Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012984.1 Kokia drynarioides strain JFW-HI SEQ_128002, 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: 112453
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Found at i:5653 original size:65 final size:65
Alignment explanation
Indices: 5571--5701 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
5561 CGGGATGAGC
5571 ACACGACCATAACGGTGTTAAAACAAATTAAACTCTTACTCTATTTCTTTACGATTATGTGTGAA
1 ACACGACCATAACGGTGTTAAAACAAATTAAACTCTTACTCTATTTCTTTACGATTATGTGTGAA
*
5636 ACACGGCCATAACGGTGTTAAAACAAATTAAACTCTTACTCTATTTCTTTACGATTATGTGTGAA
1 ACACGACCATAACGGTGTTAAAACAAATTAAACTCTTACTCTATTTCTTTACGATTATGTGTGAA
5701 A
1 A
5702 TTTTTCCGGG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (65 bp):
ACACGACCATAACGGTGTTAAAACAAATTAAACTCTTACTCTATTTCTTTACGATTATGTGTGAA
Found at i:10470 original size:59 final size:56
Alignment explanation
Indices: 10317--10477 Score: 173
Period size: 59 Copynumber: 2.8 Consensus size: 56
10307 TATATTATGA
* **
10317 TTTTTATT-AATTCATATTTTAATAATAATTATATTAAAAATGTTGTTAAATTATATAT
1 TTTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAATATAATTAAATTATATAT
* * * *
10375 TATTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATTATTTTTTAT
1 TTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATTA---TATAT
*
10434 TTTTTATTAAATTATATTTAATAATAATCT-TATTAAAATTTAAT
1 TTTTTATTAAATTATATTTAATAATAAT-TATATTAAAATATAAT
10478 AATAATAATC
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
56 14 0.16
57 17 0.20
58 9 0.10
59 46 0.53
60 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (56 bp):
TTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATTATATAT
Found at i:10677 original size:16 final size:16
Alignment explanation
Indices: 10658--10703 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
10648 ATTATAGTTA
*
10658 TATTACATTACAGCTT
1 TATTCCATTACAGCTT
*
10674 TATTCCATTACAACTT
1 TATTCCATTACAGCTT
10690 TATTCCATTACAGC
1 TATTCCATTACAGC
10704 GAACCAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.41
Consensus pattern (16 bp):
TATTCCATTACAGCTT
Found at i:10970 original size:59 final size:58
Alignment explanation
Indices: 10840--10970 Score: 131
Period size: 59 Copynumber: 2.2 Consensus size: 58
10830 ACCTTTAATT
* * * * *
10840 TTTATTTATTTTTTTATTTTAATCTTAATTTAAAATATTAACAAATTTAAATCTCAATA
1 TTTATTT-TTTTATTAATTTAATCTTAATTTAAAATATTAACAAATTTAAATATAAAAA
* * *
10899 TTTATATATTTTATTAATTTAATCTTGATTTCAAATATTAA-AAA-TTAAATAAATAAAAA
1 TTTAT-TTTTTTATTAATTTAATCTTAATTTAAAATATTAACAAATTTAAAT--ATAAAAA
10958 TTATATTTTTTTA
1 TT-TATTTTTTTA
10971 GAAAACCCCA
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
57 6 0.10
58 3 0.05
59 46 0.78
60 4 0.07
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.53
Consensus pattern (58 bp):
TTTATTTTTTTATTAATTTAATCTTAATTTAAAATATTAACAAATTTAAATATAAAAA
Found at i:11470 original size:56 final size:58
Alignment explanation
Indices: 11371--11488 Score: 159
Period size: 56 Copynumber: 2.1 Consensus size: 58
11361 GTGGACGCTT
* * *
11371 TTTTCAGCATGTTTTCACAGTGGGATATTTGTCATTTTGGGCCTTAGGATTTAGGGGG
1 TTTTCAGCATGTTTTCACAGTGGGATATTTGTCATTCTAGGCCTTAGGATTTAAGGGG
* * * *
11429 TTTTCAGCGTGTTTTCA-A-TGGGATATTTGTTATTCTAGGCCTTAGGGTTTAAGGTG
1 TTTTCAGCATGTTTTCACAGTGGGATATTTGTCATTCTAGGCCTTAGGATTTAAGGGG
11485 TTTT
1 TTTT
11489 TGGTGTAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
56 36 0.68
57 1 0.02
58 16 0.30
ACGTcount: A:0.17, C:0.11, G:0.27, T:0.45
Consensus pattern (58 bp):
TTTTCAGCATGTTTTCACAGTGGGATATTTGTCATTCTAGGCCTTAGGATTTAAGGGG
Found at i:11500 original size:27 final size:25
Alignment explanation
Indices: 11470--11562 Score: 113
Period size: 27 Copynumber: 3.7 Consensus size: 25
11460 ATTCTAGGCC
11470 TTAGGGTTTAAGGTGTTTTTGGTGTAA
1 TTAGGGTTT-AGG-GTTTTTGGTGTAA
*
11497 TTAGGGTTTAGGG-TTTT--T-AAA
1 TTAGGGTTTAGGGTTTTTGGTGTAA
11518 TTAGGGTTTAAGGTGTTTTTGGTGTAA
1 TTAGGGTTT-AGG-GTTTTTGGTGTAA
11545 TTAGGGTTTAGGGTTTTT
1 TTAGGGTTTAGGGTTTTT
11563 AAATTAGGGT
Statistics
Matches: 58, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
21 11 0.19
22 4 0.07
23 1 0.02
24 8 0.14
25 7 0.12
26 7 0.12
27 20 0.34
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.49
Consensus pattern (25 bp):
TTAGGGTTTAGGGTTTTTGGTGTAA
Found at i:11524 original size:48 final size:48
Alignment explanation
Indices: 11470--11584 Score: 212
Period size: 48 Copynumber: 2.4 Consensus size: 48
11460 ATTCTAGGCC
11470 TTAGGGTTTAAGGTGTTTTTGGTGTAATTAGGGTTTAGGGTTTTTAAA
1 TTAGGGTTTAAGGTGTTTTTGGTGTAATTAGGGTTTAGGGTTTTTAAA
11518 TTAGGGTTTAAGGTGTTTTTGGTGTAATTAGGGTTTAGGGTTTTTAAA
1 TTAGGGTTTAAGGTGTTTTTGGTGTAATTAGGGTTTAGGGTTTTTAAA
* *
11566 TTAGGGTTTATGGTATTTT
1 TTAGGGTTTAAGGTGTTTT
11585 AAATTAGGTT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (48 bp):
TTAGGGTTTAAGGTGTTTTTGGTGTAATTAGGGTTTAGGGTTTTTAAA
Found at i:11586 original size:22 final size:21
Alignment explanation
Indices: 11495--11619 Score: 142
Period size: 22 Copynumber: 5.5 Consensus size: 21
11485 TTTTTGGTGT
11495 AATTAGGGTTTAGGGTTTTTA
1 AATTAGGGTTTAGGGTTTTTA
*
11516 AATTAGGGTTTAAGGTGTTTTTGGTGT
1 AATTAGGGTTT-AGG-G-TTTT--T-A
11543 AATTAGGGTTTAGGGTTTTTA
1 AATTAGGGTTTAGGGTTTTTA
*
11564 AATTAGGGTTTATGGTATTTTA
1 AATTAGGGTTTAGGGT-TTTTA
*
11586 AATTAGGTTTTAGGGTATTTTA
1 AATTAGGGTTTAGGGT-TTTTA
11608 AATTAAGGGTTT
1 AATT-AGGGTTT
11620 TGGAAAATTA
Statistics
Matches: 90, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
21 26 0.29
22 33 0.37
23 7 0.08
24 8 0.09
25 1 0.01
26 4 0.04
27 11 0.12
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
AATTAGGGTTTAGGGTTTTTA
Found at i:12382 original size:25 final size:25
Alignment explanation
Indices: 12353--12402 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
12343 AAGTTGCAAC
*
12353 AAAAGAAATTGAAGAAGTTCAGAAG
1 AAAAGAAATTAAAGAAGTTCAGAAG
*
12378 AAAAGAAATTAAAGAAGTTGAGAAG
1 AAAAGAAATTAAAGAAGTTCAGAAG
12403 GTATAAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.24, T:0.16
Consensus pattern (25 bp):
AAAAGAAATTAAAGAAGTTCAGAAG
Found at i:17186 original size:37 final size:36
Alignment explanation
Indices: 17133--17370 Score: 271
Period size: 37 Copynumber: 6.4 Consensus size: 36
17123 TAAATCGGGT
* *
17133 TATGTGCCTAGTAGGCTTCGTCCCAATGTATTCAGGC
1 TATGTGCCTAGTAGGCTTCGTGCCAGTGTATTC-GGC
* *
17170 TATGTGCCTAGGAGGCTTCGTGCCGGTGTATTCGAGC
1 TATGTGCCTAGTAGGCTTCGTGCCAGTGTATTCG-GC
** *
17207 TATGTGCCTAGTAGGCTTCGTGCTGGTGTATTCGGG
1 TATGTGCCTAGTAGGCTTCGTGCCAGTGTATTCGGC
** * *
17243 TCATGTGCCTAGTAGGCTTCAAGCCGGAGTATTCGGGC
1 T-ATGTGCCTAGTAGGCTTCGTGCCAGTGTATTC-GGC
*
17281 TATGTGCCT-GATAGGCTTCGTGCCAGTGTCTTCGGGC
1 TATGTGCCTAG-TAGGCTTCGTGCCAGTGTATTC-GGC
* *
17318 TATGTGCTTAGTAGGCTTCGTGCTAGTGTATTCGGAC
1 TATGTGCCTAGTAGGCTTCGTGCCAGTGTATTCGG-C
*
17355 TATGTGTCTAGTAGGC
1 TATGTGCCTAGTAGGC
17371 CTTTGAGTCG
Statistics
Matches: 173, Mismatches: 22, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
36 6 0.03
37 163 0.94
38 4 0.02
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.33
Consensus pattern (36 bp):
