Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010903.1 Kokia drynarioides strain JFW-HI SEQ_125871, 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: 101128
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 67 characters in sequence are not A, C, G, or T
Found at i:3131 original size:23 final size:23
Alignment explanation
Indices: 3049--3175 Score: 109
Period size: 23 Copynumber: 5.6 Consensus size: 23
3039 AAGTGCTAGG
3049 GAAACAGTAAGCACAC-ACAGTGC
1 GAAACAGTAAGCACACGA-AGTGC
* *
3072 -AATCCAGTAGGCACAC-ACAGTGC
1 GAA-ACAGTAAGCACACGA-AGTGC
* * *
3095 -AATCAGTAGGCACACGAGGTGC
1 GAAACAGTAAGCACACGAAGTGC
* *
3117 GAAACAATAAGCACATGAAGTGC
1 GAAACAGTAAGCACACGAAGTGC
* *
3140 AAAACAGTAAGCACACGAAATGC
1 GAAACAGTAAGCACACGAAGTGC
*
3163 GAAATAGTAAGCA
1 GAAACAGTAAGCA
3176 TGCTAGTGTT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
22 18 0.21
23 68 0.79
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (23 bp):
GAAACAGTAAGCACACGAAGTGC
Found at i:12812 original size:24 final size:24
Alignment explanation
Indices: 12737--12823 Score: 111
Period size: 24 Copynumber: 3.6 Consensus size: 24
12727 TAGACTAATA
* *
12737 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* * *
12761 AGAATTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
12785 AGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
12809 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
12824 AATTGTTTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:16533 original size:15 final size:14
Alignment explanation
Indices: 16513--16548 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
16503 ACTTTTTTTC
16513 CTTTTTTTTCTTCTT
1 CTTTTTTTTC-TCTT
16528 CTTTTTTTTCTCTT
1 CTTTTTTTTCTCTT
*
16542 CTCTTTT
1 CTTTTTT
16549 CTTATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTTTTTTTCTCTT
Found at i:16536 original size:17 final size:16
Alignment explanation
Indices: 16514--16548 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16504 CTTTTTTTCC
16514 TTTTTTT-TCTTCTTCT
1 TTTTTTTCTCTTC-TCT
16530 TTTTTTTCTCTTCTCT
1 TTTTTTTCTCTTCTCT
16546 TTT
1 TTT
16549 CTTATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTCTCTTCTCT
Found at i:16548 original size:27 final size:25
Alignment explanation
Indices: 16505--16571 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
16495 CTCATATAAC
* *
16505 TTTTTTTC-CTTTTTTTTCTTCTTCT
1 TTTTTTTCTCTTTCTTTTCTTATT-T
16530 TTTTTTTCTCTTCTCTTTTCTTATTT
1 TTTTTTTCTCTT-TCTTTTCTTATTT
*
16556 TTATTTTTCTTTTTCT
1 TT-TTTTTCTCTTTCT
16572 AGGCTTGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.22
26 9 0.25
27 19 0.53
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTTTTCTCTTTCTTTTCTTATTT
Found at i:17530 original size:20 final size:20
Alignment explanation
Indices: 17497--17536 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17487 TATTGCTCTT
*
17497 TTCTTTGTGATTTCTATTTA
1 TTCTTTGTGATTTCGATTTA
17517 TTCTTTG-GATTTTCGATTTA
1 TTCTTTGTGA-TTTCGATTTA
17537 CGTCTTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62
Consensus pattern (20 bp):
TTCTTTGTGATTTCGATTTA
Found at i:22481 original size:116 final size:116
Alignment explanation
Indices: 22314--22577 Score: 393
Period size: 116 Copynumber: 2.3 Consensus size: 116
22304 AGCTGAGAAG
* * * *
22314 TCCTACCCTATAACTTCTATCGATACAAGTATTTAAACTACCAATACCTCAATGTACAGAACTAC
1 TCCTACCCTAT-ACTTCTACCGATACAAGCATTTAAACTAACAATACCTCAATGTACAAAACTAC
*
22379 CGATACCTGTTATACAACTACCGAAACAACTTAAGTCAGAGAACAACCTCTC
65 CGATACCTGTTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTC
* * ** * * *
22431 TCTTACCCTGTACTTCTACCGATACAAGCATTTAAACTAATGATACCTCAATGTATAAAATTATC
1 TCCTACCCTATACTTCTACCGATACAAGCATTTAAACTAACAATACCTCAATGTACAAAACTACC
* *
22496 GATACCTGTTATACAATTACCGAAACAACTCATGTCAGAGAACAACCTCTC
66 GATACCTGTTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTC
