Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002566.1 Hibiscus syriacus cultivar Beakdansim tig00005209_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: 73291
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Found at i:2595 original size:77 final size:73
Alignment explanation
Indices: 2514--2678 Score: 240
Period size: 77 Copynumber: 2.2 Consensus size: 73
2504 TCCAACATCC
* *
2514 GTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCC
1 GTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TCTT--AAACCC
2579 TCAGGGTCATAT
62 TCAGGGTCATAT
* * *
2591 GTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGCCTCAG
1 GTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAG
*
2656 GGTCATCT
66 GGTCATAT
2664 GTAAGCCCTACAGTG
1 GTAAGCCCTACAGTG
2679 TAAGATGATA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
73 30 0.37
75 3 0.04
77 48 0.59
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (73 bp):
GTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAACCCTCAG
GGTCATAT
Found at i:3474 original size:24 final size:23
Alignment explanation
Indices: 3431--3475 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
3421 GTTCATAATG
*
3431 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
3454 AGAAGAAGTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
3476 AGCTTGTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.27, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:3507 original size:113 final size:113
Alignment explanation
Indices: 2741--3494 Score: 1054
Period size: 113 Copynumber: 6.7 Consensus size: 113
2731 CAATATTTCC
* *
2741 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-TGGAAGGAA-AAGTTCATAATTAGAAGAAC
1 AGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA-GAAGAAGTTCATAATGAGAAGAAC
* * * *
2804 TTCTTCAACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTGCCAG
64 TTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAGCATTGCCAG
2854 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT--G-AGAACTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* *
2916 GTTCAACCTTTTGCTTGAATTCATCACCCGATGGATTAGCATTGCCAG
66 GTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAGCATTGCCAG
* * * *
2964 AGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAGGAAGTTCATAATAAGAAAAACTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
** * *
3029 GTTCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCATTGCCAG
66 GTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAGCATTGCCAG
* *
3077 -GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAATAAGAAGTTCATAATGAGAAGAATT
1 AG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* * *
3141 TGTTCAACCTTTCGCTTGAATTCATCATTCGATGGATCAGCATTACCAG
65 TGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAGCATTGCCAG
* *
3190 -GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCT
1 AG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
* ** * * * *
3254 TGTTCAACCTTTTACTCAAATCCATCACTTGATGGATCAGCTTTTCCAG
65 TGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAGCATTGCCAG
* * *
3303 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAAAAGAATTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* * * * *
3368 GTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCAACTTTTCCAG
66 GTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAGCATTGCCAG
* *
3416 AGAAAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
*
3481 GTTCGACCTTTTGC
66 GTTCAACCTTTTGC
3495 ATGACTCTAT
Statistics
Matches: 575, Mismatches: 59, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
110 105 0.18
111 1 0.00
112 34 0.06
113 434 0.75
114 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
GTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAGCATTGCCAG
Found at i:3871 original size:19 final size:19
Alignment explanation
Indices: 3844--3897 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
3834 ATTTATTTTA
* *
3844 TTTATTATTATTATTTTGT
1 TTTATTATTATTATTATAT
*
3863 TTTAATATTATTATTATAT
1 TTTATTATTATTATTATAT
*
3882 TATATTATTATTATTA
1 TTTATTATTATTATTA
3898 AATAAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTATTATTATTATTATAT
Found at i:3871 original size:22 final size:22
Alignment explanation
Indices: 3846--3897 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
3836 TTATTTTATT
* * *
3846 TATTATTATTATTTTGTTTTAA
1 TATTATTATTATATTATATTAA
*
3868 TATTATTATTATATTATATTAT
1 TATTATTATTATATTATATTAA
3890 TATTATTA
1 TATTATTA
3898 AATAAATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTATTATTATATTATATTAA
Found at i:3917 original size:3 final size:3
Alignment explanation
Indices: 3836--3897 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
3826 TTTATTTCAT
* *
3836 TTA TT- TTA TTTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3879 -TA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
3898 AATAAATAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
2 10 0.20
3 38 0.75
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5593 original size:117 final size:117
Alignment explanation
Indices: 5450--5682 Score: 292
Period size: 118 Copynumber: 2.0 Consensus size: 117
5440 TTTAATCCTA
* ** *
5450 TTTTAATATGTATTTATTTTTCAATAT-TAAG-AAAGGGCGGTCTTAAAACAACTAGATGTCCAT
1 TTTTAATATGTATTTATTTTTCAATATCGAAGAAAAGAACGGTCTTAAAACAACTAGAAGTCC-T
*
5513 TTTCTGATATTTTTAAATAAATAAATATCCTATTTTATAAAT-TATATTAATTG
65 TTTCTGATATTTCTAAATAAATAAATATCCTA-TTTATAAATATATATTAATTG
* * * ** * *
5566 TTTTAATTATTTATTTATTTTTTAATATCGAAGAAAAGAACTGTCTTAAGGCACCTTGAAGTCCT
1 TTTTAA-TATGTATTTATTTTTCAATATCGAAGAAAAGAACGGTCTTAAAACAACTAGAAGTCCT
**
5631 TTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATTAATT
65 TTTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATTAATT
5683 AATATTTTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
116 6 0.06
117 28 0.28
118 43 0.43
119 22 0.22
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (117 bp):
TTTTAATATGTATTTATTTTTCAATATCGAAGAAAAGAACGGTCTTAAAACAACTAGAAGTCCTT
TTCTGATATTTCTAAATAAATAAATATCCTATTTATAAATATATATTAATTG
Found at i:9035 original size:24 final size:22
Alignment explanation
Indices: 8998--9042 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
8988 GATTTTCCAT
8998 ATTTTTTATTATAATTGTTTAG
1 ATTTTTTATTATAATTGTTTAG
*
