Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 22 of 185
Found at i:6349360 original size:36 final size:35
Alignment explanation
Indices: 6349300--6349369 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 35
6349290 AATAATTGAG
* * * *
6349300 TTTTCTGTTCTTTATCGACCAATAAGTCGTTTATA
1 TTTTCTGCTCTTCATCGACCAATAAATCATTTATA
6349335 TTTTGCTGCTCTTCATCGACCAATAAATCATTTAT
1 TTTT-CTGCTCTTCATCGACCAATAAATCATTTAT
6349370 TGCTTCAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 4 0.13
36 26 0.87
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCTGCTCTTCATCGACCAATAAATCATTTATA
Found at i:6349494 original size:5 final size:5
Alignment explanation
Indices: 6349484--6349508 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6349474 TACGGTAATT
6349484 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
6349509 AGGAGTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:6349845 original size:41 final size:41
Alignment explanation
Indices: 6349751--6349912 Score: 234
Period size: 42 Copynumber: 3.9 Consensus size: 41
6349741 TAACGAAAAA
* * * *
6349751 CGCCGCTAAGGAACATGATCTTTAGTGGCGTTTTTCCTTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT-TTTAAG
6349793 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAAG
* *
6349834 CGCCTCTAAAGAACATGTTCATTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT-TAAG
* *
6349876 CGCCTCTAAAGAACATGTTCTTTAGCGGCGCTTTTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT
6349913 ACAAAAATGC
Statistics
Matches: 111, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
41 40 0.36
42 71 0.64
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAAG
Found at i:6349885 original size:83 final size:83
Alignment explanation
Indices: 6349751--6349912 Score: 236
Period size: 83 Copynumber: 2.0 Consensus size: 83
6349741 TAACGAAAAA
* * *
6349751 CGCCGCTAAGGAACATGATCTTTAGTGGCGTTTTTCCTTAAGCGCCGCTAAAGAACATGTTCTTT
1 CGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTCCTTAAGCGCCGCTAAAGAACATGTTCTTT
*
6349816 AGCGGCGTTTTTTTTAAG
66 AGCGGCGCTTTTTTTAAG
* * * *
6349834 CGCCTCTAAAGAACATGTTCATTAGCGGCGTTTTT-TTCTAAGCGCCTCTAAAGAACATGTTCTT
1 CGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTCCT-TAAGCGCCGCTAAAGAACATGTTCTT
6349898 TAGCGGCGCTTTTTT
65 TAGCGGCGCTTTTTT
6349913 ACAAAAATGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
82 1 0.01
83 69 0.99
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (83 bp):
CGCCGCTAAAGAACATGATCATTAGCGGCGTTTTTCCTTAAGCGCCGCTAAAGAACATGTTCTTT
AGCGGCGCTTTTTTTAAG
Found at i:6350316 original size:21 final size:21
Alignment explanation
Indices: 6350292--6350342 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
6350282 TTCTTTTGAA
*
6350292 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
6350313 CCTCTGTTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
6350334 CCTCTGCTT
1 CCTCTGCTT
6350343 TACGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.45, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:6352296 original size:9 final size:9
Alignment explanation
Indices: 6352266--6352607 Score: 351
Period size: 9 Copynumber: 37.3 Consensus size: 9
6352256 ATTTACACGG
6352266 GTAAGTTAT
1 GTAAGTTAT
* *
6352275 TTAATTTAT
1 GTAAGTTAT
*
6352284 GTAAGTTAA
1 GTAAGTTAT
6352293 GTAAGTTAT
1 GTAAGTTAT
6352302 GTAAGTTAT
1 GTAAGTTAT
* *
6352311 TTAATTTAT
1 GTAAGTTAT
*
6352320 GTAGGTTAT
1 GTAAGTTAT
* *
6352329 GTAAGTCCAC
1 GTAAGT-TAT
* *
6352339 GGAATTTAT
1 GTAAGTTAT
6352348 GTAAGTTAT
1 GTAAGTTAT
* *
6352357 TTAATTTAT
1 GTAAGTTAT
6352366 GTAAGTTAT
1 GTAAGTTAT
6352375 GTAAGTTAT
1 GTAAGTTAT
* *
6352384 TTAATTTAT
1 GTAAGTTAT
*
6352393 GTAGGTTAT
1 GTAAGTTAT
6352402 GTAAGTTAT
1 GTAAGTTAT
* *
6352411 TTAATTTAT
1 GTAAGTTAT
*
6352420 GCAAGTTTAT
1 GTAAG-TTAT
6352430 GTAAGTTAT
1 GTAAGTTAT
6352439 GTAAGTTAT
1 GTAAGTTAT
* *
6352448 TTAATTTAT
1 GTAAGTTAT
6352457 GTAAGTTAT
1 GTAAGTTAT
6352466 GTAAGTTAT
1 GTAAGTTAT
* *
6352475 TTAATTTAT
1 GTAAGTTAT
6352484 GTAAGTTAT
1 GTAAGTTAT
6352493 GTAAGTTAT
1 GTAAGTTAT
* *
6352502 TTAATTTAT
1 GTAAGTTAT
*
6352511 GCAAGTTTAT
1 GTAAG-TTAT
6352521 GTAAGTTAT
1 GTAAGTTAT
6352530 GTAAGTTAT
1 GTAAGTTAT
* *
6352539 TTAATTTAT
1 GTAAGTTAT
6352548 GTAAGTTAT
1 GTAAGTTAT
6352557 GTAAGTTAT
1 GTAAGTTAT
* *
6352566 TTAATTTAT
1 GTAAGTTAT
6352575 GTAAGTTAT
1 GTAAGTTAT
*
6352584 GCAAGCTTAT
1 GTAAG-TTAT
*
6352594 ATACAAGTTAT
1 GT--AAGTTAT
6352605 GTA
1 GTA
6352608 TTATAACATA
Statistics
Matches: 265, Mismatches: 62, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
9 232 0.88
10 25 0.09
11 5 0.02
12 3 0.01
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:6352393 original size:64 final size:64
Alignment explanation
Indices: 6352280--6352581 Score: 347
Period size: 64 Copynumber: 4.9 Consensus size: 64
6352270 GTTATTTAAT
** * * * * ** ** * *
6352280 TTATGTAAGTTAAGTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTCCACGGAAT
1 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTTATGGAAG
6352344 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTA--T--G--TA--G--G
1 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTTATGGAAG
* * * * *
6352398 TTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTATTTAA-TTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG-TTATGTAAGTTATTTAATTTATGTAAGTTTATGGAAG
* *
6352462 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTTATGGAAG
6352526 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTT
1 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTT
6352582 ATGCAAGCTT
Statistics
Matches: 206, Mismatches: 20, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
54 26 0.13
55 19 0.09
56 1 0.00
57 1 0.00
58 1 0.00
60 3 0.01
62 1 0.00
63 22 0.11
64 132 0.64
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (64 bp):
TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTTATGGAAG
Found at i:6352584 original size:91 final size:91
Alignment explanation
Indices: 6352344--6352581 Score: 336
Period size: 91 Copynumber: 2.6 Consensus size: 91
6352334 TCCACGGAAT
* *
6352344 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATG-TAGGTTATGTAAGT
1 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAGT
* * **
6352408 TATTTAATTTATGCAAGTTTATGTAAG
66 TATGTAAGTTATTTAA-TTTATGTAAG
*
6352435 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAG-TTATGTAAGT
1 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAGT
* * **
6352499 TATTTAATTTATGCAAGTTTATGTAAG
66 TATGTAAGTTATTTAA-TTTATGTAAG
*
6352526 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTT
1 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGCAAGTT
6352582 ATGCAAGCTT
Statistics
Matches: 144, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
91 141 0.98
92 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (91 bp):
TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAGT
TATGTAAGTTATTTAATTTATGTAAG
Found at i:6352640 original size:91 final size:91
Alignment explanation
Indices: 6352293--6352593 Score: 237
Period size: 91 Copynumber: 3.2 Consensus size: 91
6352283 TGTAAGTTAA
* * * *** * *
6352293 GTAAGTTATGTAAGTTATTTAATTTATGTAGGTTATGTAAGTCCACGGAATTTATGTAAG-TTAT
1 GTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGCAAGT-TATTTAAGTTATGCAAGTTTAT
* * * *
6352357 TTAATTTATGTAAGTTATGTAAGTTAT
65 GTAAGTTATGTAAGTTATTTAATTTAT
* * * * * * * * *
6352384 TTAATTTATGTAGGTTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTATT
1 GTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGCAAG-TTATTTAAGTTATGCAAG-----
6352449 TAATTTATGTAAGTTATGTAAGTTATTTAATTTAT
60 ---TTTATGTAAGTTATGTAAGTTATTTAATTTAT
* * * **
6352484 GTAAGTTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTATTTAA-TTTAT
1 GTAAGTTATGTAAGTTATTTAATTTATGTAAG-TTATGCAAGTTATTTAAGTTATGCAAGTTTAT
6352548 GTAAGTTATGTAAGTTATTTAATTTAT
65 GTAAGTTATGTAAGTTATTTAATTTAT
*
6352575 GTAAGTTATGCAAGCTTAT
1 GTAAGTTATGTAAG-TTAT
6352594 ATACAAGTTA
Statistics
Matches: 170, Mismatches: 28, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
91 90 0.53
92 5 0.03
100 67 0.39
101 8 0.05
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (91 bp):
GTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGCAAGTTATTTAAGTTATGCAAGTTTATG
TAAGTTATGTAAGTTATTTAATTTAT
Found at i:6352695 original size:21 final size:21
Alignment explanation
Indices: 6352671--6352721 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
6352661 AATTATTATG
6352671 TAAGTTATGCAAGCTTAAATA
1 TAAGTTATGCAAGCTTAAATA
*
6352692 TAAGTTATGCAAGCTTATATA
1 TAAGTTATGCAAGCTTAAATA
*
6352713 CAAGTTATG
1 TAAGTTATG
6352722 TATTATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (21 bp):
TAAGTTATGCAAGCTTAAATA
Found at i:6352698 original size:42 final size:39
Alignment explanation
Indices: 6352642--6352818 Score: 111
Period size: 42 Copynumber: 4.5 Consensus size: 39
6352632 TTATTATGTT
*
6352642 ATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCA
1 ATTAAATATAAGTTATGTAAATTATTATGTAAGTTATG-A
* * ** *
6352682 AGCTTAAATATAAGTTATGCAAGCTTA-TATACAAGTTATGT
1 A--TTAAATATAAGTTATGTAA-ATTATTATGTAAGTTATGA
* *
6352723 ATTATAACATAAAGTATTATGT-AA-T-TTAT-TATG-T-T--
1 ATTA-AATAT-AAG--TTATGTAAATTATTATGTAAGTTATGA
*
6352758 ATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCA
1 ATTAAATATAAGTTATGTAAATTATTATGTAAGTTATG-A
6352798 AGCTTAAATATAAGTTATGTA
1 A--TTAAATATAAGTTATGTA
6352819 TTATATAAGT
Statistics
Matches: 103, Mismatches: 15, Indels: 36
0.67 0.10 0.23
Matches are distributed among these distances:
31 6 0.06
32 2 0.02
33 4 0.04
34 7 0.07
35 7 0.07
36 1 0.01
37 2 0.02
38 1 0.01
39 5 0.05
40 10 0.10
41 4 0.04
42 46 0.45
43 8 0.08
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (39 bp):
ATTAAATATAAGTTATGTAAATTATTATGTAAGTTATGA
Found at i:6352702 original size:116 final size:116
Alignment explanation
Indices: 6352576--6352816 Score: 482
Period size: 116 Copynumber: 2.1 Consensus size: 116
6352566 TTAATTTATG
6352576 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATTATGT
1 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATTATGT
6352641 TATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
66 TATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
6352692 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATTATGT
1 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATTATGT
6352757 TATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