22547 TCCTACCCTATACTTCTACCGATACAAGCAT
1 TCCTACCCTATACTTCTACCGATACAAGCAT
22578 GAGTTCTACC
Statistics
Matches: 131, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
116 122 0.93
117 9 0.07
ACGTcount: A:0.36, C:0.28, G:0.09, T:0.28
Consensus pattern (116 bp):
TCCTACCCTATACTTCTACCGATACAAGCATTTAAACTAACAATACCTCAATGTACAAAACTACC
GATACCTGTTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTC
Found at i:23138 original size:36 final size:36
Alignment explanation
Indices: 23065--23169 Score: 138
Period size: 36 Copynumber: 2.9 Consensus size: 36
23055 TGATCGTTAT
*
23065 TCGTTTTACTCCCTATTGACCCTAAAGGTCATGATGC
1 TCGTTTTACTCCCTGTTGACCC-AAAGGTCATGATGC
* *
23102 TCGTTCTACTCCCTGTTGACCCAAAGGTCATTATGC
1 TCGTTTTACTCCCTGTTGACCCAAAGGTCATGATGC
** * *
23138 TTATTTTTCTCCTTGTTGACCCAAAGGTCATG
1 TCGTTTTACTCCCTGTTGACCCAAAGGTCATG
23170 CCTGTTACCA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
36 39 0.66
37 20 0.34
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (36 bp):
TCGTTTTACTCCCTGTTGACCCAAAGGTCATGATGC
Found at i:26978 original size:15 final size:17
Alignment explanation
Indices: 26928--26986 Score: 68
Period size: 16 Copynumber: 3.5 Consensus size: 17
26918 TAGCACGCCC
*
26928 AGAAAAAATAAGAAAAAT
1 AGAAAAAAAAAG-AAAAT
*
26946 AAGAAAATAAAAGAAAAT
1 -AGAAAAAAAAAGAAAAT
26964 -GAAAAAAAAAG-AAAT
1 AGAAAAAAAAAGAAAAT
26979 AGAAAAAA
1 AGAAAAAA
26987 GGTATAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.11
16 17 0.47
18 5 0.14
19 10 0.28
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (17 bp):
AGAAAAAAAAAGAAAAT
Found at i:34676 original size:128 final size:128
Alignment explanation
Indices: 34536--34776 Score: 376
Period size: 128 Copynumber: 1.9 Consensus size: 128
34526 AGTGACAAAT
* *
34536 CGAAATTTGTAACACTCCGCTAACCGAGTTGTCTTGAGAAATAAACTTGGGACATGTCAAATTGA
1 CGAAACTTGTAACACTCCGCTAACCGAGTTGCCTTGAGAAATAAACTTGGGACATGTCAAATTGA
*
34601 GTAATCGGGATGAGGTGATTGGGTTGTCATCTC-ATCTCACGTAAAAAAATTTAAGTGATGAAC
66 GTAACCGGGATGAGGTGATTGGGTTGTCATCTCAAT-TCACGTAAAAAAATTTAAGTGATGAAC
* * *
34664 CGAAACTTGTAACACTTCGTTAATCGAGTTGCCTTGAGAAATAAACTTGGGACATGTCAAATTGA
1 CGAAACTTGTAACACTCCGCTAACCGAGTTGCCTTGAGAAATAAACTTGGGACATGTCAAATTGA
* * * *
34729 GTAACCGGGTTGAGGTGTTTGGGTTGTCATTTCAATTCGCGTAAAAAA
66 GTAACCGGGATGAGGTGATTGGGTTGTCATCTCAATTCACGTAAAAAA
34777 TGTGATTATG
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
128 100 0.98
129 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (128 bp):
CGAAACTTGTAACACTCCGCTAACCGAGTTGCCTTGAGAAATAAACTTGGGACATGTCAAATTGA
GTAACCGGGATGAGGTGATTGGGTTGTCATCTCAATTCACGTAAAAAAATTTAAGTGATGAAC
Found at i:36376 original size:16 final size:16
Alignment explanation
Indices: 36341--36380 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
36331 TTTTTCACTT
* *
36341 TATTTTATTTTATTTTA
1 TATTTT-TTTAATTTAA
36358 TATTTTTTTAATTTAA
1 TATTTTTTTAATTTAA
36374 TATTTTT
1 TATTTTT
36381 ATCACTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TATTTTTTTAATTTAA
Found at i:37713 original size:19 final size:18
Alignment explanation
Indices: 37676--37719 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
37666 TTTTACCCTC
37676 ATATTTTTTTTTAATTTT
1 ATATTTTTTTTTAATTTT
37694 ATATTTATTTATTT-ATTTT
1 ATATTT-TTT-TTTAATTTT
*
37713 ATCTTTT
1 ATATTTT
37720 AATCATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 13 0.57
20 3 0.13
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (18 bp):
ATATTTTTTTTTAATTTT
Found at i:37720 original size:16 final size:15
Alignment explanation
Indices: 37701--37743 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
37691 TTTATATTTA
37701 TTTATTTATTTTATCT
1 TTTATTTATTTTA-CT
* *
37717 TTTAATCATATTTACT
1 TTTATTTAT-TTTACT
37733 TTTATTTATTT
1 TTTATTTATTT
37744 AAAGTACGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 2 0.09
16 16 0.73
17 4 0.18
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATTTATTTTACT
Found at i:37721 original size:32 final size:29
Alignment explanation
Indices: 37677--37743 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 29
37667 TTTACCCTCA
*
37677 TATTTTTTTTTAATTTTATATTTA-TTTATT
1 TATTTTTTTTTAA--TCATATTTACTTTATT
37707 TATTTTATCTTTTAATCATATTTACTTTTATT
1 TATTTT-T-TTTTAATCATATTTAC-TTTATT
37739 TATTT
1 TATTT
37744 AAAGTACGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
30 14 0.44
31 1 0.03
32 17 0.53
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (29 bp):
TATTTTTTTTTAATCATATTTACTTTATT
Found at i:40002 original size:14 final size:13
Alignment explanation
Indices: 39968--40015 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
39958 TTAACATTGC
*
39968 TTTT-AAAAAGTG
1 TTTTGAAAAAGTA
*
39980 TTTTTAAAAAGTA
1 TTTTGAAAAAGTA
*
39993 TTTTGGAAAAGTGA
1 TTTTGAAAAAGT-A
40007 TTTTGAAAA
1 TTTTGAAAA
40016 GCTTGGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 4 0.13
13 17 0.57
14 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (13 bp):
TTTTGAAAAAGTA
Found at i:48650 original size:8 final size:8
Alignment explanation
Indices: 48622--48667 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
48612 TGAATTGATG
48622 AATTTTAA
1 AATTTTAA
*
48630 AATATTAA
1 AATTTTAA
*
48638 CATTTTAA
1 AATTTTAA
*
48646 AATTTTTTA
1 AA-TTTTAA
48655 AATTTTAA
1 AATTTTAA
48663 AATTT
1 AATTT
48668 CTAATCCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
8 24 0.77
9 7 0.23
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (8 bp):
AATTTTAA
Found at i:48661 original size:17 final size:17
Alignment explanation
Indices: 48622--48667 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
48612 TGAATTGATG
48622 AATTTTAAAA--TATTA
1 AATTTTAAAATTTATTA
*
48637 ACATTTTAAAATTTTTTA
1 A-ATTTTAAAATTTATTA
48655 AATTTTAAAATTT
1 AATTTTAAAATTT
48668 CTAATCCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 1 0.04
16 9 0.33
17 12 0.44
18 5 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTTTAAAATTTATTA
Found at i:49148 original size:3 final size:3
Alignment explanation
Indices: 49142--49170 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
49132 GATGATGATG
49142 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
49171 GATGATGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:49175 original size:3 final size:3
Alignment explanation
Indices: 49169--49234 Score: 105
Period size: 3 Copynumber: 22.0 Consensus size: 3
49159 AATAATAATA
* * *
49169 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG ATA ATG ATA ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
49217 ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG
49235 TCTGCTACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:56215 original size:13 final size:13
Alignment explanation
Indices: 56197--56223 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56187 AGATTTTCTC
56197 TATTTTTTTATTT
1 TATTTTTTTATTT
56210 TATTTTTTTATTT
1 TATTTTTTTATTT
56223 T
1 T
56224 TTTATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TATTTTTTTATTT
Found at i:67325 original size:23 final size:23
Alignment explanation
Indices: 67223--67326 Score: 156
Period size: 23 Copynumber: 4.5 Consensus size: 23
67213 ACATTAACGC
67223 GCTTACTG-TTCAGCACTGTATGT
1 GCTTACTGTTTC-GCACTGTATGT
*
67246 GCTTACTGATTCGCACTGTATGT
1 GCTTACTGTTTCGCACTGTATGT
*
67269 GCTTACTGATTCGCACTGTATGT
1 GCTTACTGTTTCGCACTGTATGT
* *
67292 GCTTATTGTTTTGCACTGTATGT
1 GCTTACTGTTTCGCACTGTATGT
67315 GCTTACTGTTTC
1 GCTTACTGTTTC
67327 CCTAGCACTT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
23 72 0.96
24 3 0.04
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.43
Consensus pattern (23 bp):
GCTTACTGTTTCGCACTGTATGT
Found at i:68580 original size:23 final size:23
Alignment explanation
Indices: 68458--68607 Score: 112
Period size: 23 Copynumber: 6.4 Consensus size: 23