TATGTGCCTAGTAGGCTTCGTGCCAGTGTATTCGGC
Found at i:17321 original size:111 final size:111
Alignment explanation
Indices: 17127--17370 Score: 316
Period size: 111 Copynumber: 2.2 Consensus size: 111
17117 TTCAAGTAAA
*
17127 TCGGGTTATGTGCCTAGTAGGCTTCGTCCCAATGTATTCAGGCTATGTGCCTAGGAGGCTTCGTG
1 TCGGGTCATGTGCCTAGTAGGCTTCGTCCCAATGTATTCAGGCTATGTGCCTAGGAGGCTTCGTG
* *
17192 CCGGTGTATTCGAGCTATGTGCCTAGTAGGCTTCGTGCTGGTGTAT
66 CCAGTGTATTCGAGCTATGTGCCTAGTAGGCTTCGTGCTAGTGTAT
** * *
17238 TCGGGTCATGTGCCTAGTAGGCTTCAAG-CCGGA-GTATTCGGGCTATGTGCCT-GATAGGCTTC
1 TCGGGTCATGTGCCTAGTAGGCTTC--GTCCCAATGTATTCAGGCTATGTGCCTAG-GAGGCTTC
* * *
17300 GTGCCAGTGTCTTCGGGCTATGTGCTTAGTAGGCTTCGTGCTAGTGTAT
63 GTGCCAGTGTATTCGAGCTATGTGCCTAGTAGGCTTCGTGCTAGTGTAT
* *
17349 TC-GGACTATGTGTCTAGTAGGC
1 TCGGGTC-ATGTGCCTAGTAGGC
17371 CTTTGAGTCG
Statistics
Matches: 117, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
110 4 0.03
111 109 0.93
112 3 0.03
113 1 0.01
ACGTcount: A:0.15, C:0.20, G:0.32, T:0.33
Consensus pattern (111 bp):
TCGGGTCATGTGCCTAGTAGGCTTCGTCCCAATGTATTCAGGCTATGTGCCTAGGAGGCTTCGTG
CCAGTGTATTCGAGCTATGTGCCTAGTAGGCTTCGTGCTAGTGTAT
Found at i:18637 original size:396 final size:399
Alignment explanation
Indices: 18023--19149 Score: 1956
Period size: 405 Copynumber: 2.8 Consensus size: 399
18013 TATGAGATTA
*
18023 GTATCGGTAGAACTTTTAATGTTCCGATAGTTTACCGCTGTGTTTTTACCTGTTTAATTATCATG
1 GTATC-GTAGAACTTTTAATGTTCCGATAGTTTACCGTTGTGTTTTTACCTGTTTAATTATCATG
* *
18088 TGTTCTACTGACACTTACCAGTTCTTGTATCGGTAGAGCTCTCTTTACTTACAATAATTTGTATG
65 TGTTCTACCGATACTTACCAGTTCTTGTATCGGTAGAGCTCTCTTTACTTACAATAATTTGTATG
* *
18153 ATAATCTTGTATTTCTAGCATATGTTCGCTCAATTATTTTAAACTTTTAAAAATCAGTTTTGTGC
130 ATAATCTTGTATTTCTAGCATATGTTCGCTCAATTATTTTAAACTTTTAAAGATCAGTTTTATGC
18218 TAATGAAAGGTTGAAATGTTAATTATTGTGATCTATGAATGATTTGTGAAATAAAGATTTATTCA
195 TAATGAAAGGTTGAAATGTTAATTATTGTGATCTATGAATGATTTGTGAAATAAAGATTTATTCA
*
18283 AATACTTGAATTTCGTTATTGTGTCGAGATAGGGGTGTTACAACAATTGCCTATATATCATCGGT
260 AATACTCGAATTTCGTTATTGTGTCGAGATAGGGGTGTTACAACAATTGCCTATATATCATCGGT
18348 TC-TA-G-G-TTTGCTTACTGAGGTTTGAGGTATCGGTAGTCGCTTGTTTAGGTATCGGTAGATT
325 TCGTATGAGTTTTGCTTACTGAGGTTTGAGGTATCGGTAGTCGCTTGTTTAGGTATCGGTAGATT
18409 TAAACCCGAT
390 TAAACCCGAT
* * *
18419 GTATCGTTAGAACTTTTAATGTTTCAATAGTTTACCATTGTGTTTTTACCTGTTTAATTATCATG
1 GTATCG-TAGAACTTTTAATGTTCCGATAGTTTACCGTTGTGTTTTTACCTGTTTAATTATCATG
* *
18484 TGTTCAACCGATACTTACCGGTTCTTGTATCGGTAGAGCTCTCTTTACTTACAATAATTTGTATG
65 TGTTCTACCGATACTTACCAGTTCTTGTATCGGTAGAGCTCTCTTTACTTACAATAATTTGTATG
18549 ATAATCTTGTATTTCTAGCATATGTTCGCTCAATTATTTTAAACTTTTAAAGATCAGTTTTATGC
130 ATAATCTTGTATTTCTAGCATATGTTCGCTCAATTATTTTAAACTTTTAAAGATCAGTTTTATGC
18614 TAATGAAAGGTTGAAATGTTAATTATTGTGATCTATGAATGATTTGTGAAATAAAGATTTATTCA
195 TAATGAAAGGTTGAAATGTTAATTATTGTGATCTATGAATGATTTGTGAAATAAAGATTTATTCA
* * *
18679 AATACTCGAATTTCGTTAGTGTGTTGAGATAGGGGTGTTACAACAATTGCCTATATATCATCAGT
260 AATACTCGAATTTCGTTATTGTGTCGAGATAGGGGTGTTACAACAATTGCCTATATATCATCGGT
18744 TCTAGGTTATGTAGTTTTGCTTACTGAGGTTTGAGGTATCGGTAGTCGCTTGTTTAGGTATCGGT
325 TC---G-TATG-AGTTTTGCTTACTGAGGTTTGAGGTATCGGTAGTCGCTTGTTTAGGTATCGGT
*
18809 AGATTTAGACCCGAT
385 AGATTTAAACCCGAT
18824 GTATCAGTAGAACTTTTAATGTTCCGATAGTTTACCGTTGTGTTTTTACCTGTTTAATTATCATG
1 GTATC-GTAGAACTTTTAATGTTCCGATAGTTTACCGTTGTGTTTTTACCTGTTTAATTATCATG
18889 TGTTCTACCGATACTTACCAGTTCTTGTATCGGTAGAGCTCTCTTTACTTACAATAATTTGTATG
65 TGTTCTACCGATACTTACCAGTTCTTGTATCGGTAGAGCTCTCTTTACTTACAATAATTTGTATG
* * *
18954 ATAATCTTGTATTTCTAGCATATGTTCGCTCAATTATTTTAAAGTCTTAAAGATCAGTTTTATGA
130 ATAATCTTGTATTTCTAGCATATGTTCGCTCAATTATTTTAAACTTTTAAAGATCAGTTTTATGC
19019 TAATGAAAGGTTGAAATGTTAATTATTGTGATCTATGAATGATTTGTGAAATAAAGATTTATTCA
195 TAATGAAAGGTTGAAATGTTAATTATTGTGATCTATGAATGATTTGTGAAATAAAGATTTATTCA
* * * *
19084 AATACTCGAATTTTGTTTTTGTGTCAAGATAGAGGTGTTACAACAATTGCCTATATATCATCGGT
260 AATACTCGAATTTCGTTATTGTGTCGAGATAGGGGTGTTACAACAATTGCCTATATATCATCGGT
19149 T
325 T
19150 GAGTCGGAGT
Statistics
Matches: 690, Mismatches: 30, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
395 1 0.00
396 311 0.45
401 2 0.00
402 1 0.00
404 1 0.00
405 373 0.54
406 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (399 bp):
GTATCGTAGAACTTTTAATGTTCCGATAGTTTACCGTTGTGTTTTTACCTGTTTAATTATCATGT
GTTCTACCGATACTTACCAGTTCTTGTATCGGTAGAGCTCTCTTTACTTACAATAATTTGTATGA
TAATCTTGTATTTCTAGCATATGTTCGCTCAATTATTTTAAACTTTTAAAGATCAGTTTTATGCT
AATGAAAGGTTGAAATGTTAATTATTGTGATCTATGAATGATTTGTGAAATAAAGATTTATTCAA
ATACTCGAATTTCGTTATTGTGTCGAGATAGGGGTGTTACAACAATTGCCTATATATCATCGGTT
CGTATGAGTTTTGCTTACTGAGGTTTGAGGTATCGGTAGTCGCTTGTTTAGGTATCGGTAGATTT
AAACCCGAT
Found at i:20796 original size:22 final size:22
Alignment explanation
Indices: 20755--20841 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 22
20745 ATTCACATAA
* *
20755 AAATTATAAAAACT--ATTAATG
1 AAATTATAAAAA-TAAAATAATT
20776 AAATTATAAAAATAAAATAATT
1 AAATTATAAAAATAAAATAATT
* *
20798 AAATAATATTAAAAA-ATATTAATT
1 AAAT--TA-TAAAAATAAAATAATT
*
20822 AAATTATTAAAATAAAATAA
1 AAATTATAAAAATAAAATAA
20842 AATAATAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.02
21 17 0.32
22 16 0.30
24 13 0.25
25 6 0.11
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (22 bp):
AAATTATAAAAATAAAATAATT
Found at i:20810 original size:10 final size:10
Alignment explanation
Indices: 20795--20871 Score: 54
Period size: 10 Copynumber: 7.7 Consensus size: 10
20785 AAATAAAATA
20795 ATTAAATAAT
1 ATTAAATAAT
*
20805 ATTAAAAAAT
1 ATTAAATAAT
*
20815 ATTAATTAAATT
1 ATTAAAT-AA-T
20827 ATTAAAATAA-
1 ATT-AAATAAT
*
20837 AAT-AA-AAT
1 ATTAAATAAT
*
20845 AATAAATAAT
1 ATTAAATAAT
20855 ATTAAATTAA-
1 ATTAAA-TAAT
20865 ATTAAAT
1 ATTAAAT
20872 TAACTCTTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
7 2 0.04
8 5 0.09
9 3 0.06
10 30 0.56
11 5 0.09
12 6 0.11
13 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATTAAATAAT
Found at i:20828 original size:46 final size:48
Alignment explanation
Indices: 20761--20860 Score: 141
Period size: 46 Copynumber: 2.1 Consensus size: 48
20751 ATAAAAATTA
*
20761 TAAAAACTATTAATGAAATTATAAAAATAAAAT-AAT-TAAATAATAT
1 TAAAAAATATTAATGAAATTATAAAAATAAAATAAATATAAATAATAT
* *
20807 TAAAAAATATTAATTAAATTATTAAAATAAAATAAAATAATAAATAATAT
1 TAAAAAATATTAATGAAATTATAAAAATAAAAT-AAAT-ATAAATAATAT
20857 TAAA
1 TAAA
20861 TTAAATTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
46 30 0.64
48 3 0.06
50 14 0.30
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (48 bp):
TAAAAAATATTAATGAAATTATAAAAATAAAATAAATATAAATAATAT
Found at i:21033 original size:23 final size:23
Alignment explanation
Indices: 21005--21058 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
20995 CAAAGAGAGC
21005 TTTAGAGAGAAATTTGTGTGGAA
1 TTTAGAGAGAAATTTGTGTGGAA
21028 TTTAGAGAGAAATTTGTGTGGAA
1 TTTAGAGAGAAATTTGTGTGGAA
*
21051 TTTTGAGA
1 TTTAGAGA
21059 ACAAAGGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (23 bp):
TTTAGAGAGAAATTTGTGTGGAA
Found at i:22520 original size:26 final size:26
Alignment explanation
Indices: 22484--22555 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
