Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 55 of 109
Found at i:18048580 original size:27 final size:26
Alignment explanation
Indices: 18048517--18048582 Score: 64
Period size: 30 Copynumber: 2.4 Consensus size: 26
18048507 TTAAATATTA
*
18048517 AAAAATT-ATTTGTTTTAATGATTTT
1 AAAAATTAATTTGTTTTAATAATTTT
18048542 AATAAATTTTAATTT-TTTTAAAATAATTTT
1 AA-AAA--TTAATTTGTTTT--AATAATTTT
18048572 AAAAATTAATT
1 AAAAATTAATT
18048583 CATTTGTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
25 2 0.06
26 3 0.09
27 6 0.18
28 6 0.18
29 7 0.21
30 10 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
AAAAATTAATTTGTTTTAATAATTTT
Found at i:18051995 original size:21 final size:20
Alignment explanation
Indices: 18051955--18051996 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18051945 TTTGGCATAA
* *
18051955 TTATATCCTTTGAAGGATTT
1 TTATATCCCTTGAAGAATTT
18051975 TTATATCCCTTGAGAGAATTT
1 TTATATCCCTTGA-AGAATTT
18051996 T
1 T
18051997 GTTGAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (20 bp):
TTATATCCCTTGAAGAATTT
Found at i:18058099 original size:16 final size:16
Alignment explanation
Indices: 18058058--18058117 Score: 70
Period size: 16 Copynumber: 3.8 Consensus size: 16
18058048 GAATAATGAC
*
18058058 GTTTTAGGAATAACTAT
1 GTTTTA-GAACAACTAT
18058075 G-TTTAGAACAACTAT
1 GTTTTAGAACAACTAT
*
18058090 GTTTTGGAACAACT-T
1 GTTTTAGAACAACTAT
18058105 GTATTTAGAACAA
1 GT-TTTAGAACAA
18058118 TTTTTTTTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
15 13 0.34
16 24 0.63
17 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (16 bp):
GTTTTAGAACAACTAT
Found at i:18058225 original size:15 final size:15
Alignment explanation
Indices: 18058202--18058234 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18058192 ATAACAATCT
18058202 CTATATTGAGAACAA
1 CTATATTGAGAACAA
*
18058217 CTATGTTGAGAACAA
1 CTATATTGAGAACAA
18058232 CTA
1 CTA
18058235 ACATTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (15 bp):
CTATATTGAGAACAA
Found at i:18060090 original size:169 final size:170
Alignment explanation
Indices: 18059852--18060191 Score: 673
Period size: 169 Copynumber: 2.0 Consensus size: 170
18059842 TTATTTGTAG
18059852 AACACGTGTTAGATACATGACTAAACACATGTATTAGTGCTAGTTATGTATCTTCCTTTTATTAT
1 AACACGTGTTAGATACATGACTAAACACATGTATTAGTGCTAGTTATGTATCTTCCTTTTATTAT
18059917 GCATAATATATCTAATAATTAGTCTTTTTTTTATTTGTACTATGTAAGAATTAATTGTACTTATT
66 GCATAATATATCTAATAATTAGTCTTTTTTTTATTTGTACTATGTAAGAATTAATTGTACTTATT
18059982 AATTAAAATATTTTTAATTATTTTTAAAATTTAAAATAAT
131 AATTAAAATATTTTTAATTATTTTTAAAATTTAAAATAAT
18060022 AACACGTGTT-GATACATGACTAAACACATGTATTAGTGCTAGTTATGTATCTTCCTTTTATTAT
1 AACACGTGTTAGATACATGACTAAACACATGTATTAGTGCTAGTTATGTATCTTCCTTTTATTAT
18060086 GCATAATATATCTAATAATTAGTCTTTTTTTTATTTGTACTATGTAAGAATTAATTGTACTTATT
66 GCATAATATATCTAATAATTAGTCTTTTTTTTATTTGTACTATGTAAGAATTAATTGTACTTATT
18060151 AATTAAAATATTTTTAATTATTTTTAAAATTTAAAATAAT
131 AATTAAAATATTTTTAATTATTTTTAAAATTTAAAATAAT
18060191 A
1 A
18060192 TAATAAAATT
Statistics
Matches: 170, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
169 160 0.94
170 10 0.06
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (170 bp):
AACACGTGTTAGATACATGACTAAACACATGTATTAGTGCTAGTTATGTATCTTCCTTTTATTAT
GCATAATATATCTAATAATTAGTCTTTTTTTTATTTGTACTATGTAAGAATTAATTGTACTTATT
AATTAAAATATTTTTAATTATTTTTAAAATTTAAAATAAT
Found at i:18061182 original size:6 final size:6
Alignment explanation
Indices: 18061171--18061196 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18061161 CCCCCAAAAG
18061171 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
18061197 GCATGATTCT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:18062546 original size:6 final size:6
Alignment explanation
Indices: 18062535--18062560 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18062525 CCCCCAAAAG
18062535 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
18062561 GCATGATTCT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:18069437 original size:4 final size:4
Alignment explanation
Indices: 18069428--18069464 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
18069418 TCTCTAAACT
*
18069428 CATA CATA CATG CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA C
18069465 GAGGTTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.46, C:0.27, G:0.03, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:18070057 original size:11 final size:11
Alignment explanation
Indices: 18070043--18070088 Score: 62
Period size: 10 Copynumber: 4.5 Consensus size: 11
18070033 AAAGTCATAG
18070043 AAAATTATATT
1 AAAATTATATT
*
18070054 AAAATGATA-T
1 AAAATTATATT
18070064 AAAATTAT-TT
1 AAAATTATATT
18070074 AAAATT-TATT
1 AAAATTATATT
18070084 AAAAT
1 AAAAT
18070089 CATAAAAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 1 0.03
10 22 0.71
11 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
AAAATTATATT
Found at i:18070619 original size:10 final size:10
Alignment explanation
Indices: 18070559--18070671 Score: 81
Period size: 10 Copynumber: 11.3 Consensus size: 10
18070549 ATAATTCTAG
18070559 TTTTTATAAT
1 TTTTTATAAT
**
18070569 ATTTGCAT-AT
1 -TTTTTATAAT
*
18070579 TTTTCATAAT
1 TTTTTATAAT
* *
18070589 ATATTAATAA-
1 -TTTTTATAAT
18070599 TTTTTAT-AT
1 TTTTTATAAT
*
18070608 TTTTTGTAAT
1 TTTTTATAAT
*
18070618 TTTGTATAAT
1 TTTTTATAAT
18070628 ATTTTTATAAT
1 -TTTTTATAAT
*
18070639 TTTTTATAGT
1 TTTTTATAAT
*
18070649 TATTCTATAA-
1 T-TTTTATAAT
18070659 TTTTTATAAT
1 TTTTTATAAT
18070669 TTT
1 TTT
18070672 CTACTTTTAT
Statistics
Matches: 80, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
8 1 0.01
9 24 0.30
10 28 0.35
11 27 0.34
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:18070620 original size:9 final size:9
Alignment explanation
Indices: 18070559--18070671 Score: 75
Period size: 9 Copynumber: 11.4 Consensus size: 9
18070549 ATAATTCTAG
18070559 TTTTTATAA
1 TTTTTATAA
*
18070568 TATTTGCAT-A
1 T-TTT-TATAA
18070578 TTTTTCATAA
1 TTTTT-ATAA
*
18070588 TATATTAATAA
1 T-T-TTTATAA
*
18070599 TTTTTATAT
1 TTTTTATAA
*
18070608 TTTTTGTAA
1 TTTTTATAA
18070617 TTTTGTATAATA
1 TTTT-TAT-A-A
18070629 TTTTTATAA
1 TTTTTATAA
*
18070638 TTTTTTATAG
1 -TTTTTATAA
18070648 TTATTCTATAA
1 TT-TT-TATAA
18070659 TTTTTATAA
1 TTTTTATAA
18070668 TTTT
1 TTTT
18070672 CTACTTTTAT
Statistics
Matches: 82, Mismatches: 10, Indels: 24
0.71 0.09 0.21
Matches are distributed among these distances:
9 34 0.41
10 23 0.28
11 18 0.22
12 7 0.09
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:18070629 original size:22 final size:21
Alignment explanation
Indices: 18070559--18070668 Score: 74
Period size: 21 Copynumber: 5.5 Consensus size: 21
18070549 ATAATTCTAG
**
18070559 TTTT-TATAATATTTGCAT-A
1 TTTTGTATAATATTTTTATAA
* *
18070578 TTTT-TCATAATATATTAATAA
1 TTTTGT-ATAATATTTTTATAA
*
18070599 TTTT-TAT-AT-TTTTTGTAA
1 TTTTGTATAATATTTTTATAA
18070617 TTTTGTATAATATTTTTATAA
1 TTTTGTATAATATTTTTATAA
* * *
18070638 TTTTTTATAGT-TATTCTATAA
1 TTTTGTATAATAT-TTTTATAA
18070659 TTTT-TATAAT
1 TTTTGTATAAT
18070669 TTTCTACTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
18 10 0.14
19 10 0.14
20 20 0.27
21 34 0.46
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTGTATAATATTTTTATAA
Found at i:18070662 original size:30 final size:29
Alignment explanation
Indices: 18070595--18070671 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
18070585 TAATATATTA
* *
18070595 ATAATTTTTAT-ATTTTTTGTAATTTTGT
1 ATAATTTTTATAATTTTTTATAATTTTCT
*
18070623 ATAATATTTTTATAATTTTTTATAGTTATTCT
1 AT-A-ATTTTTATAATTTTTTATAATT-TTCT
18070655 ATAATTTTTATAATTTT
1 ATAATTTTTATAATTTT
18070672 CTACTTTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.05
29 1 0.02
30 22 0.52
31 12 0.29
32 5 0.12
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (29 bp):
ATAATTTTTATAATTTTTTATAATTTTCT
Found at i:18071200 original size:14 final size:14
Alignment explanation
Indices: 18071181--18071218 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
18071171 ATTTAAACAT
18071181 AAATTTAAAATCAA
1 AAATTTAAAATCAA
*
18071195 AAATTTAAAATCTA
1 AAATTTAAAATCAA
*
18071209 AAACTTAAAA
1 AAATTTAAAA
18071219 ATTTAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATTTAAAATCAA
Found at i:18071235 original size:20 final size:21
Alignment explanation
Indices: 18071180--18071237 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
18071170 TATTTAAACA
* *
18071180 TAAATTTAAAA-TCAAAAATT
1 TAAATATAAAACTTAAAAATT
*
18071200 TAAAATCTAAAACTTAAAAATT
1 T-AAATATAAAACTTAAAAATT
*
18071222 T-AATATAAACCTTAAA
1 TAAATATAAAACTTAAA
18071238 CCATAAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 14 0.44
21 9 0.28
22 9 0.28
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATATAAAACTTAAAAATT
Found at i:18083268 original size:17 final size:18
Alignment explanation
Indices: 18083246--18083280 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18083236 ATTTTAGGGA
18083246 CAAAA-TTGAATAAATTG
1 CAAAATTTGAATAAATTG
*
18083263 CAAAATTTGTATAAATTG
1 CAAAATTTGAATAAATTG
18083281 ATAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (18 bp):
CAAAATTTGAATAAATTG
Found at i:18086781 original size:2 final size:2
Alignment explanation
Indices: 18086776--18086805 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18086766 ATAAAAATTA
18086776 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
18086806 TATTTGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18087680 original size:43 final size:43
Alignment explanation
Indices: 18087559--18087694 Score: 206
Period size: 43 Copynumber: 3.2 Consensus size: 43
18087549 AACTGGTGGC
*
18087559 CGGCACCTTGGTGGCTCGGATGTGCGGGAGCCTCGAGCCGCAT
1 CGGCACCTTGGTGGCTCAGATGTGCGGGAGCCTCGAGCCGCAT
*
18087602 CGGCACCTTGGT-GCT-AGGATGTGCGAGAGCCTCGAGCCGCAT
