Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 37
Found at i:7228948 original size:24 final size:26
Alignment explanation
Indices: 7228919--7228977 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
7228909 TTGTAATATT
7228919 TAATAAATAA-TAA-TATAATAATAA
1 TAATAAATAATTAATTATAATAATAA
*
7228943 TAAT-AATAATTTTAATTTTAATAATAA
1 TAATAAATAA--TTAATTATAATAATAA
7228970 TAATAAAT
1 TAATAAAT
7228978 TTAAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 5 0.17
24 4 0.14
26 3 0.10
27 14 0.48
28 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TAATAAATAATTAATTATAATAATAA
Found at i:7228958 original size:15 final size:15
Alignment explanation
Indices: 7228912--7228973 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
7228902 TTGGGTTTTG
7228912 TAATATTTAATAAATAA
1 TAAT-TTTAAT-AATAA
*
7228929 TAA-TATAATAATAA
1 TAATTTTAATAATAA
**
7228943 TAA---TAATAATTT
1 TAATTTTAATAATAA
7228955 TAATTTTAATAATAA
1 TAATTTTAATAATAA
7228970 TAAT
1 TAAT
7228974 AAATTTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
12 10 0.27
14 8 0.22
15 16 0.43
17 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTTTAATAATAA
Found at i:7228980 original size:24 final size:24
Alignment explanation
Indices: 7228937--7228987 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
7228927 AATAATATAA
* *
7228937 TAATAATAATAATAATTTTAATTT
1 TAATAATAATAATAAATTTAAATT
7228961 TAATAATAATAATAAATTTAAATT
1 TAATAATAATAATAAATTTAAATT
7228985 TAA
1 TAA
7228988 AATGGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATAATAATAATAAATTTAAATT
Found at i:7233756 original size:2 final size:2
Alignment explanation
Indices: 7233749--7233786 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7233739 GCGGTCAACG
7233749 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7233787 CACACCTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7234052 original size:31 final size:31
Alignment explanation
Indices: 7234014--7234083 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
7234004 ATTTTTATAT
* *
7234014 TTGAATTTGGTTTTAAAGTTTAATTTGATAA
1 TTGAATTTAGTTTCAAAGTTTAATTTGATAA
* *
7234045 TTGAATTTAGTTTCGAAGTTTAATTTGATAT
1 TTGAATTTAGTTTCAAAGTTTAATTTGATAA
*
7234076 TTAAATTT
1 TTGAATTT
7234084 TTATTTTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.53
Consensus pattern (31 bp):
TTGAATTTAGTTTCAAAGTTTAATTTGATAA
Found at i:7234095 original size:21 final size:20
Alignment explanation
Indices: 7234063--7234104 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7234053 AGTTTCGAAG
7234063 TTTAATTTGATATTTAAATT
1 TTTAATTTGATATTTAAATT
* *
7234083 TTTATTTTAGATATTTGAATT
1 TTTAATTT-GATATTTAAATT
7234104 T
1 T
7234105 ATTTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTAATTTGATATTTAAATT
Found at i:7234554 original size:23 final size:24
Alignment explanation
Indices: 7234526--7234577 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
7234516 TTTCTTGTCA
7234526 TTGTGACAC-GTTTTTCTAT-CTTC
1 TTGTGACACAGTTTTTCTATGC-TC
*
7234549 TTGTGACACATTTTTTCTATGCTC
1 TTGTGACACAGTTTTTCTATGCTC
7234573 TTGTG
1 TTGTG
7234578 GTACGTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 9 0.35
24 16 0.62
25 1 0.04
ACGTcount: A:0.13, C:0.19, G:0.15, T:0.52
Consensus pattern (24 bp):
TTGTGACACAGTTTTTCTATGCTC
Found at i:7238381 original size:24 final size:23
Alignment explanation
Indices: 7238332--7238377 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7238322 AAACAAACGC
7238332 CGCAAAAAGAGCCGCGGAGACAA
1 CGCAAAAAGAGCCGCGGAGACAA
7238355 CGCAAAAAGAGCCGCGGAGACAA
1 CGCAAAAAGAGCCGCGGAGACAA
7238378 ACGCCTCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.30, T:0.00
Consensus pattern (23 bp):
CGCAAAAAGAGCCGCGGAGACAA
Found at i:7242336 original size:20 final size:20
Alignment explanation
Indices: 7242242--7242610 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
7242232 GATTTTCCAT
* ** *
7242242 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
7242262 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
7242282 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
7242302 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
7242322 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
7242342 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
7242362 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
7242382 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
7242402 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
7242422 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
7242442 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
7242462 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
7242482 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
7242502 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
7242522 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
7242542 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
7242562 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
7242582 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
7242602 AATCACAAC
1 AATCGCAAC
7242611 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:7243323 original size:24 final size:24
Alignment explanation
Indices: 7243284--7243330 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7243274 AAATTTGGTC
7243284 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
7243308 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
7243331 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:7243522 original size:12 final size:12
Alignment explanation
Indices: 7243505--7243529 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7243495 ATATAATCCT
7243505 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7243517 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7243529 G
1 G
7243530 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:7245858 original size:19 final size:19
Alignment explanation
Indices: 7245836--7246163 Score: 409
Period size: 19 Copynumber: 18.5 Consensus size: 19
7245826 CGGAAAATAC
*
7245836 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
7245855 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
7245869 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
7245889 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
7245903 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
7245922 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
7245941 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
7245955 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
7245974 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
7245993 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
7246007 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
7246026 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
7246045 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
7246064 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
7246083 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
7246102 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
7246116 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
7246135 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
7246154 AATCGCAATG
1 AATCGCAATG
7246164 AGATAATCGC
Statistics
Matches: 271, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 50 0.18
15 3 0.01
16 13 0.05
17 12 0.04
18 4 0.01
19 176 0.65
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:7245923 original size:33 final size:34
Alignment explanation
Indices: 7245836--7246163 Score: 325
Period size: 33 Copynumber: 9.3 Consensus size: 34
7245826 CGGAAAATAC
* *
7245836 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
7245869 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
7245903 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
7245941 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
7245974 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
7246007 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
