Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006234.1 Hibiscus syriacus cultivar Beakdansim tig00014859_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: 92799
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Found at i:722 original size:18 final size:18
Alignment explanation
Indices: 667--721 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
657 TATATAAAAG
*
667 AATAAATTGAATTTCGAT
1 AATAAATTGAATTTCGAA
*
685 AATAAATTGAATTTTGAA
1 AATAAATTGAATTTCGAA
703 AATAAATTGAATTTC-AA
1 AATAAATTGAATTTCGAA
720 AA
1 AA
722 AGATAAACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 4 0.12
18 30 0.88
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (18 bp):
AATAAATTGAATTTCGAA
Found at i:1104 original size:11 final size:11
Alignment explanation
Indices: 1090--1124 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1080 TATTTATTTA
1090 TTTTCTTTCTT
1 TTTTCTTTCTT
*
1101 TTTTTTTTCTT
1 TTTTCTTTCTT
1112 TTTTCTTT-TT
1 TTTTCTTTCTT
1122 TTT
1 TTT
1125 CAAACATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:1108 original size:15 final size:16
Alignment explanation
Indices: 1090--1125 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
1080 TATTTATTTA
1090 TTTTCTTTCTT-TTTT
1 TTTTCTTTCTTCTTTT
*
1105 TTTTCTTTTTTCTTTT
1 TTTTCTTTCTTCTTTT
1121 TTTTC
1 TTTTC
1126 AAACATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTCTTTCTTCTTTT
Found at i:8422 original size:15 final size:15
Alignment explanation
Indices: 8402--8433 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8392 TGCAATAAAT
8402 AATGAATGTATGCAA
1 AATGAATGTATGCAA
8417 AATGAATGTATGCAA
1 AATGAATGTATGCAA
8432 AA
1 AA
8434 GGTATTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:11750 original size:13 final size:13
Alignment explanation
Indices: 11716--11753 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
11706 TTTAATATCT
11716 AAAAATA-AATAA
1 AAAAATATAATAA
*
11728 AAACAT-TAATAA
1 AAAAATATAATAA
11740 AAAAATATAATAA
1 AAAAATATAATAA
11753 A
1 A
11754 TATTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATATAATAA
Found at i:12311 original size:27 final size:28
Alignment explanation
Indices: 12280--12332 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
12270 ACTTCCAAGA
12280 AAATATAT-TAATTTTTATATTTTTAAT
1 AAATATATATAATTTTTATATTTTTAAT
*
12307 AAATATATATATTTTTTATATTTTTA
1 AAATATATATAATTTTTATATTTTTA
12333 TATATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
AAATATATATAATTTTTATATTTTTAAT
Found at i:12514 original size:152 final size:150
Alignment explanation
Indices: 12339--12629 Score: 469
Period size: 152 Copynumber: 1.9 Consensus size: 150
12329 TTTATATATA
* * * *
12339 ATTTATTTAGAAATATCATAAAATGACTTCTAGTCGCTTTAAGACAACCCCTTTCTTAATATTAA
1 ATTTATTTAAAAATATCAGAAAATGACTTCTAGTCGCTTTAAGAAAACCCCTTTCTTAATATAAA
*
12404 AAA-ATAAATAAATATTAATAAAATATTTCTCTAAAAATAATAAAAAAAATAAAATTAATATCT-
66 AAAGATAAATAAATATTAATAAAACATTTCTCTAAAAATAATAAAAAAAAT-AAATTAA-AT-TA
12467 ATAATTTATAAAAGTAAGATATTT
128 AT-ATTTATAAAAGTAAGATATTT
*
12491 ATTTATTTAAAAATATCAGAAAATGACTTCTAGTTGCTTTAAGAAAACCCCTTTCTTAATATAAA
1 ATTTATTTAAAAATATCAGAAAATGACTTCTAGTCGCTTTAAGAAAACCCCTTTCTTAATATAAA
*
12556 AAAGATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAAAAAATAAATTAAATTAATA
66 AAAGATAAATAAATATTAATAAAACATTTCTCTAAAAATAATAAAAAAAATAAATTAAATTAATA
12621 TTTATAAAA
131 TTTATAAAA
12630 ATATCAGAAA
Statistics
Matches: 130, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
150 11 0.08
151 4 0.03
152 70 0.54
153 45 0.35
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.35
Consensus pattern (150 bp):
ATTTATTTAAAAATATCAGAAAATGACTTCTAGTCGCTTTAAGAAAACCCCTTTCTTAATATAAA
AAAGATAAATAAATATTAATAAAACATTTCTCTAAAAATAATAAAAAAAATAAATTAAATTAATA
TTTATAAAAGTAAGATATTT
Found at i:14146 original size:6 final size:6
Alignment explanation
Indices: 14136--14220 Score: 120
Period size: 6 Copynumber: 14.3 Consensus size: 6
14126 TTGGGCCTGT
* * *
14136 AATAAT AATAAT AATAATA AAT-AT AATAAA AATAAA AAT-AA AATAAA
1 AATAAA AATAAA AATAA-A AATAAA AATAAA AATAAA AATAAA AATAAA
14183 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
14221 ACCCAAATGA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
5 8 0.11
6 62 0.85
7 3 0.04
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:20743 original size:107 final size:107
Alignment explanation
Indices: 20620--20833 Score: 419
Period size: 107 Copynumber: 2.0 Consensus size: 107
20610 TAAACTTAAA
20620 AAATTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGATAAGATTTTTTATTGCAACGACCTCTAT
1 AAATTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGATAAGATTTTTTATTGCAACGACCTCTAT
*
20685 GGTTTTAATCTTATATTAGTAAATTGTATTTTAAAATTTCCT
66 GGTTTTAATCTTATATTAATAAATTGTATTTTAAAATTTCCT
20727 AAATTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGATAAGATTTTTTATTGCAACGACCTCTAT
