Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005264.1 Hibiscus syriacus cultivar Beakdansim tig00011907_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: 146538
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:2809 original size:21 final size:21
Alignment explanation
Indices: 2783--2826 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
2773 GAAACACTAG
2783 GTCTAACAAATCACTTATCAA
1 GTCTAACAAATCACTTATCAA
2804 GTCTAACAAATCACTTATCAA
1 GTCTAACAAATCACTTATCAA
2825 GT
1 GT
2827 AGCTCTTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (21 bp):
GTCTAACAAATCACTTATCAA
Found at i:10034 original size:21 final size:22
Alignment explanation
Indices: 9998--10038 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9988 TTTAAAAATA
*
9998 TAAAGGAAGTATCGATACTCAT
1 TAAAGGAAGTACCGATACTCAT
10020 TAAAGG-AGTACCGATACTC
1 TAAAGGAAGTACCGATACTC
10039 TCGGTCCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (22 bp):
TAAAGGAAGTACCGATACTCAT
Found at i:18219 original size:24 final size:24
Alignment explanation
Indices: 18192--18246 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
18182 AAACGGAGAT
**
18192 ATCAGAAATCAAAACAGAATTTAG
1 ATCAGAAATCAAAACAGAATCCAG
* *
18216 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATCCAG
18240 ATCAGAA
1 ATCAGAA
18247 TTCAGGTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATCCAG
Found at i:18221 original size:12 final size:12
Alignment explanation
Indices: 18192--18251 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
18182 AAACGGAGAT
* *
18192 ATCAGAAATCAA
1 ATCAGAATTCAG
* *
18204 AACAGAATTTAG
1 ATCAGAATTCAG
18216 ATCAG-ATATCAG
1 ATCAGAAT-TCAG
* *
18228 AACAGAATCCAG
1 ATCAGAATTCAG
18240 ATCAGAATTCAG
1 ATCAGAATTCAG
18252 GTAATGTATC
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
11 2 0.06
12 32 0.89
13 2 0.06
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (12 bp):
ATCAGAATTCAG
Found at i:20713 original size:24 final size:24
Alignment explanation
Indices: 20686--20794 Score: 123
Period size: 24 Copynumber: 4.5 Consensus size: 24
20676 AAACGGAGAT
*
20686 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
20710 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
20734 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
20758 GTAATG-TATCAGAACAGAATTCA-
1 ATCA-GAAATCAGAACAGAATTCAG
*
20781 AGTCGGAAATCAGA
1 A-TCAGAAATCAGA
20795 TAAAATATTT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
23 1 0.01
24 68 0.97
25 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:20715 original size:12 final size:12
Alignment explanation
Indices: 20688--20757 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
20678 ACGGAGATAT
* *
20688 CAGAAATCAAAA
1 CAGAATTCAGAA
*
20700 CAGAATTCAGAT
1 CAGAATTCAGAA
20712 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
20724 CAGAATCCAGAT
1 CAGAATTCAGAA
*
20736 CAGAAATCAGAA
1 CAGAATTCAGAA
20748 CAGAATTCAG
1 CAGAATTCAG
20758 GTAATGTATC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.50, C:0.19, G:0.16, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:20757 original size:48 final size:47
Alignment explanation
Indices: 20686--20794 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 47
20676 AAACGGAGAT
* *
20686 ATCAGAAATCAAAACAGAATTCAGATCA-GATATCAGAACAGAATCCA
1 ATCAGAAATCAGAACAGAATTCAGATAATG-TATCAGAACAGAATCCA
* *
20733 GATCAGAAATCAGAACAGAATTCAGGTAATGTATCAGAACAGAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGATAATGTATCAGAACAGAATCCA
*
20781 AGTCGGAAATCAGA
1 A-TCAGAAATCAGA
20795 TAAAATATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 1 0.02
48 52 0.96
49 1 0.02
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGATAATGTATCAGAACAGAATCCA
Found at i:23761 original size:21 final size:21
Alignment explanation
Indices: 23736--23786 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
23726 TCGAAGTCCG
23736 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
*
23757 TGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
*
23778 CATTGCGAT
1 CGTTGCGAT
23787 AGTCCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:24421 original size:6 final size:6
Alignment explanation
Indices: 24405--24442 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
24395 TCTCGTCTCG
*
24405 GGTCG- GGTCGT GGTCGT GGTCGT GGTTGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
24443 AATACGTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.00, C:0.13, G:0.53, T:0.34
Consensus pattern (6 bp):
GGTCGT
Found at i:24565 original size:21 final size:19
Alignment explanation
Indices: 24532--25124 Score: 214
Period size: 21 Copynumber: 28.6 Consensus size: 19
24522 CGTTGCGATT
* *
24532 TTGGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
*
24551 TTGGAATAAATCGCAATGCAAAC
1 TTGGAAT--ATCGCAA--CGAAC
* * *
24574 TTTGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
*
24593 TTAGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA--CGAAC
* *
24616 TTGGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
*
24635 TTGGAAAATCGCAACGCGAAC
1 TTGGAATATCGCAA--CGAAC
* *
24656 TTGGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
24675 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA--CGAAC
*
24698 TTGGAATAAATCACAACGCGAAC
1 TTGGAAT--ATCGCAA--CGAAC
* * * * *
24721 TTCGACTATTGTAACGAAT
1 TTGGAATATCGCAACGAAC
24740 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA--CGAAC
* *
24763 TTCGACTATCGCAACGCGAAC
1 TTGGAATATCGCAA--CGAAC
* * ** *
24784 TTCGACTATCATAACGAAT
1 TTGGAATATCGCAACGAAC
*
24803 TTGGAAAATCGCAACGCGAAC
1 TTGGAATATCGCAA--CGAAC
* *
24824 TTGGACTATTGCAACGCGAAC
1 TTGGAATATCGCAA--CGAAC
* *
24845 TTCGACTATCGCAACGAAC
1 TTGGAATATCGCAACGAAC
*
24864 TTAGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA--CGAAC
* *
24887 TTCGACTATCGCAACACGAAC
1 TTGGAATATCGC-A-ACGAAC
* *
24908 TTGGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
* * * *
24927 TTGTAATAAATCACAATGCAAAA
1 TTGGAAT--ATCGCAA--CGAAC
* * *
24950 TTCGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
* *
24969 TTGGAATAAATCGTAACGAAT
1 TTGGAAT--ATCGCAACGAAC
24990 TTGGAATAAATCGCAACGAGAAC
1 TTGGAAT--ATCGCAAC--GAAC
* * *
25013 TTCGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
* *
25032 TTGAAAAATCGCAACGCGAAC
1 TTGGAATATCGCAA--CGAAC
* * * * *
25053 TTGGACTACCACAACAAAT
1 TTGGAATATCGCAACGAAC
*
25072 TTGGAAAATCGCAATGCGAAC
1 TTGGAATATCGCAA--CGAAC
* *
25093 TTCGACTATCGCAACGCGAAC
1 TTGGAATATCGCAA--CGAAC
*
25114 TTGGACTATCG
1 TTGGAATATCG
25125 TAATGCGAAT
Statistics
Matches: 439, Mismatches: 97, Indels: 74
0.72 0.16 0.12
Matches are distributed among these distances:
19 116 0.26
20 1 0.00
21 238 0.54
22 1 0.00
23 83 0.19
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (19 bp):
TTGGAATATCGCAACGAAC
Found at i:24594 original size:42 final size:42
Alignment explanation
Indices: 24532--24986 Score: 348
Period size: 42 Copynumber: 10.9 Consensus size: 42
24522 CGTTGCGATT
* *
24532 TTGGACTATCGCAACGAATTTGGAATAAATCGCAATGCAAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* *
24574 TTTGACTATCGCAACGAATTTAGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
24616 TTGGACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
24656 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * * * * * * *
24698 TTGGAATAAATCACAACGCGAACTTCGACT--ATTGTAA--CGAAT
1 TTGGACT--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAAC
* * * *
24740 TTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAAC
* **
24784 TTCGACTATCATAACGAATTTGG-A-AAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* * * *
24824 TTGGACTATTGCAACGCGAACTTCGACT--ATCGCAA--CGAAC
1 TTGGACTATCGCAA--CGAATTTGGAATAAATCGCAACGCGAAC
* * * * * *
24864 TTAGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACACGAAC
1 TTGGACT--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAAC
* * * * *
24908 TTGGACTATCGCAACGAATTTGTAATAAATCACAATGCAAAA
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
* *
24950 TTCGACTATCGCAACGAATTTGGAATAAATCGTAACG
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACG
24987 AATTTGGAAT
Statistics
Matches: 342, Mismatches: 51, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
40 88 0.26
41 2 0.01
42 213 0.62
44 30 0.09
46 9 0.03
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
