Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003789.1 Hibiscus syriacus cultivar Beakdansim tig00008110_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: 83272
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3228 original size:30 final size:31
Alignment explanation
Indices: 3192--3251 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
3182 GAGTCGAGGG
*
3192 TTTACCTATGTTC-TAAGGAACTATGGACAA
1 TTTACCTAGGTTCTTAAGGAACTATGGACAA
* *
3222 TTTACCTAGGTTCTTCAGGACCTATGGACA
1 TTTACCTAGGTTCTTAAGGAACTATGGACA
3252 GTTACCGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (31 bp):
TTTACCTAGGTTCTTAAGGAACTATGGACAA
Found at i:3257 original size:30 final size:30
Alignment explanation
Indices: 3205--3296 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
3195 ACCTATGTTC
* * * *
3205 TAAGGAACTATGGACAATTTACCTAGGTTCT
1 TAAGGACCTATGGAC-AGTTACCGAGGATCT
*
3236 TCAGGACCTATGGACAGTTACCGAGGATCT
1 TAAGGACCTATGGACAGTTACCGAGGATCT
* * * *
3266 TTATGACCTCTGGATAGTTACCGAGGATCT
1 TAAGGACCTATGGACAGTTACCGAGGATCT
3296 T
1 T
3297 TATGACCTCT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
30 39 0.75
31 13 0.25
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (30 bp):
TAAGGACCTATGGACAGTTACCGAGGATCT
Found at i:3297 original size:30 final size:30
Alignment explanation
Indices: 3240--3312 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
3230 GGTTCTTCAG
* *
3240 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
3270 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
3300 GACCTCTGGATAG
1 GACCTCTGGATAG
3313 GTCCTTCGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:9850 original size:22 final size:21
Alignment explanation
Indices: 9824--9894 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 21
9814 TCAATACACG
*
9824 AAAGTGCATTAGCACTGGTACT
1 AAAGTG-ATTAGCACTGATACT
* *
9846 AAAGTGACTTAACACTGATACG
1 AAAGTGA-TTAGCACTGATACT
*
9868 AAAGTGTATTTGCACTGATACT
1 AAAGTG-ATTAGCACTGATACT
9890 AAAGT
1 AAAGT
9895 ATCTTAGCAC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.02
22 39 0.95
23 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (21 bp):
AAAGTGATTAGCACTGATACT
Found at i:9904 original size:22 final size:22
Alignment explanation
Indices: 9832--9906 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
9822 CGAAAGTGCA
*
9832 TTAGCACTGGTACTAAAGTGA-C
1 TTAGCACTGATACTAAAGT-ATC
* * * *
9854 TTAACACTGATACGAAAGTGTA
1 TTAGCACTGATACTAAAGTATC
*
9876 TTTGCACTGATACTAAAGTATC
1 TTAGCACTGATACTAAAGTATC
9898 TTAGCACTG
1 TTAGCACTG
9907 CTGTCATATA
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (22 bp):
TTAGCACTGATACTAAAGTATC
Found at i:12723 original size:21 final size:22
Alignment explanation
Indices: 12675--12726 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
12665 ACGTATAATT
*
12675 ATAAATTAGTTAAAATTTTAAAG
1 ATAAATTAGTTAAAA-TTAAAAG
* *
12698 GTAAATTATTTAAAA-TAAAAG
1 ATAAATTAGTTAAAATTAAAAG
12719 ATAAATTA
1 ATAAATTA
12727 CATCAGTGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 12 0.48
23 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.37
Consensus pattern (22 bp):
ATAAATTAGTTAAAATTAAAAG
Found at i:15467 original size:16 final size:17
Alignment explanation
Indices: 15446--15479 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15436 TTTTATTATT
*
15446 ATTTAATATAAA-AATA
1 ATTTAAAATAAATAATA
15462 ATTTAAAATAAATAATA
1 ATTTAAAATAAATAATA
15479 A
1 A
15480 AATAATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATAAATAATA
Found at i:16061 original size:16 final size:17
Alignment explanation
Indices: 16028--16061 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16018 CTTTATGTTT
*
16028 TTATTTTATATTTTAAA
1 TTATTTTATATATTAAA
16045 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
16061 T
1 T
16062 AATAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:17250 original size:31 final size:31
Alignment explanation
Indices: 17215--17291 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
17205 TCAAAAAACA
*
17215 TAAGATATGATCACTTTTGTTTTTACTTAAT
1 TAAGATATGATCACTTTCGTTTTTACTTAAT
* *
17246 TAAGATATGACCACTTTCGTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTACTTAAT
* *
17277 TAAGATGTGGTCACT
1 TAAGATATGATCACT
17292 CCCGAGTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (31 bp):
TAAGATATGATCACTTTCGTTTTTACTTAAT
Found at i:17660 original size:13 final size:14
Alignment explanation
Indices: 17633--17671 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
17623 CGGTATCCAA
*
17633 TTTATTATATATTT
1 TTTATTTTATATTT
17647 TTTATTTT-TA-TT
1 TTTATTTTATATTT
17659 TTTATTTTATATT
1 TTTATTTTATATT
17672 AAATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 10 0.45
13 4 0.18
14 8 0.36
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATATTT
Found at i:18074 original size:24 final size:23
Alignment explanation
Indices: 18047--18113 Score: 68
Period size: 25 Copynumber: 2.9 Consensus size: 23
18037 TAATATAATA
18047 ATTTTATATATATTAACTTAAAAT
1 ATTTT-TATATATTAACTTAAAAT
18071 A-TTTT-TATATTAACTTATTAAAT
1 ATTTTTATATATTAACTTA--AAAT
*
18094 ATATTTTA-CTATTAACTTAA
1 AT-TTTTATATATTAACTTAA
18114 TTTAAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 12 0.32
22 1 0.03
23 9 0.24
24 1 0.03
25 14 0.38
