Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002781.1 Hibiscus syriacus cultivar Beakdansim tig00005735_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: 72942
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:2409 original size:131 final size:131
Alignment explanation
Indices: 2065--2555 Score: 587
Period size: 131 Copynumber: 3.8 Consensus size: 131
2055 TTCTAATAGA
* * ** * * **
2065 GAAAATGATAATATCTAATTATTTCTGATAGAGAATAAATGACCTCTCATGCCTTAAAGTTGTCA
1 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGTCA
** *
2130 TTTATTACTCCAATCGAAATG-A-AGATATCACTATTTTGTCTTAAAATTCAATATCGATTCAAG
66 TTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATCGATTCAAG
2193 T
131 T
* * *
2194 G-AAACAAT-ATATCTAATGATTTCAAATCGAGAAT-AATGACCTCTTATACCTTAAAGCAGTCA
1 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGTCA
* * * * * *
2256 TTTATTGCTCTAATCAAAATGAAGAGATATCATTATACCGTCTTAAAAATCAATATCAATTCAAG
66 TTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATCGATTCAAG
2321 T
131 T
* * * ** *
2322 GAAAACGATAATATCTAATGATTTCCAATTGAGAATAAATTACATAGCATACCTTAAAGTAGTCA
1 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGTCA
* * * * *
2387 TTTATTTCTCTAATCGAAATGAAGAGATAACACTATTCCGTCTTAAAAATCAATATTGATTCGAG
66 TTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATCGATTCAAG
*
2452 A
131 T
* * * * *
2453 GAAAACGATAATATCAAATTATTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAGCAATCA
1 GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGTCA
* * *
2518 TTTATTACTCCAATTGAAATGAAAAGATATTACTATTC
66 TTTATTACTCCAATCGAAATGAAGAGATATCACTATTC
2556 ATAATATCAA
Statistics
Matches: 303, Mismatches: 54, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
126 42 0.14
127 23 0.08
128 42 0.14
129 7 0.02
130 24 0.08
131 165 0.54
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (131 bp):
GAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAGTCA
TTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATCGATTCAAG
T
Found at i:3186 original size:28 final size:27
Alignment explanation
Indices: 3153--3222 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 27
3143 ACAAAGAATA
*
3153 AAAATAAATAAAATGTG-GGGACTAAATT
1 AAAATAAATAAAAT-TGAGGG-CCAAATT
*
3181 AAAATAAACTAAAATTGCATGGCCAAATT
1 AAAATAAA-TAAAATTG-AGGGCCAAATT
3210 AAAATAAATAAAA
1 AAAATAAATAAAA
3223 AAGTAGATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 15 0.41
29 20 0.54
30 2 0.05
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.23
Consensus pattern (27 bp):
AAAATAAATAAAATTGAGGGCCAAATT
Found at i:4686 original size:3 final size:3
Alignment explanation
Indices: 4673--4703 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
4663 ATAATAGTCG
4673 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
4704 AGTTGGGACG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10530 original size:18 final size:19
Alignment explanation
Indices: 10497--10533 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
10487 AGTTTTAAGG
10497 ACTTTAAATTATTTTTGAAA
1 ACTTTAAA-TATTTTTGAAA
10517 ACTTTAAA-ATTTTTGAA
1 ACTTTAAATATTTTTGAA
10534 TGAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
ACTTTAAATATTTTTGAAA
Found at i:15755 original size:19 final size:19
Alignment explanation
Indices: 15731--15777 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
15721 ATGATGACCC
15731 TTAATAACTTTCATAAGCT
1 TTAATAACTTTCATAAGCT
15750 TTAATAACTTTCATAAGCT
1 TTAATAACTTTCATAAGCT
15769 TTAATAACT
1 TTAATAACT
15778 AACTAGGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (19 bp):
TTAATAACTTTCATAAGCT
Found at i:15760 original size:9 final size:9
