Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 26 of 373
Found at i:7278410 original size:25 final size:25
Alignment explanation
Indices: 7278382--7278460 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
7278372 CTAATGGCCG
7278382 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
7278407 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
7278429 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
7278454 ATGTGAT
1 ATGTGAT
7278461 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:7278432 original size:47 final size:47
Alignment explanation
Indices: 7278366--7278841 Score: 763
Period size: 47 Copynumber: 10.1 Consensus size: 47
7278356 GAAATGATAG
7278366 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
7278413 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
7278460 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
7278509 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
7278556 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
7278603 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
7278650 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
7278697 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
7278744 TAAGGCTTAATGGCTGATGCGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
7278791 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
7278838 TAAG
1 TAAG
7278842 TCCCGAAGGG
Statistics
Matches: 402, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 355 0.88
49 47 0.12
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:7279016 original size:37 final size:37
Alignment explanation
Indices: 7278960--7279038 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
7278950 CCGAGCTCTA
* *
7278960 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
7278997 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
7279034 AAGAC
1 AAGAC
7279039 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:7291606 original size:18 final size:20
Alignment explanation
Indices: 7291572--7291619 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
7291562 AATTTTCTGT
7291572 AAAAATATA-ATT-TTTTTA-
1 AAAAATA-ACATTATTTTTAG
7291590 AAAAATAACATTATTTTTAG
1 AAAAATAACATTATTTTTAG
7291610 AAAAATAACA
1 AAAAATAACA
7291620 AACGATCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 6 0.22
20 10 0.37
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAATAACATTATTTTTAG
Found at i:7293888 original size:43 final size:43
Alignment explanation
Indices: 7293841--7293926 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
7293831 ATGATAATAT
7293841 AAGGTGACTAACATATGTTTAAAATGAATAAAACCATAAAAAC
1 AAGGTGACTAACATATGTTTAAAATGAATAAAACCATAAAAAC
*
7293884 AAGGTGACTAACATATGTTTGAAATGAATAAAACCATAAAAAC
1 AAGGTGACTAACATATGTTTAAAATGAATAAAACCATAAAAAC
7293927 GATAAAAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.52, C:0.12, G:0.13, T:0.23
Consensus pattern (43 bp):
AAGGTGACTAACATATGTTTAAAATGAATAAAACCATAAAAAC
Found at i:7295323 original size:33 final size:32
Alignment explanation
Indices: 7295260--7295343 Score: 141
Period size: 33 Copynumber: 2.6 Consensus size: 32
7295250 TTGGTTCGCT
*
7295260 GTATTGGATTAGAGGCGTATTGGATTAGAGGC
1 GTATTGGATTAGAGGTGTATTGGATTAGAGGC
*
7295292 GTATTGGATTAGAGGTGTATTGGGATTAGAGGT
1 GTATTGGATTAGAGGTGTATT-GGATTAGAGGC
7295325 GTATTGGATTAGAGGTGTA
1 GTATTGGATTAGAGGTGTA
7295344 ATAGCTAATC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 20 0.41
33 29 0.59
ACGTcount: A:0.25, C:0.02, G:0.38, T:0.35
Consensus pattern (32 bp):
GTATTGGATTAGAGGTGTATTGGATTAGAGGC
Found at i:7295340 original size:16 final size:16
Alignment explanation
Indices: 7295259--7295343 Score: 143
Period size: 16 Copynumber: 5.2 Consensus size: 16
7295249 TTTGGTTCGC
7295259 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
7295275 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
7295291 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7295307 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
7295324 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7295340 TGTA
1 TGTA
7295344 ATAGCTAATC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
16 50 0.76
17 16 0.24
ACGTcount: A:0.25, C:0.02, G:0.38, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:7295408 original size:44 final size:45
Alignment explanation
Indices: 7295324--7295414 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
7295314 GGATTAGAGG
* * *
7295324 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
7295369 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
7295413 TG
1 TG
7295415 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:7295600 original size:18 final size:17
Alignment explanation
Indices: 7295579--7295613 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7295569 TTATTATTAA
*
7295579 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7295597 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7295614 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7295775 original size:120 final size:120
Alignment explanation
Indices: 7295562--7296149 Score: 1131
Period size: 120 Copynumber: 4.9 Consensus size: 120
7295552 ATCATATTTA
* *
7295562 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
7295627 TATTCTTATATTAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
7295682 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
7295747 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
7295802 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
7295867 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
7295922 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
7295987 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
7296042 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTTAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
7296107 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
7296150 TGATGCTAGT
Statistics
Matches: 463, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 463 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:7296917 original size:5 final size:5
Alignment explanation
Indices: 7296907--7296933 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7296897 GAAGTCCAGA
7296907 CATTG CATTG CATTG CATTG CATTG CA
1 CATTG CATTG CATTG CATTG CATTG CA
7296934 GGGCAGAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (5 bp):
CATTG
Found at i:7300187 original size:12 final size:12
Alignment explanation
Indices: 7300170--7300194 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7300160 GGTGTTCATT
7300170 CGGTTAACCGAC
1 CGGTTAACCGAC
7300182 CGGTTAACCGAC
1 CGGTTAACCGAC
7300194 C
1 C
7300195 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:7300368 original size:9 final size:9
Alignment explanation
Indices: 7300354--7300423 Score: 113
Period size: 9 Copynumber: 7.8 Consensus size: 9
7300344 TTTGGTTAAA
7300354 AATTACCCG
1 AATTACCCG
7300363 AATTACCCG
1 AATTACCCG
7300372 AATTACCCG
1 AATTACCCG
7300381 AATTACCCG
1 AATTACCCG
*
7300390 AATTAACCG
1 AATTACCCG
*
7300399 AATTAACCG
1 AATTACCCG
*
7300408 AATTAACCG
1 AATTACCCG
7300417 AATTACC
1 AATTACC
7300424 GAAAAATACC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:7307003 original size:22 final size:22
Alignment explanation
Indices: 7306978--7307026 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
7306968 ATAGGTCGGG
7306978 CCACTCACCCAGACCCGAAGGC
1 CCACTCACCCAGACCCGAAGGC
7307000 CCACTCACCCAGACCCGAAGGC
1 CCACTCACCCAGACCCGAAGGC
7307022 CCACT
1 CCACT
7307027 TGAAAAGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.51, G:0.16, T:0.06
Consensus pattern (22 bp):
CCACTCACCCAGACCCGAAGGC
Found at i:7313714 original size:15 final size:17
Alignment explanation
Indices: 7313694--7313731 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7313684 TGGCAATTGG
7313694 AAAAT-ATATT-TTAAA
1 AAAATAATATTCTTAAA
7313709 AAAATAATATTCTTAAA
1 AAAATAATATTCTTAAA
7313726 AGAAAT
1 A-AAAT
7313732 TCTAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 5 0.25
17 6 0.30
18 4 0.20
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAATAATATTCTTAAA
Found at i:7314883 original size:21 final size:21
Alignment explanation
Indices: 7314857--7314898 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7314847 CTACAAACAA
7314857 TTATAAATTT-TTATATTTTTT
1 TTATAAATTTATTA-ATTTTTT
*
7314878 TTATAATTTTATTAATTTTTT
1 TTATAAATTTATTAATTTTTT
7314899 ATATTTATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATAAATTTATTAATTTTTT
Found at i:7314957 original size:20 final size:20
Alignment explanation
Indices: 7314932--7314985 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
7314922 TTTATTATTT
7314932 AAAAAATCTAAAAATATAAA
1 AAAAAATCTAAAAATATAAA
* * * *
7314952 AAAAAATCCCAAAATTTTGAA
1 AAAAAAT-CTAAAAATATAAA
7314973 AAAAAATCTAAAA
1 AAAAAATCTAAAA
7314986 TTTCAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.69, C:0.09, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAAATCTAAAAATATAAA
Found at i:7314986 original size:20 final size:20
Alignment explanation
Indices: 7314932--7315008 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 20
7314922 TTTATTATTT
* *
7314932 AAAAAATCTAAAAATATAAA
1 AAAAAATCTAAAATTTTAAA
* *
7314952 AAAAAATCCCAAAATTTTGAA
1 AAAAAAT-CTAAAATTTTAAA
*
7314973 AAAAAATCTAAAA-TTTCAA
1 AAAAAATCTAAAATTTTAAA
* *
