Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
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: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 37
Found at i:1396 original size:23 final size:22
Alignment explanation
Indices: 1338--1403 Score: 107
Period size: 21 Copynumber: 3.0 Consensus size: 22
1328 TATGGACATC
*
1338 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1360 ATT-TACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1381 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
1404 TTTATACGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 20 0.49
22 6 0.15
23 15 0.37
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.26
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:4532 original size:21 final size:21
Alignment explanation
Indices: 4506--4550 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4496 GATTTCTGGG
* *
4506 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
4527 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
4548 CAA
1 CAA
4551 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:6249 original size:22 final size:23
Alignment explanation
Indices: 6221--6265 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6211 TATGGACATC
6221 ATTCTAC-GGGCACTACGGTGCA
1 ATTCTACGGGGCACTACGGTGCA
*
6243 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTACGGGGCACTACGGTGCA
6266 TTTATACGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (23 bp):
ATTCTACGGGGCACTACGGTGCA
Found at i:6273 original size:23 final size:23
Alignment explanation
Indices: 6228--6273 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6218 ATCATTCTAC
*
6228 GGGCACTACGGTGCAATTCTACG
1 GGGCACTACGGTGCAATTATACG
* *
6251 GGGCACTTCGGTGCATTTATACG
1 GGGCACTACGGTGCAATTATACG
6274 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (23 bp):
GGGCACTACGGTGCAATTATACG
Found at i:11592 original size:18 final size:18
Alignment explanation
Indices: 11569--11646 Score: 102
Period size: 18 Copynumber: 4.2 Consensus size: 18
11559 ATTTTGATTA
11569 TTTTCCTTTGCTTTTAAT
1 TTTTCCTTTGCTTTTAAT
* *
11587 TTTTCCTTTGATTTTGATT
1 TTTTCCTTTGCTTTT-AAT
*
11606 CTTTTCCTTTGCTTTCAAT
1 -TTTTCCTTTGCTTTTAAT
*
11625 TTTTCCTTTGCTTTTGAT
1 TTTTCCTTTGCTTTTAAT
11643 TTTT
1 TTTT
11647 TTCTAATAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
18 34 0.67
19 4 0.08
20 13 0.25
ACGTcount: A:0.09, C:0.17, G:0.08, T:0.67
Consensus pattern (18 bp):
TTTTCCTTTGCTTTTAAT
Found at i:11611 original size:38 final size:38
Alignment explanation
Indices: 11555--11649 Score: 154
Period size: 38 Copynumber: 2.5 Consensus size: 38
11545 TTACTTTACT
*
11555 TTTGATTTTGATTATTTTCCTTTGCTTTTAATTTTTCC
1 TTTGATTTTGATTATTTTCCTTTGCTTTCAATTTTTCC
*
11593 TTTGATTTTGATTCTTTTCCTTTGCTTTCAATTTTTCC
1 TTTGATTTTGATTATTTTCCTTTGCTTTCAATTTTTCC
* *
11631 TTTGCTTTTGATTTTTTTC
1 TTTGATTTTGATTATTTTC
11650 TAATAGTCTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.11, C:0.15, G:0.08, T:0.66
Consensus pattern (38 bp):
TTTGATTTTGATTATTTTCCTTTGCTTTCAATTTTTCC
Found at i:14667 original size:18 final size:18
Alignment explanation
Indices: 14632--14667 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14622 AAAATGGGTA
* *
14632 CATATGTTATATGTATTG
1 CATATGTTACATGAATTG
14650 CATATGTTACATGAATTG
1 CATATGTTACATGAATTG
14668 AATGAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (18 bp):
CATATGTTACATGAATTG
Found at i:21325 original size:15 final size:15
Alignment explanation
Indices: 21305--21335 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21295 CAAAAAATAA
21305 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
21320 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
21335 A
1 A
21336 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:21529 original size:20 final size:20
Alignment explanation
Indices: 21493--21530 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21483 ATCCTATTCC
**
21493 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
21513 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
21531 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:22053 original size:31 final size:31
Alignment explanation
Indices: 22015--22083 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
22005 AAATGTTTAA
22015 ACATTCTGATTTCATCCTTAAATTATAACTT
1 ACATTCTGATTTCATCCTTAAATTATAACTT
22046 ACATTCTGATTTCATCCTTAAATTATAACTT
1 ACATTCTGATTTCATCCTTAAATTATAACTT
22077 ACATTCT
1 ACATTCT
22084 AAATTAGTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.45
Consensus pattern (31 bp):
ACATTCTGATTTCATCCTTAAATTATAACTT
Found at i:22095 original size:31 final size:31
Alignment explanation
Indices: 22015--22098 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
22005 AAATGTTTAA
* *
22015 ACATTCTGATTTCATCCTTAAATTATAACTT
1 ACATTCTAAATTCATCCTTAAATTATAACTT
* *
22046 ACATTCTGATTTCATCCTTAAATTATAACTT
1 ACATTCTAAATTCATCCTTAAATTATAACTT
22077 ACATTCTAAATT-AGTCCTTAAA
1 ACATTCTAAATTCA-TCCTTAAA
22099 ATTTTGAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.43
Consensus pattern (31 bp):
ACATTCTAAATTCATCCTTAAATTATAACTT
Found at i:24912 original size:18 final size:18
Alignment explanation
Indices: 24886--24920 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24876 GGACTGAAGG
* *
24886 AAATGATAAGATCGGATT
1 AAATAATAAGACCGGATT
24904 AAATAATAAGACCGGAT
1 AAATAATAAGACCGGAT
24921 GGAAGTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.09, G:0.20, T:0.23
Consensus pattern (18 bp):
AAATAATAAGACCGGATT
Found at i:26050 original size:12 final size:12
Alignment explanation
Indices: 26012--26103 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 12
26002 ATTTCCGAAT
26012 TGAATTCTGTTC
1 TGAATTCTGTTC
*
26024 TG-ATAC-GTTACC
1 TGAATTCTGTT--C
26036 TGAATTCTGTTC
1 TGAATTCTGTTC
*
26048 TG-ATTCTGATC
1 TGAATTCTGTTC
* *
26059 TGGATTCTGTTA
1 TGAATTCTGTTC
* *
26071 TG-ATATCTGATA
1 TGAAT-TCTGTTC
*
26083 TGAATTCTGTTT
1 TGAATTCTGTTC
*
26095 TGATTTCTG
1 TGAATTCTG
26104 ATATCTCCGT
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
10 3 0.05
11 15 0.23
12 38 0.59
13 5 0.08
14 3 0.05
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:26089 original size:24 final size:23
Alignment explanation
Indices: 26036--26107 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 23
26026 ATACGTTACC
* *
26036 TGAATTCTGTTCTGATTCTGATC
1 TGAATTCTGTTATGATTCTGATA
*
26059 TGGATTCTGTTATGATATCTGATA
1 TGAATTCTGTTATGAT-TCTGATA
*
26083 TGAATTCTGTTTTGATTTCTGATA
1 TGAATTCTGTTATGA-TTCTGATA
26107 T
1 T
26108 CTCCGTTTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 14 0.33
24 27 0.64
25 1 0.02
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.50
Consensus pattern (23 bp):
TGAATTCTGTTATGATTCTGATA
Found at i:30647 original size:15 final size:15
Alignment explanation
Indices: 30629--30660 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
30619 AATCACCAAT
30629 ACTGTCTCCACCATC
1 ACTGTCTCCACCATC
30644 ACTGTCTCCACCATC
1 ACTGTCTCCACCATC
30659 AC
1 AC
30661 AAAGCTTGCA
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:0.22, C:0.47, G:0.06, T:0.25
Consensus pattern (15 bp):
ACTGTCTCCACCATC
Found at i:43913 original size:22 final size:22
Alignment explanation
Indices: 43896--43941 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
43886 ATTGAATATG
*
43896 TGTAATTATTCATATGAATAAA
1 TGTAATCATTCATATGAATAAA
43918 TGTAATCATTCATATGAATAAA
1 TGTAATCATTCATATGAATAAA
43940 TG
1 TG
43942 CATTTATTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (22 bp):
TGTAATCATTCATATGAATAAA
Found at i:43950 original size:22 final size:22
Alignment explanation
Indices: 43899--43950 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
43889 GAATATGTGT
*
43899 AATTATTCATATGAATAAATGT
1 AATTATTCATATGAATAAATGC
*
43921 AATCATTCATATGAATAAATGC
1 AATTATTCATATGAATAAATGC
*
43943 ATTTATTC
1 AATTATTC
43951 TAATAGTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (22 bp):
AATTATTCATATGAATAAATGC
Found at i:46460 original size:18 final size:19
Alignment explanation
Indices: 46437--46480 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
46427 CCAGTAATCC
*
46437 TATTCC-CTAGTAATCTTT
1 TATTCCACTAGTAATCTTA
*
46455 TATTCCCACTGGTAATCTTA
1 TATT-CCACTAGTAATCTTA
46475 TATTCC
1 TATTCC
46481 GTGAATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (19 bp):
TATTCCACTAGTAATCTTA
Found at i:47089 original size:22 final size:22
Alignment explanation
Indices: 47063--47129 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
47053 TAATTTTAAG
47063 AGGTGTAATTATTCATATGAAT
1 AGGTGTAATTATTCATATGAAT
* *
47085 AGGTGTAATTGTTCATATAAAT
1 AGGTGTAATTATTCATATGAAT
** *
47107 AAATGTAATTATTCACATGAAT
1 AGGTGTAATTATTCATATGAAT
47129 A
1 A
47130 TATATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (22 bp):
AGGTGTAATTATTCATATGAAT