1 AAATTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGATAAGATTTTTTATTGCAACGACCTCTAT
20792 GGTTTTAATCTTATATTAATAAATTGTATTTTAAAATTTCCT
66 GGTTTTAATCTTATATTAATAAATTGTATTTTAAAATTTCCT
20834 CTTCTTTTTA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 106 1.00
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (107 bp):
AAATTGTTTTGTTTAATCTAAAAAGTTACCCTCTTGATAAGATTTTTTATTGCAACGACCTCTAT
GGTTTTAATCTTATATTAATAAATTGTATTTTAAAATTTCCT
Found at i:22576 original size:18 final size:18
Alignment explanation
Indices: 22553--22594 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22543 GCCTGCGACT
*
22553 GCTGCTACGGCGACTGTG
1 GCTGCTACGACGACTGTG
* *
22571 GCTGCTCCGACTACTGTG
1 GCTGCTACGACGACTGTG
22589 GCTGCT
1 GCTGCT
22595 GCTACTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.31, G:0.33, T:0.26
Consensus pattern (18 bp):
GCTGCTACGACGACTGTG
Found at i:23632 original size:31 final size:31
Alignment explanation
Indices: 23596--23654 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
23586 AACTTAAAAG
*
23596 AGTTTTACAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
23627 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
23655 CCATACAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:23707 original size:22 final size:22
Alignment explanation
Indices: 23679--23805 Score: 95
Period size: 22 Copynumber: 5.8 Consensus size: 22
23669 TAATAAATTA
*
23679 TTTAAAATAAATAAATCCATAT
1 TTTAAAATAAATCAATCCATAT
* *
23701 TTTAAAATAAATCAATCTATACAAC
1 TTTAAAATAAATCAATCCAT---AT
**
23726 TACAATAATAAATCAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
23749 TTTAAAATAAATCAAT-CA-AT
1 TTTAAAATAAATCAATCCATAT
* *
23769 CTATACAAATAAATAAAT---TA-
1 -TTTA-AAATAAATCAATCCATAT
23789 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
23806 TATACTAATA
Statistics
Matches: 84, Mismatches: 13, Indels: 19
0.72 0.11 0.16
Matches are distributed among these distances:
18 11 0.13
19 3 0.04
20 2 0.02
21 6 0.07
22 40 0.48
23 4 0.05
25 4 0.05
26 14 0.17
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:23778 original size:18 final size:18
Alignment explanation
Indices: 23757--24272 Score: 106
Period size: 18 Copynumber: 31.1 Consensus size: 18
23747 ATTTTAAAAT
*
23757 AAATCAATCAATCTATAC
1 AAATAAATCAATCTATAC
*
23775 AAATAAATAAAT-TATTTA-
1 AAATAAATCAATCTA--TAC
23793 AAATAAATCAATCTATAC
1 AAATAAATCAATCTATAC
* *
23811 TAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
23825 AAATAAATCAATCCATATTTTA-
1 AAATAAATCAAT-C-TA---TAC
23847 AAATAAATCAAT-TGATAC
1 AAATAAATCAATCT-ATAC
* *
23865 TAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
*
23879 AAATAAATCAATCCATAC
1 AAATAAATCAATCTATAC
* *
23897 AACT--A-CAA--TA-AT
1 AAATAAATCAATCTATAC
* *
23909 AAATCAATCCATAT-TTTA-
1 AAATAAAT-CA-ATCTATAC
*
23927 AAATAAATCAATCCATAC
1 AAATAAATCAATCTATAC
*
23945 AAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
23959 AAATAAATCAATCTATAC
1 AAATAAATCAATCTATAC
* *
23977 TAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
*
23991 AAATAAATCAATCCATAC
1 AAATAAATCAATCTATAC
* *
24009 TAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
*
24023 AAATAAATCAATCAATAC
1 AAATAAATCAATCTATAC
* *
24041 AACT--A-CAA--TA-AT
1 AAATAAATCAATCTATAC
* *
24053 AAATCAATCCATAT-TTTA-
1 AAATAAAT-CA-ATCTATAC
24071 AAATAAATCAATCTATAC
1 AAATAAATCAATCTATAC
*
24089 AAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
*
24103 AAATAAATCAATCCATAC
1 AAATAAATCAATCTATAC
* *
24121 TAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
*
24135 AAATAAATCAATCCATAC
1 AAATAAATCAATCTATAC
* *
24153 TAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
* *
24167 AAATCAATCAATCCATAC
1 AAATAAATCAATCTATAC
* * * * *
24185 TAATAAAT-TATTTAAAA
1 AAATAAATCAATCTATAC
* *
24202 ACAATCAATCCATAT-TTTA-
1 A-AATAAAT-CA-ATCTATAC
24221 AAATAAATCAATCTATAC
1 AAATAAATCAATCTATAC
* *
24239 TAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
*
24253 AAATAAATCAATCCATAC
1 AAATAAATCAATCTATAC
24271 AA
1 AA
24273 CTACAATAAT
Statistics
Matches: 352, Mismatches: 76, Indels: 140
0.62 0.13 0.25
Matches are distributed among these distances:
12 8 0.02
13 2 0.01
14 66 0.19
15 42 0.12
16 17 0.05
17 61 0.17
18 129 0.37
19 8 0.02
20 3 0.01
21 2 0.01
22 14 0.04
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATCAATCTATAC
Found at i:23798 original size:14 final size:14
Alignment explanation
Indices: 23779--23832 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
23769 CTATACAAAT
23779 AAATAAATTATTTA
1 AAATAAATTATTTA
*
23793 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
23810 CTAATAAATTATTTA
1 -AAATAAATTATTTA
23825 AAATAAAT
1 AAATAAAT
23833 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:23821 original size:32 final size:32
Alignment explanation
Indices: 23757--23896 Score: 140
Period size: 32 Copynumber: 4.6 Consensus size: 32