68448 CGAAGTACTT
68458 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
68484 AACAGTAAGCACACACAA-TGC-A
1 AACAGTAAGCACACA-AAGTGCGA
* * *
68506 ATCCAGTAGGCACACACAGTGC-A
1 A-ACAGTAAGCACACAAAGTGCGA
* * * * *
68529 ATCAGTAGGCGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
**
68551 AATCAGTAAGCACATGAAGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
68575 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
68598 AACAGTAAGC
1 AACAGTAAGC
68608 GCGCTAGCAT
Statistics
Matches: 102, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
22 21 0.21
23 59 0.58
24 3 0.03
26 14 0.14
27 3 0.03
28 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.12
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:75753 original size:23 final size:22
Alignment explanation
Indices: 75631--75755 Score: 115
Period size: 23 Copynumber: 5.5 Consensus size: 22
75621 AGTGCTGGGG
*
75631 AAACAGTAAGCACACACAGTGC
1 AAACAGTAAGCACACAAAGTGC
* * *
75653 AATCTAGTAGGCACACACAGTGC
1 AAAC-AGTAAGCACACAAAGTGC
* * * * *
75676 AATCAGTAGGCGCACATAGCGC
1 AAACAGTAAGCACACAAAGTGC
**
75698 AAATCAGTAAGCACATGAAGTGC
1 AAA-CAGTAAGCACACAAAGTGC
75721 GAAACAGTAAGCACACAAAGTGC
1 -AAACAGTAAGCACACAAAGTGC
75744 GAAACAGTAAGC
1 -AAACAGTAAGC
75756 GCGCTAGCAT
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
22 20 0.23
23 63 0.73
24 3 0.03
ACGTcount: A:0.42, C:0.23, G:0.22, T:0.13
Consensus pattern (22 bp):
AAACAGTAAGCACACAAAGTGC
Found at i:83759 original size:50 final size:50
Alignment explanation
Indices: 83700--83798 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
83690 ACATGATGAT
83700 GTGGTTGTGTTTAGTGAAGGAGTGAAATATAACAACTATGAGAAATGTTA
1 GTGGTTGTGTTTAGTGAAGGAGTGAAATATAACAACTATGAGAAATGTTA
83750 GTGGTTGTGTTTAGTGAAGGAGTGAAATATAACAACTATGAGAAATGTT
1 GTGGTTGTGTTTAGTGAAGGAGTGAAATATAACAACTATGAGAAATGTT
83799 GTTTATATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.32
Consensus pattern (50 bp):
GTGGTTGTGTTTAGTGAAGGAGTGAAATATAACAACTATGAGAAATGTTA
Found at i:83957 original size:23 final size:23
Alignment explanation
Indices: 83880--83959 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 23
83870 ACATTAGAGC
*
83880 GCTTACTGTTCAGCACTGTGTGT
1 GCTTACTGTTTAGCACTGTGTGT
* * * * **
83903 GCTTATTGATTCGCACTATAAGT
1 GCTTACTGTTTAGCACTGTGTGT
*
83926 GCTTACTGTTTTGCACTGTGTGT
1 GCTTACTGTTTAGCACTGTGTGT
83949 GCTTACTGTTT
1 GCTTACTGTTT
83960 CCCCAGCACT
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.44
Consensus pattern (23 bp):
GCTTACTGTTTAGCACTGTGTGT
Found at i:85358 original size:46 final size:46
Alignment explanation
Indices: 85302--85394 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
85292 ATAAGTTCAC
*
85302 CTGAGAATTTTCAAACATACACACATATACCTTTTTACAATTTAAT
1 CTGAGAATTTTCAAACACACACACATATACCTTTTTACAATTTAAT
* *
85348 CTGAGAATTTTCAAACACATACACATTTACCTTTTTACAATTTAAT
1 CTGAGAATTTTCAAACACACACACATATACCTTTTTACAATTTAAT
85394 C
1 C
85395 CAAATCTTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (46 bp):
CTGAGAATTTTCAAACACACACACATATACCTTTTTACAATTTAAT
Found at i:88390 original size:13 final size:14
Alignment explanation
Indices: 88372--88403 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
88362 TCTTCCATAT
88372 AAAAAAACAAAA-A
1 AAAAAAACAAAAGA
88385 AAAAAAACAAAAGA
1 AAAAAAACAAAAGA
88399 AAAAA
1 AAAAA
88404 GAAGCAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAAAGA
Found at i:88746 original size:2 final size:2
Alignment explanation
Indices: 88739--88775 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
88729 AATTTAATTT
88739 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88776 TGTTTTTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89753 original size:22 final size:22
Alignment explanation
Indices: 89728--89769 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
89718 AATTCAAAAG
* *
89728 TATTGTATTATTAATATTAATA