Alignment explanation
Indices: 15731--15777 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
15721 ATGATGACCC
15731 TTAATAACT
1 TTAATAACT
*
15740 TTCATAAGCT
1 TTAATAA-CT
15750 TTAATAACT
1 TTAATAACT
*
15759 TTCATAAGCT
1 TTAATAA-CT
15769 TTAATAACT
1 TTAATAACT
15778 AACTAGGTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.43
Consensus pattern (9 bp):
TTAATAACT
Found at i:31063 original size:45 final size:42
Alignment explanation
Indices: 30966--31072 Score: 106
Period size: 45 Copynumber: 2.4 Consensus size: 42
30956 CGGTGCACTA
* * *
30966 AGAGTGCATCGATTCATGAAGTGCATTCGATGTTTGAAAAAT
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAAT
* *
31008 AGCCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAAT
1 AG---AGTGCATCGATGCATCAAATGCATTCGATGTTTGAA--AAAT
*
31055 CAGAGTGCATTGATGCAT
1 -AGAGTGCATCGATGCAT
31073 GGAGAGTGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.04
45 44 0.85
47 4 0.08
48 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (42 bp):
AGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAAT
Found at i:31080 original size:19 final size:19
Alignment explanation
Indices: 31056--31106 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
31046 TAATTAAATC
31056 AGAGTGCATTGATGCATGG
1 AGAGTGCATTGATGCATGG
* *
31075 AGAGTGCATCGGTGCATGG
1 AGAGTGCATTGATGCATGG
31094 A-A-TGCATTCGATG
1 AGAGTGCATT-GATG
31107 TTTCAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 18 0.67
ACGTcount: A:0.25, C:0.14, G:0.35, T:0.25
Consensus pattern (19 bp):
AGAGTGCATTGATGCATGG
Found at i:31144 original size:21 final size:21
Alignment explanation
Indices: 31120--31159 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
31110 CAATTTATTC
31120 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
31141 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
31160 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:33783 original size:24 final size:23
Alignment explanation
Indices: 33712--33791 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
33702 CATGGTCTTG
* *
33712 TGCATCGATACACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
* *
33735 TGCATCGGTG--CA-TCATGCGGA
1 TGCATCGATGCACATTCAAG-GGA
33756 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
33780 TGCATCGATGCA
1 TGCATCGATGCA
33792 TTGTTAAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 10 0.22
24 17 0.37
25 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:33804 original size:44 final size:42
Alignment explanation
Indices: 33689--33811 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 42
33679 AAAACCCAAC
* * *
33689 GGATGCATCGATGCATGGTCTTGTGCATCGATACACATTCAAG
1 GGATGCATCGATGCATTGT-TAGTGCATCGATGCACATTCAAG
* * **
33732 GCATGCATCGGTGCATCATG-CGGATGCATCGATGCACATTCAAAG
1 GGATGCATCGATGCAT--TGTTAG-TGCATCGATGCACATTC-AAG
*
33777 GGATGCATCGATGCATTGTTAAGTGCATCGGTGCA
1 GGATGCATCGATGCATTGTT-AGTGCATCGATGCA
33812 TTAAGCACAA
Statistics
Matches: 63, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
43 17 0.27
44 27 0.43
45 19 0.30
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (42 bp):
GGATGCATCGATGCATTGTTAGTGCATCGATGCACATTCAAG
Found at i:39295 original size:64 final size:65
Alignment explanation
Indices: 39227--39390 Score: 197
Period size: 64 Copynumber: 2.5 Consensus size: 65
39217 AAATAGCTTG
* *
39227 GTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCA-GA
1 GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCATGA
* ** ** * * *
39291 GTGCACCGATGCATGGAGAGTGCATCGGTGCATGGAATTCATTCGATGTTTCAATTTATTCATTG
1 GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCA-TG
39356 A
65 A