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTTTATATATTAACTTAAAAT
Found at i:18081 original size:21 final size:22
Alignment explanation
Indices: 18055--18113 Score: 84
Period size: 21 Copynumber: 2.6 Consensus size: 22
18045 TAATTTTATA
18055 TATATTAACTTAAAATAT-TTT
1 TATATTAACTTAAAATATATTT
18076 TATATTAACTTATTAAATATATTT
1 TATATTAACTTA--AAATATATTT
18100 TACTATTAACTTAA
1 TA-TATTAACTTAA
18114 TTTAAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 12 0.35
23 7 0.21
24 5 0.15
25 10 0.29
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTAACTTAAAATATATTT
Found at i:18097 original size:25 final size:27
Alignment explanation
Indices: 18059--18127 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 27
18049 TTTATATATA
*
18059 TTAACTTAAAATATTTTTA-TATTAAC
1 TTAATTTAAAATATTTTTACTATTAAC
18085 TT-A-TT-AAATATATTTTACTATTAAC
1 TTAATTTAAAATAT-TTTTACTATTAAC
18110 TTAATTTAAAAATATTTT
1 TTAATTT-AAAATATTTT
18128 ATTTATAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
23 6 0.16
24 7 0.19
25 10 0.27
26 3 0.08
27 2 0.05
28 3 0.08
29 6 0.16
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAATTTAAAATATTTTTACTATTAAC
Found at i:18125 original size:27 final size:24
Alignment explanation
Indices: 18055--18129 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 24
18045 TAATTTTATA
*
18055 TATATTAACTTA--AAATAT-TTT
1 TATATTAACTTATTAAAAATATTT
*
18076 TATATTAACTTATTAAATATATTT
1 TATATTAACTTATTAAAAATATTT
18100 TACTATTAACTTAATTTAAAAATATTT
1 TA-TATTAACTT-A-TTAAAAATATTT
18127 TAT
1 TAT
18130 TTATAATTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
21 12 0.26
23 6 0.13
24 5 0.11
25 9 0.19
26 2 0.04
27 13 0.28
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (24 bp):
TATATTAACTTATTAAAAATATTT
Found at i:18145 original size:27 final size:27
Alignment explanation
Indices: 18066--18128 Score: 87
Period size: 25 Copynumber: 2.4 Consensus size: 27
18056 ATATTAACTT
18066 AAAATATTTTTA-TATTAACTT-A-TTA
1 AAAATA-TTTTACTATTAACTTAATTTA
*
18091 AATATATTTTACTATTAACTTAATTTA
1 AAAATATTTTACTATTAACTTAATTTA
18118 AAAATATTTTA
1 AAAATATTTTA
18129 TTTATAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 5 0.15
25 14 0.42
26 1 0.03
27 13 0.39
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (27 bp):
AAAATATTTTACTATTAACTTAATTTA
Found at i:19560 original size:85 final size:81
Alignment explanation
Indices: 19454--19623 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
19444 GCTAACAAGT
* * * *
19454 AGCTCCATATAAACCATCCAATTGATATAAGGAAAAAATAGAACATATTCCATTATGT-TTACCA
1 AGCTCCACATAAACCATCCAATGGACAT-A--AAAAAA-A-AACATATTCCATTATGTCTGACCA
*
19518 TCCAATAGATAAATCATGACC
61 TCCAATAGACAAATCATGACC
* * * *
19539 AGCTCCACATAATCCATCCAATGGCCATAAAGAAAAAACATATTCCGTTATGTCTGACCATCCAA
1 AGCTCCACATAAACCATCCAATGGACATAAAAAAAAAACATATTCCATTATGTCTGACCATCCAA
*
19604 TAGACAGATCATGACC
66 TAGACAAATCATGACC
19620 AGCT
1 AGCT
19624 TTATATAATT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
80 16 0.22
81 29 0.39
82 5 0.07
84 1 0.01
85 23 0.31
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.25
Consensus pattern (81 bp):
AGCTCCACATAAACCATCCAATGGACATAAAAAAAAAACATATTCCATTATGTCTGACCATCCAA
TAGACAAATCATGACC
Found at i:24946 original size:5 final size:5
Alignment explanation
Indices: 24938--24968 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
24928 TATTATTATT
24938 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCGGG T
24969 TTCTAAGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:26346 original size:38 final size:38
Alignment explanation
Indices: 26303--26375 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
26293 ATTCAATTTG
26303 TTTTTATAAACAATTATATGAAATTATTTGATAAATTA
1 TTTTTATAAACAATTATATGAAATTATTTGATAAATTA
26341 TTTTTATAAACAATTATATGAAATTATTTGATAAA
1 TTTTTATAAACAATTATATGAAATTATTTGATAAA
26376 GGTAACAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (38 bp):
TTTTTATAAACAATTATATGAAATTATTTGATAAATTA
Found at i:33750 original size:17 final size:18
Alignment explanation
Indices: 33730--33770 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
33720 AAATTATATT
33730 AGTAAAAT-ATTAAATAA
1 AGTAAAATGATTAAATAA
*
33747 AGTAAAATGCTTAAATAA
1 AGTAAAATGATTAAATAA
*
33765 ATTAAA
1 AGTAAA
33771 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
AGTAAAATGATTAAATAA
Found at i:34021 original size:53 final size:50
Alignment explanation
Indices: 33910--34031 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
33900 CCTCCTTGTA
* *
33910 CCGCGTTATACTCCACGTGTCAGATAAACAGATATAACGCGGATCAGGGG
1 CCGCGCTATACCCCACGTGTCAGATAAACAGATATAACGCGGATCAGGGG
* * * *
33960 CCGCGCTATACCCCACGTGTCAGATAAACGTGGCGTATAGCGTGGATCA-GGG
1 CCGCGCTATACCCCACGTGTCAGATAAAC--AG-ATATAACGCGGATCAGGGG
34012 CGCGCGCTATA-CCCACGTGT
1 C-CGCGCTATACCCCACGTGT
34032 AAGCCATGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
50 27 0.44
52 14 0.23
53 21 0.34
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (50 bp):
CCGCGCTATACCCCACGTGTCAGATAAACAGATATAACGCGGATCAGGGG
Found at i:34121 original size:51 final size:51
Alignment explanation
Indices: 34007--34121 Score: 115
Period size: 51 Copynumber: 2.3 Consensus size: 51
33997 TAGCGTGGAT
* ** * *
34007 CAGGGCGCGCGCTATACCCACGTGTAAGCCATGTCAGCGTATAGCACGGTA