Found at i:24807 original size:63 final size:63
Alignment explanation
Indices: 24535--25028 Score: 522
Period size: 63 Copynumber: 7.9 Consensus size: 63
24525 TGCGATTTTG
* * * * *
24535 GACTATCGCAACGAATTTGGAATAAATCGCAATGCAAACTTTGACTATCGCAA--CGAATTTA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTC
* * * * * **
24596 GAATAAATCGCAACGCGAACTTGGACT--ATCGCAA--CGAATTTGGAAAATCGCAACGCGAACT
1 GACT--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACT
*
24657 TG
62 TC
* * *
24659 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAATAAATCACAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTC
* *
24724 GACTATTGTAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTC
** * *
24787 GACTATCATAACGAATTTGG-A-AAATCGCAACGCGAACTTGGACTATTGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTC
* * * *
24848 GACTATCGCAACGAACTTAGAATAAATCGCAACGCGAACTTCGACTATCGCAACACGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTC
* * * * * * *
24911 GACTATCGCAACGAATTTGTAATAAATCACAATGCAAAATTCGACTATCGCAA--CGAATTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTC
* * *
24972 GAATAAATCGTAACGAATTTGGAATAAATCGCAACGAGAACTTCGACTATCGCAACG
1 GACT--ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACG
25029 AATTTGAAAA
Statistics
Matches: 365, Mismatches: 50, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
59 10 0.03
61 95 0.26
62 2 0.01
63 191 0.52
65 67 0.18
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (63 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTC
Found at i:25172 original size:21 final size:21
Alignment explanation
Indices: 25148--25194 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
25138 TAAATCGCAA
*
25148 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAATTCGCGT
*
25169 TGCGATAGTTGAAATTCGCGT
1 TGCGATAGTCGAAATTCGCGT
25190 TGCGA
1 TGCGA
25195 ATTATCGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (21 bp):
TGCGATAGTCGAAATTCGCGT
Found at i:33456 original size:2 final size:2
Alignment explanation
Indices: 33444--33490 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
33434 AAAAATTTAA
33444 AT AT CAT 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
33487 AT AT
1 AT AT
33491 TACAACATCA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:42191 original size:37 final size:36
Alignment explanation
Indices: 42116--42191 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
42106 TTTTTATATT
*
42116 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
42152 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
42189 TTT
1 TTT
42192 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:47502 original size:23 final size:23
Alignment explanation
Indices: 47470--47513 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
47460 TAATAACCAT
47470 GAAGACAAAGAAAACGGTGATAC
1 GAAGACAAAGAAAACGGTGATAC
*
47493 GAAGATAAAGAAAACGGTGAT
1 GAAGACAAAGAAAACGGTGAT
47514 CTTCTATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.27, T:0.11
Consensus pattern (23 bp):
GAAGACAAAGAAAACGGTGATAC
Found at i:50564 original size:18 final size:18
Alignment explanation
Indices: 50538--50573 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
50528 GATCTTTTAT
50538 ATAAAAGTTCTAGCTAAG
1 ATAAAAGTTCTAGCTAAG
* *
50556 ATAAGAGTTCTAGTTAAG
1 ATAAAAGTTCTAGCTAAG
50574 TTAGAAGTTA
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:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (18 bp):
ATAAAAGTTCTAGCTAAG
Found at i:53805 original size:37 final size:36
Alignment explanation
Indices: 53733--53807 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 36
53723 TTATAGCATG
* * *
53733 ATAAATATTTTATTTTATATTTTTATTATATTTTAGA
1 ATAAATA-TTTATGTTATATGTTTAATATATTTTAGA
53770 ATAAATA-TTATGTTATATGTTTAATATAATATTTAGA
1 ATAAATATTTATGTTATATGTTTAATAT-AT-TTTAGA
53807 A
1 A
53808 AATATGTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 17 0.52
36 2 0.06
37 14 0.42
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (36 bp):
ATAAATATTTATGTTATATGTTTAATATATTTTAGA
Found at i:60266 original size:37 final size:37
Alignment explanation
Indices: 60223--60428 Score: 221
Period size: 37 Copynumber: 5.8 Consensus size: 37
60213 AAATGTCGTC
60223 TCACTTGAGACATTTTTCTCTTAAAACAAATTTTGTT
1 TCACTTGAGACATTTTTCTCTTAAAACAAATTTTGTT
* * **
60260 TCACTTGAGACATTTTTCT-TCAGAAC-AA--TAATT
1 TCACTTGAGACATTTTTCTCTTAAAACAAATTTTGTT
* *** * *
60293 TCA---AAGTTGTTTTTCT-TAAAAACAAATTTTGTC
1 TCACTTGAGACATTTTTCTCTTAAAACAAATTTTGTT
* *
60326 TCGCTTGAGACATTTTTCTCTTAAAACAAATTTTGTC
1 TCACTTGAGACATTTTTCTCTTAAAACAAATTTTGTT
*
60363 TCGCTTGAGACATTTTTCTCTTAAAACAAATTTTGTT
1 TCACTTGAGACATTTTTCTCTTAAAACAAATTTTGTT
* *
60400 TCACTTGAGATATTTTTCTCTCAAAACAA
1 TCACTTGAGACATTTTTCTCTTAAAACAA
60429 GCATCGTCAC
Statistics
Matches: 139, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
30 14 0.10
31 2 0.01
33 10 0.07
35 2 0.01
36 14 0.10
37 97 0.70
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (37 bp):
TCACTTGAGACATTTTTCTCTTAAAACAAATTTTGTT
Found at i:60358 original size:18 final size:18
Alignment explanation
Indices: 60337--60396 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
60327 CGCTTGAGAC
60337 ATTTTTCTCTTAAAACAA
1 ATTTTTCTCTTAAAACAA
* *
60355 ATTTTGTCTCGCTTGAGAC--
1 ATTTT-TCT--CTTAAAACAA
60374 ATTTTTCTCTTAAAACAA
1 ATTTTTCTCTTAAAACAA
60392 ATTTT
1 ATTTT
60397 GTTTCACTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 6 0.18
18 13 0.39
19 8 0.24
21 6 0.18
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (18 bp):
ATTTTTCTCTTAAAACAA
Found at i:60377 original size:19 final size:18
Alignment explanation
Indices: 60318--60382 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
60308 TTAAAAACAA
60318 ATTTTGTCTCGCTTGAGAC
1 ATTTT-TCTCGCTTGAGAC
* *
60337 ATTTTTCT--CTTAAAAC
1 ATTTTTCTCGCTTGAGAC
60353 AAATTTTGTCTCGCTTGAGAC
1 --ATTTT-TCTCGCTTGAGAC
60374 ATTTTTCTC
1 ATTTTTCTC
60383 TTAAAACAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
16 6 0.16
18 12 0.32
19 13 0.35
21 6 0.16
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (18 bp):
ATTTTTCTCGCTTGAGAC
Found at i:60442 original size:74 final size:73
Alignment explanation
Indices: 60302--60450 Score: 199
Period size: 74 Copynumber: 2.0 Consensus size: 73
60292 TTCAAAGTTG
* * ** * *
60302 TTTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACATTTTTCTCTTAAAACAAATTTTGTCTCGC
1 TTTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTCAAAACAAACATCGTCACGC
60367 TTGAGACA
66 TTGAGACA
* * * *
60375 TTTTTCTCTTAAAACAAATTTTGTTTCACTTGAGATATTTTTCTCTCAAAACAAGCATCGTCACG
1 TTTTTCT-TAAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTCAAAACAAACATCGTCACG
60440 CTTGAGACA
65 CTTGAGACA
60449 TT
1 TT
60451 CTCCCAAAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 7 0.11
74 58 0.89
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.42
Consensus pattern (73 bp):
TTTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTCAAAACAAACATCGTCACGC
TTGAGACA
Found at i:60667 original size:36 final size:35
Alignment explanation
Indices: 60565--60667 Score: 109
Period size: 34 Copynumber: 2.9 Consensus size: 35
60555 CTTTGAATGT
* * *
60565 GTTTTCCTTGAAACAAAATTTTATCTCCCTTGAGACA
1 GTTTCCCTTGAAAC-AAA-TTTGTCTCCCTTGAAACA
* *
60602 GTTTCTCTTGAAACAAA-TTGTCTCCCTTGAAATA
1 GTTTCCCTTGAAACAAATTTGTCTCCCTTGAAACA
* *
60636 GTTTCCCTTAAAACAAACTTTGTCTCACTTGA
1 GTTTCCCTTGAAACAAA-TTTGTCTCCCTTGA
60668 GACATTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
34 29 0.52
36 15 0.27
37 12 0.21
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (35 bp):
GTTTCCCTTGAAACAAATTTGTCTCCCTTGAAACA
Found at i:60726 original size:76 final size:74
Alignment explanation
Indices: 60642--60820 Score: 191
Period size: 74 Copynumber: 2.4 Consensus size: 74
60632 AATAGTTTCC
* * * * * *
60642 CTTAAAACAAACTTTGTCTCACTTGAGACATTTTTTTCTCACAACAAGACAT-TTCGTTTCA-TT
1 CTTAAAACAAAATTTGTCTCGCTTGAGACA--TTTTACTCAAAACAAGA-ATATTCATTTCACTC
*
60705 ACAGATTATTTTT
63 A-AAATTATTTTT
* * *
60718 CTTAAAACATATTTTGTCTCGCTTAAGACATTTTACTCAAAACAAGAATATTCATTTCACTCAAA
1 CTTAAAACAAAATTTGTCTCGCTTGAGACATTTTACTCAAAACAAGAATATTCATTTCACTCAAA
*
60783 ATTGTTTTT
66 ATTATTTTT
*
60792 CTTAAAACCAAAATTTATCTCGCTTGAGA
1 CTTAAAA-CAAAATTTGTCTCGCTTGAGA
60821 TAGTTTCCCT