9020 ATTTTTTAATTAATAATTTTTTA
1 ATTTTTT-ATT-ATAATTGTTTA
9043 TTCAAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
ATTTTTTATTATAATTGTTTAG
Found at i:10665 original size:2 final size:2
Alignment explanation
Indices: 10658--10723 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
10648 CAAACACGTA
10658 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
10700 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
10724 GCCATTTATT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11347 original size:16 final size:17
Alignment explanation
Indices: 11312--11354 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
11302 TTATGAGGTG
11312 AAAAATGATATTATTGT
1 AAAAATGATATTATTGT
11329 AAAAAT-ATAATTATT-T
1 AAAAATGAT-ATTATTGT
11345 -AAAATGATAT
1 AAAAATGATAT
11355 ATAACTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 7 0.29
16 5 0.21
17 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
AAAAATGATATTATTGT
Found at i:16533 original size:21 final size:20
Alignment explanation
Indices: 16509--16630 Score: 70
Period size: 20 Copynumber: 6.0 Consensus size: 20
16499 CAGTTCCCAG
16509 AATCGCAACGCGATTATGAA
1 AATCGCAACGCGATTATGAA
*
16529 GAATCGCAATGCGA-TA-GTACA
1 -AATCGCAACGCGATTATG-A-A
** * * *
16550 AATTCGCATTGCGATTTTCTAG
1 AA-TCGCAACGCGATTAT-GAA
* *
16572 AATCACAACGCGAGTATGAA
1 AATCGCAACGCGATTATGAA
**
16592 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGATTATGA-A
*
16612 AATCGCAACACGATTATGA
1 AATCGCAACGCGATTATGA
16631 CTATCGCAAT
Statistics
Matches: 75, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
19 2 0.03
20 35 0.47
21 34 0.45
22 3 0.04
23 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (20 bp):
AATCGCAACGCGATTATGAA
Found at i:16662 original size:21 final size:21
Alignment explanation
Indices: 16633--16824 Score: 139
Period size: 20 Copynumber: 9.4 Consensus size: 21
16623 GATTATGACT
*
16633 ATCGCAATGAGTATCCGTAAA
1 ATCGCAACGAGTATCCGTAAA
* * * *
16654 ATTGCAATGCGTATCAGT-AA
1 ATCGCAACGAGTATCCGTAAA
** *
16674 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGTAAA
*
16695 ATCGCAACGCGTATCCGT-AA
1 ATCGCAACGAGTATCCGTAAA
* * *
16715 ATCACAACGAGAATACGT-AA
1 ATCGCAACGAGTATCCGTAAA
* *
16735 ATCGCAACGCGTATACGT-AA
1 ATCGCAACGAGTATCCGTAAA
* *
16755 ATCGCAA-TACGTACCCGT-AA
1 ATCGCAACGA-GTATCCGTAAA
** *
16775 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGTAAA
16796 ATCGCAACGCA-TATCCGT-AA
1 ATCGCAACG-AGTATCCGTAAA
16816 ATCGCAACG
1 ATCGCAACG
16825 CGATCTCCGG
Statistics
Matches: 134, Mismatches: 32, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
20 85 0.63
21 48 0.36
22 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.19
Consensus pattern (21 bp):
ATCGCAACGAGTATCCGTAAA
Found at i:16737 original size:61 final size:59
Alignment explanation
Indices: 16670--16826 Score: 206
Period size: 61 Copynumber: 2.6 Consensus size: 59
16660 ATGCGTATCA
* *
16670 GTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCACAACGAGAATAC
1 GTAAATCGCAACG-CAATACGT-AAATCGCAACGCGTACCCGTAAATCACAACGACAATAC
* ** *
16731 GTAAATCGCAACGCGTATACGTAAATCGCAATACGTACCCGTAAATCGCAACGACAATAC
1 GTAAATCGCAACGC-AATACGTAAATCGCAACGCGTACCCGTAAATCACAACGACAATAC
*
16791 GTAAAATCGCAACGCATATCCGTAAATCGCAACGCG
1 GT-AAATCGCAACGCA-ATACGTAAATCGCAACGCG
16827 ATCTCCGGTA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
60 36 0.43
61 47 0.57
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.17
Consensus pattern (59 bp):
GTAAATCGCAACGCAATACGTAAATCGCAACGCGTACCCGTAAATCACAACGACAATAC
Found at i:16774 original size:40 final size:40
Alignment explanation
Indices: 16643--16826 Score: 160
Period size: 41 Copynumber: 4.5 Consensus size: 40
16633 ATCGCAATGA
* *
16643 GTATCCGTAAAATTGCAATGCGTAT-CAGTAAATCGCAACGAC
1 GTATCCGT-AAATCGCAACGCGTATAC-GTAAATCGCAAC-AC
* * * *
16685 -AATACGTAAAATCGCAACGCGTATCCGTAAATCACAACGA-
1 GTATCCGT-AAATCGCAACGCGTATACGTAAATCGCAAC-AC
* * *
16725 GAATACGTAAATCGCAACGCGTATACGTAAATCGCAATAC
1 GTATCCGTAAATCGCAACGCGTATACGTAAATCGCAACAC
* * *
16765 GTACCCGTAAATCGCAACGAC-AATACGTAAAATCGCAACGC
1 GTATCCGTAAATCGCAACG-CGTATACGT-AAATCGCAACAC
*
16806 ATATCCGTAAATCGCAACGCG
1 GTATCCGTAAATCGCAACGCG
16827 ATCTCCGGTA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 50 0.42
41 68 0.57
42 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (40 bp):
GTATCCGTAAATCGCAACGCGTATACGTAAATCGCAACAC
Found at i:16798 original size:101 final size:102
Alignment explanation
Indices: 16633--16824 Score: 296
Period size: 101 Copynumber: 1.9 Consensus size: 102
16623 GATTATGACT
* * * * *
16633 ATCGCAATGAGTATCCGTAAAATTGCAATGCGTATCAGTAAATCGCAACGACAATACGTAAAATC
1 ATCGCAACGAGTATACGTAAAATCGCAATACGTACCAGTAAATCGCAACGACAATACGTAAAATC
*
16698 GCAACGCGTATCCGTAAATCACAACGAGAATACGTAA
66 GCAACGCATATCCGTAAATCACAACGAGAATACGTAA
* *
16735 ATCGCAACGCGTATACGT-AAATCGCAATACGTACCCGTAAATCGCAACGACAATACGTAAAATC
1 ATCGCAACGAGTATACGTAAAATCGCAATACGTACCAGTAAATCGCAACGACAATACGTAAAATC
*
16799 GCAACGCATATCCGTAAATCGCAACG
66 GCAACGCATATCCGTAAATCACAACG
16825 CGATCTCCGG
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 66 0.81
102 15 0.19
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.19
Consensus pattern (102 bp):
ATCGCAACGAGTATACGTAAAATCGCAATACGTACCAGTAAATCGCAACGACAATACGTAAAATC
GCAACGCATATCCGTAAATCACAACGAGAATACGTAA
Found at i:17033 original size:20 final size:20
Alignment explanation
Indices: 16953--17023 Score: 126
Period size: 20 Copynumber: 3.5 Consensus size: 20
16943 TTGCGATTAC
16953 GTAAATCGCAATGCGAATAC-
1 GTAAATCGCAATGCGAAT-CT
16973 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAATGCGAATCT
16993 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAATGCGAATCT
17013 GTAAATCGCAA
1 GTAAATCGCAA
17024 CGAGATTCTG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
19 1 0.02
20 49 0.98
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (20 bp):
GTAAATCGCAATGCGAATCT
Found at i:17579 original size:33 final size:33
Alignment explanation
Indices: 17521--17612 Score: 139
Period size: 33 Copynumber: 2.8 Consensus size: 33
17511 ACTATCGCAA
*
17521 GCGATTTTCATTTTCGCATTACGATTCACTCGTT
1 GCGATTTTCA-TTTCGCATTGCGATTCACTCGTT
*
17555 GCGATTATCATTTCGCATTGCGATTCACTCGTT
1 GCGATTTTCATTTCGCATTGCGATTCACTCGTT
**
17588 GTTATTTTCATTTCGCATTGCGATT
1 GCGATTTTCATTTCGCATTGCGATT