23747 ATTTTAAAAT
*
23757 AAATCAATCAATCTATACAAATAAATAAATTATTTA
1 AAATAAATCAATCTATAC---T-AATAAATTATTTA
23793 AAATAAATCAATCTATACTAATAAATTATTTA
1 AAATAAATCAATCTATACTAATAAATTATTTA
23825 AAATAAATCAATC----C--AT--A-T-TTTA
1 AAATAAATCAATCTATACTAATAAATTATTTA
23847 AAATAAATCAAT-TGATACTAATAAATTATTTA
1 AAATAAATCAATCT-ATACTAATAAATTATTTA
*
23879 AAATAAATCAATCCATAC
1 AAATAAATCAATCTATAC
23897 AACTACAATA
Statistics
Matches: 90, Mismatches: 2, Indels: 28
0.75 0.02 0.23
Matches are distributed among these distances:
22 16 0.18
23 1 0.01
24 1 0.01
26 3 0.03
28 3 0.03
30 1 0.01
31 1 0.01
32 46 0.51
33 1 0.01
36 17 0.19
ACGTcount: A:0.54, C:0.11, G:0.01, T:0.34
Consensus pattern (32 bp):
AAATAAATCAATCTATACTAATAAATTATTTA
Found at i:23850 original size:54 final size:54
Alignment explanation
Indices: 23789--24464 Score: 480
Period size: 54 Copynumber: 12.2 Consensus size: 54
23779 AAATAAATTA
*
23789 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
** *
23843 TTTAAAATAAATCAATTGATACTAATAAATTATTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---AT
** ** * ** * ** **
23900 TACAATAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACAAATAAAT-T
1 TTTAA-AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCATAT
*
23954 ATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-T
** * * * *
24010 AATAAATTATTTAAAATAAATCAAT-C-AATACAACTA--CAATAATAAATCAATCCATAT
1 TTTAAA--A--T-AAATCAATCCATACTAATA-AATTATTTAA-AATAAATCAATCCATAT
* *
24067 TTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T
*
24130 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATCAATCAATCCATACT
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-T
** * ** * ** **
24186 AATAAATTATTTAAAAACA-A-TCAATCCA-TATTTTAAAATAAATCAATCTATACTAATAAATT
1 TTTAAAATAAATCAATCCATACT-AATAAATTA-TTTAAAATAAATCAATC----C--AT--A-T
*
24248 ATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATAT
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATAT
*
24297 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
24351 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
24405 TTTAAAATAAATCAATCCATACTAAT-AATT-TTTTAAAT-AATAAAT---TAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
24453 TTTAAAATAAAT
1 TTTAAAATAAAT
24465 AGTCTTATTA
Statistics
Matches: 496, Mismatches: 73, Indels: 112
0.73 0.11 0.16
Matches are distributed among these distances:
48 40 0.08
49 3 0.01
50 2 0.00
51 6 0.01
52 20 0.04
53 13 0.03
54 202 0.41
55 31 0.06
56 13 0.03
57 21 0.04
58 55 0.11
59 6 0.01
60 16 0.03
62 3 0.01
63 16 0.03
64 49 0.10
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:23931 original size:80 final size:80
Alignment explanation
Indices: 23701--23976 Score: 365
Period size: 80 Copynumber: 3.3 Consensus size: 80
23691 AAATCCATAT
23701 TTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAAT-
23766 AATCTATACAAATAAATAAATTA
65 --TC-ATAC---T-AATAAATTA
*
23789 TTTAAAATAAATCAATCTATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1 TTTAAAATAAATCAATCTATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAA
*
23853 ATCAATTGATACTAATAAATTA
59 ATCAATTCATACTAATAAATTA
* *
23875 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATT
*
23940 CATACAAATAAATTA
66 CATACTAATAAATTA
23955 TTTAAAATAAATCAATCTATAC
1 TTTAAAATAAATCAATCTATAC
23977 TAATAAATTA
Statistics
Matches: 172, Mismatches: 8, Indels: 24
0.84 0.04 0.12
Matches are distributed among these distances:
80 67 0.39
82 1 0.01
84 1 0.01
85 2 0.01
86 33 0.19
87 1 0.01
88 25 0.15
89 2 0.01
90 5 0.03
91 1 0.01
92 1 0.01
94 33 0.19
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (80 bp):
TTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATT
CATACTAATAAATTA
Found at i:23952 original size:22 final size:22
Alignment explanation
Indices: 23879--23952 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
23869 AAATTATTTA
*
23879 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
23904 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
23926 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
23949 AAAT
1 AAAT
23953 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:23962 original size:32 final size:32
Alignment explanation
Indices: 23923--24403 Score: 469
Period size: 32 Copynumber: 16.7 Consensus size: 32
23913 CAATCCATAT
*
23923 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
23955 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
23987 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
24019 TTTAAAATAAATCAATCAATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
24049 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
24067 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24099 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24131 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