1 CAGGGAGCGCGCTATACCCACGTGTAAGCCAAATCAGCATATAGCACGGGA
* * ** * *
34058 CAGGGGGTGCGCTATACCCCACGTG-GCGCCAAATCAGCATATAGCGCGGGG
1 CAGGGAGCGCGCTATA-CCCACGTGTAAGCCAAATCAGCATATAGCACGGGA
34109 CAGGGAGCGCGCT
1 CAGGGAGCGCGCT
34122 TTACTGCTAC
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
51 43 0.84
52 8 0.16
ACGTcount: A:0.22, C:0.30, G:0.34, T:0.15
Consensus pattern (51 bp):
CAGGGAGCGCGCTATACCCACGTGTAAGCCAAATCAGCATATAGCACGGGA
Found at i:35855 original size:22 final size:22
Alignment explanation
Indices: 35813--35871 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
35803 TATTTTTATT
*
35813 TTTATATTTTGAAATTAAAATG
1 TTTATATTTTAAAATTAAAATG
* *
35835 TTTATATTTGTAAAATTAAATTA
1 TTTATATTT-TAAAATTAAAATG
*
35858 TTTTTATTTTAAAA
1 TTTATATTTTAAAA
35872 AATAAAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 14 0.44
23 18 0.56
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (22 bp):
TTTATATTTTAAAATTAAAATG
Found at i:44451 original size:41 final size:41
Alignment explanation
Indices: 44397--44799 Score: 284
Period size: 41 Copynumber: 9.9 Consensus size: 41
44387 TTTCTAGAAT
* * * *
44397 AAACGTCGGTAAAGAATCGTACTATAGCGGCGTTTTTATAC
1 AAACGCCGCTAAAGAATCGTACTTTAGTGGCGTTTTTATAC
* *
44438 AAACGCCGCTAAAG-A-C-TAATTTAGTGGCGTTTTTGTAC
1 AAACGCCGCTAAAGAATCGTACTTTAGTGGCGTTTTTATAC
* * * ***
44476 AAATGCCGCTATAGTA-CG-AGTCTTTACCAGCGTTTTTTATAC
1 AAACGCCGCTAAAGAATCGTA--CTTTAGTGGCG-TTTTTATAC
* *
44518 AAACGCCGCTAAATAAT-TTACTTTAGTGGCGTTTTTATAC
1 AAACGCCGCTAAAGAATCGTACTTTAGTGGCGTTTTTATAC
* * * * ** * *
44558 AAACGCCGCGAAAGACT-GTAATTTACTAACGTTTATAGAAC
1 AAACGCCGCTAAAGAATCGTACTTTAGTGGCGTTTTTA-TAC
* * *
44599 AAACGCCGCTATAGACTCGTAATTTAGTGGCGTTTTTATAC
1 AAACGCCGCTAAAGAATCGTACTTTAGTGGCGTTTTTATAC
* * * *
44640 AAACGCCGCTATAGTATGAGT-CTTTAGCGGCGTTTTTTATAC
1 AAACGCCGCTAAAGAAT-CGTACTTTAGTGGCG-TTTTTATAC
* * * *
44682 AAACGCCGCTAAATACTCGTACTATAGTGGCGTTTTTATAT
1 AAACGCCGCTAAAGAATCGTACTTTAGTGGCGTTTTTATAC
* * * * * * *
44723 AAATGCCTCAAAATAAT-GTACTTTAGTGGCGTTTTAAGCAT
1 AAACGCCGCTAAAGAATCGTACTTTAGTGGCGTTTTTA-TAC
* * * *
44764 AAACGCCGCCATATACTCGTACTTTAGTGGCGTTTT
1 AAACGCCGCTAAAGAATCGTACTTTAGTGGCGTTTT
44800 AAACACAAAC
Statistics
Matches: 285, Mismatches: 63, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
38 30 0.11
39 4 0.01
40 56 0.20
41 107 0.38
42 87 0.31
43 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
AAACGCCGCTAAAGAATCGTACTTTAGTGGCGTTTTTATAC
Found at i:44566 original size:82 final size:83
Alignment explanation
Indices: 44429--44721 Score: 321
Period size: 82 Copynumber: 3.6 Consensus size: 83
44419 TATAGCGGCG
* * *
44429 TTTTTATACAAACGCCGCTAAA-GA-C-TAATTTAGTGGCGTTTTTGTACAAATGCCGCTATAGT
1 TTTTTATACAAACGCCGCTAAATAATCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAGT
44491 ACGAGTCTTTACCAGCGT
66 ACGAGTCTTTACCAGCGT
* * * *
44509 TTTTTATACAAACGCCGCTAAATAAT-TTACTTTAGTGGCGTTTTTATACAAACGCCGCGAAAG-
1 TTTTTATACAAACGCCGCTAAATAATCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAGT
* * * *
44572 AC-TGTAATTTACTAACG-
66 ACGAGT-CTTTACCAGCGT
* * * * *
44589 TTTATAGAACAAACGCCGCTATAGACTCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAG
1 TTTTTA-TACAAACGCCGCTAAATAATCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAG
* * *
44654 TATGAGTCTTTAGCGGCGT
65 TACGAGTCTTTACCAGCGT
* * *
44673 TTTTTATACAAACGCCGCTAAATACTCGTACTATAGTGGCGTTTTTATA
1 TTTTTATACAAACGCCGCTAAATAATCGTAATTTAGTGGCGTTTTTATA
44722 TAAATGCCTC
Statistics
Matches: 172, Mismatches: 32, Indels: 15
0.79 0.15 0.07
Matches are distributed among these distances:
80 29 0.17
81 27 0.16
82 64 0.37
83 45 0.26
84 7 0.04
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (83 bp):
TTTTTATACAAACGCCGCTAAATAATCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAGT
ACGAGTCTTTACCAGCGT
Found at i:44650 original size:164 final size:165
Alignment explanation
Indices: 44436--44799 Score: 468
Period size: 165 Copynumber: 2.2 Consensus size: 165
44426 GCGTTTTTAT
* * *
44436 ACAAACGCCGCTAAAGA--C-TAATTTAGTGGCGTTTTTGTACAAATGCCGCTATAGTACGAGTC
1 ACAAACGCCGCTATAGACTCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAGTACGAGTC
* *
44498 TTTACCAGCGTTTTTTATACAAACGCCGCTAAATAAT-TTACTTTAGTGGCGTTTTTATACAAAC
66 TTTACCAGCGTTTTTTATACAAACGCCGCTAAATAATCGTACTATAGTGGCGTTTTTATACAAAC
* *
44562 GCCGCGAAAGACTGTAATTTACTAACG-TTTATAGA
131 GCCGCAAAAGAATGTAATTTACTAACGTTTTA-AGA
*
44597 ACAAACGCCGCTATAGACTCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAGTATGAGTC
1 ACAAACGCCGCTATAGACTCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAGTACGAGTC
* * * * *
44662 TTTAGCGGCGTTTTTTATACAAACGCCGCTAAATACTCGTACTATAGTGGCGTTTTTATATAAAT
66 TTTACCAGCGTTTTTTATACAAACGCCGCTAAATAATCGTACTATAGTGGCGTTTTTATACAAAC
* * * * ** *
44727 GCCTCAAAATAATGTACTTTAGTGGCGTTTTAAGC
131 GCCGCAAAAGAATGTAATTTACTAACGTTTTAAGA
* * * *
44762 ATAAACGCCGCCATATACTCGTACTTTAGTGGCGTTTT
1 ACAAACGCCGCTATAGACTCGTAATTTAGTGGCGTTTT
44800 AAACACAAAC
Statistics
Matches: 174, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
161 16 0.09
163 1 0.01
164 75 0.43
165 78 0.45
166 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (165 bp):
ACAAACGCCGCTATAGACTCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAGTACGAGTC
TTTACCAGCGTTTTTTATACAAACGCCGCTAAATAATCGTACTATAGTGGCGTTTTTATACAAAC
