Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002472.1 Hibiscus syriacus cultivar Beakdansim tig00005053_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: 77035
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:15313 original size:2 final size:2
Alignment explanation
Indices: 15306--15344 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
15296 TACATTCTTT
* * *
15306 TA TA TA TA TA TA TA TA TA CA TA TA TA TG TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15345 TAATGACCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:37609 original size:12 final size:12
Alignment explanation
Indices: 37586--37628 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
37576 TCTTCATCAC
*
37586 CATCATCATCAT
1 CATCATCCTCAT
37598 CATCATCCTCAT
1 CATCATCCTCAT
**
37610 TTTCATCCTCAT
1 CATCATCCTCAT
*
37622 CCTCATC
1 CATCATC
37629 TTCCATGCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (12 bp):
CATCATCCTCAT
Found at i:37609 original size:18 final size:18
Alignment explanation
Indices: 37574--37628 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
37564 CCAATATCTC
*
37574 CATCTTCATCA-CCATCAT
1 CATCATCATCATCC-TCAT
37592 CATCATCATCATCCTCAT
1 CATCATCATCATCCTCAT
** *
37610 TTTCATCCTCATCCTCAT
1 CATCATCATCATCCTCAT
37628 C
1 C
37629 TTCCATGCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 29 0.94
19 2 0.06
ACGTcount: A:0.24, C:0.40, G:0.00, T:0.36
Consensus pattern (18 bp):
CATCATCATCATCCTCAT
Found at i:41122 original size:27 final size:27
Alignment explanation
Indices: 41080--41132 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
41070 CCTGTTCTTA
* *
41080 TAGTATGCCTTCCAAGGACTTTATTTT
1 TAGTATGCCTTACAAGAACTTTATTTT
* *
41107 TAGTATGCTTTACAAGAATTTTATTT
1 TAGTATGCCTTACAAGAACTTTATTT
41133 GGTCTGGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (27 bp):
TAGTATGCCTTACAAGAACTTTATTTT
Found at i:44402 original size:15 final size:15
Alignment explanation
Indices: 44384--44419 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
44374 TTTCGGAAAA
*
44384 TGAATTATTGGAATT
1 TGAATTATTGAAATT
44399 TGAATTATTGAAATT
1 TGAATTATTGAAATT
44414 TGAATT
1 TGAATT
44420 CTGAAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (15 bp):
TGAATTATTGAAATT
Found at i:44689 original size:49 final size:50
Alignment explanation
Indices: 44592--44690 Score: 121
Period size: 49 Copynumber: 2.0 Consensus size: 50
44582 TACAAATATT
*
44592 AAATATAATAAATAATATTATTTATCATAAAATTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAATTTAATATTATAATTTTA
* * * * *
44642 AAATATTA-AAATAAT-TTATTTATTATTAAATATTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAAT-TTAATATTATAATTTTA
44691 TTAATAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 14 0.33
49 21 0.50
50 7 0.17
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAATTTAATATTATAATTTTA
Found at i:44701 original size:48 final size:47
Alignment explanation
Indices: 44590--44702 Score: 111
Period size: 49 Copynumber: 2.3 Consensus size: 47
44580 ATTACAAATA
*
44590 TTAAATATAATAAATAATATTATTTATCATAAAATTTAATATTATTATT
1 TTAAA-ATAA-AAATAATATTATTTATCATAAAATTTAATATTATAATT
* * * *
44639 TTAAAATATTAAAATAAT-TTATTTATTATTAAATATTATTTTTATAATT
1 TTAAAATA--AAAATAATATTATTTATCATAAAAT-TTAATATTATAATT
*
44688 TTATTAATAAAAATA
1 TTA-AAATAAAAATA
44703 TTAATATTGG
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
48 23 0.43
49 26 0.48
50 5 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (47 bp):
TTAAAATAAAAATAATATTATTTATCATAAAATTTAATATTATAATT
Found at i:44819 original size:23 final size:23
Alignment explanation
Indices: 44770--44832 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
44760 AAAGTATATT
**
44770 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
44793 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
44816 ATATTATTAAAATATAT
1 ATATT-TTAAAA-ATAT
44833 AAATAATATT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
23 23 0.74
24 5 0.16
25 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:44824 original size:11 final size:11
Alignment explanation
Indices: 44808--44845 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
44798 TTAAATATCT
44808 TTATTAAAATA
1 TTATTAAAATA
44819 TTATTAAAATA
1 TTATTAAAATA
*
44830 -TATAAATAATA
1 TTATTAA-AATA
44841 TTATT
1 TTATT
44846 CATTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 5 0.22
11 15 0.65
12 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTATTAAAATA
Found at i:44959 original size:22 final size:23
Alignment explanation
Indices: 44934--44977 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
44924 GATTATTTTA
44934 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
44956 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
44978 AATAAACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:44968 original size:30 final size:30
Alignment explanation
Indices: 44820--44981 Score: 88
Period size: 30 Copynumber: 5.4 Consensus size: 30
44810 ATTAAAATAT
*
44820 TATTAAAATATATAA-ATAATATTATTCAT--
1 TATTAAAA-ATATAATATTATATTATT-ATAA
* * *
44849 TATTAAATATTTAA-ATT-TTTTATTATATA
1 TATTAAAAATATAATATTATATTATTATA-A
* * * * *
44878 TTATTAAAATAAAAAATATAATA-TCTTATAT
1 -TATTAAAA-ATATAATATTATATTATTATAA
* *
44909 TATT-ATAATATAATTGATTATTTTA-TATAA
1 TATTAAAAATATAA-T-ATTATATTATTATAA
44939 TATTAAAAATATAATATTATATTATTATAAA
1 TATTAAAAATATAATATTATATTATTAT-AA
44970 TATTAATAAATA
1 TATTAA-AAATA
44982 AACAATATTT
Statistics
Matches: 98, Mismatches: 21, Indels: 25
0.68 0.15 0.17
Matches are distributed among these distances:
26 2 0.02
27 6 0.06
28 11 0.11
29 18 0.18
30 27 0.28
31 20 0.20
32 13 0.13
33 1 0.01
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TATTAAAAATATAATATTATATTATTATAA
Found at i:44989 original size:34 final size:31
Alignment explanation
Indices: 44927--44990 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
44917 TATAATTGAT
*
44927 TATTTTATATAATATTAAAAATATAATATTA
1 TATTTTATATAATATTAAAAATACAATATTA
44958 TATTATTATA-AATATTAATAAATAAACAATATT