39357 -TGCATCGATGCATGGTATTGATGCATCGGTGCAT
1 GTGCATCGATGCATGG-ATTG-TGCATCGGTGCAT
39391 GCCTTTGAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 52 0.63
65 14 0.17
66 4 0.05
67 13 0.16
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCATGA
Found at i:39312 original size:19 final size:19
Alignment explanation
Indices: 39288--39326 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
39278 TAATTAAATC
39288 AGAGTGCACCGATGCATGG
1 AGAGTGCACCGATGCATGG
* *
39307 AGAGTGCATCGGTGCATGG
1 AGAGTGCACCGATGCATGG
39326 A
1 A
39327 ATTCATTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.38, T:0.18
Consensus pattern (19 bp):
AGAGTGCACCGATGCATGG
Found at i:39376 original size:21 final size:21
Alignment explanation
Indices: 39352--39391 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
39342 CAATTTATTC
39352 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
39373 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
39392 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:40399 original size:36 final size:36
Alignment explanation
Indices: 40354--40426 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
40344 AGATGCAAAA
40354 TGTGTATGTCTCGACTAATTTAATAAGAATATTTTG
1 TGTGTATGTCTCGACTAATTTAATAAGAATATTTTG
* *
40390 TGTGTATGTCTCGACTAATTTAATAGGAATGTTTTG
1 TGTGTATGTCTCGACTAATTTAATAAGAATATTTTG
40426 T
1 T
40427 ATAAGTGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.45
Consensus pattern (36 bp):
TGTGTATGTCTCGACTAATTTAATAAGAATATTTTG
Found at i:40677 original size:21 final size:21
Alignment explanation
Indices: 40630--40685 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
40620 CATCATCAGC
*
40630 CATCTTGAATTGTCATATTAA
1 CATCGTGAATTGTCATATTAA
* * *
40651 CGTCGTGAATTGTCATGTTAG
1 CATCGTGAATTGTCATATTAA
*
40672 CATCGT-AATAGTCA
1 CATCGTGAATTGTCA
40686 AGGTTTGATT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (21 bp):
CATCGTGAATTGTCATATTAA
Found at i:47578 original size:9 final size:8
Alignment explanation
Indices: 47561--47589 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47551 GTCCCTATAG
47561 TTTT-ATT
1 TTTTAATT
47568 TTTTAATT
1 TTTTAATT
47576 TTTTAATT
1 TTTTAATT
47584 TTTTAA
1 TTTTAA
47590 AGCATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTAATT
Found at i:47778 original size:49 final size:49
Alignment explanation
Indices: 47706--47817 Score: 215
Period size: 49 Copynumber: 2.3 Consensus size: 49
47696 TGCGCTTCAT
*
47706 GATCCGTGCCTTCCGTATATATCAGAGGTTCAGTGAAGTCGAGGATGAC
1 GATCCGCGCCTTCCGTATATATCAGAGGTTCAGTGAAGTCGAGGATGAC
47755 GATCCGCGCCTTCCGTATATATCAGAGGTTCAGTGAAGTCGAGGATGAC
1 GATCCGCGCCTTCCGTATATATCAGAGGTTCAGTGAAGTCGAGGATGAC
47804 GATCCGCGCCTTCC
1 GATCCGCGCCTTCC
47818 CCTACATGGT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (49 bp):
GATCCGCGCCTTCCGTATATATCAGAGGTTCAGTGAAGTCGAGGATGAC
Found at i:48457 original size:56 final size:56
Alignment explanation
Indices: 48379--48532 Score: 195
Period size: 56 Copynumber: 2.8 Consensus size: 56
48369 ATCAGATCGT
* * *
48379 TTGATTTTGATTCGGGTTAACCTTTAGATTTTTGGATCAATTTTGGTCAGC-ATTGA
1 TTGATTATGGTTCGGGTTAACCTTTAGATTTTTGGATCAATTTGGGTCA-CTATTGA
* * * * *
48435 TTTATT-TCGGTTCGGGTCAACCTTTAGATGTTTAGATCAATTTGGGTTACTATTGA
1 TTGATTAT-GGTTCGGGTTAACCTTTAGATTTTTGGATCAATTTGGGTCACTATTGA
*
48491 TTGATTATGGTTCGGGTTAACCTTTAGATTTTTGGGTCAATT
1 TTGATTATGGTTCGGGTTAACCTTTAGATTTTTGGATCAATT
48533 ATCGTCGCTC
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
55 2 0.02
56 80 0.96
57 1 0.01
ACGTcount: A:0.21, C:0.11, G:0.22, T:0.46
Consensus pattern (56 bp):
TTGATTATGGTTCGGGTTAACCTTTAGATTTTTGGATCAATTTGGGTCACTATTGA