1 TATTGTATAATTAAAATTAATA
*
89750 TATTTTATAATTAAAATTAA
1 TATTGTATAATTAAAATTAA
89770 ATAATAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTGTATAATTAAAATTAATA
Found at i:91026 original size:16 final size:16
Alignment explanation
Indices: 91007--91041 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
90997 TGAAAATATA
*
91007 ATAAATCTAATAAATT
1 ATAAATCTAATAAAAT
*
91023 ATAAATTTAATAAAAT
1 ATAAATCTAATAAAAT
91039 ATA
1 ATA
91042 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAATCTAATAAAAT
Found at i:92831 original size:28 final size:29
Alignment explanation
Indices: 92798--92860 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
92788 AAATGAGACC
* *
92798 TTTTGGA-TACTCGGGGGCAAAATGGTAA
1 TTTTGGATTACTAGGGGGCAAAATGATAA
92826 TTTTGGATTACTAGGGGGCAAAATGATAA
1 TTTTGGATTACTAGGGGGCAAAATGATAA
92855 TTTTGG
1 TTTTGG
92861 GAAAGTTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 7 0.22
29 25 0.78
ACGTcount: A:0.29, C:0.08, G:0.30, T:0.33
Consensus pattern (29 bp):
TTTTGGATTACTAGGGGGCAAAATGATAA
Found at i:93051 original size:30 final size:29
Alignment explanation
Indices: 92990--93188 Score: 183
Period size: 29 Copynumber: 6.8 Consensus size: 29
92980 AAATTGGGAT
* *
92990 TAAAAATGGAAATTTTGGACA--TCCAGGG
1 TAAAAATGGAATTTTTGGA-AGTTTCAGGG
**
93018 TAAAAAATGGAA-TTTTGGAAAGTTTTTGGG
1 T-AAAAATGGAATTTTTGG-AAGTTTCAGGG
* * *
93048 TAAAAAAAGGAA-ATTTGGAAAGTTTGAGGG
1 T-AAAAATGGAATTTTTGG-AAGTTTCAGGG
* *
93078 TAAAAATGTAATTTTTGGAAGTTTCAAGG
1 TAAAAATGGAATTTTTGGAAGTTTCAGGG
*
93107 TTAAAATGGAATTTTTGGAAGTTT-AGGGG
1 TAAAAATGGAATTTTTGGAAGTTTCA-GGG
* * *
93136 TAAAAATGTAATTGTTGGAAGTTTCGGGG
1 TAAAAATGGAATTTTTGGAAGTTTCAGGG
93165 TCAAAAATGGAATTTTTGGAAGTT
1 T-AAAAATGGAATTTTTGGAAGTT
93189 CGAGGGCCTC
Statistics
Matches: 142, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
28 9 0.06
29 77 0.54
30 56 0.39
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.33
Consensus pattern (29 bp):
TAAAAATGGAATTTTTGGAAGTTTCAGGG
Found at i:93063 original size:31 final size:29
Alignment explanation
Indices: 93014--93083 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 29
93004 TTGGACATCC
* *
93014 AGGGTAAAAAATGGAATTTTGGAAAGTTTT
1 AGGGTAAAAAAAGGAA-TTTGGAAAGTTTG
*
93044 TGGGTAAAAAAAGGAAATTTGGAAAGTTTG
1 AGGGTAAAAAAAGG-AATTTGGAAAGTTTG
93074 AGGGTAAAAA
1 AGGGTAAAAA
93084 TGTAATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (29 bp):
AGGGTAAAAAAAGGAATTTGGAAAGTTTG
Found at i:93114 original size:88 final size:88
Alignment explanation
Indices: 93021--93188 Score: 218
Period size: 88 Copynumber: 1.9 Consensus size: 88
93011 TCCAGGGTAA
**
93021 AAAATGGAA-TTTTGGAAAGTTTTTGGGTAAAAAAAGGAAAT-TTGGAAAGTTT-GAGGGT-AAA
1 AAAATGGAATTTTTGG-AAGTTTAGGGGT-AAAAAAGGAAATGTTGG-AAGTTTCG-GGGTCAAA
*
93082 AATGTAATTTTTGGAAGTTTCAAGGTT
62 AATGGAATTTTTGGAAGTTTCAAGGTT
* * *
93109 AAAATGGAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTGTTGGAAGTTTCGGGGTCAAAAATG
1 AAAATGGAATTTTTGGAAGTTTAGGGGTAAAAAAGGAAATGTTGGAAGTTTCGGGGTCAAAAATG
93174 GAATTTTTGGAAGTT
66 GAATTTTTGGAAGTT
93189 CGAGGGCCTC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
87 19 0.27
88 45 0.64
89 6 0.09
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (88 bp):
AAAATGGAATTTTTGGAAGTTTAGGGGTAAAAAAGGAAATGTTGGAAGTTTCGGGGTCAAAAATG
GAATTTTTGGAAGTTTCAAGGTT
Found at i:94958 original size:17 final size:18
Alignment explanation
Indices: 94922--94995 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 18
94912 CCTTTAATTT
*
94922 AATTTTAATTTAAAAATA
1 AATTTAAATTTAAAAATA
*
94940 AATTTAAATTT-AAAGTA
1 AATTTAAATTTAAAAATA
** * * *
94957 AATCCAAACTCAAAAATG
1 AATTTAAATTTAAAAATA
*
94975 AATTTGAATTT-AAAATA
1 AATTTAAATTTAAAAATA
94992 AATT
1 AATT
94996 CAAAACTTAT
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
17 21 0.51
18 20 0.49
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.36