17613 TTCTGTTTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 44 0.83
34 9 0.17
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (33 bp):
GCGATTTTCATTTCGCATTGCGATTCACTCGTT
Found at i:19166 original size:42 final size:42
Alignment explanation
Indices: 19102--19213 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
19092 CTAGAATATT
* *
19102 GGGAGGGACCTCTTCAACGATGACAGTGGCCTATTAAACGGTAG
1 GGGA-GGA-CTCTTGAACGATGACAGTGGCCTATTAAACGATAG
** * * * *
19146 GAGG-GGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATAG
1 G-GGAGGACTCTTGAACGATGACAGTGGCCTATTAAACGATAG
*
19188 GGGAGGCCTCTTGAACGATGACAGTG
1 GGGAGGACTCTTGAACGATGACAGTG
19214 AGTCGGGCTT
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
41 2 0.04
42 45 0.85
43 3 0.06
44 1 0.02
45 2 0.04
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.21
Consensus pattern (42 bp):
GGGAGGACTCTTGAACGATGACAGTGGCCTATTAAACGATAG
Found at i:19714 original size:20 final size:20
Alignment explanation
Indices: 19691--19777 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
19681 GAAACTTAAA
*
19691 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
19711 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
19731 ATAGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
19751 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
19771 ATCGCAA
1 ATCGCAA
19778 CGAGATAATC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:19849 original size:19 final size:19
Alignment explanation
Indices: 19827--19912 Score: 92
Period size: 19 Copynumber: 4.8 Consensus size: 19
19817 CGCGATTATA
*
19827 GTTTCGCGTTGCAATTTTG
1 GTTTCGCGTTGCGATTTTG
19846 GTTTCGCGTTGCGATTTT-
1 GTTTCGCGTTGCGATTTTG
19864 G--T--CGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
* *
19879 GTTTCGCATTGCGATTTTC
1 GTTTCGCGTTGCGATTTTG
* *
19898 ATTTCTCGTTGCGAT
1 GTTTCGCGTTGCGAT
19913 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
14 12 0.21
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 40 0.71
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:19871 original size:14 final size:14
Alignment explanation
Indices: 19852--19878 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19842 TTTGGTTTCG
19852 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
19866 CGTTGCGATTTTG
1 CGTTGCGATTTTG
19879 GTTTCGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:19877 original size:33 final size:33
Alignment explanation
Indices: 19833--19896 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
19823 TATAGTTTCG
*
19833 CGTTGCAATTTTGGTTTCGCGTTGCGATTTTGT
1 CGTTGCAATTTTGGTTTCGCATTGCGATTTTGT
*
19866 CGTTGCGATTTTGGTTTCGCATTGCGATTTT
1 CGTTGCAATTTTGGTTTCGCATTGCGATTTT
19897 CATTTCTCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (33 bp):
CGTTGCAATTTTGGTTTCGCATTGCGATTTTGT
Found at i:20146 original size:94 final size:94
Alignment explanation
Indices: 20000--20379 Score: 647
Period size: 94 Copynumber: 4.1 Consensus size: 94
19990 ATGGATTGCA
* * *
20000 TTAC-TTCAATCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
20064 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
20093 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
20158 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
20187 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
20252 TTAGCAGAATTGTCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
20281 TTACTTT-AACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAA
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
20345 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
20375 TTACT
1 TTACT
20380 AAGCAATCTA
Statistics
Matches: 274, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
93 19 0.07
94 255 0.93
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:22083 original size:20 final size:20
Alignment explanation
Indices: 22060--22115 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
22050 TGAAATGAAA
*
22060 ATCGCAACGAGAGAATGACT
1 ATCGCAATGAGAGAATGACT
* *
22080 ATCGCAATGCGAAAATGACT
1 ATCGCAATGAGAGAATGACT
22100 ATCGCAATGAGAGAAT
1 ATCGCAATGAGAGAAT
22116 CGCAATGAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (20 bp):
ATCGCAATGAGAGAATGACT
Found at i:22119 original size:14 final size:14
Alignment explanation
Indices: 22100--22134 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
22090 GAAAATGACT
22100 ATCGCAATGAGAGA
1 ATCGCAATGAGAGA
22114 ATCGCAATGAGAGA
1 ATCGCAATGAGAGA
22128 ATCGCAA
1 ATCGCAA
22135 CGCGAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (14 bp):
ATCGCAATGAGAGA
Found at i:22155 original size:19 final size:19
Alignment explanation
Indices: 22127--22210 Score: 106
Period size: 19 Copynumber: 4.7 Consensus size: 19
22117 GCAATGAGAG
22127 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
22146 AATTGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
22160 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
22179 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
22198 AATCGCAATGCGA
1 AATCGCAACGCGA
22211 TTTTGGTTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.16
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 40 0.73
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:22159 original size:33 final size:33
Alignment explanation
Indices: 22113--22188 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
22103 GCAATGAGAG
*
22113 AATCGCAATGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
*
22146 AATTGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAACGCGAAATGAA
22179 AATCGCAACG
1 AATCGCAACG
22189 CGAAATGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.12
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAACGCGAAATGAA
Found at i:22169 original size:14 final size:14
Alignment explanation
Indices: 22100--22169 Score: 59
Period size: 14 Copynumber: 4.6 Consensus size: 14
22090 GAAAATGACT
*
22100 ATCGCAATGAGAGA
1 ATCGCAACGAGAGA
*
22114 ATCGCAATGAGAGA
1 ATCGCAACGAGAGA
*
22128 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
*
22147 ATTGCAACGAGAGA
1 ATCGCAACGAGAGA
22161 ATCGCAACG
1 ATCGCAACG
22170 CGAAATGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
14 32 0.70
15 1 0.02
16 1 0.02
17 2 0.04
18 1 0.02
19 9 0.20
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.13