Found at i:49065 original size:16 final size:16
Alignment explanation
Indices: 49035--49064 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49025 CTTTTATCAT
49035 TTTTGACCTCTTTTTC
1 TTTTGACCTCTTTTTC
49051 TTTTG-CCTCTTTTT
1 TTTTGACCTCTTTTT
49065 TTTGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.03, C:0.23, G:0.07, T:0.67
Consensus pattern (16 bp):
TTTTGACCTCTTTTTC
Found at i:49600 original size:26 final size:26
Alignment explanation
Indices: 49564--49615 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
49554 AGTAATTCCC
49564 ATCAAAGTCATCGTTACCGATTATAT
1 ATCAAAGTCATCGTTACCGATTATAT
49590 ATCAAAGTCATCGTTACCGATTATAT
1 ATCAAAGTCATCGTTACCGATTATAT
49616 GTGTTCATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (26 bp):
ATCAAAGTCATCGTTACCGATTATAT
Found at i:50648 original size:18 final size:19
Alignment explanation
Indices: 50625--50667 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
50615 AACGTCTTTT
50625 AAAAATAATTTTAAGA-AA
1 AAAAATAATTTTAAGACAA
* *
50643 AAAAATCATTTTTAGACAA
1 AAAAATAATTTTAAGACAA
50662 AAAAAT
1 AAAAAT
50668 TGGTTTGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAAATAATTTTAAGACAA
Found at i:51495 original size:59 final size:57
Alignment explanation
Indices: 51423--51609 Score: 177
Period size: 59 Copynumber: 3.2 Consensus size: 57
51413 ATTCGAAAAT
* *
51423 TTAAGGGACCAAAATA-AAAATCACATAAACATAAAGGACTAAATTGCAAAAATAGAAAG
1 TTAAAGGACCAAAATACAAAA-CACA-AAACTTAAAGGACTAAATTG-AAAAATAGAAAG
51482 TTAAAGGACCAAAAATAGCAAAACA-AAAACTTAAAGGACTAAATTAGATAAAA-A-AAAG
1 TTAAAGGACC-AAAATA-CAAAACACAAAACTTAAAGGACTAAATT-GA-AAAATAGAAAG
* * *
51540 TTAAAGGACTAAAATAGCAAAA-ACAAAAACTTAAAGGACTAAAATAGTAAAAAATAGAAAC
1 TTAAAGGACCAAAATA-CAAAACAC-AAAACTTAAAGGACT-AAAT--TGAAAAATAGAAAG
*
51601 TTAAGGGAC
1 TTAAAGGAC
51610 TAAATAGAAA
Statistics
Matches: 110, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
56 1 0.01
57 12 0.11
58 28 0.25
59 37 0.34
60 14 0.13
61 14 0.13
62 4 0.04
ACGTcount: A:0.59, C:0.11, G:0.13, T:0.17
Consensus pattern (57 bp):
TTAAAGGACCAAAATACAAAACACAAAACTTAAAGGACTAAATTGAAAAATAGAAAG
Found at i:51518 original size:30 final size:29
Alignment explanation
Indices: 51449--51672 Score: 176
Period size: 29 Copynumber: 7.6 Consensus size: 29
51439 AAAATCACAT
* *
51449 AAACATAAAGGACT-AAATTGCAAAA-ATA
1 AAACTTAAAGGACTAAAATAGCAAAACA-A
* *
51477 GAAAGTTAAAGGACCAAAAATAGCAAAACAA
1 -AAACTTAAAGGA-CTAAAATAGCAAAACAA
*
51508 AAACTTAAAGGACTAAATTAG-ATAAA-AA
1 AAACTTAAAGGACTAAAATAGCA-AAACAA
*
51536 AAAGTTAAAGGACTAAAATAGCAAAAACAA
1 AAACTTAAAGGACTAAAATAGC-AAAACAA
* *
51566 AAACTTAAAGGACTAAAATAGTAAAAAATA
1 AAACTTAAAGGACTAAAATAGCAAAACA-A
* *
51596 GAAACTTAAGGGACT-AAATAG-AAAATATA
1 -AAACTTAAAGGACTAAAATAGCAAAACA-A
* * *
51625 GACATTTAAAGGACTAAAATAACCAAAAACAA
1 -AAACTTAAAGGACTAAAAT-AGC-AAAACAA
51657 AAACTT-AA-GACTAAAA
1 AAACTTAAAGGACTAAAA
51673 AGGTATTAAC
Statistics
Matches: 161, Mismatches: 21, Indels: 26
0.77 0.10 0.12
Matches are distributed among these distances:
28 22 0.14
29 55 0.34
30 48 0.30
31 29 0.18
32 2 0.01
33 5 0.03
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.17
Consensus pattern (29 bp):
AAACTTAAAGGACTAAAATAGCAAAACAA
Found at i:51563 original size:58 final size:58
Alignment explanation
Indices: 51449--51593 Score: 199
Period size: 58 Copynumber: 2.5 Consensus size: 58
51439 AAAATCACAT
*
51449 AAACATAAAGGACTAAATT-GCA-AAAATAGAAAGTTAAAGGACCAAAAATAGCAAAACAA
1 AAACTTAAAGGACTAAATTAG-ATAAAA-A-AAAGTTAAAGGACCAAAAATAGCAAAACAA
*
51508 AAACTTAAAGGACTAAATTAGATAAAAAAAAGTTAAAGGA-CTAAAATAGCAAAAACAA
1 AAACTTAAAGGACTAAATTAGATAAAAAAAAGTTAAAGGACCAAAAATAGC-AAAACAA