GCCGCAAAAGAATGTAATTTACTAACGTTTTAAGA
Found at i:44714 original size:42 final size:41
Alignment explanation
Indices: 44413--44828 Score: 301
Period size: 42 Copynumber: 10.2 Consensus size: 41
44403 CGGTAAAGAA
* * *
44413 TCGTACTATAGCGGCGTTTTTATACAAACGCCGCTAAAGA-
1 TCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAATAC
* * * *
44453 -C-TAATTTAGTGGCGTTTTTGTACAAATGCCGCTATAGTAC
1 TCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTA-AATAC
** *** *
44493 GAGT-CTTTACCAGCGTTTTTTATACAAACGCCGCTAAATAA
1 TCGTACTTTAGTGGCG-TTTTTATACAAACGCCGCTAAATAC
* * *
44534 T-TTACTTTAGTGGCGTTTTTATACAAACGCCGCGAAAGAC
1 TCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAATAC
* * ** * * * *
44574 T-GTAATTTACTAACGTTTATAGAACAAACGCCGCTATAGAC
1 TCGTACTTTAGTGGCGTTTTTA-TACAAACGCCGCTAAATAC
* *
44615 TCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAGTA-
1 TCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTA-AATAC
* *
44656 TGAGT-CTTTAGCGGCGTTTTTTATACAAACGCCGCTAAATAC
1 T-CGTACTTTAGTGGCG-TTTTTATACAAACGCCGCTAAATAC
* * * * * *
44698 TCGTACTATAGTGGCGTTTTTATATAAATGCCTCAAAATAA
1 TCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAATAC
* * * * *
44739 T-GTACTTTAGTGGCGTTTTAAGCATAAACGCCGCCATATAC
1 TCGTACTTTAGTGGCGTTTTTA-TACAAACGCCGCTAAATAC
* * * *
44780 TCGTACTTTAGTGGCGTTTTAAACACAAACACCACTAAATAC
1 TCGTACTTTAGTGGCGTTTT-TATACAAACGCCGCTAAATAC
*
44822 TCATACT
1 TCGTACT
44829 ATAAAACAAC
Statistics
Matches: 293, Mismatches: 67, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
38 28 0.10
39 3 0.01
40 56 0.19
41 98 0.33
42 106 0.36
43 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (41 bp):
TCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAATAC
Found at i:48952 original size:21 final size:21
Alignment explanation
Indices: 48928--48986 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
48918 TGATTTATTA
**
48928 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
48949 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
48970 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
48987 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:49196 original size:43 final size:43
Alignment explanation
Indices: 49133--49402 Score: 335
Period size: 43 Copynumber: 6.3 Consensus size: 43
49123 ATATGACATT
** * *
49133 TTGCGGCGTTTGTTCTAAAAAACGTCGCTAAATCTCAAGACCTA
1 TTGCGGCGTTTGTT-GGAAAAACGCCGCTAAATCTCAACACCTA
49177 TTGCGGCGTTTG-TGGAAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTTGG-AAAAACGCCGCTAAATCTCAACACCTA
* * * * *
49220 TTGCGGCATTTATGGGAAAAATGCCGCTAAATCTCAAAACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTA
*
49263 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTA
* * * * *
49306 TTACGGCGTTTGTTGGAAAAATGCCGCCAAATATTAACACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTA
* * ***
49349 TTGCGGCGTTTGTTGGAAAAACGCCGCTATATATCGTTACCTA
1 TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTA
49392 TTGCGGCGTTT
1 TTGCGGCGTTT
49403 TTTGTTACCA
Statistics
Matches: 197, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
43 183 0.93
44 14 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
TTGCGGCGTTTGTTGGAAAAACGCCGCTAAATCTCAACACCTA
Found at i:50246 original size:24 final size:22
Alignment explanation
Indices: 50212--50255 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
50202 ATTTTATATA
50212 AAAATAATTTAAATATATAAATGT
1 AAAATAATTT-AATAT-TAAATGT
*
50236 AAAATATTTTAATATTAAAT
1 AAAATAATTTAATATTAAAT
50256 AATTAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATAATTTAATATTAAATGT
Found at i:50249 original size:23 final size:23
Alignment explanation
Indices: 50212--50255 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
50202 ATTTTATATA
50212 AAAATAATTTAAATATATAAATGT
1 AAAATAATTTAAATAT-TAAATGT
*
50236 AAAAT-ATTTTAATATTAAAT
1 AAAATAATTTAAATATTAAAT
50256 AATTAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAATAATTTAAATATTAAATGT
Found at i:54360 original size:69 final size:68
Alignment explanation
Indices: 54213--54440 Score: 241
Period size: 69 Copynumber: 3.3 Consensus size: 68
54203 TCATCGGAGA
* * * *
54213 TCCCTTGCGAGTCACCCAAAAATTATTATGATT-GAGTG-TTCT-TGTGAGTCACTCTAATTCTT
1 TCCCGTGCGAGTCACCC-AAAATGATTATGATTAG-GTGCTCCTATGAGAGTCACTCTAA-TC-T
54275 TTGGG-C
62 TTGGGAC
* * *
54281 TCCCGTGCGAGTCACCCATAATGATTATGATTAGGTGCTCCTATGCGTGTCACTCTAATCATTTG
1 TCCCGTGCGAGTCACCCAAAATGATTATGATTAGGTGCTCCTATGAGAGTCACTCTAATC-TTTG
54346 GGAC
65 GGAC
* *
54350 TCTCGTGCGAGTCACCCAGAATGATTATGATTAGGTGCTTCC-ATGAGAGTCACTCTAATCTTTC
1 TCCCGTGCGAGTCACCCAAAATGATTATGATTAGGTGC-TCCTATGAGAGTCACTCTAATCTTT-
*
54414 GAGAC
64 GGGAC
* * *
54419 TCCCGTACGAGTTACCCGAAAT
1 TCCCGTGCGAGTCACCCAAAAT
54441 AATTGTTCAT
Statistics
Matches: 137, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
67 16 0.12
68 31 0.23
69 87 0.64
70 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (68 bp):
TCCCGTGCGAGTCACCCAAAATGATTATGATTAGGTGCTCCTATGAGAGTCACTCTAATCTTTGG
GAC
Found at i:56357 original size:63 final size:62
Alignment explanation
Indices: 56278--56434 Score: 181
Period size: 63 Copynumber: 2.5 Consensus size: 62
56268 TTCAGTGTGT
* * * * *
56278 ATCGATGCACAGGGAGTGCATCGATGCACCCATTAAAATGGAAACATCGAATGCGATTGGTGC