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
73 2 0.02
74 39 0.45
75 19 0.22
76 26 0.30
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.40
Consensus pattern (74 bp):
CTTAAAACAAAATTTGTCTCGCTTGAGACATTTTACTCAAAACAAGAATATTCATTTCACTCAAA
ATTATTTTT
Found at i:61126 original size:59 final size:54
Alignment explanation
Indices: 60883--61134 Score: 141
Period size: 51 Copynumber: 4.7 Consensus size: 54
60873 AAAAAAAGAC
* * * *
60883 TTTTAGAAACTAAGCCTGATTTTCGGGGGTTTCTCGATG---TTTTCAAATGAACT
1 TTTTAGAAACTAAGCCTAATTTT-AGGGGTTTCTTGATGATATTTTCAAATG-AGT
*** * * * *
60936 TGAAAGAAGA-TAAACCTAATTTTA-AGGTTTCTTAATG-T-TTTT-AAATGAAT
1 TTTTAGAA-ACTAAGCCTAATTTTAGGGGTTTCTTGATGATATTTTCAAATGAGT
** * * *
60986 TTCAAAGAAATTAAACCTAATTTTTAGGGATTT-TT--TGATATTTTCAAATGAGT
1 TT-TTAGAAACTAAGCCTAA-TTTTAGGGGTTTCTTGATGATATTTTCAAATGAGT
* *
61039 TTTTAGAAACTAAGCATGATTTTCAGGGGTTTCTTGATGATGATTTTC-AATGAGT
1 TTTTAGAAACTAAGCCTAATTTT-AGGGGTTTCTTGATGAT-ATTTTCAAATGAGT
*
61094 TTTTAAAAGGAAACTAAGCCTAATTCTTAGGGGTTCCTTGA
1 TTTT---A-GAAACTAAGCCTAATT-TTAGGGGTTTCTTGA
61135 CAACTAAGAA
Statistics
Matches: 156, Mismatches: 24, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
50 6 0.04
51 35 0.22
52 33 0.21
53 31 0.20
54 1 0.01
55 15 0.10
56 6 0.04
58 1 0.01
59 26 0.17
60 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TTTTAGAAACTAAGCCTAATTTTAGGGGTTTCTTGATGATATTTTCAAATGAGT
Found at i:61224 original size:41 final size:41
Alignment explanation
Indices: 61179--61257 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
61169 TTGATAAGTA
*
61179 AGTCTTTCGATCATGATGCTTAAATTCTTCAGGTCATCAGT
1 AGTCTTTCGAGCATGATGCTTAAATTCTTCAGGTCATCAGT
* *
61220 AGTCTTTCGAGCATTATGCTTAAATTCTTCATGTCATC
1 AGTCTTTCGAGCATGATGCTTAAATTCTTCAGGTCATC
61258 TACAAGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (41 bp):
AGTCTTTCGAGCATGATGCTTAAATTCTTCAGGTCATCAGT
Found at i:62340 original size:105 final size:105
Alignment explanation
Indices: 62158--62510 Score: 544
Period size: 105 Copynumber: 3.4 Consensus size: 105
62148 GGATAAATCG
** * *
62158 ATCAACATTTTTATAAGAGTTCATAATGAGAAGAACTCATCCTAAAGGAGAAGGTTCGTAATGAG
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAGGTTCGTAATGAG
* *
62223 AAGAACTTGTTCCTTTCAAATCCACCCCAGAAGGAGGTGA
66 AAGAGCATGTTCCTTTCAAATCCACCCCAGAAGGAGGTGA
*
62263 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAAATCGTCCTAAAGGAGAAGGTTCGTAATGAG
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAGGTTCGTAATGAG
**
62328 AAGAGCATGTTCCTTTCAAATCCACCGTAGAAGGAGGTGA
66 AAGAGCATGTTCCTTTCAAATCCACCCCAGAAGGAGGTGA
* * * * * *
62368 ACCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTTGTCTTGAAGGAGAAGGATCGTAATGAG
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAGGTTCGTAATGAG
* *
62433 AAGAGCATGTTCCCTTCAAATTCACCCCAGAAGGAGGTGA
66 AAGAGCATGTTCCTTTCAAATCCACCCCAGAAGGAGGTGA
*
62473 ATCAACATTTTCAGAAGAGTTCATAATGAGAAGAACTC
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
62511 ATCCGACAAA
Statistics
Matches: 224, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 224 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (105 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAGGTTCGTAATGAG
AAGAGCATGTTCCTTTCAAATCCACCCCAGAAGGAGGTGA
Found at i:65206 original size:15 final size:16
Alignment explanation
Indices: 65176--65206 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65166 GAAACAATTC
65176 TTTTACAAAATCAAGT
1 TTTTACAAAATCAAGT
65192 TTTTACAAAAT-AAGT
1 TTTTACAAAATCAAGT
65207 CGAGACTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (16 bp):
TTTTACAAAATCAAGT
Found at i:66873 original size:62 final size:62
Alignment explanation
Indices: 66771--66941 Score: 150
Period size: 62 Copynumber: 2.7 Consensus size: 62
66761 TTATTTAAGG
* * * ***
66771 TGCATCGATGCACATGAAGTGCATCGATGCA-TTAATTTAAAAAAAACATCGAAT-GCCATCGA
1 TGCATCGATGCATAAGGAGTGCATCGATGCACCCCA-TTAAAAAAAACATCGAATAG-CATCGA
* * **
66833 TGCATCGATGCATAAGGAGTGCATCGATGCACCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCACCCCATTAAA-AAAAACATCGAATAGCATCGA
*
66896 TGCATCGATGCAT-GGTGTAGTGCATCGATGCATACCTCCATTAAAA
1 TGCATCGATGCATAAG-G-AGTGCATCGATGC--ACC-CCATTAAAA
66942 GATGAAAATG
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
62 34 0.38
63 30 0.33
64 14 0.16
66 4 0.04
67 8 0.09
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (62 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCACCCCATTAAAAAAAACATCGAATAGCATCGA
Found at i:67548 original size:23 final size:23
Alignment explanation
Indices: 67518--67578 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
67508 GACATTACTA
67518 CGGTGCAATTCTACGCGGCACTC
1 CGGTGCAATTCTACGCGGCACTC
* *
67541 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTC
*
67564 CGGTGCAATTATACG
1 CGGTGCAATTCTACG
67579 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (23 bp):
CGGTGCAATTCTACGCGGCACTC
Found at i:71813 original size:20 final size:21
Alignment explanation
Indices: 71788--71839 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
71778 TTTTCCCAAT
*
71788 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
71808 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
71829 TCGCAATGCGA
1 TCGCAATGCGA
71840 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:71853 original size:20 final size:20
Alignment explanation
Indices: 71828--71922 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
71818 AATTGGGAAA
*
71828 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
71848 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
71869 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
71889 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
71909 TTCGCAACGCGATA
1 ATCGCAACGCGATA
71923 ATACATAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.73
21 13 0.21
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:72138 original size:22 final size:22
Alignment explanation
Indices: 72110--72153 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
72100 CACTCTCTCA
72110 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
72132 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
72154 TATCTCCATC
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:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:72470 original size:20 final size:20
Alignment explanation
Indices: 72416--72474 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
72406 GCGATTCTCT
**
72416 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
72436 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
72456 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
72475 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:73813 original size:18 final size:18
Alignment explanation
Indices: 73792--73836 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
73782 TCCACTTTGG
*
73792 GAGCTATCACCTCGCCCA
1 GAGCTATCACCTCACCCA
73810 GAGCTATCACCTCACCCA
1 GAGCTATCACCTCACCCA
*
73828 GAGCCATCA
1 GAGCTATCA
73837 TCTGATCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCTATCACCTCACCCA
Found at i:74372 original size:19 final size:20
Alignment explanation
Indices: 74318--74384 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
74308 TAGTTTACTT
* *
74318 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
74338 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
74358 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
74377 TCGCAACG
1 TCGCAACG
74385 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:74392 original size:14 final size:14
Alignment explanation
Indices: 74373--74430 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
74363 ATGCGAAATG
74373 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
74387 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
74403 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
74419 AAAATCGCAACG
1 AAAATCGCAACG
74431 CGAAATGAAA
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:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:74415 original size:32 final size:33
Alignment explanation
Indices: 74357--74447 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
74347 GGAAATGGCT
74357 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
74390 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