Consensus pattern (18 bp):
AATTTAAATTTAAAAATA
Found at i:94972 original size:35 final size:35
Alignment explanation
Indices: 94933--94999 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
94923 ATTTTAATTT
*
94933 AAAAATAAATTTAAATTTAAAGTAAATCCAAACTC
1 AAAAATAAATTTAAATTTAAAATAAATCCAAACTC
* * *
94968 AAAAATGAATTTGAATTTAAAATAAATTCAAA
1 AAAAATAAATTTAAATTTAAAATAAATCCAAA
95000 ACTTATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.30
Consensus pattern (35 bp):
AAAAATAAATTTAAATTTAAAATAAATCCAAACTC
Found at i:95742 original size:201 final size:201
Alignment explanation
Indices: 95402--96086 Score: 906
Period size: 201 Copynumber: 3.4 Consensus size: 201
95392 GGTTGCGTTG
* *
95402 CTTGTTTCAATCCGCTTCTTTGTATCTCATCAGGAAAACGAATTTGGTCCACTTCTCAGTATCTC
1 CTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
* * * * *
95467 ATCAGGAAGCTAACCATTTTATTGCTTTGACGTACTTCTCTGTATCTCATCAGGAAGCTAGGGTT
66 ATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGGTT
* * *
95532 -TAGAGATTTGTTCGCATTGAGCCTTGAGTTAGTATACTTCTTTGTATCTCATCAAGAAGATGAC
131 CGA-AGATTTGTTCGCATTGAGCCTTGAGTTGGTATACTTCTTTGTATCTCATCAGGAAGATGAC
*
95596 CGCCTCA
195 CACCTCA
* * *
95603 CTTGTTTCAATTCGTTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCGACTTCTCAGTATCTC
1 CTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
* * *
95668 ATCATGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTGATCAAGAAGCTGGGGTT
66 ATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGGTT
* * *
95733 CGAAGATTTGCTT-GTATTGAGCCTCGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGAC
131 CGAAGATTTG-TTCGCATTGAGCCTTGAGTTGGTATACTTCTTTGTATCTCATCAGGAAGATGAC
95797 CACCTCA
195 CACCTCA
* * * *
95804 CTTGTTTTAATCCACTTCTCTGTACCTCATCAGGAAGACGAATTTGGTCCACTTCTCAATATCTC
1 CTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
* * * *
95869 ATCAGGAAGCTAACCTTTTTATTACTTCGACCTACTTCTCAGTATCTCATCACGAAGCTGAGGTT
66 ATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGGTT
* * * * *
95934 CGAAGATTTGCTCGCTTTGAGCCTTATTTCATTGATTTGGTCTACTTCTTAGTATCTCATCAGGA
131 CGAAGATTTGTTCGCATTGAG-C------C-TTGAGTTGGTATACTTCTTTGTATCTCATCAGGA
* * * *
95999 AGATGATCTCATCG
188 AGATGACCACCTCA
** *
96013 CTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGATTAATTTGGTCCACTTCTTAGTATCTC
1 CTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
96078 ATCAGGAAG
66 ATCAGGAAG
96087 TTGGGGTTCG
Statistics
Matches: 420, Mismatches: 53, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
200 1 0.00
201 308 0.73
202 4 0.01
208 1 0.00
209 106 0.25
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (201 bp):
CTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTC
ATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTGGGGTT
CGAAGATTTGTTCGCATTGAGCCTTGAGTTGGTATACTTCTTTGTATCTCATCAGGAAGATGACC
ACCTCA
Found at i:96198 original size:153 final size:155
Alignment explanation
Indices: 95902--96241 Score: 434
Period size: 153 Copynumber: 2.2 Consensus size: 155
95892 ACTTCGACCT
*
95902 ACTTCTCAGTATCTCATCACGAAGCTGAGGTTCGAAGATTTGCTCGCTTTGAGCCTTATTTCATT
1 ACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCGCTTTGAGCC----TTC--T
* * * * *
95967 GATTTGGTCTACTTCTTAGTATCTCATCAGGAAGATGATCTCATCGCTTGTTTCAATCCGCTTCT
60 GATTTGGTATACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTGCTTCAATCCGCTTCT
* **
96032 CTGTATCTCATCAGGAAGATTAATTTGGTCC
125 CTGTACCTCATCAGGAAGAAGAATTTGGTCC
* * * *
96063 ACTTCTTAGTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCGCTTTGAGCC-TC-GTTTTG
1 ACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCGCTTTGAGCCTTCTGATTTG
* * * *
96126 GTATACTTCTCTA-TATCTCATCAGGAAGATGACCGCCTCACTTGCTTCAGTCCGTTTCTTTGTA
66 GTATACTTCT-TAGTATCTCATCAGGAAGATGACCGCATCACTTGCTTCAATCCGCTTCTCTGTA
*
96190 CCTCATCAGGAAGAAGAATTTTGTCC
130 CCTCATCAGGAAGAAGAATTTGGTCC
96216 ACTTCTCAGTATCTCATCAGGAAGCT
1 ACTTCTCAGTATCTCATCAGGAAGCT
