alignment explanation
Indices: 98819769--98819816 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
98819759 CTTATAAACT
98819769 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
98819781 TTCTATTAGGACT
1 TTAAATTAGGA-A
98819794 TTAAATTAGGAA
1 TTAAATTAGGAA
*
98819806 TTAGATTAGGA
1 TTAAATTAGGA
98819817 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:98822188 original size:12 final size:13
Alignment explanation
Indices: 98822163--98822191 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
98822153 ATTATTTTCC
98822163 GTGTTTATAGTAT
1 GTGTTTATAGTAT
98822176 GTGTTTA-AGTAT
1 GTGTTTATAGTAT
98822188 GTGT
1 GTGT
98822192 GAACGTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (13 bp):
GTGTTTATAGTAT
Found at i:98822594 original size:44 final size:42
Alignment explanation
Indices: 98822543--98822640 Score: 126
Period size: 44 Copynumber: 2.3 Consensus size: 42
98822533 GTATGTGAAA
* * *
98822543 TCGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGGTTTT
1 TCGTGTAAGACCACATCTAGGACGTTGGCATCGTATTT-G-ATT
*
98822586 TACGTGTAAGACCATATCTAGGACGTTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACATCTAGGACGTTGGCATCGTATTTGATT
98822629 TCGTGTAAGACC
1 TCGTGTAAGACC
98822641 CTGTCTGAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 11 0.22
43 4 0.08
44 30 0.61
45 4 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (42 bp):
TCGTGTAAGACCACATCTAGGACGTTGGCATCGTATTTGATT
Found at i:98822658 original size:42 final size:42
Alignment explanation
Indices: 98822543--98822671 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 42
98822533 GTATGTGAAA
* *
98822543 TCGTGTAAGACCAC-GTCTGGGACGTTGGCATCG-ATTTGGTTTT
1 TCGTGTAAGACC-CTGTCTGAGACGTTGGCATCGTATTT-G-ATT
* *
98822586 TACGTGTAAGACCATATCT-AGGACGTTGGCATCGTATTTGATT
1 T-CGTGTAAGACCCTGTCTGA-GACGTTGGCATCGTATTTGATT
*
98822629 TCGTGTAAGACCCTGTCTGAGACAG-TGGCATTGATATTTGATT
1 TCGTGTAAGACCCTGTCTGAGAC-GTTGGCATCG-TATTTGATT
98822672 ATATGTAAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
42 25 0.35
43 15 0.21
44 28 0.39
45 4 0.06
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (42 bp):
TCGTGTAAGACCCTGTCTGAGACGTTGGCATCGTATTTGATT
Found at i:98829607 original size:5 final size:5
Alignment explanation
Indices: 98829579--98829634 Score: 55
Period size: 5 Copynumber: 11.8 Consensus size: 5
98829569 TCTTCTTTCA
* * *
98829579 TTTAT TTT-C TTTAT TTT-C TTTAT TTTA- TTTAT TTTAT TTTAC TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
*
98829626 TTTAG TTTA
1 TTTAT TTTA
98829635 ATTCTTTTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
4 10 0.24
5 31 0.76
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:98829614 original size:9 final size:9
Alignment explanation
Indices: 98829578--98829627 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
98829568 TTCTTCTTTC
98829578 ATTTATTTT
1 ATTTATTTT
*
98829587 CTTTATTTT
1 ATTTATTTT
*
98829596 CTTTATTTT
1 ATTTATTTT
98829605 ATTTATTTT
1 ATTTATTTT
*
98829614 ATTTTACTTT
1 A-TTTATTTT
98829624 ATTT
1 ATTT
98829628 TAGTTTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
9 29 0.78
10 8 0.22
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTATTTT
Found at i:98829626 original size:15 final size:14
Alignment explanation
Indices: 98829578--98829634 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
98829568 TTCTTCTTTC
*
98829578 ATTTATTTT-CTTT
1 ATTTATTTTATTTT
98829591 ATTT-TCTTTATTTT
1 ATTTAT-TTTATTTT
98829605 ATTTATTTTATTTT
1 ATTTATTTTATTTT
*
98829619 ACTTTATTTTAGTTT
1 A-TTTATTTTATTTT
98829634 A
1 A
98829635 ATTCTTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
12 1 0.03
13 7 0.18
14 16 0.42
15 14 0.37
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (14 bp):
ATTTATTTTATTTT
Found at i:98834922 original size:13 final size:13
Alignment explanation
Indices: 98834904--98834928 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98834894 CTTCAATTTC
98834904 AGTATTTTCCAAA
1 AGTATTTTCCAAA
98834917 AGTATTTTCCAA
1 AGTATTTTCCAA
98834929 CTCTTATCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
AGTATTTTCCAAA
Found at i:98841163 original size:2 final size:2
Alignment explanation
Indices: 98841158--98841201 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
98841148 ACACACACAC
98841158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
98841200 AT
1 AT
98841202 CTGTTCTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98843415 original size:21 final size:21
Alignment explanation
Indices: 98843390--98843429 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
98843380 CTGTGTTCAG
*
98843390 AGGTTCAACAGTATTGATGCA
1 AGGTTCAACAGTATCGATGCA
*
98843411 AGGTTCGACAGTATCGATG
1 AGGTTCAACAGTATCGATG
98843430 AAACTTTGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (21 bp):
AGGTTCAACAGTATCGATGCA
Found at i:98843533 original size:6 final size:6
Alignment explanation
Indices: 98843522--98843607 Score: 133
Period size: 6 Copynumber: 14.8 Consensus size: 6
98843512 AGTCCACTTA
98843522 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA- TTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* *
98843568 TTTTAT TTTTAT TTTTAT TTTTAT CTTT-C TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
98843608 AAAACTTATG
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
5 11 0.15
6 62 0.85
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:98844584 original size:4 final size:4
Alignment explanation
Indices: 98844577--98844729 Score: 263
Period size: 4 Copynumber: 38.5 Consensus size: 4
98844567 CTTAAAAAAA
*
98844577 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATCC ATA-
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
98844624 GTAC ATAC ATAC ATAC ATAC GTAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
98844672 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
98844720 ATAC ATAC AT
1 ATAC ATAC AT
98844730 TTTAGTAGTA
Statistics
Matches: 140, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
3 2 0.01
4 138 0.99
ACGTcount: A:0.48, C:0.24, G:0.01, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:98848607 original size:12 final size:12
Alignment explanation
Indices: 98848590--98848614 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
98848580 TTGTGTGTTC
98848590 TTTATTTTATTT
1 TTTATTTTATTT
98848602 TTTATTTTATTT
1 TTTATTTTATTT
98848614 T
1 T
98848615 ATTTTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:98853751 original size:8 final size:8
Alignment explanation
Indices: 98853734--98853764 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
98853724 TTTATTTTAT
*
98853734 TTTATGTC
1 TTTATTTC
98853742 TTTATTTC
1 TTTATTTC
98853750 TTTATTTC
1 TTTATTTC
98853758 TTTATTT
1 TTTATTT
98853765 GTTTGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (8 bp):
TTTATTTC
Found at i:98854013 original size:9 final size:9
Alignment explanation