74422 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
74448 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:74523 original size:20 final size:20
Alignment explanation
Indices: 74489--74544 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
74479 GTTGCGATTT
*
74489 CATTTC-GCATTGCGATAGC
1 CATTTCTGCGTTGCGATAGC
*
74508 CATTTCTGCGTTGCGATAGT
1 CATTTCTGCGTTGCGATAGC
74528 CATTT-TCGCGTTGCGAT
1 CATTTCT-GCGTTGCGAT
74545 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 7 0.21
20 26 0.79
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
CATTTCTGCGTTGCGATAGC
Found at i:75522 original size:31 final size:31
Alignment explanation
Indices: 75484--75639 Score: 224
Period size: 31 Copynumber: 5.0 Consensus size: 31
75474 CCCGAAGGAC
* * *
75484 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
75515 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* * * *
75546 CAGTCCGTATGTTCTGAAGAACATAGGTAAT
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
75577 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
75608 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
75639 C
1 C
75640 CCTCGACCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 110 0.99
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:76360 original size:21 final size:21
Alignment explanation
Indices: 76330--76374 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
76320 ATTCTGTCGT
* *
76330 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
76351 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
76372 TTG
1 TTG
76375 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:78819 original size:19 final size:19
Alignment explanation
Indices: 78795--78859 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
78785 GCAACGAGAG
78795 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
78814 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
78833 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
78847 AATCGCAATGCGA
1 AATCGCAATGCGA
78860 TTTCATTTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 11 0.27
15 1 0.02
16 2 0.05
17 1 0.02
19 26 0.63
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:78924 original size:21 final size:20
Alignment explanation
Indices: 78877--78954 Score: 131
Period size: 21 Copynumber: 3.9 Consensus size: 20
78867 TCGCATTGCG
*
78877 ATTTTTGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
78897 A-TTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
78916 ATTTTTCGCGTTGCGATAGCC
1 A-TTTTCGCGTTGCGATAGCC
78937 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
78955 TCAAATGAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
19 18 0.33
20 18 0.33
21 19 0.35
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:78928 original size:40 final size:40
Alignment explanation
Indices: 78877--78954 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 40
78867 TCGCATTGCG
78877 ATTTTTGCGTTGCGATAGCCA-TTTCGCGTTGCGATAGCC
1 ATTTTTGCGTTGCGATAGCCATTTTCGCGTTGCGATAGCC
78916 ATTTTTCGCGTTGCGATAGCCATTTTCGCGTTGCGATAG
1 ATTTTT-GCGTTGCGATAGCCATTTTCGCGTTGCGATAG
78955 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 6 0.16
40 15 0.41
41 16 0.43
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (40 bp):
ATTTTTGCGTTGCGATAGCCATTTTCGCGTTGCGATAGCC
Found at i:79206 original size:20 final size:18
Alignment explanation
Indices: 79160--79214 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
79150 ATGGTTAAAT
*
79160 GATTGCCTTTCGCAACGC
1 GATTGACTTTCGCAACGC
79178 GATTGACTTTCGCAACGC
1 GATTGACTTTCGCAACGC
*
79196 GATTCTGACTTTCGGAACG
1 GA-T-TGACTTTCGCAACG
79215 AGATAATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 19 0.58
19 1 0.03
20 13 0.39
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (18 bp):
GATTGACTTTCGCAACGC
Found at i:79977 original size:23 final size:23
Alignment explanation
Indices: 79951--80001 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
79941 TATTCAAAAT
*
79951 TTGATCTTGGTCAATACCCGGAC
1 TTGATATTGGTCAATACCCGGAC
* *
79974 TTGATATTGGTCAATACTCGGAT
1 TTGATATTGGTCAATACCCGGAC
79997 TTGAT
1 TTGAT
80002 GATGTTTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGATATTGGTCAATACCCGGAC
Found at i:80191 original size:12 final size:12
Alignment explanation
Indices: 80174--80198 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80164 ATATAATCCT
80174 GAAGAAGAAAAA
1 GAAGAAGAAAAA
80186 GAAGAAGAAAAA
1 GAAGAAGAAAAA
80198 G
1 G
80199 TCCTCAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:82513 original size:33 final size:33
Alignment explanation
Indices: 82471--82595 Score: 198
Period size: 33 Copynumber: 3.8 Consensus size: 33
82461 GGAAATTACT
82471 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
82504 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
82536 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
82570 ATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
82596 TGCGAATTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:82578 original size:66 final size:66
Alignment explanation
Indices: 82472--82604 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
82462 GAAATTACTA
*
82472 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
82537 T
66 T
* *
82538 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAATGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
82603 T
66 T
82604 T
1 T
82605 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:82612 original size:19 final size:19
Alignment explanation
Indices: 82471--82601 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
82461 GGAAATTACT
82471 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
82490 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
82504 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
82523 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
82537 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
82556 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
82570 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
82589 ATCGCAATGCGAA
1 ATCGCAATGCGAA
82602 TTTAATTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 40 0.47
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:82618 original size:19 final size:19
Alignment explanation
Indices: 82596--82671 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 19
82586 AAAATCGCAA
*
82596 TGCGAATTTAATTTCGCGT
1 TGCGAATTTCATTTCGCGT
*
82615 TGCG-A-TTC---TCTCGT
1 TGCGAATTTCATTTCGCGT
*
82629 TGCGATTTTCATTTCGCGT
1 TGCGAATTTCATTTCGCGT
* *
82648 TGCGATTTTCATTTCGCAT
1 TGCGAATTTCATTTCGCGT
82667 TGCGA
1 TGCGA
82672 TAGTACTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
14 9 0.19
16 3 0.06
17 2 0.04
18 1 0.02
19 32 0.68
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (19 bp):
TGCGAATTTCATTTCGCGT
Found at i:82672 original size:19 final size:19
Alignment explanation
Indices: 82628--82672 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
82618 GATTCTCTCG
*
82628 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
82647 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
82666 TTGCGAT
1 TTGCGAT
82673 AGTACTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:82798 original size:14 final size:14
Alignment explanation
Indices: 82779--82815 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
82769 CATCAATTAA
82779 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
82793 ACAAATCACCTTTT
1 ACAAATCAACTTTT
82807 ACAAATCAA
1 ACAAATCAA
82816 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:84236 original size:21 final size:21
Alignment explanation
Indices: 84170--84236 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
84160 GTGAATCGGG
*
84170 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
84190 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
84212 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
84233 CTCT
1 CTCT
84237 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:84255 original size:42 final size:41
Alignment explanation
Indices: 84170--84292 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
84160 GTGAATCGGG
* * * *
84170 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
84212 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
84254 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