7314992 AAAATACCTAAAATTTT
1 AAAAAATCTAAAATTTT
7315009 CCCTAAAATA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 16 0.34
20 15 0.32
21 16 0.34
ACGTcount: A:0.62, C:0.10, G:0.01, T:0.26
Consensus pattern (20 bp):
AAAAAATCTAAAATTTTAAA
Found at i:7317263 original size:24 final size:25
Alignment explanation
Indices: 7317231--7317295 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
7317221 CTTATGAGAG
7317231 TCCCGTTATTAGCTCTCT-CGAGCT
1 TCCCGTTATTAGCTCTCTGCGAGCT
* *
7317255 TCCCGTTATATGGTTC-CTGCGAGCT
1 TCCCGTTAT-TAGCTCTCTGCGAGCT
* *
7317280 TTCCGTTAATAGCTCT
1 TCCCGTTATTAGCTCT
7317296 TCGGAGTATC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
24 15 0.47
25 17 0.53
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.38
Consensus pattern (25 bp):
TCCCGTTATTAGCTCTCTGCGAGCT
Found at i:7317913 original size:26 final size:26
Alignment explanation
Indices: 7317882--7317959 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
7317872 ATATGTTAGG
*
7317882 TTACTGATTAATTTGATTTGAATGTA
1 TTACTGATTAATTTGATTTGGATGTA
7317908 TTACTGATTAATTTGATTTGGATGTA
1 TTACTGATTAATTTGATTTGGATGTA
7317934 TTACTGATTAATTTGATTTGGATGTA
1 TTACTGATTAATTTGATTTGGATGTA
7317960 CTTTGTATGC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.50
Consensus pattern (26 bp):
TTACTGATTAATTTGATTTGGATGTA
Found at i:7342283 original size:12 final size:12
Alignment explanation
Indices: 7342249--7342274 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7342239 TTCCCCAAGC
7342249 CTCTAACCACCG
1 CTCTAACCACCG
7342261 CTCTAACCACCG
1 CTCTAACCACCG
7342273 CT
1 CT
7342275 TTAGCCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.50, G:0.08, T:0.19
Consensus pattern (12 bp):
CTCTAACCACCG
Found at i:7357947 original size:35 final size:35
Alignment explanation
Indices: 7357908--7357977 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
7357898 AAATTGGCGA
7357908 TAGAAAGTTCAACATTATTGTGGATGAAGCGAGAG
1 TAGAAAGTTCAACATTATTGTGGATGAAGCGAGAG
7357943 TAGAAAGTTCAACATTATTGTGGATGAAGCGAGAG
1 TAGAAAGTTCAACATTATTGTGGATGAAGCGAGAG
7357978 ACGAGTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.09, G:0.29, T:0.26
Consensus pattern (35 bp):
TAGAAAGTTCAACATTATTGTGGATGAAGCGAGAG
Found at i:7359518 original size:12 final size:12
Alignment explanation
Indices: 7359501--7359535 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
7359491 GTTTATTTTT
7359501 ATTTATTAAATA
1 ATTTATTAAATA
7359513 ATTTATTAAATA
1 ATTTATTAAATA
*
7359525 ATTTTTTAAAT
1 ATTTATTAAAT
7359536 TTATTATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTTATTAAATA
Found at i:7361923 original size:18 final size:18
Alignment explanation
Indices: 7361888--7361948 Score: 81
Period size: 18 Copynumber: 3.5 Consensus size: 18
7361878 TGAGTTGAGA
*
7361888 AAATTATTTAA-T-GTGG
1 AAATTAATTAATTAGTGG
7361904 AAATTAATTAATTAGTGG
1 AAATTAATTAATTAGTGG
* *
7361922 AAATTAATTAATTAATTG
1 AAATTAATTAATTAGTGG
7361940 AAATTAATT
1 AAATTAATT
7361949 TAAGATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 10 0.25
17 1 0.03
18 29 0.73
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (18 bp):
AAATTAATTAATTAGTGG
Found at i:7363771 original size:23 final size:25
Alignment explanation
Indices: 7363745--7363791 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7363735 TATCATTCAT
*
7363745 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
7363768 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
7363792 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:7364116 original size:46 final size:46
Alignment explanation
Indices: 7364052--7364408 Score: 500
Period size: 46 Copynumber: 8.0 Consensus size: 46
7364042 TTTAACGTGA
* * * * * * *
7364052 TGCCATAGTGTCTCTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
7364098 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
7364144 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
7364190 TGCCAT-GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
7364235 TGTCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
7364273 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
7364319 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
7364365 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
7364409 AGAGCACACT
Statistics
Matches: 283, Mismatches: 18, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
38 32 0.11
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 48 0.17
46 194 0.69
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:7364325 original size:84 final size:88
Alignment explanation
Indices: 7364096--7364408 Score: 465
Period size: 84 Copynumber: 3.5 Consensus size: 88
7364086 TTTCTGTCAT
** * * * *
7364096 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCA
7364161 ACCATGGTCTTACACATCTCATATCAG
66 ACCATGGTCTTA-ACA--TCA-ATCAG
7364188 GTTGCCAT-GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCA
7364252 ACCATGGTCTT-ACA-C-A-CAG
66 ACCATGGTCTTAACATCAATCAG
7364271 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCA
7364336 ACCATGGTCTTACACATTTCATATCAG
66 ACCATGGTCTTA-ACA--TCA-ATCAG
7364363 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
7364409 AGAGCACACT
Statistics
Matches: 206, Mismatches: 6, Indels: 18
0.90 0.03 0.08
Matches are distributed among these distances:
83 11 0.05
84 68 0.33
86 4 0.02
89 4 0.02
91 62 0.30
92 57 0.28
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (88 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCA
ACCATGGTCTTAACATCAATCAG
Found at i:7367390 original size:35 final size:35
Alignment explanation
Indices: 7367344--7367414 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
7367334 AAAGATAGAG
7367344 TAGTACCACTTGTGAATTAATCAGACTTGCGATAA
1 TAGTACCACTTGTGAATTAATCAGACTTGCGATAA
7367379 TAGTACCACTTGTGAATTAATCAGACTTGCGATAA
1 TAGTACCACTTGTGAATTAATCAGACTTGCGATAA
7367414 T
1 T
7367415 TTCTGTCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (35 bp):
TAGTACCACTTGTGAATTAATCAGACTTGCGATAA
Found at i:7368249 original size:9 final size:9
Alignment explanation
Indices: 7368235--7368261 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7368225 CAGAGAGTAC
7368235 GAATGTGCT
1 GAATGTGCT
7368244 GAATGTGCT
1 GAATGTGCT
7368253 GAATGTGCT
1 GAATGTGCT
7368262 AATAATCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.33, T:0.33
Consensus pattern (9 bp):
GAATGTGCT
Found at i:7369275 original size:23 final size:25
Alignment explanation
Indices: 7369249--7369295 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
7369239 TATCATTCAT
*
7369249 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
7369272 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
7369296 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:7369620 original size:46 final size:46
Alignment explanation
Indices: 7369556--7369828 Score: 397
Period size: 46 Copynumber: 6.0 Consensus size: 46
7369546 TTTAACGTGA
* * * * * * *
7369556 TGCCATAGTGTCTCTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
7369602 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
7369648 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
7369694 TGCCAT-GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
7369739 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
7369785 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
7369829 AGAGCACACT
Statistics
Matches: 209, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 47 0.22
46 162 0.78
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:7369720 original size:91 final size:92
Alignment explanation
Indices: 7369556--7369827 Score: 395
Period size: 91 Copynumber: 3.0 Consensus size: 92
7369546 TTTAACGTGA
* * * * * * *
7369556 TGCCATAGTGTCTCTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
** * *
7369620 CCATGGTCTTATTCTTTTCATGTCACGT
65 CCATGGTCTTACACATTTCATATCACGT
*
7369648 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCAT-GTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
7369712 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCACGT
*
7369739 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
7369804 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTACACATTTCATATCA
7369828 GAGAGCACAC
Statistics
Matches: 163, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
91 87 0.53
92 76 0.47
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGT
Found at i:7369787 original size:137 final size:138
Alignment explanation
Indices: 7369556--7369828 Score: 406
Period size: 137 Copynumber: 2.0 Consensus size: 138
7369546 TTTAACGTGA
* * * * *
7369556 TGCCATAGTGTCTCTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTCTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
** * *
7369621 CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCA
66 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCA
7369686 TATCAGGT
131 TATCAGGT
* *
7369694 TGCCAT-GTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGTCATGGTATCTTTCAA
1 TGCCATAGTATCTCTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTATCTTTCAA
* *
7369757 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTC
7369822 ATATCAG
130 ATATCAG
7369829 AGAGCACACT
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
136 4 0.03
137 111 0.92
138 6 0.05
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (138 bp):
TGCCATAGTATCTCTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCA
TATCAGGT
Found at i:7373690 original size:16 final size:16
Alignment explanation
Indices: 7373669--7373704 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
7373659 TTATTGATCT
7373669 ATTTTGAAGTTAAAGG
1 ATTTTGAAGTTAAAGG
7373685 ATTTTGAAGTTAAAGG
1 ATTTTGAAGTTAAAGG
7373701 -TTTT
1 ATTTT
7373705 ATTTTGTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (16 bp):
ATTTTGAAGTTAAAGG
Found at i:7376737 original size:5 final size:5
Alignment explanation
Indices: 7376727--7376764 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
7376717 CTACAGTGTG
7376727 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
7376765 GAACACACAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:7379053 original size:41 final size:41
Alignment explanation
Indices: 7378985--7379097 Score: 156
Period size: 41 Copynumber: 2.7 Consensus size: 41
7378975 GCAAAAATTG
*
7378985 TAAAACACAGAGCAATAGCGGCG-TTTTTATTAACACGCTAC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTTTATTAACACGCCAC
* *
7379026 TAAAAACAGAGCAATAGCGGCGTTTTTTGTTAACACGCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTTTATTAACACGCCAC
*
7379067 TAAAAACAGAGTAATAGCGGCGCTTTATTTA
1 TAAAAACAGAGCAATAGCGGCG-TTT-TTTA
7379098 GTGGAGCAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 17 0.27
41 41 0.64
42 3 0.05
43 3 0.05
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCGTTTTTTATTAACACGCCAC
Found at i:7380056 original size:8 final size:8
Alignment explanation
Indices: 7380045--7380129 Score: 101
Period size: 8 Copynumber: 11.4 Consensus size: 8
7380035 ACTCAAAAAA
7380045 TAAAAATT
1 TAAAAATT
7380053 TAAAAATT
1 TAAAAATT
7380061 TAAAAATT
1 TAAAAATT
7380069 T-AAAATT
1 TAAAAATT
7380076 T-AAAATT
1 TAAAAATT
7380083 TAAAAA-T
1 TAAAAATT
* *
7380090 AAAAAAAT
1 TAAAAATT
7380098 TAAAAA--
1 TAAAAATT
*
7380104 TAAAAACT
1 TAAAAATT
7380112 TAAAAATT
1 TAAAAATT
7380120 T-AAAATT
1 TAAAAATT
7380127 TAA
1 TAA
7380130 TATTTTAGTC
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
6 6 0.09
7 27 0.39
8 36 0.52
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (8 bp):
TAAAAATT
Found at i:7380057 original size:15 final size:15
Alignment explanation
Indices: 7380039--7380129 Score: 80
Period size: 15 Copynumber: 6.1 Consensus size: 15
7380029 AAATAAACTC
7380039 AAAAAATAAAAATTT
1 AAAAAATAAAAATTT
*
7380054 AAAAATTTAAAAATTT
1 AAAAA-ATAAAAATTT
* *
7380070 -AAAATTTAAAATTT
1 AAAAAATAAAAATTT
*
7380084 -AAAAATAAAAAAATT
1 AAAAAAT-AAAAATTT
*
7380099 -AAAAATAAAAACTT
1 AAAAAATAAAAATTT
* *
7380113 AAAAATTTAAAATTT
1 AAAAAATAAAAATTT
7380128 AA
1 AA
7380130 TATTTTAGTC
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
14 21 0.33
15 34 0.53
16 9 0.14
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAAATAAAAATTT
Found at i:7380127 original size:7 final size:7
Alignment explanation
Indices: 7380047--7380134 Score: 77
Period size: 7 Copynumber: 12.0 Consensus size: 7
7380037 TCAAAAAATA
7380047 AAAATTT
1 AAAATTT
7380054 AAAAATTT
1 -AAAATTT
7380062 AAAAATTT
1 -AAAATTT
7380070 AAAATTT
1 AAAATTT
7380077 AAAATTT
1 AAAATTT
**
7380084 AAAAATAA
1 -AAAATTT
*
7380092 AAAAATT
1 AAAATTT
* *
7380099 AAAAATA
1 AAAATTT
*
7380106 AAAACTTA
1 AAAA-TTT
7380114 AAAATTT
1 AAAATTT
7380121 AAAATTT
1 AAAATTT
*
7380128 AATATTT
1 AAAATTT
7380135 TAGTCCATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
7 43 0.62
8 26 0.38
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (7 bp):
AAAATTT
Found at i:7386299 original size:19 final size:19
Alignment explanation
Indices: 7386277--7386317 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7386267 TTTATTGATA
7386277 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
7386295 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
7386314 TTTT
1 TTTT
7386318 GATTCTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:7386335 original size:18 final size:19
Alignment explanation
Indices: 7386308--7386349 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
7386298 TTATTATTTA
7386308 TTTTAGTTTTGATTCTAAT
1 TTTTAGTTTTGATTCTAAT
* *
7386327 TTTTA-TTTTTATTTTAAT
1 TTTTAGTTTTGATTCTAAT
*
7386345 ATTTA
1 TTTTA
7386350 AGATAACTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTAGTTTTGATTCTAAT
Found at i:7391005 original size:22 final size:22
Alignment explanation
Indices: 7390971--7391012 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
7390961 GAGCTCCTTG
7390971 AAATTTACAAACTAAGAGAAATT
1 AAATTTACAAACTAA-AGAAATT
7390994 AAATTT-CAAACTAAAGAAA
1 AAATTTACAAACTAAAGAAA
7391013 AACTGCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.24
Consensus pattern (22 bp):
AAATTTACAAACTAAAGAAATT
Found at i:7391314 original size:35 final size:35
Alignment explanation
Indices: 7391275--7391345 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
7391265 ATAGAGAGAG
7391275 AGAGAGAGAAAGAGATGAAAGAAGTAGGAAAATGA
1 AGAGAGAGAAAGAGATGAAAGAAGTAGGAAAATGA
7391310 AGAGAGAGAAAGAGATGAAAGAAGTAGGAAAATGA
1 AGAGAGAGAAAGAGATGAAAGAAGTAGGAAAATGA
7391345 A
1 A
7391346 CTCCAAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.58, C:0.00, G:0.34, T:0.08
Consensus pattern (35 bp):
AGAGAGAGAAAGAGATGAAAGAAGTAGGAAAATGA
Found at i:7393049 original size:38 final size:38
Alignment explanation
Indices: 7392991--7393063 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
7392981 TAACCGCTTT
*
7392991 AATTTGTTTTACTGTCTATGTTTAATCTTATTTAGGTA
1 AATTTATTTTACTGTCTATGTTTAATCTTATTTAGGTA
* *
7393029 AATTTATTTTATTGTTTATGTTTAATCTTATTTAG
1 AATTTATTTTACTGTCTATGTTTAATCTTATTTAG
7393064 ATAAGGAGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (38 bp):
AATTTATTTTACTGTCTATGTTTAATCTTATTTAGGTA
Found at i:7394272 original size:41 final size:41
Alignment explanation
Indices: 7394185--7394318 Score: 146
Period size: 41 Copynumber: 3.3 Consensus size: 41
7394175 CGTTTTCAAT
* * * * ***
7394185 AAAACGCCACAAAAAACAGAGCAATAGCGGCATTTTTTATC
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGCC
7394226 AAAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGCC
1 AAAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGCC
* * *
7394267 CAAACGCCGCTAAAAACTGAAG-AATAGCGGCGCTTTTGG-A
1 AAAACGCCGCTAAAAACTG-AGCAATAGCGGCGTTTTTGGCC
*
7394307 AAAACGCTGCTA
1 AAAACGCCGCTA
7394319 TAGGTAGAGG
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 10 0.12
41 68 0.85
42 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGCC
Found at i:7394336 original size:41 final size:41
Alignment explanation
Indices: 7394291--7394480 Score: 274
Period size: 41 Copynumber: 4.6 Consensus size: 41
7394281 AACTGAAGAA
*
7394291 TAGCGGCGCTTTTGGAAAAACGCTGCTATAGGTAGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
* *
7394332 TAGCGGCGAC-TTTGTAAAAACGCCGCTATAGGTCGAGGTTT
1 TAGCGGCG-CTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
* * *
7394373 TAGCGGCGCTTCTAGAAAAACGCTGCTATAGGTAGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
* ** *
7394414 TAGCGGCGCTTTTGTAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
7394455 TAGCGGCGCTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
7394481 AAAAAAGTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 129 0.98
42 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.27
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
Found at i:7394336 original size:82 final size:83
Alignment explanation
Indices: 7394250--7394441 Score: 212
Period size: 82 Copynumber: 2.3 Consensus size: 83
7394240 AACTGAGCAA
* ** * *
7394250 TAGCGGCGTTTTTGGCCCAAACGCCGCTAAAAACT-GAAG-AATAGCGGCGCTTTTGGAAAAACG
1 TAGCGGCGATTTTGGCAAAAACGCCGCT-AAAACTCGAAGTAATAGCGGCGCTTCTAGAAAAACG
7394313 CTGCTATAGGTAGAGGTTT
65 CTGCTATAGGTAGAGGTTT
* * * ** * **
7394332 TAGCGGCGACTTT-GTAAAAACGCCGCTATAGGTCGAGGTTTTAGCGGCGCTTCTAGAAAAACGC
1 TAGCGGCGATTTTGGCAAAAACGCCGCTAAAACTCGAAGTAATAGCGGCGCTTCTAGAAAAACGC
7394396 TGCTATAGGTAGAGGTTT
66 TGCTATAGGTAGAGGTTT
* *
7394414 TAGCGGCGCTTTT-GTAAAAACGCCGCTA
1 TAGCGGCGATTTTGGCAAAAACGCCGCTA
7394442 TAGGCCGATG
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.03
81 14 0.15
82 76 0.82
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (83 bp):
TAGCGGCGATTTTGGCAAAAACGCCGCTAAAACTCGAAGTAATAGCGGCGCTTCTAGAAAAACGC
TGCTATAGGTAGAGGTTT
Found at i:7394442 original size:82 final size:82
Alignment explanation
Indices: 7394291--7394477 Score: 322
Period size: 82 Copynumber: 2.3 Consensus size: 82
7394281 AACTGAAGAA
7394291 TAGCGGCGCTTTTGGAAAAACGCTGCTATAGGTAGAGGTTTTAGCGGCGACTTTGTAAAAACGCC
1 TAGCGGCGCTTTTGGAAAAACGCTGCTATAGGTAGAGGTTTTAGCGGCGACTTTGTAAAAACGCC
*
7394356 GCTATAGGTCGAGGTTT
66 GCTATAGGCCGAGGTTT
* *
7394373 TAGCGGCGCTTCTAGAAAAACGCTGCTATAGGTAGAGGTTTTAGCGGCG-CTTTTGTAAAAACGC
1 TAGCGGCGCTTTTGGAAAAACGCTGCTATAGGTAGAGGTTTTAGCGGCGAC-TTTGTAAAAACGC
*
7394437 CGCTATAGGCCGATGTTT
65 CGCTATAGGCCGAGGTTT
7394455 TAGCGGCGCTTTTGGAAAAACGC
1 TAGCGGCGCTTTTGGAAAAACGC
7394478 CGCAAAAAAG
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
81 1 0.01
82 97 0.99
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (82 bp):
TAGCGGCGCTTTTGGAAAAACGCTGCTATAGGTAGAGGTTTTAGCGGCGACTTTGTAAAAACGCC
GCTATAGGCCGAGGTTT
Found at i:7394810 original size:18 final size:18
Alignment explanation
Indices: 7394783--7394831 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
7394773 TTGTCCCTTG
7394783 TTAT-ATATATATTAA-A
1 TTATAATATATATTAAGA