Found at i:47134 original size:2 final size:2
Alignment explanation
Indices: 47127--47154 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47117 ATTCACATGA
47127 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
47155 TCTGGTCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47593 original size:122 final size:126
Alignment explanation
Indices: 47430--47678 Score: 436
Period size: 122 Copynumber: 2.0 Consensus size: 126
47420 TTTGACCACT
47430 AAAAACAATTATTTAGTTTATTGATATAAATATAAGATTACAATATTTGGTTGGTGATATAAGA-
1 AAAAACAATTATTTAGTTTATTGATATAAATATAAGATTACAATATTTGGTTGGTGATATAAGAT
47494 TATCT-AAAGTAAA-TTTATCAAATTATCACTATGA-TTTTATTAACCG-TTAATATTAAA
66 TATCTAAAAGTAAATTTTATCAAATTATCACTATGATTTTTATTAACCGTTTAATATTAAA
47551 AAAAACAATTATTTAGTTTATTTGATATAAATATAAGATTACAATATTTGGTTGGTGATATAAGA
1 AAAAACAATTATTTAGTTTA-TTGATATAAATATAAGATTACAATATTTGGTTGGTGATATAAGA
*
47616 TTATCTAAAAGTAAATTTTATCAAATTATCACTATGATTTTTTATTATCCGTTTAATATTAAA
65 TTATCTAAAAGTAAATTTTATCAAATTATCACTATGA-TTTTTATTAACCGTTTAATATTAAA
47679 TTAAAAATAT
Statistics
Matches: 120, Mismatches: 1, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
121 20 0.17
122 44 0.37
123 5 0.04
124 8 0.07
125 21 0.17
127 11 0.09
128 11 0.09
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (126 bp):
AAAAACAATTATTTAGTTTATTGATATAAATATAAGATTACAATATTTGGTTGGTGATATAAGAT
TATCTAAAAGTAAATTTTATCAAATTATCACTATGATTTTTATTAACCGTTTAATATTAAA
Found at i:47795 original size:15 final size:16
Alignment explanation
Indices: 47766--47798 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
47756 AAATGATACT
47766 TAAAAAGTTACGTGAA
1 TAAAAAGTTACGTGAA
*
47782 TAAAAA-TTATGTGAA
1 TAAAAAGTTACGTGAA
47797 TA
1 TA
47799 CATTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.30
Consensus pattern (16 bp):
TAAAAAGTTACGTGAA
Found at i:48164 original size:24 final size:23
Alignment explanation
Indices: 48113--48166 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
48103 TTTTTTTTTT
* *
48113 TGAAAAATAATATTAGAAAATAA
1 TGAAATATAATATTAAAAAATAA
48136 T-AAATATAATATTACTAAAAAT-A
1 TGAAATATAATATTA--AAAAATAA
48159 TGAAATAT
1 TGAAATAT
48167 TAAAAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 12 0.46
23 3 0.12
24 11 0.42
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (23 bp):
TGAAATATAATATTAAAAAATAA
Found at i:51621 original size:15 final size:14
Alignment explanation
Indices: 51593--51628 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
51583 ATAATCGATT
51593 ATTTT-TTTATAAA
1 ATTTTATTTATAAA
51606 ATTTTATTTAATAAA
1 ATTTTATTT-ATAAA
51621 ATTTTATT
1 ATTTTATT
51629 AGAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.24
14 3 0.14
15 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTTTATTTATAAA
Found at i:56105 original size:22 final size:22
Alignment explanation
Indices: 56075--56117 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
56065 ATACCAAATA
* *
56075 AACATTATCGTGAACAATAATG
1 AACAATATCATGAACAATAATG
*
56097 AACAATATCATGAACAGTAAT
1 AACAATATCATGAACAATAAT
56118 ATACCAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.26
Consensus pattern (22 bp):
AACAATATCATGAACAATAATG
Found at i:56764 original size:56 final size:57
Alignment explanation
Indices: 56678--56790 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 57
56668 TATGAAATTT
56678 TTGTCCCGAAGAACCTATGAGTTATCCTGAAGGA-CTATGAAACCCTTGACTCTTGG
1 TTGTCCCGAAGAACCTATGAGTTATCCTGAAGGACCTATGAAACCCTTGACTCTTGG
56734 TTGTCCCGAAGAACCTATGAGTTATCCTGAAGGACCTATGAAACCCTTGACTCTTGG
1 TTGTCCCGAAGAACCTATGAGTTATCCTGAAGGACCTATGAAACCCTTGACTCTTGG
56791 CATGCCAACT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 34 0.61
57 22 0.39
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (57 bp):
TTGTCCCGAAGAACCTATGAGTTATCCTGAAGGACCTATGAAACCCTTGACTCTTGG
Found at i:58574 original size:44 final size:43
Alignment explanation
Indices: 58421--58751 Score: 270
Period size: 42 Copynumber: 7.7 Consensus size: 43
58411 ATTTTATGAA
* * *
58421 ATTGTAAAAAATTAGAGGTCCT-AATTATAAAGGTAGAAAATTGAG
1 ATTG-AAAAAATTA-AGGGCCTCAATTATAAAGTTAG-AAAGTGAG
* * * *
58466 ATTGAAAAAA-TAGGGGTCTCAATTAGAAAGTTAGAAAGTGAC
1 ATTGAAAAAATTAAGGGCCTCAATTATAAAGTTAGAAAGTGAG
* *
58508 ATT-AAAAACTTAAGGGCCTCAATTAGAAAGTTAGAAAGTGAG
1 ATTGAAAAAATTAAGGGCCTCAATTATAAAGTTAGAAAGTGAG
* *
58550 ATTAAAAAAATTTAAGGGCCTCAATTATAAAGTTAAAAAGTGAG
1 ATTGAAAAAA-TTAAGGGCCTCAATTATAAAGTTAGAAAGTGAG
* * * *
58594 -TTTAAAAAATT-AGGTGTCTCAATTA-AAA-TGTAGAAATTGAT
1 ATTGAAAAAATTAAGG-GCCTCAATTATAAAGT-TAGAAAGTGAG
* *
58635 ATTGAAAAAACTT-AGAGGCCTCAATTGAAAAAGGTAGAAAGTGAG
1 ATTGAAAAAA-TTAAG-GGCCTCAATT-ATAAAGTTAGAAAGTGAG
* ** *
58680 A-TGAAACAACTTAAAAGCCTCAATTATAAAGTTA-TAAGTGAG
1 ATTGAAA-AAATTAAGGGCCTCAATTATAAAGTTAGAAAGTGAG
* * * *
58722 ATT-ATAACATTAGGGGCCTAAATTATAAAG
1 ATTGAAAAAATTAAGGGCCTCAATTATAAAG
58752 GTAAAAAAAC
Statistics
Matches: 234, Mismatches: 37, Indels: 34
0.77 0.12 0.11
Matches are distributed among these distances:
40 1 0.00
41 37 0.16
42 74 0.32
43 47 0.20
44 55 0.24
45 20 0.09
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (43 bp):
ATTGAAAAAATTAAGGGCCTCAATTATAAAGTTAGAAAGTGAG
Found at i:58773 original size:129 final size:129
Alignment explanation
Indices: 58443--58774 Score: 291
Period size: 129 Copynumber: 2.6 Consensus size: 129
58433 TAGAGGTCCT
* * * * * * **
58443 AATTATAAAGGTAGAAAATTGAGATTGAAAAAA-TAGGGGTCTCAATTAGAAAGTTAGAAAGTGA
1 AATTATAAAGTTA-AAAAGTGAGATT-AAAAAATTAGGGGCCTAAATTA-AAAGGTAAAAAACGA
* * * * **
58507 CATT--AAAAACTTAAGGGCCTCAATTAGAAAGTTAGAAAGTGAGATTAAAAAAATTTAAGGGCC
63 GATTGAAAAAACTTAAGGGCCTCAATTAAAAAGGTAGAAAGTGAGATTAAAAAAACTTAAAAGCC
58570 TC
128 TC
* * * * * * ** *
58572 AATTATAAAGTTAAAAAGTGAGTTTAAAAAATTAGGTGTCTCAATTAAAATGTAGAAATTGATAT
1 AATTATAAAGTTAAAAAGTGAGATTAAAAAATTAGGGGCCTAAATTAAAAGGTAAAAAACGAGAT
* *
58637 TGAAAAAACTT-AGAGGCCTCAATTGAAAAAGGTAGAAAGTGAGA-TGAAACAACTTAAAAGCCT
66 TGAAAAAACTTAAG-GGCCTCAATT-AAAAAGGTAGAAAGTGAGATTAAAAAAACTTAAAAGCCT
58700 C
129 C
* * *
58701 AATTATAAAGTT-ATAAGTGAGATTATAACATTAGGGGCCTAAATTATAAAGGTAAAAAAACG-G
1 AATTATAAAGTTAAAAAGTGAGATTAAAAAATTAGGGGCCTAAATTA-AAAGGT-AAAAAACGAG
58764 ATTGGAAAAAA
64 ATT-GAAAAAA
58775 AATAGAGACT
Statistics
Matches: 168, Mismatches: 27, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
127 21 0.12
128 53 0.32
129 65 0.39
130 29 0.17
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.26
Consensus pattern (129 bp):
AATTATAAAGTTAAAAAGTGAGATTAAAAAATTAGGGGCCTAAATTAAAAGGTAAAAAACGAGAT
TGAAAAAACTTAAGGGCCTCAATTAAAAAGGTAGAAAGTGAGATTAAAAAAACTTAAAAGCCTC
Found at i:62779 original size:18 final size:18
Alignment explanation
Indices: 62743--62794 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
62733 AAGGTAGCGG
62743 CATCAT-AATGGCTGCGA
1 CATCATAAATGGCTGCGA
* *
62760 CATCATAAATGGTTGTGA
1 CATCATAAATGGCTGCGA
62778 CATCATAAATGGCTGCG
1 CATCATAAATGGCTGCG
62795 GTGGCTGCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 6 0.20
18 24 0.80
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (18 bp):
CATCATAAATGGCTGCGA
Found at i:70289 original size:14 final size:15
Alignment explanation
Indices: 70265--70299 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
70255 GGGTTTTAAC
70265 TCTAAAATAAAATAT
1 TCTAAAATAAAATAT
*
70280 T-TAAATTAAAATAT
1 TCTAAAATAAAATAT
70294 TCTAAA
1 TCTAAA
70300 CAAATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (15 bp):
TCTAAAATAAAATAT
Found at i:74986 original size:22 final size:21
Alignment explanation
Indices: 74944--74986 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
74934 GAATGTCAAG
*
74944 GGGAACCGATACCCCACAGGA
1 GGGAACCGATACCCCAAAGGA
*
74965 GGGAACCGATTCCCCTAAAGGA
1 GGGAACCGATACCCC-AAAGGA
74987 AAAATGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.33, C:0.30, G:0.28, T:0.09
Consensus pattern (21 bp):
GGGAACCGATACCCCAAAGGA
Found at i:76607 original size:100 final size:101
Alignment explanation
Indices: 76427--76640 Score: 351
Period size: 100 Copynumber: 2.1 Consensus size: 101
76417 GTCGAGGATC
*
76427 TATGTGGTCCTTCGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATACT
1 TATGTGGTCCTTCGGACA-ATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
* * *
76492 TGATCCTTGGAATATGTATATGATTCTTAAGGAATGA
65 TGATCCCTAGAATATGTATATGATTCTTAAAGAATGA
76529 TATGTGGTCCTTCGGGAC-ATATGTATTCTTTGGAACATGTG-GAAGTCTGGTGAGACACATACT
1 TATGTGGTCCTTC-GGACAATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
*
76592 TGATCCCTAGTATATGTATATGATTCTTAAAGAATGA
65 TGATCCCTAGAATATGTATATGATTCTTAAAGAATGA
76629 TATGTGGTCCTT
1 TATGTGGTCCTT
76641 ATGGACATTA
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
100 66 0.62
101 23 0.22
102 13 0.12
103 4 0.04
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (101 bp):
TATGTGGTCCTTCGGACAATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTT
GATCCCTAGAATATGTATATGATTCTTAAAGAATGA
Found at i:76705 original size:22 final size:23
Alignment explanation
Indices: 76656--76714 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
76646 CATTATTATA
*
76656 TGGCACTACGGTGTAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
76679 -CGCACTAC-GTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
*
76700 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
76715 TTTATATGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 11 0.38
22 13 0.45
23 5 0.17
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.29
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:77438 original size:20 final size:20
Alignment explanation
Indices: 77413--77460 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
77403 GGGTGTTACA
77413 GATGCACTGTAGAATGCATC
1 GATGCACTGTAGAATGCATC
77433 GATGCACTGTAGAATGCATC
1 GATGCACTGTAGAATGCATC
77453 GATGCACT
1 GATGCACT
77461 TCAAGGGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (20 bp):
GATGCACTGTAGAATGCATC
Found at i:78570 original size:23 final size:23
Alignment explanation
Indices: 78503--78570 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
78493 ACATTTATAT
* * *
78503 GGCACTTCGGTGCAATCCCACGT
1 GGCACTTCGGTGCAATTCTACGC
* *
78526 GGCACTACGGTGCATTTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
78549 GGCACTTCGGTGCAATTATACG
1 GGCACTTCGGTGCAATTCTACG
78571 AGCTGTGGCG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:82987 original size:19 final size:19
Alignment explanation
Indices: 82963--83003 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
82953 TTTCATCCTC
*
82963 AAACTATGACTCTCATTCT
1 AAACTATAACTCTCATTCT
*
82982 AAACTATAACTCTCATTTT
1 AAACTATAACTCTCATTCT
83001 AAA
1 AAA
83004 TTGATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (19 bp):
AAACTATAACTCTCATTCT
Found at i:83060 original size:79 final size:78
Alignment explanation
Indices: 82904--83140 Score: 379
Period size: 79 Copynumber: 3.0 Consensus size: 78
82894 ATATGTCTCC
* * * *
82904 AAACTATGACTCTCATTTTAATTTGATCTTTAGA-TTTTAAATATTGCAATTTCATCCTCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
82968 ATGACTCTCATTCT
66 ATGACT-TCATTCT
* *
82982 AAACTATAACTCTCATTTTAAATTGATTTTTAGACTTTAAAATATTCCAATTTCATCCTCACACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
83047 ATGACTTTCATTCT
66 ATGAC-TTCATTCT
*
83061 AAACTATAACTCTCACTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
83126 ATGAC-TCATTCT
66 ATGACTTCATTCT
83138 AAA
1 AAA
83141 TTAGTCCTTA
Statistics
Matches: 148, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
77 10 0.07
78 31 0.21
79 106 0.72
80 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (78 bp):
AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
ATGACTTCATTCT
Found at i:83171 original size:58 final size:59
Alignment explanation
Indices: 83104--83238 Score: 173
Period size: 60 Copynumber: 2.3 Consensus size: 59
83094 ACTTTAAAAT
* * *
83104 ATTCCAATTTCATCCTCAAACTATGAC-TCATTCTAAATTAGTCCTTAAAATTTTGAAC
1 ATTCCAATTTCATCCCCAAACTATGACATCATTCTAAATCAGTCCCTAAAATTTTGAAC
* * * * *
83162 ATTCTAATTTCATCCCCATACTATGACTATCATTCTAAATCGGTCCCTAAATTTTTGAAT
1 ATTCCAATTTCATCCCCAAACTATGAC-ATCATTCTAAATCAGTCCCTAAAATTTTGAAC
*
83222 GTTCCAATTTCATCCCC
1 ATTCCAATTTCATCCCC
83239 GAATTCATCC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 24 0.37
60 41 0.63
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (59 bp):
ATTCCAATTTCATCCCCAAACTATGACATCATTCTAAATCAGTCCCTAAAATTTTGAAC
Found at i:83460 original size:57 final size:57
Alignment explanation
Indices: 83360--83472 Score: 151
Period size: 57 Copynumber: 2.0 Consensus size: 57
83350 TTATATACGT
**
83360 ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGGGGACTAA-TGTAGAATGGTC
1 ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGAAGACTAATTG-AGAATGGTC
*
83417 ATAATTTGGGGATGAAATT-GAAATGTTC-ATAAGTTTGAAGACTAATTGAGAATGGT
1 ATAATTT-GGGATGAAATTAG-AATGTTCAAAAAGTTTGAAGACTAATTGAGAATGGT
83473 AACCATAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
57 30 0.60
58 20 0.40
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (57 bp):
ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGAAGACTAATTGAGAATGGTC
Found at i:84064 original size:19 final size:19
Alignment explanation
Indices: 84040--84080 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
84030 TTTCATCATC
*
84040 AAACTATGACTCTCATTCT
1 AAACTATAACTCTCATTCT
*
84059 AAACTATAACTCTCATTTT
1 AAACTATAACTCTCATTCT
84078 AAA
1 AAA
84081 TTGATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (19 bp):
AAACTATAACTCTCATTCT
Found at i:84141 original size:79 final size:78
Alignment explanation
Indices: 83981--84217 Score: 370
Period size: 79 Copynumber: 3.0 Consensus size: 78
83971 ATATGTCTCC
* * * * *
83981 AAACTATGACTCTCATTTTAATTTGATCTTTAGA-TTTTAAATATTGCAATTTCATCATCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
84045 ATGACTCTCATTCT
66 ATGACT-TCATTCT
* *
84059 AAACTATAACTCTCATTTTAAATTGATTTTTAGACTTTAAAATATTCCAATTTCATCCTCACACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
84124 ATGACTTTCATTCT
66 ATGAC-TTCATTCT
*
84138 AAACTATAACTCTCACTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
84203 ATGAC-TCATTCT
66 ATGACTTCATTCT
84215 AAA
1 AAA
84218 TTAGTCCTTA
Statistics
Matches: 147, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
77 10 0.07
78 31 0.21
79 105 0.71
80 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (78 bp):
AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
ATGACTTCATTCT
Found at i:84248 original size:58 final size:59
Alignment explanation
Indices: 84181--84315 Score: 173
Period size: 60 Copynumber: 2.3 Consensus size: 59
84171 ACTTTAAAAT
* * *
84181 ATTCCAATTTCATCCTCAAACTATGAC-TCATTCTAAATTAGTCCTTAAAATTTTGAAC
1 ATTCCAATTTCATCCCCAAACTATGACATCATTCTAAATCAGTCCCTAAAATTTTGAAC
* * * * *
84239 ATTCTAATTTCATCCCCATACTATGACTATCATTCTAAATCGGTCCCTAAATTTTTGAAT
1 ATTCCAATTTCATCCCCAAACTATGAC-ATCATTCTAAATCAGTCCCTAAAATTTTGAAC
*
84299 GTTCCAATTTCATCCCC
1 ATTCCAATTTCATCCCC
84316 GAATTCATCC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 24 0.37
60 41 0.63
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (59 bp):
ATTCCAATTTCATCCCCAAACTATGACATCATTCTAAATCAGTCCCTAAAATTTTGAAC
Found at i:85150 original size:19 final size:19
Alignment explanation
Indices: 85126--85166 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
85116 TTTCATCATC
*
85126 AAACTATGACTCTCATTCT
1 AAACTATAACTCTCATTCT
*
85145 AAACTATAACTCTCATTTT
1 AAACTATAACTCTCATTCT
85164 AAA
1 AAA
85167 TTGATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (19 bp):
AAACTATAACTCTCATTCT
Found at i:85227 original size:79 final size:78
Alignment explanation
Indices: 85067--85303 Score: 370
Period size: 79 Copynumber: 3.0 Consensus size: 78
85057 ATATGTCTCC
* * * * *
85067 AAACTATGACTCTCATTTTAATTTGATCTTTAGA-TTTTAAATATTGCAATTTCATCATCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
85131 ATGACTCTCATTCT
66 ATGACT-TCATTCT
* *
85145 AAACTATAACTCTCATTTTAAATTGATTTTTAGACTTTAAAATATTCCAATTTCATCCTCACACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
85210 ATGACTTTCATTCT
66 ATGAC-TTCATTCT
*
85224 AAACTATAACTCTCACTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
85289 ATGAC-TCATTCT
66 ATGACTTCATTCT
85301 AAA
1 AAA
85304 TTAGTCCTTA
Statistics
Matches: 147, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
77 10 0.07
78 31 0.21
79 105 0.71
80 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (78 bp):
AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
ATGACTTCATTCT
Found at i:85334 original size:58 final size:59
Alignment explanation
Indices: 85267--85401 Score: 173
Period size: 60 Copynumber: 2.3 Consensus size: 59
85257 ACTTTAAAAT
* * *
85267 ATTCCAATTTCATCCTCAAACTATGAC-TCATTCTAAATTAGTCCTTAAAATTTTGAAC
1 ATTCCAATTTCATCCCCAAACTATGACATCATTCTAAATCAGTCCCTAAAATTTTGAAC
* * * * *
85325 ATTCTAATTTCATCCCCATACTATGACTATCATTCTAAATCGGTCCCTAAATTTTTGAAT
1 ATTCCAATTTCATCCCCAAACTATGAC-ATCATTCTAAATCAGTCCCTAAAATTTTGAAC
*
85385 GTTCCAATTTCATCCCC
1 ATTCCAATTTCATCCCC
85402 GAATTCATCC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 24 0.37
60 41 0.63
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (59 bp):
ATTCCAATTTCATCCCCAAACTATGACATCATTCTAAATCAGTCCCTAAAATTTTGAAC
Found at i:85604 original size:28 final size:30
Alignment explanation
Indices: 85523--85616 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 30
85513 ATATATACGT
85523 ATAA-TTT-GGGATGAAATT-AGAATGTTC
1 ATAAGTTTGGGGATGAAATTGAGAATGTTC
* * *
85550 AAAAAGTTTGGGGA-GTAA-TGTAGAATGGTC
1 -ATAAGTTTGGGGATGAAATTG-AGAATGTTC
85580 ATAA-TTTGGGGATGAAATTGA-AATGTTC
1 ATAAGTTTGGGGATGAAATTGAGAATGTTC
85608 ATAAGTTTG
1 ATAAGTTTG
85617 AAGACTAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
28 22 0.42
29 17 0.32
30 14 0.26
