Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 50 of 203
Found at i:16254506 original size:20 final size:20
Alignment explanation
Indices: 16254481--16254521 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16254471 TGTTGTTGCA
*
16254481 CCACCATGCTGCTGTCCCTT
1 CCACCAGGCTGCTGTCCCTT
*
16254501 CCACCAGGCTGTTGTCCCTT
1 CCACCAGGCTGCTGTCCCTT
16254521 C
1 C
16254522 AATGGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.44, G:0.17, T:0.29
Consensus pattern (20 bp):
CCACCAGGCTGCTGTCCCTT
Found at i:16254613 original size:11 final size:13
Alignment explanation
Indices: 16254588--16254616 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16254578 TATCCACCGG
16254588 AAGAGAGAAAGAA
1 AAGAGAGAAAGAA
16254601 AAGAGAGAAA-AA
1 AAGAGAGAAAGAA
16254613 AAGA
1 AAGA
16254617 TAATGTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAGAGAGAAAGAA
Found at i:16259367 original size:27 final size:27
Alignment explanation
Indices: 16259323--16259412 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
16259313 GCCCCACCAT
* * * *
16259323 TCGCGCCTTTGAGTTAGGCACAACTAG
1 TCGCGCCTCTCAGATAGGCTCAACTAG
* *
16259350 TCGTGCCTGC-CAGATAGGCTCAAATAG
1 TCGCGCCT-CTCAGATAGGCTCAACTAG
*
16259377 TCGCGCCTCTGAGATAGGCTCAACTAG
1 TCGCGCCTCTCAGATAGGCTCAACTAG
16259404 TCGCGCCTC
1 TCGCGCCTC
16259413 GTATCTATAC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (27 bp):
TCGCGCCTCTCAGATAGGCTCAACTAG
Found at i:16259526 original size:49 final size:49
Alignment explanation
Indices: 16259472--16259579 Score: 180
Period size: 49 Copynumber: 2.2 Consensus size: 49
16259462 TTATTAAACG
*
16259472 AAAAAAATTAATATAAAAAATTGATTCGCGCCTATCAGATAGGCTCGATT
1 AAAAAAA-TAATATAAAAAATTGATTCGCGCCTATCAGATAGGCGCGATT
* *
16259522 AAAAAAATAATATAAAAAATTGATTCGCGCTTGTCAGATAGGCGCGATT
1 AAAAAAATAATATAAAAAATTGATTCGCGCCTATCAGATAGGCGCGATT
16259571 AAAAAAATA
1 AAAAAAATA
16259580 TATCATTTCG
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
49 48 0.87
50 7 0.13
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (49 bp):
AAAAAAATAATATAAAAAATTGATTCGCGCCTATCAGATAGGCGCGATT
Found at i:16259848 original size:34 final size:34
Alignment explanation
Indices: 16259823--16259914 Score: 166
Period size: 34 Copynumber: 2.7 Consensus size: 34
16259813 TTTAAAAAAA
16259823 TTAAACCCTAATTTAATTAATTTATTTAAAACCC
1 TTAAACCCTAATTTAATTAATTTATTTAAAACCC
*
16259857 CTAAACCCTAATTTAATTAATTTATTTAAAACCC
1 TTAAACCCTAATTTAATTAATTTATTTAAAACCC
*
16259891 TTAAAGCCTAATTTAATTAATTTA
1 TTAAACCCTAATTTAATTAATTTA
16259915 AAAAAAAATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.41, C:0.16, G:0.01, T:0.41
Consensus pattern (34 bp):
TTAAACCCTAATTTAATTAATTTATTTAAAACCC
Found at i:16260917 original size:48 final size:48
Alignment explanation
Indices: 16260863--16260958 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
16260853 GCTTTGATTT
*
16260863 TTAAATGTTTTGATATAACAAAATAAAATTTTAAAATTCCCTTAATCA
1 TTAAATGTTTTGATATAACAAAATAAAATTCTAAAATTCCCTTAATCA
16260911 TTAAATGTTTTGATATAACAAAATAAAATTCTAAAATTCCCTTAATCA
1 TTAAATGTTTTGATATAACAAAATAAAATTCTAAAATTCCCTTAATCA
16260959 AATTTTGCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (48 bp):
TTAAATGTTTTGATATAACAAAATAAAATTCTAAAATTCCCTTAATCA
Found at i:16261372 original size:2 final size:2
Alignment explanation
Indices: 16261365--16261390 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16261355 CCAAATCTGA
16261365 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
16261391 GCTTTCTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:16280538 original size:24 final size:24
Alignment explanation
Indices: 16280504--16280549 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16280494 TATATGAAAT
* *
16280504 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
16280528 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
16280550 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:16287446 original size:21 final size:21
Alignment explanation
Indices: 16287414--16287454 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16287404 GAACATTTGG
16287414 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
16287435 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
16287455 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:16289431 original size:13 final size:13
Alignment explanation
Indices: 16289415--16289464 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
16289405 AATAAATACC
16289415 AAAAATTTATTTT
1 AAAAATTTATTTT
16289428 AAAAATTTA----
1 AAAAATTTATTTT
16289437 AAAAATTTATTTT
1 AAAAATTTATTTT
16289450 AAAAA--TATTTT
1 AAAAATTTATTTT
16289461 AAAA
1 AAAA
16289465 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 9 0.27
11 10 0.30
13 14 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAATTTATTTT
Found at i:16289460 original size:11 final size:11
Alignment explanation
Indices: 16289422--16289503 Score: 54
Period size: 11 Copynumber: 7.9 Consensus size: 11
16289412 ACCAAAAATT
16289422 TATTTT-AAAA
1 TATTTTAAAAA
*
16289432 -ATTTAAAAAA
1 TATTTTAAAAA
16289442 TTTATTTTAAAAA
1 --TATTTTAAAAA
16289455 TATTTT--AAA
1 TATTTTAAAAA
16289464 -A--TTAAAAA
1 TATTTTAAAAA
* *
16289472 -AATTAAAAAA
1 TATTTTAAAAA
16289482 GTATTTTAAAAA
1 -TATTTTAAAAA
16289494 TATTTTAAAA
1 TATTTTAAAA
16289504 TTAAAAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 19
0.70 0.06 0.23
Matches are distributed among these distances:
6 2 0.04
8 5 0.09
9 7 0.12
10 10 0.18
11 16 0.28
12 8 0.14
13 9 0.16
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:16289512 original size:39 final size:40
Alignment explanation