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:22241 original size:14 final size:14
Alignment explanation
Indices: 22222--22277 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
22212 TTTGGTTTCG
22222 CGTTGCGATTATCT
1 CGTTGCGATTATCT
22236 CGTTGCGATTTTCATTTCT
1 CGTTGCGA--TT-A--TCT
*
22255 CGTTGCGATTTTCT
1 CGTTGCGATTATCT
22269 CGTTGCGAT
1 CGTTGCGAT
22278 AGTCATTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 20 0.56
16 2 0.06
17 3 0.08
19 11 0.31
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:22259 original size:33 final size:33
Alignment explanation
Indices: 22206--22298 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
22196 AAAATCGCAA
**
22206 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
* *
22239 TGCGATTTTCATTTCTCGTTGCGATTTTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
** *
22272 TGCGATAGTCATTTTCGTGTTGCGATT
1 TGCGATTTTCA-TTTCGCGTTGCGATT
22299 TTCATTTTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 38 0.75
34 13 0.25
ACGTcount: A:0.11, C:0.18, G:0.24, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:22338 original size:20 final size:20
Alignment explanation
Indices: 22237--22340 Score: 107
Period size: 20 Copynumber: 5.5 Consensus size: 20
22227 CGATTATCTC
22237 GTTGCGATTTTCA-TTTC-T
1 GTTGCGATTTTCATTTTCAT
22255 CGTTGCGATTTTC----TC--
1 -GTTGCGATTTTCATTTTCAT
** *
22270 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCAT
22290 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
*
22310 GTTGCGATTTTCATTTTTAT
1 GTTGCGATTTTCATTTTCAT
22330 GTTGCGATTTT
1 GTTGCGATTTT
22341 AAGTTTAGAA
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
14 10 0.14
16 2 0.03
18 2 0.03
19 12 0.16
20 47 0.64
ACGTcount: A:0.12, C:0.15, G:0.19, T:0.53
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:22923 original size:20 final size:20
Alignment explanation
Indices: 22898--23054 Score: 149
Period size: 20 Copynumber: 7.7 Consensus size: 20
22888 CTTTAAAAAT
*
22898 CGCGTTGCGATTTATGGATA
1 CGCGTTGCGATTTACGGATA
* *
22918 CGCGTTGCGATTTTACGTATT
1 CGCGTTGCGA-TTTACGGATA
*
22939 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
22959 CGCGTTGAGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
22979 TGTCATTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
23000 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
* *
23021 CTCGTTGCGATAGTTA-GAAT-
1 CGCGTTGCGAT--TTACGGATA
23041 CGCGTTGCGATTTA
1 CGCGTTGCGATTTA
23055 TATGTTCGCG
Statistics
Matches: 112, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
18 3 0.03
20 53 0.47
21 53 0.47
22 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:22944 original size:21 final size:21
Alignment explanation
Indices: 22900--23031 Score: 144
Period size: 21 Copynumber: 6.4 Consensus size: 21
22890 TTAAAAATCG
* *
22900 CGTTGCGA-TTTATGGATACG
1 CGTTGCGATTTTACGGATACT
* *
22920 CGTTGCGATTTTACGTATTCT
1 CGTTGCGATTTTACGGATACT
*
22941 CGTTGCGA-TTTACGGATACG
1 CGTTGCGATTTTACGGATACT
* * **
22961 CGTTGAGATTTTACGTATTGT
1 CGTTGCGATTTTACGGATACT
* *
22982 CATTGCGA-TTTACGGATACG
1 CGTTGCGATTTTACGGATACT
23002 CGTTGCGATTTTACGGATACT
1 CGTTGCGATTTTACGGATACT
23023 CGTTGCGAT
1 CGTTGCGAT
23032 AGTTAGAATC
Statistics
Matches: 89, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
20 39 0.44
21 50 0.56
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTTACGGATACT
Found at i:22958 original size:41 final size:41
Alignment explanation
Indices: 22900--23053 Score: 213
Period size: 41 Copynumber: 3.8 Consensus size: 41
22890 TTAAAAATCG
*
22900 CGTTGCGATTTATGGATACGCGTTGCGATTTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
22941 CGTTGCGATTTACGGATACGCGTTGAGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
22982 CATTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
23023 CGTTGCGATAGTTA-GAAT-CGCGTTGCGATTT
1 CGTTGCGAT--TTACGGATACGCGTTGCGATTT
23054 ATATGTTCGC
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
41 95 0.94
42 3 0.03
43 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:23133 original size:42 final size:42
Alignment explanation
Indices: 23038--23133 Score: 97
Period size: 42 Copynumber: 2.3 Consensus size: 42
23028 CGATAGTTAG
* * *
23038 AATCGCGTTGCG-ATTTATATGTTCGCGTTGCGATTCTGGAA
1 AATCGCGTTGCGAATTTATATGATCGCATTGCGATTCTGCAA
** * * *
23079 AATCGCAATGCGAATTTGTACT-ATCGCATTGCGATTCTTCAT
1 AATCGCGTTGCGAATTTATA-TGATCGCATTGCGATTCTGCAA
23121 AATCGCGTTGCGA
1 AATCGCGTTGCGA
23134 TTCTGGGAAC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 10 0.23
42 32 0.74
43 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (42 bp):
AATCGCGTTGCGAATTTATATGATCGCATTGCGATTCTGCAA
Found at i:23171 original size:20 final size:20
Alignment explanation
Indices: 23060--23175 Score: 76
Period size: 21 Copynumber: 5.7 Consensus size: 20
23050 ATTTATATGT
*
23060 TCGCGTTGCGATTCTGGAAAA
1 TCGCATTGCGATTCTGG-AAA
* * *
23081 TCGCAATGCGAATT-TGTACTA
1 TCGCATTGCG-ATTCTGGA-AA
**
23102 TCGCATTGCGATTCTTCATAA
1 TCGCATTGCGATTCTGGA-AA
* *
23123 TCGCGTTGCGATTCTGGGAA
1 TCGCATTGCGATTCTGGAAA
*
23143 -CTG-ATTTGCGATTCTGGAGA
1 TC-GCA-TTGCGATTCTGGAAA
23163 TCGCATTGCGATT
1 TCGCATTGCGATT
23176 TTTATTTCGC
Statistics
Matches: 72, Mismatches: 16, Indels: 15
0.70 0.16 0.15
Matches are distributed among these distances:
19 1 0.01
20 29 0.40
21 39 0.54
22 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.34
Consensus pattern (20 bp):
TCGCATTGCGATTCTGGAAA
Found at i:24239 original size:74 final size:75
Alignment explanation
Indices: 24048--24377 Score: 425
Period size: 74 Copynumber: 4.4 Consensus size: 75
24038 CTTAACCGGT
* * * *
24048 TAAAATAAAATAGGTGCTACCTATTATGTTAAACTACCTACCGGTTTGTTTGAAA-ATTATTAAT
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGGTTTGTTT-AAAGGTTACTAAT
24112 AATGTAAACGG
65 AATGTAAACGG
* * * *
24123 TAAAATAAAATAGGTGCTACTTATTACGTTAAAATACTTACCGGTTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGGTTTGTTTAAAGGTTACTAATA
24188 ATGTAAAC-G
66 ATGTAAACGG
** * *
24197 TAAAATAAAATAGGCATTACCTATTACATTAAACTACCTACCGATTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGGTTTGTTTAAAGGTTACTAATA
*
24262 ATATAAACGG
66 ATGTAAACGG
* * * ** * * *
24272 TAAAAT-AAATAGGCGCTACATATTATGTTAAACTAGCTACAAGTTTGTTTACATGTTAATAATA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGGTTTGTTTAAAGGTTACTAATA