7246045 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
7246083 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
7246115 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
7246154 AATCGCAATG
1 AATCGCAATG
7246164 AGATAATCGC
Statistics
Matches: 259, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 111 0.43
34 32 0.12
35 9 0.03
36 6 0.02
37 4 0.02
38 93 0.36
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:7246097 original size:161 final size:157
Alignment explanation
Indices: 7245864--7246183 Score: 543
Period size: 161 Copynumber: 2.0 Consensus size: 157
7245854 AAATCCCAAC
*
7245864 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
*
7245929 ATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
66 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
7245994 ATCGCAACGAGAGAATCGCAATGCGAA
131 ATCGCAACGAGAGAATCGCAATGCGAA
*
7246021 ATGAAAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCGAAATGAAAA
7246085 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
61 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
* *
7246150 TGAAAATCGCAATGAGATAATCGCAATGCGAA
126 TGAAAATCGCAACGAGAGAATCGCAATGCGAA
7246182 AT
1 AT
7246184 TATAAACGCA
Statistics
Matches: 153, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
156 13 0.08
157 17 0.11
158 3 0.02
160 1 0.01
161 119 0.78
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (157 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
ATCGCAACGAGAGAATCGCAATGCGAA
Found at i:7246199 original size:52 final size:52
Alignment explanation
Indices: 7245864--7246183 Score: 541
Period size: 52 Copynumber: 6.0 Consensus size: 52
7245854 AAATCCCAAC
7245864 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
7245917 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
7245969 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
7246021 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
7246078 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
7246130 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
7246182 AT
1 AT
7246184 TATAAACGCA
Statistics
Matches: 254, Mismatches: 8, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 183 0.72
53 18 0.07
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:7246299 original size:19 final size:19
Alignment explanation
Indices: 7246190--7246291 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
7246180 AAATTATAAA
7246190 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
7246209 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
7246229 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
7246245 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
7246262 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
7246281 CGCATTGCGAT
1 CGCATTGCGAT
7246292 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:7246417 original size:14 final size:14
Alignment explanation
Indices: 7246398--7246434 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7246388 CATCAATTAC
7246398 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
7246412 ACAAATCATCTTTT
1 ACAAATCAACTTTT
7246426 ACAAATCAA
1 ACAAATCAA
7246435 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:7246446 original size:12 final size:12
Alignment explanation
Indices: 7246429--7246501 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
7246419 ATCTTTTACA
7246429 AATCAATTAAAC
1 AATCAATTAAAC
*
7246441 AATCAA--AAATTG
1 AATCAATTAAA--C
**
7246453 AATCAACTTTTAC
1 AATCAA-TTAAAC
7246466 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
7246479 AATCAA-AAAAC
1 AATCAATTAAAC
7246490 AATCAATTAAAC
1 AATCAATTAAAC
7246502 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:7246463 original size:38 final size:38
Alignment explanation
Indices: 7246415--7246487 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
7246405 AACTTTTACA
*
7246415 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
7246453 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
7246488 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:7248344 original size:19 final size:19
Alignment explanation
Indices: 7248304--7248438 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
7248294 TAGTTTACTT
* *
7248304 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
7248324 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
7248343 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
7248362 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
7248376 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
7248395 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
7248409 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
7248428 TCGCAATGCGA
1 TCGCAACGCGA
7248439 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:7248379 original size:14 final size:14
Alignment explanation
Indices: 7248360--7248416 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
7248350 GCGAAATGAA
*
7248360 AATCGCAACGACAG
1 AATCGCAACGAAAG
7248374 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
7248391 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
7248407 AATCGCAACG
1 AATCGCAACG
7248417 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:7248383 original size:33 final size:33
Alignment explanation
Indices: 7248341--7248433 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
7248331 GCGAAACCAA
*
7248341 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
7248374 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
7248407 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
7248434 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:7248430 original size:52 final size:54
Alignment explanation
Indices: 7248304--7248438 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 54
7248294 TAGTTTACTT
*
7248304 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
* **
7248362 TCGCAA-CGACA-G--AATCGCAACGCGAAATGAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
7248409 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
7248439 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.08
50 6 0.09
52 37 0.56
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:7248456 original size:19 final size:19
Alignment explanation
Indices: 7248434--7248562 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
7248424 AAAATCGCAA
7248434 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
7248453 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
7248467 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
7248486 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
7248500 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
7248519 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
7248538 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
7248558 TGCGA
1 TGCGA
7248563 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:7248476 original size:33 final size:33
Alignment explanation
Indices: 7248434--7248525 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
7248424 AAAATCGCAA
7248434 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
7248467 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
7248500 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
7248526 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:7248765 original size:93 final size:93
Alignment explanation
Indices: 7248606--7248985 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
7248596 TTGAATGGAT
7248606 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
7248671 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
7248699 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
7248764 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
7248792 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
7248856 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
7248884 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
7248949 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
7248977 AAATTTACT
1 AAATTTACT