1 TATT-TTATATAATATTAA-AAAT--ACAATATT
44991 TTGATGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 12 0.43
32 9 0.32
34 7 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (31 bp):
TATTTTATATAATATTAAAAATACAATATTA
Found at i:51949 original size:20 final size:20
Alignment explanation
Indices: 51855--52263 Score: 486
Period size: 20 Copynumber: 20.4 Consensus size: 20
51845 GATTTTCCAT
* ** *
51855 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
51875 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
51895 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
51915 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
51935 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
51955 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
51975 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
51995 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
52015 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
52035 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
52055 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
52075 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
52095 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
52115 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
52135 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
52155 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
52175 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
52195 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
52215 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
52235 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
52255 AATCACAAC
1 AATCGCAAC
52264 ACTGAAATTT
Statistics
Matches: 337, Mismatches: 42, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.01
20 331 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:53174 original size:12 final size:12
Alignment explanation
Indices: 53157--53181 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53147 ATATAATCCT
53157 GAAGAAGAAAAA
1 GAAGAAGAAAAA
53169 GAAGAAGAAAAA
1 GAAGAAGAAAAA
53181 G
1 G
53182 TCCCCGAAGA
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:55508 original size:19 final size:19
Alignment explanation
Indices: 55486--55811 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
55476 CGGAAAATAC
*
55486 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
55505 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
55519 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
55539 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
55553 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55572 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
55591 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
55605 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55624 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
55643 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
55657 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
55676 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
55695 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
55714 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55733 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55752 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
55766 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55785 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
55804 AATCGCAA
1 AATCGCAA
55812 CGAGATAATC
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 50 0.19
15 3 0.01
16 13 0.05
17 12 0.04
18 4 0.01
19 174 0.65
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:55573 original size:33 final size:34
Alignment explanation
Indices: 55486--55811 Score: 321
Period size: 33 Copynumber: 9.2 Consensus size: 34
55476 CGGAAAATAC
* *
55486 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
55519 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
55553 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
55591 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
55624 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
55657 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
55695 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
55733 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
55765 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
55804 AATCGCAA
1 AATCGCAA
55812 CGAGATAATC
Statistics
Matches: 257, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 111 0.43
34 32 0.12
35 9 0.04
36 6 0.02
37 4 0.02
38 91 0.35
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:55747 original size:161 final size:157
Alignment explanation
Indices: 55514--55833 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
55504 AAATCCCAAC
*
55514 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
*
55579 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
66 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
55644 ATCGCAACGAGAGAATCGCAATGCGAA
131 ATCGCAACGAGAGAATCGCAATGCGAA
*
55671 ATGAAAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCGAAATGAAAA
55735 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
61 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
*
55800 TGAAAATCGCAACGAGATAATCGCAATGCGAA
126 TGAAAATCGCAACGAGAGAATCGCAATGCGAA
55832 AT
1 AT
55834 TATAAACGCA
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 13 0.08
157 17 0.11
158 3 0.02
160 1 0.01
161 120 0.78
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (157 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
ATCGCAACGAGAGAATCGCAATGCGAA
Found at i:55849 original size:52 final size:52
Alignment explanation
Indices: 55514--55833 Score: 550
Period size: 52 Copynumber: 6.0 Consensus size: 52
55504 AAATCCCAAC
55514 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
55567 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
55619 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
55671 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
