Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006834.1 Hibiscus syriacus cultivar Beakdansim tig00017372_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: 74057
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:126 original size:13 final size:14
Alignment explanation
Indices: 108--142 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
98 TAAGATTTTC
108 TTTGAAAATC-ATT
1 TTTGAAAATCAATT
121 TTTG-AAATCAATT
1 TTTGAAAATCAATT
134 TTTGAAAAT
1 TTTGAAAAT
143 TACTCATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 11 0.55
14 4 0.20
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (14 bp):
TTTGAAAATCAATT
Found at i:2274 original size:43 final size:44
Alignment explanation
Indices: 2212--2313 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
2202 AAACCCAACG
*
2212 AGTGTATCGATGCACATTC-AGGCATGCATCAGTGCA-TCTTCAT
1 AGTGTATCGATGCACATTCAAGGCATGCATCAGTACACT-TTCAT
* * *
2255 AGTGTATCGATGCATATTCAAGGGATGCATCGGTACACTTTCAT
1 AGTGTATCGATGCACATTCAAGGCATGCATCAGTACACTTTCAT
2299 AGTGTATC-ATGCACA
1 AGTGTATCGATGCACA
2314 GTGCACAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
43 24 0.46
44 27 0.52
45 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (44 bp):
AGTGTATCGATGCACATTCAAGGCATGCATCAGTACACTTTCAT
Found at i:9313 original size:60 final size:58
Alignment explanation
Indices: 9229--9404 Score: 162
Period size: 60 Copynumber: 2.9 Consensus size: 58
9219 ATTATGACTC
* * *
9229 TCATTCTAAATTAATCCTTAAACTTTTGAACATTTCAAATTCATCCCTAAACTATAACAA
1 TCATTCTAAA-TAGTCCTCAAACTTTTGAACATTTCAATTTCATCCCTAAACTATAAC-A
* * * * *
9289 TCATTCTAGACTAGTCCTCAAACTTTTGAGCATTT-AATTTTAATACCC-AAACTATGATCT
1 TCATTCTA-AATAGTCCTCAAACTTTTGAACATTTCAA-TTTCAT-CCCTAAACTAT-AACA
*
9349 TCATTCGAAATAAGT-CTCTAAACTTTTTGAACATTTCAATTTCAT-CCTAAACTATA
1 TCATTCTAAAT-AGTCCTC-AAAC-TTTTGAACATTTCAATTTCATCCCTAAACTATA
9405 TGTATATACT
Statistics
Matches: 95, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
59 10 0.11
60 61 0.64
61 22 0.23
62 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (58 bp):
TCATTCTAAATAGTCCTCAAACTTTTGAACATTTCAATTTCATCCCTAAACTATAACA
Found at i:15972 original size:11 final size:12
Alignment explanation
Indices: 15943--15975 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15933 TATTTAAACG
15943 GGTATTGGGCCA
1 GGTATTGGGCCA
*
15955 GGTATTGGGTCA
1 GGTATTGGGCCA
15967 -GTATTGGGC
1 GGTATTGGGC
15976 TGGGAATCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.15, C:0.12, G:0.42, T:0.30
Consensus pattern (12 bp):
GGTATTGGGCCA
Found at i:16052 original size:24 final size:24
Alignment explanation
Indices: 15992--16052 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
15982 TCGGGCCGGG
15992 TATATATATA-TATTTAAATTAAA
1 TATATATATATTATTTAAATTAAA
*
16015 TATATATATTTTATTTAAATTAAA
1 TATATATATATTATTTAAATTAAA
*
16039 TTTAT-TAATATTAT
1 TATATAT-ATATTAT
16053 ATATATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.30
24 23 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATATATATTATTTAAATTAAA
Found at i:16162 original size:6 final size:6
Alignment explanation
Indices: 16153--16181 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16143 GATTACCAAA
16153 CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
1 CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
16182 TTAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.66, G:0.17, T:0.17
Consensus pattern (6 bp):
CCCGTC
Found at i:16210 original size:6 final size:6
Alignment explanation
Indices: 16199--16223 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16189 AAATGGGTTT
16199 TCCCCG TCCCCG TCCCCG TCCCCG T
1 TCCCCG TCCCCG TCCCCG TCCCCG T
16224 TTATCATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.16, T:0.20
Consensus pattern (6 bp):
TCCCCG
Found at i:18766 original size:12 final size:12
Alignment explanation
Indices: 18749--18779 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18739 TTAACTAGCT
18749 TAATTAAACTAA
1 TAATTAAACTAA
*
18761 TAATTATACTAA
1 TAATTAAACTAA
18773 TAATTAA
1 TAATTAA
18780 GTCCTTGCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATTAAACTAA
Found at i:20576 original size:29 final size:29
Alignment explanation
Indices: 20488--20610 Score: 101
Period size: 29 Copynumber: 4.3 Consensus size: 29
20478 CATTTTACAC
20488 AAATAGCA-CCATTTTCGAATTAATTCCCA
1 AAATAGCACCCA-TTTCGAATTAATTCCCA
* ** * * *
20517 AAATATCA--TTTTTCGAA-AAATTACTA
1 AAATAGCACCCATTTCGAATTAATTCCCA
20543 AAATAGCACCCATTTCGAATTAATTCCCA
1 AAATAGCACCCATTTCGAATTAATTCCCA
* * ***
20572 GAATAGCACCAAAACCGAATTAATTCCCA
1 AAATAGCACCCATTTCGAATTAATTCCCA
*
20601 GAATAGCACC
1 AAATAGCACC
20611 GGTCAACGGT
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
26 13 0.18
27 7 0.09
28 7 0.09
29 47 0.64
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (29 bp):
AAATAGCACCCATTTCGAATTAATTCCCA
Found at i:20643 original size:12 final size:13
Alignment explanation
Indices: 20618--20659 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
20608 ACCGGTCAAC
20618 GGTCAACGGGTCG
1 GGTCAACGGGTCG
20631 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
*
20643 GGTAAACGGGTCG
1 GGTCAACGGGTCG
20656 GGTC
1 GGTC
20660 GGGTAAACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.17, C:0.21, G:0.45, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:20661 original size:18 final size:18
Alignment explanation
Indices: 20638--20691 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
20628 TCGGGTCAAC
20638 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
* *
20656 GGTCGGGTAAACTGGTCA
1 GGTCGGGTAAACGGGTCG
20674 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
20692 TGACCGGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.46, T:0.19
Consensus pattern (18 bp):
GGTCGGGTAAACGGGTCG
Found at i:20724 original size:11 final size:11
Alignment explanation
Indices: 20708--20749 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
20698 GTCAAACAGG
20708 TCAAAACCGGT
1 TCAAAACCGGT
20719 TCAAAACCGGT
1 TCAAAACCGGT
20730 T--AAACCGG-
1 TCAAAACCGGT
20738 TCAAAACCGGT
1 TCAAAACCGGT
20749 T
1 T
20750 TCCAGCGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.04