Indices: 16289428--16289514 Score: 149
Period size: 39 Copynumber: 2.2 Consensus size: 40
16289418 AATTTATTTT
* *
16289428 AAAAATTTAAAAAATTTATTTTAAAAATATTTTAAAATTA
1 AAAAAATTAAAAAATGTATTTTAAAAATATTTTAAAATTA
16289468 AAAAAATTAAAAAA-GTATTTTAAAAATATTTTAAAATTA
1 AAAAAATTAAAAAATGTATTTTAAAAATATTTTAAAATTA
16289507 AAAAAATT
1 AAAAAATT
16289515 TTAAATGAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 32 0.71
40 13 0.29
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (40 bp):
AAAAAATTAAAAAATGTATTTTAAAAATATTTTAAAATTA
Found at i:16290266 original size:18 final size:18
Alignment explanation
Indices: 16290221--16290266 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
16290211 CTTACTTAAT
16290221 TTTTGATTTA-TTATTTTA
1 TTTT-ATTTATTTATTTTA
*
16290239 TTTTAGTTATTTATTTTAA
1 TTTTATTTATTTATTTT-A
16290258 TTTT-TTTAT
1 TTTTATTTAT
16290267 CTGACTTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 15 0.62
19 5 0.21
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTTATTTATTTATTTTA
Found at i:16296091 original size:66 final size:68
Alignment explanation
Indices: 16295985--16296116 Score: 189
Period size: 66 Copynumber: 2.0 Consensus size: 68
16295975 AATTCGGTCT
* * * *
16295985 ATTATCGTTTTTTTTGAATCCCCAAATTGAACTTGACCAAAAA-ATTTGATTTATTTTATATTAT
1 ATTATCGTTTTTTTCGAATCCCCAAATTAAACTTGACCAAAAACA-TTAATTTATTTGATATTAT
16296049 TTTA
65 TTTA
*
16296053 ATTATC-TTTTTTTCGAATTCCCAAATTAAAC-TGACCAAAAACATTAATTTATTTGATATTATT
1 ATTATCGTTTTTTTCGAATCCCCAAATTAAACTTGACCAAAAACATTAATTTATTTGATATTATT
16296116 T
66 T
16296117 AAAATTATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
66 29 0.50
67 23 0.40
68 6 0.10
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (68 bp):
ATTATCGTTTTTTTCGAATCCCCAAATTAAACTTGACCAAAAACATTAATTTATTTGATATTATT
TTA
Found at i:16306456 original size:17 final size:17
Alignment explanation
Indices: 16306419--16306456 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
16306409 CTTTTTATTT
*
16306419 TTTTAGGATTAGAGGTT
1 TTTTAGGATTAGAGGTA
16306436 TTTTAGGATTTA-AGGTA
1 TTTTAGGA-TTAGAGGTA
16306453 TTTT
1 TTTT
16306457 GAAAGTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (17 bp):
TTTTAGGATTAGAGGTA
Found at i:16310102 original size:27 final size:26
Alignment explanation
Indices: 16310039--16310108 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
16310029 ACATACCACA
* * *
16310039 GCTCTTTGTGAGCGTCCCGTTACATG
1 GCTCTTTGTGAGCTTCCCATTAAATG
*
16310065 GCTCTTCGTGAGCTTCCCATTAAATTG
1 GCTCTTTGTGAGCTTCCCATTAAA-TG
16310092 GCTCTTTGTGAGCTTCC
1 GCTCTTTGTGAGCTTCC
16310109 TGATTAATGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 20 0.53
27 18 0.47
ACGTcount: A:0.13, C:0.27, G:0.23, T:0.37
Consensus pattern (26 bp):
GCTCTTTGTGAGCTTCCCATTAAATG
Found at i:16317673 original size:14 final size:14
Alignment explanation
Indices: 16317650--16317680 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16317640 TGTCGGGTTC
*
16317650 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
16317664 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
16317678 TTA
1 TTA
16317681 AAACAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:16322067 original size:43 final size:43
Alignment explanation
Indices: 16321962--16322075 Score: 106
Period size: 43 Copynumber: 2.7 Consensus size: 43
16321952 TGTGTTTTCG
* * * * * *
16321962 TGTAAGACCACATCTGAGACATTGGCATCGACTTGTGTTTACG
1 TGTAAGACCACGTCTGGGACAGTGGCATCGAATTGTGATTACA
***
16322005 TGTAAGACTGTGTCTGGGACAGTGGCATC-AATATGTGATTACA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGAAT-TGTGATTACA
*
16322048 TGTAAGACCACGTCCGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
16322076 TGTACGAGCC
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 3 0.05
43 53 0.95
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGAATTGTGATTACA
Found at i:16322329 original size:36 final size:36
Alignment explanation
Indices: 16322282--16322352 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
16322272 ATTAAACTTA
* * * *
16322282 TAAGTGATTCGGCCTATTGATGTATTTGTAATATTG
1 TAAGTGATTCGGCATAATGATATAGTTGTAATATTG
16322318 TAAGTGATTCGGCATAATGATATAGTTGTAATATT
1 TAAGTGATTCGGCATAATGATATAGTTGTAATATT
16322353 TAAAAGTGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (36 bp):
TAAGTGATTCGGCATAATGATATAGTTGTAATATTG
Found at i:16323763 original size:186 final size:186
Alignment explanation
Indices: 16323449--16323821 Score: 728
Period size: 186 Copynumber: 2.0 Consensus size: 186
16323439 TTGAAAGTGG
16323449 TAGATGATGTGTAGTTATATTCGGCTAGTATGGGTAAAACAAATAGATATATCTATGATATGTTT
1 TAGATGATGTGTAGTTATATTCGGCTAGTATGGGTAAAACAAATAGATATATCTATGATATGTTT
*
16323514 AATTGTGGTTCGTTATTTAAATGTTGAATGATTGATTTCGAACTGTGATAAAAAAATGTGGTAGT
66 AATTGTGGTTCGTTATTTAAATGTTGAATGATTGATTTCGAAATGTGATAAAAAAATGTGGTAGT
*
16323579 AATATTCGGCCTTAGTAAATGGTTCATTTTGATAAGCATGTGAGTTGGGTGTAATA
131 AAAATTCGGCCTTAGTAAATGGTTCATTTTGATAAGCATGTGAGTTGGGTGTAATA
16323635 TAGATGATGTGTAGTTATATTCGGCTAGTATGGGTAAAACAAATAGATATATCTATGATATGTTT
1 TAGATGATGTGTAGTTATATTCGGCTAGTATGGGTAAAACAAATAGATATATCTATGATATGTTT
16323700 AATTGTGGTTCGTTATTTAAATGTTGAATGATTGATTTCGAAATGTGATAAAAAAATGTGGTAGT
66 AATTGTGGTTCGTTATTTAAATGTTGAATGATTGATTTCGAAATGTGATAAAAAAATGTGGTAGT
16323765 AAAATTCGGCCTTAGTAAATGGTTCATTTTGATAAGCATGTGAGTTGGGTGTAATA
131 AAAATTCGGCCTTAGTAAATGGTTCATTTTGATAAGCATGTGAGTTGGGTGTAATA
16323821 T
1 T
16323822 TATTTGCCTA
Statistics
Matches: 185, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 185 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (186 bp):