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (30 bp):
ATAAGTTTGGGGATGAAATTGAGAATGTTC
Found at i:85632 original size:57 final size:57
Alignment explanation
Indices: 85523--85641 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 57
85513 ATATATACGT
** * *
85523 ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGGGGAGTAATGTAGAATGGTC
1 ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGAAGACTAATGTAGAATGGTA
*
85580 ATAATTTGGGGATGAAATT-GAAATGTTC-ATAAGTTTGAAGACTAAT-TGAGAATGGTA
1 ATAATTT-GGGATGAAATTAG-AATGTTCAAAAAGTTTGAAGACTAATGT-AGAATGGTA
85637 ATAAT
1 ATAAT
85642 AGTTTAAGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
56 1 0.02
57 35 0.65
58 18 0.33
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (57 bp):
ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGAAGACTAATGTAGAATGGTA
Found at i:86233 original size:19 final size:19
Alignment explanation
Indices: 86209--86249 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
86199 TTTCATCCTC
*
86209 AAACTATGACTCTCATTCT
1 AAACTATAACTCTCATTCT
*
86228 AAACTATAACTCTCATTTT
1 AAACTATAACTCTCATTCT
86247 AAA
1 AAA
86250 TTGATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (19 bp):
AAACTATAACTCTCATTCT
Found at i:86306 original size:79 final size:77
Alignment explanation
Indices: 86150--86385 Score: 368
Period size: 79 Copynumber: 3.0 Consensus size: 77
86140 ATATGTCTCC
* * * *
86150 AAACTATGACTCTCATTTTAATTTGATCTTTAGA-TTTTAAATATTGCAATTTCATCCTCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTC-AACT
86214 ATGACTCTCATTCT
65 ATGACT-TCATTCT
*
86228 AAACTATAACTCTCATTTTAAATTGATTTTTAGACTTTAAAATATTCCAATTTCATCCTCACACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCA-ACT
86293 ATGACTTTCATTCT
65 ATGAC-TTCATTCT
*
86307 AAACTATAACTCTCACTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAACTA
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAACTA
86372 TGAC-TCATTCT
66 TGACTTCATTCT
86383 AAA
1 AAA
86386 TTAGTCCTTA
Statistics
Matches: 148, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
76 10 0.07
78 40 0.27
79 97 0.66
80 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (77 bp):
AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAACTA
TGACTTCATTCT
Found at i:86445 original size:60 final size:57
Alignment explanation
Indices: 86350--86483 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 57
86340 ACTTTAAAAT
* * *
86350 ATTCCAATTTCATCCTCAACTATGACTCATTCTAAATTAGTCCTTAAAATTTTGAAC
1 ATTCCAATTTCATCCCCAACTATGACTCATTCTAAATCAGTCCCTAAAATTTTGAAC
* * * *
86407 ATTCTAATTTCATCCCCATACTATGACTATCATTCTAAATCGGTCCCTAAATTTTTGAAT
1 ATTCCAATTTCATCCCCA-ACTATGAC--TCATTCTAAATCAGTCCCTAAAATTTTGAAC
*
86467 GTTCCAATTTCATCCCC
1 ATTCCAATTTCATCCCC
86484 GAATTCATCC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 16 0.25
58 8 0.12
60 41 0.63
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (57 bp):
ATTCCAATTTCATCCCCAACTATGACTCATTCTAAATCAGTCCCTAAAATTTTGAAC
Found at i:86709 original size:57 final size:57
Alignment explanation
Indices: 86609--86721 Score: 151
Period size: 57 Copynumber: 2.0 Consensus size: 57
86599 TTATATACGT
**
86609 ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGGGGACTAA-TGTAGAATGGTC
1 ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGAAGACTAATTG-AGAATGGTC
*
86666 ATAATTTGGGGATGAAATT-GAAATGTTC-ATAAGTTTGAAGACTAATTGAGAATGGT
1 ATAATTT-GGGATGAAATTAG-AATGTTCAAAAAGTTTGAAGACTAATTGAGAATGGT
86722 AACCATAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
57 30 0.60
58 20 0.40
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (57 bp):
ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGAAGACTAATTGAGAATGGTC
Found at i:87318 original size:19 final size:19
Alignment explanation
Indices: 87294--87334 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
87284 TTTCATCCTC
*
87294 AAACTATGACTCTCATTCT
1 AAACTATAACTCTCATTCT
*
87313 AAACTATAACTCTCATTTT
1 AAACTATAACTCTCATTCT
87332 AAA
1 AAA
87335 TTGATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (19 bp):
AAACTATAACTCTCATTCT
Found at i:87391 original size:79 final size:78
Alignment explanation
Indices: 87235--87471 Score: 379
Period size: 79 Copynumber: 3.0 Consensus size: 78
87225 ATATGTCTCC
* * * *
87235 AAACTATGACTCTCATTTTAATTTGATCTTTAGA-TTTTAAATATTGCAATTTCATCCTCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
87299 ATGACTCTCATTCT
66 ATGACT-TCATTCT
* *
87313 AAACTATAACTCTCATTTTAAATTGATTTTTAGACTTTAAAATATTCCAATTTCATCCTCACACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
87378 ATGACTTTCATTCT
66 ATGAC-TTCATTCT
*
87392 AAACTATAACTCTCACTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
87457 ATGAC-TCATTCT
66 ATGACTTCATTCT
87469 AAA
1 AAA
87472 TTAGTCCTTA
Statistics
Matches: 148, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
77 10 0.07
78 31 0.21
79 106 0.72
80 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (78 bp):
AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
ATGACTTCATTCT
Found at i:87502 original size:58 final size:59
Alignment explanation
Indices: 87435--87569 Score: 182
Period size: 60 Copynumber: 2.3 Consensus size: 59
87425 ACTTTAAAAT
* * *
87435 ATTCCAATTTCATCCTCAAACTATGAC-TCATTCTAAATTAGTCCTTAAAATTTTGAAC
1 ATTCCAATTTCATCCCCAAACTATGACATCATTCTAAATCAGTCCCTAAAATTTTGAAC
* * * *
87493 ATTCTAATTTCATCCCCATACTATGACTATCATTCTAAATCAGTCCCTAAATTTTTGAAT
1 ATTCCAATTTCATCCCCAAACTATGAC-ATCATTCTAAATCAGTCCCTAAAATTTTGAAC
*
87553 GTTCCAATTTCATCCCC
1 ATTCCAATTTCATCCCC
87570 GAATTCATCC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
58 24 0.36
60 42 0.64
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (59 bp):
ATTCCAATTTCATCCCCAAACTATGACATCATTCTAAATCAGTCCCTAAAATTTTGAAC
Found at i:87791 original size:57 final size:59
Alignment explanation
Indices: 87691--87827 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 59
87681 TTATATACGT
**
87691 ATAATTTGGGATGAAATT-AGAATGTTCAAAAAGTTTGGGGACTAA-TGTAGAATGGT-C
1 ATAATTTGGGATGAAATTGAGAATGTTCAAAAAGTTTGAAGACTAATTG-AGAATGGTAC
*
87748 ATAATTTGGGGATGAAATTGA-AATGTTC-ATAAGTTTGAAGACTAATTGAGAATGGTAACC
1 ATAATTT-GGGATGAAATTGAGAATGTTCAAAAAGTTTGAAGACTAATTGAGAATGGT-A-C
*
87808 ATAATTTAAGGATGAAATTG
1 ATAATTT-GGGATGAAATTG
87828 GAGTATTTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
57 29 0.42
58 20 0.29
59 1 0.01
60 19 0.28
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (59 bp):
ATAATTTGGGATGAAATTGAGAATGTTCAAAAAGTTTGAAGACTAATTGAGAATGGTAC
Found at i:90952 original size:24 final size:23
Alignment explanation
Indices: 90925--90970 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
90915 GGGAATAGAT
*
90925 TTATAAAATTTTAAGAGAATAAAC
1 TTATAAAATATTAA-AGAATAAAC
*
90949 TTATAAAATATTAAAGCATAAA
1 TTATAAAATATTAAAGAATAAA
90971 AACAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
TTATAAAATATTAAAGAATAAAC
Found at i:99005 original size:2 final size:2
Alignment explanation
Indices: 98998--99045 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
98988 ACACGCATAA
98998 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
99040 AT AT AT
1 AT AT AT
99046 CTTCCCTTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104453 original size:2 final size:2
Alignment explanation
Indices: 104442--104475 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
104432 CTCAACACTC
104442 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104476 CCTGGTTGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:111973 original size:20 final size:20
Alignment explanation
Indices: 111948--111986 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
111938 AAAGCATAAG
*
111948 GATCCTTTTGTATTTTTTTA
1 GATCCTTATGTATTTTTTTA
111968 GATCCTTATGTATTTTTTT
1 GATCCTTATGTATTTTTTT
111987 CAAAACCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.10, G:0.10, T:0.64
Consensus pattern (20 bp):
GATCCTTATGTATTTTTTTA
Found at i:117795 original size:2 final size:2
Alignment explanation
Indices: 117788--117843 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
117778 GGTTTATTAC
*
117788 AT AT AT AT AT AT AT AT AT AT AT CT 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
117830 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
117844 GAGCAAAGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125163 original size:61 final size:62
Alignment explanation
Indices: 125058--125198 Score: 159
Period size: 61 Copynumber: 2.3 Consensus size: 62
125048 TAAACGTATC
*
125058 GTTTGG-GATGAAATTG-GAATGTTCAAAAAGTTTAGGGATCAATTTAGAATGA-AGGTCATA
1 GTTTGGAGATGAAATTGAAAATGTTCAAAAAGTTTAGGGATCAATTTAGAATGATA-GTCATA
*
125118 GTTTGGAGATGAAATTGAAAATGTTC-AAAA-TTTTGAGGA-CTAATTTAGAATGATAGTCATA
1 GTTTGGAGATGAAATTGAAAATGTTCAAAAAGTTTAG-GGATC-AATTTAGAATGATAGTCATA
* * **
125179 ATTTAGAGATGGGATTGAAA
1 GTTTGGAGATGAAATTGAAA