22474 AGAGTCTAAA
22484 AAAATTGAAAAGTTTTAATTATCAAG
1 AAAATTGAAAAGTTTTAATTATCAAG
22510 AAAATTGAAAAGTTTTAATTATCAAG
1 AAAATTGAAAAGTTTTAATTATCAAG
22536 AAAATTGAAAAGTTTTAATT
1 AAAATTGAAAAGTTTTAATT
22556 TAAGTAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (26 bp):
AAAATTGAAAAGTTTTAATTATCAAG
Found at i:23194 original size:63 final size:61
Alignment explanation
Indices: 23122--23262 Score: 151
Period size: 62 Copynumber: 2.3 Consensus size: 61
23112 ATTTTTTTTT
* **
23122 AAATTCTCATTAAG-CTCTTTAAAAGTTCTAAAATATT-TGATTAGATCCTTTTAAAATTTTGAA
1 AAATTCTCATTAAGCCT-TTTAAAA-TTCTAAAAT-TTATAATTAGATCCTTCGAAAATTTT-AA
* * * *
23185 AAATTCTCATTAATCCTTTTAAAATTTTGAAATTTATAATTAGATCCTTCGAAAATTTTTA
1 AAATTCTCATTAAGCCTTTTAAAATTCTAAAATTTATAATTAGATCCTTCGAAAATTTTAA
* *
23246 AAATTCTTATTAGGCCT
1 AAATTCTCATTAAGCCT
23263 CTCAAATTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
61 17 0.26
62 27 0.41
63 20 0.30
64 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (61 bp):
AAATTCTCATTAAGCCTTTTAAAATTCTAAAATTTATAATTAGATCCTTCGAAAATTTTAA
Found at i:23203 original size:31 final size:31
Alignment explanation
Indices: 23122--23216 Score: 106
Period size: 31 Copynumber: 3.0 Consensus size: 31
23112 ATTTTTTTTT
* *
23122 AAATTCTCATTAA-GCTCTTTAAAAGTTCT-AA
1 AAATTCTCATTAATCCT-TTTAAAA-TTTTGAA
*
23153 AATATT-TGATTAGATCCTTTTAAAATTTTGAA
1 AA-ATTCTCATTA-ATCCTTTTAAAATTTTGAA
23185 AAATTCTCATTAATCCTTTTAAAATTTTGAA
1 AAATTCTCATTAATCCTTTTAAAATTTTGAA
23216 A
1 A
23217 TTTATAATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
31 33 0.60
32 20 0.36
33 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (31 bp):
AAATTCTCATTAATCCTTTTAAAATTTTGAA
Found at i:23258 original size:31 final size:31
Alignment explanation
Indices: 23139--23258 Score: 109
Period size: 31 Copynumber: 3.8 Consensus size: 31
23129 CATTAAGCTC
* *
23139 TTTAAAAGTTCTAAAATATT-TGATTAGATCCT
1 TTTAAAA-TTTTAAAA-ATTCTAATTAGATCCT
*
23171 TTTAAAATTTTGAAAAATTCTCATTA-ATCCT
1 TTTAAAATTTT-AAAAATTCTAATTAGATCCT
* * *
23202 TTTAAAATTTTGAAATTTATAATTAGATCCT
1 TTTAAAATTTTAAAAATTCTAATTAGATCCT
** * *
23233 TCGAAAATTTTTAAAATTCTTATTAG
1 TTTAAAATTTTAAAAATTCTAATTAG
23259 GCCTCTCAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
30 10 0.14
31 47 0.64
32 16 0.22
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (31 bp):
TTTAAAATTTTAAAAATTCTAATTAGATCCT
Found at i:31006 original size:26 final size:24
Alignment explanation
Indices: 30979--31042 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 24
30969 TAGCGCTCTA
*
30979 AAAATATGTTATCTT-AATTTTTGGT
1 AAAAT-TGTTAT-TTAAATTTATGGT
31004 AAAATTGTTATTTAAAATTTATGGT
1 AAAATTGTTATTT-AAATTTATGGT
31029 AAAATTTGTTATTT
1 AAAA-TTGTTATTT
31043 TTTATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
23 2 0.06
24 6 0.17
25 18 0.51
26 9 0.26
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.52
Consensus pattern (24 bp):
AAAATTGTTATTTAAATTTATGGT
Found at i:31022 original size:25 final size:26
Alignment explanation
Indices: 30994--31042 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
30984 ATGTTATCTT
*
30994 AATTTTTGGTAAAA-TTGTTATTTAA
1 AATTTATGGTAAAATTTGTTATTTAA
31019 AATTTATGGTAAAATTTGTTATTT
1 AATTTATGGTAAAATTTGTTATTT
31043 TTTATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (26 bp):
AATTTATGGTAAAATTTGTTATTTAA
Found at i:31792 original size:21 final size:21
Alignment explanation
Indices: 31760--31809 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
31750 ACTCGATTGT
31760 TTTTAA-TTATTTT-TTTTTG
1 TTTTAATTTATTTTATTTTTG
31779 TTCTTAATTTATTTTAATTTTT-
1 TT-TTAATTTATTTT-ATTTTTG
31801 TTTTAATTT
1 TTTTAATTT
31810 TTATAAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 2 0.07
20 4 0.15
21 14 0.52
22 2 0.07
23 5 0.19
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTAATTTATTTTATTTTTG
Found at i:32294 original size:16 final size:16
Alignment explanation
Indices: 32269--32300 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32259 AAAATAATTT
*
32269 TAAAACAAATTAAAAA
1 TAAAAAAAATTAAAAA
32285 TAAAAAAAATTAAAAA
1 TAAAAAAAATTAAAAA
32301 CAATCGAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAAAAAATTAAAAA
Found at i:32377 original size:189 final size:188
Alignment explanation
Indices: 32056--32614 Score: 801
Period size: 189 Copynumber: 3.0 Consensus size: 188
32046 ATATGAAGGC
* *
32056 AAGGATTAGTGCAAAAATAATTTTAAAATAAATTAAAAACAACAAAAAAATAAAAATAATCAGGT
1 AAGGATTAGTGCAAAAATAATTTTAAAATAAATTAAAAACAA-AAAAAATTAAAAACAATCAGGT
* * *
32121 ATACCCTAAACTCGTATTTTACTAGTATGTGAACAGTAGTGTCACCTCTTAACT-GGATACCACC
65 ATACCCTAAACTCGTATTTTAC-AGTATGTGAACAGTGGTGTCGCCTCTTAACTAGG-CACCACC
32185 AATAAAATATTATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAATTTGTGTCAA
128 AATAAAATATTATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAATTTGTGTCAA
* *
32246 AAGGATTAGTGCAAAAATAATTTTAAAACAAATTAAAAATAAAAAAAATTAAAAACAATC-GAGT
1 AAGGATTAGTGCAAAAATAATTTTAAAATAAATTAAAAACAAAAAAAATTAAAAACAATCAG-GT
* * * *
32310 ATATCTTAAACTCGTATTTTATCAGTATGTGAACAATGGTGTCGTCTCTTAACTAGGCACCACCA
65 ATACCCTAAACTCGTATTTTA-CAGTATGTGAACAGTGGTGTCGCCTCTTAACTAGGCACCACCA
* *
32375 ATAAAATATTATTATTTTTTATTTTATAATTTAAAAATAT-A-AAAAAAA-TTGTGTTAC
129 ATAAAATATTATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAATTTGTGTCAA
*
32432 AAGGATTAGTACAAAAATAATTTTAAAATAAATTAAAAACAACAAAAATAAATTAAAAACAATCA
1 AAGGATTAGTGCAAAAATAATTTTAAAATAAATT--AAA-AACAAAAA-AAATTAAAAACAATCA
* * * *
32497 GGTACACCCTAAACTTGTATTTTACCAGTATGTGAATAGTGGTGCCGCCTCTTAACTAGGCACCA
62 GGTATACCCTAAACTCGTATTTTA-CAGTATGTGAACAGTGGTGTCGCCTCTTAACTAGGCACCA
*
32562 CAAAT-AAA-A-TATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAATTT
126 CCAATAAAATATTATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAATTT
32615 TTAAAAATTG
Statistics
Matches: 332, Mismatches: 26, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
186 39 0.12
187 38 0.11
188 7 0.02
189 128 0.39
190 119 0.36
191 1 0.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (188 bp):
AAGGATTAGTGCAAAAATAATTTTAAAATAAATTAAAAACAAAAAAAATTAAAAACAATCAGGTA
TACCCTAAACTCGTATTTTACAGTATGTGAACAGTGGTGTCGCCTCTTAACTAGGCACCACCAAT
AAAATATTATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAATTTGTGTCAA
Found at i:32481 original size:20 final size:20
Alignment explanation
Indices: 32456--32493 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
32446 AAATAATTTT
32456 AAAATAAATTAAAAACAACA
1 AAAATAAATTAAAAACAACA
32476 AAAATAAATTAAAAACAA
1 AAAATAAATTAAAAACAA
32494 TCAGGTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAATAAATTAAAAACAACA
Found at i:32611 original size:190 final size:192
Alignment explanation
Indices: 32055--32611 Score: 807
Period size: 190 Copynumber: 3.0 Consensus size: 192
32045 GATATGAAGG
*
32055 CAAGGATTAGTGCAAAAATAATTTTAAAATAAATTAAAAACAAC-AAAAAAA-TAAAAATAATCA
1 CAAGGATTAGTGCAAAAATAATTTTAAAATAAATTAAAAACAACAAAAAAAATTAAAAACAATCA
* * * *
32118 GGTATACCCTAAACTCGTATTTTACTAGTATGTGAACAGTAGTGTCACCTCTTAACT-GGATACC
66 GGTATACCCTAAACTCGTATTTTACCAGTATGTGAACAGTGGTGTCGCCTCTTAACTAGG-CACC