*
7394799 CTTCTAATATATATTAAGA
1 -TTATAATATATATTAAGA
7394818 TTATAATATATATT
1 TTATAATATATATT
7394832 TAGGGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 3 0.11
18 24 0.86
19 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATAATATATATTAAGA
Found at i:7395268 original size:15 final size:15
Alignment explanation
Indices: 7395248--7395282 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
7395238 GATTTTAATG
*
7395248 TATAAGATAAATGTA
1 TATAAGATAAATATA
7395263 TATAAGATAAATATA
1 TATAAGATAAATATA
7395278 TATAA
1 TATAA
7395283 ATTATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
TATAAGATAAATATA
Found at i:7395320 original size:23 final size:23
Alignment explanation
Indices: 7395254--7395320 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
7395244 AATGTATAAG
*
7395254 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAATATAT
* *
7395279 ATAAATTATTATTTTAAAA-ATAT
1 ATAAATTA-TATATGAAAATATAT
7395302 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
7395321 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 18 0.51
24 7 0.20
25 10 0.29
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (23 bp):
ATAAATTATATATGAAAATATAT
Found at i:7398827 original size:24 final size:23
Alignment explanation
Indices: 7398800--7398867 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 23
7398790 ATTATTATTG
*
7398800 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATC-TCCGTTTTATCAC
*
7398824 AAATATTATTCTCCGTTTTATTAC
1 AAATATTA-TCTCCGTTTTATCAC
7398848 AAATATTATCATCCGTTTTA
1 AAATATTATC-TCCGTTTTA
7398868 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (23 bp):
AAATATTATCTCCGTTTTATCAC
Found at i:7399088 original size:15 final size:15
Alignment explanation
Indices: 7399044--7399099 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
7399034 AACGACATGT
7399044 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
7399060 ATCATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
7399073 ATATTATTTAATTAA
1 ATATTATTTAATTAA
7399088 ATATTATTTAAT
1 ATATTATTTAAT
7399100 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:7399226 original size:9 final size:9
Alignment explanation
Indices: 7399204--7399393 Score: 89
Period size: 9 Copynumber: 20.6 Consensus size: 9
7399194 TATTTGATAT
*
7399204 CATAATTTA
1 CATAACTTA
7399213 CATAACTTA
1 CATAACTTA
* *
7399222 GATAA-ATA
1 CATAACTTA
*
7399230 TATAACTTA
1 CATAACTTA
7399239 CATAACTTA
1 CATAACTTA
* *
7399248 TATAACATA
1 CATAACTTA
7399257 CATAACTTA
1 CATAACTTA
*
7399266 TATAACTTA
1 CATAACTTA
7399275 CATAATACTTA
1 CAT-A-ACTTA
* **
7399286 AATTTATTTTATA
1 CA--TA-ACT-TA
*
7399299 TCATAATTTA
1 -CATAACTTA
7399309 CATAACTTA
1 CATAACTTA
7399318 CATAACTTA
1 CATAACTTA
*
7399327 TATAACTTA
1 CATAACTTA
* *
7399336 GATAA-ATA
1 CATAACTTA
* *
7399344 TATAATTTA
1 CATAACTTA
*
7399353 CATAA-ATA
1 CATAACTTA
* * *
7399361 TATATCATA
1 CATAACTTA
*
7399370 TCATAAATTA
1 -CATAACTTA
*
7399380 CATAAATTA
1 CATAACTTA
7399389 CATAA
1 CATAA
7399394 TACTTAAATA
Statistics
Matches: 140, Mismatches: 31, Indels: 20
0.73 0.16 0.10
Matches are distributed among these distances:
8 17 0.12
9 98 0.70
10 8 0.06
11 8 0.06
12 5 0.04
13 3 0.02
14 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (9 bp):
CATAACTTA
Found at i:7399226 original size:18 final size:18
Alignment explanation
Indices: 7399204--7399393 Score: 116
Period size: 18 Copynumber: 10.3 Consensus size: 18
7399194 TATTTGATAT
* *
7399204 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
7399222 GATAA-ATATATAACTTA
1 CATAACTTATATAACTTA
*
7399239 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
7399257 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* **
7399275 CATAATACTTAAATTTATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
7399299 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
7399318 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
7399336 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
7399353 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* * *
7399370 TCATAAATTACATAAATTA
1 -CATAACTTATATAACTTA
7399389 CATAA
1 CATAA
7399394 TACTTAAATA
Statistics
Matches: 133, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
17 37 0.28
18 64 0.48
19 10 0.08
20 5 0.04
21 3 0.02
22 4 0.03
23 4 0.03
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:7399230 original size:27 final size:28
Alignment explanation
Indices: 7399200--7399393 Score: 107
Period size: 27 Copynumber: 7.0 Consensus size: 28
7399190 AATTTATTTG
* *
7399200 ATATCATAATTTACATAACTTAGATAA-
1 ATATCATAACTTACATAACTTACATAAC
*
7399227 ATAT-ATAACTTACATAACTTATATAAC
1 ATATCATAACTTACATAACTTACATAAC
*
7399254 ATA-CATAACTTATATAACTTACATAATAC
1 ATATCATAACTTACATAACTTACAT-A-AC
* * ** *
7399283 TTAAAT-TTATTTTATATCATAATTTACATAAC
1 --ATATCATA-ACT-TA-CATAACTTACATAAC
* * *
7399315 TTA-CATAACTTATATAACTTAGATAA-
1 ATATCATAACTTACATAACTTACATAAC
* * * *
7399341 ATAT-ATAATTTACATAA-ATATATATC
1 ATATCATAACTTACATAACTTACATAAC
* *
7399367 ATATCATAAATTACATAAATTACATAA
1 ATATCATAACTTACATAACTTACATAA
7399394 TACTTAAATA
Statistics
Matches: 124, Mismatches: 28, Indels: 29
0.69 0.15 0.16
Matches are distributed among these distances:
25 5 0.04
26 37 0.30
27 48 0.39
28 8 0.06
29 3 0.02
30 3 0.02
31 4 0.03
32 3 0.02
33 3 0.02
34 10 0.08
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (28 bp):
ATATCATAACTTACATAACTTACATAAC
Found at i:7399346 original size:96 final size:96
Alignment explanation
Indices: 7399173--7399357 Score: 282
Period size: 96 Copynumber: 1.9 Consensus size: 96
7399163 TGAAATAAAA
*
7399173 AACTTACATAATACATAAATTTATTTGATATCATAATTTACATAACTTAGATAAATATATAACTT
1 AACTTACATAATACATAAATTTATTTGATATCATAATTTACATAACTTACATAAATATATAACTT
*
7399238 ACATAACTTATATAACATACATAACTTATAT
66 ACATAACATATATAACATACATAACTTATAT
* * *
7399269 AACTTACATAATACTTAAATTTATTTTATATCATAATTTACATAACTTACATAACTTATATAACT
1 AACTTACATAATACATAAATTTATTTGATATCATAATTTACATAACTTACATAA-ATATATAACT
* **
7399334 TAGATAA-ATATATAATTTACATAA
65 TACATAACATATATAACATACATAA
7399358 ATATATATCA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 65 0.81
97 15 0.19
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (96 bp):
AACTTACATAATACATAAATTTATTTGATATCATAATTTACATAACTTACATAAATATATAACTT
ACATAACATATATAACATACATAACTTATAT
Found at i:7399347 original size:17 final size:17
Alignment explanation
Indices: 7399310--7399393 Score: 78
Period size: 17 Copynumber: 4.8 Consensus size: 17
7399300 CATAATTTAC
*
7399310 ATAACTTACATAACTTAT
1 ATAACTTACATAA-ATAT
*
7399328 ATAACTTAGATAAATAT
1 ATAACTTACATAAATAT
*
7399345 ATAATTTACATAAATAT
1 ATAACTTACATAAATAT
* * *
7399362 ATATCATATCATAAATTAC
1 ATAACTTA-CATAAA-TAT
*
7399381 ATAAATTACATAA
1 ATAACTTACATAA
7399394 TACTTAAATA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
17 23 0.43
18 23 0.43
19 7 0.13
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (17 bp):
ATAACTTACATAAATAT
Found at i:7399375 original size:96 final size:96
Alignment explanation
Indices: 7399177--7399387 Score: 273
Period size: 96 Copynumber: 2.2 Consensus size: 96
7399167 ATAAAAAACT
*
7399177 TACATAATACATAAATTTATTTGATATCATAATTTACATAACTTAGATAAATATATAACTTACAT
1 TACATAATACATAAATTTATTTGATATCATAATTTACATAACTTACATAAATATATAACTTACAT
* * *
7399242 AACTTATATAACATACATAACTTATATAACT
66 AACATATATAACATACATAACATATATAACA
* * * *
7399273 TACATAATACTTAAATTTATTTTATATCATAATTTACATAACTTACATAACTTATATAACTTAGA
1 TACATAATACATAAATTTATTTGATATCATAATTTACATAACTTACATAA-ATATATAACTTACA
** *
7399338 TAA-ATATATAATTTACATAA-ATATATATCA
65 TAACATATATAACATACATAACATATATAACA
7399368 TATCATAAATTACATAAATT
1 TA-CAT-AA-TACATAAATT
7399388 ACATAATACT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
95 9 0.09
96 64 0.65
97 17 0.17
98 9 0.09
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.40
Consensus pattern (96 bp):
TACATAATACATAAATTTATTTGATATCATAATTTACATAACTTACATAAATATATAACTTACAT
AACATATATAACATACATAACATATATAACA
Found at i:7399390 original size:114 final size:114
Alignment explanation
Indices: 7399204--7399417 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
7399194 TATTTGATAT
* * * *
7399204 CATAATTTACATAACTTAGATAAATATATAACTTACATAACTTATATAACATACATAACTTATAT
1 CATAACTTACATAACTTAGATAAATATATAACTTACATAACATATATAACATACATAAATTACAT
* * * *
7399269 AACTTACATAATACTTAAATTTATTTTATATCATAATTTACATAACTTA
66 AAATTACATAATACTTAAATATATATCATATCATAATTTACATAACTTA
* * *
7399318 CATAACTTATATAACTTAGATAAATATATAATTTACATAA-ATATATATCATATCATAAATTACA
1 CATAACTTACATAACTTAGATAAATATATAACTTACATAACATATATAACATA-CATAAATTACA
7399382 TAAATTACATAATACTTAAATATATATCATATCATA
65 TAAATTACATAATACTTAAATATATATCATATCATA
7399418 CATAACTAGT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
113 10 0.11
114 78 0.89
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (114 bp):
CATAACTTACATAACTTAGATAAATATATAACTTACATAACATATATAACATACATAAATTACAT
AAATTACATAATACTTAAATATATATCATATCATAATTTACATAACTTA
Found at i:7405387 original size:31 final size:31
Alignment explanation
Indices: 7405341--7405407 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
7405331 TTGTTGTATT
* *
7405341 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
7405372 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
7405403 TTTTA
1 TTTTA
7405408 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:7405506 original size:43 final size:42