125199 TATTTAAAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
60 11 0.16
61 51 0.73
62 8 0.11
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (62 bp):
GTTTGGAGATGAAATTGAAAATGTTCAAAAAGTTTAGGGATCAATTTAGAATGATAGTCATA
Found at i:135813 original size:22 final size:22
Alignment explanation
Indices: 135785--135845 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
135775 AAAAAATTAT
*
135785 TTTTTATTAAATATTTTTGGTA
1 TTTTTATTAAATATTTTTGATA
135807 TTTTTATTAAATATTTTTGATA
1 TTTTTATTAAATATTTTTGATA
*
135829 TTTTTATTTAAT-TTTTT
1 TTTTTATTAAATATTTTT
135846 AAATAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
21 5 0.14
22 32 0.86
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTTATTAAATATTTTTGATA
Found at i:140265 original size:89 final size:89
Alignment explanation
Indices: 140114--140292 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
140104 CTAAACTGAT
140114 TTCTTGAACTCATGTTATATGAACTCGCGTGTGATGGTCGGATATGAATACGTCTCTGTTCAACT
1 TTCTTGAACTCATGTTATATGAACTCGCGTGTGATGGTCGGATATGAATACGTCTCTGTTCAACT
140179 TTTCAAAGTGTTTTCATGTATGTA
66 TTTCAAAGTGTTTTCATGTATGTA
140203 TTCTTGAACTCATGTTATATGAACTCGCGTGTGATGGTCGGATATGAATACGTCTCTGTTCAACT
1 TTCTTGAACTCATGTTATATGAACTCGCGTGTGATGGTCGGATATGAATACGTCTCTGTTCAACT
140268 TTTCAAAGTGTTTTCATGTATGTA
66 TTTCAAAGTGTTTTCATGTATGTA
140292 T
1 T
140293 GAGGTCGTTG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (89 bp):
TTCTTGAACTCATGTTATATGAACTCGCGTGTGATGGTCGGATATGAATACGTCTCTGTTCAACT
TTTCAAAGTGTTTTCATGTATGTA
Found at i:142268 original size:19 final size:19
Alignment explanation
Indices: 142244--142294 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
142234 ACCAACAAAA
142244 TCGCAATGCGATCGCTAAT
1 TCGCAATGCGATCGCTAAT
142263 TCGCAATGCGATCGCTAAT
1 TCGCAATGCGATCGCTAAT
*
142282 TCGCAACGCGATC
1 TCGCAATGCGATC
142295 TCCATTATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (19 bp):
TCGCAATGCGATCGCTAAT
Found at i:142411 original size:20 final size:21
Alignment explanation
Indices: 142386--142478 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
142376 TTTTCCCAAT
*
142386 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
142406 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
142427 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
142447 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
142468 TCGCAATGCGA
1 TCGCAATGCGA
142479 TAATACAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:142431 original size:41 final size:41
Alignment explanation
Indices: 142386--142478 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
142376 TTTTCCCAAT
142386 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
142427 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
142468 TCGCAATGCGA
1 TCGCAATGCGA
142479 TAATACAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:142537 original size:20 final size:20
Alignment explanation
Indices: 142489--142540 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
142479 TAATACAAAA
* *
142489 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
142509 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
142529 TCGCAACGCGAT
1 TCGCAACGCGAT
142541 TTACATAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:143104 original size:19 final size:19
Alignment explanation
Indices: 143059--143106 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
143049 TTCGAGAATG
*
143059 AAAATCGCAACGCGGAAAT
1 AAAATCGCAACGCGGAAAC
*
143078 AACTATCGCAACGC-GAAACC
1 AA-AATCGCAACGCGGAAA-C
143098 AAAATCGCA
1 AAAATCGCA
143107 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGGAAAC
Found at i:143124 original size:19 final size:19
Alignment explanation
Indices: 143102--143251 Score: 168
Period size: 19 Copynumber: 8.1 Consensus size: 19
143092 GAAACCAAAA
*
143102 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
143121 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
143140 TCGCGTTGCGATTTTTA-T
1 TCGCGTTGCGATTTTCATT
143158 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
143178 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
143194 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
143211 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
143230 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
143250 TC
1 TC
143252 AACCAAAAGA
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
14 10 0.09
15 1 0.01
16 1 0.01
17 1 0.01
18 6 0.05
19 71 0.63
20 22 0.20
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:145370 original size:21 final size:21
Alignment explanation
Indices: 145309--145371 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
145299 TTCCTCGAGA
145309 GTCCCTCCCACCGTTCAAGAG
1 GTCCCTCCCACCGTTCAAGAG
** * *
145330 G-CCACTGTCATCGTTGAAGAG
1 GTCC-CTCCCACCGTTCAAGAG
*
145351 GTCCCTCCCACCATTCAAGAG
1 GTCCCTCCCACCGTTCAAGAG
145372 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.22, C:0.37, G:0.21, T:0.21
Consensus pattern (21 bp):
GTCCCTCCCACCGTTCAAGAG
Found at i:146877 original size:19 final size:19
Alignment explanation
Indices: 146853--146923 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
146843 AAAATAGACT
*
146853 ATCGCAACGCGAAATGGAA
1 ATCGCAACGCGAAATGAAA
*
146872 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
146891 ATCGTAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
146910 ATCGCAACGAGAAA
1 ATCGCAACGCGAAA
146924 ATCGCAATGC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:147137 original size:20 final size:20
Alignment explanation
Indices: 147080--147140 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
147070 ACTGAAAATG
* **
147080 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGTC
147100 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
147120 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
147140 A
1 A
147141 AATGAATGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGTC
Found at i:147787 original size:20 final size:20
Alignment explanation
Indices: 147762--147822 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
147752 GACATTCATT
147762 TGACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAAAA
147782 TGACTATCGCAACGCGAAAA
1 TGACTATCGCAACGCGAAAA
** *
147802 TGGTTATCGCAACGAGAAAA
1 TGACTATCGCAACGCGAAAA
147822 T
1 T
147823 CGCAATGCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
TGACTATCGCAACGCGAAAA
Found at i:147888 original size:19 final size:19
Alignment explanation
Indices: 147841--147960 Score: 171
Period size: 19 Copynumber: 6.6 Consensus size: 19
147831 GAAATGAAAA
147841 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
147857 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
147873 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
147892 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
147911 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
147930 TCGCATTACGATTTCCATT
1 TCGCATTGCGATTTTCATT
*
147949 TCGCGTTGCGAT
1 TCGCATTGCGAT
147961 AGTCTGTTTT
Statistics
Matches: 94, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.04
14 6 0.06
16 6 0.06
18 6 0.06
19 72 0.77
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:149982 original size:20 final size:19
Alignment explanation
Indices: 149947--150013 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
149937 CGAAACTTAA
149947 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
149966 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
149986 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
150005 ATCGCAACG
1 ATCGCAACG
150014 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:150021 original size:14 final size:14
Alignment explanation
Indices: 150002--150059 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
149992 ATGCGAAATG
150002 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
150016 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
150032 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
150048 AAAATCGCAACG
1 AAAATCGCAACG
150060 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:150044 original size:32 final size:33
Alignment explanation
Indices: 149986--150064 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
149976 GGAAATGGCT
*
149986 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
150019 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
150051 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
150065 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:150093 original size:19 final size:17
Alignment explanation
Indices: 150071--150166 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
150061 GAAACACAAA
150071 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
150090 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
150106 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