TAGATGATGTGTAGTTATATTCGGCTAGTATGGGTAAAACAAATAGATATATCTATGATATGTTT
AATTGTGGTTCGTTATTTAAATGTTGAATGATTGATTTCGAAATGTGATAAAAAAATGTGGTAGT
AAAATTCGGCCTTAGTAAATGGTTCATTTTGATAAGCATGTGAGTTGGGTGTAATA
Found at i:16326750 original size:6 final size:6
Alignment explanation
Indices: 16326734--16326771 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
16326724 GTCTATTTTG
* *
16326734 TTTTA- TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
16326772 CTTCTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:16326763 original size:18 final size:17
Alignment explanation
Indices: 16326734--16326771 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
16326724 GTCTATTTTG
*
16326734 TTTTATTTTATTTTTAT
1 TTTTATTTTATTGTTAT
16326751 TTTTATGTTTATTGTTAT
1 TTTTAT-TTTATTGTTAT
16326769 TTT
1 TTT
16326772 CTTCTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTGTTAT
Found at i:16327761 original size:8 final size:9
Alignment explanation
Indices: 16327743--16327785 Score: 54
Period size: 8 Copynumber: 4.9 Consensus size: 9
16327733 TTCATGTTGA
*
16327743 AAAAAAAAG
1 AAAAGAAAG
16327752 -AAAGAAAG
1 AAAAGAAAG
16327760 -AAAGAAAG
1 AAAAGAAAG
16327768 AAAAGAAAAG
1 AAAAG-AAAG
16327778 AAAAGAAA
1 AAAAGAAA
16327786 AGTATATCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 15 0.48
9 7 0.23
10 9 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:16327774 original size:5 final size:5
Alignment explanation
Indices: 16327741--16327787 Score: 57
Period size: 5 Copynumber: 10.2 Consensus size: 5
16327731 AATTCATGTT
*
16327741 GAAAA AAAAA G-AAA G-AAA G-AAA G-AAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
16327787 G
1 G
16327788 TATATCTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
4 16 0.41
5 23 0.59
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:16329521 original size:14 final size:14
Alignment explanation
Indices: 16329498--16329528 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16329488 TGCCGGGTTC
*
16329498 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
16329512 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
16329526 TTA
1 TTA
16329529 AAACAATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:16330585 original size:50 final size:50
Alignment explanation
Indices: 16330526--16330810 Score: 552
Period size: 50 Copynumber: 5.7 Consensus size: 50
16330516 ACATGCCAAA
*
16330526 GCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
16330576 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
16330626 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
16330676 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
16330726 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
16330776 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
16330811 TTACCCAAAT
Statistics
Matches: 233, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 233 1.00
ACGTcount: A:0.16, C:0.33, G:0.24, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:16332591 original size:27 final size:26
Alignment explanation
Indices: 16332528--16332597 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
16332518 ACATACCACA
* * *
16332528 GCTCTTTGTGAGCGTCCCGTTACATG
1 GCTCTTTGTGAGCTTCCAGTTAAATG
*
16332554 GCTCTTCGTGAGCTTCCAGTTAAATTG
1 GCTCTTTGTGAGCTTCCAGTTAAA-TG
16332581 GCTCTTTGTGAGCTTCC
1 GCTCTTTGTGAGCTTCC
16332598 TGATTAATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 20 0.53
27 18 0.47
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.37
Consensus pattern (26 bp):
GCTCTTTGTGAGCTTCCAGTTAAATG
Found at i:16341734 original size:3 final size:3
Alignment explanation
Indices: 16341728--16341758 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
16341718 AGCTGCTTGA
*
16341728 TGG TGG TGG TGG TGG TGG TGG TGG TGA TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
16341759 AACCTTGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.61, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:16342856 original size:22 final size:23
Alignment explanation
Indices: 16342831--16342874 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16342821 TTATTTGATG
*
16342831 TATTGAAAGTG-AATAAATTATA
1 TATTGAAAGCGAAATAAATTATA
*
16342853 TATTGCAAGCGAAATAAATTAT
1 TATTGAAAGCGAAATAAATTAT
16342875 GTCGTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (23 bp):
TATTGAAAGCGAAATAAATTATA
Found at i:16346515 original size:7 final size:7
Alignment explanation
Indices: 16346503--16346532 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
16346493 ATAAAAACTT
16346503 TTAAATA
1 TTAAATA
16346510 TTAAATA
1 TTAAATA
16346517 TTAAATA
1 TTAAATA
16346524 TTAAATA
1 TTAAATA
16346531 TT
1 TT
16346533 TAATCGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TTAAATA
Found at i:16347161 original size:16 final size:17
Alignment explanation
Indices: 16347139--16347182 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
16347129 AAATTTAAAA
16347139 ATATTTTTTATACTTTT
1 ATATTTTTTATACTTTT
**
16347156 -TATTTTTTGATTTTTTT
1 ATATTTTTT-ATACTTTT
16347173 ATATTTTTTA
1 ATATTTTTTA
16347183 AAAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 7 0.30
18 8 0.35
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (17 bp):
ATATTTTTTATACTTTT
Found at i:16347170 original size:9 final size:9
Alignment explanation
Indices: 16347139--16347182 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
16347129 AAATTTAAAA
16347139 ATATTTTTT
1 ATATTTTTT
*
16347148 ATACTTTTT
1 ATATTTTTT
*
16347157 AT-TTTTTG
1 ATATTTTTT
16347165 AT-TTTTTT
1 ATATTTTTT
16347173 ATATTTTTT
1 ATATTTTTT
16347182 A
1 A