55728 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
55780 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
55832 AT
1 AT
55834 TATAAACGCA
Statistics
Matches: 255, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 184 0.72
53 18 0.07
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:55949 original size:19 final size:19
Alignment explanation
Indices: 55840--55941 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
55830 AAATTATAAA
55840 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
55859 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
55879 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
55895 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
55912 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
55931 CGCATTGCGAT
1 CGCATTGCGAT
55942 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:56067 original size:14 final size:14
Alignment explanation
Indices: 56048--56084 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
56038 CATCAATTAC
56048 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
56062 ACAAATCATCTTTT
1 ACAAATCAACTTTT
56076 ACAAATCAA
1 ACAAATCAA
56085 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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:56096 original size:12 final size:12
Alignment explanation
Indices: 56079--56151 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
56069 ATCTTTTACA
56079 AATCAATTAAAC
1 AATCAATTAAAC
*
56091 AATCAA--AAATTG
1 AATCAATTAAA--C
**
56103 AATCAACTTTTAC
1 AATCAA-TTAAAC
56116 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
56129 AATCAA-AAAAC
1 AATCAATTAAAC
56140 AATCAATTAAAC
1 AATCAATTAAAC
56152 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:56113 original size:38 final size:38
Alignment explanation
Indices: 56065--56137 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
56055 AACTTTTACA
*
56065 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
56103 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
56138 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:57995 original size:19 final size:19
Alignment explanation
Indices: 57955--58089 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
57945 TAGTTTACTT
* *
57955 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
57975 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
57994 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
58013 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
58027 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
58046 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
58060 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
58079 TCGCAATGCGA
1 TCGCAACGCGA
58090 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:58030 original size:14 final size:14
Alignment explanation
Indices: 58011--58067 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
58001 GCGAAATGAA
*
58011 AATCGCAACGACAG
1 AATCGCAACGAAAG
58025 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
58042 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
58058 AATCGCAACG
1 AATCGCAACG
58068 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:58034 original size:33 final size:33
Alignment explanation
Indices: 57992--58084 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
57982 GCGAAACCAA
*
57992 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
58025 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
58058 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
58085 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:58081 original size:52 final size:54
Alignment explanation
Indices: 57955--58089 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 54
57945 TAGTTTACTT
*
57955 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
* **
58013 TCGCAA-CGACA-G--AATCGCAACGCGAAATGAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
58060 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
58090 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.08
50 6 0.09
52 37 0.56
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:58107 original size:19 final size:19
Alignment explanation
Indices: 58085--58194 Score: 105
Period size: 19 Copynumber: 6.3 Consensus size: 19
58075 AAAATCGCAA
58085 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
58104 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
58118 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
58137 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
58151 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
58170 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
58190 TGCGA
1 TGCGA
58195 AAGTAAACTA
Statistics
Matches: 74, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
14 22 0.30
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 31 0.42
20 13 0.18
ACGTcount: A:0.08, C:0.16, G:0.30, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:58127 original size:33 final size:33
Alignment explanation
Indices: 58085--58176 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
58075 AAAATCGCAA
58085 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
58118 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
58151 TGCGATTTTGGTTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
58177 TTAAGTTTCG
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
33 56 0.97
34 2 0.03
ACGTcount: A:0.07, C:0.17, G:0.30, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:58527 original size:92 final size:93
Alignment explanation
Indices: 58242--58616 Score: 709
Period size: 93 Copynumber: 4.1 Consensus size: 93
58232 ATGGATTGCA
* *
58242 TTAC-TTCAACCAATAGACAAATCAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
58306 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
58334 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
58399 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
58427 TTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