1 CGGCACCTTGGTGGCTCA-GATGTGCGGGAGCCTCGAGCCGCAT
*
18087644 CAGCACCTTGGTGGCTCAGATGTGCGGGAGCCTCGAGCAC-CAT
1 CGGCACCTTGGTGGCTCAGATGTGCGGGAGCCTCGAGC-CGCAT
18087687 CGGCACCT
1 CGGCACCT
18087695 CGAGACCCTC
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
42 38 0.45
43 44 0.52
44 2 0.02
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.18
Consensus pattern (43 bp):
CGGCACCTTGGTGGCTCAGATGTGCGGGAGCCTCGAGCCGCAT
Found at i:18087912 original size:11 final size:11
Alignment explanation
Indices: 18087896--18087920 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18087886 AGTTTATAAA
18087896 CAATTTTGTTC
1 CAATTTTGTTC
18087907 CAATTTTGTTC
1 CAATTTTGTTC
18087918 CAA
1 CAA
18087921 GTCATCTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (11 bp):
CAATTTTGTTC
Found at i:18091756 original size:19 final size:19
Alignment explanation
Indices: 18091732--18091769 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18091722 AATTAGAAGT
18091732 CTGTAGATTTATTTTTATC
1 CTGTAGATTTATTTTTATC
18091751 CTGTAGATTTATTTTTATC
1 CTGTAGATTTATTTTTATC
18091770 TATGCTTGAG
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:0.11, G:0.11, T:0.58
Consensus pattern (19 bp):
CTGTAGATTTATTTTTATC
Found at i:18096246 original size:5 final size:5
Alignment explanation
Indices: 18096207--18096299 Score: 70
Period size: 5 Copynumber: 18.8 Consensus size: 5
18096197 TTTTTATGTT
* *
18096207 TTATA -TATA TTATT TTATCA -TATA ATATA TTATA TTATA TTA-A TTATA
1 TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA TTATA
* * *
18096255 TTTTA TTATA TTAT- TATATA TTAAATA ATATA TTAT- TAATA TTAT
1 TTATA TTATA TTATA T-TATA TT--ATA TTATA TTATA TTATA TTAT
18096300 TAGTTAAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
4 13 0.19
5 52 0.74
6 1 0.01
7 4 0.06
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (5 bp):
TTATA
Found at i:18096253 original size:29 final size:29
Alignment explanation
Indices: 18096227--18096301 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 29
18096217 TATTTTATCA
18096227 TATAATATATTATATTATATTAATTATAT
1 TATAATATATTATATTATATTAATTATAT
* *
18096256 TTTATTATATTAT-TATATATTAAATAATATAT
1 TATAATATATTATAT-TATATT-AAT--TATAT
18096288 TATTAATATTATTA
1 TA-TAATA-TATTA
18096302 GTTAAAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
28 1 0.03
29 17 0.47
30 3 0.08
32 6 0.17
33 4 0.11
34 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TATAATATATTATATTATATTAATTATAT
Found at i:18096776 original size:22 final size:24
Alignment explanation
Indices: 18096748--18096791 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
18096738 TATGGCAAGA
18096748 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
18096770 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
18096792 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:18101423 original size:14 final size:14
Alignment explanation
Indices: 18101406--18101460 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
18101396 TTGAGGATTA
18101406 AAAATTAAAAATTG
1 AAAATTAAAAATTG
*
18101420 AAAATTAAAATTTG
1 AAAATTAAAAATTG
* *
18101434 AAGATTGAAAATAT-
1 AAAATTAAAAAT-TG
18101448 AAAATTGAAAAAT
1 AAAATT-AAAAAT
18101461 GGGATTGAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 27 0.82
15 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (14 bp):
AAAATTAAAAATTG
Found at i:18101440 original size:21 final size:21
Alignment explanation
Indices: 18101402--18101460 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
18101392 ATAATTGAGG
*
18101402 ATTAAAAATTAAAAATTGAAA
1 ATTAAAATTTAAAAATTGAAA
* *
18101423 ATTAAAATTTGAAGATTGAAA
1 ATTAAAATTTAAAAATTGAAA
*
18101444 ATATAAAATTGAAAAAT
1 AT-TAAAATTTAAAAAT
18101461 GGGATTGAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (21 bp):
ATTAAAATTTAAAAATTGAAA
Found at i:18101611 original size:15 final size:15
Alignment explanation
Indices: 18101591--18101625 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
18101581 CCCTACTAGT
18101591 CGTTGGAAAAGTTAC
1 CGTTGGAAAAGTTAC
18101606 CGTTGGAAAAGTTAC
1 CGTTGGAAAAGTTAC
*
18101621 AGTTG
1 CGTTG
18101626 AAAGGAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (15 bp):
CGTTGGAAAAGTTAC
Found at i:18107867 original size:16 final size:16
Alignment explanation
Indices: 18107826--18107868 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
18107816 AATTACAAAA
18107826 AAAAATT-TAAAATTC
1 AAAAATTATAAAATTC
18107841 AAAATATTTATAAAATTC
1 AAAA-A-TTATAAAATTC
*
18107859 CAAAATTATA
1 AAAAATTATA
18107869 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 4 0.17
16 6 0.25
17 3 0.12
18 11 0.46
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAATTATAAAATTC
Found at i:18110151 original size:16 final size:16
Alignment explanation
Indices: 18110130--18110161 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18110120 TTTCTTCCAT
18110130 TTTCAATCTCGTTGTA
1 TTTCAATCTCGTTGTA
*
18110146 TTTCAATTTCGTTGTA
1 TTTCAATCTCGTTGTA
18110162 AATTCTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTCAATCTCGTTGTA
Found at i:18113874 original size:21 final size:21
Alignment explanation
Indices: 18113835--18113875 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18113825 ACCATGTCTC
* *
18113835 TCAGTCACACGGGCGTGTACG
1 TCAGTCACACGGCCATGTACG
18113856 TCAGTCACACGGCCATGTAC
1 TCAGTCACACGGCCATGTAC
18113876 CCCTATCACA
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:0.22, C:0.32, G:0.27, T:0.20
Consensus pattern (21 bp):
TCAGTCACACGGCCATGTACG
Found at i:18129708 original size:53 final size:51
Alignment explanation
Indices: 18129625--18129775 Score: 186
Period size: 53 Copynumber: 3.0 Consensus size: 51
18129615 CAATGTCACT
* * *
18129625 AAAGAAGATCATATCGTGTAAGACCATAACTAGTGGGTTATGACATCCTATG
1 AAAGAAGA-CAGATCGTGTAAGACCGTAACTAGTGGGTTATGACATCATATG
* *
18129677 AAAAGAAGACCAGATCGTGTAAGGCCGTAACTAGTGAGTTATGACATCATAT-
1 -AAAGAAGA-CAGATCGTGTAAGACCGTAACTAGTGGGTTATGACATCATATG
*
18129729 AAA-AAGA-AG-T-GTGTAAGACCGTAACTGGTGGGTTATGACATCATATG
1 AAAGAAGACAGATCGTGTAAGACCGTAACTAGTGGGTTATGACATCATATG
18129776 GGAAGGACCA
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
46 33 0.38
47 1 0.01
48 2 0.02
50 4 0.05
51 3 0.03
53 45 0.51
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (51 bp):
AAAGAAGACAGATCGTGTAAGACCGTAACTAGTGGGTTATGACATCATATG
Found at i:18130132 original size:28 final size:29
Alignment explanation
Indices: 18130070--18130139 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 29
18130060 AATAAAAAGG
* * *
18130070 ATACCTTTGTGGCAATCTCTGGATAAGAA
1 ATACCTTTGTGGCAATCTCTGAAAAAAAA
* *
18130099 A-GCCTTTGTGGCTATCTCT-AAAAAAAA
1 ATACCTTTGTGGCAATCTCTGAAAAAAAA
*
18130126 ATACCTTCGTGGCA
1 ATACCTTTGTGGCA
18130140 CCATCTAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 6 0.19
28 25 0.78
29 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (29 bp):
ATACCTTTGTGGCAATCTCTGAAAAAAAA
Found at i:18134310 original size:229 final size:229
Alignment explanation
Indices: 18133909--18134366 Score: 873
Period size: 229 Copynumber: 2.0 Consensus size: 229
18133899 TTCCATCAAA
18133909 AGATGATTGCTATATTAATAAGGGATATGATATTTTAGCTCCTATACCTTGTAAGTCAAAGGTTG
1 AGATGATTGCTATATTAATAAGGGATATGATATTTTAGCTCCTATACCTTGTAAGTCAAAGGTTG
18133974 GTCGATGTTTTTTCTTTTCCTATTTTGAATTTATTCTCTTTTATCATCTAGCTGTCTATTTCTCT
66 GTCGATGTTTTTTCTTTTCCTATTTTGAATTTATTCTCTTTTATCATCTAGCTGTCTATTTCTCT
18134039 TTCTTTTTTGGTTATGTACTTCCATTATCACATCTTTGAATTTCTTGTATAAATAGGATGTATG-
131 TTCTTTTTTGGTTATGTACTTCCATTATCACATCTTTGAATTTCTTGTATAAATAGGATGTATGT
18134103 TTATTAATAATAAACAAGGATTTCCTTTTTTTTTT
196 TTATTAATAAT-AACAAGGATTTCCTTTTTTTTTT
18134138 AGATGATTGCTATATTAATAAGGGATATGATATTTTAGCTCCTATACCTTGTAAGTCAAAGGTTG
1 AGATGATTGCTATATTAATAAGGGATATGATATTTTAGCTCCTATACCTTGTAAGTCAAAGGTTG
18134203 GTCGATGTTTTTTCTTTTCCTATTTTGAATTTATTCTCTTTTATCATCTAGCTGTCTATTTCTCT
66 GTCGATGTTTTTTCTTTTCCTATTTTGAATTTATTCTCTTTTATCATCTAGCTGTCTATTTCTCT
18134268 TTCTTTTTTGGTTATGTACTTCCATTATCACATCTTTGAATTTCTTGTATAAATAGGATGTATGT
131 TTCTTTTTTGGTTATGTACTTCCATTATCACATCTTTGAATTTCTTGTATAAATAGGATGTATGT
* * *
18134333 TTGTTATTAATAACAAGGATTTTCTTTTTTTTTT
196 TTATTAATAATAACAAGGATTTCCTTTTTTTTTT
18134367 CACCCATAAT
Statistics
Matches: 225, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
229 216 0.96
230 9 0.04
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (229 bp):
AGATGATTGCTATATTAATAAGGGATATGATATTTTAGCTCCTATACCTTGTAAGTCAAAGGTTG
GTCGATGTTTTTTCTTTTCCTATTTTGAATTTATTCTCTTTTATCATCTAGCTGTCTATTTCTCT
TTCTTTTTTGGTTATGTACTTCCATTATCACATCTTTGAATTTCTTGTATAAATAGGATGTATGT
TTATTAATAATAACAAGGATTTCCTTTTTTTTTT
Found at i:18140289 original size:2 final size:2
Alignment explanation
Indices: 18140282--18140307 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18140272 GTAATATGTA
18140282 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
18140308 AAATTGGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:18144602 original size:24 final size:24
Alignment explanation
Indices: 18144575--18144630 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
18144565 TGTATTGAAT
* *
18144575 TGCCTTAACAAAGTCGCATCAAAG
1 TGCCATAACAAAGTCGCACCAAAG
* *
18144599 TGCCATAACAGAGTTGCACCAAAG
1 TGCCATAACAAAGTCGCACCAAAG
*
18144623 TGCTATAA
1 TGCCATAA
18144631 TAGAAGGCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (24 bp):
TGCCATAACAAAGTCGCACCAAAG
Found at i:18160630 original size:20 final size:20
Alignment explanation
Indices: 18160605--18160644 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
18160595 GTCGTCTGAC
18160605 CATAGTTGAGTATGAAAGAG
1 CATAGTTGAGTATGAAAGAG
18160625 CATAGTTGAGTATGAAAGAG
1 CATAGTTGAGTATGAAAGAG
18160645 AGTTTGTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.30, T:0.25
Consensus pattern (20 bp):
CATAGTTGAGTATGAAAGAG
Found at i:18174647 original size:20 final size:21