66 TATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
6352808 TAAGTTATG
1 TAAGTTATG
6352817 TATTATATAA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 125 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.43
Consensus pattern (116 bp):
TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATTATGT
TATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
Found at i:6352965 original size:16 final size:16
Alignment explanation
Indices: 6352940--6352977 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6352930 GAAAACGAAG
*
6352940 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
6352955 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
6352971 TAAATTT
1 TAAATTT
6352978 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:6352992 original size:13 final size:13
Alignment explanation
Indices: 6352974--6353001 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6352964 ATACAAATAA
6352974 ATTTAGAAAACTT
1 ATTTAGAAAACTT
6352987 ATTTAGAAAACTT
1 ATTTAGAAAACTT
6353000 AT
1 AT
6353002 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:6353009 original size:17 final size:17
Alignment explanation
Indices: 6352970--6353019 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
6352960 TTTAATACAA
6352970 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
6352986 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
6353000 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
6353017 ATA
1 ATA
6353020 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:6356177 original size:14 final size:15
Alignment explanation
Indices: 6356144--6356192 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
6356134 ATTAACTATA
6356144 AACCCCTAAACCCAT
1 AACCCCTAAACCCAT
6356159 AACCCCT-AACTCC-T
1 AACCCCTAAAC-CCAT
6356173 AA-CCCTAAACCCAT
1 AACCCCTAAACCCAT
6356187 GAACCC
1 -AACCC
6356193 TTAACCCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.21
14 10 0.34
15 11 0.38
16 2 0.07
ACGTcount: A:0.37, C:0.47, G:0.02, T:0.14
Consensus pattern (15 bp):
AACCCCTAAACCCAT
Found at i:6356193 original size:15 final size:14
Alignment explanation
Indices: 6356147--6356216 Score: 58
Period size: 15 Copynumber: 5.0 Consensus size: 14
6356137 AACTATAAAC
6356147 CCCTAAACCCATAA
1 CCCTAAACCCATAA
6356161 CCCCT-AACTCC-TAA
1 -CCCTAAAC-CCATAA
6356175 CCCTAAACCCATGAA
1 CCCTAAACCCAT-AA
* *
6356190 CCCTTAACCC-CAA
1 CCCTAAACCCATAA
6356203 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
6356217 TCCATAAGCC
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
13 13 0.29
14 15 0.33
15 17 0.38
ACGTcount: A:0.37, C:0.44, G:0.01, T:0.17
Consensus pattern (14 bp):
CCCTAAACCCATAA
Found at i:6356210 original size:29 final size:28
Alignment explanation
Indices: 6356147--6356216 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
6356137 AACTATAAAC
*
6356147 CCCTAAACCCATAACCCCTAACTCCTAA
1 CCCTAAACCCATAACCCCTAACTCCCAA
*
6356175 CCCTAAACCCATGAACCCTTAAC-CCCAA
1 CCCTAAACCCAT-AACCCCTAACTCCCAA
6356203 CCCTTAAA-CCATAA
1 CCC-TAAACCCATAA
6356217 TCCATAAGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 2 0.05
28 23 0.61
29 13 0.34
ACGTcount: A:0.37, C:0.44, G:0.01, T:0.17
Consensus pattern (28 bp):
CCCTAAACCCATAACCCCTAACTCCCAA
Found at i:6356397 original size:7 final size:7
Alignment explanation
Indices: 6356377--6356439 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
6356367 ATTAACTATA
6356377 AACCCCT
1 AACCCCT
6356384 AAACCCCT
1 -AACCCCT
6356392 AACCCC-
1 AACCCCT
*
6356398 AACCCTT
1 AACCCCT
*
6356405 AACCCTT
1 AACCCCT
6356412 AA-CCCT
1 AACCCCT
6356418 AAACCCCT
1 -AACCCCT
*
6356426 AAACCCTT
1 -AACCCCT
6356434 AACCCC
1 AACCCC
6356440 AATCATTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
6 8 0.17
7 22 0.46
8 18 0.38
ACGTcount: A:0.33, C:0.51, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCCT
Found at i:6356417 original size:14 final size:14
Alignment explanation
Indices: 6356380--6356438 Score: 66
Period size: 14 Copynumber: 4.2 Consensus size: 14
6356370 AACTATAAAC
*
6356380 CCCTAAACCCCTAA
1 CCCTAAACCCTTAA
*
6356394 CCC-CAACCCTTAA
1 CCCTAAACCCTTAA
* *
6356407 CCCTTAACCCTAAA
1 CCCTAAACCCTTAA
6356421 CCCCTAAACCCTTAA
1 -CCCTAAACCCTTAA
6356436 CCC
1 CCC
6356439 CAATCATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 11 0.30
14 14 0.38
15 12 0.32
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.17
Consensus pattern (14 bp):
CCCTAAACCCTTAA
Found at i:6356421 original size:42 final size:42
Alignment explanation
Indices: 6356356--6356469 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
6356346 AAACATATTG
* *
6356356 AACCA-TAAAACATTAACTATAAACCCCTAAACCCCTAACCCC
1 AACCATTAAACCA-TAACCATAAACCCCTAAACCCCTAACCCC
* * * * *
6356398 AACCCTTAACCCTTAACCCTAAACCCCTAAACCCTTAACCCC
1 AACCATTAAACCATAACCATAAACCCCTAAACCCCTAACCCC
* *
6356440 AATCATTAAACCATATCCATAAACCCCTAA
1 AACCATTAAACCATAACCATAAACCCCTAA
6356470 CCCATATCCC
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.19
Consensus pattern (42 bp):
AACCATTAAACCATAACCATAAACCCCTAAACCCCTAACCCC
Found at i:6358268 original size:7 final size:7
Alignment explanation
Indices: 6358253--6358318 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
6358243 AACTATAAAC
*
6358253 CCCTAAA
1 CCCTTAA
6358260 CCCTTAA
1 CCCTTAA
*
6358267 CCC-CAA
1 CCCTTAA
6358273 CCCTTAA
1 CCCTTAA
6358280 CCCTTAA
1 CCCTTAA
6358287 ---TTAA
1 CCCTTAA
*
6358291 ACCTTAA
1 CCCTTAA
*
6358298 CCTTTAA
1 CCCTTAA
6358305 CCCTTAA
1 CCCTTAA
*
6358312 ACCTTAA
1 CCCTTAA
6358319 ACACCAACTC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
4 4 0.08
6 5 0.10
7 39 0.81
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (7 bp):
CCCTTAA
Found at i:6358276 original size:13 final size:13
Alignment explanation
Indices: 6358258--6358282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6358248 TAAACCCCTA
6358258 AACCCTTAACCCC
1 AACCCTTAACCCC
6358271 AACCCTTAACCC
1 AACCCTTAACCC
6358283 TTAATTAAAC
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:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCTTAACCCC
Found at i:6358292 original size:32 final size:32
Alignment explanation
Indices: 6358256--6358318 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
6358246 TATAAACCCC
*
6358256 TAAACCCTTAACC-CCAACCCTTAACCCTTAAT
1 TAAA-CCTTAACCTCCAACCCTTAAACCTTAAT
**
6358288 TAAACCTTAACCTTTAACCCTTAAACCTTAA
1 TAAACCTTAACCTCCAACCCTTAAACCTTAA
6358319 ACACCAACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (32 bp):
TAAACCTTAACCTCCAACCCTTAAACCTTAAT
Found at i:6383265 original size:62 final size:62
Alignment explanation
Indices: 6383114--6383266 Score: 164
Period size: 62 Copynumber: 2.5 Consensus size: 62
6383104 CGTGTAACTC
* * * *
6383114 ACACGGCCTAGGTACATGCCCGTGTCCTTGGCCATATGGCTTTGTGCCACAAACAATGAGTT
1 ACACGGCCTGGGTACACGCCCGTGTCCCTGGCCATATGGCTTTGTACCACAAACAATGAGTT
* * ** * * * *
6383176 ACACGGCTTGGGCACACATCCGTGTCCCTGGTCATGTGG-TATTGTACCATAAACAGTGAGTT
1 ACACGGCCTGGGTACACGCCCGTGTCCCTGGCCATATGGCT-TTGTACCACAAACAATGAGTT
* *
6383238 ACATGGCCTGGGTACACGCCCATGTCCCT
1 ACACGGCCTGGGTACACGCCCGTGTCCCT
6383267 TACCCGTGCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
61 1 0.01
62 71 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (62 bp):
ACACGGCCTGGGTACACGCCCGTGTCCCTGGCCATATGGCTTTGTACCACAAACAATGAGTT
Found at i:6390931 original size:25 final size:26
Alignment explanation
Indices: 6390887--6390936 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
6390877 GGTTTTATTT
*
6390887 TCTTTTCATTTTTAGATTAGGTTTTC
1 TCTTTTCATTTTTAGATTAGATTTTC
*
6390913 TCTTTTC-TTTTTAGGTTAGATTTT
1 TCTTTTCATTTTTAGATTAGATTTT
6390937 AGTTTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.14, C:0.10, G:0.12, T:0.64
Consensus pattern (26 bp):
TCTTTTCATTTTTAGATTAGATTTTC
Found at i:6396036 original size:24 final size:24
Alignment explanation
Indices: 6395991--6396038 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6395981 TTAGCCAAAG
* *
6395991 GCTAAAGGACTTAAACTGCAATTA
1 GCTAAAGGACTCAAAATGCAATTA
6396015 GCTAAAGGAC-CAAAATGACAATTA
1 GCTAAAGGACTCAAAATG-CAATTA
6396039 AACCATAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.21
Consensus pattern (24 bp):
GCTAAAGGACTCAAAATGCAATTA
Found at i:6398594 original size:16 final size:15
Alignment explanation
Indices: 6398575--6398608 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
6398565 TAATTCTAAA
6398575 AAAAATTAAAAATAAT
1 AAAAATTAAAAAT-AT
*
6398591 AAAAATTTAAAATAT
1 AAAAATTAAAAATAT
6398606 AAA
1 AAA
6398609 TTTCTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAATTAAAAATAT
Found at i:6401398 original size:13 final size:13
Alignment explanation
Indices: 6401380--6401404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6401370 TGGGCCTACA
6401380 TGCTTGTGTGGCT
1 TGCTTGTGTGGCT
6401393 TGCTTGTGTGGC
1 TGCTTGTGTGGC
6401405 CCCACACGCT
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:0.00, C:0.16, G:0.40, T:0.44
Consensus pattern (13 bp):
TGCTTGTGTGGCT
Found at i:6409942 original size:14 final size:14
Alignment explanation
Indices: 6409923--6409950 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6409913 TACAAAAACC
6409923 ACAATTTCAACGTT
1 ACAATTTCAACGTT
6409937 ACAATTTCAACGTT
1 ACAATTTCAACGTT
6409951 TAAGCAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
ACAATTTCAACGTT
Found at i:6411747 original size:8 final size:8
Alignment explanation
Indices: 6411734--6411760 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6411724 TATGTGTTTT
6411734 TTTTATAA
1 TTTTATAA
6411742 TTTTATAA
1 TTTTATAA
6411750 TTTTATAA
1 TTTTATAA
6411758 TTT
1 TTT
6411761 AGTCTTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTATAA
Found at i:6420240 original size:23 final size:23
Alignment explanation
Indices: 6420212--6420266 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
6420202 GCTATTTTAT
6420212 TGTTGTTTCGCAACTATTTATTA
1 TGTTGTTTCGCAACTATTTATTA
* * * *
6420235 TGTTGTTTTGTACCTGTTTATTA
1 TGTTGTTTCGCAACTATTTATTA
*
6420258 TATTGTTTC
1 TGTTGTTTC
6420267 ACTGTCGTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.16, C:0.11, G:0.15, T:0.58
Consensus pattern (23 bp):
TGTTGTTTCGCAACTATTTATTA
Found at i:6425444 original size:21 final size:21
Alignment explanation
Indices: 6425418--6425473 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
6425408 AACAGCGGTG
*
6425418 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