24163 TTTAAAATCAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24195 TTTAAAA-ACAATCAAT-C---C--AT--A-T-
1 TTTAAAATA-AATCAATCCATACTAATAAATTA
*
24217 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
24249 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
24279 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24297 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24329 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24351 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
24383 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
24404 TTTTAAAATA
Statistics
Matches: 380, Mismatches: 15, Indels: 108
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.01
22 57 0.15
23 5 0.01
24 6 0.02
25 2 0.01
26 35 0.09
28 8 0.02
29 1 0.00
30 4 0.01
31 7 0.02
32 253 0.67
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:24027 original size:144 final size:147
Alignment explanation
Indices: 23843--24403 Score: 740
Period size: 144 Copynumber: 3.9 Consensus size: 147
23833 CAATCCATAT
** *
23843 TTTAAAATAAATCAATTGATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA-A-
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATAT
23905 T-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCA
65 TAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCA
*
23969 ATCTATACTAATAAATTA
130 ATCCATACTAATAAATTA
* *
23987 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCAATAC-AACTACA-A-
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATAT
*
24049 T-AATAAATCAATCCATATTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCA
65 TAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCA
24113 ATCCATACTAATAAATTA
130 ATCCATACTAATAAATTA
*
24131 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATCAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAA-TA-
* * *
24196 TTAAAAACAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAAT
64 TTAAATA-AATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAAT
*
24261 CAATCCATAC-AACTACA--A
128 CAATCCATACTAA-TAAATTA
24279 --T--AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAA-TA-
* *
24330 TTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
64 TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAAT
24395 CAATCCATA
128 CAATCCATA
24404 TTTTAAAATA
Statistics
Matches: 393, Mismatches: 15, Indels: 28
0.90 0.03 0.06
Matches are distributed among these distances:
134 98 0.25
135 5 0.01
136 1 0.00
138 2 0.01
140 1 0.00
143 1 0.00
144 205 0.52
145 2 0.01
146 2 0.01
148 2 0.01
149 5 0.01
150 69 0.18
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (147 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATATT
AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAA
TCCATACTAATAAATTA
Found at i:24223 original size:21 final size:22
Alignment explanation
Indices: 24193--24233 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24183 ACTAATAAAT
*
24193 TATTTAAAAA-CAATCAATCCA
1 TATTTAAAAATAAATCAATCCA
*
24214 TATTTTAAAATAAATCAATC
1 TATTTAAAAATAAATCAATC
24234 TATACTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (22 bp):
TATTTAAAAATAAATCAATCCA
Found at i:24307 original size:230 final size:219
Alignment explanation
Indices: 23670--24270 Score: 304
Period size: 230 Copynumber: 2.6 Consensus size: 219
23660 CAACTACAAT
* * * *
23670 AATAAATTATTTAAAATAAATAAATCCATATTTTAAAATAAATCAATCTATAC-AACTACA--A-
1 AATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAA-TAAATTAT
23731 -T--AATAAATCAATCCATA-TTTTAAAATAAATCAATCAATCTATACAAATAAATAAATTATTT
65 TTAAAATAAATCAATCCATACTTTTAAAATAAATCAATC-A---ATAC---T-AAT-AATTATTT
* * *
23792 AAAATAAATCAATCTATACTAATAA-ATT-ATTTAAAATAAATCAATC-CATATTTTA-AAATAA
121 AAAATAAATCAATCCATACTAATAATATTAATATAAAATAAATCAA-CACA-A---TACAAATCA
**
23853 ATCAATTGATACTAATAAATTATTTAAAATAAATCAATCCATACA
181 AT-AATAAAT-C-AAT--ATT-TTTAAAATAAATCAATCCATACA
* * * *
23898 ACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
* *
23957 TAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTT
66 TAAAATAAATCAATC----C--AT--ACT-TTTAAAATAAATCAATCAATACTAAT-AATTATTT
* * *** * *
24022 AAAATAAATCAATCAATAC-AACTACA-A-T-A-AT-AAATCAATCCATATTTTAAAATAAATCA
121 AAAATAAATCAATCCATACTAA-TA-ATATTAATATAAAATAAAT-CA-A-CACAATACAAATCA
* *
24081 ATCTATACAAAT-AA-ATTATTTAAAATAAATCAATCCATACT
181 A--TA-ATAAATCAATATT-TTTAAAATAAATCAATCCATACA
*
24122 AATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATCAATCAATCCATACTA
1 AATAAATTATTTAAAATAAATCAAT---T-C--AT--A-T-TTTAAAATAAATCAATCCATACTA
*
24187 ATAAATTATTTAAAA-ACAATCAATCCATA-TTTTAAAATAAATCAATCTATACTAATAAATTAT
56 ATAAATTATTTAAAATA-AATCAATCCATACTTTTAAAATAAATCAATCAATACTAAT-AATTAT
24250 TTAAAATAAATCAATCCATAC
119 TTAAAATAAATCAATCCATAC
24271 AACTACAATA
Statistics
Matches: 306, Mismatches: 24, Indels: 84
0.74 0.06 0.20
Matches are distributed among these distances:
222 40 0.13
223 2 0.01
224 32 0.10