1 ATCGATGCATAAGGAGTGCATCGATGCACCC-CTAAAATAGAAACATCGAATGCGATTGATGC
* * * *
56341 ATCGATGCATAAGGAGTACATCGATGCATCCCCTAAAATATAAACATCGAATGGGATTTATGC
1 ATCGATGCATAAGGAGTGCATCGATGCA-CCCCTAAAATAGAAACATCGAATGCGATTGATGC
* *
56404 ACCGATGCAT-AGATAGTGCATCGATGCACCC
1 ATCGATGCATAAG-GAGTGCATCGATGCACCC
56435 GTCTAGGGAT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
62 5 0.06
63 72 0.90
64 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (62 bp):
ATCGATGCATAAGGAGTGCATCGATGCACCCCTAAAATAGAAACATCGAATGCGATTGATGC
Found at i:58691 original size:903 final size:903
Alignment explanation
Indices: 56946--58743 Score: 3587
Period size: 903 Copynumber: 2.0 Consensus size: 903
56936 GTATATGTGA
56946 AATGATATAAGTGAAAATGCCCATGTTATGTGTAAAGAGAGCTAGAGGTATAGTTGGCATGCCAA
1 AATGATATAAGTGAAAATGCCCATGTTATGTGTAAAGAGAGCTAGAGGTATAGTTGGCATGCCAA
57011 GAGTCGAGGGTTCTACGTGGTTCTTCGGGACATATATGTATTCTTTGAAACATTTACAGGGTCTT
66 GAGTCGAGGGTTCTACGTGGTTCTTCGGGACATATATGTATTCTTTGAAACATTTACAGGGTCTT
57076 GTGAGACACATATGTGATCCATTGAAATATGTATATGGTTCTTAAAGAGTGGTCATTCGGGACAA
131 GTGAGACACATATGTGATCCATTGAAATATGTATATGGTTCTTAAAGAGTGGTCATTCGGGACAA
57141 ATACAATACATAGGTCCTTCGGGACAAAATTCATAGCCCCTAGTGGGACCCCATACGAGCTGTGG
196 ATACAATACATAGGTCCTTCGGGACAAAATTCATAGCCCCTAGTGGGACCCCATACGAGCTGTGG
57206 TGACAGCATAGTGCACAACCTCAATAGACTCACATATCTATAGTTCTCACAGATGTACATGGGCT
261 TGACAGCATAGTGCACAACCTCAATAGACTCACATATCTATAGTTCTCACAGATGTACATGGGCT
57271 AACAAAGAGATAATAATAAACATAGATATTACGTGTAAAGTATATGCTTTTGTGATATGAATTGT
326 AACAAAGAGATAATAATAAACATAGATATTACGTGTAAAGTATATGCTTTTGTGATATGAATTGT
57336 ATTATATGATTGATAAGATGATGTGTATATATGTACATTTGATTACATGAAATGCTATATTGTTT
391 ATTATATGATTGATAAGATGATGTGTATATATGTACATTTGATTACATGAAATGCTATATTGTTT
57401 TGTGTGATATCATGATATGATATGTTCATGCATGATTAAGTAGTTAAAGTTACTTTAATGTGTTT
456 TGTGTGATATCATGATATGATATGTTCATGCATGATTAAGTAGTTAAAGTTACTTTAATGTGTTT
57466 AATGCCTCACTAAGTCATAGACTTAGCGTGTGAGTGTTTCACATGTAGGTTCTGGAAAGCAAGAA
521 AATGCCTCACTAAGTCATAGACTTAGCGTGTGAGTGTTTCACATGTAGGTTCTGGAAAGCAAGAA
57531 GAGAAGTTTAGAGGAGCAAGACAGGTCAACATTTTCCTTACAATGTTTCAGATCGAAAAATAAAT
586 GAGAAGTTTAGAGGAGCAAGACAGGTCAACATTTTCCTTACAATGTTTCAGATCGAAAAATAAAT
57596 AATTTAAATGTGTTTGGTTAATCTGAACATAGTTGGCATGTACTAACTGATTGAGCTGAATATGC
651 AATTTAAATGTGTTTGGTTAATCTGAACATAGTTGGCATGTACTAACTGATTGAGCTGAATATGC
57661 TCTGATCGAATTTGGTTATTTTAGTCAATGTGACACCCCAGACTCGTATTCGGGTCGGATACGGG
716 TCTGATCGAATTTGGTTATTTTAGTCAATGTGACACCCCAGACTCGTATTCGGGTCGGATACGGG
57726 TTGAGGGTGTTACACATCTGATAAAAAAGTATAATGAATCTATTTAATCACAATCATTAGCAAGT
781 TTGAGGGTGTTACACATCTGATAAAAAAGTATAATGAATCTATTTAATCACAATCATTAGCAAGT
57791 ATCCTTGTGATACTCACTCTCTATGTTATGGTAGACATCATGGTGCAGCTAGAGGTAT
846 ATCCTTGTGATACTCACTCTCTATGTTATGGTAGACATCATGGTGCAGCTAGAGGTAT
57849 AATGATATAAGTGAAAATGCCCATGTTATGTGTAAAGAGAGCTAGAGGTATAGTTGGCATGCCAA
1 AATGATATAAGTGAAAATGCCCATGTTATGTGTAAAGAGAGCTAGAGGTATAGTTGGCATGCCAA
57914 GAGTCGAGGGTTCTACGTGGTTCTTCGGGACATATATGTATTCTTTGAAACATTTACAGGGTCTT
66 GAGTCGAGGGTTCTACGTGGTTCTTCGGGACATATATGTATTCTTTGAAACATTTACAGGGTCTT
57979 GTGAGACACATATGTGATCCATTGAAATATGTATATGGTTCTTAAAGAGTGGTCATTCGGGACAA
131 GTGAGACACATATGTGATCCATTGAAATATGTATATGGTTCTTAAAGAGTGGTCATTCGGGACAA
58044 ATACAATACATAGGTCCTTCGGGACAAAATTCATAGCCCCTAGTGGGACCCCATACGAGCTGTGG
196 ATACAATACATAGGTCCTTCGGGACAAAATTCATAGCCCCTAGTGGGACCCCATACGAGCTGTGG
58109 TGACAGCATAGTGCACAACCTCAATAGACTCACATATCTATAGTTCTCACAGATGTACATGGGCT
261 TGACAGCATAGTGCACAACCTCAATAGACTCACATATCTATAGTTCTCACAGATGTACATGGGCT
58174 AACAAAGAGATAATAATAAACATAGATATTACGTGTAAAGTATATGCTTTTGTGATATGAATTGT
326 AACAAAGAGATAATAATAAACATAGATATTACGTGTAAAGTATATGCTTTTGTGATATGAATTGT
58239 ATTATATGATTGATAAGATGATGTGTATATATGTACATTTGATTACATGAAATGCTATATTGTTT
391 ATTATATGATTGATAAGATGATGTGTATATATGTACATTTGATTACATGAAATGCTATATTGTTT
58304 TGTGTGATATCATGATATGATATGTTCATGCATGATTAAGTAGTTAAAGTTACTTTAATGTGTTT
456 TGTGTGATATCATGATATGATATGTTCATGCATGATTAAGTAGTTAAAGTTACTTTAATGTGTTT
58369 AATGCCTCACTAAGTCATAGACTTAGCGTGTGAGTGTTTCACATGTAGGTTCTGGAAAGCAAGAA
521 AATGCCTCACTAAGTCATAGACTTAGCGTGTGAGTGTTTCACATGTAGGTTCTGGAAAGCAAGAA
58434 GAGAAGTTTAGAGGAGCAAGACAGGTCAACATTTTCCTTACAATGTTTCAGATCGAAAAATAAAT
586 GAGAAGTTTAGAGGAGCAAGACAGGTCAACATTTTCCTTACAATGTTTCAGATCGAAAAATAAAT
58499 AATTTAAATGTGTTTGGTTAATCTGAACATAGTTGGCATGTACTAACTGATTGAGCTGAATATGC
651 AATTTAAATGTGTTTGGTTAATCTGAACATAGTTGGCATGTACTAACTGATTGAGCTGAATATGC
58564 TCTGATCGAATTTGGTTATTTTAGTCAATGTGACACCCCAGACTCGTATTCGGGTCGGATACGGG
716 TCTGATCGAATTTGGTTATTTTAGTCAATGTGACACCCCAGACTCGTATTCGGGTCGGATACGGG
*
58629 TTGAGGGTGTTACACATCTGATAAAAAAGTATAATGAATCTATTTAATCTCAATCATTAGCAAGT
781 TTGAGGGTGTTACACATCTGATAAAAAAGTATAATGAATCTATTTAATCACAATCATTAGCAAGT
58694 ATCCTTGTGATACTCACTCTCTATGTTATGGTAGACATCATGGTGCAGCT
846 ATCCTTGTGATACTCACTCTCTATGTTATGGTAGACATCATGGTGCAGCT
58744 GACAAATATC
Statistics
Matches: 894, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
903 894 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (903 bp):
AATGATATAAGTGAAAATGCCCATGTTATGTGTAAAGAGAGCTAGAGGTATAGTTGGCATGCCAA
GAGTCGAGGGTTCTACGTGGTTCTTCGGGACATATATGTATTCTTTGAAACATTTACAGGGTCTT
GTGAGACACATATGTGATCCATTGAAATATGTATATGGTTCTTAAAGAGTGGTCATTCGGGACAA
ATACAATACATAGGTCCTTCGGGACAAAATTCATAGCCCCTAGTGGGACCCCATACGAGCTGTGG
TGACAGCATAGTGCACAACCTCAATAGACTCACATATCTATAGTTCTCACAGATGTACATGGGCT