9 7 0.25
10 7 0.25
11 13 0.46
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (11 bp):
TCAAAACCGGT
Found at i:20743 original size:19 final size:20
Alignment explanation
Indices: 20711--20749 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
20701 AAACAGGTCA
20711 AAACCGGTTCAAAACCGGTT
1 AAACCGGTTCAAAACCGGTT
20731 AAACCGG-TCAAAACCGGTT
1 AAACCGGTTCAAAACCGGTT
20750 TCCAGCGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (20 bp):
AAACCGGTTCAAAACCGGTT
Found at i:23635 original size:12 final size:13
Alignment explanation
Indices: 23610--23651 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
23600 GAATAGCACC
23610 GGTCAACGGGTCG
1 GGTCAACGGGTCG
23623 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
*
23635 GGTAAACGGGTCG
1 GGTCAACGGGTCG
23648 GGTC
1 GGTC
23652 GGGTAAACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.17, C:0.21, G:0.45, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:23653 original size:18 final size:18
Alignment explanation
Indices: 23630--23683 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
23620 TCGGGTCAAC
23630 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
*
23648 GGTCGGGTAAACTGGTCG
1 GGTCGGGTAAACGGGTCG
23666 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
23684 TGACCGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.48, T:0.19
Consensus pattern (18 bp):
GGTCGGGTAAACGGGTCG
Found at i:23683 original size:13 final size:13
Alignment explanation
Indices: 23614--23650 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
23604 AGCACCGGTC
*
23614 AACGGGTCGGGTC
1 AACGGGTCGGGTA
23627 AAC-GGTCGGGTA
1 AACGGGTCGGGTA
23639 AACGGGTCGGGT
1 AACGGGTCGGGT
23651 CGGGTAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.19, C:0.19, G:0.46, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:23706 original size:10 final size:10
Alignment explanation
Indices: 23686--23740 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
23676 ACGGGTCGTG
23686 ACCGGTC-AA
1 ACCGGTCAAA
23695 ACCGGTCAAA
1 ACCGGTCAAA
23705 ACCGGTTCAAA
1 ACCGG-TCAAA
*
23716 ACCGGT-TAA
1 ACCGGTCAAA
23725 ACCGGTCAAA
1 ACCGGTCAAA
23735 ACCGGT
1 ACCGGT
23741 TTCCAGCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
9 15 0.37
10 16 0.39
11 10 0.24
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.15
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:23741 original size:19 final size:19
Alignment explanation
Indices: 23686--23741 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
23676 ACGGGTCGTG
*
23686 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGT-TAA
23705 ACCGGTTCAAAACCGGTTAA
1 ACCGG-TCAAAACCGGTTAA
23725 ACCGGTCAAAACCGGTT
1 ACCGGTCAAAACCGGTT
23742 TCCAGCGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.50
20 9 0.26
21 8 0.24
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAAACCGGTTAA
Found at i:25352 original size:21 final size:19
Alignment explanation
Indices: 25328--25371 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
25318 TTTTTTTGAT
25328 ATATGATATTATTATTCTATA
1 ATATGATATTA-TATT-TATA
**
25349 ATATTTTATTATATTTATA
1 ATATGATATTATATTTATA
25368 ATAT
1 ATAT
25372 TAATTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 4 0.19
21 9 0.43
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
ATATGATATTATATTTATA
Found at i:25377 original size:18 final size:20
Alignment explanation
Indices: 25335--25379 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
25325 GATATATGAT
*
25335 ATTATTATTCTATAATATTTT
1 ATTA-TATTCTATAATATTTA
25356 ATTATATT-TATAATA-TTA
1 ATTATATTCTATAATATTTA
25374 ATTATA
1 ATTATA
25380 AATTTTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 7 0.30
20 4 0.17
21 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATATTCTATAATATTTA
Found at i:25378 original size:21 final size:19
Alignment explanation
Indices: 25334--25378 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
25324 TGATATATGA
25334 TATTATTATTCTATAATAT
1 TATTATTATTCTATAATAT
*
25353 T-TTATTATATTTATAATAT
1 TATTATTAT-TCTATAATAT
25372 TAATTAT
1 T-ATTAT
25379 AAATTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 11 0.50
21 4 0.18
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATTATTCTATAATAT
Found at i:25484 original size:26 final size:26
Alignment explanation
Indices: 25447--25500 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
25437 TAAATTATTT
25447 ATTTATTGTAGTTTA-CTCTAATAATAA
1 ATTTATTGTAGTTTATC-CTAA-AATAA
25474 ATTT-TTGTAGTTTATCCTAAAATAA
1 ATTTATTGTAGTTTATCCTAAAATAA
25499 AT
1 AT
25501 AGTTTACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 7 0.27
26 14 0.54
27 5 0.19
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (26 bp):
ATTTATTGTAGTTTATCCTAAAATAA
Found at i:26022 original size:32 final size:32
Alignment explanation
Indices: 25981--26044 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
25971 ACAACTATAA
25981 TAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAC
26013 TAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAC
26045 AACTACAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (32 bp):
TAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:26079 original size:80 final size:79
Alignment explanation
Indices: 25991--26760 Score: 681
Period size: 80 Copynumber: 9.7 Consensus size: 79
25981 TAATAAATTA
25991 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-AACTACAATAA
26056 TAAATCAATCCATAT
65 TAAATCAATCCATAT
* * * ** *
26071 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT-C-TATATTTTAA-AAC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAACTACAATAAT
26133 AAATCAATCCATAT
66 AAATCAATCCATAT
* *
26147 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-AACTACAATAA
*
26212 TAAATCAATTCATAT
65 TAAATCAATCCATAT
* * * * **
26227 TTTAAAATAAATCAATTCACACTAATAAATTATTTAAAATAAATCAAT-C-TATATTTTAA-AAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAACTACAATAAT
26289 AAATCAATCCATACT
66 AAATCAATCCATA-T
** * * * ***
26304 AATAAATTATTTAAAAT-AATCAAT-C-CATACAATTA--CAATAATAAATCAATCCATATTTTA
1 TTTAAA--A--T-AAATCAATCCATACTAATA-AATTATTTAA-AATAAATCAATCCATAAACTA
* * * *