Alignment explanation
Indices: 18174615--18174663 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
18174605 TTTTACTTTC
*
18174615 CTTTATTAT-ACATT-ATTTT
1 CTTTATTTTAACATTCATTTT
* *
18174634 CTTTCTTTTAACATTCTTTTT
1 CTTTATTTTAACATTCATTTT
18174655 CTTTATTTT
1 CTTTATTTT
18174664 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 7 0.29
20 5 0.21
21 12 0.50
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.67
Consensus pattern (21 bp):
CTTTATTTTAACATTCATTTT
Found at i:18178272 original size:22 final size:22
Alignment explanation
Indices: 18178230--18178272 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
18178220 TGGGTAATGG
*
18178230 TTGTTTGGATAATAGACTTTAA
1 TTGTTTGAATAATAGACTTTAA
18178252 TTGTTATGAATAATAGA-TTTA
1 TTGTT-TGAATAATAGACTTTA
18178273 GATTTGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TTGTTTGAATAATAGACTTTAA
Found at i:18187442 original size:26 final size:26
Alignment explanation
Indices: 18187413--18187465 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
18187403 GTATTTAAGG
18187413 TAAACCGTTTGTTTACTCGTTGATGT
1 TAAACCGTTTGTTTACTCGTTGATGT
18187439 TAAACCGTTTGTTTACTCGTTGATGT
1 TAAACCGTTTGTTTACTCGTTGATGT
18187465 T
1 T
18187466 CATAATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.47
Consensus pattern (26 bp):
TAAACCGTTTGTTTACTCGTTGATGT
Found at i:18191799 original size:40 final size:39
Alignment explanation
Indices: 18191717--18191801 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 39
18191707 GTGACTAATT
***
18191717 ACTTCATAAATTAAAAATAAATATTATTATAAATATCTTA
1 ACTTCATAAATT-AAAATAAATATTATTATAAATAAAATA
*
18191757 ACTTCATAAATT-AAATAAATATTATTATAATTTAAAAATA
1 ACTTCATAAATTAAAATAAATATTATTATAA-AT-AAAATA
18191797 ACTTC
1 ACTTC
18191802 CATTTTACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 18 0.46
39 1 0.03
40 20 0.51
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (39 bp):
ACTTCATAAATTAAAATAAATATTATTATAAATAAAATA
Found at i:18192506 original size:16 final size:17
Alignment explanation
Indices: 18192477--18192512 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
18192467 GAAAAGAAGG
18192477 AGAAAAAAGAAAGGATA
1 AGAAAAAAGAAAGGATA
18192494 AGAAAAAAG-AAGGATA
1 AGAAAAAAGAAAGGATA
18192510 AGA
1 AGA
18192513 TATTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (17 bp):
AGAAAAAAGAAAGGATA
Found at i:18192804 original size:108 final size:105
Alignment explanation
Indices: 18192609--18192864 Score: 320
Period size: 107 Copynumber: 2.4 Consensus size: 105
18192599 TTGTTGTTTT
* * * * *
18192609 TTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTAATTTTTTAGTTTAATGTTTATTGTG
1 TTTATTTTAAAGTTATTTTGTCAGTAAATATTATAAATTAATTGTTTAGTTTAAGGTTTATTGTG
*
18192674 ATTTTGTTAGGTTATGAATGTAAAT-TTTTATTAATTTTTAA
66 ATTTTGTTAGGTTATGAATGT-AATCTTTTAAT-ATTTTTAA
* * *
18192715 TTTATTTTAAAGTTATTTTGTCAGTAAATTTTGTAATTAGGTTAATTGTTT-GTTTAGGGTTTAT
1 TTTATTTTAAAGTTATTTTGTCAGTAAATATTATAA--A--TTAATTGTTTAGTTTAAGGTTTAT
18192779 TGTGA-TTTGTTAGGTTATGAATGTAATCTTTTAATATTTTTAA
62 TGTGATTTTGTTAGGTTATGAATGTAATCTTTTAATATTTTTAA
* * * *
18192822 TTTATTTGAAAGTTATTTTTTTAGTAACTATTATAAATTAATT
1 TTTATTTTAAAGTTATTTTGTCAGTAAATATTATAAATTAATT
18192865 ATTAGTTAGT
Statistics
Matches: 130, Mismatches: 15, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
103 6 0.05
105 1 0.01
106 31 0.24
107 41 0.32
108 26 0.20
109 16 0.12
110 9 0.07
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.57
Consensus pattern (105 bp):
TTTATTTTAAAGTTATTTTGTCAGTAAATATTATAAATTAATTGTTTAGTTTAAGGTTTATTGTG
ATTTTGTTAGGTTATGAATGTAATCTTTTAATATTTTTAA
Found at i:18194825 original size:33 final size:33
Alignment explanation
Indices: 18194775--18194837 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
18194765 ATACGGCAAA
* *
18194775 GATACGGGCCGGAAGAAGTGGAGTACTGCGGTG
1 GATACGAGCCGGAAGAAGTCGAGTACTGCGGTG
18194808 GATACGAGCCAGG-AGAAGTCGAGTACTGCG
1 GATACGAGCC-GGAAGAAGTCGAGTACTGCG
18194838 ATGGCATTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.27, C:0.17, G:0.41, T:0.14
Consensus pattern (33 bp):
GATACGAGCCGGAAGAAGTCGAGTACTGCGGTG
Found at i:18196936 original size:21 final size:21
Alignment explanation
Indices: 18196910--18196951 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18196900 CAACATGACA
18196910 TGTC-AATAAATCAATAAAAAT
1 TGTCAAATAAATCAA-AAAAAT
18196931 TGTCAAATAAATCAAAAAAAT
1 TGTCAAATAAATCAAAAAAAT
18196952 AAAATTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.26
Consensus pattern (21 bp):
TGTCAAATAAATCAAAAAAAT
Found at i:18197124 original size:112 final size:109
Alignment explanation
Indices: 18196947--18197262 Score: 367
Period size: 112 Copynumber: 3.0 Consensus size: 109
18196937 ATAAATCAAA
* * * *
18196947 AAAATAAAATTACA-TTATAACAAATCACAAGACACATTAAACT-AA-ACAAATAATTTATAACC
1 AAAAGAAAATTACATTTATAAC-AATCACAATA-ACACTAAACTAAACACAAACAATTTATAACC
18197009 TAATCATAAATTACTAACAAAATAACTTTAAAAAAAATT-AAAAAAC
64 TAATCATAAATTACTAACAAAATAACTTT-AAAAAAATTAAAAAAAC
18197055 ACAAA-AAAATATACATTTATAACAAGTCACAATAAACACTAAACTAAACACAAACAATTTATAA
1 A-AAAGAAAAT-TACATTTATAACAA-TCACAAT-AACACTAAACTAAACACAAACAATTTATAA
*
18197119 CCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTAAAAAAAC
62 CCTAATCATAAATTACTAACAAAATAACTTTAAAAAAATTAAAAAAAC
* *
18197167 AAAAGAAAATTTACATTCAT-A-AA--A-AAT--CAC--AA-TAAACACAAACAATTTATAATCT
1 AAAAGAAAA-TTACATTTATAACAATCACAATAACACTAAACTAAACACAAACAATTTATAACCT
* *
18197222 AATCATAAATTACTAACAAAATAAC-TTCAAATAATTAAAAA
65 AATCATAAATTACTAACAAAATAACTTTAAAAAAATTAAAAA
18197263 GGGTAAACTA
Statistics
Matches: 191, Mismatches: 7, Indels: 29
0.84 0.03 0.13
Matches are distributed among these distances:
99 15 0.08
100 47 0.25
101 2 0.01
103 3 0.02
106 3 0.02
107 1 0.01
108 6 0.03
109 9 0.05
110 24 0.13
111 15 0.08
112 65 0.34
113 1 0.01
ACGTcount: A:0.59, C:0.15, G:0.01, T:0.25
Consensus pattern (109 bp):
AAAAGAAAATTACATTTATAACAATCACAATAACACTAAACTAAACACAAACAATTTATAACCTA
ATCATAAATTACTAACAAAATAACTTTAAAAAAATTAAAAAAAC
Found at i:18198147 original size:108 final size:109
Alignment explanation
Indices: 18197956--18198247 Score: 417
Period size: 108 Copynumber: 2.6 Consensus size: 109
18197946 TAGTTTACCC
18197956 TTAAAAAAAC-AAAAAAATTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAA
1 TTAAAAAAACAAAAAAAATTACATTCATAAAAAATCAC-A-AAACACTAAACTAAACACAAACAA
* * * *
18198020 TTTATAACCTAACCATAAATTACTGACAAAATGACTTTAAAATAAT
64 TTTATAACCTAACAATAAATTACTAACAAAATAACTATAAAATAAT
* * *
18198066 TTAAAAAAACAAAAAAAATTACATTCATAAAAACTCACAAAACACT-AAGTAAACACAAACAATA
1 TTAAAAAAACAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATT
*
18198130 TATAACCTAATAATAAATTACTAACAAAATAACTATAAAATAAT
66 TATAACCTAACAATAAATTACTAACAAAATAACTATAAAATAAT
* * *
18198174 TTAAAAACAAAAAACAAAAAATTTACATTCATAAAAAATTACAAAATACTAAACTAAACACAAAC
1 TT-AAAA-AAACAA-AAAAAA-TTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAAC
18198239 AATTTATAA
62 AATTTATAA
18198248 TAATTAATAA
Statistics
Matches: 162, Mismatches: 14, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
108 57 0.35
109 11 0.07
110 16 0.10
111 32 0.20
112 25 0.15
113 21 0.13
ACGTcount: A:0.61, C:0.15, G:0.01, T:0.23
Consensus pattern (109 bp):
TTAAAAAAACAAAAAAAATTACATTCATAAAAAATCACAAAACACTAAACTAAACACAAACAATT
TATAACCTAACAATAAATTACTAACAAAATAACTATAAAATAAT
Found at i:18205050 original size:25 final size:27
Alignment explanation
Indices: 18205003--18205052 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
18204993 ATAAATATGT
* *
18205003 TTATATATATATTTCTTTCTATAAAAA
1 TTATATATATATTTCGTTATATAAAAA
18205030 TTATATATA-ATTT-GTTATATAAA
1 TTATATATATATTTCGTTATATAAA
18205053 TTCTATAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 4 0.19
27 9 0.43
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATATATATATTTCGTTATATAAAAA
Found at i:18217333 original size:50 final size:50
Alignment explanation
Indices: 18217279--18217379 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
18217269 ATCACCTCGA
* * *
18217279 CGTTGCAATGGAAAAGATTGAAGCCACAACGGCGAGTCTTATTTCCCTGG
1 CGTTGCAACGGAAAAGATTGAAGCCACAACGACGAGTCTTATCTCCCTGG
* * ** *
18217329 CGTTGTAGCGGAGCAGATTGAAGCCACGACGACGAGTCTTATCTCCCTGG
1 CGTTGCAACGGAAAAGATTGAAGCCACAACGACGAGTCTTATCTCCCTGG
18217379 C
1 C
18217380 ATTAAGGCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (50 bp):
CGTTGCAACGGAAAAGATTGAAGCCACAACGACGAGTCTTATCTCCCTGG
Found at i:18219353 original size:71 final size:72
Alignment explanation
Indices: 18219236--18219378 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 72
18219226 GACCCGACTC
18219236 CAACCCGACCCGGCCTAGGATCCGCGTGTTTTTGAGCGGAGGGGAAAATTACGCTTTTAGTCCCT
1 CAACCCGACCCGGCCTAGGATCCGCGTGTTTTTGAGCGGAGGGGAAAATTACGCTTTTAGTCCCT
18219301 GAGCCTT
66 GAGCCTT
18219308 CAACCCGA-CCGGCCTAGGATCCGCGTGTTTTTGAGCGGAGGGGAAAATTACGCTTTTAGTCCCT
1 CAACCCGACCCGGCCTAGGATCCGCGTGTTTTTGAGCGGAGGGGAAAATTACGCTTTTAGTCCCT
18219372 GAGCCTT
66 GAGCCTT
18219379 TTAAAGTTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 63 0.89
72 8 0.11
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.25
Consensus pattern (72 bp):
CAACCCGACCCGGCCTAGGATCCGCGTGTTTTTGAGCGGAGGGGAAAATTACGCTTTTAGTCCCT
GAGCCTT
Found at i:18220843 original size:13 final size:13
Alignment explanation
Indices: 18220825--18220860 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
18220815 TTTTTATATA
18220825 TATTTATTTCGTT
1 TATTTATTTCGTT
18220838 TATTTATTT-GTT
1 TATTTATTTCGTT
18220850 TATATTATTTC
1 TAT-TTATTTC
18220861 TATGTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (13 bp):
TATTTATTTCGTT
Found at i:18245020 original size:48 final size:48
Alignment explanation
Indices: 18244964--18245216 Score: 190
Period size: 48 Copynumber: 5.2 Consensus size: 48
18244954 CACAGCGGCA
*
18244964 AATCTTACTTCTGGCGATACAGTGGAGCAGATTGAAGCTACAACAGCG