16347183 AAAAATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
ATATTTTTT
Found at i:16352305 original size:2 final size:2
Alignment explanation
Indices: 16352298--16352326 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16352288 CCATATGCTT
16352298 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16352327 TTAGTCTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16352806 original size:30 final size:29
Alignment explanation
Indices: 16352771--16352827 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
16352761 AAAATTAGGA
16352771 GCTTAATGAAAATTTTTAAAAGATTTTTGG
1 GCTTAATGAAAATTTTTAAAA-ATTTTTGG
* *
16352801 GCTTAATTAAAATTTTTCAAAATTTTT
1 GCTTAATGAAAATTTTTAAAAATTTTT
16352828 AAAAGAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (29 bp):
GCTTAATGAAAATTTTTAAAAATTTTTGG
Found at i:16359354 original size:14 final size:15
Alignment explanation
Indices: 16359330--16359358 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16359320 TTGCATACGT
16359330 AATTGAAAATTAAAA
1 AATTGAAAATTAAAA
16359345 AATT-AAAATTAAAA
1 AATTGAAAATTAAAA
16359359 TTGTTGGTTG
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:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AATTGAAAATTAAAA
Found at i:16359548 original size:10 final size:10
Alignment explanation
Indices: 16359535--16359578 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
16359525 CCTATAAAAG
16359535 TTTTAAAATT
1 TTTTAAAATT
*
16359545 TTTTATTAAATA
1 TTTTA--AAATT
16359557 TTTTAAAATT
1 TTTTAAAATT
*
16359567 TTTAAAAATT
1 TTTTAAAATT
16359577 TT
1 TT
16359579 AGTGGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 20 0.69
12 9 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:16363415 original size:109 final size:109
Alignment explanation
Indices: 16363197--16363403 Score: 371
Period size: 109 Copynumber: 1.9 Consensus size: 109
16363187 TTAATTTCAC
16363197 CAAACCTCCACCACCTGTTATTCAGATTTTAAATTGATCACTAAACTTTAAAGCATTCTAATCGA
1 CAAACCTCCACCACCTGTTATTCAGATTTTAAATTGATCACTAAACTTTAAAGCATTCTAATCGA
*
16363262 GTTATCAAAATATCAGTAATATAACAATTAAGTCCCTCCGTTAG
66 GTTATCAAAATATCAGTAATATAACAATCAAGTCCCTCCGTTAG
*
16363306 CAAACCTCCACCACCTGTTGTTCAGATTTTAAATTGATCACTAAACTTTAAAGCATTCTAATCGA
1 CAAACCTCCACCACCTGTTATTCAGATTTTAAATTGATCACTAAACTTTAAAGCATTCTAATCGA
*
16363371 GTTATCAAAATATCTA-TAATATATCAATCAAGT
66 GTTATCAAAATATC-AGTAATATAACAATCAAGT
16363404 TTCTCTGTTA
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
109 93 0.99
110 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (109 bp):
CAAACCTCCACCACCTGTTATTCAGATTTTAAATTGATCACTAAACTTTAAAGCATTCTAATCGA
GTTATCAAAATATCAGTAATATAACAATCAAGTCCCTCCGTTAG
Found at i:16373885 original size:29 final size:29
Alignment explanation
Indices: 16373843--16373912 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
16373833 GTCATGCAGG
*
16373843 CGTGTGGCTCACACGATCTGCCACAAAGC
1 CGTGTGGCTCACACGACCTGCCACAAAGC
*
16373872 CGTGTGGCTCACACGACCTGCCACACAGC
1 CGTGTGGCTCACACGACCTGCCACAAAGC
**
16373901 CGAATGGCTCAC
1 CGTGTGGCTCAC
16373913 GCGGCCTGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.23, C:0.37, G:0.24, T:0.16
Consensus pattern (29 bp):
CGTGTGGCTCACACGACCTGCCACAAAGC
Found at i:16382019 original size:46 final size:44
Alignment explanation
Indices: 16381934--16382027 Score: 143
Period size: 46 Copynumber: 2.1 Consensus size: 44
16381924 TCGAATTTAA
*
16381934 TTTAATTGTTTTATTTTTTATTTTAAAGCAAATACAATTATATT
1 TTTAATTGTTTTATTTTTTATTTTAAAGCAAATAAAATTATATT
* *
16381978 TTTAATTGTTTTAATTTTTTTATTTTAAAGCGAATAAAATTATTTT
1 TTTAATTGTTTT-A-TTTTTTATTTTAAAGCAAATAAAATTATATT
16382024 TTTA
1 TTTA
16382028 GTCTTTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 12 0.27
45 1 0.02
46 32 0.71
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (44 bp):
TTTAATTGTTTTATTTTTTATTTTAAAGCAAATAAAATTATATT
Found at i:16387784 original size:15 final size:15
Alignment explanation
Indices: 16387766--16387799 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16387756 AGGAGGAAGA
*
16387766 GGTGGTGACGGTGGT
1 GGTGGTGACGGTGGG
*
16387781 GGTGGTGTCGGTGGG
1 GGTGGTGACGGTGGG
16387796 GGTG
1 GGTG
16387800 ATTTGGTGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.06, G:0.65, T:0.26
Consensus pattern (15 bp):
GGTGGTGACGGTGGG
Found at i:16388156 original size:14 final size:14
Alignment explanation
Indices: 16388137--16388163 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16388127 GAAAACGAAC
16388137 ATTAAAATTATTAA
1 ATTAAAATTATTAA
16388151 ATTAAAATTATTA
1 ATTAAAATTATTA
16388164 GAAATATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTAAAATTATTAA
Found at i:16393812 original size:22 final size:24
Alignment explanation
Indices: 16393761--16393805 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
16393751 ACGCCACATT
16393761 AAAATTTATAAAAATATTCAAAAA
1 AAAATTTATAAAAATATTCAAAAA
16393785 AAAATTT-TAAAAAT-TTCAAAA
1 AAAATTTATAAAAATATTCAAAA
16393806 CTCAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.33
23 7 0.33
24 7 0.33
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATTTATAAAAATATTCAAAAA
Found at i:16394200 original size:85 final size:84
Alignment explanation
Indices: 16394053--16394216 Score: 265
Period size: 85 Copynumber: 1.9 Consensus size: 84
16394043 ATCCTTGTCT
* * * *
16394053 TCAACTCTTTTACTTCAAACTCTCACTTTAAGACTCTCAGCCCATCGAGTGAATTGTCTTACAAG
1 TCAACTCTTTTACTTCAAACCCTCACTTTAAGACTCTCAACCCACCGAGTGAACTGTCTTACAAG
16394118 TCCCCATCCTCCTCAATCCA
66 T-CCCATCCTCCTCAATCCA
* *
16394138 TCAACTCTTTTACTTCAAACCCTCACTTTACGACTCTCAACCCACCGAGTGAACTGTTTTACAAG