150122 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
150138 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
150155 TCGCATTGCGAT
1 TCGC-TTGCGAT
150167 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:150112 original size:14 final size:14
Alignment explanation
Indices: 150093--150150 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
150083 TTTCATTTCG
150093 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
150107 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
150123 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
150139 CGTTGCGATTTT
1 CGTTGCGATTTT
150151 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:150157 original size:33 final size:33
Alignment explanation
Indices: 150076--150166 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
150066 ACAAATCGCA
150076 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
150109 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
150141 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
150167 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:150185 original size:20 final size:19
Alignment explanation
Indices: 150151--150204 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
150141 TTGCGATTTT
*
150151 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
150170 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
150190 CATTTCGTGTTGCGA
1 CATTTCGCGTTGCGA
150205 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:150203 original size:19 final size:19
Alignment explanation
Indices: 150139--150204 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
150129 GCGATTTTGT
**
150139 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
150158 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
150178 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
150197 TGTTGCGA
1 CGTTGCGA
150205 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:150701 original size:18 final size:18
Alignment explanation
Indices: 150675--150719 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
150665 GTCGATCAGA
* *
150675 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
150693 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
150711 TGATGGCTC
1 TGATGGCTC
150720 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:152269 original size:22 final size:22
Alignment explanation
Indices: 152244--152287 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
152234 GATTTAGATA
152244 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
152266 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
152288 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:152568 original size:20 final size:20
Alignment explanation
Indices: 152455--152568 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
152445 CGCTTTGAAA
152455 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
152475 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
152495 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
152515 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
152536 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
152556 ATCGCATTGCGAT
1 ATCGCATTGCGAT
152569 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:152586 original size:21 final size:21
Alignment explanation
Indices: 152557--152649 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
152547 ATAGTAAGTA
152557 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
152578 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
152598 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
152619 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
152639 TCGCATTGCGA
1 TCGCATTGCGA
152650 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:152587 original size:41 final size:41
Alignment explanation
Indices: 152496--152630 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
152486 AAAGTCAGTA
* * * ** *
152496 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
152536 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
152578 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
152619 TCGCGTTGCGAT
1 TCGCGTTGCGAT
152631 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:152631 original size:41 final size:41
Alignment explanation
Indices: 152557--152649 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
152547 ATAGTAAGTA
152557 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
152598 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
152639 TCGCATTGCGA
1 TCGCATTGCGA
152650 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:153090 original size:3 final size:3
Alignment explanation
Indices: 153082--153129 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
153072 CTAGGTTTGC
153082 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
153130 TCTATAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:159357 original size:31 final size:30
Alignment explanation
Indices: 159319--159416 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 30
159309 AATTTACTTG
159319 AATTTAGGAATAAAACTAATATTTTATCTAA
1 AATTTAGGAATAAAA-TAATATTTTATCTAA
* * *
159350 AATTTAGGGATTAAAATGATATTTCATCT-A
1 AATTTA-GGAATAAAATAATATTTTATCTAA
* * * * * *
159380 AAGTTAGTAGTCAAATTATTATTCTATCTAA
1 AATTTAGGAAT-AAAATAATATTTTATCTAA
159411 AATTTA
1 AATTTA
159417 AGGATCAAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 3 0.06
30 18 0.35
31 23 0.44
32 8 0.15
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (30 bp):
AATTTAGGAATAAAATAATATTTTATCTAA
Found at i:163441 original size:16 final size:17
Alignment explanation
Indices: 163420--163452 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
163410 CATTTTTAAA
163420 ATAAAAT-ATTATTTTT
1 ATAAAATAATTATTTTT
163436 ATAAAATGAATTATTTT
1 ATAAAAT-AATTATTTT
163453 AATTTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
ATAAAATAATTATTTTT
Found at i:167824 original size:19 final size:21
Alignment explanation
Indices: 167780--167824 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
167770 TTAAATTAAT
167780 CTTTAAACTATGTGTATCTCA
1 CTTTAAACTATGTGTATCTCA
* *
167801 CTTTAAAC-AT-TGTGTCTTA
1 CTTTAAACTATGTGTATCTCA
167820 CTTTA
1 CTTTA
167825 TATCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 2 0.09
21 8 0.36
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.47
Consensus pattern (21 bp):
CTTTAAACTATGTGTATCTCA
Found at i:168367 original size:19 final size:20
Alignment explanation
Indices: 168324--168368 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
168314 TTAACTGCCC
168324 ATTTAGATGTTTTGAATGTCA
1 ATTT-GATGTTTTGAATGTCA
168345 ATTTGATG-TTTG-ATGTCA
1 ATTTGATGTTTTGAATGTCA
168363 GATTTG
1 -ATTTG
168369 CATCGGCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 9 0.39
20 4 0.17
21 4 0.17
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTGATGTTTTGAATGTCA
Found at i:171988 original size:16 final size:16
Alignment explanation
Indices: 171964--172001 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
171954 CCGGTCGTCA
*
171964 ATGGCACCTTTCTCAC
1 ATGGTACCTTTCTCAC
171980 ATGGTACCTTTCTCAC
1 ATGGTACCTTTCTCAC
171996 ATGGTA
1 ATGGTA
172002 TCATTCACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (16 bp):
ATGGTACCTTTCTCAC
Found at i:174181 original size:33 final size:33
Alignment explanation
Indices: 174139--174206 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
174129 GCACGTGAAA
174139 ATTGCATAAATTGGGTTGATTAGCCTCTAAAAC
1 ATTGCATAAATTGGGTTGATTAGCCTCTAAAAC
174172 ATTGCATAAATTGGGTTGATTAGCCTCTAAAAC
1 ATTGCATAAATTGGGTTGATTAGCCTCTAAAAC
174205 AT
1 AT
174207 CGACCTTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (33 bp):
ATTGCATAAATTGGGTTGATTAGCCTCTAAAAC
Found at i:177123 original size:17 final size:17
Alignment explanation
Indices: 177101--177136 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
177091 AAGGTTAGGG
*
177101 TTAGAGATTTAGGATTT
1 TTAGAGATATAGGATTT
*
177118 TTAGAGATATAGGGTTT
1 TTAGAGATATAGGATTT
177135 TT
1 TT
177137 TATAATTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (17 bp):
TTAGAGATATAGGATTT
Found at i:182853 original size:21 final size:21
Alignment explanation
Indices: 182824--182865 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
182814 GATGGACTGA
*
182824 CTCCCCTTGGAGTTGCAGTGG
1 CTCCCCTTGGAGGTGCAGTGG
* *
182845 CTCCTCTTGGAGGTGGAGTGG
1 CTCCCCTTGGAGGTGCAGTGG
182866 AAGGTCTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.24, G:0.38, T:0.29
Consensus pattern (21 bp):
CTCCCCTTGGAGGTGCAGTGG
Found at i:190209 original size:2 final size:2
Alignment explanation
Indices: 190202--190228 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
190192 AAGATATCAT
190202 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
190229 TTAATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:196490 original size:3 final size:3