1 AATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGCTACAACAGCG
* * ** ** * * * *
18245012 GATCTTACTTCCCTGAC-ATTGCA-TTTAAAAGATCGAAGCCACAGCGGCG
1 AATCTTACTT--CTGGCGA-TGCAGTGGAGCAGATTGAAGCTACAACAGCG
* *
18245061 AATCTTACTTCTTGCGATGCAGTGGAGCAGATTGAAGCTACAATAGCG
1 AATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGCTACAACAGCG
* ** ** ** * * * *
18245109 AATCTCACTTC-CCCGACATTGCA-TTTAAAAGATCGAAGCCACAGCGGCG
1 AATCTTACTTCTGGCG--A-TGCAGTGGAGCAGATTGAAGCTACAACAGCG
*
18245158 AATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGCTACAATAGCG
1 AATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGCTACAACAGCG
*
18245206 AATCTCACTTC
1 AATCTTACTTC
18245217 CCCGACATTG
Statistics
Matches: 147, Mismatches: 48, Indels: 20
0.68 0.22 0.09
Matches are distributed among these distances:
47 13 0.09
48 65 0.44
49 56 0.38
50 13 0.09
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (48 bp):
AATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGCTACAACAGCG
Found at i:18245103 original size:97 final size:97
Alignment explanation
Indices: 18244937--18245363 Score: 719
Period size: 97 Copynumber: 4.4 Consensus size: 97
18244927 ACAGTCTGCA
* *
18244937 ATTTAAAAGATCGAAGCCACAGCGGCAAATCTTACTTCTGGCGATACAGTGGAGCAGATTGAAGC
1 ATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGC
* * * *
18245002 TACAACAGCGGATCTTACTTCCCTGACATTGC
66 TACAATAGCGAATCTCACTTCCCCGACATTGC
*
18245034 ATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTTGCGATGCAGTGGAGCAGATTGAAGC
1 ATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGC
18245099 TACAATAGCGAATCTCACTTCCCCGACATTGC
66 TACAATAGCGAATCTCACTTCCCCGACATTGC
18245131 ATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGC
1 ATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGC
18245196 TACAATAGCGAATCTCACTTCCCCGACATTGC
66 TACAATAGCGAATCTCACTTCCCCGACATTGC
* * * * *
18245228 ATTTAAAAGATCGAAGCCACAGCGGTGAATCTTATTTTTGGCGATGCAGTGGAACAGATTGAAAC
1 ATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGC
*
18245293 TACAATGGCGAATCTCACTTCCCCGACATTGC
66 TACAATAGCGAATCTCACTTCCCCGACATTGC
*
18245325 AATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTC
1 -ATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTC
18245364 CAGGCGACGC
Statistics
Matches: 311, Mismatches: 18, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
97 277 0.89
98 34 0.11
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (97 bp):
ATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATGCAGTGGAGCAGATTGAAGC
TACAATAGCGAATCTCACTTCCCCGACATTGC
Found at i:18265835 original size:153 final size:147
Alignment explanation
Indices: 18265662--18265981 Score: 379
Period size: 153 Copynumber: 2.1 Consensus size: 147
18265652 TTTGGGAGGA
* * * * *
18265662 AAAAAATTTGTTTGTGTTGGAATTTTAGGGAGAAATTGTGAAAGTTTTAATGTGTGTTTTTATTG
1 AAAAAATTTGTTTGTGTTGGAATTTTAGAGAGAAATTATGAAAGGTTTAAGGTGTGTTTTTAGT-
* *
18265727 TTGTAATAATAATTTGTATATTATATGTTTATATTTTAATTTATTGTTAATCTTTAGATTAAATA
65 TTGTAATAATAATTTGTATATTATATG--TATA-TTT--TTTATTGTTAATATTTAAATTAAATA
*
18265792 TTTAATATTATATTTTTGTTTAT
125 TTTAAGATTATATTTTTGTTTAT
* * * ** * * *
18265815 AAAAAATCTGTTTGTGTTGGAGTTTTAGAGATAGTTTATGATAGGTTTAAGGTTTTTTTTTAGTT
1 AAAAAATTTGTTTGTGTTGGAATTTTAGAGAGAAATTATGAAAGGTTTAAGGTGTGTTTTTAGTT
* * * * *
18265880 TGTAATAATAATTTTTATATTATATGTCTATTTTTTATTTTTAATATTTAAATTTAATGTTTAAG
66 TGTAATAATAATTTGTATATTATATGTATATTTTTTATTGTTAATATTTAAATTAAATATTTAAG
*
18265945 ATTATATTTTTGTTTGT
131 ATTATATTTTTGTTTAT
18265962 AAAAAATTTTGTTTGTGTTG
1 AAAAAA-TTTGTTTGTGTTG
18265982 AGGTCTTGGG
Statistics
Matches: 143, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
147 48 0.34
148 12 0.08
149 3 0.02
150 3 0.02
152 26 0.18
153 51 0.36
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (147 bp):
AAAAAATTTGTTTGTGTTGGAATTTTAGAGAGAAATTATGAAAGGTTTAAGGTGTGTTTTTAGTT
TGTAATAATAATTTGTATATTATATGTATATTTTTTATTGTTAATATTTAAATTAAATATTTAAG
ATTATATTTTTGTTTAT
Found at i:18268817 original size:42 final size:41
Alignment explanation
Indices: 18268694--18268799 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 41
18268684 GAGACGTTAA
*
18268694 ATTGGTGGATGGTGTTGTGGTGGGATCCATAGGAGTGGGAAG
1 ATTGGTGG-TGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
* * *
18268736 ATTGGTGGGTAGTGTTGTGATGGGTTCCATAGGAGTAGGAAG
1 ATTGGT-GGTGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
18268778 ATTGGTAGGTGGTGTTGTGGTG
1 ATTGGT-GGTGGTGTTGTGGTG
18268800 TGACCCGTAG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 54 0.96
43 2 0.04
ACGTcount: A:0.18, C:0.04, G:0.46, T:0.32
Consensus pattern (41 bp):
ATTGGTGGTGGTGTTGTGGTGGGATCCATAGGAGTAGGAAG
Found at i:18273466 original size:22 final size:22
Alignment explanation
Indices: 18273440--18273483 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
18273430 GGACACCACA
18273440 ACGTTTCACCCCACGGACAACT
1 ACGTTTCACCCCACGGACAACT
18273462 ACGTTTCACCCCACGGACAACT
1 ACGTTTCACCCCACGGACAACT
18273484 CCATCCAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.41, G:0.14, T:0.18
Consensus pattern (22 bp):
ACGTTTCACCCCACGGACAACT
Found at i:18275118 original size:21 final size:24
Alignment explanation
Indices: 18275074--18275122 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
18275064 CATCTTACAT
*
18275074 AACCTTTTTTTTTTATTCTATGTC
1 AACCTTTTATTTTTATTCTATGTC
18275098 AACCTTTTATTTTT-TT-T-TGTC
1 AACCTTTTATTTTTATTCTATGTC
18275119 AACC
1 AACC
18275123 ATATTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 1 0.04
23 2 0.08
24 13 0.54
ACGTcount: A:0.18, C:0.18, G:0.04, T:0.59
Consensus pattern (24 bp):
AACCTTTTATTTTTATTCTATGTC
Found at i:18294118 original size:15 final size:15
Alignment explanation
Indices: 18294098--18294129 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18294088 CATGCCAGCC
18294098 CTCCTAGAATTGCCT
1 CTCCTAGAATTGCCT
18294113 CTCCTAGAATTGCCT
1 CTCCTAGAATTGCCT
18294128 CT
1 CT
18294130 GACTTGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.34, G:0.12, T:0.34
Consensus pattern (15 bp):
CTCCTAGAATTGCCT
Found at i:18295425 original size:7 final size:8
Alignment explanation
Indices: 18295413--18295454 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
18295403 TATTATTATT
18295413 AATTT-AA
1 AATTTAAA
18295420 AATTTAAAA
1 AATTT-AAA
18295429 AATTTAAA
1 AATTTAAA
18295437 AATTATAAA
1 AATT-TAAA
18295446 AGATTTAAA
1 A-ATTTAAA
18295455 TTAAAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 5 0.16
8 7 0.23
9 16 0.52
10 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (8 bp):
AATTTAAA
Found at i:18295457 original size:16 final size:17
Alignment explanation
Indices: 18295413--18295454 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18295403 TATTATTATT
18295413 AATTTAAAATT-TAAAA
1 AATTTAAAATTATAAAA
18295429 AATTTAAAAATTATAAAA
1 AATTT-AAAATTATAAAA
*
18295447 GATTTAAA
1 AATTTAAA
18295455 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 9 0.39
18 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AATTTAAAATTATAAAA
Found at i:18298289 original size:20 final size:20
Alignment explanation
Indices: 18298266--18298314 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
18298256 AAGTTTGATT
18298266 TATTTTTATAGAATTTA-TAA
1 TATTTTTATA-AATTTAGTAA
*
18298286 TATTTTATGTAAATTTAGTAA
1 TATTTT-TATAAATTTAGTAA
*
18298307 CATTTTTA
1 TATTTTTA
18298315 GTTTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (20 bp):
TATTTTTATAAATTTAGTAA
Found at i:18298783 original size:5 final size:5
Alignment explanation
Indices: 18298773--18298805 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
18298763 TTTCATCTCT
18298773 CTCAC CTCAC CTCAC CTCAC CTCAC CTCAC CTC
1 CTCAC CTCAC CTCAC CTCAC CTCAC CTCAC CTC
18298806 CATCTATCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.61, G:0.00, T:0.21
Consensus pattern (5 bp):
CTCAC
Found at i:18303632 original size:14 final size:14
Alignment explanation
Indices: 18303613--18303640 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18303603 TTTGTTTGGT
18303613 GGAAAATATTTTCC
1 GGAAAATATTTTCC
18303627 GGAAAATATTTTCC
1 GGAAAATATTTTCC
18303641 ACCTTTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
GGAAAATATTTTCC
Found at i:18303874 original size:12 final size:12
Alignment explanation
Indices: 18303859--18303891 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
18303849 TCGTTCTCCC
*
18303859 TTCTCCCTTTTG
1 TTCTCCCTTTCG
18303871 TTCTCCCTTTCG
1 TTCTCCCTTTCG
18303883 TTCTCCCTT
1 TTCTCCCTT
18303892 GATTTGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.39, G:0.06, T:0.55
Consensus pattern (12 bp):
TTCTCCCTTTCG
Found at i:18305824 original size:13 final size:13
Alignment explanation
Indices: 18305806--18305832 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18305796 TGGTTCATGT
18305806 TTTTAAGTATCTG
1 TTTTAAGTATCTG
18305819 TTTTAAGTATCTG
1 TTTTAAGTATCTG
18305832 T
1 T
18305833 CTTACCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TTTTAAGTATCTG
Found at i:18306484 original size:24 final size:22
Alignment explanation
Indices: 18306445--18306496 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 22
18306435 GAACAATACT
*
18306445 AAATTTTTTTTTACCAACTTTA
1 AAATTTTTTTTTACCAAATTTA
18306467 AAATTTTTTTATTAACCAAATTTA
1 AAATTTTTTT-TT-ACCAAATTTA
18306491 AAATTT
1 AAATTT
18306497 AAATATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 10 0.37
23 2 0.07
24 15 0.56
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATTTTTTTTTACCAAATTTA
Found at i:18306503 original size:24 final size:24
Alignment explanation
Indices: 18306457--18306505 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18306447 ATTTTTTTTT
* ***
18306457 ACCAACTTTAAAATTTTTTTATTA
1 ACCAAATTTAAAATTTAAATATTA
18306481 ACCAAATTTAAAATTTAAATATTA
1 ACCAAATTTAAAATTTAAATATTA