1 TCAACTCTTTTACTTCAAACCCTCACTTTAAGACTCTCAACCCACCGAGTGAACTGTCTTACAAG
16394203 TCCCATCCTCCTCA
66 TCCCATCCTCCTCA
16394217 GCCTATCAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 13 0.18
85 60 0.82
ACGTcount: A:0.26, C:0.35, G:0.08, T:0.31
Consensus pattern (84 bp):
TCAACTCTTTTACTTCAAACCCTCACTTTAAGACTCTCAACCCACCGAGTGAACTGTCTTACAAG
TCCCATCCTCCTCAATCCA
Found at i:16398374 original size:18 final size:18
Alignment explanation
Indices: 16398351--16398387 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16398341 GTTATTAGGT
16398351 TATTAAGTTTTTTTTAAG
1 TATTAAGTTTTTTTTAAG
16398369 TATTAAGTTTTTTTTAAG
1 TATTAAGTTTTTTTTAAG
16398387 T
1 T
16398388 CCGACTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (18 bp):
TATTAAGTTTTTTTTAAG
Found at i:16405036 original size:21 final size:21
Alignment explanation
Indices: 16405010--16405049 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
16405000 AATAAATACC
16405010 AAAAATTTATTTTAAAAATTA
1 AAAAATTTATTTTAAAAATTA
16405031 AAAAATTTATTTTAAAAAT
1 AAAAATTTATTTTAAAAAT
16405050 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAATTTATTTTAAAAATTA
Found at i:16405086 original size:39 final size:40
Alignment explanation
Indices: 16405023--16405154 Score: 169
Period size: 39 Copynumber: 3.3 Consensus size: 40
16405013 AATTTATTTT
*
16405023 AAAAATTAAAAAATTTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAATGTATTTTAAAAATATTTTAAAATTAA
* * *
16405063 AGAAATT-AGAAATGTATGTTAAAAATATTTTAAAATTAAA
1 AAAAATTAAAAAATGTATTTTAAAAATATTTTAAAATT-AA
* * *
16405103 AAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAAATAA
1 AAAAA-TTAAAAAATGTATTTTAAAAATATTTTAAAATTAA
16405144 AAAAA-TAAAAA
1 AAAAATTAAAAA
16405155 TATTTATTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
39 33 0.42
40 12 0.15
41 9 0.11
42 25 0.32
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (40 bp):
AAAAATTAAAAAATGTATTTTAAAAATATTTTAAAATTAA
Found at i:16405445 original size:9 final size:9
Alignment explanation
Indices: 16405432--16405463 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
16405422 TCGGGTATTT
*
16405432 TAATTCGGT
1 TAATTCGGG
16405441 TAATTCGGG
1 TAATTCGGG
16405450 TAATTCGGG
1 TAATTCGGG
16405459 TAATT
1 TAATT
16405464 TTTAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (9 bp):
TAATTCGGG
Found at i:16407410 original size:14 final size:14
Alignment explanation
Indices: 16407393--16407442 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
16407383 GTTTGGGTTT
16407393 TTTAGGTTTTAGGG
1 TTTAGGTTTTAGGG
*
16407407 TTTAGGGTTTAGGG
1 TTTAGGTTTTAGGG
**
16407421 TACAGGCTTTTTAGGG
1 TTTAGG--TTTTAGGG
16407437 TTTAGG
1 TTTAGG
16407443 GATCCCGGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
14 17 0.61
16 11 0.39
ACGTcount: A:0.16, C:0.04, G:0.36, T:0.44
Consensus pattern (14 bp):
TTTAGGTTTTAGGG
Found at i:16412391 original size:28 final size:29
Alignment explanation
Indices: 16412358--16412414 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
16412348 TTGAAAATAT
16412358 TAAAAAT-TTTAAAATTATT-TTAAAAAAA
1 TAAAAATATTTAAAATT-TTCTTAAAAAAA
16412386 TAAAAATATTTAAAATTTTCTTAAAAAAA
1 TAAAAATATTTAAAATTTTCTTAAAAAAA
16412415 ATGAAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAAAATATTTAAAATTTTCTTAAAAAAA
Found at i:16412495 original size:11 final size:11
Alignment explanation
Indices: 16412463--16412543 Score: 50
Period size: 11 Copynumber: 7.6 Consensus size: 11
16412453 AGAGATTTTT
*
16412463 GAAGGAAATTG
1 GAAGGAATTTG
*
16412474 GAAGGATTTTG
1 GAAGGAATTTG
16412485 GAAGGAATTT-
1 GAAGGAATTTG
*
16412495 G-A-GAGTTT-
1 GAAGGAATTTG
16412503 -AAGAGAATTTTG
1 GAAG-GAA-TTTG
16412515 GAAGGAATTT-
1 GAAGGAATTTG
16412525 G-AGAGAATTTTG
1 GAAG-GAA-TTTG
16412537 GAAGGAA
1 GAAGGAA
16412544 ATTGAGAGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
8 6 0.11
9 3 0.05
10 7 0.13
11 27 0.49
12 7 0.13
13 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.28
Consensus pattern (11 bp):
GAAGGAATTTG
Found at i:16412519 original size:52 final size:53
Alignment explanation
Indices: 16412452--16412551 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
16412442 ATATGGATTT
* * *
16412452 GAGAGATTTTTGAAGGAAATTGGA-AGGATTTTGGAAGGAATTTGAGAGTTTAA
1 GAGAGATTTTGGAAGG-AATTGGAGAGAATTTTGGAAGGAAATTGAGAGTTTAA
*
16412505 GAGA-ATTTTGGAAGGAATTTGAGAGAATTTTGGAAGGAAATTGAGAG
1 GAGAGATTTTGGAAGGAATTGGAGAGAATTTTGGAAGGAAATTGAGAG
16412552 AATATTTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 6 0.14
52 32 0.76
53 4 0.10
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (53 bp):
GAGAGATTTTGGAAGGAATTGGAGAGAATTTTGGAAGGAAATTGAGAGTTTAA
Found at i:16412529 original size:22 final size:22
Alignment explanation
Indices: 16412504--16412559 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
16412494 TGAGAGTTTA
*
16412504 AGAGAATTTTGGAAGGAATTTG
1 AGAGAATTTTGGAAGGAAATTG
16412526 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
16412548 AGAGAATATTTG
1 AGAGAAT-TTTG
16412560 TTTGTGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:16412816 original size:29 final size:29
Alignment explanation
Indices: 16412762--16412823 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
16412752 TTCGCGGAAT
*
16412762 TGGCCCATTCCGGTAAATAATTAAAAAAG
1 TGGCCCATTCCGGTAAATAATTAAAAAAA
* *
16412791 TGGCCCATTTCGGTAAAT-TTTGAAAAAAA
1 TGGCCCATTCCGGTAAATAATT-AAAAAAA
16412820 TGGC
1 TGGC
16412824 TTTTTTTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.27
Consensus pattern (29 bp):
TGGCCCATTCCGGTAAATAATTAAAAAAA
Found at i:16420677 original size:15 final size:14
Alignment explanation