AACAAAGAGATAATAATAAACATAGATATTACGTGTAAAGTATATGCTTTTGTGATATGAATTGT
ATTATATGATTGATAAGATGATGTGTATATATGTACATTTGATTACATGAAATGCTATATTGTTT
TGTGTGATATCATGATATGATATGTTCATGCATGATTAAGTAGTTAAAGTTACTTTAATGTGTTT
AATGCCTCACTAAGTCATAGACTTAGCGTGTGAGTGTTTCACATGTAGGTTCTGGAAAGCAAGAA
GAGAAGTTTAGAGGAGCAAGACAGGTCAACATTTTCCTTACAATGTTTCAGATCGAAAAATAAAT
AATTTAAATGTGTTTGGTTAATCTGAACATAGTTGGCATGTACTAACTGATTGAGCTGAATATGC
TCTGATCGAATTTGGTTATTTTAGTCAATGTGACACCCCAGACTCGTATTCGGGTCGGATACGGG
TTGAGGGTGTTACACATCTGATAAAAAAGTATAATGAATCTATTTAATCACAATCATTAGCAAGT
ATCCTTGTGATACTCACTCTCTATGTTATGGTAGACATCATGGTGCAGCTAGAGGTAT
Found at i:59213 original size:20 final size:20
Alignment explanation
Indices: 59190--59229 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59180 TTGATCTCTT
*
59190 AGTATCAATACTTTGCCTTA
1 AGTATCAATACTTTACCTTA
*
59210 AGTATCGATACTTTACCTTA
1 AGTATCAATACTTTACCTTA
59230 TTATTTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
AGTATCAATACTTTACCTTA
Found at i:59511 original size:20 final size:20
Alignment explanation
Indices: 59486--59523 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59476 ACACTTCTTG
*
59486 AAGAACAATATCGGTACTGT
1 AAGAACAATATCGATACTGT
*
59506 AAGAACATTATCGATACT
1 AAGAACAATATCGATACT
59524 CCTGCTCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
AAGAACAATATCGATACTGT
Found at i:64789 original size:35 final size:35
Alignment explanation
Indices: 64748--64822 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
64738 TTCATGTTCA
*
64748 AAATTCCAAAACACTTCAATTACATTCTAAACTCC
1 AAATTCCAAAACACTTCAAATACATTCTAAACTCC
* * *
64783 AAATTCCAAAATACTTTAAATACATTCTAAACTCT
1 AAATTCCAAAACACTTCAAATACATTCTAAACTCC
64818 AAATT
1 AAATT
64823 GAAGTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAAATACATTCTAAACTCC
Found at i:67216 original size:34 final size:32
Alignment explanation
Indices: 67136--67224 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 32
67126 TTAGTATTTT
* * *
67136 TTTAAATAGTTATTATTTTTTATATTAATATA
1 TTTATATAATTATTATTTTTTATATAAATATA
* *
67168 TTTATGTAAATATTATTTTATTAT-TAAAATAATA
1 TTTATATAATTATTATTTT-TTATAT-AAAT-ATA
67202 TTTATATAATTATTATTTATTTA
1 TTTATATAATTATTATTT-TTTA
67225 GAATTATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
32 16 0.35
33 7 0.15
34 22 0.48
35 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (32 bp):
TTTATATAATTATTATTTTTTATATAAATATA
Found at i:68973 original size:21 final size:21
Alignment explanation
Indices: 68943--68990 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
68933 GCAGGGGTAC
* *
68943 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
68964 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
68985 ATGCCA
1 ATGCCA
68991 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:69020 original size:21 final size:21
Alignment explanation
Indices: 68994--69087 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
68984 TATGCCATCT
* *
68994 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
69015 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
69036 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
69057 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
69078 CCGCAGGGTT
1 CCGCAGGGTT
69088 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:69659 original size:33 final size:34
Alignment explanation
Indices: 69610--69712 Score: 138
Period size: 33 Copynumber: 3.1 Consensus size: 34
69600 AAATGTTTTT
*
69610 AAAATACAAATTATATTATTCGAAATTTAAA-TA
1 AAAATAAAAATTATATTATTCGAAATTTAAATTA
* *
69643 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAATTA
* *
69676 AAAATATAAATTATAGTATTCGAAATTTAACATTA
1 AAAATAAAAATTATATTATTCGAAATTTAA-ATTA
69711 AA
1 AA
69713 TTTAAACTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
32 9 0.15
33 38 0.63
34 8 0.13
35 5 0.08
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAATTA
Found at i:70319 original size:126 final size:126
Alignment explanation
Indices: 70093--70697 Score: 1147
Period size: 126 Copynumber: 4.8 Consensus size: 126
70083 TTTAAGTTAT
* *
70093 TCCCCGAGGGACATGAGTGACATAATAGGCCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
70158 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTATTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
*
70219 ACCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
70284 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
70345 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
70410 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTATTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
70471 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
70536 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
70597 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
70662 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
70698 CCGATTATAG
Statistics
Matches: 469, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 469 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (126 bp):
TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:73797 original size:25 final size:25
Alignment explanation
Indices: 73769--73817 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
73759 TTTTTTAACT
73769 TTTAAATACATA-AATATTTAATATA
1 TTTAAATA-ATATAATATTTAATATA
**
73794 TTTATTTAATATAATATTTAATAT