Indices: 98853971--98854013 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
98853961 ATTAATCTAT
*
98853971 TTTTTATTA
1 TTTTTATTG
98853980 TTTGTTCATTG
1 TTT-TT-ATTG
98853991 TTTTTATTG
1 TTTTTATTG
*
98854000 CTTTTATTG
1 TTTTTATTG
98854009 TTTTT
1 TTTTT
98854014 GTTCTTAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 19 0.66
10 4 0.14
11 6 0.21
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (9 bp):
TTTTTATTG
Found at i:98855148 original size:17 final size:17
Alignment explanation
Indices: 98855128--98855160 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
98855118 CAACTCGCTC
98855128 GACACTTCAATCTTCTT
1 GACACTTCAATCTTCTT
*
98855145 GACACTTCGATCTTCT
1 GACACTTCAATCTTCT
98855161 CAACACACCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.39
Consensus pattern (17 bp):
GACACTTCAATCTTCTT
Found at i:98859784 original size:15 final size:15
Alignment explanation
Indices: 98859757--98859795 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
98859747 TTCCATTTCA
98859757 TTAATTA-TTAATTT
1 TTAATTATTTAATTT
*
98859771 TTATTTATTTAATTT
1 TTAATTATTTAATTT
98859786 TTAATTATTT
1 TTAATTATTT
98859796 TTATTACTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTAATTATTTAATTT
Found at i:98859827 original size:15 final size:16
Alignment explanation
Indices: 98859789--98859827 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
98859779 TTAATTTTTA
98859789 ATTATTTTTATTACTG
1 ATTATTTTTATTACTG
98859805 ATTA-TTTTATTACT-
1 ATTATTTTTATTACTG
98859819 ATTATTTTT
1 ATTATTTTT
98859828 TTAATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 14 0.64
16 4 0.18
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTATTTTTATTACTG
Found at i:98861456 original size:6 final size:6
Alignment explanation
Indices: 98861415--98861481 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
98861405 GATAAGATCA
* * *
98861415 TTTA-T TTTA-T TTT-TT TTT-TT TTTATG TCTATG TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
98861459 TTTAATTGT TTTATT TTTATT TT
1 TTT-A-T-T TTTATT TTTATT TT
98861482 CTTAGACTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
5 17 0.32
6 28 0.53
7 2 0.04
8 2 0.04
9 4 0.08
ACGTcount: A:0.15, C:0.01, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:98861519 original size:26 final size:25
Alignment explanation
Indices: 98861447--98861527 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
98861437 TATGTCTATG
*
98861447 TTTATTTTTA-TTT-TT-AA-TTGT
1 TTTATTTTTATTTTCTTAAACTTAT
*
98861468 TTTATTTTTATTTTCTTAGACTTAT
1 TTTATTTTTATTTTCTTAAACTTAT
*
98861493 TTTGTTTATTATTTT-TTAAACTATATT
1 TTTATTT-TTATTTTCTTAAACT-TA-T
98861520 TTTATTTT
1 TTTATTTT
98861528 GATGGTTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
21 10 0.21
22 3 0.06
23 2 0.04
24 1 0.02
25 15 0.31
26 10 0.21
27 7 0.15
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTATTTTTATTTTCTTAAACTTAT
Found at i:98863330 original size:40 final size:39
Alignment explanation
Indices: 98863285--98863492 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
98863275 CGGAATACAA
*
98863285 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
98863325 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
98863365 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
98863405 CCGGATGTAGTCACTAGCAC-AATAGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
98863445 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
98863485 CCGGATAT
1 CCGGATAT
98863493 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 136 0.95
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:98863425 original size:80 final size:81
Alignment explanation
Indices: 98863285--98863490 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 81
98863275 CGGAATACAA
* * *
98863285 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAA-A
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATA
*
98863348 TGCCTTCGGGTATTAGC
66 -GCCTTCGGGTATTAAC
* *
98863365 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
98863428 AGCCTTCGGGTCTTAAC
65 AGCCTTCGGGTATTAAC
** * ** * *
98863445 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
98863491 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
80 103 0.95
81 2 0.02
82 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATA
GCCTTCGGGTATTAAC
Found at i:98867115 original size:40 final size:40
Alignment explanation
Indices: 98867007--98867256 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
98866997 CGGGATTTAA
* * * * *
98867007 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
98867047 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98867087 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98867127 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
98867167 CCGGGTATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98867207 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98867247 CCGGATATAT
1 CCGGATATAT
98867257 TTCCAATGTT
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 190 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:98874559 original size:39 final size:40
Alignment explanation
Indices: 98874380--98874627 Score: 367
Period size: 40 Copynumber: 6.2 Consensus size: 40
98874370 CGGGATTTAA
* * * * *
98874380 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
98874420 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98874460 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98874500 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98874540 CCGG-TATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98874579 CCGGATATATC-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
98874618 CCGGATATAT
1 CCGGATATAT
98874628 TTCCAATGTT
Statistics
Matches: 190, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 78 0.41
40 112 0.59
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:98882072 original size:40 final size:39
Alignment explanation
Indices: 98882027--98882233 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
98882017 CGGAATACAA
*
98882027 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
98882067 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
98882107 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
98882147 CC-GATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
98882186 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
98882226 CCGGATAT
1 CCGGATAT
98882234 CATTCAATTG
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.03
39 28 0.20
40 106 0.75
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:98882216 original size:79 final size:80
Alignment explanation
Indices: 98882027--98882232 Score: 215
Period size: 79 Copynumber: 2.6 Consensus size: 80
98882017 CGGAATACAA
* * *
98882027 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAT
*
98882091 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * *
98882107 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCC-GAT-GTA-GTCACTAGCAC-AA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAA
*
98882168 TGGCCTTCGGGTCTTAAC
64 T-GCCTTCGGGTATTAAC
** * * *
98882186 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
98882233 TCATTCAATT
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 5 0.05
79 58 0.55
80 41 0.39
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:98884433 original size:3 final size:3
Alignment explanation
Indices: 98884425--98884459 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
98884415 ATTGTTCTAG
98884425 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
98884460 CAAAAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:98886971 original size:43 final size:42
Alignment explanation
Indices: 98886805--98886971 Score: 133
Period size: 43 Copynumber: 3.9 Consensus size: 42
98886795 TATTAGCTAG
* * *
98886805 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATC-ACA
1 TACAATGCCAATATCCCAGACATGGTCTTACATATAATCGA-A
* * * *
98886846 TATCGATGCCACTATCCCAGACAGGGTCTTACATGA-AATCGAT
1 TA-CAATGCCAATATCCCAGACATGGTCTTACAT-ATAATCGAA
* * * * * **
98886889 TAACGAGGCCAATGTCTCAGATATGGTCTTACACGTAATCTGAA
1 T-ACAATGCCAATATCCCAGACATGGTCTTACATATAATC-GAA
*
98886933 TACAATGCCAATGTCCCAGACATGGTCTTACATATAATC
1 TACAATGCCAATATCCCAGACATGGTCTTACATATAATC
98886972 AAATCTTGAT
Statistics
Matches: 97, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 84 0.87
44 5 0.05
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
TACAATGCCAATATCCCAGACATGGTCTTACATATAATCGAA
Found at i:98888970 original size:38 final size:35
Alignment explanation
Indices: 98888917--98889014 Score: 114
Period size: 31 Copynumber: 2.8 Consensus size: 35
98888907 ATCATGCACT
*
98888917 GGGCCGTAGCCCTTTTCATATTTCATATTTCATAATACG
1 GGGCCGAAG-CCTTTTCATATTTCATATTT-AT--TACG
*
98888956 GGGCCGAAGCCTTTTCATATTTC--A--TATTACT
1 GGGCCGAAGCCTTTTCATATTTCATATTTATTACG
98888987 GGGCCGAAGCCTTTTCATATTTCATATT
1 GGGCCGAAGCCTTTTCATATTTCATATT
98889015 ACTGGGCCGA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
31 26 0.49
33 3 0.06
34 1 0.02
36 1 0.02
38 14 0.26
39 8 0.15
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (35 bp):
GGGCCGAAGCCTTTTCATATTTCATATTTATTACG
Found at i:98888975 original size:31 final size:31
Alignment explanation
Indices: 98888937--98889031 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
98888927 CCTTTTCATA
* *
98888937 TTTCATATTTCATAATACGGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
98888968 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
98888999 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
98889030 TT
1 TT
98889032 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:98889274 original size:24 final size:24
Alignment explanation
Indices: 98889223--98889389 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
98889213 GCTTTATCAT
* *
98889223 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
98889248 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
98889272 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
98889295 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
98889319 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
98889343 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
98889367 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
98889390 TCACTTCCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 100 0.74
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:98889323 original size:71 final size:71
Alignment explanation
Indices: 98889222--98889389 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
98889212 TGCTTTATCA
*
98889222 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
98889286 AGCCCTTT
64 AGCCCTTT
* * **
98889294 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
98889359 CCCTTT
66 CCCTTT
98889365 TGATAACTGGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
98889390 TCACTTCCTC
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 53 0.60
72 36 0.40
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:98889465 original size:20 final size:20
Alignment explanation
Indices: 98889440--98889499 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
98889430 TATGATTACC
98889440 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
98889460 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
98889480 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
98889500 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:98889574 original size:25 final size:25
Alignment explanation
Indices: 98889542--98889589 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
98889532 ATACATAAAC
* * *
98889542 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
98889567 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
98889590 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:98890778 original size:27 final size:27
Alignment explanation
Indices: 98890748--98890812 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
98890738 GGGTATATTC
98890748 GTCATTTTACCATACAGGGG-TATTACG
1 GTCATTTTACCATACAGGGGCT-TTACG
* *
98890775 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAGGGGCTTTACG
*
98890802 GTCTTTTTACC
1 GTCATTTTACC
98890813 TAATAGGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGCTTTACG
Found at i:98891039 original size:27 final size:27
Alignment explanation
Indices: 98890871--98891149 Score: 116
Period size: 27 Copynumber: 10.3 Consensus size: 27
98890861 TCTACAAACT
* *
98890871 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
98890898 AATGGTATTTCTA-TAATTTT-TAGAAAGTC
1 AAGGGTATTT-TAGTAATTTTGT--AAA-TC
* *
98890927 AAGGGTATTTCT-GTAACTTTGTAAATT
1 AAGGGTATTT-TAGTAATTTTGTAAATC
* * ** *
98890954 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTGTAAATC
* * * *** *
98890981 GAGGGT-TTTTCGGCAATTTCACAAACC
1 AAGGGTATTTT-AGTAATTTTGTAAATC
98891008 AAGGGTATTTTAGTAATTTTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
* **** *
98891035 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
**** * *
98891062 AAGGGTAAAACAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** * *
98891089 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*** **
98891116 AAGGGTAAAATAGTAATTCAGTAAATC
1 AAGGGTATTTTAGTAATTTTGTAAATC
*
98891143 GAGGGTA
1 AAGGGTA
98891150 AAACGGTAAT
Statistics
Matches: 208, Mismatches: 35, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
26 6 0.03
27 172 0.83
28 11 0.05
29 18 0.09
30 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTGTAAATC
Found at i:98891065 original size:54 final size:54
Alignment explanation
Indices: 98891019--98891493 Score: 514
Period size: 54 Copynumber: 8.8 Consensus size: 54
98891009 AGGGTATTTT
* *
98891019 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