24336 ATGTAAACGG
66 ATGTAAACGG
*
24346 TAAAATAAAATATGCGCTACCTATTA-GTTAAA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAA
24378 TAGGTGTTAC
Statistics
Matches: 222, Mismatches: 30, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
74 135 0.61
75 87 0.39
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (75 bp):
TAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGGTTTGTTTAAAGGTTACTAATA
ATGTAAACGG
Found at i:24349 original size:149 final size:149
Alignment explanation
Indices: 24048--24371 Score: 429
Period size: 149 Copynumber: 2.2 Consensus size: 149
24038 CTTAACCGGT
* ** * *
24048 TAAAATAAAATAGGTGCTACCTATTATGTTAAACTACCTACCGGTTTGTTTGAAAATTATTAATA
1 TAAAATAAAATAGGCGCTACCTATTACATTAAACTACCTACCGATTTGTTTGAAAATTACTAATA
* * * **
24113 ATGTAAACGGTAAAATAAAATAGGTGCTACTTATTACGTTAAAATACTTACCGGTTTGTTTAAAG
66 ATATAAACGGTAAAATAAAATAGGCGCTACATATTACGTTAAAATACTTACAAGTTTGTTTAAAG
*
24178 GTTACTAATAATGTAAACG
131 GTTAATAATAATGTAAACG
** *
24197 TAAAATAAAATAGGCATTACCTATTACATTAAACTACCTACCGATTTGTTT-AAAGGTTACTAAT
1 TAAAATAAAATAGGCGCTACCTATTACATTAAACTACCTACCGATTTGTTTGAAA-ATTACTAAT
* * *
24261 AATATAAACGGTAAAAT-AAATAGGCGCTACATATTATGTTAAACTAGC-TACAAGTTTGTTTAC
65 AATATAAACGGTAAAATAAAATAGGCGCTACATATTACGTTAAAATA-CTTACAAGTTTGTTTAA
*
24324 ATGTTAATAATAATGTAAACGG
129 AGGTTAATAATAATGTAAAC-G
*
24346 TAAAATAAAATATGCGCTACCTATTA
1 TAAAATAAAATAGGCGCTACCTATTA
24372 GTTAAATAGG
Statistics
Matches: 151, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
148 58 0.38
149 93 0.62
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (149 bp):
TAAAATAAAATAGGCGCTACCTATTACATTAAACTACCTACCGATTTGTTTGAAAATTACTAATA
ATATAAACGGTAAAATAAAATAGGCGCTACATATTACGTTAAAATACTTACAAGTTTGTTTAAAG
GTTAATAATAATGTAAACG
Found at i:24378 original size:22 final size:23
Alignment explanation
Indices: 24353--24417 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 23
24343 CGGTAAAATA
* *
24353 AAATATGCGCTACCTATTA-GTT
1 AAATAAGCGCTACCTATTACATT
* * * *
24375 AAATAGGTGTTACCTACTACATT
1 AAATAAGCGCTACCTATTACATT
*
24398 AAATAAGCACTACCTATTAC
1 AAATAAGCGCTACCTATTAC
24418 GCTAAATTAG
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (23 bp):
AAATAAGCGCTACCTATTACATT
Found at i:24636 original size:154 final size:156
Alignment explanation
Indices: 24454--24748 Score: 382
Period size: 154 Copynumber: 1.9 Consensus size: 156
24444 ATGTTAATAA
*
24454 TAATGTAAACGATAAAATATATATAACTTAA-TCGTTTGAAACATTTTTAAAAAAAATCGAAAGT
1 TAATGTAAACGATAAAATATATACAACTTAACT-GTTTGAAACATTTTTAAAAAAAATCGAAAGT
* *
24518 ATGAATATTTACTCTAAAAATAT-GTATGCTCTAAA-AGT-TAATAATAATGTATCCATACTTAC
65 ATGAATACTTACTCTAAAAATATGGT-TACTCTAAAGAGTATAATAATAATGTATCCATACTTAC
* *
24580 TCTAAATGTATGAATATTGTTTCGACAG
129 TATAAAAGTATGAATATTGTTTCGACAG
* * **** *
24608 TAATGTAAATGATAAAATATATACAACTTAACTGTTTGAAATATTTTTTTTTAAATTCGAAAGTA
1 TAATGTAAACGATAAAATATATACAACTTAACTGTTTGAAACATTTTTAAAAAAAATCGAAAGTA
* * * *
24673 TGAATACTTACTCTAAAAGTATGGTTACTCTAAAGTATTAATAATAATAATGTATCTATATTTAC
66 TGAATACTTACTCTAAAAATATGGTTACTCTAAAG-AGT-ATAATAATAATGTATCCATACTTAC
24738 TATAAAAGTAT
129 TATAAAAGTAT
24749 TGATATTTGC
Statistics
Matches: 119, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
154 83 0.70
155 3 0.03
156 2 0.02
158 31 0.26
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.38
Consensus pattern (156 bp):
TAATGTAAACGATAAAATATATACAACTTAACTGTTTGAAACATTTTTAAAAAAAATCGAAAGTA
TGAATACTTACTCTAAAAATATGGTTACTCTAAAGAGTATAATAATAATGTATCCATACTTACTA
TAAAAGTATGAATATTGTTTCGACAG
Found at i:25063 original size:108 final size:108
Alignment explanation
Indices: 24927--25175 Score: 299
Period size: 108 Copynumber: 2.3 Consensus size: 108
24917 ATATTCTTTT
*
24927 ATAACAAAATAAAAAAATTAACATATTTTGTTATCG-TGAGATTTCGAATGCCCCATCAGT-TTA
1 ATAACAAAAT-AAATAATTAACATATTTTGTTATCGTTG-GATTTCGAATGCCCCATCA-TCTTA
* *
24990 AACTTT-AGTAACATTTTAGACGCTACTTAATATGTTGATAATATTA
63 AACTTTGA-TAACATTTTAGACGCTACCTAATATGTCGATAATATTA
* * * ** * *
25036 ATAATAAAATAAATAATTAACCTATTTTGTTATCGTTGGATTTCTAATTTCTCATTATCTTAAAC
1 ATAACAAAATAAATAATTAACATATTTTGTTATCGTTGGATTTCGAATGCCCCATCATCTTAAAC
* * *
25101 TTTGATAATATTTTAGGCGCTACCTAATATGTCGATGATATTA
66 TTTGATAACATTTTAGACGCTACCTAATATGTCGATAATATTA
* *
25144 ATAACAAATTAAGTAATTAACATA-TTTGTTAT
1 ATAACAAAATAAATAATTAACATATTTTGTTAT
25176 TGTCGAATTT
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
107 9 0.08
108 99 0.82
109 12 0.10
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (108 bp):
ATAACAAAATAAATAATTAACATATTTTGTTATCGTTGGATTTCGAATGCCCCATCATCTTAAAC
TTTGATAACATTTTAGACGCTACCTAATATGTCGATAATATTA
Found at i:25207 original size:108 final size:108
Alignment explanation
Indices: 24927--25207 Score: 295
Period size: 108 Copynumber: 2.6 Consensus size: 108
24917 ATATTCTTTT
* * *
24927 ATAACAAAATAAAAAAATTAACATATTTTGTTATCGTGAGATTTCGAATGCCCCATCA-G-TTTA
1 ATAACAAAAT-AAATAATTAACATATTTTGTTATCGTGA-ATTTCTAATGACCCAT-ATGCTTTA
* *
24990 AACTTTAGTAACATTTTAGACGCTACTTAATATGTTGATAATATTA
63 AACTTTAGTAACATTTTAGACGCTACCTAATATGTCGATAATATTA
* * * ** *
25036 ATAATAAAATAAATAATTAACCTATTTTGTTATCGTTGGATTTCTAATTTCTCATTAT-C-TTAA
1 ATAACAAAATAAATAATTAACATATTTTGTTATCG-TGAATTTCTAATGACCCA-TATGCTTTAA
* * *
25099 ACTTT-GATAATATTTTAGGCGCTACCTAATATGTCGATGATATTA
64 ACTTTAG-TAACATTTTAGACGCTACCTAATATGTCGATAATATTA
* * * *
25144 ATAACAAATTAAGTAATTAACATA-TTTGTTATTGTCGAATTTCTAAGGACCCATATGCTTTAAA
1 ATAACAAAATAAATAATTAACATATTTTGTTATCGT-GAATTTCTAATGACCCATATGCTTTAAA
25208 AAAACGCTAC
Statistics
Matches: 141, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
106 4 0.03
107 23 0.16
108 102 0.72
109 12 0.09
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (108 bp):
ATAACAAAATAAATAATTAACATATTTTGTTATCGTGAATTTCTAATGACCCATATGCTTTAAAC
TTTAGTAACATTTTAGACGCTACCTAATATGTCGATAATATTA
Found at i:26671 original size:6 final size:6
Alignment explanation
Indices: 26655--26689 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
26645 AGAAAAGCAG
*
26655 GGGATAT GGGAAT GGGAAT GGGAAT GGAAAT GGGA
1 GGGA-AT GGGAAT GGGAAT GGGAAT GGGAAT GGGA
26690 GGTCTTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.49, T:0.17
Consensus pattern (6 bp):
GGGAAT
Found at i:27506 original size:3 final size:3
Alignment explanation
Indices: 27498--27523 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27488 AACTGAAGCT