*
32182 ACCAATAAAATATTATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAATTTGTGTCA
130 ACCAATAAAATATTATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAAATTGTGTCA
* * *
32245 AAAGGATTAGTGCAAAAATAATTTTAAAACAAATT--AAA-AATAAAAAAAATTAAAAACAATC-
1 CAAGGATTAGTGCAAAAATAATTTTAAAATAAATTAAAAACAACAAAAAAAATTAAAAACAATCA
* * * * *
32306 GAGTATATCTTAAACTCGTATTTTATCAGTATGTGAACAATGGTGTCGTCTCTTAACTAGGCACC
66 G-GTATACCCTAAACTCGTATTTTACCAGTATGTGAACAGTGGTGTCGCCTCTTAACTAGGCACC
*
32371 ACCAATAAAATATTATTATTTTTTATTTTATAATTT-AAAA-AT-ATAAAAAAAATTGTGTTA
130 ACCAATAAAATATTATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAAATTGTGTCA
*
32431 CAAGGATTAGTACAAAAATAATTTTAAAATAAATTAAAAACAACAAAAATAAATTAAAAACAATC
1 CAAGGATTAGTGCAAAAATAATTTTAAAATAAATTAAAAACAACAAAAA-AAATTAAAAACAATC
* * * *
32496 AGGTACACCCTAAACTTGTATTTTACCAGTATGTGAATAGTGGTGCCGCCTCTTAACTAGGCACC
65 AGGTATACCCTAAACTCGTATTTTACCAGTATGTGAACAGTGGTGTCGCCTCTTAACTAGGCACC
*
32561 ACAAAT-AAA-A-TATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAA
130 ACCAATAAAATATTATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAA
32612 TTTTTAAAAA
Statistics
Matches: 326, Mismatches: 29, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
186 48 0.15
187 27 0.08
188 23 0.07
189 109 0.33
190 118 0.36
191 1 0.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (192 bp):
CAAGGATTAGTGCAAAAATAATTTTAAAATAAATTAAAAACAACAAAAAAAATTAAAAACAATCA
GGTATACCCTAAACTCGTATTTTACCAGTATGTGAACAGTGGTGTCGCCTCTTAACTAGGCACCA
CCAATAAAATATTATTATTTTTTATTTTATAATTTAAAAATATAATAAAAAAAATTGTGTCA
Found at i:33607 original size:13 final size:13
Alignment explanation
Indices: 33585--33617 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33575 TAACTATTTT
*
33585 TAAATAATAATTA
1 TAAATTATAATTA
33598 TAAATTATAATTA
1 TAAATTATAATTA
33611 T-AATTAT
1 TAAATTAT
33618 CACAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATTATAATTA
Found at i:34769 original size:22 final size:22
Alignment explanation
Indices: 34725--34770 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
34715 TTTTGAGCAA
*
34725 TTTAACTTTTTATTTTATGTTT
1 TTTAACTTTTTATTTTATATTT
*
34747 TTTAACTTTTT-TTTGTTTATTT
1 TTTAACTTTTTATTT-TATATTT
34769 TT
1 TT
34771 CATTCTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTAACTTTTTATTTTATATTT
Found at i:36834 original size:23 final size:25
Alignment explanation
Indices: 36797--36842 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
36787 TATAATATAA
*
36797 TTTATTTTTTAAATTTAT-TTCATG
1 TTTATTTTATAAATTTATGTTCATG
36821 TTTATTTTAT-AATTTATGTTCA
1 TTTATTTTATAAATTTATGTTCA
36843 GTAACATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTATTTTATAAATTTATGTTCATG
Found at i:38000 original size:50 final size:50
Alignment explanation
Indices: 37920--38019 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
37910 ATTAAACAAT
37920 GGGTTTGTGGAGGAAATTTACATGCGGACTTAAGCATTTATTTCTTTTAC
1 GGGTTTGTGGAGGAAATTTACATGCGGACTTAAGCATTTATTTCTTTTAC
*
37970 GGGTTTGTGGAGGAAATTTACATGCTGACTTAAGCATTTATTTCTTTTAC
1 GGGTTTGTGGAGGAAATTTACATGCGGACTTAAGCATTTATTTCTTTTAC
38020 CTGTGAAGCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (50 bp):
GGGTTTGTGGAGGAAATTTACATGCGGACTTAAGCATTTATTTCTTTTAC
Found at i:40267 original size:12 final size:13
Alignment explanation
Indices: 40243--40269 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
40233 AGTTTAACAT
40243 TATTTTTGAAAAA
1 TATTTTTGAAAAA
40256 TATTTTTGAAAAA
1 TATTTTTGAAAAA
40269 T
1 T
40270 GCTTTGAAAA
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:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTTTTGAAAAA
Found at i:40288 original size:26 final size:26
Alignment explanation
Indices: 40247--40307 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
40237 TAACATTATT
* *
40247 TTTG-AAAAATATTTTTGAAAAATGC
1 TTTGAAAAAATATTTTTAAAAAATAC
40272 TTTGAAAAAAT-TATTTTAAAAAATAC
1 TTTGAAAAAATAT-TTTTAAAAAATAC
*
40298 TTTTAAAAAA
1 TTTGAAAAAA
40308 CTTGATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (26 bp):
TTTGAAAAAATATTTTTAAAAAATAC
Found at i:40292 original size:12 final size:13
Alignment explanation
Indices: 40246--40307 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
40236 TTAACATTAT
* *
40246 TTTTGAAAAATAT
1 TTTTAAAAAATAC
* *
40259 TTTTGAAAAATGC
1 TTTTAAAAAATAC
*
40272 TTTGAAAAAATTA-
1 TTTTAAAAAA-TAC
40285 TTTTAAAAAATAC
1 TTTTAAAAAATAC
40298 TTTTAAAAAA
1 TTTTAAAAAA
40308 CTTGATTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 2 0.05
13 38 0.93
14 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.40
Consensus pattern (13 bp):
TTTTAAAAAATAC
Found at i:43714 original size:24 final size:24
Alignment explanation
Indices: 43661--43717 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
43651 ATAGGATTAT
43661 TATTAA-ATATAATTTAATAAAAA
1 TATTAATATATAATTTAATAAAAA
* *
43684 TAATAATATATAATTTAATAAAAT
1 TATTAATATATAATTTAATAAAAA
*
43708 TCTTAATATA
1 TATTAATATA
43718 ATTATTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 5 0.17
24 24 0.83
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TATTAATATATAATTTAATAAAAA
Found at i:46422 original size:29 final size:29
Alignment explanation
Indices: 46390--46671 Score: 141
Period size: 29 Copynumber: 9.6 Consensus size: 29
46380 GGAAAATTGG
* *
46390 TAATTTTT-GAAAGGTTCGGGGTTAAAATA
1 TAATTTTTGGAAA-GTTCGAGGTTAAAAAA
46419 TAATTTTTGGAAAGTTCGAGGTTAAAAAA
1 TAATTTTTGGAAAGTTCGAGGTTAAAAAA
* * *
46448 TAATTTTTTTGGAAACTTCGACG-TCAAAAA
1 TAA--TTTTTGGAAAGTTCGAGGTTAAAAAA
* * * * * *
46478 TAGAATTTTGAAAAATTCGGGGGTAAAAAGG
1 TA-ATTTTTGGAAAGTTCGAGGTTAAAAA-A
* * * *
46509 TAATTTTTGGAAAATTCGGGGGTCAAAAA
1 TAATTTTTGGAAAGTTCGAGGTTAAAAAA
* * *
46538 TGGAA-TTTTGGAAAATTCGAGGGTAAAAATG
1 T--AATTTTTGGAAAGTTCGAGGTTAAAAA-A
* * *
46569 TAATTTTTGGAAACTTTGAGG-TGAAAAA
1 TAATTTTTGGAAAGTTCGAGGTTAAAAAA
* *
46597 TGGAA-TTATGGAAAGTTC-A-GTGTAAAAATG
1 T--AATTTTTGGAAAGTTCGAGGT-TAAAAA-A
* * *
46627 TAATTTTCGGAAAATTAGAGGTT-AAAAA
1 TAATTTTTGGAAAGTTCGAGGTTAAAAAA
46655 TGCAA-TTTTGGAAAGTT
1 T--AATTTTTGGAAAGTT
46672 TAGGGGTAAA
Statistics
Matches: 198, Mismatches: 35, Indels: 40
0.73 0.13 0.15
Matches are distributed among these distances:
27 1 0.01
28 5 0.03
29 84 0.42
30 84 0.42
31 24 0.12
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (29 bp):
TAATTTTTGGAAAGTTCGAGGTTAAAAAA
Found at i:46505 original size:60 final size:59
Alignment explanation
Indices: 46388--46732 Score: 279
Period size: 59 Copynumber: 5.8 Consensus size: 59
46378 GGGGAAAATT
* * * * * *
46388 GGTAATTTTT-GAAAGGTTCGGGGTTAAAATATA-ATTTTTGGAAAGTTCGAGGTTAAAAA
1 GGTAATTTTTGGAAA-CTTCGAGGTCAAAA-ATAGAATTTTGGAAAATTCGAGGGTAAAAA
* * * *
46447 -ATAATTTTTTTGGAAACTTCGACGTCAAAAATAGAATTTTGAAAAATTCGGGGGTAAAAA
1 GGTAA--TTTTTGGAAACTTCGAGGTCAAAAATAGAATTTTGGAAAATTCGAGGGTAAAAA
* * *
46507 GGTAATTTTTGGAAAATTCGGGGGTCAAAAATGGAATTTTGGAAAATTCGAGGGTAAAAA
1 GGTAATTTTTGGAAACTTC-GAGGTCAAAAATAGAATTTTGGAAAATTCGAGGGTAAAAA
* * * * * * *
46567 TGTAATTTTTGGAAACTTTGAGGTGAAAAATGGAATTATGGAAAGTTC-AGTGTAAAAA