7248986 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 193 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:7248919 original size:185 final size:186
Alignment explanation
Indices: 7248606--7248985 Score: 744
Period size: 185 Copynumber: 2.0 Consensus size: 186
7248596 TTGAATGGAT
7248606 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
7248671 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
7248736 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
7248792 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
7248856 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
7248921 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
7248977 AAATTTACT
1 AAATTTACT
7248986 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
185 154 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:7250709 original size:14 final size:14
Alignment explanation
Indices: 7250690--7250779 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
7250680 TTGAAATGAA
7250690 AATCGCAACGAGAG
1 AATCGCAACGAGAG
7250704 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
7250721 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
7250737 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
7250756 AATCGCAACGAGAG
1 AATCGCAACGAGAG
7250770 AATCGCAACG
1 AATCGCAACG
7250780 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:7250727 original size:33 final size:33
Alignment explanation
Indices: 7250682--7250796 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
7250672 TCTTTTGGTT
7250682 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
7250715 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7250748 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
7250781 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
7250797 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:7250728 original size:19 final size:18
Alignment explanation
Indices: 7250689--7250801 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
7250679 GTTGAAATGA
7250689 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
7250704 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
7250721 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
7250737 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
7250754 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
7250770 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
7250787 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
7250802 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:7250832 original size:14 final size:14
Alignment explanation
Indices: 7250813--7250867 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
7250803 TTTGGTTTCG
7250813 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
7250827 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
7250846 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
7250860 CGTTGCGA
1 CGTTGCGA
7250868 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:7251030 original size:33 final size:33
Alignment explanation
Indices: 7250988--7251058 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
7250978 AATACTAACT
*
7250988 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
7251021 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
7251054 TGAAA
1 TGAAA
7251059 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:7251292 original size:22 final size:22
Alignment explanation
Indices: 7251240--7251294 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
7251230 TGGTTGTGAG
**
7251240 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
7251262 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
7251284 GGATTTCTTCG
1 GGATTTCTTCG
7251295 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:7251465 original size:20 final size:20
Alignment explanation
Indices: 7251440--7251633 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
7251430 CTTTAAATAT
7251440 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7251460 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
7251482 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7251501 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
7251521 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
7251541 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7251561 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7251581 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
7251601 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
7251621 CGCGTTGCGATTT
1 CGCGTTGCGATTT
7251634 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:7251627 original size:60 final size:60
Alignment explanation
Indices: 7251440--7251633 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
7251430 CTTTAAATAT
**
7251440 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
7251501 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
7251561 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
7251621 CGCGTTGCGATTT
1 CGCGTTGCGATTT
7251634 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:7251650 original size:21 final size:20
Alignment explanation
Indices: 7251626--7251702 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
7251616 ATATTCGCGT
7251626 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
7251647 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
7251667 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
7251689 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
7251703 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:7251713 original size:20 final size:20
Alignment explanation
Indices: 7251688--7251739 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
7251678 AAGAATCGCG
*
7251688 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
7251708 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
7251728 TTGCGATTCTGG
1 TTGCGATTCTGG
7251740 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:7251997 original size:29 final size:30
Alignment explanation
Indices: 7251940--7251997 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
7251930 ATATAAAAGT
* *
7251940 AAAAGACTTAAAATTGAAATAAATTAAAAA
1 AAAAGACTTAAAATCGAAATAAATCAAAAA
7251970 AAAAGA-TT-AAATCGAAATAAATGCAAAA
1 AAAAGACTTAAAATCGAAATAAAT-CAAAA
7251998 TGTGAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.52
29 6 0.24
30 6 0.24
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.21
Consensus pattern (30 bp):
AAAAGACTTAAAATCGAAATAAATCAAAAA
Found at i:7252103 original size:13 final size:13
Alignment explanation
Indices: 7252087--7252111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7252077 TAAGTTTATG
7252087 TATAAACTATATA
1 TATAAACTATATA
7252100 TATAAACTATAT
1 TATAAACTATAT
7252112 TTACATTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAAACTATATA
Found at i:7252148 original size:2 final size:2
Alignment explanation
Indices: 7252143--7252173 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7252133 TATTATAAAT
7252143 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 T
7252174 TATGTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7252390 original size:19 final size:19
Alignment explanation
Indices: 7252368--7252421 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
7252358 TTGAGAATAT
7252368 AGGGAAATTGAGAATTTAG
1 AGGGAAATTGAGAATTTAG
* * *
7252387 AGGG-AATAGAAAATTTTGG
1 AGGGAAATTGAGAA-TTTAG
7252406 AGGGAAATTGAGAATT
1 AGGGAAATTGAGAATT
7252422 GAGATTTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 7 0.25
19 14 0.50
20 7 0.25
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (19 bp):
AGGGAAATTGAGAATTTAG
Found at i:7252650 original size:2 final size:2
Alignment explanation
Indices: 7252645--7252832 Score: 137
Period size: 2 Copynumber: 96.5 Consensus size: 2
7252635 ACACGCACAC
* * * * * *
7252645 AT AT AT GT AT GT AT GT AT AT AA ACT AT AT AT GT AT AA ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT
* * * *