18306505 A
1 A
18306506 AATTTAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (24 bp):
ACCAAATTTAAAATTTAAATATTA
Found at i:18306507 original size:14 final size:13
Alignment explanation
Indices: 18306484--18306518 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
18306474 TTTATTAACC
18306484 AAATTTAAAATTT
1 AAATTTAAAATTT
18306497 AAATATTAAAATTT
1 AAAT-TTAAAATTT
*
18306511 AATTTTAA
1 AAATTTAA
18306519 GTAAGGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:18306868 original size:26 final size:26
Alignment explanation
Indices: 18306838--18306891 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
18306828 CTCAAACTAG
18306838 AATCTAGATATCAAATTGGTCTCTAT
1 AATCTAGATATCAAATTGGTCTCTAT
* *
18306864 AATCTAGATTTTAAATTGGTCTCTAT
1 AATCTAGATATCAAATTGGTCTCTAT
18306890 AA
1 AA
18306892 ATTTTGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (26 bp):
AATCTAGATATCAAATTGGTCTCTAT
Found at i:18307248 original size:155 final size:156
Alignment explanation
Indices: 18306959--18307269 Score: 615
Period size: 155 Copynumber: 2.0 Consensus size: 156
18306949 TAATATCCGA
18306959 TTATTCTTTTTTCTTCCAATTATAACTTATAATGTGATTCTTTTTTCTTCCAATTATAAATATAT
1 TTATTCTTTTTTCTTCCAATTATAACTTATAATGTGATTCTTTTTTCTTCCAATTATAAATATAT
18307024 TAATATTTATTGAAGTATTGGTACAAAGAAAGTAGTTTAATTTCTCAATAAATTATTAATGCAAT
66 TAATATTTATTGAAGTATTGGTACAAAGAAAGTAGTTTAATTTCTCAATAAATTATTAATGCAAT
18307089 TATAATTAGCTTGATATGTATGTATG
131 TATAATTAGCTTGATATGTATGTATG
18307115 TTATTC-TTTTTCTTCCAATTATAACTTATAATGTGATTCTTTTTTCTTCCAATTATAAATATAT
1 TTATTCTTTTTTCTTCCAATTATAACTTATAATGTGATTCTTTTTTCTTCCAATTATAAATATAT
18307179 TAATATTTATTGAAGTATTGGTACAAAGAAAGTAGTTTAATTTCTCAATAAATTATTAATGCAAT
66 TAATATTTATTGAAGTATTGGTACAAAGAAAGTAGTTTAATTTCTCAATAAATTATTAATGCAAT
18307244 TATAATTAGCTTGATATGTATGTATG
131 TATAATTAGCTTGATATGTATGTATG
18307270 CACTTTAGTC
Statistics
Matches: 155, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
155 149 0.96
156 6 0.04
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (156 bp):
TTATTCTTTTTTCTTCCAATTATAACTTATAATGTGATTCTTTTTTCTTCCAATTATAAATATAT
TAATATTTATTGAAGTATTGGTACAAAGAAAGTAGTTTAATTTCTCAATAAATTATTAATGCAAT
TATAATTAGCTTGATATGTATGTATG
Found at i:18309816 original size:22 final size:24
Alignment explanation
Indices: 18309766--18309816 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
18309756 TTGCAATGCT
18309766 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
18309791 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
18309812 TTTAT
1 TTTAT
18309817 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:18309993 original size:14 final size:15
Alignment explanation
Indices: 18309971--18310047 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
18309961 CAATCAAACA
18309971 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
18309985 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
18310000 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
18310020 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
18310034 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
18310048 ACTGCCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:18310012 original size:20 final size:20
Alignment explanation
Indices: 18309987--18310026 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18309977 AATATTTTCC
*
18309987 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
18310007 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
18310027 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:18310032 original size:34 final size:35
Alignment explanation
Indices: 18309975--18310041 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
18309965 CAAACACCAG
*
18309975 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
18310010 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
18310042 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:18310048 original size:14 final size:14
Alignment explanation
Indices: 18310010--18310049 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18310000 ACAGAAAAGT
*
18310010 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
18310024 AAATCATTTTACGG
1 AAAACATTTTACAG
18310038 AAAACATTTTAC
1 AAAACATTTTAC
18310050 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:18310150 original size:64 final size:64
Alignment explanation
Indices: 18310077--18310200 Score: 248
Period size: 64 Copynumber: 1.9 Consensus size: 64
18310067 CTAAATATTC
18310077 AAAGATATGTTCAATTTTTTATATTTAAAAATTTCATGAAATAAACAATATAAATAATTAATTA
1 AAAGATATGTTCAATTTTTTATATTTAAAAATTTCATGAAATAAACAATATAAATAATTAATTA
18310141 AAAGATATGTTCAATTTTTTATATTTAAAAATTTCATGAAATAAACAATATAAATAATTA
1 AAAGATATGTTCAATTTTTTATATTTAAAAATTTCATGAAATAAACAATATAAATAATTA
18310201 TATTCTGAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (64 bp):
AAAGATATGTTCAATTTTTTATATTTAAAAATTTCATGAAATAAACAATATAAATAATTAATTA
Found at i:18313045 original size:15 final size:15
Alignment explanation
Indices: 18313027--18313055 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18313017 TTCCCCCTCG
18313027 TCATCTTCATCATCT
1 TCATCTTCATCATCT
18313042 TCATCTTCATCATC
1 TCATCTTCATCATC
18313056 ATTTTCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.34, G:0.00, T:0.45
Consensus pattern (15 bp):
TCATCTTCATCATCT
Found at i:18315158 original size:31 final size:31
Alignment explanation
Indices: 18315122--18315202 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
18315112 CAAAACTTTC
* * * *
18315122 AAAGTGCTCAAATACGAGCCA-ACAGTTTTTG
1 AAAGTGTTCAAATAAGAGCCACAC-CTTTTTA
* *
18315153 AAAGTGTTCTAGTAAGAGCCACACCTTTTTA
1 AAAGTGTTCAAATAAGAGCCACACCTTTTTA
18315184 AAAGTGTTCAAATAAGAGC
1 AAAGTGTTCAAATAAGAGC
18315203 TTCTCAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 39 0.95
32 2 0.05
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (31 bp):
AAAGTGTTCAAATAAGAGCCACACCTTTTTA
Found at i:18315573 original size:44 final size:44
Alignment explanation
Indices: 18315525--18315612 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
18315515 ATGAATATGC
*
18315525 CTAATAAGCAATAATGATATAAAATAGCTTACATGATAACTTTT
1 CTAATAAGCAATAATGATATAAAATAGCTTACATGATAAATTTT
* *
18315569 CTAATAAGTAATAATGATATAAAATAGCTTATATGATAAATTTT
1 CTAATAAGCAATAATGATATAAAATAGCTTACATGATAAATTTT
18315613 AGAAGGTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (44 bp):
CTAATAAGCAATAATGATATAAAATAGCTTACATGATAAATTTT
Found at i:18318660 original size:46 final size:45
Alignment explanation
Indices: 18318557--18318756 Score: 301
Period size: 46 Copynumber: 4.6 Consensus size: 45
18318547 TACGTATGAT
* *
18318557 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
18318600 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
18318646 CACTTATCACTTTGTCACTTGATCAGATAA--G-AG----GCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
18318684 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
18318730 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
18318757 AGTACTCAAA
Statistics
Matches: 144, Mismatches: 2, Indels: 19
0.87 0.01 0.12
Matches are distributed among these distances:
38 35 0.24
40 1 0.01
41 2 0.01
43 12 0.08
44 6 0.04
45 20 0.14
46 68 0.47
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:18318688 original size:84 final size:84
Alignment explanation
Indices: 18318593--18318756 Score: 328
Period size: 84 Copynumber: 2.0 Consensus size: 84
18318583 AAGTGTAGCT
18318593 AGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
1 AGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
18318658 TGTCACTTGATCAGATAAG
66 TGTCACTTGATCAGATAAG
18318677 AGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
1 AGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
18318742 TGTCACTTGATCAGA
66 TGTCACTTGATCAGA
18318757 AGTACTCAAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (84 bp):
AGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
TGTCACTTGATCAGATAAG
Found at i:18320345 original size:44 final size:44
Alignment explanation
Indices: 18320220--18320354 Score: 121
Period size: 44 Copynumber: 3.1 Consensus size: 44
18320210 GATCAGTGAT
*
18320220 GATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAA
1 GATAACAGATCTTGCCTTCCTG-ATAGACAGTGAAGCAGATCGAA
* * * * * * * * *
18320265 GACACCA-ACCTCGCCTCCCTCG-GAGACAGTGGAGCAGGTTGAA
1 GATAACAGATCTTGCCTTCCT-GATAGACAGTGAAGCAGATCGAA
* * *
18320308 GATAGCAGATCTTGCCTTCCTGATAGACAGCGAAGCAGATCAAA
1 GATAACAGATCTTGCCTTCCTGATAGACAGTGAAGCAGATCGAA
18320352 GAT
1 GAT
18320355 GAAGGATTTT
Statistics
Matches: 66, Mismatches: 21, Indels: 7
0.70 0.22 0.07
Matches are distributed among these distances:
43 22 0.33
44 38 0.58
45 6 0.09
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.19
Consensus pattern (44 bp):
GATAACAGATCTTGCCTTCCTGATAGACAGTGAAGCAGATCGAA
Found at i:18320497 original size:132 final size:131
Alignment explanation
Indices: 18320341--18320837 Score: 551
Period size: 132 Copynumber: 3.8 Consensus size: 131
18320331 TAGACAGCGA
* *
18320341 AGCAGATCAAAGATGAAGG-ATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGCAA
1 AGCAGATCGAAGATG--GGAATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAA
* * * *
18320405 TTCTACTTTCCTGGGCAGCAGCGGAATAGATTGAAGATTTCAGATCTTCCCTCCCTAAGCAGTAG
64 TTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAG
18320470 TGG
129 TGG
* * * *
18320473 AGCAGATTGAAGATGGTGAATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAATAAT
1 AGCAGATCGAAGATGG-GAATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAAT
* * * * *
18320538 TCTACTTCCCTGAGCAGTGGTGGAATAGACTGAAGATTTTAGATCTTGCCTTCCT--GCA-TAGA
65 TCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAG-
*
18320600 CAGCG
129 -TG-G
* * * * * *
18320605 AAGAAGATCGAAGACGGCAGATTTTACCTCTCTG-TGATTACAGTGGAGTACATTGAAGCCAGTA