26364 AAATAAATCAATCCATACTAATAAATT
59 CAAT-AATAAATCAAT-C-CAT--A-T
* * **
26391 ATTTAAAATAAATCAATCCATA-TAACTACA--A--T--AATAAATCAATCCAT--ATTTTAA-A
1 -TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATAAACTACAATA
26446 ATAAATCAATCCATACT
64 ATAAATCAATCCATA-T
** * ** * ** ** *
26463 AATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAATCAATCCATACTAA-TAAAT
1 TTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATCAATCCATA--AACTACA-
26524 TATTTAAAATAAATCAATCCATAT
61 -A--T--AATAAATCAATCCATAT
26548 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-AACTACAATAA
*
26613 TAAAACAATCCATAT
65 TAAATCAATCCATAT
26628 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA-AACTACAATAA
*
26693 TAAATCAATTCATAT
65 TAAATCAATCCATAT
*
26708 TTTAAAATAAATCAACCCATACTAATAAATTATTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATA
26761 TTTTAAAATA
Statistics
Matches: 566, Mismatches: 76, Indels: 96
0.77 0.10 0.13
Matches are distributed among these distances:
70 3 0.01
71 10 0.02
72 7 0.01
74 3 0.01
75 1 0.00
76 103 0.18
77 13 0.02
78 12 0.02
79 22 0.04
80 275 0.49
81 13 0.02
82 5 0.01
83 14 0.02
84 14 0.02
85 16 0.03
86 47 0.08
87 4 0.01
88 4 0.01
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (79 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAAACTACAATAAT
AAATCAATCCATAT
Found at i:26173 original size:18 final size:18
Alignment explanation
Indices: 26151--26202 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
26141 CCATATTTTA
26151 AAATAAATCAATCTATAC
1 AAATAAATCAATCTATAC
* *
26169 TAATAAAT-TAT-T-TA-
1 AAATAAATCAATCTATAC
26183 AAATAAATCAATCTATAC
1 AAATAAATCAATCTATAC
26201 AA
1 AA
26203 CTACAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
14 7 0.27
15 4 0.15
16 2 0.08
17 4 0.15
18 9 0.35
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATAAATCAATCTATAC
Found at i:26176 original size:22 final size:22
Alignment explanation
Indices: 26103--26167 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
26093 TAATAAATTA
26103 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCTATAT
* *
26125 TTTAAAACAAATCAATCCATAT
1 TTTAAAATAAATCAATCTATAT
26147 TTTAAAATAAATCAATCTATA
1 TTTAAAATAAATCAATCTATA
26168 CTAATAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCTATAT
Found at i:26310 original size:22 final size:22
Alignment explanation
Indices: 26261--26309 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
26251 ATAAATTATT
* **
26261 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
26283 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
26306 TAAA
1 TAAA
26310 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:26389 original size:22 final size:22
Alignment explanation
Indices: 26315--26388 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
26305 ATAAATTATT
*
26315 TAAAAT-AATCAATCCATACAA
1 TAAAATAAATCAATCCATATAA
**
26336 TTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
26362 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
26385 TAAA
1 TAAA
26389 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
22 17 0.40
23 7 0.17
24 2 0.05
25 4 0.10
26 12 0.29
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:26420 original size:213 final size:212
Alignment explanation
Indices: 26054--26568 Score: 842
Period size: 213 Copynumber: 2.4 Consensus size: 212
26044 CAACTACAAT
*
26054 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* ** *
26119 -C-TATATTTTAAAACAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTT
66 CCATAAATTACAAAACAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
* * *
26182 AAAATAAATCAATCTATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATCAATTCAC
131 AAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCAC
26247 ACTAATAAATTATTTAA
196 ACTAATAAATTATTTAA
*
26264 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT-AATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
26328 CCATACAATTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
66 CCATA-AATTACAA-AACAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
26393 TTAAAATAAATCAATCCATATAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
129 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
26458 ATACTAATAAATTATTTAA
194 ACACTAATAAATTATTTAA
26477 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
** *
26542 CCAT--ATTTTAAAATAAATCAATCCATA
66 CCATAAATTACAAAACAAATCAATCCATA
26569 CTAATAAATT
Statistics
Matches: 285, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
209 7 0.02
210 72 0.25
211 7 0.02
212 5 0.02
213 183 0.64
214 11 0.04
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (212 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATAAATTACAAAACAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
AAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCAC
ACTAATAAATTATTTAA
Found at i:26448 original size:22 final size:23
Alignment explanation
Indices: 26390--26460 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 23
26380 ACTAATAAAT
26390 TATTTAAAATAAATCAATCCATA
1 TATTTAAAATAAATCAATCCATA
**
26413 TAACTACAATAATAAATCAATCCATA
1 T-A-TTTAA-AATAAATCAATCCATA
26439 T-TTTAAAATAAATCAATCCATA
1 TATTTAAAATAAATCAATCCATA
26461 CTAATAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 16 0.39
23 4 0.10
24 1 0.02
25 3 0.07
26 17 0.41
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.32
Consensus pattern (23 bp):
TATTTAAAATAAATCAATCCATA
Found at i:26469 original size:22 final size:22
Alignment explanation
Indices: 26394--26468 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 22
26384 ATAAATTATT
26394 TAAAATAAATCAATCCATATAA
1 TAAAATAAATCAATCCATATAA
**
26416 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
26442 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
26465 TAAA
1 TAAA
26469 TTATTTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 16 0.36
23 8 0.18
25 3 0.07
26 17 0.39
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:26498 original size:22 final size:22
Alignment explanation
Indices: 26472--26514 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26462 TAATAAATTA