Indices: 16420657--16420704 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
16420647 ACACGCAAGC
16420657 AAAAGAAGACAACAG
1 AAAAGAAGACAA-AG
*
16420672 AAAAGAAAACAAAG
1 AAAAGAAGACAAAG
*
16420686 AAACAGAAG-CAAAC
1 AAA-AGAAGACAAAG
16420700 AAAAG
1 AAAAG
16420705 GAAAGAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 2 0.07
14 12 0.41
15 15 0.52
ACGTcount: A:0.71, C:0.12, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAAGACAAAG
Found at i:16426714 original size:19 final size:19
Alignment explanation
Indices: 16426672--16426714 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
16426662 GTCTCTTTTT
*
16426672 TGCATTCATTTCATTCATC
1 TGCATTCATTTCATTCATA
*
16426691 CGCATTACATTTCA-TCATA
1 TGCATT-CATTTCATTCATA
16426710 TGCAT
1 TGCAT
16426715 CAAGGGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.42
Consensus pattern (19 bp):
TGCATTCATTTCATTCATA
Found at i:16432943 original size:77 final size:77
Alignment explanation
Indices: 16432816--16433122 Score: 517
Period size: 77 Copynumber: 4.0 Consensus size: 77
16432806 CTTTAAAGTC
*
16432816 TATCCTTATCAAAGGCTATTCCTTTGGTCAAT-TAAATTACACAAATTGAACACAAATCAAAAAC
1 TATCCTTATCAAAGGCTATTCCTTTGGTCAATAT-AATTACACAAATTGAACTCAAATCAAAAAC
16432880 CCTAATTCCCAGT
65 CCTAATTCCCAGT
* *
16432893 TATCCTTATCAAAGGCTATTCCTTTGGTCAATATAATTACACAAATTGAACTCCAATTAAAAACC
1 TATCCTTATCAAAGGCTATTCCTTTGGTCAATATAATTACACAAATTGAACTCAAATCAAAAACC
16432958 CTAATTCCCAGT
66 CTAATTCCCAGT
* *
16432970 TATCCTTATCAAAGGCTATTCCTTTGGTCAATATAACTACACAAATTGAACTCCAATCAAAAACC
1 TATCCTTATCAAAGGCTATTCCTTTGGTCAATATAATTACACAAATTGAACTCAAATCAAAAACC
*
16433035 CTAATTCTCAGT
66 CTAATTCCCAGT
* *
16433047 TATACTTATCAAAGGCTATTCCTTTGGTCAATATAATTACACAAATTGAACTTCAAATAAAAAAC
1 TATCCTTATCAAAGGCTATTCCTTTGGTCAATATAATTACACAAATTGAAC-TCAAATCAAAAAC
16433112 CCTAATTCCCA
65 CCTAATTCCCA
16433123 ATTCCCCCAA
Statistics
Matches: 217, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
77 195 0.90
78 22 0.10
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.31
Consensus pattern (77 bp):
TATCCTTATCAAAGGCTATTCCTTTGGTCAATATAATTACACAAATTGAACTCAAATCAAAAACC
CTAATTCCCAGT
Found at i:16434048 original size:17 final size:18
Alignment explanation
Indices: 16434016--16434049 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16434006 GGGTCGTAAA
16434016 ACGACGACGTTTTCCAGC
1 ACGACGACGTTTTCCAGC
*
16434034 ACGATGACG-TTTCCAG
1 ACGACGACGTTTTCCAG
16434050 ATTCATCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (18 bp):
ACGACGACGTTTTCCAGC
Found at i:16434827 original size:700 final size:700
Alignment explanation
Indices: 16433488--16434887 Score: 2791
Period size: 700 Copynumber: 2.0 Consensus size: 700
16433478 TATATTATTT
16433488 GAAGCTCCAAGTGAATTAATATCAAACTTAACGAAATAATCAATTAAGTCCTTAATTGATAACTA
1 GAAGCTCCAAGTGAATTAATATCAAACTTAACGAAATAATCAATTAAGTCCTTAATTGATAACTA
16433553 TGAAAAGTTTGTTCTTAATTCACTAATAGCATCAGAAATAATTTAACACAAATTAAGCATTTAAA
66 TGAAAAGTTTGTTCTTAATTCACTAATAGCATCAGAAATAATTTAACACAAATTAAGCATTTAAA
16433618 ATTTTTTTTGTTGTTGTTTTTGGGTCCTTCAGTTCTCAGAAACCATCTCAAACCTGGGAAACCTT
131 ATTTTTTTTGTTGTTGTTTTTGGGTCCTTCAGTTCTCAGAAACCATCTCAAACCTGGGAAACCTT
16433683 TAACACTGTGCGTAAAAAATCCTGTGGAAAAAAGAGAAAAAAAGAAGCCACAAAAATACCCACAA
196 TAACACTGTGCGTAAAAAATCCTGTGGAAAAAAGAGAAAAAAAGAAGCCACAAAAATACCCACAA
16433748 AAAAAACCATATCAGTCTTCGGTAGATTCTAATTTCTAATTTAAAAAATATAAAAAAAGATTAAA
261 AAAAAACCATATCAGTCTTCGGTAGATTCTAATTTCTAATTTAAAAAATATAAAAAAAGATTAAA
16433813 TATTTAAATTTGTGTTGAACCTATGTTTTTTTTCTTATTTTTTTCTATTTTTTTTAAATTTCCAT
326 TATTTAAATTTGTGTTGAACCTATGTTTTTTTTCTTATTTTTTTCTATTTTTTTTAAATTTCCAT
16433878 CCACCATATGCATAAATCTGTTGTTATCTGTAAGCCAAAAACAAGAACAAAATCTTATCTGCAGA
391 CCACCATATGCATAAATCTGTTGTTATCTGTAAGCCAAAAACAAGAACAAAATCTTATCTGCAGA
16433943 AAAAGAGGGATATTTTTCAAAGAGATAATTATTAAAGGGGGGAAATTAGTTATGTACCTGATCGG
456 AAAAGAGGGATATTTTTCAAAGAGATAATTATTAAAGGGGGGAAATTAGTTATGTACCTGATCGG
*
16434008 GTCGTAAAACGACGACGTTTTCCAGCACGATGACGTTTCCAGATTCATCTAACGATTTAGCGAAC
521 GTCGTAAAACGACGACGTTTCCCAGCACGATGACGTTTCCAGATTCATCTAACGATTTAGCGAAC
16434073 TGCAATCCTTGTTCTGGATCCGAACAGCTTTCACCGCAGATCCGAATGAAATCCGAATACGAAAT
586 TGCAATCCTTGTTCTGGATCCGAACAGCTTTCACCGCAGATCCGAATGAAATCCGAATACGAAAT
16434138 CCAGGTTTTACCTGTCTTCATCAACCTCGTTTTCACCGCTTCCAACTGCC
651 CCAGGTTTTACCTGTCTTCATCAACCTCGTTTTCACCGCTTCCAACTGCC
16434188 GAAGCTCCAAGTGAATTAATATCAAACTTAACGAAATAATCAATTAAGTCCTTAATTGATAACTA
1 GAAGCTCCAAGTGAATTAATATCAAACTTAACGAAATAATCAATTAAGTCCTTAATTGATAACTA
16434253 TGAAAAGTTTGTTCTTAATTCACTAATAGCATCAGAAATAATTTAACACAAATTAAGCATTTAAA
66 TGAAAAGTTTGTTCTTAATTCACTAATAGCATCAGAAATAATTTAACACAAATTAAGCATTTAAA
16434318 ATTTTTTTTGTTGTTGTTTTTGGGTCCTTCAGTTCTCAGAAACCATCTCAAACCTGGGAAACCTT
131 ATTTTTTTTGTTGTTGTTTTTGGGTCCTTCAGTTCTCAGAAACCATCTCAAACCTGGGAAACCTT
16434383 TAACACTGTGCGTAAAAAATCCTGTGGAAAAAAGAGAAAAAAAGAAGCCACAAAAATACCCACAA
196 TAACACTGTGCGTAAAAAATCCTGTGGAAAAAAGAGAAAAAAAGAAGCCACAAAAATACCCACAA
16434448 AAAAAACCATATCAGTCTTCGGTAGATTCTAATTTCTAATTTAAAAAATATAAAAAAAGATTAAA
261 AAAAAACCATATCAGTCTTCGGTAGATTCTAATTTCTAATTTAAAAAATATAAAAAAAGATTAAA
16434513 TATTTAAATTTGTGTTGAACCTATGTTTTTTTTCTTATTTTTTTCTATTTTTTTTAAATTTCCAT
326 TATTTAAATTTGTGTTGAACCTATGTTTTTTTTCTTATTTTTTTCTATTTTTTTTAAATTTCCAT
16434578 CCACCATATGCATAAATCTGTTGTTATCTGTAAGCCAAAAACAAGAACAAAATCTTATCTGCAGA
391 CCACCATATGCATAAATCTGTTGTTATCTGTAAGCCAAAAACAAGAACAAAATCTTATCTGCAGA
16434643 AAAAGAGGGATATTTTTCAAAGAGATAATTATTAAAGGGGGGAAATTAGTTATGTACCTGATCGG
456 AAAAGAGGGATATTTTTCAAAGAGATAATTATTAAAGGGGGGAAATTAGTTATGTACCTGATCGG
16434708 GTCGTAAAACGACGACGTTTCCCAGCACGATGACGTTTCCAGATTCATCTAACGATTTAGCGAAC