84293 CGATTCAGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:84614 original size:92 final size:90
Alignment explanation
Indices: 84506--84689 Score: 273
Period size: 91 Copynumber: 2.0 Consensus size: 90
84496 ATTTCAAACT
*
84506 TTCAACCAAAAGACAAAAC-AAAGACAAATACT-ACTTCACAGTGTTAAAGAATACACAGTTTAG
1 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTTTAG
84569 CAGAATTGGCAGCAACCGAATAAATTTAC
62 CAGAATTGGCAGCAACCGAATAAATTTAC
84598 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
1 TTCAACCAAAAGACAAAAC-AAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
** *
84663 TTTTGGCAGCAACTGAATAAATTTAC
65 AATTGGCAGCAACCGAATAAATTTAC
84689 T
1 T
84690 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
91 40 0.47
92 19 0.22
94 13 0.15
95 13 0.15
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:86406 original size:20 final size:19
Alignment explanation
Indices: 86381--86433 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
86371 TTGAAATAAA
*
86381 AATCGCAACGAGATAATGAG
1 AATCGCAACGAGA-AATGAC
*
86401 AATCGCAACGCGGAAATGAC
1 AATCGCAACG-AGAAATGAC
*
86421 TATCGCAACGAGA
1 AATCGCAACGAGA
86434 GAATCGCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.13
Consensus pattern (19 bp):
AATCGCAACGAGAAATGAC
Found at i:86456 original size:33 final size:33
Alignment explanation
Indices: 86398--86494 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 33
86388 ACGAGATAAT
86398 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
* *
86432 GAGAATCGCAACGCAAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
86465 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
86495 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 43 0.75
34 14 0.25
ACGTcount: A:0.41, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:86517 original size:19 final size:19
Alignment explanation
Indices: 86495--86539 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
86485 AAAATCGCAA
*
86495 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
* * *
86514 TGCGTTTTTTATTTTGCGT
1 TGCGATTTTGATTTCGCGT
86533 TGCGATT
1 TGCGATT
86540 CTCTCGTTGC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.07, C:0.13, G:0.27, T:0.53
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:87111 original size:20 final size:20
Alignment explanation
Indices: 87086--87138 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
87076 TCGCTATGTA
87086 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
87106 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
87126 TATCTCGTTGCGA
1 AATCGCGTTGCGA
87139 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:87172 original size:20 final size:20
Alignment explanation
Indices: 87147--87200 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
87137 GATTTTGTAT
87147 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
87167 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
*
87187 TATCGCATTACGAT
1 TATCGCATTGCGAT
87201 TTTCCCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:87201 original size:61 final size:61
Alignment explanation
Indices: 87087--87203 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
87077 CGCTATGTAA
* * * * * *
87087 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTGTATT
* * *
87148 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTACGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTT
87204 CCCAATTCGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTGTATT
Found at i:87219 original size:61 final size:61
Alignment explanation
Indices: 87087--87221 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
87077 CGCTATGTAA
* * * * * * ** *
87087 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTCCAAT
* * *
87148 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTACGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTT-CCAAT
87210 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
87222 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTCCAAT
Found at i:93996 original size:3 final size:3
Alignment explanation
Indices: 93990--94028 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
93980 GTTGTTGTTG
* *
93990 TTA TTA TTA TTA TTA TTA TTA TTTA TTA ATA TTA ATA TT
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
94029 GCTTTTGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:96060 original size:2 final size:2
Alignment explanation
Indices: 96053--96098 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
96043 TGGCATATTC
*
96053 AT AT AT AT A- AT A- AC 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
96093 AT AT AT
1 AT AT AT
96099 CCTTTTGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:96071 original size:14 final size:16
Alignment explanation
Indices: 96047--96097 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
96037 AATACGTGGC
*
96047 ATATTCATATATATA-
1 ATATACATATATATAT
96062 ATA-ACATATATATAT
1 ATATACATATATATAT
*
96077 ATATATATATATATAT
1 ATATACATATATATAT
96093 ATATA
1 ATATA
96098 TCCTTTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 10 0.31
15 6 0.19
16 16 0.50
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATACATATATATAT
Found at i:96072 original size:12 final size:14
Alignment explanation
Indices: 96047--96098 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
96037 AATACGTGGC
*
96047 ATATTCATATATAT
1 ATATACATATATAT
96061 A-ATAACATATATAT
1 ATAT-ACATATATAT
*
96075 ATATATATATATAT
1 ATATACATATATAT
*
96089 ATATATATAT
1 ATATACATAT
96099 CCTTTTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 2 0.06
14 30 0.88
15 2 0.06
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATACATATATAT
Found at i:96195 original size:2 final size:2
Alignment explanation
Indices: 96188--96241 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
96178 TTCCATGTTA
96188 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
96230 AT AT AT AT AT AT
1 AT AT AT AT AT AT
96242 TCCTTTATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96305 original size:2 final size:2
Alignment explanation
Indices: 96298--96341 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
96288 AAGGAATTTA
96298 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
96340 AT
1 AT
96342 GATCATGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100685 original size:21 final size:20
Alignment explanation
Indices: 100639--100733 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
100629 TTTTCCCAAT
*
100639 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
100659 TCGCAACGCGAATTGGGAAA
1 TCGCAACGCGAATAAGTAAA
*
100679 TTCGCAATGCGAATAAGTAAAA
1 -TCGCAACGCGAATAAGT-AAA
100701 TCGCAACGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
100721 TCGCAACGCGAAT
1 TCGCAACGCGAAT
100734 TGGGAAAATC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
20 32 0.50
21 29 0.45
22 3 0.05
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:100725 original size:41 final size:42
Alignment explanation
Indices: 100636--100752 Score: 148
Period size: 41 Copynumber: 2.8 Consensus size: 42
100626 CGATTTTCCC
**
100636 AATTCGCAATGCGAATAAGT-AAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAAATCGCAACGCGAATAAGGA
*
100677 AATTCGCAATGCGAATAAGTAAAATCGCAACGCGAATAAGTA
1 AATTCGCAATGCGAATAAGTAAAATCGCAACGCGAATAAGGA
* ** * *
100719 AA-TCGCAACGCGAATTGGGAAAATCGCAATGCGA
1 AATTCGCAATGCGAATAAGTAAAATCGCAACGCGA
100753 TACTGACTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 47 0.70
42 20 0.30
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (42 bp):
AATTCGCAATGCGAATAAGTAAAATCGCAACGCGAATAAGGA
Found at i:100744 original size:21 final size:21
Alignment explanation
Indices: 100639--100752 Score: 106
Period size: 21 Copynumber: 5.5 Consensus size: 21
100629 TTTTCCCAAT
* * *
100639 TCGCAATGCGAA-TAAGTAAA
1 TCGCAACGCGAATTAGGAAAA
* *
100659 TCGCAACGCGAATTGGGAAAT
1 TCGCAACGCGAATTAGGAAAA
* * *
100680 TCGCAATGCGAATAAGTAAAA
1 TCGCAACGCGAATTAGGAAAA
* *
100701 TCGCAACGCGAA-TAAGTAAA
1 TCGCAACGCGAATTAGGAAAA
*
100721 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAATTAGGAAAA
*
100742 TCGCAATGCGA
1 TCGCAACGCGA
100753 TACTGACTAT
Statistics
Matches: 73, Mismatches: 19, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
20 27 0.37
21 46 0.63