Alignment explanation
Indices: 196482--196507 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
196472 GGGCCTTGCT
196482 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
196508 CCAATTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:204664 original size:151 final size:149
Alignment explanation
Indices: 204357--204664 Score: 521
Period size: 151 Copynumber: 2.0 Consensus size: 149
204347 TCCTCATACG
204357 GTTAGGGATGTTTTGTAACGAGGTCCTTTAGGTGGTGTACTTTGTAATATATTTTTAAGACAAAA
1 GTTAGGGATGTTTTGTAACGAGGTCCTTTAGGTGGTGTACTTTGTAATATATTTTTAAGACAAAA
204422 TACCCTCTTTAAAAAATATATATATTTTGTTGGGGGGGGGTTTAAGCCAACATGTAAGAGATTTA
66 TACCCTCTTTAAAAAATATATATATTTTGTTGGGGGGGGGTTTAAGCCAACATGTAAGAGATTTA
** *
204487 TTTTTAATTTTTCCTCATA
131 TTTTTAATTTTGACTAATA
204506 CGGTTAGGGATGTTTTGTAACGAGGTCCTTTAGGTGGTGTACTTTGTAATATATTTTTAAGACAA
1 --GTTAGGGATGTTTTGTAACGAGGTCCTTTAGGTGGTGTACTTTGTAATATATTTTTAAGACAA
204571 AATACCCTCTTTAAAAAATATATATATTTTGTTGGGGGGGGGGGGGTTTAAGCCAACATGTAAGA
64 AATACCCTCTTTAAAAAATATATATATTTTGTT----GGGGGGGGGTTTAAGCCAACATGTAAGA
204636 GATTTATTTTTAATTTTGAC-AATA
125 GATTTATTTTTAATTTTGACTAATA
204660 -TTAGG
1 GTTAGG
204665 TTGAAATTGG
Statistics
Matches: 150, Mismatches: 3, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
151 101 0.67
154 3 0.02
155 46 0.31
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (149 bp):
GTTAGGGATGTTTTGTAACGAGGTCCTTTAGGTGGTGTACTTTGTAATATATTTTTAAGACAAAA
TACCCTCTTTAAAAAATATATATATTTTGTTGGGGGGGGGTTTAAGCCAACATGTAAGAGATTTA
TTTTTAATTTTGACTAATA
Found at i:204737 original size:113 final size:115
Alignment explanation
Indices: 204584--204813 Score: 428
Period size: 113 Copynumber: 2.0 Consensus size: 115
204574 ACCCTCTTTA
*
204584 AAAAATATATATATTTTGTTGGGGGGGGGGGGGTTTAAGCCAACATGTAAGAGATTTATTTTTAA
1 AAAAATATATATATTTTGTT-GGGGGGAGGGGGTTTAAGCCAACATGTAAGAGATTTATTTTTAA
204649 TTTTGACAATATTAGGTTGAAATTGGAGAATTAGTCTCTCTTCACTGTCAT
65 TTTTGACAATATTAGGTTGAAATTGGAGAATTAGTCTCTCTTCACTGTCAT
204700 AAAAA-ATATATATTTTGTT-GGGGGAGGGGGTTTAAGCCAACATGTAAGAGATTTATTTTTAAT
1 AAAAATATATATATTTTGTTGGGGGGAGGGGGTTTAAGCCAACATGTAAGAGATTTATTTTTAAT
204763 TTTGACAATATTAGGTTGAAATTGGAGAATTAGTCTCTCTTCACTGTCAT
66 TTTGACAATATTAGGTTGAAATTGGAGAATTAGTCTCTCTTCACTGTCAT
204813 A
1 A
204814 CATGGATGTT
Statistics
Matches: 113, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
113 94 0.83
115 14 0.12
116 5 0.04
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (115 bp):
AAAAATATATATATTTTGTTGGGGGGAGGGGGTTTAAGCCAACATGTAAGAGATTTATTTTTAAT
TTTGACAATATTAGGTTGAAATTGGAGAATTAGTCTCTCTTCACTGTCAT
Found at i:207951 original size:2 final size:2
Alignment explanation
Indices: 207944--207973 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
207934 GCATGTAGTC
207944 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
207974 GATGTATAAA
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:214800 original size:16 final size:16
Alignment explanation
Indices: 214766--214806 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
214756 AGTTAACAAC
214766 AATAAAT-TA-ATTAA
1 AATAAATATATATTAA
*
214780 CATAAATATATATTAA
1 AATAAATATATATTAA
*
214796 AATAAAAATAT
1 AATAAATATAT
214807 TTCTATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 6 0.27
15 2 0.09
16 14 0.64
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAAATATATATTAA
Found at i:218632 original size:30 final size:29
Alignment explanation
Indices: 218596--218692 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 29
218586 CGTTGAACTC
*
218596 CCTCCAGTTGTAAAACCTCCAATTACACTT
1 CCTCCAGTTGT-AAACCACCAATTACACTT
* * *
218626 CCTCCAG-TG-AAGCCACCAGTTGA-ACTC
1 CCTCCAGTTGTAAACCACCAATT-ACACTT
218653 CCTCCAGTTGTTAAACCACCAATTACACTT
1 CCTCCAGTTG-TAAACCACCAATTACACTT
218683 CCTCCAGTTG
1 CCTCCAGTTG
218693 AACTTCCTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
27 19 0.35
28 3 0.05
29 3 0.05
30 30 0.55
ACGTcount: A:0.27, C:0.35, G:0.11, T:0.27
Consensus pattern (29 bp):
CCTCCAGTTGTAAACCACCAATTACACTT
Found at i:218648 original size:57 final size:57
Alignment explanation
Indices: 218575--218807 Score: 215
Period size: 57 Copynumber: 4.0 Consensus size: 57
218565 TCCTCCGGTG
* *
218575 GTGAAGCCACCCGTTGAACTCCCTCCAGTTGTAAAACCTCCAATTACACTTCCTCCA
1 GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
*
218632 GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTTAAACCACCAATTACACTTCCTCCA
1 GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
* * * * ** * ** * ***
218689 GTTGAACTTCCTCCAGCAGTGAAAC-CAC-CC--TT-TACACTTCCTCCGGTGAGTGTTCCTCCA
1 G-TGAA--GCCACCAG--TTG-AACTCCCTCCAGTTGTA-A-AACCACCAATTACACTTCCTCCA
218749 GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
1 GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
218806 GT
1 GT
218808 TGAACTACCT
Statistics
Matches: 133, Mismatches: 30, Indels: 26
0.70 0.16 0.14
Matches are distributed among these distances:
54 3 0.02
55 4 0.03
56 2 0.02
57 77 0.58
58 8 0.06
59 9 0.07
60 21 0.16
61 2 0.02
62 4 0.03
63 3 0.02
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.25
Consensus pattern (57 bp):
GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
Found at i:218660 original size:27 final size:27
Alignment explanation
Indices: 218575--218660 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
218565 TCCTCCGGTG
*
218575 GTGAAGCCACCCGTTGAACTCCCTCCA
1 GTGAAGCCACCAGTTGAACTCCCTCCA
* * * *
218602 GTTGTAAAACCTCCAATT-ACACTTCCTCCA
1 G-TG--AAGCCACCAGTTGA-ACTCCCTCCA
218632 GTGAAGCCACCAGTTGAACTCCCTCCA
1 GTGAAGCCACCAGTTGAACTCCCTCCA
218659 GT
1 GT
218661 TGTTAAACCA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
27 21 0.47
28 3 0.07
29 3 0.07
30 18 0.40
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (27 bp):
GTGAAGCCACCAGTTGAACTCCCTCCA
Found at i:218691 original size:45 final size:45
Alignment explanation
Indices: 218641--218732 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
218631 AGTGAAGCCA
** *
218641 CCAGTTGAACTCCCTCCAGTTGTTAAACCACCAATTACACTTCCT
1 CCAGTTGAACTCCCTCCAGCAGTGAAACCACCAATTACACTTCCT
* **
218686 CCAGTTGAACTTCCTCCAGCAGTGAAACCACCCTTTACACTTCCT
1 CCAGTTGAACTCCCTCCAGCAGTGAAACCACCAATTACACTTCCT
218731 CC
1 CC
218733 GGTGAGTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.38, G:0.10, T:0.27
Consensus pattern (45 bp):
CCAGTTGAACTCCCTCCAGCAGTGAAACCACCAATTACACTTCCT
Found at i:218747 original size:132 final size:131
Alignment explanation
Indices: 218606--219068 Score: 657
Period size: 132 Copynumber: 3.6 Consensus size: 131
218596 CCTCCAGTTG
* *
218606 TAAAACCTCCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTTAAACCA
1 TAAAACCACCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
* **
218671 CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCAGTGAAACCACCCTTTACACTTCCTCCGG-
66 CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCAGTAAAACCACCAATTACACTTCCTCCGGT
218735 -
131 C
* * *
218735 T---------GAGT---GTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
1 TAAAACCACCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
* *
218788 CCAATTACACTTCCTCCAGTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCTCCAGC
66 CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCAGTAAAACCACCAATTACACTTCCTCC-GG
218853 TC
130 TC
* * *
218855 TAAAACCACCAATTACACTCCCCCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTTTAAAACCA
1 TAAAACCACCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
**
218920 CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCTCTAAAACCACCAATTACACTTCCTCCGGC
66 CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCAGTAAAACCACCAATTACACTTCCTCCGG-
218985 TC
130 TC
* *
218987 TAAAACCACCAATTACACTTCCTCCAGTGAAGTCACCAGTTGAACTTCCTCCAGTTGTAAAACCA
1 TAAAACCACCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
219052 CCAATTACACTTCCTCC
66 CCAATTACACTTCCTCC
219069 GGTTACTGTT
Statistics
Matches: 294, Mismatches: 24, Indels: 29
0.85 0.07 0.08
Matches are distributed among these distances:
117 104 0.35
118 1 0.00
120 3 0.01
129 3 0.01
131 1 0.00
132 182 0.62
ACGTcount: A:0.29, C:0.36, G:0.10, T:0.25
Consensus pattern (131 bp):
TAAAACCACCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCAGTAAAACCACCAATTACACTTCCTCCGGT
C
Found at i:218775 original size:117 final size:117
Alignment explanation
Indices: 218624--218849 Score: 407
Period size: 117 Copynumber: 1.9 Consensus size: 117
218614 CCAATTACAC
*
218624 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTTAAACCACCAATTACACTTCCTCCA
1 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
* * **
218689 GTTGAACTTCCTCCAGCAGTGAAACCACCCTTTACACTTCCTCCGGTGAGTG
66 GTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCTCCGGTGAGTG
218741 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
1 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