226 3 0.01
227 3 0.01
228 30 0.10
229 6 0.02
230 104 0.34
231 5 0.02
232 2 0.01
234 9 0.03
236 4 0.01
237 1 0.00
238 18 0.06
239 2 0.01
240 45 0.15
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (219 bp):
AATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
TAAAATAAATCAATCCATACTTTTAAAATAAATCAATCAATACTAATAATTATTTAAAATAAATC
AATCCATACTAATAATATTAATATAAAATAAATCAACACAATACAAATCAATAATAAATCAATAT
TTTTAAAATAAATCAATCCATACA
Found at i:24308 original size:230 final size:219
Alignment explanation
Indices: 23955--24441 Score: 514
Period size: 230 Copynumber: 2.2 Consensus size: 219
23945 AAATAAATTA
*
23955 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAA-ATT-
1 TTTAAAATAAATCAATCAATACTAAT-AATTATTTAAAATAAATCAATCCATACTAATAATATTA
* * *
24018 ATTTAAAATAAATCAA-TCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAA
65 ATATAAAATAAATCAACACAATACAAAT-CAATAATAAATCAAT--AT-TTTTAAAATAAATCAA
*
24082 TCTATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
126 TCCATACAAATAAATTATTTAAAATAAATCAAT---T-C--AT--A-T-TTTAAAATAAATCAAT
*
24147 CCATACTAATAAATTATTTAAAATCAATCAATCCATACT
181 CCATACTAATAAATTATTTAAAATAAATCAATCCATACT
** * * *
24186 AATAAATTATTTAAAAACAATCAAT-C-CAT-A-T-TTTAAAATAAATCAATCTATACTAATAA-
1 TTTAAA--A--T-AAATCAATCAATACTAATAATTATTTAAAATAAATCAATCCATACTAATAAT
* *
24245 ATT-ATTTAAAATAAATCAATC-C-ATACAACTACAATAATAAATCAATCCATATTTTAAAATAA
61 ATTAATATAAAATAAATCAA-CACAATACAAAT-CAATAATAAATCAAT--AT-TTTTAAAATAA
*
24307 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
121 ATCAATCCATACAAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATA
24372 CTAATAAATTATTTAAAATAAATCAATCCATA-T
186 CTAATAAATTATTTAAAATAAATCAATCCATACT
* *
24405 TTTAAAATAAATCAATCCATACTAATAATTTTTTAAA
1 TTTAAAATAAATCAATCAATACTAATAATTATTTAAA
24442 TAATAAATTA
Statistics
Matches: 230, Mismatches: 14, Indels: 36
0.82 0.05 0.13
Matches are distributed among these distances:
214 10 0.04
215 2 0.01
216 2 0.01
217 2 0.01
218 1 0.00
219 11 0.05
220 52 0.23
221 1 0.00
222 1 0.00
224 2 0.01
226 1 0.00
227 1 0.00
230 122 0.53
231 6 0.03
232 1 0.00
233 1 0.00
234 2 0.01
235 2 0.01
236 10 0.04
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (219 bp):
TTTAAAATAAATCAATCAATACTAATAATTATTTAAAATAAATCAATCCATACTAATAATATTAA
TATAAAATAAATCAACACAATACAAATCAATAATAAATCAATATTTTTAAAATAAATCAATCCAT
ACAAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATT
ATTTAAAATAAATCAATCCATACT
Found at i:24319 original size:80 final size:84
Alignment explanation
Indices: 23955--24349 Score: 368
Period size: 80 Copynumber: 4.6 Consensus size: 84
23945 AAATAAATTA
*
23955 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAA-TA-
* *
24020 TTAAAATA-AATCAATCAATACA
64 TTAAAA-ACAATCAATCCATA-T
** * * * * * *
24042 ACTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACAAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAA-TA-
24100 TTAAAATA-AATCAATCCATACTAATAAATT
64 TTAAAA-ACAATCAAT-C---C--AT--A-T
*
24130 ATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATCAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAA-TA
24195 TTTAAAAACAATCAATCCATAT
64 -TTAAAAACAATCAATCCATAT
* *
24217 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA-A-
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATAT
*
24279 T-AATA-AATCAATCCATAT
65 TAAAAACAATCAATCCATAT
*
24297 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
24350 TTTTAAAATA
Statistics
Matches: 264, Mismatches: 26, Indels: 43
0.79 0.08 0.13
Matches are distributed among these distances:
80 110 0.42
81 5 0.02
82 2 0.01
84 3 0.01
85 3 0.01
86 66 0.25
87 6 0.02
88 2 0.01
89 5 0.02
90 11 0.04
91 1 0.00
92 3 0.01
94 1 0.00
95 3 0.01
96 43 0.16
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (84 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATATT
AAAAACAATCAATCCATAT
Found at i:24326 original size:22 final size:23
Alignment explanation
Indices: 24251--24325 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
24241 ATAAATTATT
24251 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
24273 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
24299 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
24322 TAAA
1 TAAA
24326 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:24355 original size:22 final size:22
Alignment explanation
Indices: 24329--24371 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24319 TAATAAATTA
*
24329 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
24351 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
24372 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:24380 original size:22 final size:22
Alignment explanation
Indices: 24331--24379 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
24321 ATAAATTATT
* **
24331 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATCCATATAA
24353 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
24376 TAAA
1 TAAA
24380 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:24409 original size:22 final size:22
Alignment explanation
Indices: 24383--24425 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
24373 TAATAAATTA
24383 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
24405 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
24426 CTAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:24447 original size:15 final size:17
Alignment explanation
Indices: 24427--24458 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24417 CAATCCATAC
24427 TAAT-AATT-TTTTAAA
1 TAATAAATTATTTTAAA
24442 TAATAAATTATTTTAAA
1 TAATAAATTATTTTAAA
24459 ATAAATAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATAAATTATTTTAAA
Found at i:25036 original size:13 final size:13
Alignment explanation
Indices: 25018--25043 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25008 TTATAATTAT
25018 CCTTAAATTGATA
1 CCTTAAATTGATA
25031 CCTTAAATTGATA
1 CCTTAAATTGATA
25044 AAGAGATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
CCTTAAATTGATA
Found at i:29352 original size:20 final size:20
Alignment explanation
Indices: 29315--29352 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29305 AAATTATTGA
*
29315 ATTCTGAAAATTTTATTAGT
1 ATTCTGAAAATTTAATTAGT
29335 ATTCTG-AAATTTGAATTA
1 ATTCTGAAAATTT-AATTA
29353 AATATTGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (20 bp):
ATTCTGAAAATTTAATTAGT
Found at i:30598 original size:2 final size:2
Alignment explanation
Indices: 30591--30615 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30581 AAAATAAATT
30591 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
30616 TGATACTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35712 original size:15 final size:16
Alignment explanation
Indices: 35688--35720 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35678 GCTCTTTTCT
35688 TTGATATT-AATAAAA
1 TTGATATTAAATAAAA
*
35703 TTGATTTTAAATAAAA
1 TTGATATTAAATAAAA
35719 TT
1 TT
35721 AAATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
TTGATATTAAATAAAA
Found at i:35846 original size:26 final size:25
Alignment explanation
Indices: 35807--35855 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
35797 TTCGATATTG
35807 AAAAATATTAAAATAATTTATTTAAA
1 AAAAATATTAAAATAA-TTATTTAAA
*
35833 AAAAATA-TATAAATTATTATTTA
1 AAAAATATTA-AAATAATTATTTA
35856 TCATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAAATATTAAAATAATTATTTAAA
Found at i:37281 original size:3 final size:3
Alignment explanation
Indices: 37273--37310 Score: 51
Period size: 3 Copynumber: 12.3 Consensus size: 3
37263 TTTTTTATTT
37273 ATA ATA ATA AT- ATA ATA ATTA ATA ATTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A-TA ATA A-TA ATA ATA ATA A
37311 AATGAACTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 2 0.06
3 24 0.75
4 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:38181 original size:76 final size:76
Alignment explanation
Indices: 37441--38155 Score: 1270
Period size: 76 Copynumber: 9.4 Consensus size: 76
37431 GAAATGTTGA
* * *
37441 AAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
37506 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
37517 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
37582 AGGCTTTTTGG
66 AGGCTTTTTGG
*
37593 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
37658 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
37669 AAACATAATGCACTGAAGGACTTACAGATGACCTGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
37734 AGGCTTTTTGG
66 AGGCTTTTTGG
*
37745 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
37810 AGGCTTTTTGG
66 AGGCTTTTTGG
*
37821 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
37886 AGGCTTTTTGG
66 AGGCTTTTTGG
*
37897 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
37962 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
37973 AAACATCATGCACTGAAGGACTTATAGATGACCCGAGGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
38038 AGGCTTTTTGG
66 AGGCTTTTTGG
*
38049 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT-AAGAACATCAAAAAGCTCTCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAA-AACATCAAAAAGCTCCCG
38113 AAGGCTTTTTGG
65 AAGGCTTTTTGG
*
38125 AAACATCATGCACTGAAGGACTTATAGATGA
1 AAACATCATGCACTGAAGGACTTACAGATGA
38156 GGGAAATAGT
Statistics
Matches: 616, Mismatches: 22, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
75 2 0.00
76 614 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:39084 original size:113 final size:111
Alignment explanation
Indices: 38559--39084 Score: 741
Period size: 113 Copynumber: 4.7 Consensus size: 111
38549 ATAGAATTAT
* *
38559 GCAAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** *
38624 ATTATGAAC-TTCTCTAGAAAAGTTGTTCCATCAAGTGATGTATTTGA