1 GGTAATTTTTGGAAACTTCGAGGTCAAAAATAGAATTTTGGAAAATTCGAGGGTAAAAA
* * * * * * * *
46625 TGTAATTTTCGGAAAATTAGAGGTTAAAAAT-GCAATTTTGGAAAGTT-TAGGGGTAAAAT
1 GGTAATTTTTGGAAACTTCGAGGTCAAAAATAG-AATTTTGGAAAATTCGA-GGGTAAAAA
* * * * * *
46684 TGTAATTTTTGGAAAATTCGAAGTCAAAAATGGAATTTTAGAAAGTTCG
1 GGTAATTTTTGGAAACTTCGAGGTCAAAAATAGAATTTTGGAAAATTCG
46733 GGGACCCTTG
Statistics
Matches: 237, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
57 1 0.00
58 53 0.22
59 88 0.37
60 88 0.37
61 7 0.03
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (59 bp):
GGTAATTTTTGGAAACTTCGAGGTCAAAAATAGAATTTTGGAAAATTCGAGGGTAAAAA
Found at i:46713 original size:59 final size:59
Alignment explanation
Indices: 46423--46735 Score: 330
Period size: 59 Copynumber: 5.3 Consensus size: 59
46413 AAAATATAAT
* * * * *
46423 TTTTGGAAAGTTC-GAGGTTAAAAA-ATAATTTTTTTGGAAACTTCGACGTCAAAAATAGAA
1 TTTTGGAAAGTTCAG-GGGTAAAAATGTAA--TTTTTGGAAAATTCGAGGTCAAAAATGGAA
* * * * *
46483 TTTTGAAAAATTCGGGGGTAAAAAGGTAATTTTTGGAAAATTCGGGGGTCAAAAATGGAA
1 TTTTGGAAAGTTCAGGGGTAAAAATGTAATTTTTGGAAAATTC-GAGGTCAAAAATGGAA
* * * *
46543 TTTTGGAAAATTC-GAGGGTAAAAATGTAATTTTTGGAAACTTTGAGGTGAAAAATGGAA
1 TTTTGGAAAGTTCAG-GGGTAAAAATGTAATTTTTGGAAAATTCGAGGTCAAAAATGGAA
* * * * * *
46602 TTATGGAAAGTTCA-GTGTAAAAATGTAATTTTCGGAAAATTAGAGGTTAAAAATGCAA
1 TTTTGGAAAGTTCAGGGGTAAAAATGTAATTTTTGGAAAATTCGAGGTCAAAAATGGAA
* * *
46660 TTTTGGAAAGTTTAGGGGTAAAATTGTAATTTTTGGAAAATTCGAAGTCAAAAATGGAA
1 TTTTGGAAAGTTCAGGGGTAAAAATGTAATTTTTGGAAAATTCGAGGTCAAAAATGGAA
*
46719 TTTTAGAAAGTTC-GGGG
1 TTTTGGAAAGTTCAGGGG
46736 ACCCTTGGCA
Statistics
Matches: 214, Mismatches: 33, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
58 54 0.25
59 87 0.41
60 69 0.32
61 4 0.02
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (59 bp):
TTTTGGAAAGTTCAGGGGTAAAAATGTAATTTTTGGAAAATTCGAGGTCAAAAATGGAA
Found at i:46721 original size:30 final size:29
Alignment explanation
Indices: 46420--46722 Score: 217
Period size: 30 Copynumber: 10.2 Consensus size: 29
46410 GTTAAAATAT
*
46420 AATTTTTGGAAAGTTCGAGGTTAAAAAAT--
1 AATTTTTGGAAAATTCGAGG-T-AAAAATGG
* * *
46449 AATTTTTTTGGAAACTTCGACGTCAAAAATAG
1 AA--TTTTTGGAAAATTCGAGGT-AAAAATGG
* *
46481 AA-TTTTGAAAAATTCGGGGGTAAAAA-GG
1 AATTTTTGGAAAATTC-GAGGTAAAAATGG
*
46509 TAATTTTTGGAAAATTCGGGGGTCAAAAATGG
1 -AATTTTTGGAAAATTC-GAGGT-AAAAATGG
*
46541 AA-TTTTGGAAAATTCGAGGGTAAAAATGT
1 AATTTTTGGAAAATTCGA-GGTAAAAATGG
* *
46570 AATTTTTGGAAACTTTGAGGTGAAAAATGG
1 AATTTTTGGAAAATTCGAGGT-AAAAATGG
* * *
46600 AA-TTATGGAAAGTTC-AGTGTAAAAATGT
1 AATTTTTGGAAAATTCGAG-GTAAAAATGG
* * *
46628 AATTTTCGGAAAATTAGAGGTTAAAAATGC
1 AATTTTTGGAAAATTCGAGG-TAAAAATGG
* * * * *
46658 AA-TTTTGGAAAGTTTAGGGGTAAAATTGT
1 AATTTTTGGAAA-ATTCGAGGTAAAAATGG
*
46687 AATTTTTGGAAAATTCGAAGTCAAAAATGG
1 AATTTTTGGAAAATTCGAGGT-AAAAATGG
46717 AATTTT
1 AATTTT
46723 AGAAAGTTCG
Statistics
Matches: 221, Mismatches: 34, Indels: 37
0.76 0.12 0.13
Matches are distributed among these distances:
28 12 0.05
29 77 0.35
30 105 0.48
31 23 0.10
32 4 0.02
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (29 bp):
AATTTTTGGAAAATTCGAGGTAAAAATGG
Found at i:48454 original size:18 final size:17
Alignment explanation
Indices: 48375--48452 Score: 84
Period size: 17 Copynumber: 4.5 Consensus size: 17
48365 TAATTTTTTT
* *
48375 AATTTGAAATAAATTCA
1 AATTTAAAATAAATTTA
*
48392 AATTTAAAGTAAATTTA
1 AATTTAAAATAAATTTA
* **
48409 AACTTAAAACGAATTTA
1 AATTTAAAATAAATTTA
*
48426 AATTTAAAAATAAATTAA
1 AATTT-AAAATAAATTTA
48444 AATTTAAAA
1 AATTTAAAA
48453 ATTAAAAGTT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
17 35 0.71
18 14 0.29
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (17 bp):
AATTTAAAATAAATTTA
Found at i:49003 original size:49 final size:49
Alignment explanation
Indices: 48941--49273 Score: 205
Period size: 49 Copynumber: 6.8 Consensus size: 49
48931 ATATGATTTT
*
48941 CCATTACGACTTAAACCTTTCCCTTTGTGTCTTTGTGGTACTGGATTCG
1 CCATTGCGACTTAAACCTTTCCCTTTGTGTCTTTGTGGTACTGGATTCG
* * * ** * * *
48990 CCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTA-TAAGG-TTTG
1 CCATTGCGACTTAAACCTTTCCCTTTGTGTCTTTGTGGTACT--GGATTCG
* * * * *
49039 CCATTGCGACCTAAACCTTTCTCTTTGTATCTTCGTGGTACTGGATTCT
1 CCATTGCGACTTAAACCTTTCCCTTTGTGTCTTTGTGGTACTGGATTCG
* * * * ** * * *
49088 TCATTGCTACTTAAATCTCTCCCTTCATGTCTCTGAGGTGTA-AGG-TTCG
1 CCATTGCGACTTAAACCTTTCCCTTTGTGTCTTTG-TG-GTACTGGATTCG
** *
49137 CCATTATGACTTAAAGCTTTCCCTTTGTGTCTTTGTGGTACTGGATTCG
1 CCATTGCGACTTAAACCTTTCCCTTTGTGTCTTTGTGGTACTGGATTCG
* * ** * **
49186 CCGTTAC-AGCTT-AACTCTTTCCCTTCATGTCTCTAAGGTA-TAAGG-TTCG
1 CCATTGCGA-CTTAAAC-CTTTCCCTTTGTGTCTTTGTGGTACT--GGATTCG
* * * *
49235 CCATTGCGACTTAAACTTTTCTCTTTGTATCTTCGTGGT
1 CCATTGCGACTTAAACCTTTCCCTTTGTGTCTTTGTGGT
49274 TGTAACATCT
Statistics
Matches: 204, Mismatches: 66, Indels: 28
0.68 0.22 0.09
Matches are distributed among these distances:
47 3 0.01
48 10 0.05
49 176 0.86
50 12 0.06
51 3 0.01
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (49 bp):
CCATTGCGACTTAAACCTTTCCCTTTGTGTCTTTGTGGTACTGGATTCG
Found at i:49054 original size:98 final size:98
Alignment explanation
Indices: 48879--49273 Score: 488
Period size: 98 Copynumber: 4.0 Consensus size: 98
48869 TCAATTCGCA
** * * * **
48879 TGGTACTAAATTCGCCGTTGCGGCTTAAAT-TTTCCTTTCATG-CTTCTGAGGTATATGATTTTC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTATAAGGTTCGC
* *
48942 CATTACGACTTAAACCTTTCCCTTTGTGTCTTTG
65 CATTACGACTTAAACCTTTCCCTTTGTATCTTCG
*
48976 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTTGCC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGCC
* * *
49041 ATTGCGACCTAAACCTTTCTCTTTGTATCTTCG
66 ATTACGACTTAAACCTTTCCCTTTGTATCTTCG
** * ** * *
49074 TGGTACTGGATTCTTCATTGCTACTTAAATCTCTCCCTTCATGTCTCTGAGGTGTAAGGTTCGCC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGCC
* * * *
49139 ATTATGACTTAAAGCTTTCCCTTTGTGTCTTTG
66 ATTACGACTTAAACCTTTCCCTTTGTATCTTCG
* * * *
49172 TGGTACTGGATTCGCCGTTACAGCTTAACTCTTTCCCTTCATGTCTCTAAGGTATAAGGTTCGCC
1 TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGCC
* * *
49237 ATTGCGACTTAAACTTTTCTCTTTGTATCTTCG
66 ATTACGACTTAAACCTTTCCCTTTGTATCTTCG
49270 TGGT
1 TGGT
49274 TGTAACATCT
Statistics
Matches: 253, Mismatches: 43, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
97 28 0.11
98 224 0.89
99 1 0.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.41
Consensus pattern (98 bp):
TGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGCC
ATTACGACTTAAACCTTTCCCTTTGTATCTTCG
Found at i:57883 original size:49 final size:49
Alignment explanation
Indices: 57830--58082 Score: 143
Period size: 49 Copynumber: 5.2 Consensus size: 49
57820 ATGTCTCTGA
57830 GGTATAAGGTTCGCCATTGTGACTTAATCCTTTTCCTTTGTGTCTTCGT
1 GGTATAAGGTTCGCCATTGTGACTTAATCCTTTTCCTTTGTGTCTTCGT
* * * * ** *
57879 GGTAT-TGGATTCGCCGTTG-CAGCTTAAAT-CTTTCCCTTCATGTC-TCTGA
1 GGTATAAGG-TTCGCCATTGTGA-CTT-AATCCTTTTCCTTTGTGTCTTC-GT
* * * *
57928 GGTATAAGGTTCGCCATTGCGATTTAAACCTTTCCCTTTGTGTCTTCGT
1 GGTATAAGGTTCGCCATTGTGACTTAATCCTTTTCCTTTGTGTCTTCGT