26472 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
26494 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
26515 CTAATAAATT
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:26523 original size:22 final size:22
Alignment explanation
Indices: 26474--26522 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
26464 ATAAATTATT
**
26474 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
26496 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
26519 TAAA
1 TAAA
26523 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:26552 original size:22 final size:22
Alignment explanation
Indices: 26526--26568 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26516 TAATAAATTA
26526 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
26548 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
26569 CTAATAAATT
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:26577 original size:22 final size:22
Alignment explanation
Indices: 26528--26576 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
26518 ATAAATTATT
**
26528 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
26550 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
26573 TAAA
1 TAAA
26577 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:26596 original size:32 final size:31
Alignment explanation
Indices: 26548--26815 Score: 119
Period size: 32 Copynumber: 9.7 Consensus size: 31
26538 CAATCCATAT
26548 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
26580 TTTAAAATAAATCAATCCATA-TAACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
* **
26610 --T--AATAAAACAATCCATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
26635 -------TAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
26660 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
* **
26690 --T--AATAAATCAATTCATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
26715 -------TAAATCAACCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
26740 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
26762 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
26794 TTTAAAATAAAACAATCCATAC
1 TTTAAAATAAATCAATCCATAC
26816 AACTACAATA
Statistics
Matches: 184, Mismatches: 19, Indels: 66
0.68 0.07 0.25
Matches are distributed among these distances:
22 41 0.22
23 12 0.07
24 1 0.01
25 10 0.05
26 34 0.18
28 5 0.03
30 3 0.02
31 7 0.04
32 71 0.39
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:26623 original size:134 final size:129
Alignment explanation
Indices: 26125--26932 Score: 861
Period size: 134 Copynumber: 6.1 Consensus size: 129
26115 CAATCTATAT
* ** * *
26125 TTTAAAACAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATACTAAAAT-AATAAATCCATACTAAT--A-T-TTTAAAATAAA
* * * *
26190 TCAATCTATAC-AACTACAATAATAAATCAATTCATATTTTAAAATAAATCAATTCACACTAATA
61 TCAATCCATACTAA-TACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
26254 AATTA
125 AATTA
* ** *
26259 TTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT-AA
1 TTTAAAATAAATCAATCCATATACTAAAAT-AATAAATCCATACTAAT--A-T-TTTAAAATAAA
26323 TCAATCCATAC-AATTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
61 TCAATCCATACTAA-TACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
26387 AATTA
125 AATTA
* * *
26392 TTTAAAATAAATCAATCCATATAACTACAATAATAAATCAAT-C-CATATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATAT-ACTAAAATAATAAATCCATACTAATATTTTAAAATAAATCAA
*
26455 TCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT
65 TCCATACTAATACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT
26520 AAATTA
124 AAATTA
** *
26526 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATACTAAAAT-AATAAATCCATACTAAT--A-T-TTTAAAATAAA
*
26591 TCAATCCATA-TAACTACAATAATAAAACAATCCATATTTTAAAATAAATCAATCCATACTAATA
61 TCAATCCATACTAA-TACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATA
26655 AATTA
125 AATTA
* * * *
26660 TTTAAAATAAATCAATCCATACAACTACAATAATAAAT-CA-ATTCATATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATA-TACTAAAATAATAAATCCATACTAATATTTTAAAATAAATCAA
* *
26723 CCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT
65 TCCATACTAATACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT
26788 AAATTA
124 AAATTA
* * * * *
26794 TTTAAAATAAAACAATCCATACAACTACAATAATAAATCAAT-C-CATATTTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCATA-TACTAAAATAATAAATCCATACTAATATTTTAAAATAAATCAA
* * * * *
26857 TTCATACTAATA-AATTATTTAAAATAAAT---TATTTTAAAATAAATTAATTCATACTAATAAA
65 TCCATACTAATACAA-TA-AT-AAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA
26918 TTA
127 TTA
26921 TTTAAAATAAAT
1 TTTAAAATAAAT
26933 TATTTTAAAA
Statistics
Matches: 601, Mismatches: 44, Indels: 65
0.85 0.06 0.09
Matches are distributed among these distances:
127 52 0.09
128 41 0.07
129 8 0.01
130 12 0.02
131 3 0.00
132 7 0.01
133 104 0.17
134 334 0.56
135 7 0.01
136 3 0.00
138 2 0.00
139 4 0.01
140 24 0.04
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (129 bp):
TTTAAAATAAATCAATCCATATACTAAAATAATAAATCCATACTAATATTTTAAAATAAATCAAT
CCATACTAATACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:26643 original size:22 final size:23
Alignment explanation
Indices: 26578--26648 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 23
26568 ACTAATAAAT
26578 TATTTAAAATAAATCAATCCATA
1 TATTTAAAATAAATCAATCCATA
** *
26601 TAACTACAATAATAAAACAATCCATA
1 T-A-TTTAA-AATAAATCAATCCATA
26627 T-TTTAAAATAAATCAATCCATA
1 TATTTAAAATAAATCAATCCATA
26649 CTAATAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
22 15 0.38
23 4 0.10
24 1 0.03
25 3 0.08
26 16 0.41
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (23 bp):
TATTTAAAATAAATCAATCCATA
Found at i:26657 original size:22 final size:22
Alignment explanation
Indices: 26582--26656 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 22
26572 ATAAATTATT
26582 TAAAATAAATCAATCCATATAA
1 TAAAATAAATCAATCCATATAA
* **
26604 CTACAATAATAAAACAATCCATATTT
1 -T--AA-AATAAATCAATCCATATAA
26630 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
26653 TAAA
1 TAAA
26657 TTATTTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 15 0.36
23 8 0.19
25 3 0.07
26 16 0.38