66 ATTATGAACTTTCTCTAGAAAAG-TAATCCATCAAGTGATGGA-TTGA
* *
38671 GCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCTGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
38736 ATTATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCA
66 ATTATGAACTTTCTCTAG-AAAAGTAATCCATCAAGTGATGGATTGA
38783 GACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 G-CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * * * * *
38848 CATTATGAACTTTCTCTGGAAATGATGATCCATCAAATAATAGATTCAA
65 CATTATGAACTTTCTCTAGAAAAG-TAATCCATCAAGTGATGGATT-GA
* *
38897 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
38962 ATTATGAACTTTCTATAGAAATGTCAATCCATCGAA-TGATGGATTGGA
66 ATTATGAACTTTCTCTAGAAAAGT-AATCCATC-AAGTGATGGATT-GA
*
39010 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
39075 ATTATGAACT
66 ATTATGAACT
39085 CGACCTGGAA
Statistics
Matches: 376, Mismatches: 31, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
112 80 0.21
113 288 0.77
114 8 0.02
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (111 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTAGAAAAGTAATCCATCAAGTGATGGATTGA
Found at i:39546 original size:22 final size:22
Alignment explanation
Indices: 39521--39575 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
39511 CATAAAGTTT
*
39521 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
39543 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
39565 TCATCTTTGAA
1 TCATCTTTGAA
39576 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:40021 original size:54 final size:54
Alignment explanation
Indices: 39939--40108 Score: 286
Period size: 54 Copynumber: 3.1 Consensus size: 54
39929 AGAATAGCAG
* *** *
39939 GTTCGTAAAACATTTGATAGTGCATTCATCCTTTCCTGTGGCTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
*
39993 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTTAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
40047 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
40101 GTTCGTAA
1 GTTCGTAA
40109 TTATTGAAGT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
Found at i:42365 original size:83 final size:83
Alignment explanation
Indices: 42226--42480 Score: 465
Period size: 83 Copynumber: 3.1 Consensus size: 83
42216 TTATTTCTCT
*
42226 TATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTATAACCAGATCAGATAACTCAAAG
1 TATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAG
42291 AACACTTCCAGAAGATGC
66 AACACTTCCAGAAGATGC
*
42309 TATGAGCACATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAG
1 TATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAG
*
42374 AACACTTCCAAAAGATGC
66 AACACTTCCAGAAGATGC
* *
42392 TATGAGCAGATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAG
1 TATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAG
42457 AACACTTCCAGAAGATGC
66 AACACTTCCAGAAGATGC
42475 TATGAG
1 TATGAG
42481 TCTCTTTCAG
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 166 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (83 bp):
TATGAGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGC
Found at i:49930 original size:15 final size:16
Alignment explanation
Indices: 49906--49938 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49896 GCTCTTTTCT
49906 TTGATATT-AATAAAA
1 TTGATATTAAATAAAA
*
49921 TTGATTTTAAATAAAA
1 TTGATATTAAATAAAA
49937 TT
1 TT
49939 AAATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
TTGATATTAAATAAAA
Found at i:50064 original size:26 final size:25
Alignment explanation
Indices: 50025--50073 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
50015 TTCGATATTG
50025 AAAAATATTAAAATAATTTATTTAAA
1 AAAAATATTAAAATAA-TTATTTAAA
*
50051 AAAAATA-TATAAATTATTATTTA
1 AAAAATATTA-AAATAATTATTTA
50074 TCATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAAATATTAAAATAATTATTTAAA
Found at i:50421 original size:2 final size:2
Alignment explanation
Indices: 50414--50446 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
50404 GATATTTACC
50414 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50447 TCTGATAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51512 original size:3 final size:3
Alignment explanation
Indices: 51504--51544 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
51494 ATTTTTTATT
*
51504 TAA TAA TAA TAA T-A TAA TAA -AT TAA TAA TTAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA
51545 AATGAACTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:63011 original size:9 final size:9
Alignment explanation
Indices: 62997--63030 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
62987 TTCAGTAGTT
62997 ATTTTTTTA
1 ATTTTTTTA
63006 ATTTTTTTA
1 ATTTTTTTA
*
63015 ATTTTATTA
1 ATTTTTTTA
63024 ATTTTTT
1 ATTTTTT
63031 AATATAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:68682 original size:31 final size:31
Alignment explanation
Indices: 68647--68723 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