27498 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
27524 TTCAACAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:28900 original size:23 final size:23
Alignment explanation
Indices: 28874--28930 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
28864 ATCAAGCACA
* *
28874 ATAATATATTAGGTATCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
28897 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
28920 ATAATAAAATA
1 ATAATATAATA
28931 TGTTAATTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:28914 original size:87 final size:87
Alignment explanation
Indices: 28768--29026 Score: 428
Period size: 87 Copynumber: 3.0 Consensus size: 87
28758 TTATTTAATC
* * *
28768 AGAAATATTATCAAACACAATAATATATTAGGTACCGCTTATATAATGTAATAAGTAGCGTTTAT
1 AGAAACATTATCAAACACAATAATATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
*
28833 ATAATAAAATAAGTTAATTACT
66 ATAATAAAATATGTTAATTACT
* *
28855 AGAAACATTATCAAGCACAATAATATATTAGGTATCGCTTATATAATGTAATAGGTAGCGCTTAT
1 AGAAACATTATCAAACACAATAATATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
28920 ATAATAAAATATGTTAATTACT
66 ATAATAAAATATGTTAATTACT
* * * *
28942 AGAAACATTATCAAACACAATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGTGCTTAT
1 AGAAACATTATCAAACACAATAATATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
29007 ATAATAAAATATGTTAATTA
66 ATAATAAAATATGTTAATTA
29027 TTTAATTTGT
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 161 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (87 bp):
AGAAACATTATCAAACACAATAATATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTAT
ATAATAAAATATGTTAATTACT
Found at i:28987 original size:23 final size:23
Alignment explanation
Indices: 28961--29010 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
28951 ATCAAACACA
*
28961 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
28984 ATAACGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
29007 ATAA
1 ATAA
29011 TAAAATATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:29017 original size:23 final size:23
Alignment explanation
Indices: 28961--29017 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
28951 ATCAAACACA
* *
28961 ATAACATATTAGGTAGCGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
** *
28984 ATAACGTAATAGGTAGTGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
*
29007 ATAATAAAATA
1 ATAACAAAATA
29018 TGTTAATTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (23 bp):
ATAACAAAATAGGTAGCGCTTAT
Found at i:29484 original size:101 final size:101
Alignment explanation
Indices: 29374--29742 Score: 459
Period size: 112 Copynumber: 3.4 Consensus size: 101
29364 TAAAAATGTA
* * *
29374 TCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTTATTATGACAAAATCGGTA
1 TCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTA
*
29439 AAATTTACCTGATATGTTGAAAGTATCGATCCTTTT
66 AAATTTACCTAATATGTTGAAAGTATCGATCCTTTT
*
29475 TCGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTA
1 TCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTA
29540 AAATTTACCTAATATGTTGAAAGTATCGATCCTTTTT
66 AAATTTACCTAATATGTTGAAAGTATCGATCC-TTTT
*
29577 ATAAAAAGGATTAATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGAC
1 -T-----CG----ATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGAC
* *
29642 AAAACCGGTAAAATTTACCTAATATGTTGAAAGTATAGATCTTTTTTATAAAAAT
56 AAAACCGGTAAAATTTACCTAATATGTTGAAAGTATCGATC---CTT-T-----T
*
29697 GATCGATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGT
1 --TCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGT
29743 AAAATTTACT
Statistics
Matches: 236, Mismatches: 11, Indels: 31
0.85 0.04 0.11
Matches are distributed among these distances:
101 92 0.39
102 4 0.02
103 1 0.00
108 1 0.00
112 131 0.56
114 2 0.01
115 1 0.00
116 1 0.00
120 1 0.00
121 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (101 bp):
TCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTA
AAATTTACCTAATATGTTGAAAGTATCGATCCTTTT
Found at i:29675 original size:112 final size:112
Alignment explanation
Indices: 29478--29742 Score: 476
Period size: 112 Copynumber: 2.4 Consensus size: 112
29468 TCCTTTTTCG
29478 ATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAA
1 ATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAA
* *
29543 TTTACCTAATATGTTGAAAGTATCGATCCTTTTTATAAAAAGGATTA
66 TTTACCTAATATGTTGAAAGTATAGATCCTTTTTATAAAAAGGATCA
*
29590 ATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAA
1 ATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAA
* * *
29655 TTTACCTAATATGTTGAAAGTATAGATCTTTTTTATAAAAATGATCG
66 TTTACCTAATATGTTGAAAGTATAGATCCTTTTTATAAAAAGGATCA
29702 ATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGT
1 ATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGT
29743 AAAATTTACT
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 146 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.31
Consensus pattern (112 bp):
ATACTTTACAATATAACAAGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAA
TTTACCTAATATGTTGAAAGTATAGATCCTTTTTATAAAAAGGATCA
Found at i:29793 original size:92 final size:92
Alignment explanation
Indices: 29636--29832 Score: 331
Period size: 92 Copynumber: 2.1 Consensus size: 92
29626 CCAGTTTCAT
* * *
29636 TATGACAAAACCGGTAAAATTTACCTAATATGTTGAAAGTATAGATCTTTTTTATAAAAATGATC
1 TATGACAAAACCAGTAAAATTTACCTAATATGTTGAAAGTATAGATCATTTTTATAAAAAAGATC
29701 GATACTTTACAATATAACAAGTAAAAA
66 GATACTTTACAATATAACAAGTAAAAA
* * *
29728 TATGACAAAACCAGTAAAATTTACTTGATATGTTGAAAGTATCGATCATTTTTATAAAAAAGATC
1 TATGACAAAACCAGTAAAATTTACCTAATATGTTGAAAGTATAGATCATTTTTATAAAAAAGATC
*
29793 GATACTTTACAATATAACAGGTAAAAA
66 GATACTTTACAATATAACAAGTAAAAA
29820 TATGACAAAACCA
1 TATGACAAAACCA
29833 ATTTCATTAT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 98 1.00
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (92 bp):
TATGACAAAACCAGTAAAATTTACCTAATATGTTGAAAGTATAGATCATTTTTATAAAAAAGATC
GATACTTTACAATATAACAAGTAAAAA
Found at i:29819 original size:204 final size:205
Alignment explanation
Indices: 29310--29914 Score: 788
Period size: 204 Copynumber: 2.9 Consensus size: 205
29300 TCAGTTTCAT
*
29310 TATGACAAAACCGGTAAAATTTACTGAATATGTTGAAAGTATCGATCCTTTTTATAAAAATGTAT
1 TATGACAAAACCGGTAAAATTTACTG-ATATGTTGAAAGTATCGATCCTTTTTATAAAAAAG-AT
* *