1 TTTAAATAATATAATATTTAATAT
73818 TATTAGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTAAATAATATAATATTTAATATA
Found at i:73801 original size:13 final size:12
Alignment explanation
Indices: 73781--73817 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
73771 TAAATACATA
73781 AATATTTAATAT
1 AATATTTAATAT
*
73793 ATTTATTTAATAT
1 A-ATATTTAATAT
73806 AATATTTAATAT
1 AATATTTAATAT
73818 TATTAGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AATATTTAATAT
Found at i:73869 original size:23 final size:23
Alignment explanation
Indices: 73831--73888 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
73821 TAGTTATAAT
73831 TTTTACAT--TATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
73852 TTTTACATAATATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
73875 TTTTACATAATATA
1 TTTTACATAATATA
73889 TTATTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.23
23 27 0.77
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (23 bp):
TTTTACATAATATAATCGAAACA
Found at i:74313 original size:75 final size:75
Alignment explanation
Indices: 74219--74408 Score: 233
Period size: 75 Copynumber: 2.5 Consensus size: 75
74209 TATAAATAAA
* * *
74219 GTCAAATATCAATACTCAAACCATAATATTAAGTTTAGAATAGT-AAAATCAATAAACAAATCAC
1 GTCAAATTTCAAGACTCAAACCATAATATTAAGTTTAGAATAATCAAAA-CAATAAACAAATCAC
74283 AATATTAAAAT
65 AATATTAAAAT
* * * * * *
74294 GTCAAATTTCAAGATTCAAACTATAATATTAACTCTT-GAATAATCAAAACCATAATCAAATCAT
1 GTCAAATTTCAAGACTCAAACCATAATATTAAGT-TTAGAATAATCAAAACAATAAACAAATCAC
*
74358 AATATTAAAGT
65 AATATTAAAAT
*
74369 GTCAAATCTT-AAGACTCAAACCATAATATTAAGTGTAGAA
1 GTCAAAT-TTCAAGACTCAAACCATAATATTAAGTTTAGAA
74409 AAATATTAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
74 1 0.01
75 88 0.91
76 8 0.08
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.29
Consensus pattern (75 bp):
GTCAAATTTCAAGACTCAAACCATAATATTAAGTTTAGAATAATCAAAACAATAAACAAATCACA
ATATTAAAAT
Found at i:74723 original size:20 final size:21
Alignment explanation
Indices: 74698--74749 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
74688 TTTTCCCAAT
*
74698 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
74718 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
74739 TCGCAATGCGA
1 TCGCAATGCGA
74750 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:74828 original size:20 final size:20
Alignment explanation
Indices: 74780--74832 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
74770 TAATACAAAA
* *
74780 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
74800 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
74820 TCGCAACGCGATT
1 TCGCAACGCGATT
74833 TACATAGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:75422 original size:19 final size:19
Alignment explanation
Indices: 75386--75427 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
75376 ACGAGAGAAT
*
75386 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
75405 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
75424 CGCA
1 CGCA
75428 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:75445 original size:19 final size:19
Alignment explanation
Indices: 75423--75553 Score: 182
Period size: 19 Copynumber: 7.1 Consensus size: 19
75413 GAAACCAAAA
*
75423 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
75442 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
75456 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
75475 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
75494 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
75513 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
75532 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
75552 TC
1 TC
75554 AACCAAAAGA
Statistics
Matches: 100, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
14 10 0.10
16 3 0.03
17 3 0.03
19 67 0.67
20 17 0.17
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:75470 original size:33 final size:33
Alignment explanation
Indices: 75423--75528 Score: 149
Period size: 33 Copynumber: 3.1 Consensus size: 33
75413 GAAACCAAAA
*
75423 TCGCATTGCGATTTTCATTTCGCGTTGCGATTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
*
75456 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGA--TTC
75491 ATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
1 ---TCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
75527 TC
1 TC
75529 ATTATCTCGT
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
33 30 0.46
35 3 0.05
36 3 0.05
38 29 0.45
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
Found at i:77102 original size:63 final size:63
Alignment explanation
Indices: 77003--77133 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
76993 GTTACGTGAT
77003 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
77066 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
77129 GAGGT
1 GAGGT
77134 GTCTACTTTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
Found at i:77780 original size:21 final size:21
Alignment explanation
Indices: 77756--77822 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
77746 TCATTCCTCG
77756 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
77777 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
77798 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