58491 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
58519 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
58584 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
58612 TTACT
1 TTACT
58617 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 96 0.35
93 182 0.65
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:58559 original size:185 final size:186
Alignment explanation
Indices: 58242--58616 Score: 709
Period size: 185 Copynumber: 2.0 Consensus size: 186
58232 ATGGATTGCA
* *
58242 TTAC-TTCAACCAATAGACAAATCAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
58306 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
58371 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
58427 TTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
58491 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
58556 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
58612 TTACT
1 TTACT
58617 AAGCAATCTA
Statistics
Matches: 186, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
185 158 0.85
186 28 0.15
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:60338 original size:14 final size:14
Alignment explanation
Indices: 60319--60408 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
60309 TTGAAATGAA
60319 AATCGCAACGAGAG
1 AATCGCAACGAGAG
60333 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
60350 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
60366 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
60385 AATCGCAACGAGAG
1 AATCGCAACGAGAG
60399 AATCGCAACG
1 AATCGCAACG
60409 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:60356 original size:33 final size:33
Alignment explanation
Indices: 60311--60425 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
60301 TCTTTTGGTT
60311 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
60344 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
60377 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
60410 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
60426 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:60357 original size:19 final size:18
Alignment explanation
Indices: 60318--60430 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
60308 GTTGAAATGA
60318 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
60333 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
60350 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
60366 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
60383 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
60399 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
60416 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
60431 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:60461 original size:14 final size:14
Alignment explanation
Indices: 60442--60496 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
60432 TTTGGTTTCG
60442 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
60456 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
60475 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
60489 CGTTGCGA
1 CGTTGCGA
60497 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:60659 original size:33 final size:33
Alignment explanation
Indices: 60617--60687 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
60607 AATACTAACT
*
60617 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
60650 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
60683 TGAAA
1 TGAAA
60688 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:60920 original size:22 final size:22
Alignment explanation
Indices: 60868--60922 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
60858 TGGTTGTGAG
**
60868 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
60890 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
60912 GGATTTCTTCG
1 GGATTTCTTCG
60923 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:61092 original size:20 final size:20
Alignment explanation
Indices: 61067--61260 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
61057 CTTTAAATAT
61067 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
61087 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
61109 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
61128 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
61148 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
61168 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
61188 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
61208 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
61228 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
61248 CGCGTTGCGATTT
1 CGCGTTGCGATTT
61261 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:61254 original size:60 final size:60
Alignment explanation
Indices: 61067--61260 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
61057 CTTTAAATAT
**
61067 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
61128 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
61188 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
61248 CGCGTTGCGATTT
1 CGCGTTGCGATTT
61261 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:61277 original size:21 final size:20
Alignment explanation
Indices: 61253--61329 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
61243 ATATTCGCGT
61253 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
61274 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
61294 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
61316 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
61330 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:61340 original size:20 final size:20
Alignment explanation
Indices: 61315--61366 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
61305 AAGAATCGCG
*
61315 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
61335 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
61355 TTGCGATTCTGG
1 TTGCGATTCTGG
61367 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Done.