96242 AACCTTTTTA
Statistics
Matches: 158, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
153 103 0.65
154 2 0.01
156 2 0.01
161 51 0.32
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (155 bp):
ACTTCTCAGTATCTCATCAGGAAGCTGAGGTTCGAAGATTTGCTCGCTTTGAGCCTTCTGATTTG
GTATACTTCTTAGTATCTCATCAGGAAGATGACCGCATCACTTGCTTCAATCCGCTTCTCTGTAC
CTCATCAGGAAGAAGAATTTGGTCC
Found at i:96713 original size:101 final size:101
Alignment explanation
Indices: 96604--96789 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 101
96594 TCCAACTTAG
* *
96604 CTGCAACTTCAGGAAGATAGGATTTGATGTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAG
1 CTGCAACTTCAAGAAGATAGGAATTGATGTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAG
*
96669 AGATAAAGACTTGCTATTGTTTTTAATCCGACTTTA
66 AGATAAAGACTTGCCATTGTTTTTAATCCGACTTTA
* **
96705 CTGCAACTTCAAGAGGATAGGAATTGATGTTAAAGCTTCATCTTGCTCTTACTGTAACTTCAGAG
1 CTGCAACTTCAAGAAGATAGGAATTGATGTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAG
*
96770 GGATAAAGACTTGCCATTGT
66 AGATAAAGACTTGCCATTGT
96790 AGTTTTGATC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 78 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (101 bp):
CTGCAACTTCAAGAAGATAGGAATTGATGTTAAAGCTTCATCTTGCTCTTACTACAACTTCAGAG
AGATAAAGACTTGCCATTGTTTTTAATCCGACTTTA
Found at i:96972 original size:50 final size:50
Alignment explanation
Indices: 96918--97203 Score: 167
Period size: 50 Copynumber: 5.7 Consensus size: 50
96908 AAATCTTCGT
* *
96918 GGTACTGGATTCGCTGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGA
1 GGTACTGGATCCGCCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGA
* * ** *
96968 GGTACACT-G-TCCGCCGTTACGACTTAAGCCTTTCCCTT-TTGTATCTT-TGT
1 GGT--ACTGGATCCGCCGTTGCGGCTTAAATCTTTCCCTTCTTG--TCTTCTGA
* * ** * * *
97018 GGTATTGGATCCGCCGTTGTGATTTTATATCTTTCCTTTCATGTCTTC--A
1 GGTACTGGATCCGCCGTTGCG-GCTTAAATCTTTCCCTTCTTGTCTTCTGA
* * * *
97067 TGGTACTGGATTCGCCGTTGCAGATTAAATCTTTCCCTTCTTGTCTTCTAA
1 -GGTACTGGATCCGCCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGA
* * ** * * * * *
97118 GGCACACGG-TCTACTGTTGCGACTTAGACCTTTCCCTT-TTGCATCTT-TGT
1 GGTAC-TGGATCCGCCGTTGCGGCTTAAATCTTTCCCTTCTTG--TCTTCTGA
*
97168 GGTACTGGATCCGCCGTTGCGGTCTTAGATCTTTCC
1 GGTACTGGATCCGCCGTTGCGG-CTTAAATCTTTCC
97204 TTACATGTCT
Statistics
Matches: 172, Mismatches: 47, Indels: 33
0.68 0.19 0.13
Matches are distributed among these distances:
48 2 0.01
49 30 0.17
50 100 0.58
51 35 0.20
52 5 0.03
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (50 bp):
GGTACTGGATCCGCCGTTGCGGCTTAAATCTTTCCCTTCTTGTCTTCTGA
Found at i:97177 original size:150 final size:150
Alignment explanation
Indices: 96879--97224 Score: 444
Period size: 150 Copynumber: 2.3 Consensus size: 150
96869 GTACCGGGTT
* * * ** * * * *
96879 CGCCATTGCGA-CTTAAACCTTTCCTTTTCAAATCTTCGTGGTACTGGATTCGCTGTTGCGGCTT
1 CGCCGTTGCGATCTTAGATCTTTCC-TTTCATGTCTTCATGGTACTGGATTCGCCGTTGCAGATT
* * * *
96943 AAATCTTTCCCTTCTTGTCTTCTGAGGTACACTGTCCGCCGTTACGACTTAAGCCTTTCCCTTTT
65 AAATCTTTCCCTTCTTGTCTTCTAAGGCACACGGTCCACCGTTACGACTTAAGCCTTTCCCTTTT
* *
97008 GTATCTTTGTGGTATTGGATC
130 GCATCTTTGTGGTACTGGATC
* * *
97029 CGCCGTTGTGATTTTATATCTTTCCTTTCATGTCTTCATGGTACTGGATTCGCCGTTGCAGATTA
1 CGCCGTTGCGATCTTAGATCTTTCCTTTCATGTCTTCATGGTACTGGATTCGCCGTTGCAGATTA
* * *
97094 AATCTTTCCCTTCTTGTCTTCTAAGGCACACGGTCTACTGTTGCGACTT-AGACCTTTCCCTTTT
66 AATCTTTCCCTTCTTGTCTTCTAAGGCACACGGTCCACCGTTACGACTTAAG-CCTTTCCCTTTT
97158 GCATCTTTGTGGTACTGGATC
130 GCATCTTTGTGGTACTGGATC
* * *
97179 CGCCGTTGCGGTCTTAGATCTTTCCTTACATGTCTTCCTGGTACTG
1 CGCCGTTGCGATCTTAGATCTTTCCTTTCATGTCTTCATGGTACTG
97225 AGACCTATAG
Statistics
Matches: 168, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
149 2 0.01
150 156 0.93
151 10 0.06
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (150 bp):
CGCCGTTGCGATCTTAGATCTTTCCTTTCATGTCTTCATGGTACTGGATTCGCCGTTGCAGATTA