7252689 A- AA AT AT AT AGT TT AT AC AT -T AT A- AT TT AT AT -T A- AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
7252727 AGT AT AT AT AT GT AT AT AT A- ACT AT AT A- AGT A- AT CT AT AT
1 A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT
7252767 AT -T AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7252807 AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7252833 GGAACACTAA
Statistics
Matches: 146, Mismatches: 23, Indels: 34
0.72 0.11 0.17
Matches are distributed among these distances:
1 11 0.08
2 128 0.88
3 7 0.05
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7252987 original size:17 final size:17
Alignment explanation
Indices: 7252965--7252998 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7252955 ATAGTACATG
7252965 TATATATAAACTATATA
1 TATATATAAACTATATA
*
7252982 TATATATAACCTATATA
1 TATATATAAACTATATA
7252999 AAGTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (17 bp):
TATATATAAACTATATA
Found at i:7253090 original size:7 final size:7
Alignment explanation
Indices: 7253080--7253123 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
7253070 TAGTTTATAG
7253080 AAACCCT
1 AAACCCT
*
7253087 AAACTCT
1 AAACCCT
7253094 AAACCCT
1 AAACCCT
7253101 AAACCCT
1 AAACCCT
*
7253108 AAACCAT
1 AAACCCT
7253115 AAACCCT
1 AAACCCT
7253122 AA
1 AA
7253124 TATAAATGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:7253452 original size:13 final size:13
Alignment explanation
Indices: 7253420--7253446 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7253410 TAATTTACAT
7253420 TTAAATAATTTTA
1 TTAAATAATTTTA
7253433 TTAAATAATTTTA
1 TTAAATAATTTTA
7253446 T
1 T
7253447 ATAATATGTA
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:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:7253559 original size:2 final size:2
Alignment explanation
Indices: 7253486--7253550 Score: 96
Period size: 2 Copynumber: 33.0 Consensus size: 2
7253476 ACATATAAAC
**
7253486 TA TA TA TA TA -A CC TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
7253527 TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
7253551 AACTATATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7253601 original size:49 final size:48
Alignment explanation
Indices: 7253543--7253637 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
7253533 TATATATATA
* * * ** *
7253543 TATGTATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TATGCATAAACTATATAAAAT-AATAAAATATATAGTTTATAAAAACAC
7253592 TATGCATAAACTATATAAAATAATAAAATATATAGTTTATAAAAAC
1 TATGCATAAACTATATAAAATAATAAAATATATAGTTTATAAAAAC
7253638 CCTAAACTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 21 0.52
49 19 0.47
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (48 bp):
TATGCATAAACTATATAAAATAATAAAATATATAGTTTATAAAAACAC
Found at i:7254019 original size:22 final size:24
Alignment explanation
Indices: 7253974--7254026 Score: 83
Period size: 22 Copynumber: 2.2 Consensus size: 24
7253964 ATTAATCATG
7253974 TTTTATTTAATTTTCATTTAAATAA
1 TTTTA-TTAATTTTCATTTAAATAA
7253999 TTTTATTAATTTT-A-TTAAATAA
1 TTTTATTAATTTTCATTTAAATAA
7254021 TTTTAT
1 TTTTAT
7254027 AAAAACCCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.50
23 1 0.04
24 8 0.29
25 5 0.18
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTATTAATTTTCATTTAAATAA
Found at i:7254041 original size:7 final size:7
Alignment explanation
Indices: 7254029--7254092 Score: 78
Period size: 7 Copynumber: 9.3 Consensus size: 7
7254019 AATTTTATAA
7254029 AAACCCT
1 AAACCCT
7254036 AAACCCT
1 AAACCCT
7254043 AAACCCT
1 AAACCCT
7254050 -AACCACT
1 AAACC-CT
7254057 AAACCCT
1 AAACCCT
*
7254064 AAA-CAT
1 AAACCCT
*
7254070 TAACCCT
1 AAACCCT
*
7254077 AAACCAT
1 AAACCCT
7254084 AAACCCT
1 AAACCCT
7254091 AA
1 AA
7254093 TATAAATAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
6 8 0.17
7 36 0.75
8 4 0.08
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:7254048 original size:14 final size:14
Alignment explanation
Indices: 7254029--7254092 Score: 87
Period size: 14 Copynumber: 4.6 Consensus size: 14
7254019 AATTTTATAA
*
7254029 AAACCCTAAACCCT
1 AAACCCTAAACCAT
7254043 AAACCCT-AACCACT
1 AAACCCTAAACCA-T
7254057 AAACCCTAAA-CAT
1 AAACCCTAAACCAT
*
7254070 TAACCCTAAACCAT
1 AAACCCTAAACCAT
7254084 AAACCCTAA
1 AAACCCTAA
7254093 TATAAATAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
13 14 0.32
14 28 0.64
15 2 0.05
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:7254994 original size:24 final size:24
Alignment explanation
Indices: 7254910--7254992 Score: 103
Period size: 24 Copynumber: 3.5 Consensus size: 24
7254900 CATAATTCAG
* *
7254910 GTCAAGTATAAGATCAGAATTCAT
1 GTCAAGTATCAGATCAGAATCCAT
* ** *
7254934 GTCAAATATTGGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
*
7254958 GTCAAGTATCATATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
7254982 GTCAAGTATCA
1 GTCAAGTATCA
7254993 TAACATAATT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:7256328 original size:12 final size:12
Alignment explanation
Indices: 7256311--7256346 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
7256301 ATAAAGTTGA
7256311 TAAGTTGAATTT
1 TAAGTTGAATTT
7256323 TAAGTTGAATTT
1 TAAGTTGAATTT
7256335 TAAGTTGAATTT
1 TAAGTTGAATTT
7256347 GACTTGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (12 bp):
TAAGTTGAATTT
Found at i:7256641 original size:22 final size:21
Alignment explanation
Indices: 7256587--7256647 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
7256577 GATTTCTGGG
*
7256587 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGATACCCATT
*
7256608 CAAGGGGTATCGATACCCATT
1 CAAGGGGAATCGATACCCATT
7256629 CAATGGGGAATCGATACCC
1 CAA-GGGGAATCGATACCC
7256648 CTCAAGCGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 22 0.61
22 14 0.39
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.20
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCATT
Found at i:7256725 original size:23 final size:22
Alignment explanation
Indices: 7256681--7256725 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7256671 AATCTCATAG
*
7256681 GGGAACCGATTCCCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
*
7256703 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
7256726 AAAATGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:7257913 original size:22 final size:21
Alignment explanation
Indices: 7257840--7257921 Score: 146
Period size: 21 Copynumber: 3.9 Consensus size: 21
7257830 GATTTTTGGG
7257840 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
7257861 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
7257882 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
*
7257903 CAATGGGGAATCGATACCC
1 CAA-GGGGAATCGGTACCC
7257922 CTCAAGCGAA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
21 45 0.76
22 14 0.24
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGGTACCCATT
Found at i:7259002 original size:15 final size:15
Alignment explanation
Indices: 7258982--7259015 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7258972 ACCCTATAAG
* *
7258982 TATAAGTTATATGAT
1 TATAAGTAACATGAT
7258997 TATAAGTAACATGAT
1 TATAAGTAACATGAT
7259012 TATA
1 TATA
7259016 TGATTACAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (15 bp):
TATAAGTAACATGAT
Found at i:7259457 original size:23 final size:23
Alignment explanation
Indices: 7259424--7259514 Score: 137
Period size: 23 Copynumber: 4.0 Consensus size: 23
7259414 ATTATTATAT
*
7259424 GGCACTACGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
7259447 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
*
7259470 GGCACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
** *
7259493 GGCACTTTGGTGCAATTATACG
1 GGCACTCCGGTGCAATTCTACG
7259515 AGCTGTGGTG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:7264951 original size:14 final size:14
Alignment explanation
Indices: 7264932--7264968 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
7264922 GATTTTTTAC
7264932 GCAGGGATTTATTT
1 GCAGGGATTTATTT
7264946 GCAGGGATTTATTT
1 GCAGGGATTTATTT
7264960 GCAGGGATT