6425439 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
6425460 GCAGTGAAATTAGA
1 GCGGTGAGATTAGA
6425474 AACAGCGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:6428472 original size:6 final size:6
Alignment explanation
Indices: 6428461--6428522 Score: 106
Period size: 6 Copynumber: 10.2 Consensus size: 6
6428451 TTTGCAACCC
*
6428461 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG
6428509 AAGGGG AAAGGGG A
1 AAGGGG -AAGGGG A
6428523 GAAGAAGGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
6 47 0.89
7 6 0.11
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:6428529 original size:18 final size:18
Alignment explanation
Indices: 6428461--6428530 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
6428451 TTTGCAACCC
** *
6428461 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGAAGAAGGGG
**
6428479 AAGGGGAAGGGGAAGGGG
1 AAGGGGAAGAAGAAGGGG
**
6428497 AAGGGGAAGGGGAAGGGG
1 AAGGGGAAGAAGAAGGGG
6428515 AAAGGGG-AGAAGAAGG
1 -AAGGGGAAGAAGAAGG
6428531 TAACATACAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
18 42 0.88
19 6 0.12
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGAAGAAGGGG
Found at i:6436186 original size:21 final size:22
Alignment explanation
Indices: 6436157--6436203 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6436147 CAGAAGGAGT
*
6436157 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6436179 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6436200 GAGT
1 GAGT
6436204 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:6438933 original size:2 final size:2
Alignment explanation
Indices: 6438926--6438960 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6438916 ACCATCATTT
*
6438926 TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6438961 TTTTGCAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:6444178 original size:20 final size:20
Alignment explanation
Indices: 6444153--6444191 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6444143 TGGAGCAAGA
*
6444153 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
6444173 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
6444192 AGCATCGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:6444198 original size:20 final size:20
Alignment explanation
Indices: 6444155--6444203 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6444145 GAGCAAGAAT
* *
6444155 ATCGATACCTTAGGAAATAT
1 ATCGATACCTTAAGAAATAC
6444175 ATCGATACCTTAAGAAA-AGC
1 ATCGATACCTTAAGAAATA-C
6444195 ATCGATACC
1 ATCGATACC
6444204 AGATCGATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (20 bp):
ATCGATACCTTAAGAAATAC
Found at i:6445218 original size:24 final size:24
Alignment explanation
Indices: 6445191--6445238 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6445181 AAGTCTAGGT
6445191 ACATATAAGCATGTGAAGTGATAA
1 ACATATAAGCATGTGAAGTGATAA
6445215 ACATATAAGCATGTGAAGTGATAA
1 ACATATAAGCATGTGAAGTGATAA
6445239 GTAAATTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (24 bp):
ACATATAAGCATGTGAAGTGATAA
Found at i:6446534 original size:20 final size:20
Alignment explanation
Indices: 6446511--6446658 Score: 97
Period size: 20 Copynumber: 7.6 Consensus size: 20
6446501 AATTTTTTAT
*
6446511 CGATACAAAAATTTTTAACG
1 CGATACCAAAATTTTTAACG
* ** * *
6446531 CGATATCACTATTTCTAA-T
1 CGATACCAAAATTTTTAACG
*
6446550 CAATACC-AAATTTTTAAC-
1 CGATACCAAAATTTTTAACG
* *
6446568 TGATGCCAAAATTTTTAACG
1 CGATACCAAAATTTTTAACG
* * * *
6446588 AGATACCAATATTTCTAATG
1 CGATACCAAAATTTTTAACG
* * *
6446608 TGATACCAATATTTTTAACA
1 CGATACCAAAATTTTTAACG
* *
6446628 TGATACTAAAATTTTTAAC-
1 CGATACCAAAATTTTTAACG
*
6446647 CGACACCAAAAT
1 CGATACCAAAAT
6446659 AGCTAATGTG
Statistics
Matches: 97, Mismatches: 28, Indels: 7
0.73 0.21 0.05
Matches are distributed among these distances:
18 11 0.11
19 25 0.26
20 61 0.63
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (20 bp):
CGATACCAAAATTTTTAACG
Found at i:6446655 original size:59 final size:58
Alignment explanation
Indices: 6446497--6446676 Score: 195
Period size: 57 Copynumber: 3.1 Consensus size: 58
6446487 TAATGACAAG
* * * **
6446497 ACCAAATTTTTTA-TCGATACAAAAATTTTTAACGCGATATCACTATTTCTAAT-CAAT
1 ACCAAATTTTTAACT-GATACAAAAATTTTTAACGCGATACCAATATTTCTAATGTGAT
* * *
6446554 ACCAAATTTTTAACTGATGCCAAAATTTTTAACGAGATACCAATATTTCTAATGTGAT
1 ACCAAATTTTTAACTGATACAAAAATTTTTAACGCGATACCAATATTTCTAATGTGAT
* * * **
6446612 ACCAATATTTTTAACATGATACTAAAATTTTTAAC-CGACACCAAAATAGCTAATGTGAT
1 ACCAA-ATTTTTAAC-TGATACAAAAATTTTTAACGCGATACCAATATTTCTAATGTGAT
6446671 ACCAAA
1 ACCAAA
6446677 ATTTCTAGGC
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
57 45 0.43
58 9 0.09
59 33 0.32
60 17 0.16
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (58 bp):
ACCAAATTTTTAACTGATACAAAAATTTTTAACGCGATACCAATATTTCTAATGTGAT
Found at i:6446657 original size:19 final size:19
Alignment explanation
Indices: 6446552--6446658 Score: 99
Period size: 20 Copynumber: 5.5 Consensus size: 19
6446542 TTTCTAATCA
6446552 ATACC-AAATTTTTAACTG
1 ATACCAAAATTTTTAACTG
* *
6446570 ATGCCAAAATTTTTAACGAG
1 ATACCAAAATTTTTAAC-TG
* * *
6446590 ATACCAATATTTCTAATGTG
1 ATACCAAAATTTTTAA-CTG
*
6446610 ATACCAATATTTTTAACATG
1 ATACCAAAATTTTTAAC-TG
* *
6446630 ATACTAAAATTTTTAACCG
1 ATACCAAAATTTTTAACTG
*
6446649 ACACCAAAAT
1 ATACCAAAAT
6446659 AGCTAATGTG
Statistics
Matches: 71, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
18 4 0.06
19 20 0.28
20 47 0.66
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (19 bp):
ATACCAAAATTTTTAACTG
Found at i:6446805 original size:15 final size:15
Alignment explanation
Indices: 6446785--6446814 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6446775 TAAGGCACGT
6446785 GTATTTAATTGTTGA
1 GTATTTAATTGTTGA
6446800 GTATTTAATTGTTGA
1 GTATTTAATTGTTGA
6446815 TGCAACATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (15 bp):
GTATTTAATTGTTGA
Found at i:6446887 original size:28 final size:28
Alignment explanation
Indices: 6446857--6446910 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
6446847 AAATCATTTA
*
6446857 AAAAT-AATAAAA-TTATAAATTATAAAT
1 AAAATAAATAAAAGTT-TAAAATATAAAT
6446884 AAAATAAATAAAAGTTTAAAATATAAA
1 AAAATAAATAAAAGTTTAAAATATAAA
6446911 ATTTATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 17 0.71
29 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAATAAATAAAAGTTTAAAATATAAAT
Found at i:6448035 original size:17 final size:17
Alignment explanation
Indices: 6448010--6448048 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6448000 TAATCCAATA
* *
6448010 GTTGTATAAGATAAATT
1 GTTGAATAAAATAAATT
6448027 GTTGAATAAAATAAATT
1 GTTGAATAAAATAAATT
*
6448044 TTTGA
1 GTTGA
6448049 GCGAGGCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (17 bp):
GTTGAATAAAATAAATT
Found at i:6451950 original size:25 final size:25
Alignment explanation
Indices: 6451916--6451966 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
6451906 ATTATCATTA
6451916 AATATGATTGCATGTAAAGTGTTAT
1 AATATGATTGCATGTAAAGTGTTAT
** *
6451941 AATATGATTGTGTTTAAAGTGTTAT
1 AATATGATTGCATGTAAAGTGTTAT
6451966 A
1 A
6451967 TGAATGAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (25 bp):
AATATGATTGCATGTAAAGTGTTAT
Found at i:6459901 original size:192 final size:192
Alignment explanation
Indices: 6459570--6459960 Score: 547
Period size: 192 Copynumber: 2.0 Consensus size: 192
6459560 TGGCAGAGTG
* ** *
6459570 TGCTAATATGAGAAGATTAATGGATTAGGATGTGTATATTAATAAAATCAACCATTTTAGGTTGG
1 TGCTAATATGAGAAGATTAATGGATTAGGATGTGGATATTAATAAAATCAACCAACTTAGGCTGG
* *
6459635 TGGATTCTGACTGTGTTTATAATAGTGGATGAAGTTATAAAGAGAGCGAAAATTTTGGGATTTGT
66 TGGATTCTGACTGTGTTTATAAGAGTGGATGAAATTATAAAGAGAGCGAAAATTTTGGGATTTGT
** * *
6459700 TTACCATTGGGCACTGGTAATCTGTGATGGAAATAAGCATTTTTT-TGTATTCTAGTAGAGGA
131 CGACCATTGGGCACTGGTAATCTATGATGGAAATAAGC-TTTTTTAAGTATTCTAGTAGAGGA
* * * *
6459762 TGCTAATATGGGAAGATTAATGGATTAGGATGTGGATCTTAATAAGATTAACCAACTTAGGCTGG
1 TGCTAATATGAGAAGATTAATGGATTAGGATGTGGATATTAATAAAATCAACCAACTTAGGCTGG
*
6459827 TGGATTCTGACT-TTTCTTATAAGAGTGGATGAAATTATAAAGAGGGAG-GAAAA-TTTGGGATT
66 TGGATTCTGACTGTGT-TTATAAGAGTGGATGAAATTATAAAGA--GAGCGAAAATTTTGGGATT
* * *
6459889 TGTCGGCCATTGGGCACTGGTTATCTATGATGGAAATAAGCTTTTTTAAGTATTCTAGTAGGGGA
128 TGTCGACCATTGGGCACTGGTAATCTATGATGGAAATAAGCTTTTTTAAGTATTCTAGTAGAGGA
*
6459954 TACTAAT
1 TGCTAAT
6459961 GAACAAGTCA
Statistics
Matches: 176, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
191 8 0.05
192 160 0.91
193 5 0.03
194 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (192 bp):
TGCTAATATGAGAAGATTAATGGATTAGGATGTGGATATTAATAAAATCAACCAACTTAGGCTGG
TGGATTCTGACTGTGTTTATAAGAGTGGATGAAATTATAAAGAGAGCGAAAATTTTGGGATTTGT
CGACCATTGGGCACTGGTAATCTATGATGGAAATAAGCTTTTTTAAGTATTCTAGTAGAGGA
Found at i:6461532 original size:16 final size:16
Alignment explanation
Indices: 6461511--6461541 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6461501 TAATTGATTG
*
6461511 ATTTTTAGTTTAATTA
1 ATTTTTAGATTAATTA
6461527 ATTTTTAGATTAATT
1 ATTTTTAGATTAATT
6461542 GATGTTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
ATTTTTAGATTAATTA
Found at i:6466063 original size:12 final size:12
Alignment explanation
Indices: 6466046--6466070 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6466036 GTATATTTGA
6466046 ATTTTGGATTTT
1 ATTTTGGATTTT
6466058 ATTTTGGATTTT
1 ATTTTGGATTTT
6466070 A
1 A
6466071 ATTAGGATAG
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:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (12 bp):
ATTTTGGATTTT
Found at i:6480393 original size:17 final size:17
Alignment explanation
Indices: 6480371--6480407 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6480361 AAAAAACAAG
*
6480371 ATAACTCTTGACCTTTC
1 ATAACTCTTGACATTTC
*
6480388 ATAACTTTTGACATTTC
1 ATAACTCTTGACATTTC
6480405 ATA
1 ATA
6480408 TAACATAACT
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:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (17 bp):
ATAACTCTTGACATTTC
Found at i:6493040 original size:16 final size:16
Alignment explanation
Indices: 6493021--6493053 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6493011 AAATTTTAAA
6493021 TTTAATTTATTTCATT
1 TTTAATTTATTTCATT
6493037 TTTAATTTATTTCATT
1 TTTAATTTATTTCATT
6493053 T
1 T
6493054 CAATTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTAATTTATTTCATT
Found at i:6493043 original size:21 final size:22