* * * ** * *
98891073 AGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
* *
98891127 AGTAATTCA-GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATT-ATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
* * * *
98891181 -GATAATTATGTAAAT-TAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAAC
1 AG-TAATTATGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
* * * * *
98891235 AGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
* * * *
98891289 GGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTATGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
* * * *
98891343 -GATAATTATGTAAATC-AGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAAT
1 AG-TAATTATGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
* * * * * *
98891397 GGTAATTTTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
* *
98891451 GGTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTGTAAATC
1 AGTAATTATGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATC
98891494 GGGGGTACTT
Statistics
Matches: 358, Mismatches: 51, Indels: 24
0.83 0.12 0.06
Matches are distributed among these distances:
53 6 0.02
54 348 0.97
55 4 0.01
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.28
Consensus pattern (54 bp):
AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:98891150 original size:27 final size:26
Alignment explanation
Indices: 98891028--98891500 Score: 354
Period size: 27 Copynumber: 17.5 Consensus size: 26
98891018 TAGTAATTTT
* *
98891028 GTAAATCGAGGGTAAAACAGTAATTCT
1 GTAAATCGAGGGTAAAACGGTAATT-A
* *
98891055 GTAAATCAAGGGTAAAACAGTAATTCTA
1 GTAAATCGAGGGTAAAACGGTAA-T-TA
* **
98891083 -TAAATCAAGGGTAAAATAGTAATTCTA
1 GTAAATCGAGGGTAAAACGGTAA-T-TA
* **
98891110 -TAAATCAAGGGTAAAATAGTAATTCA
1 GTAAATCGAGGGTAAAACGGTAATT-A
*
98891136 GTAAATCGAGGGTAAAACGGTAATTCT
1 GTAAATCGAGGGTAAAACGGTAATT-A
* *
98891163 GTAAGTCGAGGGTAAAACGATAATTA
1 GTAAATCGAGGGTAAAACGGTAATTA
*
98891189 TGTAAAT-TAGGGGTAAAACGGTAATTA
1 -GTAAATCGA-GGGTAAAACGGTAATTA
* * *
98891216 TGTAAAT-TAGGGGTAAAACAGTAATTCT
1 -GTAAATCGA-GGGTAAAACGGTAATT-A
* *
98891244 GTAAGTCGAGGGTAAAACGATAATTA
1 GTAAATCGAGGGTAAAACGGTAATTA
98891270 TGTAAATC-AGGGGTAAAACGGTAATTA
1 -GTAAATCGA-GGGTAAAACGGTAATTA
* *
98891297 TGTAAAT-TAGGGGTAAAACGGTAATTCT
1 -GTAAATCGA-GGGTAAAACGGTAATT-A
* *
98891325 GTAAGTCGAGGGTAAAACGATAATTA
1 GTAAATCGAGGGTAAAACGGTAATTA
98891351 TGTAAATC-AGGGGTAAAACGGTAATTA
1 -GTAAATCGA-GGGTAAAACGGTAATTA
* * *
98891378 TGTAAAT-TAGGGGTAAAATGGTAATTTT
1 -GTAAATCGA-GGGTAAAACGGTAA-TTA
* *
98891406 GTAAGTCGAGGGTAAAACGATAATTA
1 GTAAATCGAGGGTAAAACGGTAATTA
98891432 TGTAAATC-AGGGGTAAAACGGTAATTA
1 -GTAAATCGA-GGGTAAAACGGTAATTA
* *
98891459 TGTAAAT-TAGGGGTAAAACGGTAATTCT
1 -GTAAATCGA-GGGTAAAACGGTAATT-A
*
98891487 GTAAATCGGGGGTA
1 GTAAATCGAGGGTA
98891501 CTTTAGTAAT
Statistics
Matches: 382, Mismatches: 41, Indels: 46
0.81 0.09 0.10
Matches are distributed among these distances:
25 1 0.00
26 8 0.02
27 366 0.96
28 6 0.02
29 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.27
Consensus pattern (26 bp):
GTAAATCGAGGGTAAAACGGTAATTA
Found at i:98891527 original size:27 final size:27
Alignment explanation
Indices: 98891497--98891595 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
98891487 GTAAATCGGG
*
98891497 GGTACTTT-AGTAATTTTACAAGTCGAA
1 GGTA-TTTCAGTAATTTTACAAATCGAA
* * *
98891524 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAA
* *
98891551 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCAGTAATTTTACAAATCGAA
*
98891577 GGGTATTTCGGTAATTTTA
1 -GGTATTTCAGTAATTTTA
98891596 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.92
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAA
Found at i:98891535 original size:54 final size:53
Alignment explanation
Indices: 98891489--98891593 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 53
98891479 GTAATTCTGT
* *
98891489 AAATCGGGGGTACTTT-AGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
98891543 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
98891594 TAGTAAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
53 11 0.24
54 34 0.76
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:98891536 original size:81 final size:81
Alignment explanation
Indices: 98891021--98891500 Score: 698
Period size: 81 Copynumber: 5.9 Consensus size: 81
98891011 GGTATTTTAG
* * * * * * *
98891021 TAATTTTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 TAATTATGTAAATCAG-GGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTA
* * *
98891085 AATCAAGGGTAAAA-TA
65 AGTCGAGGGTAAAACGA
* * * ** *
98891101 GTAATTCTATAAATCAAGGGTAAAATAGTAATTCA-GTAAA-TCGAGGGTAAAACGGTAATTCTG
1 -TAATTATGTAAATCAGGGGTAAAACGGTAATT-ATGTAAATTAG-GGGTAAAACGGTAATTCTG
98891164 TAAGTCGAGGGTAAAACGA
63 TAAGTCGAGGGTAAAACGA
* *
98891183 TAATTATGTAAATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACAGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
98891248 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
98891264 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
98891329 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
* *
98891345 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAATGGTAATTTTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
98891410 GTCGAGGGTAAAACGA
66 GTCGAGGGTAAAACGA
98891426 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
1 TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
* *
98891491 ATCGGGGGTA
66 GTCGAGGGTA
98891501 CTTTAGTAAT
Statistics
Matches: 364, Mismatches: 29, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
80 1 0.00
81 360 0.99
82 3 0.01
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (81 bp):
TAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAA
GTCGAGGGTAAAACGA
Found at i:98891609 original size:27 final size:27
Alignment explanation
Indices: 98891505--98891610 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
98891495 GGGGTACTTT
* *
98891505 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* * * *
98891532 GGTAAATTTACAAA-TCGAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
98891559 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
98891586 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
98891611 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:98893665 original size:12 final size:12
Alignment explanation
Indices: 98893648--98893677 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
98893638 AAATAATTAA
98893648 TAAATTAGAAAT
1 TAAATTAGAAAT
*
98893660 TAAATTGGAAAT
1 TAAATTAGAAAT
98893672 TAAATT
1 TAAATT
98893678 TGGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:98895058 original size:4 final size:4
Alignment explanation
Indices: 98895049--98895077 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
98895039 AACTTAAGCC
98895049 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