1 GCAGGGATT
7264969 ACTTCTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.08, G:0.32, T:0.38
Consensus pattern (14 bp):
GCAGGGATTTATTT
Found at i:7265005 original size:13 final size:13
Alignment explanation
Indices: 7264987--7265013 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7264977 TTACAAACGC
7264987 GCATATGAAGACT
1 GCATATGAAGACT
7265000 GCATATGAAGACT
1 GCATATGAAGACT
7265013 G
1 G
7265014 TTCAACTATG
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:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:7265450 original size:15 final size:15
Alignment explanation
Indices: 7265423--7265467 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 15
7265413 GTATAGTATG
7265423 TATAAACTATATATA
1 TATAAACTATATATA
7265438 TATATAACCTATATATA
1 TATA-AA-CTATATATA
7265455 TATAAACTATATA
1 TATAAACTATATA
7265468 AAGTAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.39
16 4 0.14
17 13 0.46
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (15 bp):
TATAAACTATATATA
Found at i:7265552 original size:7 final size:7
Alignment explanation
Indices: 7265542--7265613 Score: 72
Period size: 7 Copynumber: 10.3 Consensus size: 7
7265532 TAGTTTATAG
7265542 AAACCCT
1 AAACCCT
7265549 AAACCCT
1 AAACCCT
*
7265556 AAACCTT
1 AAACCCT
*
7265563 AAACCAT
1 AAACCCT
**
7265570 AAACTTT
1 AAACCCT
*
7265577 AAACCAT
1 AAACCCT
*
7265584 AAACACT
1 AAACCCT
*
7265591 AACCCCT
1 AAACCCT
*
7265598 AAACCAT
1 AAACCCT
7265605 AAACCCT
1 AAACCCT
7265612 AA
1 AA
7265614 TATAAATGGA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:7265559 original size:49 final size:49
Alignment explanation
Indices: 7265456--7265559 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 49
7265446 CTATATATAT
* ** **
7265456 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAACC
*
7265505 ATAAACTATATAAAGT-AATAAAATATATAGTTTATAGAAACCCTAAACC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACT-AACC
*
7265554 CTAAAC
1 ATAAAC
7265560 CTTAAACCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 24 0.51
49 23 0.49
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAACC
Found at i:7265789 original size:23 final size:23
Alignment explanation
Indices: 7265763--7265814 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
7265753 TTCATTATTA
*
7265763 ATATTTTTTATATAAATTAAACT
1 ATATTATTTATATAAATTAAACT
*
7265786 ATATAATTTATATAAATTAAACT
1 ATATTATTTATATAAATTAAACT
7265809 ATATTA
1 ATATTA
7265815 ATTTTCCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATTATTTATATAAATTAAACT
Found at i:7265790 original size:14 final size:14
Alignment explanation
Indices: 7265771--7265817 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
7265761 TAATATTTTT
7265771 TATATAAATTAAAC
1 TATATAAATTAAAC
7265785 TATAT-AATT----
1 TATATAAATTAAAC
7265794 TATATAAATTAAAC
1 TATATAAATTAAAC
*
7265808 TATATTAATT
1 TATATAAATT
7265818 TTCCTTTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:7266112 original size:16 final size:16
Alignment explanation
Indices: 7266088--7266138 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
7266078 CGGATCATTT
*
7266088 ACATGTCAGGTTAAAA
1 ACATGTCAGGTTGAAA
* *
7266104 ACATTTCAGATTGAAA
1 ACATGTCAGGTTGAAA
7266120 ACATGTCAGGTTGAAA
1 ACATGTCAGGTTGAAA
7266136 ACA
1 ACA
7266139 AGTCGGGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (16 bp):
ACATGTCAGGTTGAAA
Found at i:7267143 original size:29 final size:29
Alignment explanation
Indices: 7267111--7267182 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
7267101 ATGATTATTT
7267111 TGATCATTAAACTTTTAAAAATTACAAAA
1 TGATCATTAAACTTTTAAAAATTACAAAA
7267140 TGATCATTAAACTTTTAAAAATTACAAAA
1 TGATCATTAAACTTTTAAAAATTACAAAA
7267169 TGATCATTAAACTT
1 TGATCATTAAACTT
7267183 ATTGAATCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (29 bp):
TGATCATTAAACTTTTAAAAATTACAAAA
Found at i:7269425 original size:31 final size:31
Alignment explanation
Indices: 7269387--7269446 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
7269377 TAAACTTTAT
* *
7269387 GCATTAGGGGATAGTTTCAGTTATGCATCCA
1 GCATTAGGGGATAGTATCAATTATGCATCCA
7269418 GCATTAGGGGATAGTATCAATTATGCATC
1 GCATTAGGGGATAGTATCAATTATGCATC
7269447 TAGAATTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (31 bp):
GCATTAGGGGATAGTATCAATTATGCATCCA
Found at i:7270790 original size:28 final size:28
Alignment explanation
Indices: 7270758--7270817 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
7270748 TAGTTTACCG
* *
7270758 TTTCTGAAAATCCTTCGGTTTATATCCA
1 TTTCTGAAAATCCTCCGATTTATATCCA
*
7270786 TTTCTGAAAATCCTCCGATTTATATCTA
1 TTTCTGAAAATCCTCCGATTTATATCCA
7270814 TTTC
1 TTTC
7270818 ATTGCTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (28 bp):
TTTCTGAAAATCCTCCGATTTATATCCA
Found at i:7271088 original size:17 final size:17
Alignment explanation
Indices: 7271052--7271088 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7271042 GATAAAAAGT
*
7271052 TTGCATCTAGATTCTAC
1 TTGCATCTAGATCCTAC
*
7271069 TTGCATCTAGATCCTCC
1 TTGCATCTAGATCCTAC
7271086 TTG
1 TTG
7271089 TGATCCAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.41
Consensus pattern (17 bp):
TTGCATCTAGATCCTAC
Found at i:7272082 original size:13 final size:14
Alignment explanation
Indices: 7272064--7272095 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7272054 CTACAATATG
7272064 ATTTTT-GTGTTAT
1 ATTTTTAGTGTTAT
7272077 ATTTTTAGTGTTAT
1 ATTTTTAGTGTTAT
7272091 ATTTT
1 ATTTT
7272096 CTTACTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (14 bp):
ATTTTTAGTGTTAT
Found at i:7272722 original size:20 final size:20
Alignment explanation
Indices: 7272684--7272723 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
7272674 TAATCCTATT
* **
7272684 CACTGGTAATCTTTTATTCC
1 CACTGATAATCTTGCATTCC
7272704 CACTGATAATCTTGCATTCC
1 CACTGATAATCTTGCATTCC
7272724 GTGAACCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.40
Consensus pattern (20 bp):
CACTGATAATCTTGCATTCC
Found at i:7275967 original size:57 final size:60
Alignment explanation
Indices: 7275843--7275967 Score: 141
Period size: 57 Copynumber: 2.1 Consensus size: 60
7275833 ATAACCAAGT
* * * * *
7275843 AATTATTTTGTAACTTTTATTAATCAGAAGATTTAATAAAATAATACTCTATAATCAAAT
1 AATTATTTTATAACTTTTAATAATCAGAAGACTTAATAAAATAACACTCTATAATCAAAG
* * *
7275903 AACTATTTTATAA-TTTTAATAATTA-AA-ACTTAATAAAATAACA-TCATATAATTAAAG
1 AATTATTTTATAACTTTTAATAATCAGAAGACTTAATAAAATAACACTC-TATAATCAAAG
7275960 AATTATTT
1 AATTATTT
7275968 ATGTATTTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
56 2 0.04
57 30 0.55
58 2 0.04
59 10 0.18
60 11 0.20
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (60 bp):
AATTATTTTATAACTTTTAATAATCAGAAGACTTAATAAAATAACACTCTATAATCAAAG
Found at i:7276129 original size:12 final size:13
Alignment explanation
Indices: 7276104--7276128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7276094 AACGATAAAT
7276104 TTTAATGAAAAAA
1 TTTAATGAAAAAA
7276117 TTTAATGAAAAA
1 TTTAATGAAAAA
7276129 TATTATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTAATGAAAAAA
Found at i:7281743 original size:17 final size:17
Alignment explanation
Indices: 7281721--7281754 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7281711 ACAAACACGG
7281721 TAATTAATTTAGATATT
1 TAATTAATTTAGATATT
* *
7281738 TAATTATTTTTGATATT
1 TAATTAATTTAGATATT
7281755 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TAATTAATTTAGATATT
Found at i:7281791 original size:3 final size:3
Alignment explanation
Indices: 7281783--7281808 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7281773 TGTTATTAAT
7281783 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
7281809 TATGATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7287282 original size:16 final size:16
Alignment explanation
Indices: 7287219--7287289 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
7287209 ATTAATTGAT
7287219 ATTTTATTATGATTTA
1 ATTTTATTATGATTTA
*
7287235 ATTTTCATTAT-ATGTAAA
1 ATTTT-ATTATGAT-T-TA
* *
7287253 AATATATTCA-GATTTA
1 ATTTTATT-ATGATTTA