** * * *
57977 GGTACT--GGATTTTCCGTTGCTG-CTTAAAT-C-TTTCCTTTCATGTC-TCTGA
1 GGTA-TAAGG-TTCGCCATTG-TGACTT-AATCCTTTTCCTTT-GTGTCTTC-GT
* * *
58026 GGTATAAGGTTCACCATTGTGACTAAAACC-TTTCCTTTTGTGT-TTCGT
1 GGTATAAGGTTCGCCATTGTGACTTAATCCTTTTCC-TTTGTGTCTTCGT
58074 GGTACTAAG
1 GGTA-TAAG
58083 ACCTGTAGAA
Statistics
Matches: 152, Mismatches: 31, Indels: 42
0.68 0.14 0.19
Matches are distributed among these distances:
48 28 0.18
49 107 0.70
50 17 0.11
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (49 bp):
GGTATAAGGTTCGCCATTGTGACTTAATCCTTTTCCTTTGTGTCTTCGT
Found at i:57904 original size:98 final size:98
Alignment explanation
Indices: 57779--58077 Score: 440
Period size: 98 Copynumber: 3.1 Consensus size: 98
57769 GGGTGTTATA
* * * *
57779 GTGGTGTTGGATTCGTCGTTGCGGCTTAAATCTCTCCCTTCATGTCTCTGAGGTATAAGGTTCGC
1 GTGGTATTGGATTCGCCGTTGCAGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGC
*
57844 CATTGTGACTTAATCCTTTTCCTTTGTGTCTTC
66 CATTGTGACTTAAACCTTTTCCTTTGTGTCTTC
57877 GTGGTATTGGATTCGCCGTTGCAGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGC
1 GTGGTATTGGATTCGCCGTTGCAGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGC
* * *
57942 CATTGCGATTTAAACCTTTCCCTTTGTGTCTTC
66 CATTGTGACTTAAACCTTTTCCTTTGTGTCTTC
* ** * * *
57975 GTGGTACTGGATTTTCCGTTGCTGCTTAAATCTTTCCTTTCATGTCTCTGAGGTATAAGGTTCAC
1 GTGGTATTGGATTCGCCGTTGCAGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGC
*
58040 CATTGTGACTAAAACC-TTTCCTTTTGTGT-TTC
66 CATTGTGACTTAAACCTTTTCC-TTTGTGTCTTC
58072 GTGGTA
1 GTGGTA
58078 CTAAGACCTG
Statistics
Matches: 182, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
97 13 0.07
98 169 0.93
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (98 bp):
GTGGTATTGGATTCGCCGTTGCAGCTTAAATCTTTCCCTTCATGTCTCTGAGGTATAAGGTTCGC
CATTGTGACTTAAACCTTTTCCTTTGTGTCTTC
Found at i:69953 original size:29 final size:28
Alignment explanation
Indices: 69920--69980 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
69910 AAAACGGTCA
*
69920 TTTTGGACACTTC-AGGGTAAGATGGTAAT
1 TTTTGGACAC-TCGAGGGCAA-ATGGTAAT
*
69949 TTTTGGACACTCGGGGGCAAATGGTAAT
1 TTTTGGACACTCGAGGGCAAATGGTAAT
69977 TTTT
1 TTTT
69981 AAAAGGTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.36
Consensus pattern (28 bp):
TTTTGGACACTCGAGGGCAAATGGTAAT
Found at i:70006 original size:29 final size:29
Alignment explanation
Indices: 69973--70038 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
69963 GGGCAAATGG
69973 TAATTTTT-AAAAGGTTCAGGGTTAAAATA
1 TAATTTTTGAAAAGGTTCA-GGTTAAAATA
* * *
70002 TAATTTTTGGAAAGTTTGAGGTTAAAATA
1 TAATTTTTGAAAAGGTTCAGGTTAAAATA
70031 TAATTTTT
1 TAATTTTT
70039 TTTGGAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 26 0.79
30 7 0.21
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.44
Consensus pattern (29 bp):
TAATTTTTGAAAAGGTTCAGGTTAAAATA
Found at i:70058 original size:32 final size:32
Alignment explanation
Indices: 69992--70070 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
69982 AAAGGTTCAG
* *
69992 GGTTAAAATATAA---TTTTTGGAAAGTTTGA
1 GGTTAAAATATAATTTTTTTTGGAAACTTGGA
70021 GGTTAAAATATAATTTTTTTTGGAAACTTCGGA
1 GGTTAAAATATAATTTTTTTTGGAAACTT-GGA
*
70054 -GTTAAAGATAGAATTTT
1 GGTTAAA-ATATAATTTT
70071 GGAAAATTCG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 13 0.31
32 18 0.43
33 11 0.26
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.42
Consensus pattern (32 bp):
GGTTAAAATATAATTTTTTTTGGAAACTTGGA
Found at i:70187 original size:28 final size:29
Alignment explanation
Indices: 70003--70423 Score: 317
Period size: 29 Copynumber: 14.4 Consensus size: 29
69993 GTTAAAATAT
* * **
70003 AATTTTTGGAAAGTTTGAGGTTAAAATAT
1 AATTTTTGGAAAATTTGAGGTAAAAATGG
* * * * *
70032 AATTTTTTTTGGAAACTTCGGAGTTAAAGATAG
1 AA---TTTTTGGAAAATT-TGAGGTAAAAATGG
*
70065 AA-TTTTGGAAAATTCGTGGGGTAAAAA-GG
1 AATTTTTGGAAAATT--TGAGGTAAAAATGG
** *
70094 TAATTTTTGGAAAATTCAAGGTCAAAAATAG
1 -AATTTTTGGAAAATTTGAGGT-AAAAATGG
* * *
70125 -ATTTTTAGAAAGTTTGGAGGTAAAAATGT
1 AATTTTTGGAAAATTT-GAGGTAAAAATGG
*
70154 AATTTTTTGAAAATTTGAGGT-AAAATGG
1 AATTTTTGGAAAATTTGAGGTAAAAATGG
*
70182 AA-TTTT-GAAAATTTTGAGGGTAAAAATGT
1 AATTTTTGGAAAA-TTTGA-GGTAAAAATGG
* *
70211 AATTTTTTGGAAACTTTGGGGTTAAAAATGG
1 AA-TTTTTGGAAAATTTGAGG-TAAAAATGG
* * *
70242 AA-TTTTGGAAAGTTTGAGGTAAAATTGT
1 AATTTTTGGAAAATTTGAGGTAAAAATGG
*
70270 AATTTTTGG-AAATTTGGGGTTAAAAATGG
1 AATTTTTGGAAAATTTGAGG-TAAAAATGG
* *
70299 AA-TTTTGGAAAGTTTGAGGTAAAAATGT
1 AATTTTTGGAAAATTTGAGGTAAAAATGG
*
70327 AATTTTTGG-AAATTTGAGGTTAAAAT-G
1 AATTTTTGGAAAATTTGAGGTAAAAATGG
* * * *
70354 AAATTTTGGAAAGTTTGGGGGTAAAAATGT
1 AATTTTTGGAAAATTT-GAGGTAAAAATGG
* *
70384 AATTTTTGGAAAATTTGGGGTTAAAAT-G
1 AATTTTTGGAAAATTTGAGGTAAAAATGG
*
70412 AAATTTTGGAAA
1 AATTTTTGGAAA
70424 GTTCGGGGAC
Statistics
Matches: 313, Mismatches: 54, Indels: 51
0.75 0.13 0.12
Matches are distributed among these distances:
26 5 0.02
27 17 0.05
28 75 0.24
29 111 0.35
30 47 0.15
31 31 0.10
32 16 0.05
33 11 0.04
ACGTcount: A:0.38, C:0.01, G:0.24, T:0.37
Consensus pattern (29 bp):
AATTTTTGGAAAATTTGAGGTAAAAATGG
Found at i:70210 original size:57 final size:58
Alignment explanation
Indices: 70006--70426 Score: 392
Period size: 57 Copynumber: 7.2 Consensus size: 58
69996 AAAATATAAT
* * * * * * *
70006 TTTTGGAAAGTTTGAGGTTAAAATATAATTTTTTTTGGAAACTTCG-GAGTTAAAGATAGAA
1 TTTTGAAAAGTTTGAGGTAAAAATGTAA--TTTTTT-GAAAATTTGAG-GTTAAAAATGGAA
* * * ** * *
70067 TTTTGGAAAA-TTCGTGGGGTAAAAAGGTAATTTTTGGAAAATTCAAGGTCAAAAATAG-A
1 TTTT-GAAAAGTT--TGAGGTAAAAATGTAATTTTTTGAAAATTTGAGGTTAAAAATGGAA
*
70126 TTTTTAGAAAGTTTGGAGGTAAAAATGTAATTTTTTGAAAATTTGAGG-T-AAAATGGAA
1 TTTTGA-AAAGTTT-GAGGTAAAAATGTAATTTTTTGAAAATTTGAGGTTAAAAATGGAA
* * *
70184 TTTTGAAAATTTTGAGGGTAAAAATGTAATTTTTTGGAAACTTTGGGGTTAAAAATGGAA
1 TTTTGAAAAGTTTGA-GGTAAAAATGTAATTTTTT-GAAAATTTGAGGTTAAAAATGGAA
* * * *
70244 TTTTGGAAAGTTTGAGGTAAAATTGTAA-TTTTTGGAAATTTGGGGTTAAAAATGGAA
1 TTTTGAAAAGTTTGAGGTAAAAATGTAATTTTTTGAAAATTTGAGGTTAAAAATGGAA
* * *
70301 TTTTGGAAAGTTTGAGGTAAAAATGTAA-TTTTTGGAAATTTGAGGTT-AAAATGAAA
1 TTTTGAAAAGTTTGAGGTAAAAATGTAATTTTTTGAAAATTTGAGGTTAAAAATGGAA
* * * * *
70357 TTTTGGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAATTTGGGGTT-AAAATGAAA
1 TTTTGAAAAGTTT-GAGGTAAAAATGTAATTTTTTGAAAATTTGAGGTTAAAAATGGAA
*
70415 TTTTGGAAAGTT
1 TTTTGAAAAGTT
70427 CGGGGACCCT
Statistics
Matches: 312, Mismatches: 34, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
56 23 0.07
57 112 0.36
58 60 0.19
59 49 0.16
60 40 0.13
61 12 0.04
62 4 0.01
63 12 0.04
ACGTcount: A:0.37, C:0.01, G:0.24, T:0.37
Consensus pattern (58 bp):
TTTTGAAAAGTTTGAGGTAAAAATGTAATTTTTTGAAAATTTGAGGTTAAAAATGGAA
Found at i:72183 original size:17 final size:17
Alignment explanation
Indices: 72161--72256 Score: 129
Period size: 17 Copynumber: 5.6 Consensus size: 17
72151 TTAATTTTTT
72161 AATTTAAAATAAATTCA
1 AATTTAAAATAAATTCA
* *
72178 AATTTAAAGTAAATTTA
1 AATTTAAAATAAATTCA
* * *
72195 AACTTAAAATGAATTTA
1 AATTTAAAATAAATTCA
72212 AATTTAAAAATAAATTCA
1 AATTT-AAAATAAATTCA
72230 AATTTAAAATAAATTCA
1 AATTTAAAATAAATTCA
*
72247 AATTGAAAAT
1 AATTTAAAAT