98895078 GTACAAGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:98900276 original size:16 final size:16
Alignment explanation
Indices: 98900255--98900288 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
98900245 TTGAAACAAC
*
98900255 ATAAATAATTAATTAA
1 ATAAATAATAAATTAA
*
98900271 ATAAATTATAAATTAA
1 ATAAATAATAAATTAA
98900287 AT
1 AT
98900289 TGGAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAAATAATAAATTAA
Found at i:98901062 original size:47 final size:48
Alignment explanation
Indices: 98901008--98901105 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
98900998 ACTGACACAT
98901008 CAAATTGGAAGG-AAAAAAGTAATTCTTATTTAATTCCAAATGAATTC
1 CAAATTGGAAGGAAAAAAAGTAATTCTTATTTAATTCCAAATGAATTC
98901055 CAAATTGGAAGGAAAAAAAGTAATTCTTATTTAATTCCAAATGAATTC
1 CAAATTGGAAGGAAAAAAAGTAATTCTTATTTAATTCCAAATGAATTC
98901103 CAA
1 CAA
98901106 TGTCAAATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 12 0.24
48 38 0.76
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (48 bp):
CAAATTGGAAGGAAAAAAAGTAATTCTTATTTAATTCCAAATGAATTC
Found at i:98904765 original size:23 final size:23
Alignment explanation
Indices: 98904735--98904779 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
98904725 TCTAAATTTG
*
98904735 ATAATTTAGTACAAAATTGTTTA
1 ATAATTTAGTACAAAAATGTTTA
* *
98904758 ATAATTTATTATAAAAATGTTT
1 ATAATTTAGTACAAAAATGTTT
98904780 TATTGATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (23 bp):
ATAATTTAGTACAAAAATGTTTA
Found at i:98904931 original size:20 final size:21
Alignment explanation
Indices: 98904884--98904934 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
98904874 ATTCCCCATA
*
98904884 ATTTTTGGCACTCTCTCATGT
1 ATTTTTGGTACTCTCTCATGT
* *
98904905 -TTATTGGTATTCTCTCAT-T
1 ATTTTTGGTACTCTCTCATGT
98904924 ATTTTTGGTAC
1 ATTTTTGGTAC
98904935 ACACCTCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.53
Consensus pattern (21 bp):
ATTTTTGGTACTCTCTCATGT
Found at i:98905423 original size:20 final size:20
Alignment explanation
Indices: 98905400--98905464 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
98905390 TTTGGTACTT
98905400 TCTTATAATTTTTTGTATTC
1 TCTTATAATTTTTTGTATTC
98905420 TCTTATAATGTATTTTGGTATT-
1 TCTTATAAT-T-TTTT-GTATTC
* * *
98905442 TCGTCATTATTTTTTGTACTC
1 TC-TTATAATTTTTTGTATTC
98905463 TC
1 TC
98905465 GTGTTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 13 0.35
21 7 0.19
22 7 0.19
23 10 0.27
ACGTcount: A:0.18, C:0.12, G:0.09, T:0.60
Consensus pattern (20 bp):
TCTTATAATTTTTTGTATTC
Found at i:98905440 original size:23 final size:20
Alignment explanation
Indices: 98905388--98905457 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 20
98905378 ACACTCATAC
98905388 TTTTTGGTACTTTCTTATAAT
1 TTTTTGGTA-TTTCTTATAAT
98905409 TTTTT-GTATTCTCTTATAAT
1 TTTTTGGTATT-TCTTATAAT
* *
98905429 GTATTTTGGTATTTCGTCATTAT
1 -T-TTTTGGTATTTC-TTATAAT
98905452 TTTTTG
1 TTTTTG
98905458 TACTCTCGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
19 2 0.05
20 12 0.29
21 11 0.26
22 7 0.17
23 10 0.24
ACGTcount: A:0.17, C:0.09, G:0.11, T:0.63
Consensus pattern (20 bp):
TTTTTGGTATTTCTTATAAT
Found at i:98910767 original size:17 final size:17
Alignment explanation
Indices: 98910745--98910778 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
98910735 TTCTGCTTAC
98910745 AATTAAACCTAAACTAT
1 AATTAAACCTAAACTAT
98910762 AATTAAACCTAAACTAT
1 AATTAAACCTAAACTAT
98910779 GTCACTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (17 bp):
AATTAAACCTAAACTAT
Found at i:98920883 original size:17 final size:17
Alignment explanation
Indices: 98920835--98920901 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
98920825 TAAATTTTAG
**
98920835 AAAAATTATTAAATTTT
1 AAAAATTATTAAAAATT
* *
98920852 AATAAAATATAAAAAATT
1 AA-AAATTATTAAAAATT
98920870 AAAAATTATTAAAAATT
1 AAAAATTATTAAAAATT
* * *
98920887 AGAATTTTTTAAAAA
1 AAAAATTATTAAAAA
98920902 AATTGTAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 27 0.68
18 13 0.32
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (17 bp):
AAAAATTATTAAAAATT
Found at i:98920913 original size:10 final size:10
Alignment explanation
Indices: 98920898--98920929 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
98920888 GAATTTTTTA
98920898 AAAAAATTGT
1 AAAAAATTGT
98920908 AAAAAATT-T
1 AAAAAATTGT
98920917 -AAAAATTGT
1 AAAAAATTGT
98920926 AAAA
1 AAAA
98920930 TTTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.35
9 2 0.10
10 11 0.55
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (10 bp):
AAAAAATTGT
Found at i:98921158 original size:13 final size:13
Alignment explanation
Indices: 98921135--98921174 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
98921125 GGCCCAACCC
*
98921135 ATATTAATTTTTT
1 ATATAAATTTTTT
98921148 ATAT-AATTTTTT
1 ATATAAATTTTTT
98921160 AATATAAATTTTTT
1 -ATATAAATTTTTT
98921174 A
1 A
98921175 AATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.32
13 9 0.36
14 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATAAATTTTTT
Found at i:98921172 original size:15 final size:14
Alignment explanation
Indices: 98921135--98921180 Score: 60
Period size: 12 Copynumber: 3.4 Consensus size: 14
98921125 GGCCCAACCC
*
98921135 ATATTAATTTTTT-
1 ATATAAATTTTTTA
98921148 ATAT-AATTTTTTA
1 ATATAAATTTTTTA
98921161 ATATAAATTTTTTAA
1 ATATAAATTTTTT-A
98921176 ATATA
1 ATATA
98921181 TATAATACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.27
13 8 0.27
14 8 0.27
15 6 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATAAATTTTTTA
Found at i:98921792 original size:9 final size:8
Alignment explanation
Indices: 98921778--98921844 Score: 53
Period size: 9 Copynumber: 7.6 Consensus size: 8
98921768 CTTTATAAAA
98921778 TTTTATACT
1 TTTTATA-T
98921787 TTTTATAT
1 TTTTATAT
*
98921795 TTCTATAT
1 TTTTATAT
98921803 ATTTTATAATT
1 -TTTTAT-A-T
*
98921814 TTTTACAAT
1 TTTTA-TAT
98921823 TTTTATATT
1 TTTTATA-T
*
98921832 TTTTTTAT
1 TTTTATAT
98921840 TTTTA
1 TTTTA
98921845 ATAACTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
8 14 0.30
9 25 0.53
10 7 0.15
11 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTATAT
Found at i:98921918 original size:36 final size:36
Alignment explanation
Indices: 98921828--98921921 Score: 95
Period size: 36 Copynumber: 2.6 Consensus size: 36
98921818 ACAATTTTTA
*
98921828 TATTTTTTTT-ATTTTTAATAACTTTTTAATAATTT
1 TATTTTTTTTAATTTTTAATAACTATTTAATAATTT
* ** *
98921863 AATTTTTTATTAAAATTTAATAA-TATTT-ATAGCTTT
1 TATTTTTT-TTAATTTTTAATAACTATTTAATA-ATTT
98921899 TATTTTTTTCTAATTTTTAATAA
1 TATTTTTTT-TAATTTTTAATAA
98921922 AAGCAGGGCT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
35 11 0.23
36 27 0.57
37 9 0.19
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (36 bp):
TATTTTTTTTAATTTTTAATAACTATTTAATAATTT
Found at i:98922044 original size:92 final size:91
Alignment explanation