1 -AGCAGATCGAAGATGGGA-ATTTTACCTCCCTGAAG-TTGCAGTGGAGTACATTGAAGCCAGTA
18320669 ATTCTA-TCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGT
63 ATTCTACT-TCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGT
18320733 AGTGG
127 AGTGG
* * * *
18320738 AGCAGATCGAATATGGCGGATTTTACCTCCTTGAAGTTGCA-TGGAGTACATTGAAGCCAGAAAT
1 AGCAGATCGAAGATGG-GAATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAAT
* ** *
18320802 TTTACTT-CCTTAGCAGTGCAGTGGAACAGATTGAAG
65 TCTACTTCCCTGGGCAGT--AGTGGAATAGATTGAAG
18320838 CTACGACGGC
Statistics
Matches: 303, Mismatches: 45, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
129 3 0.01
130 12 0.04
131 28 0.09
132 151 0.50
133 102 0.34
134 1 0.00
135 3 0.01
136 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (131 bp):
AGCAGATCGAAGATGGGAATTTTACCTCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATT
CTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTG
G
Found at i:18320922 original size:100 final size:100
Alignment explanation
Indices: 18320803--18321288 Score: 785
Period size: 100 Copynumber: 4.8 Consensus size: 100
18320793 GCCAGAAATT
18320803 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
**
18320868 TGCAATTAAAAAGATTGAAGCCACAACGGTAGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * * *
18320903 TTATTTCGTTAGCAGTGCAGTGGAACAGATTGAAGCTATGACGGCGGATCTGGGTTTCCCTGATG
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCT-GGTTTCCCTGATA
18320968 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
65 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
18321004 TTACTTCCTTAACAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCTTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
*
18321069 TGCAATTAAAAAGATTGAAGCCACAAAGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * *
18321104 TTACTTCCCT-GACGGTGCGGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
1 TTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATA
*
18321168 TTGTAATTAAAAAGATTGAAGCCACAACGGCGGATC
65 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
18321204 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
* * *
18321269 TACAATTGAATAGATTGAAG
66 TGCAATTAAAAAGATTGAAG
18321289 ATTTTAGACC
Statistics
Matches: 354, Mismatches: 29, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
100 260 0.73
101 94 0.27
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (100 bp):
TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
Found at i:18321284 original size:50 final size:50
Alignment explanation
Indices: 18320829--18321288 Score: 339
Period size: 50 Copynumber: 9.2 Consensus size: 50
18320819 GCAGTGGAAC
* *
18320829 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAATTGAAA
* * ** ** * * * * * *
18320879 AGATTGAAGCCACAACGGTAGATCTTATTT-CGTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAATTGAAA
* ** *
18320929 AGATTGAAGCTATGACGGCGGATCTGGGTTTCCCTGATGTTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCT-GGTTTCCCTGACATTGCAATTGAAA
* * *** * * * * * *
18320980 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAGTGGAAC
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAATTGAAA
* * *
18321030 AGATTGAAGCTACGACGGCGGATCTGGTTTCCTTGATATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAATTGAAA
* * * *** ** ** * *
18321080 AGATTGAAGCCACAAAGGCGGATCTTACTTCCCTGACGGTGCGGTGGAAC
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAATTGAAA
* * *
18321130 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGTAATTAAAA
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAATTGAAA
* * *** * * * * *
18321180 AGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-CATTGCAATTGAAA
* * *
18321230 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTACAATTGAAT
1 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAATTGAAA
18321280 AGATTGAAG
1 AGATTGAAG
18321289 ATTTTAGACC
Statistics
Matches: 293, Mismatches: 112, Indels: 10
0.71 0.27 0.02
Matches are distributed among these distances:
49 7 0.02
50 248 0.85
51 35 0.12
52 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGACATTGCAATTGAAA
Found at i:18321366 original size:85 final size:85
Alignment explanation
Indices: 18321218--18321385 Score: 327
Period size: 85 Copynumber: 2.0 Consensus size: 85
18321208 TTCCTTAGCA
18321218 GTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTACAATTGAATAGA
1 GTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTACAATTGAATAGA
18321283 TTGAAGATTTTAGACCTTCG
66 TTGAAGATTTTAGACCTTCG
*
18321303 GTGCGGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTACAATTGAATAGA
1 GTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTACAATTGAATAGA
18321368 TTGAAGATTTTAGACCTT
66 TTGAAGATTTTAGACCTT
18321386 ATCTCCTTAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (85 bp):
GTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTACAATTGAATAGA
TTGAAGATTTTAGACCTTCG
Found at i:18321584 original size:133 final size:133
Alignment explanation
Indices: 18321431--18321983 Score: 711
Period size: 133 Copynumber: 4.2 Consensus size: 133
18321421 CCAGTCTTAT
* *
18321431 CTCCCTGAAGTTGCAGTGGAGTACATTGAAGCTAGAAATTCTACTTCCCTGGTCAGCAGTGGAAT
1 CTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGTCAGCAGTGGAAT
*
18321496 AGATTAAAGATTTCAGATCTTGCCTTCCTGCATAAACAGCGAAGCAGATCAAAGATGGTGAATTT
66 AGATTAAAGATTTCAGATCTTGCCTTCCTGCATAAACAGCGGAGCAGATCAAAGATGGTGAATTT
18321561 TAC
131 TAC
* *
18321564 CTCCCTGAGGTTGCAGTGGAGTACATTGAAGCTAGAAATTCTACTTCCCTAGTCAGCAGTGGAAT
1 CTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGTCAGCAGTGGAAT
*
18321629 AGATTAAAGATTTCAGATCTTGCCTTCCTGCATAGACAGCGGAGCAGATCAAAGATGGTGAATTT
66 AGATTAAAGATTTCAGATCTTGCCTTCCTGCATAAACAGCGGAGCAGATCAAAGATGGTGAATTT
18321694 TAC
131 TAC
* *
18321697 CTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCACAAATTCTACTTCCTTGGTCAGCAGTGGAAT
1 CTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGTCAGCAGTGGAAT
* * * * ** * *
18321762 AGATTAAAAGATTTTAGATATTGTC-TCC-CCA-AGCAGTAGTGGAGCAGATCAAAGATGATGAA
66 AGATT-AAAGATTTCAGATCTTGCCTTCCTGCATA--AACAGCGGAGCAGATCAAAGATGGTGAA
18321824 TTTTAC
128 TTTTAC
* * * * * **
18321830 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGGTAATTCTACTTCCCTGGGCAGCAG-CAAAT
1 CTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGTCAGCAGTGGAAT
* * * * ** ** * * * *
18321894 AGATTGAAGATTTCAGATCTTGTCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
66 AGATTAAAGATTTCAGATCTTGCCTTCCTGCATAAACAGCGGAGCAGATCAAAGATGGTGAATTT
18321958 TAC
131 TAC
* *
18321961 CTCCCTAAGGTTACAGTGGAGTA
1 CTCCCTGAGGTTGCAGTGGAGTA
18321984 TGTTAAAGCC
Statistics
Matches: 376, Mismatches: 38, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
131 68 0.18
132 13 0.03
133 279 0.74
134 16 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (133 bp):
CTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGAAATTCTACTTCCCTGGTCAGCAGTGGAAT
AGATTAAAGATTTCAGATCTTGCCTTCCTGCATAAACAGCGGAGCAGATCAAAGATGGTGAATTT
TAC
Found at i:18323795 original size:16 final size:16
Alignment explanation
Indices: 18323762--18323795 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18323752 TATTGTACAT
**
18323762 ATATATATGTATTTGA
1 ATATATATGTATGCGA
18323778 ATATATATGTATGCGA
1 ATATATATGTATGCGA
18323794 AT
1 AT
18323796 TTTCACGATT
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:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (16 bp):
ATATATATGTATGCGA
Found at i:18328176 original size:24 final size:24
Alignment explanation
Indices: 18328128--18328210 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
18328118 AAAATAATAT
* *
18328128 ATGATAAATCT-AAATAATGAT--
1 ATGATAAATTTAAAATTATGATAC
*
18328149 ATGATAAGTTTAAAATTAT-AGTAC
1 ATGATAAATTTAAAATTATGA-TAC
* *
18328173 ATGATAAATTTTAAATTATGATAT
1 ATGATAAATTTAAAATTATGATAC
18328197 ATGATAAATTTAAA
1 ATGATAAATTTAAA
18328211 TAGTACTTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
21 10 0.20
22 7 0.14
24 32 0.64
25 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (24 bp):
ATGATAAATTTAAAATTATGATAC
Found at i:18328224 original size:22 final size:21
Alignment explanation
Indices: 18328196--18328272 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
18328186 AATTATGATA
18328196 TATGATAAATTTAAATAGTACT
1 TATGAT-AATTTAAATAGTACT
18328218 TATGATAATTTAAAATAGTA--
1 TATGATAATTT-AAATAGTACT
* **
18328238 TATGAT-ATTAAAATAAAACT
1 TATGATAATTTAAATAGTACT
*
18328258 AATGATAAATTTAAA
1 TATGAT-AATTTAAA
18328273 ACAATGTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.13
19 3 0.07
20 11 0.24
21 5 0.11
22 20 0.44
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.38
Consensus pattern (21 bp):
TATGATAATTTAAATAGTACT
Found at i:18329735 original size:14 final size:14
Alignment explanation
Indices: 18329699--18329737 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
18329689 CGTATTTGGC
18329699 TTTATATTTTTTTAT
1 TTTAT-TTTTTTTAT
18329714 TTGT-TTTTTTTTAT
1 TT-TATTTTTTTTAT
18329728 TTTATTTTTT
1 TTTATTTTTT
18329738 GAAATGTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 1 0.05
14 17 0.77
15 3 0.14
16 1 0.05
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.85
Consensus pattern (14 bp):
TTTATTTTTTTTAT
Found at i:18333560 original size:26 final size:24
Alignment explanation
Indices: 18333510--18333560 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
18333500 GATTGGTTAA
* *
18333510 AATATTTTATTAATATTTTTTCAT
1 AATATTTTATTAAGATTTTTGCAT
18333534 AATATTTTATTATAAGATTTTTGCAT
1 AATATTTTA-T-TAAGATTTTTGCAT
18333560 A
1 A
18333561 GAAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
AATATTTTATTAAGATTTTTGCAT
Found at i:18338993 original size:24 final size:25
Alignment explanation
Indices: 18338950--18338996 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
18338940 AGTTCAGATA
18338950 ATTTCACTTCACTTCGATTCAATTC