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:26766 original size:22 final size:22
Alignment explanation
Indices: 26740--26782 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
26730 TAATAAATTA
26740 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
26762 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
26783 CTAATAAATT
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:26791 original size:22 final size:22
Alignment explanation
Indices: 26742--26790 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
26732 ATAAATTATT
**
26742 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
26764 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
26787 TAAA
1 TAAA
26791 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:26811 original size:54 final size:54
Alignment explanation
Indices: 26054--26814 Score: 688
Period size: 54 Copynumber: 14.3 Consensus size: 54
26044 CAACTACAAT
*
26054 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * * * * *
26108 AATAAATCAATCTATATTTTAAAACAAATCAATCCATATTTTAAAATAAATCAATCTAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATA--CT--AATAAAT-TATTTAA
* * * *
26167 ACT-AATAAAT---TA-TTTAAAATAAATCAATCTATAC-AACTACA--A--T--
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
* * *
26210 AATAAATCAATTCATATTTTAAAATAAATCAATTCACACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
26264 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** * ** *
26318 AAT-AATCAATCCATACAATTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** ** *
26373 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-TAACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
26423 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
26477 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
26531 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * ** * ** *
26585 AATAAATCAATCCATATAACTACAATAATAAAACAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCATAT---TTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** ** *
26641 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
* *
26691 AATAAATCAATTCATATTTTAAAATAAATCAACCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
26745 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
26799 AATAAAACAATCCATA
1 AATAAATCAATCCATA
26815 CAACTACAAT
Statistics
Matches: 582, Mismatches: 74, Indels: 102
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
45 1 0.00
47 3 0.01
48 80 0.14
49 13 0.02
50 16 0.03
51 2 0.00
52 3 0.01
53 12 0.02
54 332 0.57
55 17 0.03
56 21 0.04
57 30 0.05
58 38 0.07
59 6 0.01
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:26894 original size:15 final size:15
Alignment explanation
Indices: 26865--27029 Score: 181
Period size: 15 Copynumber: 10.5 Consensus size: 15
26855 AATTCATACT
26865 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
26879 AATAAATTATTTTAA
1 AATAAATTATTTTAA
* *
26894 AATAAATTAATTCATACT
1 AATAAATT-ATT-TTA-A
26912 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
26926 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
26941 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
26963 AATAAATTATTTTAA
1 AATAAATTATTTTAA
* *
26978 AATAAGTTATTTTAT
1 AATAAATTATTTTAA
26993 AATAAATTATTTTAA
1 AATAAATTATTTTAA
27008 AATAAATTATTTTAA
1 AATAAATTATTTTAA
27023 AATAAAT
1 AATAAAT
27030 AATCTTATTA
Statistics
Matches: 129, Mismatches: 10, Indels: 23
0.80 0.06 0.14
Matches are distributed among these distances:
14 18 0.14
15 78 0.60
16 4 0.03
17 4 0.03
18 11 0.09
19 3 0.02
20 1 0.01
22 10 0.08
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:26900 original size:47 final size:48
Alignment explanation
Indices: 26839--27029 Score: 239
Period size: 47 Copynumber: 4.0 Consensus size: 48
26829 AATCAATCCA
26839 TATTTTAAAATAAATCAATTCATACTAATAAATTA-TTTAAAATAAAT
1 TATTTTAAAATAAATCAATTCATACTAATAAATTATTTTAAAATAAAT
*
26886 TATTTTAAAATAAATTAATTCATACTAATAAATTA-TTTAAAATAAAT
1 TATTTTAAAATAAATCAATTCATACTAATAAATTATTTTAAAATAAAT
* * *
26933 TATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAAGT
1 TATTTTAAAATAAATCAATTCATA----CTAATAAATTATTTTAAAATAAAT
* * * *
26985 TATTTTATAATAAAT-TATT-TTA-AAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATTCATACTAATAAATTATTTTAAAATAAAT
27030 AATCTTATTA
Statistics
Matches: 128, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
45 21 0.16
47 68 0.53
50 2 0.02
51 12 0.09
52 25 0.20
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (48 bp):
TATTTTAAAATAAATCAATTCATACTAATAAATTATTTTAAAATAAAT
Found at i:26923 original size:80 final size:79
Alignment explanation
Indices: 26759--27014 Score: 202
Period size: 80 Copynumber: 3.2 Consensus size: 79
26749 AATCAATCCA
* ** ** *
26759 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAACAATCCATACAACTACAA
1 TATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAT-AAATTAT-TTTA-AAATA-AA
* **
26824 -TAA-TA-AATCAATCCA-
62 TTAATTATACT-AATAAAT
26839 TATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATTATTTTAAAATAAATTAA
1 TATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATTATTTTAAAATAAATTAA
26904 TTCATACTAATAAAT
66 TT-ATACTAATAAAT
* * * * * * *
26919 TA-TTTAAAATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAAATTATTTTAAAATAA
1 TATTTTAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAAAATAAATTATTTTAAAATAA
* *
26983 GTT-ATTTTA-TAATAAAT
61 ATTAATTATACTAATAAAT
27000 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
27015 TATTTTAAAA
Statistics
Matches: 147, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
76 2 0.01
77 7 0.05
78 3 0.02
79 28 0.19
80 52 0.35
81 10 0.07
82 14 0.10
83 5 0.03
84 26 0.18
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.39
Consensus pattern (79 bp):
TATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATTATTTTAAAATAAATTAA
TTATACTAATAAAT
Found at i:27019 original size:45 final size:43
Alignment explanation
Indices: 26955--27052 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 43
26945 AATCAATCCA
* * * *
26955 TATTTTATAATAAATTATTTTAAAATAAGTTATTTTATAATAAAT
1 TATTTTAAAATAAATTATTTTAAAATAAATAATCTTAT--TAAAT
27000 TATTTTAAAATAAATTATTTTAAAATAAATAATCTTATTAAAT