72257 TTAAAAGTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
17 54 0.78
18 15 0.22
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTTAAAATAAATTCA
Found at i:72196 original size:6 final size:6
Alignment explanation
Indices: 72161--72261 Score: 57
Period size: 6 Copynumber: 17.3 Consensus size: 6
72151 TTAATTTTTT
* * * * * *
72161 AATTTA AA-ATA AATTCA AATTTA AA-GTA AATTTA AACTTA AA-ATG
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
** * * * *
72206 AATTTA AATTTA AAAATA AATTCA AATTTA AA-ATA AATTCA AATTGAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATT-TA
72254 AATTTA AA
1 AATTTA AA
72262 AGTTGGACTT
Statistics
Matches: 68, Mismatches: 22, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
5 15 0.22
6 48 0.71
7 5 0.07
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (6 bp):
AATTTA
Found at i:74302 original size:65 final size:65
Alignment explanation
Indices: 74241--74364 Score: 151
Period size: 66 Copynumber: 1.9 Consensus size: 65
74231 TCAGATATTG
** * *
74241 TAATTATCTAATTTTATTTT-TTTTATCAAAATAATATTTAAATATTACTTTATAATTAGATACT
1 TAATTATCTAACCTTATTTTCTTTTATCAAAATAATATTTAAACACTACTTTAT-ATTAGATACT
74305 A
65 A
* * * * *
74306 TAGTTATTTAACCTTATTTTCTTTTTTCAAAATAATTTTTAGACACTACTTTATATTAG
1 TAATTATCTAACCTTATTTTCTTTTATCAAAATAATATTTAAACACTACTTTATATTAG
74365 TTTACCAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 21 0.43
66 28 0.57
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.52
Consensus pattern (65 bp):
TAATTATCTAACCTTATTTTCTTTTATCAAAATAATATTTAAACACTACTTTATATTAGATACTA
Found at i:77501 original size:29 final size:28
Alignment explanation
Indices: 77458--77565 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 28
77448 AAGTTTTTTG
*
77458 ACCCCTAAACTTTTCAAAAATTATAATTTA
1 ACCCTTAAA-TTTTCAAAAATT-TAATTTA
* *
77488 ACCAC-TAAATTTTCAAAAATTCCAATTCA
1 ACC-CTTAAATTTTCAAAAATT-TAATTTA
*
77517 ACCCTTAAATTTTCCAAAAATTTCAATTTG
1 ACCCTTAAATTTT-CAAAAATTT-AATTTA
77547 ACCCTTAAATTTTCAAAAA
1 ACCCTTAAATTTTCAAAAA
77566 ATTCCAATTC
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
28 1 0.01
29 34 0.50
30 32 0.47
31 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (28 bp):
ACCCTTAAATTTTCAAAAATTTAATTTA
Found at i:77566 original size:30 final size:30
Alignment explanation
Indices: 77454--77640 Score: 191
Period size: 30 Copynumber: 6.3 Consensus size: 30
77444 TTAAAAGTTT
* **
77454 TTTGACCCCTAAACTTTT-CAAAAATTATAA
1 TTTGACCCTTAAA-TTTTCCAAAAATTCCAA
*
77484 TTTAACCAC-TAAATTTT-CAAAAATTCCAA
1 TTTGACC-CTTAAATTTTCCAAAAATTCCAA
** *
77513 TTCAACCCTTAAATTTTCCAAAAATTTCAA
1 TTTGACCCTTAAATTTTCCAAAAATTCCAA
*
77543 TTTGACCCTTAAATTTTCAAAAAATTCCAA
1 TTTGACCCTTAAATTTTCCAAAAATTCCAA
* * * *
77573 TTCGACCCCTCAATTTTCCAAAAATTCCTA
1 TTTGACCCTTAAATTTTCCAAAAATTCCAA
* * * *
77603 TTTGACTCTTGAAGTTTCCAAAAATTCAAA
1 TTTGACCCTTAAATTTTCCAAAAATTCCAA
77633 TTTGACCC
1 TTTGACCC
77641 GATTTTAATG
Statistics
Matches: 132, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 28 0.21
30 102 0.77
31 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (30 bp):
TTTGACCCTTAAATTTTCCAAAAATTCCAA
Found at i:87418 original size:22 final size:22
Alignment explanation
Indices: 87378--87438 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
87368 CGATCTAAGG
*
87378 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAATT
87399 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
*
87421 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
87439 GGAAGTCGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 11 0.31
22 24 0.67
23 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:87429 original size:15 final size:16
Alignment explanation
Indices: 87404--87433 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
87394 GAATTAAAAA
87404 TAAAAGAAAATAGAAT
1 TAAAAGAAAATAGAAT
87420 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
87434 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (16 bp):
TAAAAGAAAATAGAAT
Found at i:89012 original size:106 final size:107
Alignment explanation
Indices: 88836--89029 Score: 268
Period size: 106 Copynumber: 1.8 Consensus size: 107
88826 ATACTTTGGA
* * **
88836 CCTTTTGACGCGAAATGAAATGACACCCAAGCACTCCATCCCGATTACTCAGCCCAACATGCTCA
1 CCTTTTGACGCAAAATGAAATGACAACCAAGCACTCCATCCCGATTACTCAGCCCAACACACTCA
*
88901 CAATTT-TTT-TCTTCTCTTTTTTATTTGTAGAATGTGTTAGC
66 CAATTTATTTAT-TTCTATTTTTTATTTGTAGAATGTGTTAGC
* * * *
88942 CCTTTTGACGCAAAATGAAATGACAATCAAGCACTCCATCCCGGTTACTCAGTCTAACACACTC-
1 CCTTTTGACGCAAAATGAAATGACAACCAAGCACTCCATCCCGATTACTCAGCCCAACACACTCA
89006 CAAATTTATTTATTTCTATTTTTT
66 C-AATTTATTTATTTCTATTTTTT
89030 TTCCGGGTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
105 1 0.01
106 61 0.80
107 13 0.17
108 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (107 bp):
CCTTTTGACGCAAAATGAAATGACAACCAAGCACTCCATCCCGATTACTCAGCCCAACACACTCA
CAATTTATTTATTTCTATTTTTTATTTGTAGAATGTGTTAGC
Found at i:91023 original size:21 final size:21
Alignment explanation
Indices: 90981--91024 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
90971 CCTCAATTTT
* *
90981 CTTTTGTAAATCCACAGTTTG
1 CTTTTGAAAATCCACAGATTG
* *
91002 CTTTTGAAAATCTATAGATTG
1 CTTTTGAAAATCCACAGATTG
91023 CT
1 CT
91025 GCTGAAATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (21 bp):
CTTTTGAAAATCCACAGATTG
Found at i:91694 original size:224 final size:224
Alignment explanation
Indices: 91302--91750 Score: 729
Period size: 224 Copynumber: 2.0 Consensus size: 224
91292 TGTGCTCGAA
* * * * *
91302 TTCACCACAAATTCCACATTGATGGGTCGACCTTAATTTTCCTGTAATAAGAGAACTCACAACAT
1 TTCACCACAAAGTCCACATTGACGGGCCAACCCTAATTTTCCTGTAATAAGAGAACTCACAACAT
* *
91367 TAATAAGTTTTTCAACTTTATCTTCTAAGGAGGAATTACTTAGCTGGTGAACCCTTCAAGTAAGT
66 TAATAAGTTTTTCAACTTTATCTTCTAAGGAGGAATTACATAGCTGGTGAAACCTTCAAGTAAGT
* *
91432 TCAGGGTTGGCTCGAAATTATTAAGTATTTACGGCCATTGTGGAAATCAAGTCTCTTGCTCGTTA
131 TCAAGGTTGGCTCGAAATTATTAAGTATCTACGGCCATTGTGGAAATCAAGTCTCTTGCTCGTTA
91497 AGGAGTCATATTAACCAATGCTCCTCCAC
196 AGGAGTCATATTAACCAATGCTCCTCCAC
* *
91526 TTCACCATAAAGTCCACATTGACGGGCCAACCCTACTTTTCCTGTAATAAGAGAACTCACAACAT
1 TTCACCACAAAGTCCACATTGACGGGCCAACCCTAATTTTCCTGTAATAAGAGAACTCACAACAT
* * *
91591 TAGTAAGTTTTTCAACTTTATCTTCTAAGGAGGAATTACATAGCTGGTGAAACCTTCGAGTAGGT
66 TAATAAGTTTTTCAACTTTATCTTCTAAGGAGGAATTACATAGCTGGTGAAACCTTCAAGTAAGT
* *
91656 TCAAGGTTGGCTCGAAATTATTGA-TAATCTATGGCCATTGTGGAAATCAAGTCTCTTGCTCGTT
131 TCAAGGTTGGCTCGAAATTATTAAGT-ATCTACGGCCATTGTGGAAATCAAGTCTCTTGCTCGTT
*
91720 GAGGAGTCATATTAACCAATGCTCCTCCAC
195 AAGGAGTCATATTAACCAATGCTCCTCCAC
91750 T
1 T
91751 GGCGACATCT
Statistics
Matches: 207, Mismatches: 17, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
223 1 0.00
224 206 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (224 bp):
TTCACCACAAAGTCCACATTGACGGGCCAACCCTAATTTTCCTGTAATAAGAGAACTCACAACAT
TAATAAGTTTTTCAACTTTATCTTCTAAGGAGGAATTACATAGCTGGTGAAACCTTCAAGTAAGT
TCAAGGTTGGCTCGAAATTATTAAGTATCTACGGCCATTGTGGAAATCAAGTCTCTTGCTCGTTA
AGGAGTCATATTAACCAATGCTCCTCCAC
Found at i:92839 original size:21 final size:22