AATCTTTCCCTTCTTGTCTTCTAAGGCACACGGTCCACCGTTACGACTTAAGCCTTTCCCTTTTG
CATCTTTGTGGTACTGGATC
Found at i:99040 original size:59 final size:59
Alignment explanation
Indices: 98947--99492 Score: 740
Period size: 59 Copynumber: 9.3 Consensus size: 59
98937 GCACGGGGGC
* * **
98947 AAAATGGT-AGTTTTGGAAGGTTCGAAGTCAAAAATGGGATTTTTGGAAGTTTGAGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGT
* * * *
99005 AAAATGGTAATTTTCAAAAGGTTCGGGGTCAAAAATGGGATTTTTGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGT
* * * * *
99064 AAAATGGTAATTTTTGGATGGTTCGGGGTTAAAAAATGGGATTTTTGGAAATTTGGGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGG-TCAAAAATGGGATTTTTGGAAGTTTGAGGGT
* *
99124 AAAATGGTAA-TTTTATAAGGTT-TGGGTCAAAAATGGGATTTTT-GAAGTTTGAGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGT
* * *
99180 AAAAATGGTATTTTTTTAGAAGGTTCGGGGTTAAAAATGGGATTTTTGGAAGTTTGGGGGT
1 -AAAATGGTA-ATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGT
* * *
99241 AAAATGGTAATTTTTAGAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGGGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGT
* * * *
99300 AAAATGGTAATTTTTTGGAAGGTTTGGGGTCAAAAATGGGATTTTTGGATGTTTAAGGGT
1 AAAATGGTAA-TTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGT
* * *
99360 AAAATGGTAATTTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGGAGTTCGAGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGT
* * * *
99419 AAAATGGTATTTTTTAGAAGGTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGT
1 AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGT
99478 AAAATGGTAATTTTT
1 AAAATGGTAATTTTT
99493 GAACAATTTA
Statistics
Matches: 431, Mismatches: 49, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
56 11 0.03
57 25 0.06
58 11 0.03
59 254 0.59
60 118 0.27
61 12 0.03
ACGTcount: A:0.30, C:0.03, G:0.31, T:0.35
Consensus pattern (59 bp):
AAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGGT
Found at i:99137 original size:119 final size:118
Alignment explanation
Indices: 98940--99492 Score: 754
Period size: 119 Copynumber: 4.7 Consensus size: 118
98930 TTTGGATGCA
* * **
98940 CGGGGGCAAAATGGT-AGTTTTGGAAGGTTCGAAGTCAAAAATGGGATTTTTGGAAGTTTGAGGG
1 CGGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGG
* * *
99004 TAAAATGGTAATTTTCAAAAGGTTCGGGGTCAAAAATGGGATTTTTGAAAGTT
66 TAAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTT
* * * * *
99057 TGGGGGTAAAATGGTAATTTTTGGATGGTTCGGGGTTAAAAAATGGGATTTTTGGAAATTTGGGG
1 CGGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGG-TCAAAAATGGGATTTTTGGAAGTTTGAGG
* *
99122 GTAAAATGGTAA-TTTTATAAGGTT-TGGGTCAAAAATGGGATTTTT-GAAGTT
65 GTAAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTT
* * * * * *
99173 TGAGGGTAAAAATGGTATTTTTTTAGAAGGTTCGGGGTTAAAAATGGGATTTTTGGAAGTTTGGG
1 CGGGGGT-AAAATGGTA-ATTTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAG
*
99238 GGTAAAATGGTAATTTTTAGAAGGTTCGAGGTCAAAAATGGGATTTTTGGAAGTT
64 GGTAAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTT
* * *
99293 CGGGGGTAAAATGGTAATTTTTTGGAAGGTTTGGGGTCAAAAATGGGATTTTTGGATGTTTAAGG
1 CGGGGGTAAAATGGTAA-TTTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGG
* *
99358 GTAAAATGGTAATTTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGGAGTT
65 GTAAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTT
* * * * * *
99412 CGAGGGTAAAATGGTATTTTTTAGAAGGTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGG
1 CGGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGG
99477 TAAAATGGTAATTTTT
66 TAAAATGGTAATTTTT
99493 GAACAATTTA
Statistics
Matches: 385, Mismatches: 43, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
116 11 0.03
117 81 0.21
118 109 0.28
119 173 0.45
120 11 0.03
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (118 bp):
CGGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTTTGAGGG
TAAAATGGTAATTTTTAGAAGGTTCGGGGTCAAAAATGGGATTTTTGGAAGTT
Done.