1 TATTTTAAAATAAATTATTTTAAAATAAATAATCTTATTAAAT
27043 TA-TTTAAAAT
1 TATTTTAAAAT
27053 TATTTTAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 8 0.16
43 7 0.14
45 34 0.69
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (43 bp):
TATTTTAAAATAAATTATTTTAAAATAAATAATCTTATTAAAT
Found at i:28837 original size:57 final size:57
Alignment explanation
Indices: 28768--28882 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
28758 CAGAACCATA
*
28768 CAACCCCGTCACGAACAATAAGGCCCTGAGCACAAAGTCGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAATAAGGCCCTGAGCACAAAGCCGAGGAACCTGCAAGTATT
*
28825 CAACCCCGTCACGAACAGTAAGGCCCTGAGCACAAAGCCGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAATAAGGCCCTGAGCACAAAGCCGAGGAACCTGCAAGTATT
28882 C
1 C
28883 TTCCTCCAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.34, C:0.31, G:0.22, T:0.13
Consensus pattern (57 bp):
CAACCCCGTCACGAACAATAAGGCCCTGAGCACAAAGCCGAGGAACCTGCAAGTATT
Found at i:28983 original size:24 final size:24
Alignment explanation
Indices: 28955--29039 Score: 109
Period size: 24 Copynumber: 3.6 Consensus size: 24
28945 AAACATAATT
28955 CAGGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
* * * *
28979 TAGGTCATGTATCATATCAGCATC
1 CAGGTCAAGTATCAGATCAGAATC
*
29003 CATGTCAA-TATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
*
29026 CAGGTCAGGTATCA
1 CAGGTCAAGTATCA
29040 TAACATAATT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 19 0.39
24 30 0.61
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:30039 original size:26 final size:26
Alignment explanation
Indices: 30010--30062 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
30000 GTTTAATTAT
*
30010 TCCATTCATTTCA-GAGCTCGATGATA
1 TCCAATCA-TTCATGAGCTCGATGATA
* *
30036 TCCAATCATTCATGAGCTTGTTGATA
1 TCCAATCATTCATGAGCTCGATGATA
30062 T
1 T
30063 TCTTGGGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (26 bp):
TCCAATCATTCATGAGCTCGATGATA
Found at i:32725 original size:22 final size:22
Alignment explanation
Indices: 32700--32745 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
32690 ATTTTACTTC
*
32700 TAATGAGTATTGAATCATAATT
1 TAATGAGTATTGAACCATAATT
32722 TAATGAGTATTGAACCATAATT
1 TAATGAGTATTGAACCATAATT
32744 TA
1 TA
32746 GAGGAGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (22 bp):
TAATGAGTATTGAACCATAATT
Found at i:34842 original size:3 final size:3
Alignment explanation
Indices: 34834--34897 Score: 92
Period size: 3 Copynumber: 20.7 Consensus size: 3
34824 TCATTTCGTT
**
34834 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
34880 TATA TTA TTA TTA TTA TT
1 T-TA TTA TTA TTA TTA TT
34898 TAATAAATAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:36398 original size:8 final size:9
Alignment explanation
Indices: 36387--36440 Score: 55
Period size: 8 Copynumber: 6.4 Consensus size: 9
36377 ATTACTATTT
36387 TATTAT-TA
1 TATTATATA
36395 TATTAGT-TA
1 TATTA-TATA
*
36404 TATAATATA
1 TATTATATA
36413 TA-TATATA
1 TATTATATA
36421 TA-TATATA
1 TATTATATA
36429 TA-TATATA
1 TATTATATA
36437 TATT
1 TATT
36441 CTTTTTTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
8 29 0.71
9 12 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
TATTATATA
Found at i:36413 original size:2 final size:2
Alignment explanation
Indices: 36402--36439 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
36392 TTATATTAGT
36402 TA TA TA -A 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 TA TA TA T
36440 TCTTTTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:41505 original size:8 final size:7
Alignment explanation
Indices: 41487--41526 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
41477 CTCATTCATA
*
41487 AAAAAAG
1 AAAAAGG
41494 AAAAAGG
1 AAAAAGG
41501 AAAAAGG
1 AAAAAGG
41508 AAAAAGG
1 AAAAAGG
*
41515 AAAAAAG
1 AAAAAGG
41522 AAAAA
1 AAAAA
41527 ATTGAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:41510 original size:14 final size:14
Alignment explanation
Indices: 41487--41526 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
41477 CTCATTCATA
41487 AAAAAAGAAAAAGG
1 AAAAAAGAAAAAGG
*
41501 AAAAAGGAAAAAGG
1 AAAAAAGAAAAAGG
41515 AAAAAAGAAAAA
1 AAAAAAGAAAAA
41527 ATTGAATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAAGG
Found at i:45036 original size:75 final size:76
Alignment explanation
Indices: 44902--45063 Score: 170
Period size: 75 Copynumber: 2.2 Consensus size: 76
44892 TGACAGAGCA
*
44902 TGCTGAAAG-CCCATTTCAATCAGAAATTGGAATATTAACGCATTTTGAACATTTATATCAGAAA
1 TGCTGAAAGTCCCATTTCAATCAGAAATAGGAATATTAACGCATTTTGAACATTTATATCAGAAA
44966 ATGTTGAGG-T
66 ATGTTGAGGCT
* * * * * ** * *
44976 ATTCTGAAAGTCCC-TTTCAATCAG-AATCAGGAATGTTGATGTATTTTGAATGTTTGTATCAGC
1 -TGCTGAAAGTCCCATTTCAATCAGAAAT-AGGAATATTAACGCATTTTGAACATTTATATCAGA
* *
45039 AATTGTTGGGGCT
64 AAATGTTGAGGCT
45052 TGCTGAAAGTCC
1 TGCTGAAAGTCC
45064 ATATCATTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
74 3 0.04
75 64 0.90
76 4 0.06
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (76 bp):
TGCTGAAAGTCCCATTTCAATCAGAAATAGGAATATTAACGCATTTTGAACATTTATATCAGAAA
ATGTTGAGGCT
Found at i:46339 original size:22 final size:22
Alignment explanation
Indices: 46313--46370 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
46303 TACATCTACA
46313 CTCTTTAAAGATGATAGATTCT
1 CTCTTTAAAGATGATAGATTCT
*
46335 CTCTTCAAAGATGATAGATTCT
1 CTCTTTAAAGATGATAGATTCT
*
46357 -TTTTTCAAAGATGA
1 CTCTTT-AAAGATGA
46371 AAGCTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 3 0.09
22 29 0.91
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (22 bp):
CTCTTTAAAGATGATAGATTCT
Found at i:47195 original size:45 final size:45
Alignment explanation
Indices: 47144--47342 Score: 164
Period size: 45 Copynumber: 4.2 Consensus size: 45
47134 TTTTTGATAT
** * *
47144 TTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCATGATGC
* * *
47189 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGTAGGATGT
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCATGATGC
* *** * *
47234 TTTCAAAAAGCCTTCGGGAGCGTTTTGATATTTTCAAAACCTTCAGTGCATGATGC
1 TTTC-AAAA-CCTTC--G-G-G---TCAT-CCAT-AAGACCTGCAGTGCATGATGC
* *