Alignment explanation
Indices: 7405459--7405688 Score: 293
Period size: 43 Copynumber: 5.4 Consensus size: 42
7405449 ATCTGCCAAA
* *
7405459 TTTAGCGGCG-TTTGTAAAAAAAGCGCCGCTAAAAGCCTTGACG
1 TTTAGCGGCGCTTT-TACACAAA-CGCCGCTAAAAGCCTTGACG
* *
7405502 TTTAGCGGCGC-TTTACCCACAAACGACGCTAAAAGCCTTGACC
1 TTTAGCGGCGCTTTTA--CACAAACGCCGCTAAAAGCCTTGACG
7405545 TTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACG
1 TTTAGCGGCGCTTTTA-CACAAACGCCGCTAAAAGCCTTGACG
*
7405588 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACG
1 TTTAGCGGCGCTTTT-ACACAAACGCCGCTAAAAGCCTTGACG
* * * *
7405631 TTTAGCGGTGCTTTTCCCACAAACGCCACTAAAAGCCTTGACC
1 TTTAGCGGCGCTTTT-ACACAAACGCCGCTAAAAGCCTTGACG
*
7405674 TTTAGCGGCGTTTTT
1 TTTAGCGGCGCTTTT
7405689 TTCCAATAAA
Statistics
Matches: 170, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
42 2 0.01
43 160 0.94
44 8 0.05
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (42 bp):
TTTAGCGGCGCTTTTACACAAACGCCGCTAAAAGCCTTGACG
Found at i:7405607 original size:86 final size:86
Alignment explanation
Indices: 7405482--7405688 Score: 342
Period size: 86 Copynumber: 2.4 Consensus size: 86
7405472 GTAAAAAAAG
*
7405482 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGACGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAACGACGCTAAAAGCCTTGACCTT
7405547 TAGCGGCGCTTTTACCACAAA
66 TAGCGGCGCTTTTACCACAAA
* *
7405568 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACGTT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAACGACGCTAAAAGCCTTGACCTT
* *
7405633 TAGCGGTGCTTTTCCCACAAA
66 TAGCGGCGCTTTTACCACAAA
* * *
7405654 CGCCACTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTT
7405689 TTCCAATAAA
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 113 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (86 bp):
CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAACGACGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTTACCACAAA
Found at i:7406257 original size:19 final size:20
Alignment explanation
Indices: 7406235--7406275 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7406225 TAAAAAAATT
*
7406235 AAATAT-AAATAAAATTTTG
1 AAATATAAAATAAAATTATG
*
7406254 AAATTTAAAATAAAATTATG
1 AAATATAAAATAAAATTATG
7406274 AA
1 AA
7406276 TGTGACACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAATATAAAATAAAATTATG
Found at i:7410317 original size:12 final size:12
Alignment explanation
Indices: 7410300--7410325 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7410290 AAAATAGGGC
7410300 TTTAGCGGCGTT
1 TTTAGCGGCGTT
7410312 TTTAGCGGCGTT
1 TTTAGCGGCGTT
7410324 TT
1 TT
7410326 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:7410448 original size:41 final size:40
Alignment explanation
Indices: 7410380--7410598 Score: 280
Period size: 41 Copynumber: 5.4 Consensus size: 40
7410370 CGTTTTATCC
*
7410380 AAAATGCCGCTAAAAATAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAGAGCATTAGCGGCGCTTTTGGT
7410420 AAAACGCCGCTAAAAAATAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCT-AAAAATAGAGCATTAGCGGCGCTTTTGGT
* **
7410461 AAAACGCTGCTAAAAACGGAGCATTAGCGG-GACTTTTGGT
1 AAAACGCCGCTAAAAATAGAGCATTAGCGGCG-CTTTTGGT
*
7410501 AAAACGCCGCTAAAAATCAGAGCATTAGCGGCGCTTTTGAT
1 AAAACGCCGCTAAAAAT-AGAGCATTAGCGGCGCTTTTGGT
* * * *
7410542 AAAACGCCGCTAAAAACAGGATCAATAGTGGCG-TTTGTGGT
1 AAAACGCCGCTAAAAATA-GAGCATTAGCGGCGCTTT-TGGT
*
7410583 CAAAACGCCACTAAAA
1 -AAAACGCCGCTAAAA
7410599 GTCTCACATA
Statistics
Matches: 158, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 54 0.34
41 88 0.56
42 15 0.09
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATAGAGCATTAGCGGCGCTTTTGGT
Found at i:7410484 original size:81 final size:82
Alignment explanation
Indices: 7410356--7410598 Score: 300
Period size: 81 Copynumber: 3.0 Consensus size: 82
7410346 TTGTAAAACA
* * **
7410356 CAGAGCAATAGCGGCG-TTTT-ATCCAAAATGCCGCTAAAAATAGAGCATTAGCGGCGCTTTTGG
1 CAGAGCATTAGCGGCGCTTTTGAT--AAAACGCCGCTAAAAACGGAGCATTAGCGGCGCTTTTGG
7410419 TAAAACGCCGCTAAAAAAT
64 TAAAACGCCGCTAAAAAAT
* *
7410438 -AGAGCATTAGCGGCGCTTTTGGTAAAACGCTGCTAAAAACGGAGCATTAGCGG-GACTTTTGGT
1 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAACGGAGCATTAGCGGCG-CTTTTGGT
7410501 AAAACGCCGCT-AAAAAT
65 AAAACGCCGCTAAAAAAT
* * *
7410518 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAACAGGATCAATAGTGGCG-TTTGTGG
1 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAAC-GGAGCATTAGCGGCGCTTT-TGG
*
7410582 TCAAAACGCCACTAAAA
64 T-AAAACGCCGCTAAAA
7410599 GTCTCACATA
Statistics
Matches: 140, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
80 7 0.05
81 100 0.71
82 18 0.13
83 12 0.09
84 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (82 bp):
CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAACGGAGCATTAGCGGCGCTTTTGGTA
AAACGCCGCTAAAAAAT
Found at i:7410710 original size:37 final size:37
Alignment explanation
Indices: 7410638--7410711 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
7410628 CTCAAAAAAT
* *
7410638 CATAAACACTAATCTATAACCCCTAAAACAGTAAACC
1 CATAAACACTAAACTATAACCCCTAAAACACTAAACC
*
7410675 CATAAACACTAAACTATTACCCCTAAAATC-CTAAACC
1 CATAAACACTAAACTATAACCCCTAAAA-CACTAAACC
7410712 AGTTTATGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.20
Consensus pattern (37 bp):
CATAAACACTAAACTATAACCCCTAAAACACTAAACC
Found at i:7411170 original size:7 final size:7
Alignment explanation
Indices: 7411134--7411213 Score: 52
Period size: 7 Copynumber: 11.1 Consensus size: 7
7411124 ATGGGTAGAA
*
7411134 GTTTAAG
1 GTTTAGG
*
7411141 GTTTATG
1 GTTTAGG
* *
7411148 TTTTATG
1 GTTTAGG
*
7411155 GCTTAGG
1 GTTTAGG
*
7411162 GTTTGGG
1 GTTTAGG
7411169 GTTTAGG
1 GTTTAGG
*
7411176 GTTTAAG
1 GTTTAGG
*
7411183 ATTTAGG
1 GTTTAGG
*
7411190 TGTTAAGG
1 -GTTTAGG
7411198 GTTTTAGG
1 G-TTTAGG
*
7411206 GTTAAGG
1 GTTTAGG
7411213 G
1 G
7411214 ACATGGGTTA
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
7 45 0.80
8 11 0.20
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:7411211 original size:15 final size:16
Alignment explanation
Indices: 7411184--7411213 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7411174 GGGTTTAAGA
7411184 TTTAGGTGTTAAGGGT
1 TTTAGGTGTTAAGGGT
7411200 TTTAGG-GTTAAGGG
1 TTTAGGTGTTAAGGG
7411214 ACATGGGTTA
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:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (16 bp):
TTTAGGTGTTAAGGGT
Found at i:7411363 original size:17 final size:16
Alignment explanation
Indices: 7411337--7411406 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
7411327 AATCTATATA
7411337 TTAAATAATTTCAAATT
1 TTAAA-AATTTCAAATT
*
7411354 TTAAAGAA-TTAAAATT
1 TTAAA-AATTTCAAATT
*
7411370 TTAAAAAATTTTCAAGTT
1 TT-AAAAA-TTTCAAATT
* *
7411388 TTCAAATTTTCAAATT
1 TTAAAAATTTCAAATT
7411404 TTA
1 TTA
7411407 TGTAATTCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
16 21 0.50
17 13 0.31
18 8 0.19
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (16 bp):
TTAAAAATTTCAAATT
Found at i:7411553 original size:18 final size:17
Alignment explanation
Indices: 7411516--7411550 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
7411506 TATATAAGTG
7411516 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
7411533 ATTG-TTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
7411549 AT
1 AT
7411551 ATTAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTTAATTTAT
Found at i:7411868 original size:114 final size:116
Alignment explanation
Indices: 7411694--7411992 Score: 437
Period size: 115 Copynumber: 2.6 Consensus size: 116
7411684 ATTGGATTTG
* * **
7411694 TTAGTGGCGTTTT-GCGCAAAACGCCGTAATAGGTGCGTTTTTAGCGGCGCTAGGCTATAAACGC
1 TTAGTGGCGTTTTGGGGCTAAACGCCACAATAGGTGCGTTTTTAGCGGCGCTAGGCTATAAACGC
* * * *
7411758 CGCTAAAGGTGATTTTGGTTAAAACAAAAACGACTTCGTTTTGTTATA-TA
66 CGCTAAAGGTGATTTCGGTTAAAACAAAAACGACGTCATTTTATTATATTA
*
7411808 TTAGTGGCATTTTGGGGCTAAACGCCACAATAGGTGCG-TTTTAGCGGCGCTAAGG-TATAAACG
1 TTAGTGGCGTTTTGGGGCTAAACGCCACAATAGGTGCGTTTTTAGCGGCGCT-AGGCTATAAACG
*
7411871 CCGCTAAAGGTGATTTCGGTTAAAACAAAAACGGCGTCATTTTATTATATTA
65 CCGCTAAAGGTGATTTCGGTTAAAACAAAAACGACGTCATTTTATTATATTA
* * *
7411923 TTAGTGGCGTTTTGAGGCTAAACGCCACAATAGGTG-GTTTTTAGCGGCACTAGGTTATAAACGC
1 TTAGTGGCGTTTTGGGGCTAAACGCCACAATAGGTGCGTTTTTAGCGGCGCTAGGCTATAAACGC
7411987 CGCTAA
66 CGCTAA
7411993 TGTTAAATTA
Statistics
Matches: 167, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
114 81 0.49
115 86 0.51
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (116 bp):
TTAGTGGCGTTTTGGGGCTAAACGCCACAATAGGTGCGTTTTTAGCGGCGCTAGGCTATAAACGC
CGCTAAAGGTGATTTCGGTTAAAACAAAAACGACGTCATTTTATTATATTA
Found at i:7415069 original size:43 final size:43
Alignment explanation
Indices: 7415008--7415236 Score: 305
Period size: 43 Copynumber: 5.0 Consensus size: 43
7414998 ATCTTAATGT
* *
7415008 TAAATATATATCATATAATAATTTACAAAACTAACATAATACA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAATACA
*
7415051 TAAATATATATCATATAATAACTTGCAAAACTTACATAATACA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAATACA
7415094 TAAATATATATCATATAATAACTTATATAACTTACAAAACTTACATAATACA
1 TAAATATATATC-----AT-A--TA-ATAACTTACAAAACTTACATAATACA
*
7415146 TAAATATATATCATATAATAACTTACAAGACTTACATAATACA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAATACA
*
7415189 TAAATAATATATATCATACAATAACTTACAAAACTTACATAATACA
1 T--A-AATATATATCATATAATAACTTACAAAACTTACATAATACA