Alignment explanation
Indices: 6493025--6493285 Score: 179
Period size: 22 Copynumber: 12.5 Consensus size: 22
6493015 TTTAAATTTA
6493025 ATTT-ATTTC-ATTTTTAATTT
1 ATTTCATTTCAATTTTTAATTT
6493045 ATTTCATTTCAA--TTT--TTT
1 ATTTCATTTCAATTTTTAATTT
*
6493063 GTTTCATTTCAATTTTT-ATTT
1 ATTTCATTTCAATTTTTAATTT
** *
6493084 ATTTCATTTCAATTTTTTGTTC
1 ATTTCATTTCAATTTTTAATTT
*
6493106 ATTTCATTTCAATTTTTAGTTT
1 ATTTCATTTCAATTTTTAATTT
*
6493128 CATTTCA-TT---TTTTTAGTTT
1 -ATTTCATTTCAATTTTTAATTT
*
6493147 ATTTCATTTC-A-TTTCAATTTTT
1 ATTTCATTTCAATTTTTAA--TTT
6493169 CATTTCATTTC-ATTTTTAATTT
1 -ATTTCATTTCAATTTTTAATTT
*
6493191 ATTTCAATTCAATTTTT-A---
1 ATTTCATTTCAATTTTTAATTT
*
6493209 GTTTCATTTC-ATTTTCTAATTT
1 ATTTCATTTCAATTTT-TAATTT
**
6493231 ATTTCATTT-AATTTCAAATTT
1 ATTTCATTTCAATTTTTAATTT
* *
6493252 CCATTACATTTC-CTTTTT-ATTT
1 --ATTTCATTTCAATTTTTAATTT
6493274 CATTTCATTTCA
1 -ATTTCATTTCA
6493286 TTTCATTTCA
Statistics
Matches: 196, Mismatches: 20, Indels: 48
0.74 0.08 0.18
Matches are distributed among these distances:
17 5 0.03
18 29 0.15
19 13 0.07
20 14 0.07
21 49 0.25
22 53 0.27
23 28 0.14
24 5 0.03
ACGTcount: A:0.23, C:0.13, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTCATTTCAATTTTTAATTT
Found at i:6493069 original size:18 final size:18
Alignment explanation
Indices: 6493046--6493152 Score: 108
Period size: 18 Copynumber: 5.6 Consensus size: 18
6493036 TTTTAATTTA
6493046 TTTCATTTCAATTTTTTG
1 TTTCATTTCAATTTTTTG
*
6493064 TTTCATTTCAATTTTTATTTA
1 TTTCATTTCAA--TTT-TTTG
6493085 TTTCATTTCAATTTTTTG
1 TTTCATTTCAATTTTTTG
*
6493103 TTCATTTCATTTCAATTTTTAG
1 ----TTTCATTTCAATTTTTTG
*
6493125 TTTCATTTCATTTTTTTAG
1 TTTCATTTCAATTTTTT-G
6493144 TTT-ATTTCA
1 TTTCATTTCA
6493153 TTTCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 16
0.78 0.05 0.16
Matches are distributed among these distances:
18 35 0.46
19 7 0.09
20 3 0.04
21 14 0.18
22 17 0.22
ACGTcount: A:0.20, C:0.11, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTCATTTCAATTTTTTG
Found at i:6493071 original size:23 final size:22
Alignment explanation
Indices: 6492985--6493357 Score: 149
Period size: 23 Copynumber: 16.8 Consensus size: 22
6492975 TTAAATAATA
6492985 AATTTATTTCATTTCATTTCAATTTT
1 AATTT-TTT-ATTTCATTTC-A-TTT
** *
6493011 AAATTTTAAATTTAATTT-ATTT
1 -AATTTTTTATTTCATTTCATTT
* *
6493033 CATTTTTAATTT-ATTTCATTT
1 AATTTTTTATTTCATTTCATTT
*
6493054 CAATTTTTTGTTTCATTTC----
1 -AATTTTTTATTTCATTTCATTT
6493073 AA-TTTTTATTT-ATTTCATTT
1 AATTTTTTATTTCATTTCATTT
*
6493093 CAATTTTTT-GTTCATTTCATTT
1 -AATTTTTTATTTCATTTCATTT
6493115 CAA-TTTTTAGTTTCATTTCATTT
1 -AATTTTTTA-TTTCATTTCATTT
*
6493138 -TTTTAGTTTATTTCATTTCATTT
1 AATTT--TTTATTTCATTTCATTT
*
6493161 CAATTTTTCATTTCATTTCATTT
1 -AATTTTTTATTTCATTTCATTT
* *
6493184 --TTAATTTATTTCA----ATTC
1 AATT-TTTTATTTCATTTCATTT
6493201 AATTTT-TAGTTTCATTTCATTT
1 AATTTTTTA-TTTCATTTCATTT
** ** *
6493223 TCTAATTTATTTCATTTAATTT
1 AATTTTTTATTTCATTTCATTT
* ** * *
6493245 CAAATTTCCATTACATTTCCTTTT
1 -AATTTTTTATTTCATTT-CATTT
*
6493269 TATTTCATTTCATTTCATTTCATTT
1 AATTT--TTT-ATTTCATTTCATTT
* *
6493294 CAA-TATTTAGTTTCACTTC-TTT
1 -AATTTTTTA-TTTCATTTCATTT
*
6493316 -TTTTATTTCATTTCATTTCATTT
1 AATTT-TTT-ATTTCATTTCATTT
*
6493339 CAATTTTTTGTTTCATTTC
1 -AATTTTTTATTTCATTTC
6493358 TTAATTATTA
Statistics
Matches: 259, Mismatches: 48, Indels: 82
0.67 0.12 0.21
Matches are distributed among these distances:
16 5 0.02
17 13 0.05
18 8 0.03
19 2 0.01
20 6 0.02
21 32 0.12
22 63 0.24
23 85 0.33
24 10 0.04
25 20 0.08
26 10 0.04
27 5 0.02
ACGTcount: A:0.23, C:0.13, G:0.02, T:0.62
Consensus pattern (22 bp):
AATTTTTTATTTCATTTCATTT
Found at i:6493236 original size:107 final size:105
Alignment explanation
Indices: 6493046--6493285 Score: 92
Period size: 107 Copynumber: 2.3 Consensus size: 105
6493036 TTTTAATTTA
* * * *
6493046 TTTCATTTCAA-TTTT--TTGTTTCATTTCAATTTTTA-TTTATTTCATTTCAATTTT-TTGTTC
1 TTTCATTTCAATTTTTATTTATTTCAATTCAATTTTTAGTTCATTTCATTTCAATTTTAGT-TTC
* * *
6493106 ATTTCATTTCAATTTTTAGTTTCATTTCATTT--TTTTAGTTTATTTCA
65 ATTT-AATT---TTTTTAGTTT-ATTT-ATTTCATTTCA-ATT-TTTCA
* * * * *
6493153 TTTCATTTCAA--TTT-TTCATTTCATTTC-ATTTTTAATTTATTTCAATTCAATTTTTAGTTTC
1 TTTCATTTCAATTTTTATTTATTTCAATTCAATTTTTAGTTCATTTCATTTCAA-TTTTAGTTTC
* * * * * *
6493214 ATTTCA-TTTTCTAATTTATTTCATTTAATTTCAAATTTCCA
65 ATTTAATTTTTTTAGTTTATTT-ATTTCATTTCAATTTTTCA
* * *
6493255 TTACATTTC-CTTTTTATTTCATTTCATTTCA
1 TTTCATTTCAATTTTTATTT-ATTTCAATTCA
6493286 TTTCATTTCA
Statistics
Matches: 107, Mismatches: 15, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
102 21 0.20
103 12 0.11
104 6 0.06
105 10 0.09
106 11 0.10
107 35 0.33
108 11 0.10
109 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.02, T:0.62
Consensus pattern (105 bp):
TTTCATTTCAATTTTTATTTATTTCAATTCAATTTTTAGTTCATTTCATTTCAATTTTAGTTTCA
TTTAATTTTTTTAGTTTATTTATTTCATTTCAATTTTTCA
Found at i:6493289 original size:44 final size:43
Alignment explanation
Indices: 6492991--6493357 Score: 213
Period size: 39 Copynumber: 8.3 Consensus size: 43
6492981 AATAAATTTA
* * *
6492991 TTTCATTTCATTTCAATTTTAAATTTTAAATTTAATTT-ATTTC-ATT
1 TTTCATTTCATTTC-ATTTT-TA-TTT--ATTTCATTTCATTTCAAAT
* ** *
6493037 TTTAATTT-ATTTCATTTCAATTT-TTT-GTTTCATTTC-AAT
1 TTTCATTTCATTTCATTTTTATTTATTTCATTTCATTTCAAAT
* ** *
6493076 TTTTATTT-ATTTCATTTCAATTTTTTGTTCATTTCATTTC-AAT
1 TTTCATTTCATTTCATTTTTA-TTTAT-TTCATTTCATTTCAAAT
* *
6493119 TTTTAGTTTCATTTCATTTTTTTAGTTTATTTCATTTCATTTCAATT
1 TTTCA-TTTCATTTCA--TTTTTA-TTTATTTCATTTCATTTCAAAT
*
6493166 TTTCATTTCATTTCATTTTTA---ATTT-ATTTCAATTC-AAT
1 TTTCATTTCATTTCATTTTTATTTATTTCATTTCATTTCAAAT
* *
6493204 TTTTAGTTTCATTTCATTTTCTAATTTATTTCATTTAATTTCAAAT
1 TTTCA-TTTCATTTCATTTT-T-ATTTATTTCATTTCATTTCAAAT
* * *
6493250 TTCCATTACATTTCCTTTTTATTTCATTTCATTTCATTTCATTTCAAT
1 TTTCATTTCATTTCATTTTTATTT-ATTTCATTTCATTTCA----AAT
* * *
6493298 ATTT-AGTTTCACTTCTTTTTTTATTTCATTTCATTTCATTTCAATT
1 -TTTCA-TTTCATTTC-ATTTTTATTT-ATTTCATTTCATTTCAAAT
**
6493344 TTTTGTTTCATTTC
1 TTTCATTTCATTTC
6493358 TTAATTATTA
Statistics
Matches: 265, Mismatches: 29, Indels: 55
0.76 0.08 0.16
Matches are distributed among these distances:
38 9 0.03
39 52 0.20
40 8 0.03
41 2 0.01
42 5 0.02
43 23 0.09
44 33 0.12
45 42 0.16
46 38 0.14
47 14 0.05
48 4 0.02
49 9 0.03
50 26 0.10
ACGTcount: A:0.23, C:0.13, G:0.02, T:0.63
Consensus pattern (43 bp):
TTTCATTTCATTTCATTTTTATTTATTTCATTTCATTTCAAAT
Found at i:6493330 original size:84 final size:84
Alignment explanation
Indices: 6493084--6493345 Score: 203
Period size: 89 Copynumber: 3.0 Consensus size: 84
6493074 ATTTTTATTT
* *
6493084 ATTTCATTTCAATTTT-TTGTTCATTTCATTTCAATTTTTAGTTTCATTTCATTTTTTTAGTTTA
1 ATTTCATTTC-ATTTTAAT-TTCATTTCATTTCAATTTTTAGTTTCACTTC-TTTTTTTA-TTTA
* *
6493148 TTTC-ATTTCATTTCAATTTTTC
62 TTTCAATTTCATTACAATTTTCC
* *
6493170 ATTTCATTTCATTTTTAATTT-ATTTCAATTCAATTTTTAGTTTCATTTCATTTTCTAATTTATT
1 ATTTCATTTCA-TTTTAATTTCATTTCATTTCAATTTTTAGTTTCACTTC--TTT-T--TTTATT
* *
6493234 TCATTT-AATTTCAAATTTCCATTACATTTCC
60 T-ATTTCAATTTC--A-TTACA--A-TTTTCC
* * * *
6493265 TTTTTATTTCA-TTTCATTTCATTTCATTTCAATATTTAGTTTCACTTCTTTTTTTATTTCATTT
1 ATTTCATTTCATTTTAATTTCATTTCATTTCAATTTTTAGTTTCACTTCTTTTTTTATTT-ATTT
*
6493329 C-ATTTCATTTCAATTTT
65 CAATTTCATTACAATTTT
6493346 TTGTTTCATT
Statistics
Matches: 146, Mismatches: 14, Indels: 35
0.75 0.07 0.18
Matches are distributed among these distances:
83 3 0.02
84 1 0.01
85 28 0.19
86 23 0.16
87 3 0.02
88 3 0.02
89 30 0.21
91 2 0.01
92 7 0.05
93 7 0.05
94 26 0.18
95 13 0.09
ACGTcount: A:0.22, C:0.14, G:0.02, T:0.62
Consensus pattern (84 bp):
ATTTCATTTCATTTTAATTTCATTTCATTTCAATTTTTAGTTTCACTTCTTTTTTTATTTATTTC
AATTTCATTACAATTTTCC
Found at i:6493357 original size:5 final size:5
Alignment explanation
Indices: 6493064--6493340 Score: 126
Period size: 5 Copynumber: 53.0 Consensus size: 5
6493054 CAATTTTTTG
* **
6493064 TTTCA TTTCAA TTTTTA TTT-A TTTCA TTTCAA TTTTT TGTTCA TTTCA
1 TTTCA TTTC-A -TTTCA TTTCA TTTCA TTTC-A TTTCA T-TTCA TTTCA
* *
6493112 TTTCAA TTTTTA GTTTCA TTTCA TTT-- TTTTA GTTT-A TTTCA TTTCA
1 TTTC-A -TTTCA -TTTCA TTTCA TTTCA TTTCA -TTTCA TTTCA TTTCA
* * *
6493158 TTTCA ATT-- TTTCA TTTCA TTTCA TTTTTAA TTT-A TTTCA ATTCAA
1 TTTCA TTTCA TTTCA TTTCA TTTCA --TTTCA TTTCA TTTCA TTTC-A
* *
6493203 TTTTTA GTTTCA TTTCA TTTTCTAA TTT-A TTTCA TTTAA TTTCAAA TTTCCA
1 -TTTCA -TTTCA TTTCA -TTTC--A TTTCA TTTCA TTTCA TTTC--A TTT-CA
* * * *
6493255 TTACA TTTCCT TTTTA TTTCA TTTCA TTTCA TTTCA TTTCAA TATTTA
1 TTTCA TTT-CA TTTCA TTTCA TTTCA TTTCA TTTCA TTTC-A T-TTCA
* *
6493303 GTTTCA CTTC- TTT-- TTTTA TTTCA TTTCA TTTCA TTTCA
1 -TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA
6493341 ATTTTTTGTT
Statistics
Matches: 212, Mismatches: 29, Indels: 62
0.70 0.10 0.20
Matches are distributed among these distances:
3 8 0.04
4 17 0.08
5 122 0.58
6 41 0.19
7 22 0.10
8 2 0.01
ACGTcount: A:0.22, C:0.14, G:0.02, T:0.62
Consensus pattern (5 bp):
TTTCA
Found at i:6493359 original size:45 final size:45
Alignment explanation
Indices: 6493064--6493357 Score: 290
Period size: 45 Copynumber: 6.6 Consensus size: 45
6493054 CAATTTTTTG
* *
6493064 TTTCATTTCAATTTTTA-TTT-ATTTCATTTCAATTT-TTT-GTTCA
1 TTTCATTTCAATTTTTAGTTTCATTTCATTT--TTTTATTTATTTCA
6493107 TTTCATTTCAATTTTTAGTTTCATTTCATTTTTTTAGTTTATTTCA
1 TTTCATTTCAATTTTTAGTTTCATTTCATTTTTTTA-TTTATTTCA
6493153 TTTCATTTCAATTTTTCA-TTTCATTTCA--TTTTTA---ATTT-A
1 TTTCATTTCAATTTTT-AGTTTCATTTCATTTTTTTATTTATTTCA
* * *
6493192 TTTCAATTCAATTTTTAGTTTCATTTCATTTTCTAATTTATTTCA
1 TTTCATTTCAATTTTTAGTTTCATTTCATTTTTTTATTTATTTCA
* ** * *
6493237 TTTAATTTCAAATTTCCA-TTACATTTCCTTTTTATTTCATTTCATTTCA
1 TTTCATTTC-AATTTTTAGTTTCATTT-CATTTT-TTT-ATTT-ATTTCA
* *
6493286 TTTCATTTCAATATTTAGTTTCACTTC-TTTTTTTATTTCATTTCA
1 TTTCATTTCAATTTTTAGTTTCATTTCATTTTTTTATTT-ATTTCA
*
6493331 TTTCATTTCAATTTTTTGTTTCATTTC
1 TTTCATTTCAATTTTTAGTTTCATTTC
6493358 TTAATTATTA
Statistics
Matches: 210, Mismatches: 22, Indels: 36
0.78 0.08 0.13
Matches are distributed among these distances:
38 1 0.00
39 26 0.12
40 4 0.02
41 4 0.02
43 20 0.10
44 13 0.06
45 62 0.30
46 44 0.21
47 6 0.03
48 10 0.05
49 20 0.10
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.63
Consensus pattern (45 bp):
TTTCATTTCAATTTTTAGTTTCATTTCATTTTTTTATTTATTTCA
Found at i:6493497 original size:25 final size:26
Alignment explanation
Indices: 6493462--6493520 Score: 93
Period size: 25 Copynumber: 2.3 Consensus size: 26