47290 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGT
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCATGATGC
47335 TTTCAAAA
1 TTTCAAAA
47343 AGCCTTTGGG
Statistics
Matches: 119, Mismatches: 24, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
45 67 0.56
46 5 0.04
47 8 0.07
49 1 0.01
50 2 0.02
51 2 0.02
52 1 0.01
54 8 0.07
55 5 0.04
56 20 0.17
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCATGATGC
Found at i:47254 original size:121 final size:121
Alignment explanation
Indices: 47040--47277 Score: 449
Period size: 121 Copynumber: 2.0 Consensus size: 121
47030 CTATTTATCA
47040 CATCTGTAAGTCCTTCAATGCATGATGCTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTG
1 CATCTGTAAGTCCTTCAATGCATGATGCTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTG
*
47105 TAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGT
66 TAGGATGTTTTCAAAAAGCCTTCGGGAGCGTTTTGATATTTTCAAAACCTTCGGGT
* *
47161 CATCTGTAAGTCCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTG
1 CATCTGTAAGTCCTTCAATGCATGATGCTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTG
47226 TAGGATGTTTTCAAAAAGCCTTCGGGAGCGTTTTGATATTTTCAAAACCTTC
66 TAGGATGTTTTCAAAAAGCCTTCGGGAGCGTTTTGATATTTTCAAAACCTTC
47278 AGTGCATGAT
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 114 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (121 bp):
CATCTGTAAGTCCTTCAATGCATGATGCTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTG
TAGGATGTTTTCAAAAAGCCTTCGGGAGCGTTTTGATATTTTCAAAACCTTCGGGT
Found at i:47347 original size:101 final size:101
Alignment explanation
Indices: 47172--47378 Score: 362
Period size: 101 Copynumber: 2.0 Consensus size: 101
47162 ATCTGTAAGT
* *
47172 CCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGTAGGATGTTTT
1 CCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTT
*
47237 CAAAAAGCCTTCGGGAGCGTTTT-GATATTTTCAAAA
66 CAAAAAGCCTTCGGGAAC-TTTTGGATATTTTCAAAA
47273 CCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTT
1 CCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTT
*
47338 CAAAAAGCCTTTGGGAACTTTTGGATATTTTCAAAA
66 CAAAAAGCCTTCGGGAACTTTTGGATATTTTCAAAA
47374 CCTTC
1 CCTTC
47379 GGGTCATCTG
Statistics
Matches: 101, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
100 4 0.04
101 97 0.96
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (101 bp):
CCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTT
CAAAAAGCCTTCGGGAACTTTTGGATATTTTCAAAA
Found at i:47430 original size:45 final size:45
Alignment explanation
Indices: 47366--47463 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
47356 TTTTGGATAT
** * *
47366 TTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAATGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTCCAATGCAAGATGC
* * *
47411 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGT
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTCCAATGCAAGATGC
47456 TTTCAAAA
1 TTTCAAAA
47464 AGCCTTCTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCATAAGACCTCCAATGCAAGATGC
Found at i:47444 original size:222 final size:222
Alignment explanation
Indices: 47051--47499 Score: 754
Period size: 222 Copynumber: 2.0 Consensus size: 222
47041 ATCTGTAAGT
* *
47051 CCTTCAATGCATGATGCTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTGTAGGATGTTTT
1 CCTTCAATGCATGATGCTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTGCAAGATGTTTT
* * * *
47116 CAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTG
66 CAAAAAGCCTTCGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAATG
* *
47181 CATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGTAGGATGTTTTCAAAAAGCC
131 CATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCC
*
47246 TTCGGGAGCGTTTTGATATTTTCAAAA
196 TTCGGGAACGTTTTGATATTTTCAAAA
* *
47273 CCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTT
1 CCTTCAATGCATGATGCTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTGCAAGATGTTTT
*
47338 CAAAAAGCCTTTGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAATG
66 CAAAAAGCCTTCGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAATG
47403 CATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCC
131 CATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCC
* * * *
47468 TTCTGGAACTTTTTGATGTTTTTAAAA
196 TTCGGGAACGTTTTGATATTTTCAAAA
47495 CCTTC
1 CCTTC
47500 GGGTCATCCA
Statistics
Matches: 211, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
222 211 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (222 bp):
CCTTCAATGCATGATGCTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTGCAAGATGTTTT
CAAAAAGCCTTCGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAATG
CATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCC
TTCGGGAACGTTTTGATATTTTCAAAA
Found at i:47495 original size:121 final size:121
Alignment explanation
Indices: 47280--47507 Score: 413
Period size: 121 Copynumber: 1.9 Consensus size: 121
47270 AAACCTTCAG
47280 TGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAG
1 TGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAG
47345 CCTTTGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAA
66 CCTTTGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAA
47401 TGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAG
1 TGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAG
* * *
47466 CCTTCT-GGAACTTTTTGATGTTTTTAAAACCTTCGGGTCATC
66 CCTT-TGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATC
47508 CATAAGACCT
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
121 102 0.99
122 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (121 bp):
TGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAG
CCTTTGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAA
Found at i:47572 original size:77 final size:76
Alignment explanation
Indices: 47411--47584 Score: 276
Period size: 77 Copynumber: 2.3 Consensus size: 76
47401 TGCATGATGC
* * *
47411 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCCTTCTGGAA
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGAAAGATGTTTTCAAAAAGCCTTCGGGAA
*
47476 CTTTTTGATGT
66 CTTTTTGATAT
* *
47487 TTTTAAAACCTTCGGGTCATCCATAAGACCTGCAATGAAAGGATTTTTTCAAAAAGCCTTCGGGA