Alignment explanation
Indices: 92788--92847 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
92778 CGATCTAAGG
* *
92788 AAAAATAAAAG-AAACAGAATT
1 AAAAATAATAGAAAATAGAATT
92809 AAAAATAATA-AAAATAGAATT
1 AAAAATAATAGAAAATAGAATT
92830 AAAAGA-AATAGAAAATAG
1 AAAA-ATAATAGAAAATAG
92848 GGAAGTCGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 26 0.76
22 8 0.24
ACGTcount: A:0.72, C:0.02, G:0.10, T:0.17
Consensus pattern (22 bp):
AAAAATAATAGAAAATAGAATT
Found at i:94466 original size:10 final size:9
Alignment explanation
Indices: 94451--94479 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
94441 TCCAAATTTA
94451 TTTTTTTCT
1 TTTTTTTCT
94460 TTTTTTTCT
1 TTTTTTTCT
94469 TTTTTTT-T
1 TTTTTTTCT
94477 TTT
1 TTT
94480 GGGTTAACGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:98059 original size:22 final size:21
Alignment explanation
Indices: 98019--98075 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
98009 TCTAAGGAAG
*
98019 AATAAAAG-AAACAGAATTAA
1 AATAAAAGAAAATAGAATTAA
98039 AATTAAAAGAAAATAGAATTAA
1 AA-TAAAAGAAAATAGAATTAA
*
98061 AAGAAATAGAAAATA
1 AATAAA-AGAAAATA
98076 AGGAAGTCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 2 0.06
21 9 0.28
22 21 0.66
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.18
Consensus pattern (21 bp):
AATAAAAGAAAATAGAATTAA
Found at i:98067 original size:15 final size:16
Alignment explanation
Indices: 98039--98071 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
98029 ACAGAATTAA
98039 AATTAAAAGAAAATAG
1 AATTAAAAGAAAATAG
98055 AATTAAAAG-AAATAG
1 AATTAAAAGAAAATAG
98070 AA
1 AA
98072 AATAAGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (16 bp):
AATTAAAAGAAAATAG
Found at i:98914 original size:19 final size:20
Alignment explanation
Indices: 98871--98926 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
98861 ATAAACATAA
98871 ATTAAATACAAATTTAAATC
1 ATTAAATACAAATTTAAATC
*
98891 A-TAAATA-ATATATTAAAT-
1 ATTAAATACAAAT-TTAAATC
* *
98909 ATTAAATCCAAATATAAA
1 ATTAAATACAAATTTAAA
98927 ATACATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.14
19 21 0.72
20 4 0.14
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (20 bp):
ATTAAATACAAATTTAAATC
Found at i:103510 original size:50 final size:50
Alignment explanation
Indices: 103456--103555 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
103446 TAAAGGAACG
* *
103456 GATTGAAGCCGGAATGGCAAATCTCATACACCTAAAGCTGTAGATGGGCA
1 GATTGAAGCCAGAATGGCAAATCTCATACACCTAAAGCTGTAGAGGGGCA
* * ** *
103506 GATTGAAGCCATAATGGCGAATCTCATTTACCTAAAGTTGTAGAGGGGCA
1 GATTGAAGCCAGAATGGCAAATCTCATACACCTAAAGCTGTAGAGGGGCA
103556 TTTCGTAAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (50 bp):
GATTGAAGCCAGAATGGCAAATCTCATACACCTAAAGCTGTAGAGGGGCA
Found at i:103724 original size:40 final size:40
Alignment explanation
Indices: 103693--103784 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
103683 AAGATCATTT
*
103693 GATCTCTTT-CCCTAACCAGAGGGCAGATTGAAGACTATCA
1 GATCT-TTTACCCTAACAAGAGGGCAGATTGAAGACTATCA
* * *
103733 GATCTTTTACCCTAACAAGAGGGTAGATTGAAAACCATCA
1 GATCTTTTACCCTAACAAGAGGGCAGATTGAAGACTATCA
*
103773 GATCTCTTACCC
1 GATCTTTTACCC
103785 CGAACATGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.07
40 43 0.93
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
GATCTTTTACCCTAACAAGAGGGCAGATTGAAGACTATCA
Found at i:103800 original size:40 final size:40
Alignment explanation
Indices: 103693--103804 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
103683 AAGATCATTT
* * * ** * *
103693 GATCTCTTTCCCTAACCAGAGGGCAGATTGAAGACTATCA
1 GATCTCTTACCCGAACAAGAGGATAGATTGAAAACCATCA
* * *
103733 GATCTTTTACCCTAACAAGAGGGTAGATTGAAAACCATCA
1 GATCTCTTACCCGAACAAGAGGATAGATTGAAAACCATCA
*
103773 GATCTCTTACCCCGAACATG-GGATAGATTGAA
1 GATCTCTTA-CCCGAACAAGAGGATAGATTGAA
103805 TCAATCCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 53 0.87
41 8 0.13
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (40 bp):
GATCTCTTACCCGAACAAGAGGATAGATTGAAAACCATCA
Found at i:104455 original size:3 final size:3
Alignment explanation
Indices: 104447--104520 Score: 121
Period size: 3 Copynumber: 24.7 Consensus size: 3
104437 TATTTTTTCT
* * *
104447 TTA TTA TTA CTA TTG TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
104495 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
104521 TCTTTATTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:105600 original size:30 final size:30
Alignment explanation
Indices: 105536--105643 Score: 110
Period size: 30 Copynumber: 3.6 Consensus size: 30
105526 TTTTTAGACT
**
105536 CCAAATTTTCTAAAAATTCTAA-TATGACAT
1 CCAAATTTTCTAAAAATTCTAATTA-GACCC
* *
105566 CCAAATTTTCTAAAAATTCCAATTAGGCCC
1 CCAAATTTTCTAAAAATTCTAATTAGACCC
* * **
105596 CCAAAGTTTCCAAAAATTCTAATTTCACCC
1 CCAAATTTTCTAAAAATTCTAATTAGACCC
**
105626 CTTAATTTTCTAAAAATT
1 CCAAATTTTCTAAAAATT
105644 TTGATTTGAC
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
30 61 0.97
31 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (30 bp):
CCAAATTTTCTAAAAATTCTAATTAGACCC
Found at i:105671 original size:30 final size:30
Alignment explanation
Indices: 105599--105685 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 30
105589 TAGGCCCCCA
*
105599 AAGTTTCCAAAAATTCTAATTTCACCCCTT
1 AAGTTTCCAAAAATTCTAATTTCACCCCTG
* * * * * *
105629 AATTTTCTAAAAATTTTGATTTGACCCGTG
1 AAGTTTCCAAAAATTCTAATTTCACCCCTG
* * *
105659 AAGTTTCCAAAAAATCAAATTTGACCC
1 AAGTTTCCAAAAATTCTAATTTCACCC
105686 GATTTTAATG
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (30 bp):
AAGTTTCCAAAAATTCTAATTTCACCCCTG
Found at i:107963 original size:4 final size:4
Alignment explanation
Indices: 107940--107996 Score: 78
Period size: 4 Copynumber: 14.2 Consensus size: 4
107930 CAGGGGCTTA
* **
107940 ATAC ATGC ATAC GCAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
107988 ATAA ATAC A
1 ATAC ATAC A
107997 ATTCTTGTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:108256 original size:25 final size:25
Alignment explanation
Indices: 108178--108256 Score: 61
Period size: 25 Copynumber: 3.0 Consensus size: 25
108168 TTTTTCTATA
108178 AGAAAATATCATTAATAAATAATAT-
1 AGAAAATATCATTAATAAATAA-ATG
* * ** **
108203 ACACAAATATTATCTTAATATTTTTATG
1 AGA-AAATATCA--TTAATAAATAAATG
108231 AGAAAATATCATTAATAAATAAATG
1 AGAAAATATCATTAATAAATAAATG
108256 A
1 A
108257 ATCATAAACA
Statistics
Matches: 38, Mismatches: 12, Indels: 8
0.66 0.21 0.14
Matches are distributed among these distances:
25 13 0.34
26 7 0.18
27 9 0.24
28 9 0.24
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.35
Consensus pattern (25 bp):
AGAAAATATCATTAATAAATAAATG
Found at i:111831 original size:31 final size:31
Alignment explanation
Indices: 111788--111846 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
111778 ACAATTTCCA
111788 TGAAAAAATGGCACTCTTGAGAAAGTTATGT
1 TGAAAAAATGGCACTCTTGAGAAAGTTATGT
* *
111819 TGAACAAATGGCACTCTTGAGAATGTTA
1 TGAAAAAATGGCACTCTTGAGAAAGTTA
111847 CGTACTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (31 bp):
TGAAAAAATGGCACTCTTGAGAAAGTTATGT
Done.