6493452 TTATTTACTT
6493462 AATTATTTTACACTATATAATAATCG
1 AATTATTTTACACTATATAATAATCG
*
6493488 AATT-TTTTACACTATATAATAATTG
1 AATTATTTTACACTATATAATAATCG
*
6493513 AATAATTT
1 AATTATTT
6493521 AAACAATACT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 23 0.77
26 7 0.23
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (26 bp):
AATTATTTTACACTATATAATAATCG
Found at i:6499659 original size:19 final size:20
Alignment explanation
Indices: 6499622--6499659 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
6499612 ATTCTAGTAA
* *
6499622 TAAAACTAATGACAGTAATC
1 TAAAACTAAAGACAATAATC
6499642 TAAAAC-AAAGACAATAAT
1 TAAAACTAAAGACAATAAT
6499660 ACTCATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.58, C:0.13, G:0.08, T:0.21
Consensus pattern (20 bp):
TAAAACTAAAGACAATAATC
Found at i:6501685 original size:50 final size:50
Alignment explanation
Indices: 6501612--6501804 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
6501602 ATTTGGGTAA
*
6501612 AGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACAAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAAAGATG
*
6501662 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAAAGATG
** * * * ** *
6501712 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAAAGATG
** *
6501762 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
6501805 TGTTATTATC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 92 0.74
51 33 0.26
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACAAAGATG
Found at i:6514988 original size:15 final size:15
Alignment explanation
Indices: 6514968--6515003 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
6514958 ATTAATTGTG
6514968 ATTAAAGTTTAATTA
1 ATTAAAGTTTAATTA
6514983 ATTAAAGTTTAATTA
1 ATTAAAGTTTAATTA
6514998 AGTTAA
1 A-TTAA
6515004 TTAAGTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (15 bp):
ATTAAAGTTTAATTA
Found at i:6515037 original size:29 final size:28
Alignment explanation
Indices: 6514981--6515037 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
6514971 AAAGTTTAAT
* *
6514981 TAATTAAAGTTTAATTAAGTTAATTAAG
1 TAATTAAAATTTAATTAAGTTAAATAAG
6515009 TAATTAAATATTTAATTAAAG-TAAATAAG
1 TAATTAAA-ATTTAATT-AAGTTAAATAAG
6515038 GCAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.32
29 14 0.56
30 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (28 bp):
TAATTAAAATTTAATTAAGTTAAATAAG
Found at i:6518582 original size:3 final size:3
Alignment explanation
Indices: 6518574--6518598 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6518564 CAACTAAACA
6518574 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
6518599 CAGAAGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6528252 original size:7 final size:7
Alignment explanation
Indices: 6528240--6528266 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6528230 ATAATCAAAA
6528240 TACTCAC
1 TACTCAC
6528247 TACTCAC
1 TACTCAC
6528254 TACTCAC
1 TACTCAC
6528261 TACTCA
1 TACTCA
6528267 GAGTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.41, G:0.00, T:0.30
Consensus pattern (7 bp):
TACTCAC
Found at i:6528608 original size:21 final size:21
Alignment explanation
Indices: 6528582--6528625 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
6528572 AGAAAAAGGG
*
6528582 GTTGTTGCTGCTGCTGTTGTT
1 GTTGTTGCTGCTGCTGCTGTT
6528603 GTTGTTGCTGCTGCTGCTGTT
1 GTTGTTGCTGCTGCTGCTGTT
6528624 GT
1 GT
6528626 GGAAACTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.16, G:0.34, T:0.50
Consensus pattern (21 bp):
GTTGTTGCTGCTGCTGCTGTT
Found at i:6529064 original size:29 final size:29
Alignment explanation
Indices: 6528977--6529071 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 29
6528967 TATTATCATT
6528977 CAACTATCAATTTTTTTAATTTGATCACC
1 CAACTATCAATTTTTTTAATTTGATCACC
* * *** **
6529006 TAATTATTGTCTTTTTTTCCTTTTTG-TCACC
1 CAACTA-TCAATTTTTTT--AATTTGATCACC
6529037 CAACTATCAATTTTTTTAATTTGATCACC
1 CAACTATCAATTTTTTTAATTTGATCACC
6529066 CAACTA
1 CAACTA
6529072 AACGATATAG
Statistics
Matches: 48, Mismatches: 14, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
28 4 0.08
29 15 0.31
30 16 0.33
31 9 0.19
32 4 0.08
ACGTcount: A:0.26, C:0.21, G:0.04, T:0.48
Consensus pattern (29 bp):
CAACTATCAATTTTTTTAATTTGATCACC
Found at i:6529249 original size:18 final size:18
Alignment explanation
Indices: 6529205--6529265 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
6529195 ATTCTAACAA
* *
6529205 ATATATAAAAATTAAAAT
1 ATATATAATAATTTAAAT
* *
6529223 ACATA-AATACTTTAAAT
1 ATATATAATAATTTAAAT
6529240 ATATATAATAAATTTAAA-
1 ATATATAAT-AATTTAAAT
6529258 ATATATAA
1 ATATATAA
6529266 AAATACCCCC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 13 0.37
18 15 0.43
19 7 0.20
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
ATATATAATAATTTAAAT
Found at i:6530862 original size:87 final size:86
Alignment explanation
Indices: 6530716--6530889 Score: 330
Period size: 87 Copynumber: 2.0 Consensus size: 86
6530706 GCCAGTAAAT
6530716 ATTTACAACTGTTTAGGCCTCAATCATTAGTCGAGGCACTTCATATTTCTAGACAGGTGGAAGAG
1 ATTTACAACTGTTTAGGCCTCAATCATTAGTCGAGGCACTTCATATTTCTAGACAGGTGGAAGAG
6530781 ATACTGAAACTCTTTCCCAAG
66 ATACTGAAACTCTTTCCCAAG
6530802 NATTTACAACTGTTTAGGCCTCAATCATTAGTCGAGGCACTTCATATTTCTAGACAGGTGGAAGA
1 -ATTTACAACTGTTTAGGCCTCAATCATTAGTCGAGGCACTTCATATTTCTAGACAGGTGGAAGA
*
6530867 GATACTTAAACTCTTTCCCAAG
65 GATACTGAAACTCTTTCCCAAG
6530889 A
1 A
6530890 GAGAGTTGTT
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
86 1 0.01
87 85 0.99
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (86 bp):
ATTTACAACTGTTTAGGCCTCAATCATTAGTCGAGGCACTTCATATTTCTAGACAGGTGGAAGAG
ATACTGAAACTCTTTCCCAAG
Found at i:6536358 original size:18 final size:18
Alignment explanation
Indices: 6536335--6536371 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6536325 TTAAAATTAT
*
6536335 AAAAATTCAAAACTATAA
1 AAAAATTCAAAAATATAA
*
6536353 AAAAATTTAAAAATATAA
1 AAAAATTCAAAAATATAA
6536371 A
1 A
6536372 TTATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATTCAAAAATATAA
Found at i:6536443 original size:14 final size:15
Alignment explanation
Indices: 6536424--6536463 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
6536414 AAAAAAATCA
*
6536424 AATTTTATATAT-TT
1 AATTTTATATATAAT
6536438 AATTTT-TAT-TAAT
1 AATTTTATATATAAT
6536451 AATTTTATATATA
1 AATTTTATATATA
6536464 TTCAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
12 1 0.05
13 10 0.45
14 9 0.41
15 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTTTATATATAAT
Found at i:6538990 original size:15 final size:15
Alignment explanation
Indices: 6538970--6539023 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
6538960 TATTTAATGA
*
6538970 ATGTATTTAGAGTAG
1 ATGTATTTAGAATAG
* *
6538985 ATGTATCTAGTTTAATAA
1 ATGTATTTAG---AATAG
6539003 ATGTATTTAGAATAG
1 ATGTATTTAGAATAG
6539018 ATGTAT
1 ATGTAT
6539024 CTAGTAGTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 19 0.61
18 12 0.39
ACGTcount: A:0.37, C:0.02, G:0.19, T:0.43
Consensus pattern (15 bp):
ATGTATTTAGAATAG
Found at i:6538999 original size:33 final size:33
Alignment explanation
Indices: 6538962--6539028 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
6538952 TGTACTTTTA
* *
6538962 TTTAATGAATGTATTTAGAGTAGATGTATCTAG
1 TTTAATAAATGTATTTAGAATAGATGTATCTAG
6538995 TTTAATAAATGTATTTAGAATAGATGTATCTAG
1 TTTAATAAATGTATTTAGAATAGATGTATCTAG
6539028 T
1 T
6539029 AGTCATGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (33 bp):
TTTAATAAATGTATTTAGAATAGATGTATCTAG
Found at i:6545236 original size:87 final size:87
Alignment explanation
Indices: 6545076--6545251 Score: 271
Period size: 87 Copynumber: 2.0 Consensus size: 87
6545066 TTACAGAAAA
* * * * *
6545076 AGAATGTCTGGTTAGGACTACATAAAGCGAGAGAGACCATAGGGACTAGCAGATGAGGAAGTTTG
1 AGAATGTCTAGTTAGGACTACATAAAGCGAGAGAGACCATAGGGACTAGCAAACGAGAAAGTCTG
* *
6545141 CTGTGGACTACCTTAGGTAAAG
66 CTGAGGACTACCTTACGTAAAG
*
6545163 AGAATGTCTAGTTAGGACTACATAAAGCGAGAGAGACGATAGGGACTAGCAAACGAGAAAGTCTG
1 AGAATGTCTAGTTAGGACTACATAAAGCGAGAGAGACCATAGGGACTAGCAAACGAGAAAGTCTG
*
6545228 GTGAGGACTACCTTACGTAAAG
66 CTGAGGACTACCTTACGTAAAG
6545250 AG
1 AG
6545252 TCAGCTAGAA
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (87 bp):
AGAATGTCTAGTTAGGACTACATAAAGCGAGAGAGACCATAGGGACTAGCAAACGAGAAAGTCTG
CTGAGGACTACCTTACGTAAAG
Found at i:6558419 original size:22 final size:23
Alignment explanation
Indices: 6558388--6558431 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
6558378 TTCGAATGCC
*
6558388 CACACGGCCTGG-AACACGGGCT
1 CACACAGCCTGGCAACACGGGCT
*
6558410 CACACAGCCTGGCCACACGGGC
1 CACACAGCCTGGCAACACGGGC
6558432 ATGTGTCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.23, C:0.41, G:0.30, T:0.07
Consensus pattern (23 bp):
CACACAGCCTGGCAACACGGGCT
Found at i:6561152 original size:67 final size:68
Alignment explanation
Indices: 6560988--6561203 Score: 251
Period size: 67 Copynumber: 3.2 Consensus size: 68
6560978 GGAAGTCTGT
* * * *
6560988 CAGGATAATAAACTTGGGGTTATATTGTGTAAGACCATAATTGGGCTATTG-CAACAAAATGAAT
1 CAGGACAATAAAC-AGGGGTTATATTGTGTAAGACCATAGTTGGGCTA-TGACAACAAAATGAAG
*
6561052 TCCTC
64 TCCAC
* * *
6561057 CAAGACAATAAACATGGGTTATATTGTGTAAGACCATAGTTGGGCTATGACAA-TAAATGAAGTC
1 CAGGACAATAAACAGGGGTTATATTGTGTAAGACCATAGTTGGGCTATGACAACAAAATGAAGTC
6561121 CAC
66 CAC
* * * *
6561124 TAGGACAATAAACAGGGGTTATATTGTGTAGGATCATAGTTGGGCTATGAC-AGAAAATGGAA-T
1 CAGGACAATAAACAGGGGTTATATTGTGTAAGACCATAGTTGGGCTATGACAACAAAAT-GAAGT
*
6561187 CCGC
65 CCAC
*
6561191 CAGGACAGTAAAC
1 CAGGACAATAAAC
6561204 CGAAAAGCCT
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
66 1 0.01
67 78 0.61
68 37 0.29
69 11 0.09
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (68 bp):
CAGGACAATAAACAGGGGTTATATTGTGTAAGACCATAGTTGGGCTATGACAACAAAATGAAGTC
CAC
Found at i:6563834 original size:32 final size:33
Alignment explanation
Indices: 6563773--6563835 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
6563763 TGTACTTGTA
* *
6563773 TTTAATGAATGTATTTAGAGTAGATGTATCTAG
1 TTTAATGAATGTATTTAAAGTAGACGTATCTAG
6563806 TTTAATGAATGT-TTTAAAGTAGACGTATCT
1 TTTAATGAATGTATTTAAAGTAGACGTATCT
6563836 TAGTCATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (33 bp):
TTTAATGAATGTATTTAAAGTAGACGTATCTAG
Found at i:6566581 original size:14 final size:15
Alignment explanation
Indices: 6566562--6566590 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6566552 ATTTTAAGAT