68637 AAATTGATAT
*
68647 TTTATATAAAATTTAAG-GATTAAAATAACAA
1 TTTATTTAAAATTTAAGAG-TTAAAATAACAA
* * *
68678 TTTATTTAAAATTT-AGAGTTAAATTAATAT
1 TTTATTTAAAATTTAAGAGTTAAAATAACAA
68708 TTTATTTAAAATTTAA
1 TTTATTTAAAATTTAA
68724 AGATCAAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 25 0.62
31 15 0.38
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (31 bp):
TTTATTTAAAATTTAAGAGTTAAAATAACAA
Found at i:68712 original size:30 final size:31
Alignment explanation
Indices: 68637--68737 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 31
68627 ACATAAGATC
* *
68637 AAATTGATATTTTATATAAAATTTAAGGATT
1 AAATTAATATTTTATTTAAAATTTAAGGATT
* * *
68668 AAAATAACAATTTATTTAAAATTT-A-GAGTT
1 AAATTAATATTTTATTTAAAATTTAAGGA-TT
* *
68698 AAATTAATATTTTATTTAAAATTTAAAGATC
1 AAATTAATATTTTATTTAAAATTTAAGGATT
*
68729 AAATCAATA
1 AAATTAATA
68738 ATTAACCTCT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
29 2 0.04
30 24 0.42
31 29 0.51
32 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (31 bp):
AAATTAATATTTTATTTAAAATTTAAGGATT
Found at i:79273 original size:18 final size:18
Alignment explanation
Indices: 79249--79298 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
79239 GTACTTTACT
79249 GGGAATAGGATTACCGGC
1 GGGAATAGGATTACCGGC
* *
79267 TGGAATAGGATTACCTGC
1 GGGAATAGGATTACCGGC
*
79285 GGGAATAAGATTAC
1 GGGAATAGGATTAC
79299 TGAGAATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (18 bp):
GGGAATAGGATTACCGGC
Found at i:80992 original size:38 final size:38
Alignment explanation
Indices: 80941--81014 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
80931 CTACTACGTC
*
80941 GCCAGCTTCCCGGAAGAGATAATGGACGTATGCATGTT
1 GCCAGCTTCCCGGAAGAGATAATGGACATATGCATGTT
*
80979 GCCAGCTTCCCGGAAGAGATAATGGACATTTGCATG
1 GCCAGCTTCCCGGAAGAGATAATGGACATATGCATG
81015 GCACATGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (38 bp):
GCCAGCTTCCCGGAAGAGATAATGGACATATGCATGTT
Found at i:81069 original size:31 final size:30
Alignment explanation
Indices: 81034--81111 Score: 113
Period size: 29 Copynumber: 2.6 Consensus size: 30
81024 TGTCCCCAAT
* *
81034 AGGTCGCCATGCATTCCCCAACACCCCTACA
1 AGGTCGCCATGCACTCCCCAACA-ACCTACA
*
81065 AGGTCGCCAAGCACT-CCCAACAACCTACA
1 AGGTCGCCATGCACTCCCCAACAACCTACA
81094 AGGTCGCCATGCACTCCC
1 AGGTCGCCATGCACTCCC
81112 AGCGACCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 20 0.48
30 9 0.21
31 13 0.31
ACGTcount: A:0.27, C:0.44, G:0.15, T:0.14
Consensus pattern (30 bp):
AGGTCGCCATGCACTCCCCAACAACCTACA
Found at i:81096 original size:29 final size:29
Alignment explanation
Indices: 81034--81140 Score: 106
Period size: 29 Copynumber: 3.6 Consensus size: 29
81024 TGTCCCCAAT
* * *
81034 AGGTCGCCATGCATTCCCCAACACCCCTACA
1 AGGTCGCCAAGCACT-CCCAACA-ACCTACA
81065 AGGTCGCCAAGCACTCCCAACAACCTACA
1 AGGTCGCCAAGCACTCCCAACAACCTACA
* * * ***
81094 AGGTCGCCATGCACTCCCAGCGACCTTGT
1 AGGTCGCCAAGCACTCCCAACAACCTACA
*
81123 AGGTCGCCAAGCAATCCC
1 AGGTCGCCAAGCACTCCC
81141 GGCGACCAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 45 0.69
30 7 0.11
31 13 0.20
ACGTcount: A:0.26, C:0.41, G:0.18, T:0.15
Consensus pattern (29 bp):
AGGTCGCCAAGCACTCCCAACAACCTACA
Found at i:81197 original size:32 final size:32
Alignment explanation
Indices: 81156--81220 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
81146 CCAAGCCTCT
81156 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
81188 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
1 GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
81220 G
1 G
81221 GAGATTCCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.12, C:0.31, G:0.29, T:0.28
Consensus pattern (32 bp):
GCTCCCTCGTGCATGGGTTGCATCCATAGCTG
Found at i:81236 original size:23 final size:23
Alignment explanation
Indices: 81206--81249 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
81196 GTGCATGGGT
81206 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
81229 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
81250 GTAGCCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:81699 original size:27 final size:27
Alignment explanation
Indices: 81661--81714 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
81651 AATTTAGTTA
81661 ATTAGTTTGTTAGTTTAAGTTATATAT
1 ATTAGTTTGTTAGTTTAAGTTATATAT
81688 ATTAGTTTGTTAGTTTAAGTTATATAT
1 ATTAGTTTGTTAGTTTAAGTTATATAT
81715 TATATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (27 bp):
ATTAGTTTGTTAGTTTAAGTTATATAT
Found at i:82053 original size:20 final size:21
Alignment explanation
Indices: 82009--82053 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
81999 AAATATTATG
**
82009 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
82030 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
82050 TTTA
1 TTTA
82054 TACTATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Done.