7415235 TA
1 TA
7415237 CCTTATATAA
Statistics
Matches: 167, Mismatches: 7, Indels: 23
0.85 0.04 0.12
Matches are distributed among these distances:
43 78 0.47
44 3 0.02
45 1 0.01
46 41 0.25
47 2 0.01
48 2 0.01
49 1 0.01
51 2 0.01
52 37 0.22
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.33
Consensus pattern (43 bp):
TAAATATATATCATATAATAACTTACAAAACTTACATAATACA
Found at i:7415086 original size:52 final size:52
Alignment explanation
Indices: 7415030--7415167 Score: 147
Period size: 52 Copynumber: 2.7 Consensus size: 52
7415020 ATATAATAAT
* *
7415030 TTACAAAACTAACAT-AATACATA-AATAT-ATATCATATAATAACTTGCAAAAC
1 TTACAAAA-T-ACATAAATACATATAATATAATAACATAT-ATAACTTACAAAAC
* * * *
7415082 TTACATAATACATAAATATATATCATATAATAACTTATATAACTTACAAAAC
1 TTACAAAATACATAAATACATATAATATAATAACATATATAACTTACAAAAC
* * *
7415134 TTACATAATACATAAATATATATCATATAATAAC
1 TTACAAAATACATAAATACATATAATATAATAAC
7415168 TTACAAGACT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
50 4 0.05
51 8 0.10
52 58 0.75
53 7 0.09
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.33
Consensus pattern (52 bp):
TTACAAAATACATAAATACATATAATATAATAACATATATAACTTACAAAAC
Found at i:7415123 original size:9 final size:9
Alignment explanation
Indices: 7415111--7415296 Score: 59
Period size: 9 Copynumber: 21.0 Consensus size: 9
7415101 ATATCATATA
*
7415111 ATAACTTAT
1 ATAACTTAC
7415120 ATAACTTAC
1 ATAACTTAC
*
7415129 AAAACTTAC
1 ATAACTTAC
7415138 ATAA--TAC
1 ATAACTTAC
* *
7415145 ATAA-ATAT
1 ATAACTTAC
*
7415153 ATATCATATA-
1 ATAAC-T-TAC
7415163 ATAACTTAC
1 ATAACTTAC
7415172 A-AGACTTAC
1 ATA-ACTTAC
7415181 ATAA--TAC
1 ATAACTTAC
* *
7415188 ATAAATAATAT
1 ATAACT--TAC
* *
7415199 ATATCATAC
1 ATAACTTAC
7415208 AATAACTTAC
1 -ATAACTTAC
*
7415218 AAAACTTAC
1 ATAACTTAC
7415227 ATAA--TAC
1 ATAACTTAC
* *
7415234 ATACCTTAT
1 ATAACTTAC
* *
7415243 ATAAATT-T
1 ATAACTTAC
* *
7415251 ATATCATATC
1 ATAACTTA-C
*
7415261 ATAACTTGC
1 ATAACTTAC
*
7415270 ATAACATAC
1 ATAACTTAC
*
7415279 AAAACTTAC
1 ATAACTTAC
*
7415288 TTAACTTAC
1 ATAACTTAC
7415297 GTAATACATA
Statistics
Matches: 128, Mismatches: 33, Indels: 32
0.66 0.17 0.17
Matches are distributed among these distances:
7 20 0.16
8 13 0.10
9 71 0.55
10 17 0.13
11 7 0.05
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:7415131 original size:95 final size:89
Alignment explanation
Indices: 7415010--7415236 Score: 337
Period size: 95 Copynumber: 2.5 Consensus size: 89
7415000 CTTAATGTTA
* * * *
7415010 AATATATATCATATAATAATTTACAAAACTAACATAATACATAAATATATATCATATAATAACTT
1 AATATATATAATACAATAACTTACAAAACTTACATAATACATAAATATATATCATATAATAACTT
*
7415075 GCAAAACTTACATAATACATAAAT
66 ACAAAACTTACATAATACATAAAT
7415099 ATATATCATATAATAACTTATATAACTTACAAAACTTACATAATACATAAATATATATCATATAA
1 A-ATAT-ATATAAT-AC--A-ATAACTTACAAAACTTACATAATACATAAATATATATCATATAA
*
7415164 TAACTTACAAGACTTACATAATACATAAAT
60 TAACTTACAAAACTTACATAATACATAAAT
*
7415194 AATATATATCATACAATAACTTACAAAACTTACATAATACATA
1 AATATATATAATACAATAACTTACAAAACTTACATAATACATA
7415237 CCTTATATAA
Statistics
Matches: 125, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
89 29 0.23
90 5 0.04
91 6 0.05
92 3 0.02
93 6 0.05
94 5 0.04
95 71 0.57
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.33
Consensus pattern (89 bp):
AATATATATAATACAATAACTTACAAAACTTACATAATACATAAATATATATCATATAATAACTT
ACAAAACTTACATAATACATAAAT
Found at i:7415168 original size:52 final size:52
Alignment explanation
Indices: 7415068--7415287 Score: 242
Period size: 52 Copynumber: 4.3 Consensus size: 52
7415058 ATATCATATA
* *
7415068 ATAACTTGCAAAACTTACATAATACATAAATATATATCATATAATAACTTAT
1 ATAACTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTAC
7415120 ATAACTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTAC
1 ATAACTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTAC
* *
7415172 A-AGACTTACATAA--TACAT-A-A-AT-AATATATATCATACAATAACTTAC
1 ATA-ACTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTAC
* * * * * * *
7415218 AAAACTTACATAA--TACATACCTTATATAAATTTATATCATATCATAACTTGC
1 ATAACTTACAAAACTTACATA--ATACATAAATATATATCATATAATAACTTAC
*
7415270 ATAACATACAAAACTTAC
1 ATAACTTACAAAACTTAC
7415288 TTAACTTACG
Statistics
Matches: 146, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
46 39 0.27
47 3 0.02
48 1 0.01
49 1 0.01
50 6 0.04
51 3 0.02
52 90 0.62
54 3 0.02
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.33
Consensus pattern (52 bp):
ATAACTTACAAAACTTACATAATACATAAATATATATCATATAATAACTTAC
Found at i:7415265 original size:98 final size:94
Alignment explanation
Indices: 7415030--7415267 Score: 316
Period size: 95 Copynumber: 2.5 Consensus size: 94
7415020 ATATAATAAT
*
7415030 TTACAAAACTAACATAATACATAAATATATATCATATAATAACTTGCAAAACTTACATAATACAT
1 TTACAAAACT-ACATAATACATAAATATATATCATATAATAACTTACAAAACTTACATAATACAT
* * *
7415095 AAATATATATCATATAATAACTTATATAAC
65 AAATATATATCATACAATAACTTACAAAAC
*
7415125 TTACAAAACTTACATAATACATAAATATATATCATATAATAACTTACAAGACTTACATAATACAT
1 TTACAAAAC-TACATAATACATAAATATATATCATATAATAACTTACAAAACTTACATAATACAT
7415190 AAATAATATATATCATACAATAACTTACAAAAC
65 --A-AATATATATCATACAATAACTTACAAAAC
* * * * *
7415223 TTACATAA-TACATACCTTATATAAATTTATATCATATCATAACTT
1 TTACAAAACTACATA--ATACATAAATATATATCATATAATAACTT
7415268 GCATAACATA
Statistics
Matches: 127, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
95 61 0.48
96 7 0.06
97 1 0.01
98 58 0.46
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.34
Consensus pattern (94 bp):
TTACAAAACTACATAATACATAAATATATATCATATAATAACTTACAAAACTTACATAATACATA
AATATATATCATACAATAACTTACAAAAC
Found at i:7420839 original size:21 final size:21
Alignment explanation
Indices: 7420806--7420856 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
7420796 ACAACTTAGA
*
7420806 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
7420827 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
7420848 GCAGAGGCA
1 GCAGAGGCA
7420857 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:7422833 original size:3 final size:3
Alignment explanation
Indices: 7422825--7422854 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
7422815 AGGGCTAAAT
*
7422825 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7422855 AATAACTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7424876 original size:15 final size:14
Alignment explanation
Indices: 7424851--7424888 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
7424841 TGTTTTACAG
*
7424851 AAAATGATTTTTAA
1 AAAATAATTTTTAA
*
7424865 AAAATAATTTTTAG
1 AAAATAATTTTTAA
7424879 AAAATAATTT
1 AAAATAATTT
7424889 ATTTTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:7425372 original size:15 final size:15
Alignment explanation
Indices: 7425352--7425403 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
7425342 GCTACAAAAC
7425352 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
7425367 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
7425386 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
7425401 ATT
1 ATT
7425404 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:7425523 original size:22 final size:23
Alignment explanation
Indices: 7425497--7425562 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
7425487 TATTAAATAG
7425497 TTTATTAAAATAATAATTTA-TA
1 TTTATTAAAATAATAATTTATTA
* *
7425519 TTTATTATATTAATAATTTATTA
1 TTTATTAAAATAATAATTTATTA
*
7425542 TATGATTAAATATAAATAATT
1 T-TTATTAAA-AT-AATAATT
7425563 AAATATCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 18 0.51
23 3 0.09
24 6 0.17
25 1 0.03
26 7 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTATTAAAATAATAATTTATTA
Found at i:7431741 original size:15 final size:17
Alignment explanation
Indices: 7431705--7431741 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7431695 AAAAATTTTA
*
7431705 AAATATATTAAATAATC
1 AAATACATTAAATAATC
7431722 AAATACATTAAA-AA-C
1 AAATACATTAAATAATC
7431737 AAATA
1 AAATA
7431742 TTAAAACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 2 0.11
17 11 0.58
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATACATTAAATAATC
Found at i:7431767 original size:41 final size:42
Alignment explanation
Indices: 7431722--7431817 Score: 124
Period size: 40 Copynumber: 2.3 Consensus size: 42
7431712 TTAAATAATC
*
7431722 AAATACATTAAAAACAAATATTAAAACAAGAAACAAA-TAAA
1 AAATATATTAAAAACAAATATTAAAACAAGAAACAAATTAAA
* * * *
7431763 AAATATATT-AAAACAATTCTTAAAACAATACACAAATTAAA
1 AAATATATTAAAAACAAATATTAAAACAAGAAACAAATTAAA
*
7431804 AAATATAATAAAAA
1 AAATATATTAAAAA
7431818 TTGATTATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 23 0.49
41 20 0.43
42 4 0.09
ACGTcount: A:0.68, C:0.09, G:0.01, T:0.22
Consensus pattern (42 bp):
AAATATATTAAAAACAAATATTAAAACAAGAAACAAATTAAA
Found at i:7431776 original size:40 final size:41
Alignment explanation
Indices: 7431722--7431816 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
7431712 TTAAATAATC
*
7431722 AAATACATTAAAAACAAATATTAAAACAAGAAACAAA-TAAA
1 AAATATATT-AAAACAAATATTAAAACAAGAAACAAATTAAA
* * * *
7431763 AAATATATTAAAACAATTCTTAAAACAATACACAAATTAAA
1 AAATATATTAAAACAAATATTAAAACAAGAAACAAATTAAA
*
7431804 AAATATAATAAAA
1 AAATATATTAAAA
7431817 ATTGATTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 23 0.49
41 24 0.51
ACGTcount: A:0.67, C:0.09, G:0.01, T:0.22
Consensus pattern (41 bp):
AAATATATTAAAACAAATATTAAAACAAGAAACAAATTAAA