Indices: 98921936--98922102 Score: 237
Period size: 92 Copynumber: 1.8 Consensus size: 91
98921926 AGGGCTTAAA
* * * * * *
98921936 TTTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTGAAAGATCAAGT-GCCTAATTGAG
1 TTTTTTTTTAAAAAGGTTTAAGAGCCTTTTTGACGCATTTTGAAAGATCAAGTAGCC-AAATGAG
98922000 TGCAAAAAAAAGGGGAGGCTTAATTTC
65 TGCAAAAAAAAGGGGAGGCTTAATTTC
* *
98922027 TTTTTTTTTAAAAAAGGTTTAAGAGCCTTTTTGACGCATTTTGAAAGTTCAAGTATCCAAATGAG
1 TTTTTTTTT-AAAAAGGTTTAAGAGCCTTTTTGACGCATTTTGAAAGATCAAGTAGCCAAATGAG
98922092 TGCAAAAAAAA
65 TGCAAAAAAAA
98922103 AAGTTGGGGC
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
91 9 0.14
92 55 0.83
93 2 0.03
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (91 bp):
TTTTTTTTTAAAAAGGTTTAAGAGCCTTTTTGACGCATTTTGAAAGATCAAGTAGCCAAATGAGT
GCAAAAAAAAGGGGAGGCTTAATTTC
Found at i:98922125 original size:92 final size:91
Alignment explanation
Indices: 98921936--98922132 Score: 227
Period size: 92 Copynumber: 2.1 Consensus size: 91
98921926 AGGGCTTAAA
** * * * * *
98921936 TTTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTGAAAGATCAAGTGCCTAATTGAGT
1 TTTTTTTTAAAAAAGGTTTAAGAGCCTTTTTGACGCATTTTGAAAGATCAAGTGCCTAAATGAGT
*
98922001 GCAAAAAAAAGGGGAGGCTTAATTTC
66 GCAAAAAAAAGGGGAGGCTTAATTGC
* *
98922027 TTTTTTTTTAAAAAAGGTTTAAGAGCCTTTTTGACGCATTTTGAAAGTTCAAGTATCC-AAATGA
1 -TTTTTTTTAAAAAAGGTTTAAGAGCCTTTTTGACGCATTTTGAAAGATCAAGT-GCCTAAATGA
*
98922091 GTGCAAAAAAAAAAGTTGG-GGCTTAATTGC
64 GTGC--AAAAAAAAG-GGGAGGCTTAATTGC
*
98922121 TTTTTTTGAAAA
1 TTTTTTTTAAAA
98922133 TGTTTGAGTG
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
92 55 0.62
93 13 0.15
94 19 0.21
95 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (91 bp):
TTTTTTTTAAAAAAGGTTTAAGAGCCTTTTTGACGCATTTTGAAAGATCAAGTGCCTAAATGAGT
GCAAAAAAAAGGGGAGGCTTAATTGC
Found at i:98923069 original size:40 final size:40
Alignment explanation
Indices: 98923000--98923097 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 40
98922990 CTTTTCAAGT
* * * * *
98923000 CAAATCCTATCCACCTTAAGTTACTATAGTGAATTAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAAGAA
* *
98923040 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAAGAA
98923080 CAAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
98923098 TATTCTCGAG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAAGAA
Found at i:98926321 original size:8 final size:8
Alignment explanation
Indices: 98926308--98926332 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
98926298 ATAATGATAA
98926308 AAATAATG
1 AAATAATG
98926316 AAATAATG
1 AAATAATG
98926324 AAATAATG
1 AAATAATG
98926332 A
1 A
98926333 GAAATAAAAA
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:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (8 bp):
AAATAATG
Found at i:98931657 original size:79 final size:79
Alignment explanation
Indices: 98931524--98931744 Score: 311
Period size: 79 Copynumber: 2.8 Consensus size: 79
98931514 AAGTCACATC
* ** * *
98931524 TCATGTAACAGTAGTAAAGCAGGATTA-CCTTTTCAGGTCAAATCCTA-CCAACCTTAAGTTATC
1 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCC-ACCTTAAGTTACC
*
98931587 ATAAGGAATCATGTA
65 ATAAGGAATCATATA
* * *
98931602 TCGTGTAACCGTAGCGAATTAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCA
1 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
*
98931667 TAATGAATCATATA
66 TAAGGAATCATATA
* *
98931681 TCATGTAACCGTAGCGAATCAAGATTACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACC
1 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACC
98931745 GTAGTGAAAC
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
78 21 0.17
79 103 0.82
80 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (79 bp):
TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
TAAGGAATCATATA
Found at i:98931903 original size:40 final size:40
Alignment explanation
Indices: 98931839--98931976 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 40
98931829 CTTTTCAGGT
** * * *
98931839 CAAATCCTATCTGCCTTAAGTTACCGTAGTGAATCAAGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAAGAA
* * *
98931879 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAAGAA
* ** ** *
98931919 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAAGAA
*
98931959 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
98931977 TATTCTCGAG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAAGAA
Found at i:98931914 original size:119 final size:119
Alignment explanation
Indices: 98931642--98931914 Score: 447
Period size: 119 Copynumber: 2.3 Consensus size: 119
98931632 TTTTCAGGTC
* * **
98931642 AAATCCTATCCACCTTAGGTTACCATAATGAATCATATATCATGTAACCGTAGCGAATCAAGATT
1 AAATCCTATTCACTTTAAATTACCATAATGAATCATATATCATGTAACCGTAGCGAATCAAGATT
98931707 ACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCGTAGTGAAACAAGAAT
66 ACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCGTAGTGAAACAAGAAT
* * * *
98931761 AAATCCTATTCACTTTAAATTACTATAATAAATCATATATCATGTAACCGTCGCGAATCAGGATT
1 AAATCCTATTCACTTTAAATTACCATAATGAATCATATATCATGTAACCGTAGCGAATCAAGATT
* *
98931826 ACCCTTTTCAGGTCAAATCCTATCTGCCTTAAGTTACCGTAGTGAATCAAGAAT
66 ACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCGTAGTGAAACAAGAAT
*
98931880 AAATCCTATTCACTTTAAATTACCATAGTGAATCA
1 AAATCCTATTCACTTTAAATTACCATAATGAATCA
98931915 GGAACAAATC
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 141 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (119 bp):
AAATCCTATTCACTTTAAATTACCATAATGAATCATATATCATGTAACCGTAGCGAATCAAGATT
ACCCTTTTCAGGTCAAATCCTATCCGCCTTAAGTTACCGTAGTGAAACAAGAAT
Found at i:98933625 original size:11 final size:10
Alignment explanation
Indices: 98933609--98933642 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
98933599 TTATATATTA
98933609 AATAAATTAAT
1 AATAAA-TAAT
98933620 AATAAAATAAT
1 AAT-AAATAAT
98933631 AATAAATAAT
1 AATAAATAAT
98933641 AA
1 AA
98933643 AATATCTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 10 0.45
12 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAAATAAT
Found at i:98934469 original size:34 final size:34
Alignment explanation
Indices: 98934375--98934473 Score: 94
Period size: 34 Copynumber: 2.9 Consensus size: 34
98934365 AATATGACGC
* * * *
98934375 ATTGGCGTTGTGGCGAGATGTTGATTGAATGATGT
1 ATTGGTGTTGTGGCGAGATATTAATTGAA-GAAGT
** *
98934410 ATCAGTGTTGTGGTG-GA-ATGATAATTGAAGAAGT
1 ATTGGTGTTGTGGCGAGATAT--TAATTGAAGAAGT
98934444 ATTGGTGTTGTGGCGAGATATTAATTGAAG
1 ATTGGTGTTGTGGCGAGATATTAATTGAAG
98934474 GAGGACTAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
33 1 0.02
34 27 0.54
35 20 0.40
36 2 0.04
ACGTcount: A:0.26, C:0.04, G:0.34, T:0.35
Consensus pattern (34 bp):
ATTGGTGTTGTGGCGAGATATTAATTGAAGAAGT
Found at i:98937482 original size:50 final size:50
Alignment explanation
Indices: 98937428--98937529 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
98937418 CTGATCGATA
98937428 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCCATCTTCT
1 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCCATCTTCT
*
98937478 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCTATCTTCT
1 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCCATCTTCT
98937528 TG
1 TG
98937530 TTTTTGTATG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.45
Consensus pattern (50 bp):
TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCCATCTTCT
Found at i:98939917 original size:12 final size:12
Alignment explanation
Indices: 98939900--98939942 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
98939890 TAAGGGAAGA
98939900 GAGCCCAAGCAT
1 GAGCCCAAGCAT
*
98939912 GAGCCCAAGTAT
1 GAGCCCAAGCAT
98939924 GAGCCCAAGCAT
1 GAGCCCAAGCAT
98939936 GAGCCCA
1 GAGCCCA
98939943 GGTATGTCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.33, C:0.33, G:0.26, T:0.09
Consensus pattern (12 bp):
GAGCCCAAGCAT
Found at i:98939932 original size:24 final size:24
Alignment explanation
Indices: 98939900--98939948 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
98939890 TAAGGGAAGA
98939900 GAGCCCAAGCATGAGCCCAAGTAT
1 GAGCCCAAGCATGAGCCCAAGTAT
*
98939924 GAGCCCAAGCATGAGCCCAGGTAT
1 GAGCCCAAGCATGAGCCCAAGTAT
98939948 G
1 G
98939949 TCGCCTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.29, G:0.29, T:0.12
Consensus pattern (24 bp):
GAGCCCAAGCATGAGCCCAAGTAT
Found at i:98944085 original size:3 final size:3
Alignment explanation
Indices: 98944077--98944121 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
98944067 TTGTGTCTAG
98944077 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
98944122 ACTTGGAGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:98947104 original size:29 final size:31
Alignment explanation
Indices: 98947058--98947119 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
98947048 TATAATTATA
*
98947058 TAATTAGATAATTATTATT-TATTTAATATTT
1 TAATAAGATAATTATTATTAT-TTTAATATTT
*
98947089 TAATAAGAT-ATT-TTATTATTTTATTATTT
1 TAATAAGATAATTATTATTATTTTAATATTT
98947118 TA
1 TA
98947120 TTTAGTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 16 0.57
30 4 0.14
31 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (31 bp):
TAATAAGATAATTATTATTATTTTAATATTT
Found at i:98947108 original size:8 final size:8
Alignment explanation
Indices: 98947097--98947121 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
98947087 TTTAATAAGA
98947097 TATTTTAT
1 TATTTTAT
98947105 TATTTTAT
1 TATTTTAT
98947113 TATTTTAT
1 TATTTTAT
98947121 T
1 T
98947122 TAGTCTATAT
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:98950954 original size:3 final size:3
Alignment explanation
Indices: 98950946--98950986 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
98950936 TAACCATAGC
98950946 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
98950987 CAATTTCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:98951943 original size:28 final size:28
Alignment explanation
Indices: 98951903--98951959 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
98951893 CCTTTAGCGG
*
98951903 CGCTTTTCCCACAAACGCCGCTAAAGGT
1 CGCTTTTCCCACAAACACCGCTAAAGGT
*
98951931 CGCTTTTTCCACAAACACCGCTAAAGGT
1 CGCTTTTCCCACAAACACCGCTAAAGGT
98951959 C
1 C
98951960 ATAAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (28 bp):
CGCTTTTCCCACAAACACCGCTAAAGGT
Found at i:98954237 original size:26 final size:26
Alignment explanation
Indices: 98954201--98954310 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
98954191 TGATACAAAT
*
98954201 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
98954227 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
98954253 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
98954279 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
98954305 TGATAA
1 TGATAA
98954311 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:98955945 original size:27 final size:27
Alignment explanation
Indices: 98955900--98956039 Score: 147
Period size: 27 Copynumber: 5.2 Consensus size: 27
98955890 GAGGAAGCGT
*
98955900 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
98955927 TCTGGTGGCTCTGCTACAAATATTTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
98955954 TCTGGTGGCTCTGCTACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
***
98955981 TCTGGTGGCTCTGCCACGTTTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
98956009 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
98956035 TCTGG
1 TCTGG
98956040 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.05
27 78 0.80
28 15 0.15
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:98957177 original size:7 final size:7
Alignment explanation
Indices: 98957165--98957217 Score: 70
Period size: 7 Copynumber: 7.6 Consensus size: 7
98957155 AGTTCCTTAT
*
98957165 TTTTTAA
1 TTTTAAA
*
98957172 TTTTTAA
1 TTTTAAA
**
98957179 TTTTTTA
1 TTTTAAA
98957186 TTTTAAA
1 TTTTAAA
98957193 TTTTAAA
1 TTTTAAA
98957200 TTTTAAA
1 TTTTAAA
98957207 TTTTAAA
1 TTTTAAA
98957214 TTTT
1 TTTT
98957218 TTTGAATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTTTAAA
Found at i:98957942 original size:21 final size:21
Alignment explanation
Indices: 98957918--98957958 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
98957908 TTAACCTTGA
*
98957918 ACCCCTAACCCTTAACCCCCG
1 ACCCCTAACCCTTAAACCCCG
*
98957939 ACCCCTAAGCCTTAAACCCC
1 ACCCCTAACCCTTAAACCCC
98957959 TAAAGCTCAA
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:0.27, C:0.54, G:0.05, T:0.15
Consensus pattern (21 bp):
ACCCCTAACCCTTAAACCCCG
Found at i:98957957 original size:15 final size:15
Alignment explanation
Indices: 98957939--98957985 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
98957929 TTAACCCCCG
98957939 ACCCCTAAGCCTTAA
1 ACCCCTAAGCCTTAA
*
98957954 ACCCCTAAAG-CTCAA
1 ACCCCT-AAGCCTTAA
*
98957969 ACCCC-AACCCTTAA
1 ACCCCTAAGCCTTAA
98957983 ACC
1 ACC
98957986 ATAAACCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.07
14 7 0.26
15 15 0.56
16 3 0.11
ACGTcount: A:0.36, C:0.45, G:0.04, T:0.15
Consensus pattern (15 bp):
ACCCCTAAGCCTTAA
Found at i:98957992 original size:7 final size:7
Alignment explanation
Indices: 98957980--98958027 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
98957970 CCCCAACCCT
98957980 TAAACCA
1 TAAACCA
98957987 TAAACCA
1 TAAACCA
*
98957994 TAAATCA
1 TAAACCA
* *
98958001 TAATCCC
1 TAAACCA
98958008 TAAACCCA
1 TAAA-CCA
*
98958016 TAATCCA
1 TAAACCA
98958023 TAAAC
1 TAAAC
98958028 TTTAAAATAG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:98958553 original size:39 final size:39
Alignment explanation
Indices: 98958500--98958694 Score: 147
Period size: 39 Copynumber: 4.6 Consensus size: 39
98958490 TTTTTTGCGA
98958500 CGTTTTTCTAAAAAGCGCCGCTAAAGGTTACCTATAGCGG
1 CGTTTTT-TAAAAAGCGCCGCTAAAGGTTACCTATAGCGG
* * * * **
98958540 CGTTTTTTAAAAAGCGCCGCTAATGCTTATCTTTAGCAT
1 CGTTTTTTAAAAAGCGCCGCTAAAGGTTACCTATAGCGG