521 GTCGTAAAACGACGACGTTTCCCAGCACGATGACGTTTCCAGATTCATCTAACGATTTAGCGAAC
16434773 TGCAATCCTTGTTCTGGATCCGAACAGCTTTCACCGCAGATCCGAATGAAATCCGAATACGAAAT
586 TGCAATCCTTGTTCTGGATCCGAACAGCTTTCACCGCAGATCCGAATGAAATCCGAATACGAAAT
16434838 CCAGGTTTTACCTGTCTTCATCAACCTCGTTTTCACCGCTTCCAACTGCC
651 CCAGGTTTTACCTGTCTTCATCAACCTCGTTTTCACCGCTTCCAACTGCC
16434888 CCACCCTTAA
Statistics
Matches: 699, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
700 699 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (700 bp):
GAAGCTCCAAGTGAATTAATATCAAACTTAACGAAATAATCAATTAAGTCCTTAATTGATAACTA
TGAAAAGTTTGTTCTTAATTCACTAATAGCATCAGAAATAATTTAACACAAATTAAGCATTTAAA
ATTTTTTTTGTTGTTGTTTTTGGGTCCTTCAGTTCTCAGAAACCATCTCAAACCTGGGAAACCTT
TAACACTGTGCGTAAAAAATCCTGTGGAAAAAAGAGAAAAAAAGAAGCCACAAAAATACCCACAA
AAAAAACCATATCAGTCTTCGGTAGATTCTAATTTCTAATTTAAAAAATATAAAAAAAGATTAAA
TATTTAAATTTGTGTTGAACCTATGTTTTTTTTCTTATTTTTTTCTATTTTTTTTAAATTTCCAT
CCACCATATGCATAAATCTGTTGTTATCTGTAAGCCAAAAACAAGAACAAAATCTTATCTGCAGA
AAAAGAGGGATATTTTTCAAAGAGATAATTATTAAAGGGGGGAAATTAGTTATGTACCTGATCGG
GTCGTAAAACGACGACGTTTCCCAGCACGATGACGTTTCCAGATTCATCTAACGATTTAGCGAAC
TGCAATCCTTGTTCTGGATCCGAACAGCTTTCACCGCAGATCCGAATGAAATCCGAATACGAAAT
CCAGGTTTTACCTGTCTTCATCAACCTCGTTTTCACCGCTTCCAACTGCC
Found at i:16435077 original size:108 final size:108
Alignment explanation
Indices: 16434888--16435102 Score: 421
Period size: 108 Copynumber: 2.0 Consensus size: 108
16434878 TCCAACTGCC
*
16434888 CCACCCTTAATAACTTCTTCAATTCCTGAACCGACAACGAAGTCACCTCCGTCACCACCGGTTTA
1 CCACCCTTAATAACTTCTTCAATTCCTGAACCGACAACGAAGTCACCTCCGGCACCACCGGTTTA
16434953 GCCGTCAAGACCGGGTTCAAGTTCAACCCGTCTAAACGGATCG
66 GCCGTCAAGACCGGGTTCAAGTTCAACCCGTCTAAACGGATCG
16434996 CCACCCTTAATAACTTCTTCAATTCCTGAACCGACAACGAAGTCACCTCCGGCACCACCGGTTTA
1 CCACCCTTAATAACTTCTTCAATTCCTGAACCGACAACGAAGTCACCTCCGGCACCACCGGTTTA
16435061 GCCGTCAAGACCGGGTTCAAGTTCAACCCGTCTAAACGGATC
66 GCCGTCAAGACCGGGTTCAAGTTCAACCCGTCTAAACGGATC
16435103 CGATCCTTCG
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (108 bp):
CCACCCTTAATAACTTCTTCAATTCCTGAACCGACAACGAAGTCACCTCCGGCACCACCGGTTTA
GCCGTCAAGACCGGGTTCAAGTTCAACCCGTCTAAACGGATCG
Found at i:16440029 original size:17 final size:18
Alignment explanation
Indices: 16440006--16440057 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
16439996 CTTTTATCTT
16440006 TTTTTTTAAAATATTTTA
1 TTTTTTTAAAATATTTTA
16440024 -TTTTTT-AAATATTTTTA
1 TTTTTTTAAAATA-TTTTA
*
16440041 TTATTTTTAAATTATTT
1 TT-TTTTTAAAATATTT
16440058 GTTGATCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.17
17 11 0.38
18 1 0.03
19 8 0.28
20 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTTAAAATATTTTA
Found at i:16448739 original size:16 final size:13
Alignment explanation
Indices: 16448705--16448732 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16448695 TTTTATTTTA
16448705 TTATTTATCATCT
1 TTATTTATCATCT
16448718 TTATTTATCATCT
1 TTATTTATCATCT
16448731 TT
1 TT
16448733 CCAATTTTGT
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:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:16452330 original size:13 final size:13
Alignment explanation
Indices: 16452320--16452344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16452310 ATATAAAATT
16452320 TAAAAATAAAAAC
1 TAAAAATAAAAAC
16452333 TAAAAATAAAAA
1 TAAAAATAAAAA
16452345 AAAATAAGAG
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:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAC
Found at i:16453076 original size:13 final size:13
Alignment explanation
Indices: 16453060--16453115 Score: 103
Period size: 13 Copynumber: 4.3 Consensus size: 13
16453050 TAAAGTCACC
16453060 CCGTAAAAATTAA
1 CCGTAAAAATTAA
16453073 CCGTAAAAATTAA
1 CCGTAAAAATTAA
*
16453086 CTGTAAAAATTAA
1 CCGTAAAAATTAA
16453099 CCGTAAAAATTAA
1 CCGTAAAAATTAA
16453112 CCGT
1 CCGT
16453116 CCGTAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (13 bp):
CCGTAAAAATTAA
Found at i:16453195 original size:2 final size:2
Alignment explanation
Indices: 16453188--16453253 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
16453178 AATGCCAAAA
16453188 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16453230 AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG
16453254 CGAGCTTTAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16455688 original size:40 final size:38
Alignment explanation
Indices: 16455617--16455732 Score: 115
Period size: 39 Copynumber: 2.9 Consensus size: 38
16455607 ACTAAAAAGC
* * * * **
16455617 AAGCATTAGCGGCGCTTCTATAAAAATGCCGCTAAAGGT
1 AAGCATTAGCGGCGCTT-TTTGAAAACGCCGCAAAAAAT
*
16455656 CGAGCATTAGCGGCGCTTTTTGGAAAACGCCGCAAAAAAT
1 -AAGCATTAGCGGCGCTTTTT-GAAAACGCCGCAAAAAAT
* *
16455696 AAGCATTAGCGGTGTTTTTTGAAAAGCGCCGCAAAAA
1 AAGCATTAGCGGCGCTTTTTGAAAA-CGCCGCAAAAA
16455733 GGCTAAGCCT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
38 5 0.08
39 30 0.47
40 29 0.45
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (38 bp):
AAGCATTAGCGGCGCTTTTTGAAAACGCCGCAAAAAAT
Found at i:16455732 original size:38 final size:39
Alignment explanation
Indices: 16455658--16455732 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
16455648 CTAAAGGTCG
16455658 AGCATTAGCGGCGCTTTTTGGAAAACGCCGCAAAAAATA
1 AGCATTAGCGGCGCTTTTTGGAAAACGCCGCAAAAAATA
* *
16455697 AGCATTAGCGGTG-TTTTTTGAAAAGCGCCGCAAAAA
1 AGCATTAGCGGCGCTTTTTGGAAAA-CGCCGCAAAAA
16455733 GGCTAAGCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 10 0.30
39 23 0.70
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (39 bp):
AGCATTAGCGGCGCTTTTTGGAAAACGCCGCAAAAAATA
Found at i:16455835 original size:41 final size:41