218806 GTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCTCC
66 GTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCTCC
218850 AGCTCTAAAA
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 104 1.00
ACGTcount: A:0.27, C:0.36, G:0.12, T:0.25
Consensus pattern (117 bp):
TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
GTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCTCCGGTGAGTG
Found at i:218809 original size:45 final size:45
Alignment explanation
Indices: 218758--218981 Score: 206
Period size: 45 Copynumber: 5.0 Consensus size: 45
218748 AGTGAAGCCA
*
218758 CCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCT
1 CCAGTTGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
**
218803 CCAGTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCT
1 CCAGTTGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
* * * ** *** * * * * *
218848 CCAGCTCT-AA-AACCACCAATTACACTCCCCCCAGTGA-A--GCCA
1 CCAG-T-TGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
* *
218890 CCAGTTGAACTCCCTCCAGTTTTAAAACCACCAATTACACTTCCT
1 CCAGTTGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
* * *
218935 CCAGTTGAACTTCCTCCAGCTCTAAAACCACCAATTACACTTCCT
1 CCAGTTGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
218980 CC
1 CC
218982 GGCTCTAAAA
Statistics
Matches: 137, Mismatches: 35, Indels: 14
0.74 0.19 0.08
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 21 0.15
43 1 0.01
44 1 0.01
45 106 0.77
46 3 0.02
47 1 0.01
ACGTcount: A:0.30, C:0.38, G:0.08, T:0.24
Consensus pattern (45 bp):
CCAGTTGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
Found at i:218819 original size:72 final size:75
Alignment explanation
Indices: 218686--218882 Score: 197
Period size: 75 Copynumber: 2.7 Consensus size: 75
218676 TACACTTCCT
* * ** * ** *
218686 CCAGTTGAACTTCCTCCAGCAGTGAAACCACCCTTTACACTTCCTCC-GGTGAGTGTTCCT-C-C
1 CCAGTTGAACTTCCTCCAGCTGTAAAACCACCAATTACACTTCCTCCAGTTGAGACTACCTCCAC
* *
218748 AGTGAAGCCA
66 AGTAAAACCA
* *
218758 CCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCAGTTGA-ACTACCTCCAG
1 CCAGTTGAACTTCCTCCAGCTGTAAAACCACCAATTACACTTCCTCCAGTTGAGACTACCTCCA-
218822 CAGTAAAACCA
65 CAGTAAAACCA
* * * *
218833 CCAATT-ACACTTCCTCCAGCTCTAAAACCACCAATTACACTCCCCCCAGT
1 CCAGTTGA-ACTTCCTCCAGCTGTAAAACCACCAATTACACTTCCTCCAGT
218883 GAAGCCACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
72 45 0.44
73 5 0.05
74 1 0.01
75 51 0.50
ACGTcount: A:0.28, C:0.37, G:0.12, T:0.23
Consensus pattern (75 bp):
CCAGTTGAACTTCCTCCAGCTGTAAAACCACCAATTACACTTCCTCCAGTTGAGACTACCTCCAC
AGTAAAACCA
Found at i:218820 original size:15 final size:15
Alignment explanation
Indices: 218758--218821 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
218748 AGTGAAGCCA
*
218758 CCAGTTGAACTCCCT
1 CCAGTTGAACTACCT
* *
218773 CCAGTTGTAA-AACCA
1 CCAGTTG-AACTACCT
* *
218788 CCAATT-ACACTTCCT
1 CCAGTTGA-ACTACCT
218803 CCAGTTGAACTACCT
1 CCAGTTGAACTACCT
218818 CCAG
1 CCAG
218822 CAGTAAAACC
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
13 1 0.03
14 1 0.03
15 31 0.86
16 3 0.08
ACGTcount: A:0.28, C:0.36, G:0.11, T:0.25
Consensus pattern (15 bp):
CCAGTTGAACTACCT
Found at i:218939 original size:30 final size:29
Alignment explanation
Indices: 218825--218940 Score: 121
Period size: 30 Copynumber: 4.0 Consensus size: 29
218815 CCTCCAGCAG
* *
218825 TAAAACCACCAATTACACTTCCTCCAGCTC
1 TAAAACCACCAATTACACTCCCTCCAG-TT
*
218855 TAAAACCACCAATTACACTCCCCCCAG--
1 TAAAACCACCAATTACACTCCCTCCAGTT
* * *
218882 TGAAGCCACCAGTTGA-ACTCCCTCCAGTTT
1 TAAAACCACCAATT-ACACTCCCTCCAG-TT
*
218912 TAAAACCACCAATTACACTTCCTCCAGTT
1 TAAAACCACCAATTACACTCCCTCCAGTT
218941 GAACTTCCTC
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
27 21 0.30
28 1 0.01
29 3 0.04
30 46 0.65
ACGTcount: A:0.32, C:0.38, G:0.07, T:0.23
Consensus pattern (29 bp):
TAAAACCACCAATTACACTCCCTCCAGTT
Found at i:218979 original size:30 final size:30
Alignment explanation
Indices: 218943--219068 Score: 152
Period size: 30 Copynumber: 4.3 Consensus size: 30
218933 CTCCAGTTGA
218943 ACTTCCTCCAGCTCTAAAACCACCAATTAC
1 ACTTCCTCCAGCTCTAAAACCACCAATTAC
*
218973 ACTTCCTCCGGCTCTAAAACCACCAATTAC
1 ACTTCCTCCAGCTCTAAAACCACCAATTAC
* ** *
219003 ACTTCCTCCAG---TGAAGTCACCAGTTGA-
1 ACTTCCTCCAGCTCTAAAACCACCAATT-AC
* *
219030 ACTTCCTCCAGTTGTAAAACCACCAATTAC
1 ACTTCCTCCAGCTCTAAAACCACCAATTAC
219060 ACTTCCTCC
1 ACTTCCTCC
219069 GGTTACTGTT
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
27 21 0.26
28 1 0.01
29 1 0.01
30 58 0.72
ACGTcount: A:0.29, C:0.37, G:0.08, T:0.25
Consensus pattern (30 bp):
ACTTCCTCCAGCTCTAAAACCACCAATTAC
Found at i:219024 original size:102 final size:100
Alignment explanation
Indices: 218841--219043 Score: 223
Period size: 102 Copynumber: 2.0 Consensus size: 100
218831 CACCAATTAC
* * * *
218841 ACTTCCTCCAGCTCTAAAACCACCAATTACACTCCCCCCAGTGAAGCCACCAGTTGAACTCCCTC
1 ACTTCCTCCAGCTCTAAAACCACCAATTACACTCCCCCCACTAAAACCACCAATTGAACTCCCTC
218906 CAGTTTTAAAACCACCAATT-ACACTTCCTCCAGTTGA
66 CAG--TTAAAACCACCAATTGA-ACTTCCTCCAGTTGA
* * *
218943 ACTTCCTCCAGCTCTAAAACCACCAATTACACTTCCTCCGGCTCTAAAACCACCAATT-ACACTT
1 ACTTCCTCCAGCTCTAAAACCACCAATTACAC-TCC-CC-CCACTAAAACCACCAATTGA-ACTC
* ** *
219007 CCTCCAG-TGAAGTCACCAGTTGAACTTCCTCCAGTTG
62 CCTCCAGTTAAAACCACCAATTGAACTTCCTCCAGTTG
219044 TAAAACCACC
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
102 56 0.66
103 4 0.05
104 3 0.04
105 22 0.26
ACGTcount: A:0.29, C:0.37, G:0.09, T:0.25
Consensus pattern (100 bp):
ACTTCCTCCAGCTCTAAAACCACCAATTACACTCCCCCCACTAAAACCACCAATTGAACTCCCTC
CAGTTAAAACCACCAATTGAACTTCCTCCAGTTGA
Found at i:219080 original size:15 final size:15
Alignment explanation
Indices: 219062--219143 Score: 74
Period size: 15 Copynumber: 5.5 Consensus size: 15
219052 CCAATTACAC
* *
219062 TTCCTCCGGTTACTG
1 TTCCTCCGGTCACCG
* *
219077 TTCCTCCAGTCACGG
1 TTCCTCCGGTCACCG
* *
219092 TCCCTCCGGTGACCG
1 TTCCTCCGGTCACCG
* *
219107 TTCCTCCAGTCACGG
1 TTCCTCCGGTCACCG
* *
219122 TCCCTCCGGTGACCG
1 TTCCTCCGGTCACCG
219137 TTCCTCC
1 TTCCTCC
219144 TGTACTGAAG
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 51 1.00
ACGTcount: A:0.09, C:0.43, G:0.21, T:0.28
Consensus pattern (15 bp):
TTCCTCCGGTCACCG
Found at i:219100 original size:30 final size:30
Alignment explanation
Indices: 219064--219143 Score: 142
Period size: 30 Copynumber: 2.7 Consensus size: 30
219054 AATTACACTT
* *
219064 CCTCCGGTTACTGTTCCTCCAGTCACGGTC
1 CCTCCGGTGACCGTTCCTCCAGTCACGGTC
219094 CCTCCGGTGACCGTTCCTCCAGTCACGGTC
1 CCTCCGGTGACCGTTCCTCCAGTCACGGTC
219124 CCTCCGGTGACCGTTCCTCC
1 CCTCCGGTGACCGTTCCTCC
219144 TGTACTGAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.09, C:0.44, G:0.21, T:0.26
Consensus pattern (30 bp):
CCTCCGGTGACCGTTCCTCCAGTCACGGTC
Found at i:224675 original size:22 final size:22
Alignment explanation
Indices: 224628--224705 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 22
224618 TATGGGCTAA
* *
224628 GGGAATCGGTA-CCATTC-AAT
1 GGGAATCGATACCCATTCAAAG
* * *
224648 GGGAATCGATACCTATTTAAGG
1 GGGAATCGATACCCATTCAAAG
*
224670 GGGAATCGGTACCCATTCAAAG
1 GGGAATCGATACCCATTCAAAG
224692 GGGAATCGATACCC
1 GGGAATCGATACCC
224706 CCTCAACCGA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
20 10 0.22
21 4 0.09
22 32 0.70
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (22 bp):
GGGAATCGATACCCATTCAAAG
Found at i:226372 original size:104 final size:104
Alignment explanation
Indices: 226171--226392 Score: 259
Period size: 105 Copynumber: 2.1 Consensus size: 104
226161 GAGTCGAGGG
*
226171 TCTACGCGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGAGACACGT
1 TCTACGTGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGAGACACGT
* * * *
226236 ATTTGGTCTTTAGCATATGTATATGATTCTTAAAGAATTT
66 ACTTGATCCTTAGCACATGTATATGATTCTTAAAGAA-TT
* * * * * *
226276 TCTACGTGGTCCTTCGGGACGTATATGTATTCTTTGGAGCATAC-ATGAGGT-CTTTGAGACACT
1 TCTACGTGGTCCTTCGGGACATATAGGTATCCTATGGAACAT-CTATGAGGTCCTTTGAGACACG
* * * *
226339 TACTTGATCCTTGGTACATGTATATGGTTCTTAAGGAATT
65 TACTTGATCCTTAGCACATGTATATGATTCTTAAAGAATT
* *
226379 TATATGTGGTCCTT
1 TCTACGTGGTCCTT
226393 ATGGACAATC
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
103 14 0.14
104 41 0.41
105 43 0.43
106 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (104 bp):
TCTACGTGGTCCTTCGGGACATATAGGTATCCTATGGAACATCTATGAGGTCCTTTGAGACACGT
ACTTGATCCTTAGCACATGTATATGATTCTTAAAGAATT
Found at i:226454 original size:23 final size:24
Alignment explanation
Indices: 226409--226454 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
226399 AATCTTATAT
*
226409 GGCACTACGGTGCAAATTCTACGC
1 GGCACTACGGTGCAAATTATACGC
*
226433 GGCACTTCGGTGC-AATTATACG
1 GGCACTACGGTGCAAATTATACG
226455 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (24 bp):
GGCACTACGGTGCAAATTATACGC
Done.