7287269 ATTTTATTATGATTTA
1 ATTTTATTATGATTTA
7287285 ATTTT
1 ATTTT
7287290 CATTTTATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
15 1 0.02
16 25 0.58
17 10 0.23
18 7 0.16
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTTTATTATGATTTA
Found at i:7289444 original size:21 final size:20
Alignment explanation
Indices: 7289396--7289443 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
7289386 TAGGGAACCT
*
7289396 ATTCCCCTTATGGGGTACCG
1 ATTCCCCCTATGGGGTACCG
7289416 ATTCCCCCTATGGGGTACCG
1 ATTCCCCCTATGGGGTACCG
7289436 ATTCCCCC
1 ATTCCCCC
7289444 CACGCTCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.15, C:0.38, G:0.21, T:0.27
Consensus pattern (20 bp):
ATTCCCCCTATGGGGTACCG
Found at i:7296301 original size:35 final size:34
Alignment explanation
Indices: 7296250--7296362 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 34
7296240 AAAACAATCC
* *
7296250 TCAATTTCATTATAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
*
7296285 TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
7296320 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
7296355 TCAATTTC
1 TCAATTTC
7296363 TGTCTTTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
34 1 0.01
35 61 0.90
36 6 0.09
ACGTcount: A:0.43, C:0.21, G:0.01, T:0.35
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:7297466 original size:35 final size:34
Alignment explanation
Indices: 7297418--7297529 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 34
7297408 ATTCCTCCTT
*
7297418 AAATTGAAATATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGGG-TTTAGAATG
*
7297453 TAATTGAATTATTTTAGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTT-GGGTTTAGAATG
* *
7297488 AAATTGAATTACTTTGGAATTTGGAGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGG-GTTTAGAATG
7297523 AAATTGA
1 AAATTGA
7297530 GGAATGTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 2 0.03
35 65 0.93
36 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTAGAATTTGGGTTTAGAATG
Found at i:7298733 original size:2 final size:2
Alignment explanation
Indices: 7298726--7298775 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
7298716 TAACTTTTGA
7298726 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7298768 AT AT AT AT
1 AT AT AT AT
7298776 TTGTTTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7300021 original size:29 final size:29
Alignment explanation
Indices: 7299972--7300028 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
7299962 CCCCAAAATC
*
7299972 ATTTGAAACTTTGGGAGTGAAGTTAGAAT
1 ATTTGAAACTTTGGGAGTGAAGGTAGAAT
* *
7300001 ATTTGAAAGTTTAGGG-TTGAAGGTAGAA
1 ATTTGAAACTTT-GGGAGTGAAGGTAGAA
7300029 CGTTCACAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (29 bp):
ATTTGAAACTTTGGGAGTGAAGGTAGAAT
Found at i:7306783 original size:2 final size:2
Alignment explanation
Indices: 7306776--7306808 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7306766 CCTACATCTT
*
7306776 TA TA TA TA TT 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 T
7306809 TAATTTTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:7309698 original size:31 final size:31
Alignment explanation
Indices: 7309660--7309722 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
7309650 CAAATATTAA
7309660 ACAATAAATAATATTATTTATCATAAAACTT
1 ACAATAAATAATATTATTTATCATAAAACTT
7309691 ACAATAAATAATATTATTTATCATAAAACTT
1 ACAATAAATAATATTATTTATCATAAAACTT
7309722 A
1 A
7309723 ATATTATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (31 bp):
ACAATAAATAATATTATTTATCATAAAACTT
Found at i:7309752 original size:22 final size:21
Alignment explanation
Indices: 7309727--7309786 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
7309717 AACTTAATAT
7309727 TATTATTTTTAAAATATTAAAA
1 TATTATTTTT-AAATATTAAAA
* *
7309749 TATTATATTT-ATTATTAAAA
1 TATTATTTTTAAATATTAAAA
* *
7309769 CATTATTTCTATAATATT
1 TATTATTTTTA-AATATT
7309787 TTTAATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 16 0.53
22 14 0.47
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTATTTTTAAATATTAAAA
Found at i:7309847 original size:33 final size:33
Alignment explanation
Indices: 7309790--7309853 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
7309780 TAATATTTTT
* * *
7309790 AATAAAAATATTAATATTGGTATATTTTATTGA
1 AATAAAAATATTAAAATTGATATATATTATTGA
7309823 AATAAAAATATTATAAATT-ATATATATTATT
1 AATAAAAATATTA-AAATTGATATATATTATT
7309854 TATTAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 23 0.85
34 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (33 bp):
AATAAAAATATTAAAATTGATATATATTATTGA
Found at i:7309873 original size:21 final size:22
Alignment explanation
Indices: 7309830--7309878 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
7309820 TGAAATAAAA
7309830 ATATTA-TAAATTATATATATT
1 ATATTATTAAATTATATATATT
*
7309851 AT-TTATTAAATTA-ATATTTTT
1 ATATTATTAAATTATATA-TATT
7309872 ATATTAT
1 ATATTAT
7309879 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.25
21 14 0.58
22 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTATTAAATTATATATATT
Found at i:7309885 original size:26 final size:25
Alignment explanation
Indices: 7309835--7309915 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 25
7309825 TAAAAATATT
7309835 ATAA-ATTATATATATTAT-TTATTAA
1 ATAATATTA-ATATATTATATT-TTAA
**
7309860 ATTAATATTTTTATATTATATTTTAA
1 A-TAATATTAATATATTATATTTTAA
*
7309886 A-AATATTAAT-TAGTATATTTTAA
1 ATAATATTAATATATTATATTTTAA
7309909 AT-ATATT
1 ATAATATT
7309916 TATTAAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 18 0.38
24 7 0.15
25 1 0.02
26 16 0.34
27 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
ATAATATTAATATATTATATTTTAA
Found at i:7309893 original size:35 final size:36
Alignment explanation
Indices: 7309854--7309928 Score: 93
Period size: 35 Copynumber: 2.1 Consensus size: 36
7309844 ATATATTATT
*
7309854 TATTAAATTAATAT-TTTTATATTATATTT-TAAAAA
1 TATTAAATTAATATATTTTA-AATATATTTATAAAAA
* *
7309889 TATT-AATTAGTATATTTTAAATATATTTATTAAAA
1 TATTAAATTAATATATTTTAAATATATTTATAAAAA
7309924 TATTA
1 TATTA
7309929 TTAGATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 16 0.47
35 18 0.53
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (36 bp):
TATTAAATTAATATATTTTAAATATATTTATAAAAA
Found at i:7309897 original size:34 final size:35
Alignment explanation
Indices: 7309854--7309949 Score: 92
Period size: 34 Copynumber: 2.8 Consensus size: 35
7309844 ATATATTATT
7309854 TATTAAATTAATATTTTTATATTATATTT-TAAAAA
1 TATT-AATTAATATTTTTATATTATATTTATAAAAA
* * *
7309889 TATTAATTAGTATATTTTA-AATATATTTATTAAAA
1 TATTAATTAATAT-TTTTATATTATATTTATAAAAA
* *
7309924 TATT-ATT-AGATTATTATATTGATATT
1 TATTAATTAATATTTTTATATT-ATATT
7309950 AAATATATAC
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
32 4 0.08
33 4 0.08
34 24 0.48
35 18 0.36
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (35 bp):
TATTAATTAATATTTTTATATTATATTTATAAAAA
Found at i:7309905 original size:23 final size:23
Alignment explanation
Indices: 7309876--7309920 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
7309866 ATTTTTATAT
7309876 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
7309899 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
7309921 AAATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:7309926 original size:23 final size:23
Alignment explanation
Indices: 7309877--7309927 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
7309867 TTTTTATATT
**
7309877 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* *
7309900 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
7309923 ATATT
1 ATATT
7309928 ATTAGATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:7309981 original size:27 final size:28
Alignment explanation
Indices: 7309946--7310020 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
7309936 ATTATATTGA
7309946 TATTAAAT-ATATACATAATATTATTCAT
1 TATTAAATAATATA-ATAATATTATTCAT
* *
7309974 TATT-AATAATTTAATAATATTATTC-C
1 TATTAAATAATATAATAATATTATTCAT
*
7310000 TATGAAATTAATA-AATAATAT