6566562 AAAAACAAAA-AAAA
1 AAAAACAAAACAAAA
6566576 AAAAACAAAACAAAA
1 AAAAACAAAACAAAA
6566591 TACTCATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACAAAACAAAA
Found at i:6570282 original size:31 final size:30
Alignment explanation
Indices: 6570247--6570304 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
6570237 AACAACTAAG
*
6570247 TGACTTAAATAAAAACTTTCGAATAATTTAA
1 TGAC-TAAATAAAAACTTTCAAATAATTTAA
* * *
6570278 TGACTATATGAAAATTTTCAAATAATT
1 TGACTAAATAAAAACTTTCAAATAATT
6570305 CTATGCTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (30 bp):
TGACTAAATAAAAACTTTCAAATAATTTAA
Found at i:6570989 original size:17 final size:17
Alignment explanation
Indices: 6570967--6571001 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6570957 ATTACAAAAC
6570967 CAAATCTTACT-AGATTA
1 CAAATCTT-CTAAGATTA
6570984 CAAATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
6571001 C
1 C
6571002 TTTCCCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:6573980 original size:39 final size:40
Alignment explanation
Indices: 6573885--6574146 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
6573875 TTGAATGATG
*
6573885 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
6573923 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
6573964 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
6574003 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
6574042 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
6574081 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
6574120 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
6574147 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:6585676 original size:18 final size:18
Alignment explanation
Indices: 6585649--6585687 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6585639 GGGCGATTCT
6585649 TAAGAGAGAACATGCCAC
1 TAAGAGAGAACATGCCAC
*
6585667 TAAGATAGAACATGCCAC
1 TAAGAGAGAACATGCCAC
6585685 TAA
1 TAA
6585688 AGCGATCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (18 bp):
TAAGAGAGAACATGCCAC
Found at i:6587871 original size:50 final size:50
Alignment explanation
Indices: 6587793--6587985 Score: 244
Period size: 50 Copynumber: 3.8 Consensus size: 50
6587783 ATTTGGGTAA
6587793 AGAGGT-CCATTGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCA-TGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
* * *
6587843 AGAGGTCTCATGTAAGACCATGTTTGGGACATGGCGTTGGCACTAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
** * * * * *
6587893 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
** *
6587943 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
6587986 TATTATTATC
Statistics
Matches: 121, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
50 86 0.71
51 35 0.29
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
Found at i:6589014 original size:402 final size:402
Alignment explanation
Indices: 6588270--6589073 Score: 1599
Period size: 402 Copynumber: 2.0 Consensus size: 402
6588260 TTACTTGTGT
6588270 TAAATGTTGTTATTTACTTGCTAGTAAACTTACTAAGCTTTATGCTTACTTCTTTTATTTTTATT
1 TAAATGTTGTTATTTACTTGCTAGTAAACTTACTAAGCTTTATGCTTACTTCTTTTATTTTTATT
6588335 TCTCTTATAGTATTGTAAAGCTACTTTTGGGAACTTAAAGACGTCGGAGATCGTTCACACTATCA
66 TCTCTTATAGTATTGTAAAGCTACTTTTGGGAACTTAAAGACGTCGGAGATCGTTCACACTATCA
*
6588400 ACGACAACAACTCGGTATTTTATGATGAACCATGTTTGGGTTATGGGATGTATAGGGACTTAGTT
131 ACGACAACAACTCGGTATTTTATGATGAACCATGTTTGGGTTATGGCATGTATAGGGACTTAGTT
6588465 ATTTTGAATGTTTGTATTTATGATTTTGCTAAAGAATGATATGTAATTATTTGATGATGAATGGT
196 ATTTTGAATGTTTGTATTTATGATTTTGCTAAAGAATGATATGTAATTATTTGATGATGAATGGT
6588530 TGTTAAAATGGCTAGGTATGAAGGTGTTTGTTGTTACAAATGTTTGGGTGATAAATCATGCATAG
261 TGTTAAAATGGCTAGGTATGAAGGTGTTTGTTGTTACAAATGTTTGGGTGATAAATCATGCATAG
6588595 AAATCATGAAAGAGTAAAATTACAAAGAAACAGATTTCAAGCAGCAACAGTGATGTGAATTTGAA
326 AAATCATGAAAGAGTAAAATTACAAAGAAACAGATTTCAAGCAGCAACAGTGATGTGAATTTGAA
6588660 AAATCACCTAGG
391 AAATCACCTAGG
6588672 TAAATGTTGTTATTTACTTGCTAGTAAACTTACTAAGCTTTATGCTTACTTCTTTTATTTTTATT
1 TAAATGTTGTTATTTACTTGCTAGTAAACTTACTAAGCTTTATGCTTACTTCTTTTATTTTTATT
6588737 TCTCTTATAGTATTGTAAAGCTACTTTTGGGAACTTAAAGACGTCGGAGATCGTTCACACTATCA
66 TCTCTTATAGTATTGTAAAGCTACTTTTGGGAACTTAAAGACGTCGGAGATCGTTCACACTATCA
6588802 ACGACAACAACTCGGTATTTTATGATGAACCATGTTTGGGTTATGGCATGTATAGGGACTTAGTT
131 ACGACAACAACTCGGTATTTTATGATGAACCATGTTTGGGTTATGGCATGTATAGGGACTTAGTT
6588867 ATTTTGAATGTTTGTATTTATGATTTTGCTAAAGAATGATATGTAATTATTTGATGATGAATGGT
196 ATTTTGAATGTTTGTATTTATGATTTTGCTAAAGAATGATATGTAATTATTTGATGATGAATGGT
6588932 TGTTAAAATGGCTAGGTATGAAGGTGTTTGTTGTTACAAATGTTTGGGTGATAAATCATGCATAG
261 TGTTAAAATGGCTAGGTATGAAGGTGTTTGTTGTTACAAATGTTTGGGTGATAAATCATGCATAG
6588997 AAATCATGAAAGAGTAAAATTACAAAGAAACAGATTTCAAGCAGCAACAGTGATGTGAATTTGAA
326 AAATCATGAAAGAGTAAAATTACAAAGAAACAGATTTCAAGCAGCAACAGTGATGTGAATTTGAA
6589062 AAATCACCTAGG
391 AAATCACCTAGG
6589074 ATAGTATAAA
Statistics
Matches: 401, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
402 401 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (402 bp):
TAAATGTTGTTATTTACTTGCTAGTAAACTTACTAAGCTTTATGCTTACTTCTTTTATTTTTATT
TCTCTTATAGTATTGTAAAGCTACTTTTGGGAACTTAAAGACGTCGGAGATCGTTCACACTATCA
ACGACAACAACTCGGTATTTTATGATGAACCATGTTTGGGTTATGGCATGTATAGGGACTTAGTT
ATTTTGAATGTTTGTATTTATGATTTTGCTAAAGAATGATATGTAATTATTTGATGATGAATGGT
TGTTAAAATGGCTAGGTATGAAGGTGTTTGTTGTTACAAATGTTTGGGTGATAAATCATGCATAG
AAATCATGAAAGAGTAAAATTACAAAGAAACAGATTTCAAGCAGCAACAGTGATGTGAATTTGAA
AAATCACCTAGG
Found at i:6593704 original size:43 final size:42
Alignment explanation
Indices: 6593629--6593817 Score: 180
Period size: 43 Copynumber: 4.4 Consensus size: 42
6593619 GCGGTGCTCT
* * * * *
6593629 ACAAACGCCGCTATAGATCAGGATCTTTAGCGGCGCTATTACC
1 ACAAACGCCACTAAAAATCAAGACCTTTAGCGGCGCTATT-CC
* * *
6593672 ACTAACGCCACTAAAAATCAAGACCTTCAGCGGCGCTTTTCCC
1 ACAAACGCCACTAAAAATCAAGACCTTTAGCGGCGCTATT-CC
* * *
6593715 ACAAACGCCGCTAAATATCAAGACCTTTAGCGGCACTTATTCC
1 ACAAACGCCACTAAAAATCAAGACCTTTAGCGGCGC-TATTCC
* * * * * *
6593758 ACAAACGTCACTGAAGATCAAGACCTTTAGCGACGCTTCTTGC
1 ACAAACGCCACTAAAAATCAAGACCTTTAGCGGCGC-TATTCC
*
6593801 AAAAACGCCACTAAAAA
1 ACAAACGCCACTAAAAA
6593818 CATAACATTT
Statistics
Matches: 118, Mismatches: 27, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
43 115 0.97
44 3 0.03
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (42 bp):
ACAAACGCCACTAAAAATCAAGACCTTTAGCGGCGCTATTCC
Found at i:6593778 original size:86 final size:86
Alignment explanation
Indices: 6593629--6593795 Score: 219
Period size: 86 Copynumber: 1.9 Consensus size: 86
6593619 GCGGTGCTCT
* * * * *
6593629 ACAAACGCCGCTATAGATCAGGATCTTTAGCGGCGCTATTACCACTAACGCCACTAAAAATCAAG
1 ACAAACGCCGCTAAAGATCAAGACCTTTAGCGGCACTATTACCACAAACGCCACTAAAAATCAAG
*
6593694 ACCTTCAGCGGCGCTTTTCCC
66 ACCTTCAGCGACGCTTTTCCC
* * * *
6593715 ACAAACGCCGCTAAATATCAAGACCTTTAGCGGCACTTATT-CCACAAACGTCACTGAAGATCAA
1 ACAAACGCCGCTAAAGATCAAGACCTTTAGCGGCAC-TATTACCACAAACGCCACTAAAAATCAA
*
6593779 GACCTTTAGCGACGCTT
65 GACCTTCAGCGACGCTT
6593796 CTTGCAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
86 65 0.94
87 4 0.06
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (86 bp):
ACAAACGCCGCTAAAGATCAAGACCTTTAGCGGCACTATTACCACAAACGCCACTAAAAATCAAG
ACCTTCAGCGACGCTTTTCCC
Found at i:6593807 original size:86 final size:86
Alignment explanation
Indices: 6593631--6593815 Score: 212
Period size: 86 Copynumber: 2.2 Consensus size: 86
6593621 GGTGCTCTAC
* * * * *
6593631 AAACGCCGCTATAGATCAGGATCTTTAGCGGCGCTATTACCACTAACGCCACTAAAAATCAAGAC
1 AAACGCCGCTAAAGATCAAGACCTTTAGCGGCACTATTACCACAAACGCCACTAAAAATCAAGAC
* *
6593696 CTTCAGCGGCGCTTTTCCCAC
66 CTTCAGCGACGCTTTTCCCAA
* * * *
6593717 AAACGCCGCTAAATATCAAGACCTTTAGCGGCACTTATT-CCACAAACGTCACTGAAGATCAAGA
1 AAACGCCGCTAAAGATCAAGACCTTTAGCGGCAC-TATTACCACAAACGCCACTAAAAATCAAGA
* *
6593781 CCTTTAGCGACGCTTCTT-GCAA
65 CCTTCAGCGACGCTT-TTCCCAA
*
6593803 AAACGCCACTAAA
1 AAACGCCGCTAAA
6593816 AACATAACAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
86 77 0.93
87 6 0.07
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCAAGACCTTTAGCGGCACTATTACCACAAACGCCACTAAAAATCAAGAC
CTTCAGCGACGCTTTTCCCAA
Found at i:6597598 original size:13 final size:13
Alignment explanation
Indices: 6597580--6597606 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6597570 ATTGTCAATC
6597580 TGTTACATTAATT
1 TGTTACATTAATT
6597593 TGTTACATTAATT
1 TGTTACATTAATT
6597606 T
1 T
6597607 ATTTATCAAT
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:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTTACATTAATT
Found at i:6609331 original size:25 final size:25
Alignment explanation
Indices: 6609303--6609377 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
6609293 TTAATAAAAT
6609303 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAATTATTG
* *
6609328 ATT--AGTCCTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAAT-TATTG
6609351 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAATTATTG
6609376 AT
1 AT
6609378 GTAATTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
23 18 0.43
24 4 0.10
25 20 0.48
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.51
Consensus pattern (25 bp):
ATTAAAGTCCTTATTTTAATTATTG
Found at i:6609338 original size:23 final size:24
Alignment explanation
Indices: 6609307--6609377 Score: 92
Period size: 23 Copynumber: 3.0 Consensus size: 24
6609297 TAAAATATTA
6609307 AAGTCCTTATTTTAATTATTGATT
1 AAGTCCTTATTTTAATTATTGATT
* *
6609331 -AGTCCTTATTTTAATAAAAT-ATT
1 AAGTCCTTATTTTAAT-TATTGATT
6609354 AAAGTCCTTATTTTAATTATTGAT
1 -AAGTCCTTATTTTAATTATTGAT
6609378 GTAATTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 18 0.46
24 4 0.10
25 17 0.44
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
AAGTCCTTATTTTAATTATTGATT
Found at i:6610589 original size:29 final size:26
Alignment explanation
Indices: 6610556--6610620 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 26
6610546 TGACTAACAT
6610556 AAACAAATTCAATTTCCAGCAGACAATC
1 AAACAAA--CAATTTCCAGCAGACAATC
6610584 --A-AAACAATTTCCAGCAGACAATC
1 AAACAAACAATTTCCAGCAGACAATC
6610607 --A-AAACAATTTCCAG
1 AAACAAACAATTTCCAG
6610621 AACAAATCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
23 33 0.89
25 3 0.08
26 1 0.03
ACGTcount: A:0.48, C:0.25, G:0.08, T:0.20
Consensus pattern (26 bp):
AAACAAACAATTTCCAGCAGACAATC
Found at i:6610591 original size:23 final size:23
Alignment explanation