1 ATTTCACTTCACTTCGATTCAATTC
**
18338975 ATTTCA-TTCACTTTTATTCAAT
1 ATTTCACTTCACTTCGATTCAAT
18338997 GCAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (25 bp):
ATTTCACTTCACTTCGATTCAATTC
Found at i:18339038 original size:14 final size:14
Alignment explanation
Indices: 18339019--18339047 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18339009 TACTCACCTC
18339019 AATTTCACTTACCA
1 AATTTCACTTACCA
18339033 AATTTCACTTACCA
1 AATTTCACTTACCA
18339047 A
1 A
18339048 GTACTTTAAT
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:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTTCACTTACCA
Found at i:18340068 original size:3 final size:3
Alignment explanation
Indices: 18340060--18340095 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
18340050 TTTATTTCAC
18340060 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18340096 TCAAATTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18340830 original size:32 final size:32
Alignment explanation
Indices: 18340771--18340832 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
18340761 TTAATCGGTC
* * *
18340771 TGAGTTATAAAATTGAATTAATTAATTTATCA
1 TGAGTTATAAAATTCAAGTAATCAATTTATCA
* *
18340803 TGAGTTATTAAGTTCAAGTAATCAATTTAT
1 TGAGTTATAAAATTCAAGTAATCAATTTAT
18340833 AAGTTTATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (32 bp):
TGAGTTATAAAATTCAAGTAATCAATTTATCA
Found at i:18348374 original size:7 final size:7
Alignment explanation
Indices: 18348364--18348396 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
18348354 ATGCATGATG
18348364 TTTTT-T
1 TTTTTCT
18348370 TTTTT-T
1 TTTTTCT
18348376 TTTTTCT
1 TTTTTCT
18348383 TTTTTCT
1 TTTTTCT
18348390 TTTTTCT
1 TTTTTCT
18348397 CTCAAATGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 11 0.42
7 15 0.58
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTCT
Found at i:18354866 original size:18 final size:18
Alignment explanation
Indices: 18354845--18354885 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
18354835 ACCAAAACAA
* *
18354845 ACAAACTAAAGAAAATAG
1 ACAAACGAAACAAAATAG
18354863 ACAAACGAAACAAAATAG
1 ACAAACGAAACAAAATAG
18354881 ACAAA
1 ACAAA
18354886 AAATCTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.15, G:0.10, T:0.07
Consensus pattern (18 bp):
ACAAACGAAACAAAATAG
Found at i:18365484 original size:68 final size:68
Alignment explanation
Indices: 18365368--18365546 Score: 225
Period size: 68 Copynumber: 2.6 Consensus size: 68
18365358 TTTTCCACTT
* * *
18365368 TGGCGGACTTCATTTGTTACCATAGCCTAGCTATGG-CATTACATAATATAAACTCATGTTTACT
1 TGGCGGACTTCATATGTTACCATAGCCTAGCTATGGTC-TTACACAATATAAACCCATGTTTACT
18365432 ATCC
65 ATCC
* * * *
18365436 TGGCAGACTTCATATGTTACCATAGCCTAGCTATGGTCTTACCCAATATAAACCCATGTTTATTG
1 TGGCGGACTTCATATGTTACCATAGCCTAGCTATGGTCTTACACAATATAAACCCATGTTTACTA
*
18365501 TCT
66 TCC
* * * **
18365504 TTGTGGACTCCATATGTTGTCATAGCCTAGCTATGGTCTTACA
1 TGGCGGACTTCATATGTTACCATAGCCTAGCTATGGTCTTACA
18365547 TATTAAACCT
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
68 94 0.99
69 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (68 bp):
TGGCGGACTTCATATGTTACCATAGCCTAGCTATGGTCTTACACAATATAAACCCATGTTTACTA
TCC
Found at i:18366684 original size:16 final size:16
Alignment explanation
Indices: 18366663--18366694 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18366653 TAAATTAATC
*
18366663 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
18366679 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
18366695 CAACCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:18373541 original size:19 final size:20
Alignment explanation
Indices: 18373499--18373541 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
18373489 TCATGCTTTC
*
18373499 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
18373519 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
18373537 TATTC
1 TATTC
18373542 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:18373742 original size:38 final size:36
Alignment explanation
Indices: 18373670--18373760 Score: 85
Period size: 38 Copynumber: 2.4 Consensus size: 36
18373660 ACCAGATTGT
*
18373670 CACCCAGTTCCTCATCGGATAGTTTGAAGCAAAGTTGA
1 CACCCAGTT-CTCATCGGATAGTCTGAAGCAAAG-TGA
* *
18373708 CACCCAGTGTCTCATCGGCCTAGTCT-AAGTAAAGTGA
1 CACCCAGT-TCTCATCGG-ATAGTCTGAAGCAAAGTGA
* *
18373745 TACCTAGTATCTCATC
1 CACCCAGT-TCTCATC
18373761 AAATCTATCC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 16 0.36
38 23 0.51
39 6 0.13
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (36 bp):
CACCCAGTTCTCATCGGATAGTCTGAAGCAAAGTGA
Found at i:18374537 original size:37 final size:37
Alignment explanation
Indices: 18374495--18374568 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
18374485 TCAAATAAAC
*
18374495 CCCCTAATTCAATCATTTATTCCACATGAACCCTACT
1 CCCCTAATTCAATCATTTATTCAACATGAACCCTACT
18374532 CCCCTAATTCAATCATTTATTCAACATGAACCCTACT
1 CCCCTAATTCAATCATTTATTCAACATGAACCCTACT
18374569 AAAAAATCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.31, C:0.34, G:0.03, T:0.32
Consensus pattern (37 bp):
CCCCTAATTCAATCATTTATTCAACATGAACCCTACT
Found at i:18374771 original size:26 final size:25
Alignment explanation
Indices: 18374707--18374772 Score: 61
Period size: 26 Copynumber: 2.8 Consensus size: 25
18374697 ACCCTATTTC
18374707 TCGTTTCTTTC---TTT-TCCTTTT
1 TCGTTTCTTTCTTGTTTCTCCTTTT
* *
18374728 TCTTTTCTTTCTTTTTTCTCCTTGTT
1 TCGTTTCTTTCTTGTTTCTCCTT-TT
18374754 TCGTTTCTATT-TTGTTTCT
1 TCGTTTCT-TTCTTGTTTCT
18374773 TTTTATGCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
21 10 0.28
24 3 0.08
25 5 0.14
26 16 0.44
27 2 0.06
ACGTcount: A:0.02, C:0.21, G:0.06, T:0.71
Consensus pattern (25 bp):
TCGTTTCTTTCTTGTTTCTCCTTTT
Found at i:18381607 original size:36 final size:37
Alignment explanation
Indices: 18381567--18381659 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
18381557 GAGTACTAAG
* * *
18381567 TAATCCAACCGA-AACACGCCAAATGCTCATGAGAGC
1 TAATCCAACCGATAACACGCCAAACGATCATAAGAGC
*
18381603 TAATCCAACTGATAACACGCCAAACGATCATAAGAGC
1 TAATCCAACCGATAACACGCCAAACGATCATAAGAGC
* *
18381640 TAATCCAACCAATAGCACGC
1 TAATCCAACCGATAACACGC
18381660 TTCAGCACTA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 11 0.22
37 38 0.78
ACGTcount: A:0.41, C:0.30, G:0.14, T:0.15
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAACGATCATAAGAGC
Found at i:18385581 original size:14 final size:14
Alignment explanation
Indices: 18385553--18385592 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
18385543 ACATTTACAT
*
18385553 ATATATATATATTTA
1 ATATA-ATATTTTTA
*
18385568 TTATAATATTTTTA
1 ATATAATATTTTTA
18385582 ATATAATATTT
1 ATATAATATTT
18385593 CAAGTCCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATAATATTTTTA
Found at i:18393331 original size:15 final size:15
Alignment explanation
Indices: 18393311--18393342 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18393301 CCATCCCCTT
18393311 AGAGGAGGATCTTTC
1 AGAGGAGGATCTTTC
18393326 AGAGGAGGATCTTTC
1 AGAGGAGGATCTTTC
18393341 AG
1 AG
18393343 CTGATCGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.34, T:0.25
Consensus pattern (15 bp):
AGAGGAGGATCTTTC
Found at i:18397749 original size:47 final size:46
Alignment explanation
Indices: 18397697--18397791 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 46
18397687 GTGATTTAAC
*
18397697 CACATTTCTGTTATGGCAGCTTGACTGCAGTTATAGTGGCTCGACCA
1 CACATTTCTGTTATGGCAGCTTGACTGCA-ATATAGTGGCTCGACCA
* * *
18397744 CACATTTCTGTTTTGGCAGCTTGGCTGCAATATAGTGGCTTGACCA
1 CACATTTCTGTTATGGCAGCTTGACTGCAATATAGTGGCTCGACCA
18397790 CA
1 CA
18397792 TATATATGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 17 0.39
47 27 0.61
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (46 bp):
CACATTTCTGTTATGGCAGCTTGACTGCAATATAGTGGCTCGACCA
Found at i:18399873 original size:23 final size:22
Alignment explanation
Indices: 18399823--18399873 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
18399813 ATAAAATTAG
18399823 ATTTTAGATTTTTATTTTTAAA
1 ATTTTAGATTTTTATTTTTAAA
* * *
18399845 AATTTAGTTTTTCTATTTTTCAA
1 ATTTTAGATTTT-TATTTTTAAA
*
18399868 TTTTTA
1 ATTTTA
18399874 AAATTTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (22 bp):
ATTTTAGATTTTTATTTTTAAA
Found at i:18405306 original size:47 final size:47
Alignment explanation
Indices: 18405208--18405298 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
18405198 CGGTTTAAAA
*
18405208 AAATAAGTTTGCAAAAGTATAGACAAAGCTCAATTACGGTTTCAGGC
1 AAATGAGTTTGCAAAAGTATAGACAAAGCTCAATTACGGTTTCAGGC
* * * *
18405255 AAATGAGTTTGCAAGATTGTAGACAAAGCTTAATTACGGTTTCA
1 AAATGAGTTTGCAAAAGTATAGACAAAGCTCAATTACGGTTTCA
18405299 ATGAAATGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (47 bp):
AAATGAGTTTGCAAAAGTATAGACAAAGCTCAATTACGGTTTCAGGC
Found at i:18405818 original size:17 final size:17
Alignment explanation
Indices: 18405796--18405828 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18405786 AATTTTTCTG
*
18405796 AACAAATTAGTTAATAA
1 AACAAATTAATTAATAA
18405813 AACAAATTAATTAATA
1 AACAAATTAATTAATA
18405829 TACTTTGTAT
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:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (17 bp):
AACAAATTAATTAATAA
Found at i:18411319 original size:16 final size:15
Alignment explanation
Indices: 18411294--18411339 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
18411284 TTTAACAAAG
*
18411294 AAGAAGAAGAAAAGAA
1 AAGAAAAAGAAAA-AA
*
18411310 AAGAAAAAGAAAAAG
1 AAGAAAAAGAAAAAA
18411325 AAGAAAAAGAAAAAA
1 AAGAAAAAGAAAAAA
18411340 GGAGAGACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAAAAA
Found at i:18411340 original size:22 final size:22
Alignment explanation
Indices: 18411294--18411338 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
18411284 TTTAACAAAG
*