77819 AGAG
1 AGAG
77823 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:77780 original size:42 final size:42
Alignment explanation
Indices: 77704--77822 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
77694 GACTCGCCTG
* * * * * * *
77704 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
77746 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
77788 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
77823 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:79206 original size:13 final size:14
Alignment explanation
Indices: 79175--79209 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
79165 ATTGTTTAAT
79175 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
79189 TGATTTGTAAAA-G
1 TGATTTGTAAAAGG
79202 TGATTTGT
1 TGATTTGT
79210 TTAATTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:79353 original size:14 final size:14
Alignment explanation
Indices: 79334--79389 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
79324 GCGAAATGAA
79334 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
79348 AATCGCAACGCGAAATG
1 AATCGCAA--CGAGA-G
79365 AAATCGCAACGAGAG
1 -AATCGCAACGAGAG
*
79380 AAACGCAACG
1 AATCGCAACG
79390 CGAAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 17 0.49
15 1 0.03
16 8 0.23
17 1 0.03
18 8 0.23
ACGTcount: A:0.45, C:0.23, G:0.25, T:0.07
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:79361 original size:33 final size:33
Alignment explanation
Indices: 79316--79404 Score: 135
Period size: 32 Copynumber: 2.7 Consensus size: 33
79306 AAAAAGTACT
*
79316 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
79349 ATCGCAACGCGAAATG-AAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
79381 AACGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
79405 GTTGCGATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 30 0.59
33 21 0.41
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:79422 original size:19 final size:19
Alignment explanation
Indices: 79400--79530 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
79390 CGAAATTAAA
*
79400 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
79419 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
79435 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
79452 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
*
79466 TTAGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
79485 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
79501 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
79518 TTCGCATTGCGAT
1 TTCGCATTGCGAT
79531 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 24 0.28
16 13 0.15
17 13 0.15
19 36 0.42
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:79446 original size:33 final size:32
Alignment explanation
Indices: 79404--79530 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
79394 ATTAAATTCG
79404 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
79437 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
79470 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
79503 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
79531 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:79476 original size:66 final size:66
Alignment explanation
Indices: 79397--79529 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
79387 ACGCGAAATT
* *
79397 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
79462 G
66 G
*
79463 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
79528 G
66 G
79529 A
1 A
79530 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:81998 original size:24 final size:24
Alignment explanation
Indices: 81971--82017 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
81961 CAAAATCCGT
*
81971 GTATTGACCAATATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
81995 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
82018 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:82026 original size:24 final size:24
Alignment explanation
Indices: 81975--82026 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
81965 ATCCGTGTAT
* ** *
81975 TGACCAATATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
81999 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
82023 TGAC
1 TGAC
82027 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:83075 original size:20 final size:20
Alignment explanation
Indices: 83050--83107 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
83040 ATTCATTTGA
83050 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
83070 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
83090 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
83108 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:83190 original size:32 final size:33
Alignment explanation
Indices: 83126--83201 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 33
83116 GAAATGAAAA
***
83126 TCGCATTGCGA-TTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
83158 TCGCATTGCGATTTTCTCG-TGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
* *
83190 TTGCGTTGCGAT
1 TCGCATTGCGAT
83202 AGTCTGTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
32 31 0.82
33 7 0.18
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Done.