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (21 bp):
TCGCAACGCGAATTAGGAAAA
Found at i:100765 original size:41 final size:41
Alignment explanation
Indices: 100738--100815 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
100728 GCGAATTGGG
* * *
100738 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* *
100779 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
100816 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:100766 original size:20 final size:20
Alignment explanation
Indices: 100741--100835 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
100731 AATTGGGAAA
*
100741 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
100761 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
100782 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
100802 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
100822 TTCGCAACGCGATA
1 ATCGCAACGCGATA
100836 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:101051 original size:22 final size:22
Alignment explanation
Indices: 101023--101066 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
101013 CACTCTCTGA
101023 CCCATCTCCGACGAAATACGTC
1 CCCATCTCCGACGAAATACGTC
* *
101045 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATACGTC
101067 TATCTAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.43, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATACGTC
Found at i:101345 original size:20 final size:20
Alignment explanation
Indices: 101320--101357 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
101310 CGATTCTCTC
101320 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
101340 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
101358 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:102256 original size:155 final size:155
Alignment explanation
Indices: 101974--102282 Score: 600
Period size: 155 Copynumber: 2.0 Consensus size: 155
101964 ATAATAAAGC
*
101974 TGGTTTTACTCGGATGGATGACGTCGACGTTGTCCGAGTATGCCTTCTAATTCTTTTGCATGCCG
1 TGGTTTTACTCGGAGGGATGACGTCGACGTTGTCCGAGTATGCCTTCTAATTCTTTTGCATGCCG
102039 GCTTTTTAGGCAGAGAGGCCAGACAACCTATTCCAAATGATCTAATCAAATTGGTAGAAGACCTA
66 GCTTTTTAGGCAGAGAGGCCAGACAACCTATTCCAAATGATCTAATCAAATTGGTAGAAGACCTA
102104 AATGCGTGGAACCTGTTTCCGTGGA
131 AATGCGTGGAACCTGTTTCCGTGGA
*
102129 TGGTTTTACTCGGCGGGATGACGTCGACGTTGTCCGAGTATGCCTTCTAATTCTTTTGCATGCCG
1 TGGTTTTACTCGGAGGGATGACGTCGACGTTGTCCGAGTATGCCTTCTAATTCTTTTGCATGCCG
102194 GCTTTTTAGGCAGAGAGGCCAGACAACCTATTCCAAATGATCTAATCAAATTGGTAGAAGACCTA
66 GCTTTTTAGGCAGAGAGGCCAGACAACCTATTCCAAATGATCTAATCAAATTGGTAGAAGACCTA
102259 AATGCGTGGAACCTGTTTCCGTGG
131 AATGCGTGGAACCTGTTTCCGTGG
102283 GGCTCGTATT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 152 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (155 bp):
TGGTTTTACTCGGAGGGATGACGTCGACGTTGTCCGAGTATGCCTTCTAATTCTTTTGCATGCCG
GCTTTTTAGGCAGAGAGGCCAGACAACCTATTCCAAATGATCTAATCAAATTGGTAGAAGACCTA
AATGCGTGGAACCTGTTTCCGTGGA
Found at i:102845 original size:18 final size:18
Alignment explanation
Indices: 102819--102863 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
102809 TCCACTTCGG
*
102819 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
102837 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
102855 GAGCCATCA
1 GAGCCATCA
102864 TCTGATCGAC
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:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:103388 original size:19 final size:20
Alignment explanation
Indices: 103334--103400 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
103324 TAGTTTACTT
* *
103334 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
103354 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
103374 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
103393 TCGCAACG
1 TCGCAACG
103401 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:103408 original size:14 final size:14
Alignment explanation
Indices: 103389--103460 Score: 99
Period size: 14 Copynumber: 4.9 Consensus size: 14
103379 ATGCGAAATG
103389 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
103403 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
103419 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
103435 AAAATCGCAACGAC
1 AAAATCGCAACGAC
103449 AAAATCGCAACG
1 AAAATCGCAACG
103461 CGAAATGAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
14 35 0.67
16 8 0.15
18 9 0.17
ACGTcount: A:0.49, C:0.26, G:0.17, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:103431 original size:32 final size:33
Alignment explanation
Indices: 103373--103446 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 33
103363 GGAAATGGCT
*
103373 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
103406 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
103438 ATCGCAACG
1 ATCGCAACG
103447 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 25 0.62
33 15 0.38
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:103456 original size:46 final size:47
Alignment explanation
Indices: 103389--103477 Score: 171
Period size: 46 Copynumber: 1.9 Consensus size: 47
103379 ATGCGAAATG
103389 AAAATCGCAACGACAAAATCGCAACGCGAAATG-AAATCGCAACGAC
1 AAAATCGCAACGACAAAATCGCAACGCGAAATGAAAATCGCAACGAC
103435 AAAATCGCAACGACAAAATCGCAACGCGAAATGAAAATCGCAA
1 AAAATCGCAACGACAAAATCGCAACGCGAAATGAAAATCGCAA
103478 TGCGATTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 33 0.79
47 9 0.21
ACGTcount: A:0.49, C:0.25, G:0.17, T:0.09
Consensus pattern (47 bp):
AAAATCGCAACGACAAAATCGCAACGCGAAATGAAAATCGCAACGAC
Found at i:103512 original size:14 final size:14
Alignment explanation
Indices: 103495--103552 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
103485 TGTGTTTTCG
103495 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
103509 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
103525 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
103541 CGTTGCGATTTT
1 CGTTGCGATTTT
103553 CATTTCGCTT
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:103529 original size:32 final size:33
Alignment explanation
Indices: 103490--103568 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
103480 CGATTTGTGT
103490 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
103522 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
103555 TTTCGCTTTGCGAT
1 TTTCGCGTTGCGAT
103569 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.09, C:0.19, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:103567 original size:19 final size:17
Alignment explanation
Indices: 103490--103568 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
103480 CGATTTGTGT
103490 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
103506 TGTCG-TTGCGATTTCA
1 TTTCGCTTGCGATTTCA
103522 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
103538 TGTCG-TTGCGATTTTCA
1 TTTCGCTTGCGA-TTTCA
103555 TTTCGCTTTGCGAT
1 TTTCGC-TTGCGAT
103569 AGCCATTTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.30
15 3 0.06
16 12 0.24
17 4 0.08
18 10 0.20
19 6 0.12
ACGTcount: A:0.09, C:0.19, G:0.24, T:0.48
Consensus pattern (17 bp):
TTTCGCTTGCGATTTCA
Found at i:103575 original size:19 final size:19
Alignment explanation
Indices: 103553--103643 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
103543 TTGCGATTTT
*
103553 CATTTCGCTTTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
103572 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
103592 CATTTCGCGTT--GATAGC
1 CATTTCGCGTTGCGATAGC
* *
103609 CATTCCGCGTTGCGATAGT
1 CATTTCGCGTTGCGATAGC
103628 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
103644 TTTAAGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.24
19 31 0.49
20 17 0.27
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:103622 original size:36 final size:37
Alignment explanation
Indices: 103541--103639 Score: 146
Period size: 36 Copynumber: 2.6 Consensus size: 37
103531 GCGATTTTGT
** *
103541 CGTTGCGATTTTCATTTCGCTTTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTTCGCGTT--GATAGCCATTTCCG
103580 CGTTGCGATAGTCATTTCGCGTTGATAGCCA-TTCCG
1 CGTTGCGATAGTCATTTCGCGTTGATAGCCATTTCCG
103616 CGTTGCGATAGTCATTTCGCGTTG
1 CGTTGCGATAGTCATTTCGCGTTG
103640 CGATTTTAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
36 29 0.51
37 8 0.14
39 20 0.35