1 TATTAAA-TAATATAATAATAT
7310021 AAATTTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 3 0.08
27 25 0.62
28 12 0.30
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (28 bp):
TATTAAATAATATAATAATATTATTCAT
Found at i:7310127 original size:30 final size:32
Alignment explanation
Indices: 7310093--7310152 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
7310083 AACATAATTG
* *
7310093 ATTATTTTATTCT-AATATTAA-AAATATAAT
1 ATTATATTATTATAAATATTAATAAATATAAT
7310123 ATTATATTATTATAAATATTAATAAATATA
1 ATTATATTATTATAAATATTAATAAATATA
7310153 TTTTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 11 0.42
31 8 0.31
32 7 0.27
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (32 bp):
ATTATATTATTATAAATATTAATAAATATAAT
Found at i:7310161 original size:24 final size:23
Alignment explanation
Indices: 7310108--7310161 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
7310098 TTTATTCTAA
*
7310108 TATTAA-AAATATAATATTATAT
1 TATTAATAAATATAATAATATAT
7310130 TATT-ATAAATATTAATAAATATAT
1 TATTAATAAATA-TAAT-AATATAT
7310154 T-TTAATAA
1 TATTAATAA
7310162 TTAATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.04
22 9 0.33
23 6 0.22
24 11 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TATTAATAAATATAATAATATAT
Found at i:7314676 original size:13 final size:13
Alignment explanation
Indices: 7314658--7314682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7314648 CTCCTTTTTT
7314658 AAAAATAAAAAAC
1 AAAAATAAAAAAC
7314671 AAAAATAAAAAA
1 AAAAATAAAAAA
7314683 TGGGGCTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAATAAAAAAC
Found at i:7315016 original size:20 final size:19
Alignment explanation
Indices: 7314978--7315016 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
7314968 TTATCACACC
* *
7314978 AAATTTTCTCAATTTCTCT
1 AAATTTTCTCAAATACTCT
7314997 AAATTTCTCTCAAATACTCT
1 AAATTT-TCTCAAATACTCT
7315017 CTTTTTAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATTTTCTCAAATACTCT
Found at i:7317370 original size:26 final size:24
Alignment explanation
Indices: 7317298--7317370 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 24
7317288 TTATATTTGT
7317298 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
* *
7317323 ATTT-TTTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
7317346 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
7317371 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
23 4 0.11
24 10 0.27
25 12 0.32
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:7319681 original size:51 final size:50
Alignment explanation
Indices: 7319568--7319683 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 50
7319558 AACGCGGTAT
* *
7319568 CTGATCCGCGCTATATAAAATTATGTCAGAGTAAATGTATGTCGCGGTAC
1 CTGATCCGCGCTATATAAAATTATGTCAGAGTAAAGGTATGTCGCAGTAC
** * *
7319618 CTGCCCCGCGCTATATAAAATTATGTCGGGAGTAAAGGTATAG-CGCAGTTC
1 CTGATCCGCGCTATATAAAATTATGTC-AGAGTAAAGGTAT-GTCGCAGTAC
7319669 CTGATCCGCGCTATA
1 CTGATCCGCGCTATA
7319684 CTCCTACTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 25 0.45
51 30 0.54
52 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (50 bp):
CTGATCCGCGCTATATAAAATTATGTCAGAGTAAAGGTATGTCGCAGTAC
Found at i:7321012 original size:2 final size:2
Alignment explanation
Indices: 7321005--7321029 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7320995 ATTGAGAAAA
7321005 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7321030 AATTATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7326043 original size:14 final size:14
Alignment explanation
Indices: 7326024--7326067 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
7326014 GTAACCGGTT
7326024 TCGGTTTTAAAAAA
1 TCGGTTTTAAAAAA
7326038 TCGGTTTTTTAAAAAA
1 TCGG--TTTTAAAAAA
* *
7326054 CCGGTTATAAAAAA
1 TCGGTTTTAAAAAA
7326068 ACCGATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 13 0.50
16 13 0.50
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (14 bp):
TCGGTTTTAAAAAA
Found at i:7326049 original size:16 final size:16
Alignment explanation
Indices: 7326028--7326059 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7326018 CCGGTTTCGG
*
7326028 TTTTAAAAAATCGGTT
1 TTTTAAAAAACCGGTT
7326044 TTTTAAAAAACCGGTT
1 TTTTAAAAAACCGGTT
7326060 ATAAAAAAAC
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:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (16 bp):
TTTTAAAAAACCGGTT
Found at i:7326274 original size:21 final size:21
Alignment explanation
Indices: 7326245--7326301 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
7326235 TTTTACACTT
*
7326245 AGGGAACCGATTCCCTATGAG
1 AGGGTACCGATTCCCTATGAG
7326266 AGGGTACCGATTCCCTATGAG
1 AGGGTACCGATTCCCTATGAG
*
7326287 AGAGTACCGATTCCC
1 AGGGTACCGATTCCC
7326302 CCACGCTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (21 bp):
AGGGTACCGATTCCCTATGAG
Found at i:7326518 original size:13 final size:13
Alignment explanation
Indices: 7326497--7326551 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
7326487 AAGTTCGATA
*
7326497 AATTCAAATACTT
1 AATTGAAATACTT
7326510 AATTGAAATACTT
1 AATTGAAATACTT
* *
7326523 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
7326537 AATTGAAATACTT
1 AATTGAAATACTT
7326550 AA
1 AA
7326552 ATACTTTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:7326582 original size:33 final size:33
Alignment explanation
Indices: 7326537--7326635 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
7326527 AACTCAACAT
* * *
7326537 AATTGAAATACTTAAATACTTTCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTTCAAGTTCGATA
*
7326570 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTTCAAGTTCGATA
7326603 AATTCAAATACTTAAAAAC-TTCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTTCAAGTTCGATA
7326635 A
1 A
7326636 TTGAAACAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
32 13 0.21
33 48 0.79
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTTCAAGTTCGATA
Found at i:7326654 original size:21 final size:21
Alignment explanation
Indices: 7326630--7326669 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7326620 ACTTCAAGTT
7326630 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
7326651 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
7326670 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:7329136 original size:27 final size:28
Alignment explanation
Indices: 7329099--7329156 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
7329089 AAAAAACCGG
*
7329099 TTTTTCCCAAAACCG-AT-TTCGGATATT
1 TTTTTCACAAAACCGAATATTCGGAT-TT
*
7329126 TTTTTCACAAAATCGAATATTCGGATTT
1 TTTTTCACAAAACCGAATATTCGGATTT
7329154 TTT
1 TTT
7329157 GTGCACCCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 13 0.48
28 7 0.26
29 7 0.26
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (28 bp):
TTTTTCACAAAACCGAATATTCGGATTT
Found at i:7336614 original size:22 final size:22
Alignment explanation
Indices: 7336549--7336617 Score: 113
Period size: 22 Copynumber: 3.1 Consensus size: 22
7336539 TAGCGCCCGA
*
7336549 CGATGGTA-GCTGTGACTGCCGA
1 CGATGG-AGGCTGTGACTGCCGG
7336571 CGATGGAGGCTGTGACTGCCGG
1 CGATGGAGGCTGTGACTGCCGG
7336593 CGATGGAGGCTGTGACTGCCGG
1 CGATGGAGGCTGTGACTGCCGG
7336615 CGA
1 CGA
7336618 AAAAAGAAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 1 0.02
22 44 0.98
ACGTcount: A:0.16, C:0.23, G:0.42, T:0.19
Consensus pattern (22 bp):
CGATGGAGGCTGTGACTGCCGG
Found at i:7340831 original size:7 final size:7
Alignment explanation
Indices: 7340811--7340843 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
7340801 TTCATAATGA
7340811 TAAA-TT
1 TAAATTT
7340817 TAAATTT
1 TAAATTT
*
7340824 TTAATTT
1 TAAATTT
7340831 TAAATTT
1 TAAATTT
7340838 TAAATT
1 TAAATT
7340844 AAAAGACTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TAAATTT
Found at i:7346697 original size:58 final size:59
Alignment explanation
Indices: 7346541--7346697 Score: 133
Period size: 58 Copynumber: 2.6 Consensus size: 59
7346531 TATAGGGATG
* * * * **
7346541 AAATTAAAATATTCAAAAGTTTGGGGACCAATTTAGAATGAAGGTCATAGTTTAGAGGTG