Indices: 6610565--6610637 Score: 114
Period size: 23 Copynumber: 3.2 Consensus size: 23
6610555 TAAACAAATT
6610565 CAATTTCCAGCAGACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
6610588 CAATTTCCAGCAGACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
6610611 CAATTTCCAG-A-ACAAATCAAGAA
1 CAATTTCCAGCAGAC-AATCAA-AA
6610634 CAAT
1 CAAT
6610638 ATCAAAACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.04
22 7 0.15
23 39 0.81
ACGTcount: A:0.49, C:0.25, G:0.08, T:0.18
Consensus pattern (23 bp):
CAATTTCCAGCAGACAATCAAAA
Found at i:6610646 original size:22 final size:22
Alignment explanation
Indices: 6610580--6610649 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
6610570 TCCAGCAGAC
* *
6610580 AATCAAAACAATTTCCAGCAGAC-
1 AATCAAAACAATATCCA--AAACA
* *
6610603 AATCAAAACAATTTCCAGAACA
1 AATCAAAACAATATCCAAAACA
6610625 AATCAAGAACAATAT-CAAAACA
1 AATCAA-AACAATATCCAAAACA
6610647 AAT
1 AAT
6610650 GCAACCATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 2 0.05
22 15 0.37
23 24 0.59
ACGTcount: A:0.56, C:0.21, G:0.06, T:0.17
Consensus pattern (22 bp):
AATCAAAACAATATCCAAAACA
Found at i:6611057 original size:77 final size:77
Alignment explanation
Indices: 6610965--6611119 Score: 301
Period size: 77 Copynumber: 2.0 Consensus size: 77
6610955 CTGAAGCCAA
6610965 CGAATTTTGACATCTAAGCTAAGGGATCAAAGATTAGATCCATTTTGTCCACTGCTTTTGAGACC
1 CGAATTTTGACATCTAAGCTAAGGGATCAAAGATTAGATCCATTTTGTCCACTGCTTTTGAGACC
6611030 ATGCATGTAATG
66 ATGCATGTAATG
*
6611042 CGAATTTTGACATCTAAGCTAAGTGATCAAAGATTAGATCCATTTTGTCCACTGCTTTTGAGACC
1 CGAATTTTGACATCTAAGCTAAGGGATCAAAGATTAGATCCATTTTGTCCACTGCTTTTGAGACC
6611107 ATGCATGTAATG
66 ATGCATGTAATG
6611119 C
1 C
6611120 ATGTATAACT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (77 bp):
CGAATTTTGACATCTAAGCTAAGGGATCAAAGATTAGATCCATTTTGTCCACTGCTTTTGAGACC
ATGCATGTAATG
Found at i:6611444 original size:17 final size:17
Alignment explanation
Indices: 6611422--6611459 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
6611412 TGACTCAAAG
6611422 GAAAATAAACAGCAATA
1 GAAAATAAACAGCAATA
6611439 GAAAATAAACAGCAATA
1 GAAAATAAACAGCAATA
6611456 GAAA
1 GAAA
6611460 CATGCAATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.66, C:0.11, G:0.13, T:0.11
Consensus pattern (17 bp):
GAAAATAAACAGCAATA
Found at i:6612615 original size:9 final size:9
Alignment explanation
Indices: 6612589--6612624 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
6612579 ATTGAATTGT
6612589 AATTAATATA
1 AATTAA-ATA
6612599 AA-TAAATA
1 AATTAAATA
6612607 AATTAAATA
1 AATTAAATA
6612616 AATTAAATA
1 AATTAAATA
6612625 GACAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 5 0.20
9 18 0.72
10 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATTAAATA
Found at i:6612762 original size:74 final size:73
Alignment explanation
Indices: 6612634--6612797 Score: 231
Period size: 74 Copynumber: 2.2 Consensus size: 73
6612624 AGACAAATTA
* * *
6612634 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACAGCGTCGTTGGGTTTAGGTTATTTTGCG
1 TTAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAACAGCGTCATTGGGCTTAGGTTATTTTGCG
6612699 GCGCTTTC
66 GCGCTTTC
* *
6612707 TTAAAAACGCCGCTAAATCCCCCAAAAGCTCAGAAAAC-GACGTCATTGGGCTTAGGTTTTTTTG
1 TTAAAAACGCCGCTAAAT-CCCCAAAAGCTCAAAAAACAG-CGTCATTGGGCTTAGGTTATTTTG
6612771 CGGCGCTTTC
64 CGGCGCTTTC
** *
6612781 CCAAAAATGCCGCTAAA
1 TTAAAAACGCCGCTAAA
6612798 GCCCTGAGCA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
73 19 0.23
74 62 0.77
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (73 bp):
TTAAAAACGCCGCTAAATCCCCAAAAGCTCAAAAAACAGCGTCATTGGGCTTAGGTTATTTTGCG
GCGCTTTC
Found at i:6613170 original size:114 final size:114
Alignment explanation
Indices: 6612969--6613541 Score: 672
Period size: 114 Copynumber: 5.1 Consensus size: 114
6612959 CGAAAGCTCA
* * * * * * *
6612969 GTTGGGCTTTGATTTTTTTGCGGAGCTTTCCCAAAAACGCCGCTAAAGCCCTCAGCATTAGTGGT
1 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGGC
* *
6613034 GCTTTCTTAAAAACACCACTAAATCCCCGAAAGCTCAGAAAACGACGTC
66 GCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTC
* * * * *
6613083 GTTGGGCTTAGGTTTTTTTACGGCGCTTTCCCAAAAATGTCGCTAAAGTCTTGAGCATTAGCCGC
1 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGGC
* *
6613148 GCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGACGTC
66 GCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTC
* * *
6613197 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAATGTCGCTAAA-TCCCTGAGCATTAGCGG
1 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGT-CCTGAGCATTAGCGG
*
6613261 CGCTTTCTTAAAAACGCCACTAAAT-CCC-----CT--G-AAA-G-C-TC
65 CGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTC
* * * *
6613299 AGTTGGGCTTTGATTTTTTTACGGCGCTTTCCCAAAAACACCGCTAAAG-CCTTGAGCATTAGCG
1 -GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGTCC-TGAGCATTAGCG
* * * * *
6613363 GCGCTTTCTTAAAAACGCCGTTAAATCTCCAAAAGCTCAGAAAACGGCATC
64 GCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTC
* *
6613414 GTTGGGCTTAGGTTTTTTTGCGGCGGTTTCTCAAAAACGCCGCTAAA-TCCCTGAGCATTAGCGG
1 GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGT-CCTGAGCATTAGCGG
* ** * * *
6613478 TGCTTTCTTAAAATTGCCGCTAAATCCCCTAAAGCTCAAAAAACGGCGTC
65 CGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTC
6613528 GTTGGGCTTAGGTT
1 GTTGGGCTTAGGTT
6613542 GTAAAGCGCC
Statistics
Matches: 395, Mismatches: 46, Indels: 36
0.83 0.10 0.08
Matches are distributed among these distances:
102 4 0.01
103 77 0.19
104 3 0.01
105 3 0.01
106 1 0.00
108 2 0.01
109 2 0.01
111 1 0.00
112 3 0.01
113 5 0.01
114 290 0.73
115 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (114 bp):
GTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGGC
GCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTC
Found at i:6613306 original size:217 final size:216
Alignment explanation
Indices: 6613083--6613515 Score: 668
Period size: 217 Copynumber: 2.0 Consensus size: 216
6613073 AAACGACGTC
* *** *
6613083 GTTGGGCTTAGGTTTTTTTACGGCGCTTTCCCAAAAATGTCGCTAAAGTCTTGAGCATTAGCCGC
1 GTTGGGCTTAGATTTTTTTACGGCGCTTTCCCAAAAACACCGCTAAAGCCTTGAGCATTAGCCGC
* * *
6613148 GCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAATGACGTCGTTGGGCTTAGGTTTT
66 GCTTTATTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACATCGTTGGGCTTAGGTTTT
* *
6613213 TTTGCGGCGCTTTCTCAAAAATGTCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGC
131 TTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGC
6613278 CACTAAATCCCCTGAAAGCTCA
196 CACTAAATCCCCT-AAAGCTCA
* *
6613300 GTTGGGCTTTGATTTTTTTACGGCGCTTTCCCAAAAACACCGCTAAAGCCTTGAGCATTAGCGGC
1 GTTGGGCTTAGATTTTTTTACGGCGCTTTCCCAAAAACACCGCTAAAGCCTTGAGCATTAGCCGC
* * * *
6613365 GCTTTCTTAAAAACGCCGTTAAATCTCCAAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTT
66 GCTTTATTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACATCGTTGGGCTTAGGTTTT
* * **
6613430 TTTGCGGCGGTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGTGCTTTCTTAAAATTGC
131 TTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGC
*
6613495 CGCTAAATCCCCTAAAGCTCA
196 CACTAAATCCCCTAAAGCTCA
6613516 AAAAACGGCG
Statistics
Matches: 195, Mismatches: 21, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
216 8 0.04
217 187 0.96
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (216 bp):
GTTGGGCTTAGATTTTTTTACGGCGCTTTCCCAAAAACACCGCTAAAGCCTTGAGCATTAGCCGC
GCTTTATTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACATCGTTGGGCTTAGGTTTT
TTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGC
CACTAAATCCCCTAAAGCTCA
Found at i:6613360 original size:331 final size:331
Alignment explanation
Indices: 6612696--6613541 Score: 1298
Period size: 331 Copynumber: 2.5 Consensus size: 331
6612686 AGGTTATTTT
*
6612696 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAAGCTCAGAAAACGACGTCATTGGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAT-CCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTA
*
6612761 GGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAA
65 GGTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGTCCTGAGCATTAGCGGCGCTTTCTTAA
* * * *
6612826 AAACGCCGCTAAATCCCTGAAAGCTTAGAAAACGATGTCGTTGGGCTTAGGTTTTTTTTGCGGTG
130 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGG-TTTTTTTGCGGCG
*
6612891 CTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAAAGCCGCTAAATC
194 CTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAAAGCCACTAAATC
* *
6612956 CCCCGAAAGCTCAGTTGGGCTTTGATTTTTTTGCGGAGCTTTCCCAAAAACGCCGCTAAAGCCCT
259 CCCCGAAAGCTCAGTTGGGCTTTGATTTTTTTACGGAGCTTTCCCAAAAACACCGCTAAAGCCCT
6613021 CAGCATTA
324 CAGCATTA
* * * * *
6613029 GTGGTGCTTTCTTAAAAACACCACTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
* * * * *
6613094 GTTTTTTTACGGCGCTTTCCCAAAAATGTCGCTAAAGTCTTGAGCATTAGCCGCGCTTTATTAAA
66 GTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGTCCTGAGCATTAGCGGCGCTTTCTTAAA
*
6613159 AACGCCGCTAAATCCCCGAAAGCTCAGAAAATGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCT
131 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCT
* * *
6613224 TTCTCAAAAATGTCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCACTAAATCCC
196 TTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAAAGCCACTAAATCCC
* * * *
6613289 CTGAAAGCTCAGTTGGGCTTTGATTTTTTTACGGCGCTTTCCCAAAAACACCGCTAAAGCCTTGA
261 CCGAAAGCTCAGTTGGGCTTTGATTTTTTTACGGAGCTTTCCCAAAAACACCGCTAAAGCCCTCA
6613354 GCATTA
326 GCATTA
* * * *
6613360 GCGGCGCTTTCTTAAAAACGCCGTTAAATCTCCAAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
* * * *
6613425 GTTTTTTTGCGGCGGTTTCTCAAAAACGCCGCTAAA-TCCCTGAGCATTAGCGGTGCTTTCTTAA
66 GTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGT-CCTGAGCATTAGCGGCGCTTTCTTAA
** * * *
6613489 AATTGCCGCTAAATCCCCTAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTT
130 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTT
6613542 GTAAAGCGCC
Statistics
Matches: 461, Mismatches: 51, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
330 1 0.00
331 296 0.64
332 139 0.30
333 25 0.05
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (331 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
GTTTTTTTGCGGCGCTTTCCCAAAAATGCCGCTAAAGTCCTGAGCATTAGCGGCGCTTTCTTAAA
AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTTGCGGCGCT
TTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAAAGCCACTAAATCCC
CCGAAAGCTCAGTTGGGCTTTGATTTTTTTACGGAGCTTTCCCAAAAACACCGCTAAAGCCCTCA