29375 CGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTTATTATGACAAAATCGGTAA
64 CGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAA
* * * * * * * ** *
29440 AATTTACCTGATATGTTGAAAGTATCGATCCTTTTTCGATACTTTACAAT-AT-AACAAGTAAAA
129 AATTTACCTAATATGTTGAAAGTATAGATACTTTTT---TA--TAAAAATGATCGATACTTTAAA
* *** *
29503 ATATGACAAAACCAGTTTCAT
189 ATAT----AAACAAGTAAAAA
* * *
29524 TATGACAAAACCGGTAAAATTTACCTAATATGTTGAAAGTATCGATCCTTTTTATAAAAAGGATT
1 TATGACAAAACCGGTAAAATTTA-CTGATATGTTGAAAGTATCGATCCTTTTTATAAAAAAGATC
* *
29589 AATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTAAA
65 GATACTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAAA
*
29654 ATTTACCTAATATGTTGAAAGTATAGAT-CTTTTTTATAAAAATGATCGATACTTTACAATAT-A
130 ATTTACCTAATATGTTGAAAGTATAGATACTTTTTTATAAAAATGATCGATACTTTAAAATATAA
29717 ACAAGTAAAAA
195 ACAAGTAAAAA
* *
29728 TATGACAAAACCAGTAAAATTTACTTGATATGTTGAAAGTATCGATCATTTTTATAAAAAAGATC
1 TATGACAAAACCGGTAAAATTTAC-TGATATGTTGAAAGTATCGATCCTTTTTATAAAAAAGATC
*
29793 GATACTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACTGGTAAA
65 GATACTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAAA
* *
29858 ATTTACCTAATATGTTGAAAGTATATATAC-TTTTTATAAAATTGTATCGATACTTTA
130 ATTTACCTAATATGTTGAAAGTATAGATACTTTTTTATAAAAATG-ATCGATACTTTA
29915 TTGAAAGTTA
Statistics
Matches: 353, Mismatches: 32, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
203 1 0.00
204 167 0.47
205 13 0.04
207 5 0.01
208 2 0.01
209 11 0.03
212 6 0.02
213 89 0.25
214 57 0.16
215 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.33
Consensus pattern (205 bp):
TATGACAAAACCGGTAAAATTTACTGATATGTTGAAAGTATCGATCCTTTTTATAAAAAAGATCG
ATACTTTACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAAAA
TTTACCTAATATGTTGAAAGTATAGATACTTTTTTATAAAAATGATCGATACTTTAAAATATAAA
CAAGTAAAAA
Found at i:31666 original size:31 final size:31
Alignment explanation
Indices: 31631--31695 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
31621 GAATGATGTA
31631 TATTGAGATAGACTTGATGAAGTCACCTACG
1 TATTGAGATAGACTTGATGAAGTCACCTACG
31662 TATTGAGATAGACTTGATGAAGTCACCTACG
1 TATTGAGATAGACTTGATGAAGTCACCTACG
31693 TAT
1 TAT
31696 GTGTGAAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (31 bp):
TATTGAGATAGACTTGATGAAGTCACCTACG
Found at i:32529 original size:26 final size:26
Alignment explanation
Indices: 32500--32552 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
32490 ACTGAAAAGT
* * *
32500 TAGTTTTCTTTGGATTGCTCTTGCGG
1 TAGTTTTCTTTGAATTGATCTTACGG
32526 TAGTTTTCTTTGAATTGATCTTACGG
1 TAGTTTTCTTTGAATTGATCTTACGG
32552 T
1 T
32553 GATGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.51
Consensus pattern (26 bp):
TAGTTTTCTTTGAATTGATCTTACGG
Found at i:37213 original size:121 final size:120
Alignment explanation
Indices: 36802--37392 Score: 729
Period size: 121 Copynumber: 4.8 Consensus size: 120
36792 AAAATCCTGA
* *
36802 GCACAATATCCTTCGTTGTGAAGTTGAAATCGTGGATAGCTCATTCATTGCGAAGTTGAGCTTTG
1 GCACAATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCATTGCGAAGTTGAGCTTTG
* *
36867 AATTGGATATCCTTCA-CTGTGAAGTTGAAATCCAATCTAGAGATAG-ATGCTGCTTGTGG
66 AATTGGATATCCTTCATC-GTGAAGTTGAAATCC-A---AG-GGTTGCATGCTGCTTGTGG
* *
36926 GCA-AGATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCTCATTCATTACGAAGTTGAGCTTT
1 GCACA-ATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCATTGCGAAGTTGAGCTTT
* * * * *
36990 GAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATGCTGCTTGTGG
65 GAATTGGATATCCTTCATCGTGAAGTTGAAATCC-A---AGGGTTGCATGCTGCTTGTGG
* * * * * * *
37050 GTACGATATCCTTCGTCGTGAAATTAAAATCGTGGTTGGCTCATTCGTTGCAAAGTTGAGCTTTG
1 GCACAATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCATTGCGAAGTTGAGCTTTG
* **
37115 AATTGTATATATTTCATCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGG
66 AATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCA-TGCTGCTTGTGG
* * *
37171 GCACAATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTG
1 GCACAATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCATTGCGAAGTTGAGCTTTG
* *
37236 AATTGGATATCCTTCATCATGAAGTTGAAATCCAAGGGTTGCATTGTTGCTTGTGG
66 AATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCA-TGCTGCTTGTGG
* * * * * * *
37292 GCACGATATCCTTCGTCATAAAGTTGAAATCGTGGATAGCTCATTCATTGTGAAGTTAAACTTTG
1 GCACAATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCATTGCGAAGTTGAGCTTTG
* *
37357 AATTGGATATCATTCGTCGTGAAGTTGAAATCCAAG
66 AATTGGATATCCTTCATCGTGAAGTTGAAATCCAAG
37393 TTTGAGTAAG
Statistics
Matches: 411, Mismatches: 51, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
120 6 0.01
121 210 0.51
123 3 0.01
124 192 0.47
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (120 bp):
GCACAATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCATTGCGAAGTTGAGCTTTG
AATTGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCATGCTGCTTGTGG
Found at i:37501 original size:59 final size:63
Alignment explanation
Indices: 37428--37673 Score: 259
Period size: 64 Copynumber: 3.9 Consensus size: 63
37418 TTTGAGCTGG
* * * *
37428 ATATCCTTCGTTGTGAAGTTGAAATCCAATCTCGAGT-AAA-TTG-TGTTG-TT-TTGAGTCCA
1 ATATCATTCGTTGTGAAGTTGAAATCCAATCT-GAATGAAACTGGAAGTTGTTTGTTGAGTCCA
* ** *
37487 ATATCATTCATTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCA
1 ATATCATTCGTTGTGAAGTTGAAATCCAATCTGAATGAAACTGG-AAGTTGTTTGTTGAGTCCA
** * *
37551 ATATCATTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTATTGAGTCCA
1 ATATCATTCGTTGTGAAGTTGAAATCCAATCTGAATGAAACTGG-AAGTTGTTTGTTGAGTCCA
* * ** * *
37615 ATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAACGTTATTTGTTGA
1 ATATCATTCGTTGTGAAGTTGAAATCCAATCTGAATGAAACTGGAA-GTTGTTTGTTGA
37674 CAGACAGCTT
Statistics
Matches: 166, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
58 3 0.02
59 30 0.18
60 2 0.01
62 4 0.02
63 4 0.02
64 123 0.74
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.37
Consensus pattern (63 bp):
ATATCATTCGTTGTGAAGTTGAAATCCAATCTGAATGAAACTGGAAGTTGTTTGTTGAGTCCA
Found at i:37556 original size:64 final size:64
Alignment explanation
Indices: 37478--37673 Score: 338
Period size: 64 Copynumber: 3.1 Consensus size: 64
37468 TTGTGTTGTT
*
37478 TTGAGTCCAATATCATTCATTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTG
1 TTGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTG
*
37542 TTGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTA
1 TTGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTG
* * * *
37606 TTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAACGTTATTTG
1 TTGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTG
37670 TTGA
1 TTGA
37674 CAGACAGCTT
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 125 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (64 bp):
TTGAGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTG
Found at i:39363 original size:14 final size:14
Alignment explanation
Indices: 39322--39369 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
39312 TTCACTTCTT
39322 TCTTTGTTTTTGTTC
1 TCTTTGTTTTT-TTC
39337 TCTTT-TTTATTTTC
1 TCTTTGTTT-TTTTC
*
39351 TCTTTGCTTTTTTTT
1 TCTTTG-TTTTTTTC
39366 TCTT
1 TCTT
39370 CATTTCTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 11 0.38
15 15 0.52
16 3 0.10
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (14 bp):
TCTTTGTTTTTTTC
Found at i:42445 original size:30 final size:29
Alignment explanation
Indices: 42377--42445 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
42367 AAAATAGCAA
42377 AAATAGAAACTTAAGTGACTAAAATAAAAT
1 AAATA-AAACTTAAGTGACTAAAATAAAAT
** *
42407 AACGAAAACTTAAGTGTC-AAAATCAGAAAT
1 AAATAAAACTTAAGTGACTAAAAT-A-AAAT
42437 AAATAAAAC
1 AAATAAAAC
42446 AAGAGATATG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 5 0.16
29 13 0.41
30 14 0.44
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (29 bp):
AAATAAAACTTAAGTGACTAAAATAAAAT
Found at i:45383 original size:4 final size:4
Alignment explanation
Indices: 45367--45397 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
45357 CAAGAAATCT
*
45367 CATC CATC TATC CATC CATC CATC CATC CAT
1 CATC CATC CATC CATC CATC CATC CATC CAT
45398 AATACCAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.45, G:0.00, T:0.29
Consensus pattern (4 bp):
CATC
Found at i:50499 original size:12 final size:11
Alignment explanation
Indices: 50482--50545 Score: 60
Period size: 12 Copynumber: 5.6 Consensus size: 11
50472 TTTAAAAACT
50482 AAAATAACAATA
1 AAAATAA-AATA
50494 AAAATAAAATAA
1 AAAATAAAAT-A
50506 AAAAGTAAAA-A
1 AAAA-TAAAATA
*
50517 CAACATAAAATA
1 -AAAATAAAATA
50529 AAAAT-AAATA
1 AAAATAAAATA
*
50539 AACATAA
1 AAAATAA
50546 GTACAAGGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.20
11 14 0.32
12 16 0.36
13 5 0.11
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:50515 original size:30 final size:30
Alignment explanation
Indices: 50475--50541 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
50465 ACCTAATTTT
*
50475 AAAAACT-AAAATAACAATAAAA-ATAAAATA
1 AAAAACTAAAAACAAC-ATAAAATA-AAAATA
*
50505 AAAAAGTAAAAACAACATAAAATAAAAATA
1 AAAAACTAAAAACAACATAAAATAAAAATA
50535 AATAAAC
1 AA-AAAC
50542 ATAAGTACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.76, C:0.07, G:0.01, T:0.15
Consensus pattern (30 bp):
AAAAACTAAAAACAACATAAAATAAAAATA
Found at i:52257 original size:34 final size:34
Alignment explanation
Indices: 52207--52273 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
52197 TTTATCCATT
52207 TCCTATTCTAAAAATAGATTAGTTGAACTTAAAG
1 TCCTATTCTAAAAATAGATTAGTTGAACTTAAAG
* * *
52241 TCCTATTTTAAGAATAGATTGGTTGAACTTAAA
1 TCCTATTCTAAAAATAGATTAGTTGAACTTAAA
52274 ATTTCTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (34 bp):
TCCTATTCTAAAAATAGATTAGTTGAACTTAAAG
Found at i:56642 original size:28 final size:29
Alignment explanation
Indices: 56609--56664 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
56599 AATATTATGA
*
56609 AAATAATATCT-TTTATTAAAA-AATATTT
1 AAATAATAT-TATTTATCAAAATAATATTT
56637 AAATAATATTATTTATCAAAATAATATT
1 AAATAATATTATTTATCAAAATAATATT
56665 CTTTTGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
28 18 0.72
29 6 0.24
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (29 bp):
AAATAATATTATTTATCAAAATAATATTT
Found at i:57502 original size:21 final size:20
Alignment explanation
Indices: 57463--57503 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
57453 ATACCTTTTC
**
57463 TAAATAGATATTTTTTTTAT
1 TAAATAGATATTTAATTTAT
57483 TAAATTAGATATTTAATTTAT
1 TAAA-TAGATATTTAATTTAT
57504 AATTTGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TAAATAGATATTTAATTTAT
Found at i:63143 original size:30 final size:30
Alignment explanation
Indices: 63103--63168 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
63093 GAAGAGAGAA
*
63103 GCGACTTGCACAGGTCGTTCGGCTTGCATG
1 GCGACCTGCACAGGTCGTTCGGCTTGCATG
*
63133 GCGACCTGCACAGGTCGTTTGGCTTGCATG
1 GCGACCTGCACAGGTCGTTCGGCTTGCATG
63163 GCGACC
1 GCGACC
63169 AAGCAATTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.14, C:0.29, G:0.33, T:0.24
Consensus pattern (30 bp):
GCGACCTGCACAGGTCGTTCGGCTTGCATG
Found at i:64106 original size:26 final size:27
Alignment explanation
Indices: 64059--64111 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
64049 AAATTGTTAA
* *
64059 TATTTATTTTTAATTTTCTTTA-AATT
1 TATTTATATATAATTTTCTTTATAATT
64085 TATTTATATATAATTTAT-TTTATAATT
1 TATTTATATATAATTT-TCTTTATAATT
64112 ATAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (27 bp):
TATTTATATATAATTTTCTTTATAATT
Found at i:68683 original size:13 final size:14
Alignment explanation
Indices: 68661--68699 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
68651 TAACAAAACC
68661 TTTTGAAAAATTAT
1 TTTTGAAAAATTAT
68675 TTTTGAAAAATTAT
1 TTTTGAAAAATTAT
68689 TTTTGAAAAAT
1 TTTTGAAAAAT
68700 GCTCCCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (14 bp):
TTTTGAAAAATTAT
Found at i:70602 original size:21 final size:21
Alignment explanation
Indices: 70578--70629 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
70568 TGGCTTGAAT
70578 GGATCGATC-CTTCGCAAAAAG
1 GGATCGATCACTTCG-AAAAAG
* * *
70599 GGATTGATCATTTTGAAAAAG
1 GGATCGATCACTTCGAAAAAG
*
70620 GGATCTATCA
1 GGATCGATCA
70630 TTTTTGCGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (21 bp):
GGATCGATCACTTCGAAAAAG
Found at i:70635 original size:22 final size:21
Alignment explanation
Indices: 70593--70633 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
70583 GATCCTTCGC
70593 AAAAAGGGATTGATCATTTTG
1 AAAAAGGGATTGATCATTTTG
70614 AAAAAGGGATCT-ATCATTTT
1 AAAAAGGGAT-TGATCATTTT
70634 TGCGAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (21 bp):
AAAAAGGGATTGATCATTTTG
Done.