1 AAATTAAAATATT-AAAAATTTTGGGACTAATTTAAAATGAAGGTCATAGTTTAGAGGCA
** * *
7346601 AAATTGGAAGATTAAAAAGTTTTGGGA-TCATTTCAAAATG-A-GTCATAGTTTAG-GGACA
1 AAATTAAAATATTAAAAA-TTTTGGGACTAATTT-AAAATGAAGGTCATAGTTTAGAGG-CA
* *
7346659 AAATTAAAATATTTAAAATTTTGGAGACTTATTTAAAAT
1 AAATTAAAATATTAAAAATTTTGG-GACTAATTTAAAAT
7346698 TAGAATAATA
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
57 8 0.10
58 33 0.43
59 14 0.18
60 22 0.29
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (59 bp):
AAATTAAAATATTAAAAATTTTGGGACTAATTTAAAATGAAGGTCATAGTTTAGAGGCA
Found at i:7348052 original size:26 final size:26
Alignment explanation
Indices: 7348001--7348071 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
7347991 AACATGTTTT
* * *
7348001 TAATTTTTAAAAAGCTAAAAATAAAAAC
1 TAATTTCTAAAAA-C-AAAAACAAAAAA
*
7348029 TACTTTCTAAAAACAAAAACAAAAAA
1 TAATTTCTAAAAACAAAAACAAAAAA
*
7348055 TAATTTCTAAAACCAAA
1 TAATTTCTAAAAACAAA
7348072 CAAAATCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 25 0.68
27 1 0.03
28 11 0.30
ACGTcount: A:0.61, C:0.13, G:0.01, T:0.25
Consensus pattern (26 bp):
TAATTTCTAAAAACAAAAACAAAAAA
Found at i:7349371 original size:37 final size:38
Alignment explanation
Indices: 7349299--7349373 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
7349289 ATATAGTATA
** * *
7349299 GCCACCAAATTTGAAATTTCCTTTGAGAACCAATAATT
1 GCCACCAAAACTGAAAATTCCTTTGAGAACAAATAATT
*
7349337 GCCACCAAAACTGAAAATTCC-TTGAGAATAAATAATT
1 GCCACCAAAACTGAAAATTCCTTTGAGAACAAATAATT
7349374 ATAGGTCTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 14 0.44
38 18 0.56
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (38 bp):
GCCACCAAAACTGAAAATTCCTTTGAGAACAAATAATT
Found at i:7350230 original size:37 final size:37
Alignment explanation
Indices: 7350189--7350300 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
7350179 AACATAGCGT
7350189 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
*
7350226 TAGAGTTTTATTAGGATTCAAACTCCTAAAAATAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
* * *
7350263 TAGAGTTCTACTATGATTCAAACTCCTAAAAGTAGGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
7350300 T
1 T
7350301 CCAGAAGCAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAGGA
Found at i:7350873 original size:36 final size:34
Alignment explanation
Indices: 7350831--7350956 Score: 92
Period size: 40 Copynumber: 3.4 Consensus size: 34
7350821 TTAGTATATA
*
7350831 TTTTTATTTTTTAGATTACATATATATATATGTTAT
1 TTTTTATTTTTTA-ATTA-ATATATATATATATTAT
* * *
7350867 TTTTTATTATCTGTTTTATTAATTTATATATATTTACTAT
1 TTTTTA-T-T-T-TTTAATTAA--TATATATATATATTAT
*
7350907 TTTTTATGTTTTTATTTATTATATATATATATATTA-
1 TTTTTAT-TTTTTAATTA--ATATATATATATATTAT
7350943 TTTTTACTTTTTTA
1 TTTTTA-TTTTTTA
7350957 TTATTATTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
36 18 0.25
37 21 0.29
38 3 0.04
39 8 0.11
40 22 0.31
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (34 bp):
TTTTTATTTTTTAATTAATATATATATATATTAT
Found at i:7350926 original size:4 final size:4
Alignment explanation
Indices: 7350881--7351023 Score: 54
Period size: 4 Copynumber: 35.8 Consensus size: 4
7350871 TATTATCTGT
* *
7350881 TTTA TTAA TTTA TATATA TTTA -CTA TTT- TTTA TGTT- TTTA TTTA TTATA
1 TTTA TTTA TTTA T-T-TA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TT-TA
* * *
7350930 TATA TATA TATTA -TT- TTTA CTTT- TTTA -TTA -TTA TTTTA TTTA TATA
1 TTTA TTTA T-TTA TTTA TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA TTTA
* * *
7350976 TTTA TTTC TTCTT TTTC TTTA TTT- TTT- TTATA TTTTA TTTA TTTA TTT
1 TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TT-TA -TTTA TTTA TTTA TTT
7351024 TACTTACTAT
Statistics
Matches: 109, Mismatches: 12, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
3 25 0.23
4 59 0.54
5 20 0.18
6 5 0.05
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:7350957 original size:36 final size:36
Alignment explanation
Indices: 7350825--7350991 Score: 112
Period size: 37 Copynumber: 4.5 Consensus size: 36
7350815 TTTACTTTAG
* *
7350825 TATA-TATTTTTA-TTTTTTAGATTACATATATATATA
1 TATATTATTTTTACTTTTTTA-TTTA-TTATATATATA
* * * *
7350861 TGTTATTTTTTATTATCTGTTTTATTAATT-TATATATA
1 T-ATATTATTT-TTA-CTTTTTTATTTATTATATATATA
* *
7350899 TTTACTATTTTTTA-TGTTTTTATTTATTATATATATA
1 TATATTA-TTTTTACT-TTTTTATTTATTATATATATA
* *
7350936 TATATTATTTTTACTTTTTTA-TTATTATTTTATTTA
1 TATATTATTTTTACTTTTTTATTTATTA-TATATATA
7350972 TATATTTATTTCTT-CTTTTT
1 TATA-TTATTT-TTACTTTTT
7350992 CTTTATTTTT
Statistics
Matches: 105, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
35 7 0.07
36 33 0.31
37 35 0.33
38 18 0.17
39 4 0.04
40 2 0.02
41 6 0.06
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (36 bp):
TATATTATTTTTACTTTTTTATTTATTATATATATA
Found at i:7350970 original size:5 final size:5
Alignment explanation
Indices: 7350952--7351072 Score: 50
Period size: 5 Copynumber: 22.6 Consensus size: 5
7350942 ATTTTTACTT
* *
7350952 TTTTA TTATTA TTTTA TTTATA TATTTA TTTCT- TCTTTT TCTTTA TTTTT
1 TTTTA TT-TTA TTTTA TTT-TA T-TTTA TTT-TA T-TTTA T-TTTA TTTTA
* * * *
7351002 TTTATA TTTTA -TTTA -TTTA TTTTA CTTACTA TTTTA TCTTTG CTTTC
1 TTT-TA TTTTA TTTTA TTTTA TTTTA -TT-TTA TTTTA T-TTTA TTTTA
* *
7351049 TTTATA TTATA TTTTA TTTAA TTT
1 TTT-TA TTTTA TTTTA TTTTA TTT
7351073 GTTTTTTTCT
Statistics
Matches: 91, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
4 8 0.09
5 45 0.49
6 34 0.37
7 4 0.04
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:7350998 original size:34 final size:35
Alignment explanation
Indices: 7350907--7351015 Score: 109
Period size: 36 Copynumber: 3.1 Consensus size: 35
7350897 TATTTACTAT
* *
7350907 TTTTTA-TGTTTTTATTTATTATATATATATATATTA
1 TTTTTACT-TTTTTATTTATTTTATTTATATAT-TTA
7350943 TTTTTACTTTTTTATTATTATTTTATTTATATATTTA
1 TTTTTACTTTTTTA-T-TTATTTTATTTATATATTTA
* *
7350980 TTTCTT-C-TTTTTCTTTATTTTTTTTATAT-TTTA
1 TTT-TTACTTTTTTATTTATTTTATTTATATATTTA
7351013 TTT
1 TTT
7351016 ATTTATTTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
33 7 0.11
34 14 0.22
35 1 0.02
36 17 0.26
37 9 0.14
38 17 0.26
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (35 bp):
TTTTTACTTTTTTATTTATTTTATTTATATATTTA
Found at i:7351016 original size:20 final size:20
Alignment explanation
Indices: 7350904--7351025 Score: 62
Period size: 20 Copynumber: 6.3 Consensus size: 20
7350894 ATATATTTAC
* *
7350904 TATTTTTTATGTT-TTTATT
1 TATTTTATATTTTATTTATT
* * *
7350923 TATTATATA-TATATATA-T
1 TATTTTATATTTTATTTATT
*
7350941 TATTTT-TACTTT-TTTA-T
1 TATTTTATATTTTATTTATT
* *
7350958 TATTATTTTA-TTTATATATT
1 TATT-TTATATTTTATTTATT
* *
7350978 TATTTCT-TCTTTTTCTTTATT
1 TATTT-TAT-ATTTTATTTATT
*
7350999 TTTTTTATATTTTATTTATT
1 TATTTTATATTTTATTTATT
7351019 TATTTTA
1 TATTTTA
7351026 CTTACTATTT
Statistics
Matches: 77, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
17 10 0.13
18 14 0.18
19 17 0.22
20 23 0.30
21 13 0.17
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (20 bp):
TATTTTATATTTTATTTATT
Found at i:7354190 original size:13 final size:13
Alignment explanation
Indices: 7354166--7354216 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
7354156 CAATCAGAAC
7354166 AAAAAGAG-AAAA
1 AAAAAGAGAAAAA
*
7354178 AAAAAGACAAAAA
1 AAAAAGAGAAAAA
** *
7354191 GCAAAGAGAAAAT
1 AAAAAGAGAAAAA
7354204 AAAAAGAGAAAAA
1 AAAAAGAGAAAAA
7354217 CAAAGGAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
12 7 0.23
13 23 0.77
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAAGAGAAAAA
Found at i:7354201 original size:25 final size:25
Alignment explanation
Indices: 7354168--7354227 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
7354158 ATCAGAACAA
7354168 AAAGAGAAAA-AAAAAGACAAAAAGC
1 AAAGAGAAAATAAAAAGACAAAAA-C
*
7354193 AAAGAGAAAATAAAAAGAGAAAAAC
1 AAAGAGAAAATAAAAAGACAAAAAC
7354218 AAAG-GAAAAT
1 AAAGAGAAAAT
7354228 TGAAGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 6 0.18
25 15 0.45
26 12 0.36
ACGTcount: A:0.75, C:0.05, G:0.17, T:0.03
Consensus pattern (25 bp):
AAAGAGAAAATAAAAAGACAAAAAC
Done.