GCATTA
Found at i:6613628 original size:169 final size:170
Alignment explanation
Indices: 6613378--6613710 Score: 435
Period size: 169 Copynumber: 2.0 Consensus size: 170
6613368 TTCTTAAAAA
* * * * ***
6613378 CGCCGTTAAATCTCCAAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCGGCGGTTT
1 CGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCATTCGGCTTAGGTTTTTTTGCGGAACTTT
* * **
6613443 CTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGTGCTTTCTTA-AAATTGCCGCTAAATCCCC
66 CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAGAAA-CACCGCTAAAT-CCC
6613507 T-AAAGCTCA-AAAAACGGCGTCGTTGGGCTTAGGTTGTAAAG
129 TGAAAGCT-AGAAAAACGGCGTCGTTGGGCTTAGGTTGTAAAG
* *
6613548 CGCCGCTAAATCCCCTAAAGTTCAGAAAACGG-AGTCATTCGGCTTAGG-TTTTTTGCGGAACTT
1 CGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCA-TCATTCGGCTTAGGTTTTTTTGCGGAACTT
*
6613611 TAC-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTTAGAAACACCGCTAAATCCC
65 T-CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAGAAACACCGCTAAATCCC
* *
6613675 TGAAAGCTAGGAAAACGGTGTCGTTGGGCTTAGGTT
129 TGAAAGCTAGAAAAACGGCGTCGTTGGGCTTAGGTT
6613711 TTTTGTGGCG
Statistics
Matches: 142, Mismatches: 16, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
168 5 0.04
169 93 0.65
170 44 0.31
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (170 bp):
CGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCATTCGGCTTAGGTTTTTTTGCGGAACTTT
CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAGAAACACCGCTAAATCCCTG
AAAGCTAGAAAAACGGCGTCGTTGGGCTTAGGTTGTAAAG
Found at i:6617097 original size:14 final size:14
Alignment explanation
Indices: 6617078--6617107 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6617068 TTTCTTTTCT
6617078 TAAGTATTTATTTG
1 TAAGTATTTATTTG
6617092 TAAGTATTTATTTG
1 TAAGTATTTATTTG
6617106 TA
1 TA
6617108 TATTCTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (14 bp):
TAAGTATTTATTTG
Found at i:6619136 original size:28 final size:28
Alignment explanation
Indices: 6619095--6619157 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
6619085 CCTCAGTCAG
6619095 AAAGATTCGAAAGGCTGATGAACTGAATT
1 AAAG-TTCGAAAGGCTGATGAACTGAATT
* *
6619124 AAAGTTCGAAAGGTTGATGAATTGAATT
1 AAAGTTCGAAAGGCTGATGAACTGAATT
6619152 AAAGTT
1 AAAGTT
6619158 TACTCTTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (28 bp):
AAAGTTCGAAAGGCTGATGAACTGAATT
Found at i:6626041 original size:12 final size:12
Alignment explanation
Indices: 6626024--6626048 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6626014 AAGTTACATT
6626024 ATGTTAGAACAA
1 ATGTTAGAACAA
6626036 ATGTTAGAACAA
1 ATGTTAGAACAA
6626048 A
1 A
6626049 AAATTTGATG
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:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATGTTAGAACAA
Found at i:6628712 original size:26 final size:26
Alignment explanation
Indices: 6628641--6628713 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
6628631 TCTCATCCTT
*
6628641 ATTTTACCCCTAGCAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
6628667 ATTTTACCCTTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
* * *
6628693 ATTTTGCCCCTGGTACAATTT
1 ATTTTACCCCTAGTAAAATTT
6628714 CAAGAAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:6628876 original size:12 final size:12
Alignment explanation
Indices: 6628855--6628889 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6628845 AGGATTGCAA
*
6628855 ATTTCCATTTTC
1 ATTTCTATTTTC
*
6628867 ATTTTTATTTTC
1 ATTTCTATTTTC
6628879 ATTTCTATTTT
1 ATTTCTATTTT
6628890 TTCAAACCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTCTATTTTC
Found at i:6632739 original size:20 final size:20
Alignment explanation
Indices: 6632711--6632751 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6632701 ACTTATTTTA
6632711 AAGTCTTTCCATGATGGAGG
1 AAGTCTTTCCATGATGGAGG
* * *
6632731 AAGTTTTTCTATTATGGAGG
1 AAGTCTTTCCATGATGGAGG
6632751 A
1 A
6632752 TACAACAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.37
Consensus pattern (20 bp):
AAGTCTTTCCATGATGGAGG
Found at i:6634995 original size:27 final size:27
Alignment explanation
Indices: 6634961--6635012 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
6634951 ATAAATTGTA
6634961 AGAAAAATAAATTCCCCATTAAAGAAC
1 AGAAAAATAAATTCCCCATTAAAGAAC
*
6634988 AGAAAAATAAATTCTCCATTAAAGA
1 AGAAAAATAAATTCCCCATTAAAGA
6635013 GCTTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.56, C:0.15, G:0.08, T:0.21
Consensus pattern (27 bp):
AGAAAAATAAATTCCCCATTAAAGAAC
Found at i:6637922 original size:17 final size:16
Alignment explanation
Indices: 6637897--6637928 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6637887 TTCTTCCCCT
6637897 TTTCTTTATTTTCTTC
1 TTTCTTTATTTTCTTC
6637913 TTTCTATTATTTTCTT
1 TTTCT-TTATTTTCTT
6637929 TTCTTTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTCTTTATTTTCTTC
Found at i:6641476 original size:7 final size:7
Alignment explanation
Indices: 6641464--6641494 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6641454 AATTGAAGCA
6641464 TATATAT
1 TATATAT
6641471 TATATAT
1 TATATAT
6641478 TATATAT
1 TATATAT
6641485 TATATAT
1 TATATAT
6641492 TAT
1 TAT
6641495 CGTAAGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATAT
Found at i:6645021 original size:20 final size:18
Alignment explanation
Indices: 6644988--6645025 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
6644978 TTTTAATAAC
6644988 ATTAAATTTAATTTTTTT
1 ATTAAATTTAATTTTTTT
6645006 ATTATAATTATAATTTTTTT
1 ATTA-AATT-TAATTTTTTT
6645026 GTATGTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTAAATTTAATTTTTTT
Found at i:6649450 original size:25 final size:25
Alignment explanation
Indices: 6649422--6649547 Score: 95
Period size: 25 Copynumber: 5.1 Consensus size: 25
6649412 TGTTATTTGA
6649422 CTCTCATGAGCTTCCCGATTA-ATGG
1 CTCT-ATGAGCTTCCCGATTATATGG
* * *
6649447 CTCTATTGAGCTTTCTG-TT-TATAG
1 CTCTA-TGAGCTTCCCGATTATATGG
* *
6649471 CTCGT-TGAGCTTCCC-AATATTTGG
1 CTC-TATGAGCTTCCCGATTATATGG
*
6649495 CTCGTAAGAGCTTCCCG-TTATATGG
1 CTC-TATGAGCTTCCCGATTATATGG
*
6649520 CTCACATGAGCTTCCC-ATTATATGG
1 CTC-TATGAGCTTCCCGATTATATGG
6649545 CTC
1 CTC
6649548 GGAAAAGCTT
Statistics
Matches: 79, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
23 9 0.11
24 17 0.22
25 53 0.67
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (25 bp):
CTCTATGAGCTTCCCGATTATATGG
Found at i:6649546 original size:50 final size:48
Alignment explanation
Indices: 6649426--6649565 Score: 131
Period size: 50 Copynumber: 2.9 Consensus size: 48
6649416 ATTTGACTCT
* * *
6649426 CATGAGCTTCCCGATTA-ATGGCTC-TATTGAGCTTTCTGTTTATAGCTC
1 CATGAGCTTCCC-ATTATATGGCTCGTA-AGAGCTTCCCGTTTATAGCTC
** * * *
6649474 GTTGAGCTTCCCAATATTTGGCTCGTAAGAGCTTCCCGTTATATGGCTC
1 CATGAGCTTCCCATTATATGGCTCGTAAGAGCTTCCCGTT-TATAGCTC
* * *
6649523 ACATGAGCTTCCCATTATATGGCTCGGAAAAGCTTCCTGTTTA
1 -CATGAGCTTCCCATTATATGGCTCGTAAGAGCTTCCCGTTTA
6649566 CATGCTTATA
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
47 3 0.04
48 26 0.36
49 11 0.15
50 33 0.45
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (48 bp):
CATGAGCTTCCCATTATATGGCTCGTAAGAGCTTCCCGTTTATAGCTC
Found at i:6649556 original size:25 final size:25
Alignment explanation
Indices: 6649477--6649559 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
6649467 ATAGCTCGTT
* * *
6649477 GAGCTTCCCAATATTTGGCTCGTAA
1 GAGCTTCCCATTATATGGCTCGCAA
* * *
6649502 GAGCTTCCCGTTATATGGCTCACAT
1 GAGCTTCCCATTATATGGCTCGCAA
*
6649527 GAGCTTCCCATTATATGGCTCGGAA
1 GAGCTTCCCATTATATGGCTCGCAA
*
6649552 AAGCTTCC
1 GAGCTTCC
6649560 TGTTTACATG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCATTATATGGCTCGCAA
Found at i:6664406 original size:40 final size:40
Alignment explanation
Indices: 6664351--6664527 Score: 302
Period size: 40 Copynumber: 4.4 Consensus size: 40
6664341 TGTGCATAGT
*
6664351 ATTCGTGCGGGTTATTGTAACCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
6664391 ATTCGTGCTGGTTATTATAACCGAGG-TAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCG-GGTTAAGTCCCGAAGGC
*
6664431 ATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
6664471 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
6664511 ATTCGTGCTGGTTATTA
1 ATTCGTGCGGGTTATTA
6664528 CATCCGAGCC
Statistics
Matches: 130, Mismatches: 5, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
39 2 0.02
40 126 0.97
41 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
Found at i:6664547 original size:80 final size:80
Alignment explanation
Indices: 6664351--6664547 Score: 252
Period size: 80 Copynumber: 2.5 Consensus size: 80
6664341 TGTGCATAGT
** * ** * *
6664351 ATTCGTGCGGGTTATTGTAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTATAACCGAG
1 ATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGGGTTATTATAACCGAG
6664416 GTAAGTCCCGAAGGC
66 GTAAGTCCCGAAGGC
* * * *
6664431 ATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCG-G
1 ATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGGGTTATTATAACCGAG
6664495 GTTAAGTCCCGAAGGC
66 G-TAAGTCCCGAAGGC
* * *
6664511 ATTCGTGCTGGTTATTACATCCGAGCCAAATTCCGAA
1 ATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAA
6664548 AGTATATATG
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 2 0.02
80 104 0.98
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATTCGTGCGGGTTATTACAACCGAGCCAAATCCCGAAGGCATTCGTGCGGGTTATTATAACCGAG
GTAAGTCCCGAAGGC
Found at i:6669688 original size:40 final size:40
Alignment explanation
Indices: 6669602--6669745 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
6669592 CTCGCACAAG
* * * * *
6669602 GCCTTCGGGTCTTAACCCGGATATGGTCAC-AGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
6669641 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
6669681 GCCTTC-GGATCTTAGTCTGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
6669722 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
6669746 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 29 0.33
40 31 0.35
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:6670974 original size:38 final size:38
Alignment explanation
Indices: 6670932--6671007 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
6670922 CAAGAACTCC
6670932 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
6670970 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
6671008 AAACGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Done.