Found at i:7432163 original size:17 final size:17
Alignment explanation
Indices: 7432124--7432156 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7432114 TTTTACTACA
*
7432124 ATTT-TTGTTTTTATTT
1 ATTTATTGTTTCTATTT
7432140 ATTTATTGTTTCTATTT
1 ATTTATTGTTTCTATTT
7432157 TTATATTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (17 bp):
ATTTATTGTTTCTATTT
Found at i:7433237 original size:18 final size:18
Alignment explanation
Indices: 7433214--7433249 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7433204 ATGCATTGAA
7433214 CTTTACCTACTAAAAAGG
1 CTTTACCTACTAAAAAGG
7433232 CTTTACCTACTAAAAAGG
1 CTTTACCTACTAAAAAGG
7433250 ATTGACTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (18 bp):
CTTTACCTACTAAAAAGG
Found at i:7442873 original size:46 final size:46
Alignment explanation
Indices: 7442823--7443039 Score: 265
Period size: 46 Copynumber: 4.7 Consensus size: 46
7442813 GATAGAAAAT
7442823 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
7442869 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
* * *** *
7442915 GTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACGGGGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-TATGAAAC
** * * * *
7442962 GAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAAC
* * * *
7443008 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
7443040 TCATGTCGAA
Statistics
Matches: 151, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 113 0.75
47 37 0.25
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAC
Found at i:7443014 original size:93 final size:92
Alignment explanation
Indices: 7442816--7443039 Score: 279
Period size: 93 Copynumber: 2.4 Consensus size: 92
7442806 GCTCTCTGAT
* * **
7442816 AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAACGTGTAAGACCAT
1 AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAACGAATAAGACCAT
* *
7442881 GGTTGAAAGATACCATGGCAACCTGAT
66 GGTTGAAAGATACCATGGCAACATGAC
* * * * *
7442908 ATG-AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACGGGGAAATGAATAAGACC
1 A-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-GAGGAAACGAATAAGACC
*
7442972 ATGGTTGAATGATACCATGGCAACATGAC
64 ATGGTTGAAAGATACCATGGCAACATGAC
* * * *
7443001 AGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
7443040 TCATGTCGAA
Statistics
Matches: 112, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
92 41 0.37
93 71 0.63
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (92 bp):
AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAACGAATAAGACCAT
GGTTGAAAGATACCATGGCAACATGAC
Found at i:7444324 original size:25 final size:24
Alignment explanation
Indices: 7444296--7444359 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 24
7444286 GACCTTAGCA
7444296 TGCTCTCTGATTATTAGCACGCCAG
1 TGCTCTCTG-TTATTAGCACGCCAG
* **
7444321 TGCTTTCTG-TA-TAGCACTTCAG
1 TGCTCTCTGTTATTAGCACGCCAG
7444343 TGCTCTCTGTTCATTAG
1 TGCTCTCTGTT-ATTAG
7444360 TGCATAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 17 0.53
23 3 0.09
24 1 0.03
25 11 0.34
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (24 bp):
TGCTCTCTGTTATTAGCACGCCAG
Found at i:7446702 original size:47 final size:46
Alignment explanation
Indices: 7446581--7446760 Score: 216
Period size: 46 Copynumber: 3.9 Consensus size: 46
7446571 CTCTGATAGA
* * * * *
7446581 AAATGTGTAAGACCATGGTTGAAAGATAACATGGCAACCTGATATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
* * *
7446627 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGG
* * *
7446674 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACAGA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
* * * *
7446720 AAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
7446761 TCGAAGATAA
Statistics
Matches: 115, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
46 75 0.65
47 40 0.35
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGG
Found at i:7446741 original size:93 final size:93
Alignment explanation
Indices: 7446588--7446760 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 93
7446578 AGAAAATGTG
* * * *
7446588 TAAGACCATGGTTGAAAGATAACATGGCAACCTGATATGAAACGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATAACATGGCAACATGACATGAAACGAGTAAGACCATAGTTGAAAGA
*
7446653 TACCATGGCAACATGACGGGGAAATGAA
66 CACCATGGCAACATGACGGGGAAATGAA
* * *
7446681 TAAGACCATGGTTGAATGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATAACATGGCAACATGACATG-AAACGAGTAAGACCATAGTTGAAAG
* *
7446745 ACACTATGGCATCATG
65 ACACCATGGCAACATG
7446761 TCGAAGATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (93 bp):
TAAGACCATGGTTGAAAGATAACATGGCAACATGACATGAAACGAGTAAGACCATAGTTGAAAGA
CACCATGGCAACATGACGGGGAAATGAA
Found at i:7454227 original size:33 final size:33
Alignment explanation
Indices: 7454190--7454253 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
7454180 AATTACAAAT
*
7454190 ATTTA-ATGATTATATTTAAATATTTA-AAATATA
1 ATTTATAT-ATTATAATTAAAT-TTTATAAATATA
*
7454223 ATTTATATATTTTAATTAAATTTTATAAATA
1 ATTTATATATTATAATTAAATTTTATAAATA
7454254 GTTAATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 4 0.15
33 21 0.78
34 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (33 bp):
ATTTATATATTATAATTAAATTTTATAAATATA
Found at i:7454276 original size:24 final size:23
Alignment explanation
Indices: 7454244--7454293 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
7454234 TTAATTAAAT
* *
7454244 TTTATAAATAGTTAATATTTATTA
1 TTTAAAAATAGTTAAAATTTA-TA
*
7454268 TTTAAAAATATTTAAAATTTATA
1 TTTAAAAATAGTTAAAATTTATA
7454291 TTT
1 TTT
7454294 CATATGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTAAAAATAGTTAAAATTTATA
Found at i:7454383 original size:22 final size:19
Alignment explanation
Indices: 7454347--7454387 Score: 55
Period size: 22 Copynumber: 2.0 Consensus size: 19
7454337 TTACTAAAAC
7454347 ATAATATTAATTAATTTAA
1 ATAATATTAATTAATTTAA
7454366 ATAATATTTAAATATAATTTAA
1 ATAATA-TT-AAT-TAATTTAA
7454388 TAAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 2 0.11
21 3 0.16
22 8 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATATTAATTAATTTAA
Found at i:7454419 original size:13 final size:15
Alignment explanation
Indices: 7454401--7454433 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
7454391 AATAAATATT
7454401 ATATTTTTTA-AA-A
1 ATATTTTTTATAATA
7454414 ATATTTTTTATAATA
1 ATATTTTTTATAATA
7454429 ATATT
1 ATATT
7454434 AAATACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 2 0.11
15 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATTTTTTATAATA
Found at i:7462395 original size:20 final size:21
Alignment explanation
Indices: 7462356--7462396 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7462346 ACTTGTATAA
*
7462356 CTATCATCAAATATTCAAAAT
1 CTATCATCAAACATTCAAAAT
*
7462377 CTATCATTAAACA-TCAAAAT
1 CTATCATCAAACATTCAAAAT
7462397 ACTCATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (21 bp):
CTATCATCAAACATTCAAAAT
Found at i:7466175 original size:35 final size:35
Alignment explanation
Indices: 7466136--7466317 Score: 183
Period size: 35 Copynumber: 5.2 Consensus size: 35
7466126 CATGGAAAAA
* *
7466136 TTATGACACGTAGGTATGGTATTGTCCATACTGAG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAG
* *
7466171 TTATGACACGTAGGTATGGTATTATCCATAC-CAGG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGA-G
*
7466206 CTAT-AATACGTAGGTATGGTATT-TCCCATA-TCGAG
1 TTATGAA-ACGTAGGTATGGTATTAT-CCATACT-GAG
* * *
7466241 TTATGAAACGTAGGTATGGTATTGTCTATATTGAG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAG
* * * *
7466276 CTATGAAACATAGGTATGGTATTAACTATACTGAG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAG
*
7466311 TTGTGAA
1 TTATGAA
7466318 TCATGGCACT
Statistics
Matches: 125, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
34 3 0.02
35 117 0.94
36 5 0.04
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.35
Consensus pattern (35 bp):
TTATGAAACGTAGGTATGGTATTATCCATACTGAG
Found at i:7468135 original size:12 final size:12
Alignment explanation
Indices: 7468107--7468148 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 12
7468097 TTTATTAATA
7468107 TTTTAATTTGA-
1 TTTTAATTTGAT
7468118 TTTTAATTTGAT
1 TTTTAATTTGAT
7468130 TTTTAA-TTGAT
1 TTTTAATTTGAT
*
7468141 ATTTAATT
1 TTTTAATT
7468149 ATTTAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 21 0.75
12 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (12 bp):
TTTTAATTTGAT
Found at i:7469996 original size:45 final size:45
Alignment explanation
Indices: 7469896--7470020 Score: 144
Period size: 45 Copynumber: 2.8 Consensus size: 45
7469886 ATCATACCAG
*
7469896 AAATGAGTAAGACCATAGCTGAAAGACGCTCTGGCATCACCATTC
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACCATTC
* * ** *
7469941 AGACGAGTAAGACCATAGCTGAAAGACGCTATGGCATTGCGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACCATTC
* * * **
7469986 AAATGTGTAAGACTATA-TTGAAAGAAACTATGGCA
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCA
7470021 ATCTGACGAG
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 15 0.22
45 52 0.78
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACCATTC
Found at i:7470065 original size:46 final size:46
Alignment explanation
Indices: 7470003--7470209 Score: 267
Period size: 46 Copynumber: 4.5 Consensus size: 46
7469993 TAAGACTATA
* * *
7470003 TTGAAAGAAACTATGGCAATC-TGACGAGAAATGAATAAGACCATGG
1 TTGAAAGATACCATGGCAA-CATGACAAGAAATGAATAAGACCATGG