*
51566 AAACTTAAAGGACTAAAATAG-TAAAAAA
1 AAACTTAAAGGACTAAATTAGATAAAAAA
51594 TAGAAACTTA
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
57 16 0.20
58 39 0.49
59 20 0.25
60 5 0.06
ACGTcount: A:0.62, C:0.10, G:0.12, T:0.16
Consensus pattern (58 bp):
AAACTTAAAGGACTAAATTAGATAAAAAAAAGTTAAAGGACCAAAAATAGCAAAACAA
Found at i:56309 original size:17 final size:17
Alignment explanation
Indices: 56287--56327 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
56277 GTATTATTAA
56287 AAGTATAAATGTTAGAG
1 AAGTATAAATGTTAGAG
56304 AAGTATAAATGTTAGAG
1 AAGTATAAATGTTAGAG
56321 AAGTATA
1 AAGTATA
56328 CTAAAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (17 bp):
AAGTATAAATGTTAGAG
Found at i:56820 original size:162 final size:162
Alignment explanation
Indices: 56552--56905 Score: 507
Period size: 162 Copynumber: 2.2 Consensus size: 162
56542 CCTAATGGGA
*
56552 ACTATGTGTGCAAATTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGTGTGTAC
1 ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGTGTGTAC
* * *
56617 AACTTAAAAAATTCATAAACATATTATGAATTTCGGTATTGGCACTGTGTGTGCAACTTA-AGAA
66 AACTTAAAAAATTCATAAAAATATTATGAATTTCGGTATTGGCACTATGTGTGCAACCTACA-AA
***
56681 ATTCATAACAAGTTTATGAATTTCCATAT-TGGC
130 ATTCATAACAAGTTTATGAACGGCCATATCT-GC
*
56714 ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGTGTGTGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGTGTGTAC
* * *
56779 AACTTAAGAAATTGATAATAAAT-TTATGAATTTCTGTATTGGCACTATGTGTGCAACCTACAAA
66 AACTTAAAAAATTCATAA-AAATATTATGAATTTCGGTATTGGCACTATGTGTGCAACCTACAAA
* *
56843 ATTCATAATATGTTTATGAACGGCCATATCTGC
130 ATTCATAACAAGTTTATGAACGGCCATATCTGC
* ** *
56876 ACTAAGTGTGCAACCCACGAAATTCATAAT
1 ACTATGTGTGCAACTTAAGAAATTCATAAT
56906 GAGATTTTGA
Statistics
Matches: 172, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
162 167 0.97
163 5 0.03
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (162 bp):
ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGTGTGTAC
AACTTAAAAAATTCATAAAAATATTATGAATTTCGGTATTGGCACTATGTGTGCAACCTACAAAA
TTCATAACAAGTTTATGAACGGCCATATCTGC
Found at i:56878 original size:54 final size:54
Alignment explanation
Indices: 56552--56941 Score: 430
Period size: 54 Copynumber: 7.2 Consensus size: 54
56542 CCTAATGGGA
* *
56552 ACTATGTGTGCAAATTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGC
* * * **
56606 ACTGTGTGTACAACTTAAAAAATTCATAA-ACA-TATTATGAATTTCGGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATA-AGT-TTATGAATTTCCATATTGGC
* *
56660 ACTGTGTGTGCAACTTAAGAAATTCATAACAAGTTTATGAATTTCCATATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGC
*
56714 ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGC
* * * **
56768 ACTGTGTGTGCAACTTAAGAAATTGATAATAAATTTATGAATTTCTGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGC
* * ***
56822 ACTATGTGTGCAACCTACA-AAATTCATAATATGTTTATGAACGGCCATATCT-GC
1 ACTATGTGTGCAACTTA-AGAAATTCATAATAAGTTTATGAATTTCCATAT-TGGC
* ** * * ** **
56876 ACTAAGTGTGCAACCCACGAAATTCATAATGAGATTT-TGAATGACCATATCAGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATAAG-TTTATGAATTTCCATATTGGC
*
56930 ACTACGTGTGCA
1 ACTATGTGTGCA
56942 CCCCAAAGAA
Statistics
Matches: 292, Mismatches: 35, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.01
54 283 0.97
55 7 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (54 bp):
ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGC
Found at i:59214 original size:17 final size:17
Alignment explanation
Indices: 59194--59226 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59184 TTTAGGGAAG
59194 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
*
59211 TAGTTCATTTATTAAA