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.37
Consensus pattern (37 bp):
CGTTGCGATAGTCATTTCGCGTTGATAGCCATTTCCG
Found at i:105479 original size:14 final size:14
Alignment explanation
Indices: 105460--105495 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
105450 ATTGTTTAAT
105460 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
105474 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
105488 TGATTTGT
1 TGATTTGT
105496 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:105659 original size:19 final size:18
Alignment explanation
Indices: 105608--105670 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
105598 CTATCGCAAC
105608 AATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGA
105626 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-A
105645 AATCGCAA--CG--A-GA
1 AATCGCAATGCGAAATGA
105658 AATCGCAATGCGA
1 AATCGCAATGCGA
105671 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
13 9 0.22
14 1 0.02
15 3 0.07
17 2 0.05
18 17 0.41
19 9 0.22
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.14
Consensus pattern (18 bp):
AATCGCAATGCGAAATGA
Found at i:105728 original size:19 final size:18
Alignment explanation
Indices: 105695--105730 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
105685 GCGATATTCT
105695 CGTTGATAACCATTTTCG
1 CGTTGATAACCATTTTCG
*
105713 CGTTGCATAGCCATTTTC
1 CGTTG-ATAACCATTTTC
105731 ACGTGCGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (18 bp):
CGTTGATAACCATTTTCG
Found at i:105741 original size:19 final size:20
Alignment explanation
Indices: 105699--105741 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
105689 TATTCTCGTT
* *
105699 GATAACCATTTTCGCGTTGC
1 GATAGCCATTTTCACGTTGC
105719 -ATAGCCATTTTCACG-TGC
1 GATAGCCATTTTCACGTTGC
105737 GATAG
1 GATAG
105742 TCAAATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
GATAGCCATTTTCACGTTGC
Found at i:106122 original size:14 final size:14
Alignment explanation
Indices: 106103--106138 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
106093 GATTGTTTTT
106103 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
106117 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
106131 TGATTTGT
1 TGATTTGT
106139 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:107429 original size:24 final size:24
Alignment explanation
Indices: 107373--107431 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
107363 AGTCAGTATT
* *
107373 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
107397 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
107421 CGAATTTTGAT
1 CGAAATTTGAT
107432 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:109943 original size:19 final size:19
Alignment explanation
Indices: 109921--110018 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
109911 GGAAATTACT
109921 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
109940 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
109954 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* **
109973 ATCTCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
109987 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
110006 ATCGCAACGCGAA
1 ATCGCAATGCGAA
110019 TTTAATTTCG
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 18 0.30
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.50
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:109963 original size:33 final size:33
Alignment explanation
Indices: 109921--110014 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
109911 GGAAATTACT
109921 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
109954 ATCGCAATGCGAAATGAAAATCTCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
109987 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
110015 CGAATTTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:110036 original size:19 final size:20
Alignment explanation
Indices: 110014--110056 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
110004 AAATCGCAAC
110014 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
110033 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
110053 GCGA
1 GCGA
110057 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:110041 original size:14 final size:14
Alignment explanation
Indices: 110042--110075 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
110032 TGCGATTTTC
110042 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
110056 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
110070 ATTTTC
1 ATTTTC
110076 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:113811 original size:19 final size:19
Alignment explanation
Indices: 113694--113878 Score: 174
Period size: 19 Copynumber: 10.1 Consensus size: 19
113684 TCTTTTGGTT
*
113694 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
113713 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
113733 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
113751 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
113767 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
113785 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
113800 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
113820 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
113839 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
113858 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
113877 GA
1 GA
113879 TTTTGGTTTC
Statistics
Matches: 138, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 62 0.45
20 45 0.33
21 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:113832 original size:39 final size:38
Alignment explanation
Indices: 113694--113878 Score: 174
Period size: 33 Copynumber: 5.1 Consensus size: 38
113684 TCTTTTGGTT
* *
113694 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** *
113733 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** * *
113767 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
113800 GAAATGAAAATCGCAACCGCGAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
*
113839 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
113877 GA
1 GA
113879 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
33 42 0.33
34 16 0.13
35 2 0.02
38 24 0.19
39 28 0.22
40 14 0.11
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:113907 original size:19 final size:19
Alignment explanation
Indices: 113874--113918 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
113864 AAAATCGCAA
*
113874 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
113893 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
113912 TGCGATT
1 TGCGATT
113919 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:114554 original size:20 final size:20
Alignment explanation
Indices: 114469--114562 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
114459 CGCTAAGTAA
*
114469 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
114489 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
114509 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
114530 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
114550 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
114563 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:114581 original size:41 final size:41
Alignment explanation
Indices: 114551--114646 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
114541 ATAGTCAGTA
* * *
114551 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
114592 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
114633 TCGCATTGCGAATT
1 TCGCATTGCGAATT
114647 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:114595 original size:20 final size:20
Alignment explanation
Indices: 114551--114643 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
114541 ATAGTCAGTA
* **
114551 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
114572 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
114592 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
114613 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
114633 TCGCATTGCGA
1 TCGCATTGCGA
114644 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:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:116390 original size:107 final size:107
Alignment explanation
Indices: 116204--116734 Score: 965