7470049 TTGAAAGATACCATGGCAACATGA-AAGGAAATGAATAAGACCATGG
1 TTGAAAGATACCATGGCAACATGACAA-GAAATGAATAAGACCATGG
* * *
7470095 TTGAAATATACCATGGAAACGTGACAAGAAATGAATAAGACCATGG
1 TTGAAAGATACCATGGCAACATGACAAGAAATGAATAAGACCATGG
* *
7470141 TTGAAAGATACCATGGCAACATGAC-AGAAAATGAGTAAGACCATAG
1 TTGAAAGATACCATGGCAACATGACAAG-AAATGAATAAGACCATGG
* * *
7470187 TTGAAAGACACTATGGCATCATG
1 TTGAAAGATACCATGGCAACATG
7470210 TCGAAGATAA
Statistics
Matches: 143, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
45 4 0.03
46 137 0.96
47 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (46 bp):
TTGAAAGATACCATGGCAACATGACAAGAAATGAATAAGACCATGG
Found at i:7473473 original size:87 final size:87
Alignment explanation
Indices: 7473323--7473486 Score: 258
Period size: 87 Copynumber: 1.9 Consensus size: 87
7473313 TGTATAATGA
* * *
7473323 TGAGTTTTTACTCTTAATGAATTCATAGCCCAAATTTTTGGGTGGTCTTATTGAGACGGACTTGA
1 TGAGTTTTTACTCTTAATGAATTCATAGCCCAAACTTTTGGGTGGTCCTATTGAGACGAACTTGA
7473388 TGAATTCACCGATTTGAGAGGT
66 TGAATTCACCGATTTGAGAGGT
* * *
7473410 TGAGTTTATTACTCTTAATGAGTTCATATCCC-AGCTTTTGGGTGGTCCTATTGAGACGAACTTG
1 TGAGTTT-TTACTCTTAATGAATTCATAGCCCAAACTTTTGGGTGGTCCTATTGAGACGAACTTG
7473474 ATGAATTCACCGA
65 ATGAATTCACCGA
7473487 CTTAAATTTG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
87 48 0.69
88 22 0.31
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (87 bp):
TGAGTTTTTACTCTTAATGAATTCATAGCCCAAACTTTTGGGTGGTCCTATTGAGACGAACTTGA
TGAATTCACCGATTTGAGAGGT
Found at i:7481952 original size:12 final size:12
Alignment explanation
Indices: 7481933--7481964 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
7481923 CTAAGTTCGA
7481933 TTCT-AATGGTT
1 TTCTGAATGGTT
7481944 TTCTGAATGGTT
1 TTCTGAATGGTT
7481956 TTCTGAATG
1 TTCTGAATG
7481965 TTACTGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.19, C:0.09, G:0.22, T:0.50
Consensus pattern (12 bp):
TTCTGAATGGTT
Found at i:7482328 original size:19 final size:19
Alignment explanation
Indices: 7482300--7482336 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7482290 TCAATAATGT
*
7482300 TAAATTTAATTTTTTATTA
1 TAAATATAATTTTTTATTA
7482319 TAAATATAATTTTTTATT
1 TAAATATAATTTTTTATT
7482337 GTTTAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TAAATATAATTTTTTATTA
Found at i:7485978 original size:6 final size:6
Alignment explanation
Indices: 7485968--7486034 Score: 73
Period size: 6 Copynumber: 11.2 Consensus size: 6
7485958 CATAAAAAGC
* * *
7485968 AAAATA GAAATA AAAATA AAAAT- AAAATA AAAGATA AAAGTA AAGATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA AAAATA
* *
7486016 AACATA AACATA AAAATA A
1 AAAATA AAAATA AAAATA A
7486035 TCGGACTCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
5 5 0.10
6 41 0.79
7 6 0.12
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:7485982 original size:18 final size:17
Alignment explanation
Indices: 7485959--7486017 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
7485949 ACAAAATGTC
*
7485959 ATAAAAAGCAAAATAGAA
1 ATAAAAAGAAAAATA-AA
*
7485977 ATAAAAATAAAAATAAA
1 ATAAAAAGAAAAATAAA
7485994 AT-AAAAGATAAAAGTAAA
1 ATAAAAAGA-AAAA-TAAA
7486012 GATAAA
1 -ATAAA
7486018 CATAAACATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.15
17 8 0.24
18 17 0.50
19 2 0.06
20 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (17 bp):
ATAAAAAGAAAAATAAA
Found at i:7486028 original size:24 final size:24
Alignment explanation
Indices: 7485959--7486034 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
7485949 ACAAAATGTC
* *
7485959 ATAAAAAGCAAAATAGAA-ATAAAA
1 ATAAAAA-TAAAATAAAACATAAAA
*
7485983 ATAAAAATAAAATAAAAGATAAAA
1 ATAAAAATAAAATAAAACATAAAA
* *
7486007 GTAAAGATAAACAT-AAACATAAAA
1 ATAAAAATAAA-ATAAAACATAAAA
7486031 ATAA
1 ATAA
7486035 TCGGACTCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
23 8 0.18
24 34 0.77
25 2 0.05
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.16
Consensus pattern (24 bp):
ATAAAAATAAAATAAAACATAAAA
Found at i:7488085 original size:68 final size:67
Alignment explanation
Indices: 7488013--7488162 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
7488003 CATCATGTGT
* * * *
7488013 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
7488075 ATGTAG
62 ATGTAG
** * *
7488081 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
7488146 AG
66 AG
7488148 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
7488163 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:7488118 original size:64 final size:64
Alignment explanation
Indices: 7488037--7488220 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
7488027 AGACATTATG
* *
7488037 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
7488101 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
7488166 AA
63 AA
* * * *
7488168 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
7488221 CAAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:7497346 original size:21 final size:19
Alignment explanation
Indices: 7497317--7497369 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 19
7497307 CTATGGTTTT
*
7497317 AATATAATAAAACATAACATAA
1 AATA-AATAAAA-ATAAAAT-A
7497339 AATAAATAATAAATAAAATA
1 AATAAATAA-AAATAAAATA
7497359 AATGAAATAAA
1 AAT-AAATAAA
7497370 GATAGAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.18
21 17 0.61
22 6 0.21
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (19 bp):
AATAAATAAAAATAAAATA
Found at i:7503633 original size:15 final size:15
Alignment explanation
Indices: 7503613--7503642 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7503603 CATTTTATTT
*
7503613 ATATTAGGATAATTA
1 ATATTAAGATAATTA
7503628 ATATTAAGATAATTA
1 ATATTAAGATAATTA
7503643 TTAAGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:7511619 original size:78 final size:78
Alignment explanation
Indices: 7511490--7511644 Score: 283
Period size: 78 Copynumber: 2.0 Consensus size: 78
7511480 TCTACTTCAA
*
7511490 AGGCTGAATATAGAAGCCTAGCTAATGTGACATTCGAGTTAATGTGGTTTCATTCTTTGTTGACT
1 AGGCTGAATATAGAAGCCTAGCTAATGTGACATTCGAGTTAACGTGGTTTCATTCTTTGTTGACT
7511555 GAGATAGGGATAG
66 GAGATAGGGATAG
**
7511568 AGGCTGAATATAGAAGTTTAGCTAATGTGACATTCGAGTTAACGTGGTTTCATTCTTTGTTGACT
1 AGGCTGAATATAGAAGCCTAGCTAATGTGACATTCGAGTTAACGTGGTTTCATTCTTTGTTGACT
7511633 GAGATAGGGATA
66 GAGATAGGGATA
7511645 AAGCTTCGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.34
Consensus pattern (78 bp):
AGGCTGAATATAGAAGCCTAGCTAATGTGACATTCGAGTTAACGTGGTTTCATTCTTTGTTGACT
GAGATAGGGATAG
Found at i:7512154 original size:35 final size:35
Alignment explanation
Indices: 7512108--7512177 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
7512098 ATGTGTATGT
7512108 ATATACCTGAATAAATACCAGTATTTTCCACAGGC
1 ATATACCTGAATAAATACCAGTATTTTCCACAGGC
7512143 ATATACCTGAATAAATACCAGTATTTTCCACAGGC
1 ATATACCTGAATAAATACCAGTATTTTCCACAGGC
7512178 TGTAACCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (35 bp):
ATATACCTGAATAAATACCAGTATTTTCCACAGGC
Found at i:7523957 original size:33 final size:33
Alignment explanation
Indices: 7523883--7524000 Score: 114
Period size: 33 Copynumber: 3.6 Consensus size: 33
7523873 ATAAACTTGA
* * * *
7523883 GCCGAGAGGAGTAGAATATGGCGGTGGATATGG
1 GCCGGGAGGAGTAGAGTACGACGGTGGATATGG
7523916 GCCGGGAGGAGTAGAGTACGACGGTGGATAT-G
1 GCCGGGAGGAGTAGAGTACGACGGTGGATATGG
** * * *
7523948 GCTTTGGAGGAGTTGAGTAC-ATGGGTGGATACGG
1 GC-CGGGAGGAGTAGAGTACGA-CGGTGGATATGG
*
7523982 GCCGGAAGGAGTAGAGTAC
1 GCCGGGAGGAGTAGAGTAC
7524001 TGAGATAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
32 4 0.06
33 62 0.90
34 3 0.04
ACGTcount: A:0.25, C:0.11, G:0.45, T:0.19
Consensus pattern (33 bp):
GCCGGGAGGAGTAGAGTACGACGGTGGATATGG
Found at i:7524172 original size:12 final size:12
Alignment explanation
Indices: 7524155--7524185 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7524145 TGTAGTTCCG
*
7524155 GCTCTGGCTCCT
1 GCTCTGGCTCCC
7524167 GCTCTGGCTCCC
1 GCTCTGGCTCCC
7524179 GCTCTGG
1 GCTCTGG
7524186 TGCATGATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.42, G:0.29, T:0.29
Consensus pattern (12 bp):
GCTCTGGCTCCC
Found at i:7526030 original size:22 final size:22
Alignment explanation
Indices: 7525996--7526059 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
7525986 TCAACATTTT
*
7525996 AATAAATCA-ATAAAAATTATCA
1 AATAAAT-ATATAAAAATTATAA
*
7526018 AATAAATATATAATAA-TATAA
1 AATAAATATATAAAAATTATAA
*
7526039 AATTACATTATATAAAAATTA
1 AA-TA-AATATATAAAAATTA
7526060 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 10 0.29
24 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAATATATAAAAATTATAA
Found at i:7526053 original size:15 final size:16
Alignment explanation
Indices: 7526033--7526064 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7526023 ATATATAATA
7526033 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
7526048 ATATAAAAATTACATT
1 ATATAAAAATTACATT
7526064 A
1 A
7526065 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:7526318 original size:7 final size:8
Alignment explanation
Indices: 7526290--7526318 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
7526280 AATCACAATA
7526290 CACTAAAC
1 CACTAAAC
7526298 CACTAAAC
1 CACTAAAC
7526306 CACTAAA-
1 CACTAAAC
7526313 CACTAA
1 CACTAA
7526319 CAATTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.52, C:0.34, G:0.00, T:0.14
Consensus pattern (8 bp):
CACTAAAC
Done.