1 TAGTTCATTAATTAAA
59227 TCAACTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:60928 original size:14 final size:15
Alignment explanation
Indices: 60909--60937 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
60899 GGAGTGTTTG
60909 GTGAGGTT-TTTTTT
1 GTGAGGTTATTTTTT
60923 GTGAGGTTATTTTTT
1 GTGAGGTTATTTTTT
60938 ATTACTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.00, G:0.28, T:0.62
Consensus pattern (15 bp):
GTGAGGTTATTTTTT
Found at i:66322 original size:43 final size:42
Alignment explanation
Indices: 66263--66590 Score: 279
Period size: 43 Copynumber: 7.7 Consensus size: 42
66253 AAAAATGCCA
* * *
66263 CAATAGGTATTAATATTTAGCGGCGTTTGTGTGACAAACGCCG
1 CAATAGGTGTTGATATTTAGCGGCGTTT-TATGACAAACGCCG
*
66306 CAATAGGTGTTGATATTTAGCGGCGTTTGTGTGACAAACGCCG
1 CAATAGGTGTTGATATTTAGCGGCGTTT-TATGACAAACGCCG
** * * * *
66349 CAATAAATGTTGATATTTAGCGGTGTTTTTTAGACAAACACTG
1 CAATAGGTGTTGATATTTAGCGGCGTTTTAT-GACAAACGCCG
*
66392 CAATAGGTGTTGATA-TTAGCGGCATTTT-TCAGACAAACGCCG
1 CAATAGGTGTTGATATTTAGCGGCGTTTTAT--GACAAACGCCG
* * * *
66434 CAATAGGTATTGATATTTAGCAGTGTTTTATAGACAAACGCTG
1 CAATAGGTGTTGATATTTAGCGGCGTTTTAT-GACAAACGCCG
* * *
66477 CAATAGGT-TATGATGTTTAGCGGCGTTTTTATCTA-AAACACCG
1 CAATAGGTGT-TGATATTTAGCGGCG-TTTTAT-GACAAACGCCG
* * * ***
66520 CAGTAGGTGTTGATGTGTT-GTGGCGTTTTCCCACAAACGCCG
1 CAATAGGTGTTGATAT-TTAGCGGCGTTTTATGACAAACGCCG
* * * *
66562 CAGTAGGTTTTGATGTTTTGCGGCGTTTT
1 CAATAGGTGTTGATATTTAGCGGCGTTTT
66591 TCTCACAAAC
Statistics
Matches: 241, Mismatches: 34, Indels: 21
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.02
42 73 0.30
43 153 0.63
44 11 0.05
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
CAATAGGTGTTGATATTTAGCGGCGTTTTATGACAAACGCCG
Found at i:66454 original size:85 final size:85
Alignment explanation
Indices: 66263--66506 Score: 303
Period size: 85 Copynumber: 2.8 Consensus size: 85
66253 AAAAATGCCA
* * * *
66263 CAATAGGTATTAATATTTAGCGGCGTTTGTGT-GACAAACGCCGCAATAGGTGTTGATATTTAGC
1 CAATAGGTATTGATATTTAGCGGTGTTT-TATAGACAAACGCTGCAATAGGTGTTGATA-TTAGC
* **
66327 GGCGTTTGTGTGACAAACGCCG
64 GGCGTTTTTCAGACAAACGCCG
** * * *
66349 CAATAAATGTTGATATTTAGCGGTGTTTTTTAGACAAACACTGCAATAGGTGTTGATATTAGCGG
1 CAATAGGTATTGATATTTAGCGGTGTTTTATAGACAAACGCTGCAATAGGTGTTGATATTAGCGG
*
66414 CATTTTTCAGACAAACGCCG
66 CGTTTTTCAGACAAACGCCG
* *
66434 CAATAGGTATTGATATTTAGCAGTGTTTTATAGACAAACGCTGCAATAGGT-TATGATGTTTAGC
1 CAATAGGTATTGATATTTAGCGGTGTTTTATAGACAAACGCTGCAATAGGTGT-TGAT-ATTAGC
66498 GGCGTTTTT
64 GGCGTTTTT
66507 ATCTAAAACA
Statistics
Matches: 135, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
84 1 0.01
85 74 0.55
86 60 0.44
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (85 bp):
CAATAGGTATTGATATTTAGCGGTGTTTTATAGACAAACGCTGCAATAGGTGTTGATATTAGCGG
CGTTTTTCAGACAAACGCCG
Found at i:66516 original size:128 final size:129
Alignment explanation
Indices: 66237--66533 Score: 316
Period size: 128 Copynumber: 2.3 Consensus size: 129
66227 GCTAAAGTTC
* * * * * **
66237 GCGGCGTTTTTTA-ACAAAAAATGCCACAATAGGTATTAATATTTAGCGGCGTTTGTGTGACAAA
1 GCGGCGTTTTTTAGAC-AAACA--CCGCAATAGGTGTTGATATTTAGCGGCATTTGTCAGACAAA
* * *
66301 CGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTGTGACAAACGCCGCAATAAATGTTGATATT
63 CGCCGCAATAGGTATTGATATTTAGCAGCGTTTGTATGACAAACGCCGCAATAAATGTTGATATT
66366 TA
128 TA
* * *
66368 GCGGTGTTTTTTAGACAAACACTGCAATAGGTGTTGATA-TTAGCGGCATTTTTCAGACAAACGC
1 GCGGCGTTTTTTAGACAAACACCGCAATAGGTGTTGATATTTAGCGGCATTTGTCAGACAAACGC
* * ** *
66432 CGCAATAGGTATTGATATTTAGCAGTGTTT-TATAGACAAACGCTGCAATAGGT-TATGATGTTT
66 CGCAATAGGTATTGATATTTAGCAGCGTTTGTAT-GACAAACGCCGCAATAAATGT-TGATATTT