* * **
98958579 CGTTTTTCAAAAAGCGCCGCTAAAGCCGCGGCAGTTAGCATAATTTTTTGCGG
1 CGTTTTTTAAAAAGCGCCGCTAAA------G--GTTA-CCT-A--TAG--CGG
*
98958632 CGTTTTTTTAAAAAGCGCCGCTAAAGGTGACCTATAGCGG
1 CGTTTT-TTAAAAAGCGCCGCTAAAGGTTACCTATAGCGG
98958672 CGTTTTTTAAAAAGCGCCGCTAA
1 CGTTTTTTAAAAAGCGCCGCTAA
98958695 TGCTCAATCT
Statistics
Matches: 119, Mismatches: 21, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
39 65 0.55
40 16 0.13
42 1 0.01
44 1 0.01
45 3 0.03
46 3 0.03
47 3 0.03
48 2 0.02
51 1 0.01
53 7 0.06
54 17 0.14
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (39 bp):
CGTTTTTTAAAAAGCGCCGCTAAAGGTTACCTATAGCGG
Found at i:98958652 original size:132 final size:132
Alignment explanation
Indices: 98958448--98958709 Score: 436
Period size: 132 Copynumber: 2.0 Consensus size: 132
98958438 CTTTTTGCGG
*
98958448 CGTTTTCCAAAAAACGCTGCTAAAGCCGCGCAATTAGCATAATTTTTTGCGACGTTTTTCTAAAA
1 CGTTTTCCAAAAAACGCCGCTAAAGCCGCGCAATTAGCATAATTTTTTGCGACGTTTTTCTAAAA
* *
98958513 AGCGCCGCTAAAGGTTACCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCT-TATCTTTAGC
66 AGCGCCGCTAAAGGTGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTTTAGC
98958577 AT
131 AT
* * * * *
98958579 CGTTTTTCAAAAAGCGCCGCTAAAGCCGCGGCAGTTAGCATAATTTTTTGCGGCGTTTTTTTAAA
1 CGTTTTCCAAAAAACGCCGCTAAAGCCGC-GCAATTAGCATAATTTTTTGCGACGTTTTTCTAAA
98958644 AAGCGCCGCTAAAGGTGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTTTAG
65 AAGCGCCGCTAAAGGTGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTTTAG
98958709 C
130 C
98958710 GGCGTTTTAA
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
131 26 0.21
132 86 0.71
133 9 0.07
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (132 bp):
CGTTTTCCAAAAAACGCCGCTAAAGCCGCGCAATTAGCATAATTTTTTGCGACGTTTTTCTAAAA
AGCGCCGCTAAAGGTGACCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTTTAGC
AT
Found at i:98958710 original size:40 final size:39
Alignment explanation
Indices: 98958628--98958717 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
98958618 ATAATTTTTT
* *
98958628 GCGGCGTTTTTTTAAAAAGCGCCGCTAAAGGTGACCTATA
1 GCGGCG-TTTTTTAAAAAGCGCCGCTAAAGCTAACCTATA
* * *
98958668 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAATCTTTA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAAAGCT-AACCTATA
98958708 GCGGCGTTTT
1 GCGGCGTTTT
98958718 AATAACGCTG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 23 0.52
40 21 0.48
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (39 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAAAGCTAACCTATA
Found at i:98962766 original size:46 final size:46
Alignment explanation
Indices: 98962700--98962874 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
98962690 TGGTTGAGCA
98962700 TCCGAACT-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
98962745 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
98962790 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
98962838 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
98962875 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 11 0.10
46 54 0.49
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:98962867 original size:93 final size:92
Alignment explanation
Indices: 98962697--98962867 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
98962687 GGATGGTTGA
* *
98962697 GCATCCGAACTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
98962762 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
98962789 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACT-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
98962854 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
98962868 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 11 0.15
93 64 0.85
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:98966697 original size:26 final size:26
Alignment explanation
Indices: 98966668--98966773 Score: 203
Period size: 26 Copynumber: 4.1 Consensus size: 26
98966658 ATACAAATTA
98966668 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
98966694 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
98966720 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
98966746 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
98966772 AT
1 AT
98966774 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:98967960 original size:8 final size:8
Alignment explanation
Indices: 98967947--98967976 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
98967937 AGATCGGCAC
98967947 AAGCCGAA
1 AAGCCGAA
98967955 AAGCCGAA
1 AAGCCGAA
*
98967963 ATGCCGAA
1 AAGCCGAA
98967971 AAGCCG
1 AAGCCG
98967977 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:98968445 original size:54 final size:54
Alignment explanation
Indices: 98968363--98968506 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
98968353 TGGAGGAAGC
*
98968363 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCGCATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
98968417 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
98968471 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
98968507 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:98968517 original size:27 final size:27
Alignment explanation
Indices: 98968366--98968524 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
98968356 AGGAAGCGTC
*
98968366 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
98968393 CTGGTGGCTCTGCCGCATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
98968420 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
98968447 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
98968474 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
98968501 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
98968525 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:98968518 original size:81 final size:80
Alignment explanation
Indices: 98968366--98968524 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 80
98968356 AGGAAGCGTC
* *
98968366 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCGCATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
98968431 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
98968447 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
98968510 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
98968525 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 17 0.25
81 52 0.75
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:98970722 original size:46 final size:44
Alignment explanation
Indices: 98970663--98970777 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
98970653 ACAGGACAGA
* *
98970663 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
98970709 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
98970753 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
98970778 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Done.