1 TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGAAA-GATGTTTTCAAAAAGCCTTCGGGA
*
47552 GCTTTTTGATAT
65 ACTTTTTGATAT
47564 TTTCAAAACCTTCGGGTCATC
1 TTTCAAAACCTTCGGGTCATC
47585 TGTAAGCCCT
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 37 0.42
77 52 0.58
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (76 bp):
TTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGAAAGATGTTTTCAAAAAGCCTTCGGGAA
CTTTTTGATAT
Found at i:47607 original size:45 final size:45
Alignment explanation
Indices: 47558--47647 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
47548 GGGAGCTTTT
* *
47558 TGATATTTTCAAAACCT-TCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATATTTTCAAAACCTCT-GGGTCATCTGTAAGACCTACAGTGCA
47603 TGATATTTTCAAAACCTCTGGGTCATCTGTAAGACCTACAGTGCA
1 TGATATTTTCAAAACCTCTGGGTCATCTGTAAGACCTACAGTGCA
47648 AGATGATAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 41 0.98
46 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (45 bp):
TGATATTTTCAAAACCTCTGGGTCATCTGTAAGACCTACAGTGCA
Found at i:47638 original size:198 final size:197
Alignment explanation
Indices: 47284--47652 Score: 569
Period size: 198 Copynumber: 1.9 Consensus size: 197
47274 CTTCAGTGCA
* *
47284 TGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCCTT
1 TGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGAAAGATGTTTTCAAAAAGCCTT
* * *
47349 TGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGTCCTCCAATGCATGATGCTTT
66 CGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTCCAATGCATGATACTTT
*
47414 CAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAAGATGTTTTCAAAAAGCCTTCTGGAACTT
131 CAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCTGGAACTT
47479 TT
196 TT
* * *
47481 TGATGTTTTTAAAACCTTCGGGTCATCCATAAGACCTGCAATGAAAGGATTTTTTCAAAAAGCCT
1 TGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGAAA-GATGTTTTCAAAAAGCCT
* * * * *
47546 TCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTT
65 TCGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTCCAATGCATGATACTT
**
47611 TCAAAACC-TCTGGGTCATCTGTAAGACCTACAGTGCAAGATG
130 TCAAAACCTTC-GGGTCATCCATAAGACCTACAGTGCAAGATG
47653 ATAGGACCTC
Statistics
Matches: 154, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
197 44 0.29
198 110 0.71
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (197 bp):
TGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAATGAAAGATGTTTTCAAAAAGCCTT
CGGGAACTTTTGGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTCCAATGCATGATACTTT
CAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAAGATGTTTTCAAAAAGCCTTCTGGAACTT
TT
Found at i:47813 original size:3 final size:3
Alignment explanation
Indices: 47807--47877 Score: 70
Period size: 3 Copynumber: 22.7 Consensus size: 3
47797 TTATTTCATT
** * * *
47807 TTA TTA TTA TTA TTA AAA TTA TTA ATA TTA TTA ATG TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
47853 TATA TTA TATA TTA TTA TTA TTA TT
1 T-TA TTA T-TA TTA TTA TTA TTA TT
47878 TAATAAATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
3 46 0.84
4 9 0.16
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:49381 original size:27 final size:25
Alignment explanation
Indices: 49344--49395 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
49334 TCTTTTGATC
49344 ATTATTTATTTACAATTT-AATATGT
1 ATTATTTATTT-CAATTTCAATATGT
49369 ATTATTATCATTTCAATTTCAATATGT
1 ATTATT-T-ATTTCAATTTCAATATGT
49396 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 6 0.25
26 7 0.29
27 11 0.46
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (25 bp):
ATTATTTATTTCAATTTCAATATGT
Found at i:52979 original size:24 final size:24
Alignment explanation
Indices: 52950--53018 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
52940 TTTATATTAA
52950 GGATGAACTTATAAAATTTTAAAG
1 GGATGAACTTATAAAATTTTAAAG
52974 GGATGAACTTATAAAATTTTAAAG
1 GGATGAACTTATAAAATTTTAAAG
* *
52998 GGGTGAACTTGTAAAATTTTA
1 GGATGAACTTATAAAATTTTA
53019 GGAAAGAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (24 bp):
GGATGAACTTATAAAATTTTAAAG
Found at i:64269 original size:26 final size:27
Alignment explanation
Indices: 64220--64270 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
64210 GGTTTGTTGA
** *
64220 ATTTTTAATTTTTTTGCTTGTGTTTGT
1 ATTTTTAATAATTTTGCTTCTGTTTGT
64247 ATTTTTAATAATTTT-CTTCTGTTT
1 ATTTTTAATAATTTTGCTTCTGTTT
64271 ATAATTCTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.69
Consensus pattern (27 bp):
ATTTTTAATAATTTTGCTTCTGTTTGT
Found at i:66892 original size:16 final size:16
Alignment explanation
Indices: 66871--66901 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
66861 CTTTCAGTTC
66871 ATAAATATTGCTGTTT
1 ATAAATATTGCTGTTT
66887 ATAAATATTGCTGTT
1 ATAAATATTGCTGTT
66902 AGTGCTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (16 bp):
ATAAATATTGCTGTTT
Found at i:68614 original size:2 final size:2
Alignment explanation
Indices: 68607--68658 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
68597 TTTAATGACA
68607 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
68649 AT AT AT AT AT
1 AT AT AT AT AT
68659 TACTGAACCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73185 original size:34 final size:35
Alignment explanation
Indices: 73140--73206 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
73130 AATATGAATT
* *
73140 ACAACTTCTCTCTAT-CTAACAAGGAGAAAACAATA
1 ACAACTTCTCTCT-TGATAAAAAGGAGAAAACAATA
73175 ACAA-TTCTCTCTTGATAAAAAGGAGAAAACAA
1 ACAACTTCTCTCTTGATAAAAAGGAGAAAACAA
73207 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 1 0.03
34 24 0.83
35 4 0.14
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.22
Consensus pattern (35 bp):
ACAACTTCTCTCTTGATAAAAAGGAGAAAACAATA
Found at i:73425 original size:23 final size:23
Alignment explanation
Indices: 73372--73426 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
73362 TCATGTCACT
*
73372 TTTCAACCATTATTGGTGCCAAG
1 TTTCAACCATTATTGGTGCCAAC
* * * *
73395 TATAAACCATTATTGTTGCTAAC
1 TTTCAACCATTATTGGTGCCAAC
73418 TTTCAACCA
1 TTTCAACCA
73427 CCTAAAGTAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (23 bp):
TTTCAACCATTATTGGTGCCAAC
Done.