66495 A
129 A
** *
66496 GCGGCGTTTTTATCTA-AAACACCGCAGTAGGTGTTGAT
1 GCGGCGTTTTT-TAGACAAACACCGCAATAGGTGTTGAT
66534 GTGTTGTGGC
Statistics
Matches: 139, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
127 3 0.02
128 102 0.73
129 16 0.12
131 16 0.12
132 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (129 bp):
GCGGCGTTTTTTAGACAAACACCGCAATAGGTGTTGATATTTAGCGGCATTTGTCAGACAAACGC
CGCAATAGGTATTGATATTTAGCAGCGTTTGTATGACAAACGCCGCAATAAATGTTGATATTTA
Found at i:66549 original size:128 final size:128
Alignment explanation
Indices: 66237--66589 Score: 313
Period size: 128 Copynumber: 2.7 Consensus size: 128
66227 GCTAAAGTTC
* * * * **
66237 GCGGCGTTTTTTA-ACAAAAAATGCCACAATAGGTATTAATATTTAGCGGC-GTTTGTGTGACAA
1 GCGGCGTTTTTTAGAC-AAACA--CCGCAATAGGTGTTGATA-TTAGCGGCAGTTT-TCAGACAA
* * *
66300 ACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTGTGACAAACGCCGCAATAAATGTTGATAT
61 ACGCCGCAATAGGTATTGATATTTAGCAGCGTTTGTATGACAAACGCCGCAATAAATGTTGATAT
66365 TTA
126 TTA
* * *
66368 GCGGTGTTTTTTAGACAAACACTGCAATAGGTGTTGATATTAGCGGCATTTTTCAGACAAACGCC
1 GCGGCGTTTTTTAGACAAACACCGCAATAGGTGTTGATATTAGCGGCAGTTTTCAGACAAACGCC
* * ** *
66433 GCAATAGGTATTGATATTTAGCAGTGTTT-TATAGACAAACGCTGCAATAGGT-TATGATGTTTA
66 GCAATAGGTATTGATATTTAGCAGCGTTTGTAT-GACAAACGCCGCAATAAATGT-TGATATTTA
** * * * * **
66496 GCGGCGTTTTTATCTA-AAACACCGCAGTAGGTGTTGATGTGTTGTGGC-GTTTTCCCACAAACG
1 GCGGCGTTTTT-TAGACAAACACCGCAATAGGTGTTGATAT-TAGCGGCAGTTTTCAGACAAACG
* * * * *
66559 CCGCAGTAGGTTTTGATGTTTTGCGGCGTTT
64 CCGCAATAGGTATTGATATTTAGCAGCGTTT
66590 TTCTCACAAA
Statistics
Matches: 182, Mismatches: 34, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
127 3 0.02
128 137 0.75
129 24 0.13
131 16 0.09
132 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (128 bp):
GCGGCGTTTTTTAGACAAACACCGCAATAGGTGTTGATATTAGCGGCAGTTTTCAGACAAACGCC
GCAATAGGTATTGATATTTAGCAGCGTTTGTATGACAAACGCCGCAATAAATGTTGATATTTA
Found at i:66586 original size:85 final size:85
Alignment explanation
Indices: 66467--66631 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
66457 TGTTTTATAG
* **
66467 ACAAACGCTGCAATAGGTTATGATGTTTAGCGGCGTTTTTATCTA-AAACACCGCAGTAGGTGTT
1 ACAAACGCCGCAATAGGTTATGATGTTTAGCGGCGTTTTTATC-ACAAACACCGCAGTAGGCATT
66531 GATGTGTTGTGGCGTTTTCCC
65 GATGTGTTGTGGCGTTTTCCC
* * * * ** *
66552 ACAAACGCCGCAGTAGGTTTTGATGTTTTGCGGCGTTTTTCTCACAAACGTCGTAGTAGGCATTG
1 ACAAACGCCGCAATAGGTTATGATGTTTAGCGGCGTTTTTATCACAAACACCGCAGTAGGCATTG
*
66617 ATGTTTTGTGGCGTT
66 ATGTGTTGTGGCGTT
66632 GTTGCTAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
84 1 0.01
85 67 0.99
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (85 bp):
ACAAACGCCGCAATAGGTTATGATGTTTAGCGGCGTTTTTATCACAAACACCGCAGTAGGCATTG
ATGTGTTGTGGCGTTTTCCC
Found at i:66590 original size:128 final size:127
Alignment explanation
Indices: 66296--66590 Score: 317
Period size: 128 Copynumber: 2.3 Consensus size: 127
66286 CGTTTGTGTG
* *
66296 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTGTGACAAACGCCGCAATAAATGTTG
1 ACAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTT-TATGACAAACGCCGCAATAAATGTTG
* * * *
66361 ATATTTAGCGGTGTTTTTTAGACAAACACTGCAATAGGTGTTGATATTAGCGGCATTTTTCAG
65 ATATTTAGCGGCGTTTTTTAGACAAACACCGCAATAGGTGTTGATATTAGCGGCAGTTTTCAC
* * * **
66424 ACAAACGCCGCAATAGGTATTGATATTTAGCAGTGTTTTATAGACAAACGCTGCAATAGGT-TAT
1 ACAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTAT-GACAAACGCCGCAATAAATGT-T
* ** * * * * *
66488 GATGTTTAGCGGCGTTTTTATCTA-AAACACCGCAGTAGGTGTTGATGTGTTGTGGC-GTTTTCC
64 GATATTTAGCGGCGTTTTT-TAGACAAACACCGCAATAGGTGTTGATAT-TAGCGGCAGTTTTCA
66551 C
127 C
* * * *
66552 ACAAACGCCGCAGTAGGTTTTGATGTTTTGCGGCGTTTT