Period size: 107 Copynumber: 5.0 Consensus size: 107
116194 TGGTTTATAA
* * * *
116204 GACTTCCGATAGGAACTGTAACATTCACACTATATCAGAAAATAATTTTAGTTAGACCTTATTTC
1 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
116269 AACAAATAATTTTTTTCAAAACTCTACAGCAGCAAATCAGCC
66 AACAAATAATTTTTTTCAAAACTCTACAGCAGCAAATCAGCC
116311 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
1 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
116376 AACAAATAA-TTTTTTCAAAACTCTACAGCAGCAAATCAGCC
66 AACAAATAATTTTTTTCAAAACTCTACAGCAGCAAATCAGCC
116417 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
1 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
*
116482 AACAAATAATTTTTTTCAAAACTCTACAGCAACAAATCAGCC
66 AACAAATAATTTTTTTCAAAACTCTACAGCAGCAAATCAGCC
116524 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
1 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
116589 AACAAATAATTTTTTTCAAAACTCTACAGCAGCAAATCAGCC
66 AACAAATAATTTTTTTCAAAACTCTACAGCAGCAAATCAGCC
* * * *
116631 GACTTCCGACAAGTACTGTAGCATTCACACTAGTTCAGAAAATAATTTCAGTTAGACTTTATTTC
1 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
*
116696 AACAAATAATTTTTTTCAAAACTCTACAGCAACAAATCA
66 AACAAATAATTTTTTTCAAAACTCTACAGCAGCAAATCA
116735 TCATTCAAGG
Statistics
Matches: 412, Mismatches: 11, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
106 106 0.26
107 306 0.74
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.30
Consensus pattern (107 bp):
GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
AACAAATAATTTTTTTCAAAACTCTACAGCAGCAAATCAGCC
Found at i:116571 original size:213 final size:214
Alignment explanation
Indices: 116204--116734 Score: 974
Period size: 213 Copynumber: 2.5 Consensus size: 214
116194 TGGTTTATAA
* * * *
116204 GACTTCCGATAGGAACTGTAACATTCACACTATATCAGAAAATAATTTTAGTTAGACCTTATTTC
1 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
*
116269 AACAAATAATTTTTTTCAAAACTCTACAGCAGCAAATCAGCCGACTTCCGACAGGTACTGTAGCA
66 AACAAATAATTTTTTTCAAAACTCTACAGCAACAAATCAGCCGACTTCCGACAGGTACTGTAGCA
116334 TTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTCAACAAATAA-TTTTTTCAAAACT
131 TTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTCAACAAATAATTTTTTTCAAAACT
116398 CTACAGCAGCAAATCAGCC
196 CTACAGCAGCAAATCAGCC
116417 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
1 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
116482 AACAAATAATTTTTTTCAAAACTCTACAGCAACAAATCAGCCGACTTCCGACAGGTACTGTAGCA
66 AACAAATAATTTTTTTCAAAACTCTACAGCAACAAATCAGCCGACTTCCGACAGGTACTGTAGCA
116547 TTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTCAACAAATAATTTTTTTCAAAACT
131 TTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTCAACAAATAATTTTTTTCAAAACT
116612 CTACAGCAGCAAATCAGCC
196 CTACAGCAGCAAATCAGCC
* * * *
116631 GACTTCCGACAAGTACTGTAGCATTCACACTAGTTCAGAAAATAATTTCAGTTAGACTTTATTTC
1 GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
116696 AACAAATAATTTTTTTCAAAACTCTACAGCAACAAATCA
66 AACAAATAATTTTTTTCAAAACTCTACAGCAACAAATCA
116735 TCATTCAAGG
Statistics
Matches: 308, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
213 176 0.57
214 132 0.43
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.30
Consensus pattern (214 bp):
GACTTCCGACAGGTACTGTAGCATTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTC
AACAAATAATTTTTTTCAAAACTCTACAGCAACAAATCAGCCGACTTCCGACAGGTACTGTAGCA
TTCACACTAGATCAGAAAATAATTTTAGTTAGACCTTATTTCAACAAATAATTTTTTTCAAAACT
CTACAGCAGCAAATCAGCC
Found at i:117709 original size:76 final size:77
Alignment explanation
Indices: 117608--117788 Score: 253
Period size: 76 Copynumber: 2.4 Consensus size: 77
117598 CCGTTGTACA
* * * *
117608 AGGGGGGAATTGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCG-GA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGAG-
**
117671 G-CAAAACTGTTT
65 GCCAAAACCATTT
* *
117683 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGAGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGAGG
117748 CCAAAACCATTT
66 CCAAAACCATTT
117760 A-GGGGGAATCGGTTCCTCCTATGGGGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGG
117789 GGGAATCGGT
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
75 18 0.19
76 65 0.69
77 11 0.12
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.23
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAAATCTCGAGG
CCAAAACCATTT
Found at i:117710 original size:75 final size:77
Alignment explanation
Indices: 117608--117810 Score: 252
Period size: 76 Copynumber: 2.6 Consensus size: 77
117598 CCGTTGTACA
* * * * *
117608 AGGGGGGAATTGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCG-GA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGAG-
**
117671 G-CAAAACTGTTT
65 GCCAAAACCATTT
*
117683 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGAGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGAGG
117748 CCAAAACCATTT
66 CCAAAACCATTT
*
117760 A-GGGGGAATCGGTTCCTCCTATGGGGGGGGGGAATCGGTTCCCTCTGAGCA
1 AGGGGGGAATCGGTTCCTCCTAT----GGGGGGAATCGGTTCCCTCCGAGCA
117811 ATCTGTAATT
Statistics
Matches: 112, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
75 18 0.16
76 59 0.53
77 11 0.10
80 24 0.21
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.23
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGAGG
CCAAAACCATTT
Found at i:118442 original size:15 final size:15
Alignment explanation
Indices: 118424--118465 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
118414 AACATCCATA
*
118424 AATCCAAAATCCAAC
1 AATCCAAAATCAAAC
118439 AATCCACAAAATCAAAC
1 AAT-C-CAAAATCAAAC
118456 AATCCAAAAT
1 AATCCAAAAT
118466 ATAATGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.38
16 2 0.08
17 13 0.54
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (15 bp):
AATCCAAAATCAAAC
Found at i:118450 original size:17 final size:17
Alignment explanation
Indices: 118428--118461 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
118418 TCCATAAATC
*
118428 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
118445 CAAAATCAAACAATCCA
1 CAAAATCAAACAATCCA
118462 AAATATAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.32, G:0.00, T:0.12
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:126043 original size:76 final size:77
Alignment explanation
Indices: 125914--126122 Score: 298
Period size: 76 Copynumber: 2.8 Consensus size: 77
125904 CCGTTGTACA
* * * *
125914 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
**
125978 -CAAAACTGTTT
66 CCAAAACCATTT
* *
125989 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
126054 CCAAAACCATTT
66 CCAAAACCATTT
* * *
126066 A-GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTGTAATT
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATT
126123 TTTGGCTTTG
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
75 19 0.16
76 91 0.76
77 10 0.08
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.24
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
CCAAAACCATTT
Found at i:126770 original size:33 final size:30
Alignment explanation
Indices: 126714--126791 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 30
126704 GTTCATTATG
* *
126714 TATTTATATTATTTATTATATATATTAATA
1 TATTTATAATATTTTTTATATATATTAATA
126744 TTATTTATAATATTTTTATATGATATATTAATA
1 -TATTTATAATATTTTT-TAT-ATATATTAATA
**
126777 TATAAATAATATTTT
1 TATTTATAATATTTT
126792 AATTTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
31 14 0.34
32 16 0.39
33 11 0.27
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
TATTTATAATATTTTTTATATATATTAATA
Found at i:126828 original size:2 final size:2
Alignment explanation
Indices: 126821--126852 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
126811 ATATGATTTA
126821 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
126853 TATTTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141963 original size:10 final size:10
Alignment explanation
Indices: 141946--141995 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
141936 TCGGGTCGGG
141946 TCAAACCGGT
1 TCAAACCGGT
*
141956 TCAGACCGG-
1 TCAAACCGGT
* *
141965 TCAGACTGGT
1 TCAAACCGGT
141975 TCAAAACCGG-
1 TC-AAACCGGT
141985 TCAAACCGGT
1 TCAAACCGGT
141995 T
1 T
141996 TTCAGCCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 15 0.45
10 13 0.39
11 5 0.15
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (10 bp):
TCAAACCGGT
Done.