18411294 AAGAAGAAGAAAAGAAAAGAAA
1 AAGAAAAAGAAAAGAAAAGAAA
*
18411316 AAGAAAAAGAAGA-AAAAGAAA
1 AAGAAAAAGAAAAGAAAAGAAA
18411337 AA
1 AA
18411339 AGGAGAGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AAGAAAAAGAAAAGAAAAGAAA
Found at i:18412303 original size:24 final size:24
Alignment explanation
Indices: 18412271--18412331 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
18412261 TTTATGTCCC
18412271 AAAATTACAGTGGATTGAACCTTG
1 AAAATTACAGTGGATTGAACCTTG
*
18412295 AAAATTACAGTGGATTGGACCTTG
1 AAAATTACAGTGGATTGAACCTTG
*
18412319 AAGATTACAGTGG
1 AAAATTACAGTGG
18412332 GGGCAATCCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (24 bp):
AAAATTACAGTGGATTGAACCTTG
Found at i:18412774 original size:88 final size:88
Alignment explanation
Indices: 18412638--18413101 Score: 669
Period size: 88 Copynumber: 5.3 Consensus size: 88
18412628 ATGGATTGAA
* *
18412638 GAAGATTGTAGATCTTGTTTTCCTGTACTGGCAATGAAGTAGATCGAAAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
* *
18412703 CCTGAGCAGCAGTGGAGTAGGTT
66 CCTAAGTAGCAGTGGAGTAGGTT
* *
18412726 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACTAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
*
18412791 CCTAAGTAGTAGTGGAGTAGGTT
66 CCTAAGTAGCAGTGGAGTAGGTT
* * *
18412814 GAAGATTGTAGATCTTGTCTTCTTGTATTGGTAGTGAAGTAGATC-AATAACACCAGCCTTATCT
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAA-AACACCAGCCTTATCT
* * * * *
18412878 CCTTGAGCAACAGTGGAATAGGTT
65 CCCTAAGTAGCAGTGGAGTAGGTT
* * * *
18412902 GAAGATTGTAGATCTTATCTTCCTATACTGGCAGTGAAGTAAATCGAAAACACCAGCATTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
*
18412967 CCTAAGTAACAGTGGAGTAGGTT
66 CCTAAGTAGCAGTGGAGTAGGTT
* * * *
18412990 GAAGATTGTAGATCTTGTCTTCCTATACTGGCAGTAAAGCAGATCGAAAACACCAGCCCTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
* *
18413055 CCTAAGTAGCAGTAGAGTAGGTC
66 CCTAAGTAGCAGTGGAGTAGGTT
*
18413078 GAAGATTGTAGATCCTGTCTTCCT
1 GAAGATTGTAGATCTTGTCTTCCT
18413102 AAGCAGTAGT
Statistics
Matches: 335, Mismatches: 39, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
87 2 0.01
88 331 0.99
89 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (88 bp):
GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
CCTAAGTAGCAGTGGAGTAGGTT
Found at i:18413267 original size:132 final size:131
Alignment explanation
Indices: 18413040--18413276 Score: 323
Period size: 132 Copynumber: 1.8 Consensus size: 131
18413030 AGATCGAAAA
* * * * *
18413040 CACCAGCCCTATCTCCCTAAGTAGCAGTAGAGTAGGTCGAAGATTGTAGATCCTGTCTTCCTAAG
1 CACCAGCCCTATCTCCCTAAGCAGCAGTAGAGTAGGTCAAAAATTGTAGATCCTGCCTCCCTAAG
* **
18413105 CAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCATATTTAA
66 CAGTAGTAGAGCAGATCAAAGATCATGAATCTTAT-TTCCCAAGGTAGTAGGGAAGCATATTTAA
18413170 GC
130 GC
* * * * *
18413172 CACCAGTCCTATCTCCTTGAGCAGCAGTGGAGTAGGTTAAAAATTGTAGATCCTGCCTCCCTAAG
1 CACCAGCCCTATCTCCCTAAGCAGCAGTAGAGTAGGTCAAAAATTGTAGATCCTGCCTCCCTAAG
*
18413237 CAGTAGTAGAGCAGATCGAAGA-CATCGAATCTTATTTCCC
66 CAGTAGTAGAGCAGATCAAAGATCAT-GAATCTTATTTCCC
18413277 TGACTTTACA
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
131 6 0.07
132 84 0.93
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (131 bp):
CACCAGCCCTATCTCCCTAAGCAGCAGTAGAGTAGGTCAAAAATTGTAGATCCTGCCTCCCTAAG
CAGTAGTAGAGCAGATCAAAGATCATGAATCTTATTTCCCAAGGTAGTAGGGAAGCATATTTAAG
C
Found at i:18413964 original size:45 final size:45
Alignment explanation
Indices: 18413911--18414029 Score: 154
Period size: 45 Copynumber: 2.7 Consensus size: 45
18413901 CATAATAAGT
18413911 CTTATCTCCCTGAAGTTATAGTGGAACAGA-CTAAAGATAACCAAC
1 CTTATCTCCCTGAAGTTATAGTGGAACAGAGCTAAAGAT-ACCAAC
* * * *
18413956 CTTATCTCCCTGAAGTTAGAGTGGAACA-AGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTATAGTGGAACAGAGCTAAAGATACCAAC
*
18414000 CTTATCTCCCTGAAGTT-TCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTAT-AGTGGAACAGA
18414030 TTGAAGCTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 31 0.48
45 34 0.52
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTATAGTGGAACAGAGCTAAAGATACCAAC
Found at i:18414013 original size:44 final size:44
Alignment explanation
Indices: 18413910--18414258 Score: 240
Period size: 44 Copynumber: 7.8 Consensus size: 44
18413900 CCATAATAAG
* * *
18413910 TCTTATCTCCCTGAAGTTATAGTGGAACAGACTAAAGATAACCAA
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGAT-ACCAA
* *
18413955 CCTTATCTCCCTGAAGTTAGAGTGGAACA-AGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGA-TTGAAGATACCAA
* * * **
18413999 TCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTGAAGCTATTAA
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGATACCAA
* * * * * *
18414043 TCATATCTCCCTGAAGTTGCAATGGAGCAGATTAAAACGAT--GAA
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGATT-GAA-GATACCAA
* * ** * ** *
18414087 TCCTATAC-CTCTGAAGTTACAATAGGTTGGATTAAATCT-ACCATAACAA
1 TCTTAT-CTCCCTGAAGTTAC---A-G-TGGAACAGAT-TGAAGATACCAA
* * *
18414136 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACCAA
1 -TCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGAT-ACCAA
* * * * *
18414182 CCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGATACCAA
* *
18414226 TCTTATCTCCCTGAAGTTGCAGTGGAACGGATT
1 TCTTATCTCCCTGAAGTTACAGTGGAACAGATT
18414259 AAAACAATGA
Statistics
Matches: 241, Mismatches: 46, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
44 122 0.51
45 81 0.34
46 7 0.03
47 4 0.02
48 1 0.00
49 10 0.04
50 16 0.07
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTACAGTGGAACAGATTGAAGATACCAA
Found at i:18414197 original size:45 final size:44
Alignment explanation
Indices: 18414138--18414251 Score: 183
Period size: 45 Copynumber: 2.6 Consensus size: 44
18414128 CATAACAAGT
18414138 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACCAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT-ACCAAC
* ** *
18414183 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACCAAC
18414227 CTTATCTCCCTGAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
18414252 ACGGATTAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
44 29 0.45
45 35 0.55
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACCAAC
Found at i:18414209 original size:183 final size:182
Alignment explanation
Indices: 18413956--18414287 Score: 479
Period size: 183 Copynumber: 1.8 Consensus size: 182
18413946 GATAACCAAC
* * *
18413956 CTTATCTCCCTGAAGTTAGAGTGGAACAAGTTGAAGATACCAATCTTATCTCCCTGAAGTTTCAG
1 CTTATCTCCCTGAAGTTAGAGTGGAACAAGCTGAAGATACCAACCTTATCTCCCTGAAGTTGCAG
* ** * *
18414021 TGGAGCAGATTGAAGCTATTAATCATATCTCCCTGAAGTTGCAATGGAGCAGATTAAAACGATGA
66 TGGAGCAGATTGAAGATACCAATCATATCTCCCTGAAGTTGCAATGGAACAGATTAAAACAATGA
18414086 ATCCTATACCTCTGAAGTTACAATAGGTTGGATTAAATCTACCATAACAAGT
131 ATCCTATACCTCTGAAGTTACAATAGGTTGGATTAAATCTACCATAACAAGT
* *
18414138 CTTATCTCCCTGAAGTT-GCAGTGGAGC-AGACTGAAGATAACCAACCTTATCTCCTTGAAGTTG
1 CTTATCTCCCTGAAGTTAG-AGTGGAACAAG-CTGAAGAT-ACCAACCTTATCTCCCTGAAGTTG
* * * *
18414201 CAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACAA
63 CAGTGGAGCAGATTGAAGATACCAATCATATCTCCCTGAAGTTGCAATGGAACAGATTAAAACAA
* *
18414266 TGAATCTTATATCTCTGAAGTT
128 TGAATCCTATACCTCTGAAGTT
18414288 GTAGTAGTGG
Statistics
Matches: 131, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
181 3 0.02
182 31 0.24
183 97 0.74
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (182 bp):
CTTATCTCCCTGAAGTTAGAGTGGAACAAGCTGAAGATACCAACCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTGAAGATACCAATCATATCTCCCTGAAGTTGCAATGGAACAGATTAAAACAATGA
ATCCTATACCTCTGAAGTTACAATAGGTTGGATTAAATCTACCATAACAAGT
Found at i:18414272 original size:44 final size:44
Alignment explanation
Indices: 18413863--18414288 Score: 227
Period size: 44 Copynumber: 9.5 Consensus size: 44
18413853 AAGATAGTAG
* * * * * **
18413863 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACACCATAATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACA-ACCA
** * * *
18413908 AGTCTTATCTCCCTGAAGTTATAGTGGAACAGACTAAAGATAACCA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACAACCA
* * * *
18413954 ACCTTATCTCCCTGAAGTTAG-AGTGGAACA-AGTTGAAGA-TACCA
1 ATCTTATCTCCCTGAAGTT-GCAGTGGAGCAGA-TT-AAAACAACCA
* * * * **
18413998 ATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTGAAGCTATTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACCA
* * * **
18414042 ATCATATCTCCCTGAAGTTGCAATGGAGCAGATTAAAACGATGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACCA
* * * * * *
18414086 ATCCTATAC-CTCTGAAGTTACAATAGGTTG--GATTAAATCTACCATAACA
1 ATCTTAT-CTCCCTGAAGTTGCAGT-GG-AGCAGATTAAA---A-CA-ACCA
* * *
18414135 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACCA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAACAACCA
* * * * *
18414181 ACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGA-TACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAACAACCA
* * **
18414225 ATCTTATCTCCCTGAAGTTGCAGTGGAACGGATTAAAACAATGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACCA
* *
18414269 ATCTTATATCTCTGAAGTTG
1 ATCTTATCTCCCTGAAGTTG
18414289 TAGTAGTGGA
Statistics
Matches: 294, Mismatches: 64, Indels: 47
0.73 0.16 0.12
Matches are distributed among these distances:
43 4 0.01
44 153 0.52
45 65 0.22
46 38 0.13
47 3 0.01
48 3 0.01
49 6 0.02
50 19 0.06
51 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACCA
Found at i:18414412 original size:27 final size:27
Alignment explanation
Indices: 18414374--18414430 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
18414364 TATCTCTCTA
* **
18414374 AAGTGCAGTGGAGTGGATCGAAGCAAC
1 AAGTGCAATGGAGTAAATCGAAGCAAC
18414401 AAGTGCAATGGAGTAAATCGAAGCAAC
1 AAGTGCAATGGAGTAAATCGAAGCAAC
18414428 AAG
1 AAG
18414431 ACACAGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.14, G:0.32, T:0.14
Consensus pattern (27 bp):
AAGTGCAATGGAGTAAATCGAAGCAAC
Done.