1 ACAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTT
66591 TCTCACAAAC
Statistics
Matches: 138, Mismatches: 25, Indels: 8
0.81 0.15 0.05
Matches are distributed among these distances:
127 3 0.02
128 128 0.93
129 7 0.05
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (127 bp):
ACAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTATGACAAACGCCGCAATAAATGTTGA
TATTTAGCGGCGTTTTTTAGACAAACACCGCAATAGGTGTTGATATTAGCGGCAGTTTTCAC
Found at i:66610 original size:43 final size:43
Alignment explanation
Indices: 66282--66631 Score: 188
Period size: 43 Copynumber: 8.2 Consensus size: 43
66272 TTAATATTTA
* * * * * * *
66282 GCGGCGTTTGTGTGACAAACGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTTTCTCACAAACGCCGCAGTAGGTTTTGATGTTTT
* * * * ** * * *
66325 GCGGCGTTTGTGTGACAAACGCCGCAATAAATGTTGATATTTA
1 GCGGCGTTTTTCTCACAAACGCCGCAGTAGGTTTTGATGTTTT
* * * * * * * *
66368 GCGGTGTTTTT-TAGACAAACACTGCAATAGGTGTTGAT-ATTA
1 GCGGCGTTTTTCT-CACAAACGCCGCAGTAGGTTTTGATGTTTT
* ** * * * *
66410 GCGGCATTTTTCAGACAAACGCCGCAATAGGTATTGATATTTA
1 GCGGCGTTTTTCTCACAAACGCCGCAGTAGGTTTTGATGTTTT
* * ** * * * *
66453 GCAGTGTTTTAT-AGACAAACGCTGCAATAGGTTATGATGTTTA
1 GCGGCGTTTT-TCTCACAAACGCCGCAGTAGGTTTTGATGTTTT
* * * *
66496 GCGGCGTTTTTATCTA-AAACACCGCAGTAGGTGTTGATGTGTT
1 GCGGCGTTTTTCTC-ACAAACGCCGCAGTAGGTTTTGATGTTTT
* *
66539 GTGGCG-TTTTCCCACAAACGCCGCAGTAGGTTTTGATGTTTT
1 GCGGCGTTTTTCTCACAAACGCCGCAGTAGGTTTTGATGTTTT
* * **
66581 GCGGCGTTTTTCTCACAAACGTCGTAGTAGGCATTGATGTTTT
1 GCGGCGTTTTTCTCACAAACGCCGCAGTAGGTTTTGATGTTTT
*
66624 GTGGCGTT
1 GCGGCGTT
66632 GTTGCTAAAA
Statistics
Matches: 252, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.00
42 70 0.28
43 179 0.71
44 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTTTCTCACAAACGCCGCAGTAGGTTTTGATGTTTT
Found at i:67057 original size:21 final size:21
Alignment explanation
Indices: 67032--67095 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
67022 ATTCTTCACA
67032 TCTCTGCTGATAT-GCTGCTTC
1 TCTCTG-TGATATCGCTGCTTC
* *
67053 TCTCTGTGCTGTCGCTGCTTC
1 TCTCTGTGATATCGCTGCTTC
* *
67074 TCTCTGTGCTACCGCTGCTTC
1 TCTCTGTGATATCGCTGCTTC
67095 T
1 T
67096 TTCTCTGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.11
21 34 0.89
ACGTcount: A:0.05, C:0.33, G:0.20, T:0.42
Consensus pattern (21 bp):
TCTCTGTGATATCGCTGCTTC
Found at i:67145 original size:21 final size:21
Alignment explanation
Indices: 67045--67157 Score: 104
Period size: 21 Copynumber: 5.4 Consensus size: 21
67035 CTGCTGATAT
*
67045 GCTGCTTCTCTCTGTGCTGT-C
1 GCTGCTTCTCTCTCTGCT-TCC
* *
67066 GCTGCTTCTCTCTGTGCTACC
1 GCTGCTTCTCTCTCTGCTTCC
*
67087 GCTGCTTCTTTCTCTGCTTCC
1 GCTGCTTCTCTCTCTGCTTCC
* * ** *
67108 GCTGCTGCTATGGCTGCTTCT
1 GCTGCTTCTCTCTCTGCTTCC
*
67129 GCTGCTGCTCTCTCTGCTTCC
1 GCTGCTTCTCTCTCTGCTTCC
67150 -CTTGCTTC
1 GC-TGCTTC
67158 ATTTTTCGCT
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
20 1 0.01
21 75 0.99
ACGTcount: A:0.02, C:0.36, G:0.20, T:0.42
Consensus pattern (21 bp):
GCTGCTTCTCTCTCTGCTTCC
Found at i:67146 original size:33 final size:34
Alignment explanation
Indices: 67066--67146 Score: 80
Period size: 33 Copynumber: 2.4 Consensus size: 34
67056 CTGTGCTGTC
*
67066 GCTGCTTCTCTCTG-TGCTACCGCTGCTTCTTTCT
1 GCTGC-TCTCTCTGCTGCTACCGCTGCTTCTTGCT
* **
67100 -CTGCT-TCCGCTGCTGCTATGGCTGCTTC-TGCT
1 GCTGCTCT-CTCTGCTGCTACCGCTGCTTCTTGCT
67132 GCTGCTCTCTCTGCT
1 GCTGCTCTCTCTGCT
67147 TCCCTTGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
31 1 0.03
32 8 0.21
33 28 0.74
34 1 0.03
ACGTcount: A:0.02, C:0.36, G:0.21, T:0.41
Consensus pattern (34 bp):
GCTGCTCTCTCTGCTGCTACCGCTGCTTCTTGCT
Done.