Alignment explanation
Indices: 16455773--16456012 Score: 354
Period size: 41 Copynumber: 5.9 Consensus size: 41
16455763 TTTAGGGGGT
* *
16455773 CTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCAGGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGC
* *
16455814 CTTTAGCGGCGTTTTTAAAGAAGCGCCGCTACTGCTCGGGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGC
**
16455855 CTTTAGCGTTGTTTTTGAAGAAGCGCCGCTAATGCTCGGGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGC
* * *
16455896 CTTTAGCGGCATTTTTGAGGAAGCGTCGCTAATGCTCGGGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGC
* *
16455937 CTTTAGTGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGAGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGC
* * *
16455978 CTTTAGAGGCGTTTTTTAAAAAGCGCCGCTAATGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
16456013 CTGTTTTTGT
Statistics
Matches: 178, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 178 1.00
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGC
Found at i:16456719 original size:14 final size:15
Alignment explanation
Indices: 16456692--16456723 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
16456682 AGGTTTATAT
16456692 ATTATGGAATTAGGG
1 ATTATGGAATTAGGG
16456707 ATTATGG-ATTAGGG
1 ATTATGGAATTAGGG
16456721 ATT
1 ATT
16456724 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
ATTATGGAATTAGGG
Found at i:16456922 original size:82 final size:83
Alignment explanation
Indices: 16456785--16456987 Score: 286
Period size: 82 Copynumber: 2.5 Consensus size: 83
16456775 GAGTTAGGGA
* * * * * *
16456785 TTTAGGGTTTATGGATTCAGTGTCAGGTTAGGCTTT-AGAGTTTAGATTAATTAGTGTATTT-TA
1 TTTAGGGGTTAGGGATTCGGGGTCAGGTTAGGGTTTGAGAGTTTAGACTAATTAGTGT-TTTCTA
16456848 ATTTATATATTAAATAATG
65 ATTTATATATTAAATAATG
* *
16456867 TTTAGGGGTTAGGGATTCGGGGTCGGGTTAGGGTTTGTGA-TTTAGACTAATTAGTGTTTTCTAA
1 TTTAGGGGTTAGGGATTCGGGGTCAGGTTAGGGTTTGAGAGTTTAGACTAATTAGTGTTTTCTAA
16456931 TTTATATATTAAATAATG
66 TTTATATATTAAATAATG
* *
16456949 TTTAGAGGTTAGGGATTTGGGGTCAGGTTAGGGTTTGAG
1 TTTAGGGGTTAGGGATTCGGGGTCAGGTTAGGGTTTGAG
16456988 GATTAGGGAT
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 3 0.03
82 102 0.95
83 2 0.02
ACGTcount: A:0.25, C:0.04, G:0.28, T:0.43
Consensus pattern (83 bp):
TTTAGGGGTTAGGGATTCGGGGTCAGGTTAGGGTTTGAGAGTTTAGACTAATTAGTGTTTTCTAA
TTTATATATTAAATAATG
Found at i:16456978 original size:19 final size:19
Alignment explanation
Indices: 16456954--16457014 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
16456944 TAATGTTTAG
16456954 AGGTTAGGGATTTGGGGTC
1 AGGTTAGGGATTTGGGGTC
*
16456973 AGGTTAGGG-TTTGAGG--
1 AGGTTAGGGATTTGGGGTC
*
16456989 A--TTAGGGATTTAGGGTC
1 AGGTTAGGGATTTGGGGTC
*
16457006 GGGTTAGGG
1 AGGTTAGGG
16457015 TTTAGGATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 6 0.18
15 5 0.15
16 1 0.03
18 6 0.18
19 15 0.45
ACGTcount: A:0.18, C:0.03, G:0.48, T:0.31
Consensus pattern (19 bp):
AGGTTAGGGATTTGGGGTC
Found at i:16456999 original size:33 final size:33
Alignment explanation
Indices: 16456948--16457023 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
16456938 ATTAAATAAT
*
16456948 GTTTAGAGG-TTAGGGATTTGGGGTCAGGTTAGG
1 GTTT-GAGGATTAGGGATTTAGGGTCAGGTTAGG
*
16456981 GTTTGAGGATTAGGGATTTAGGGTCGGGTTAGG
1 GTTTGAGGATTAGGGATTTAGGGTCAGGTTAGG
16457014 GTTT-AGGATT
1 GTTTGAGGATT
16457024 TAGATTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 10 0.25
33 30 0.75
ACGTcount: A:0.18, C:0.03, G:0.43, T:0.36
Consensus pattern (33 bp):
GTTTGAGGATTAGGGATTTAGGGTCAGGTTAGG
Found at i:16457099 original size:115 final size:107
Alignment explanation
Indices: 16456875--16457173 Score: 318
Period size: 115 Copynumber: 2.7 Consensus size: 107
16456865 TGTTTAGGGG
** *
16456875 TTAGGGATTCGGGGTCGGGTTAGGGTTT-GTGATTTAGACTAATTAGTGTTTTCTAATTTATATA
1 TTAGGGATTTAGGGTCGGGTTAGGGTTTAG-GATTTAGATTAATTAGTGTTTT-TAATTTATATA
* * *
16456939 TTAAATAATGTTTAGAGGTTAGGGATTTGGGGTCAGGTTAGGGTTT
64 TTAAATAA-GTTTAGAGGTTAGGGATTAGAGGTCAAGTTAGGG-TT
16456985 GAGGATTAGGGATTTAGGGTCGGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTAATTTAT
1 -----TTAGGGATTTAGGGTCGGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTAATTTAT
* * * *
16457050 ATATTAAATAAGATTTA-AGGTTTGGGGTTAAGAGTTAACAATTTA-GGTT
61 ATATTAAATAAG-TTTAGAGGTTAGGGATT-AGAGGT--CAAGTTAGGGTT
* *
16457099 TTAGAGATTTAGGGTCGGGTTAGGGTTTAAGG-TTTAGATTAATTAGTATTTTTTAATTTATATA
1 TTAGGGATTTAGGGTCGGGTTAGGGTTT-AGGATTTAGATTAATTAGT-GTTTTTAATTTATATA
*
16457163 CTAAATAAGTT
64 TTAAATAAGTT
16457174 CTTATATAAT
Statistics
Matches: 164, Mismatches: 13, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
109 44 0.27
110 26 0.16
113 11 0.07
114 28 0.17
115 49 0.30
116 6 0.04
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.42
Consensus pattern (107 bp):
TTAGGGATTTAGGGTCGGGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTAATTTATATATT
AAATAAGTTTAGAGGTTAGGGATTAGAGGTCAAGTTAGGGTT
Found at i:16457950 original size:25 final size:25
Alignment explanation
Indices: 16457922--16457978 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
16457912 TAGCAGAGTA
16457922 AAATAATGTCATTTTGTGCAAAATG
1 AAATAATGTCATTTTGTGCAAAATG
*
16457947 AAATAATGTCGTTTTGTGCAAAATG
1 AAATAATGTCATTTTGTGCAAAATG
16457972 AAATAAT
1 AAATAAT
16457979 TTTTTGCGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (25 bp):
AAATAATGTCATTTTGTGCAAAATG
Found at i:16459748 original size:21 final size:21
Alignment explanation
Indices: 16459724--16459774 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
16459714 ACTTTATTGC
16459724 TTTCAAATTGGCGATTTAAAT
1 TTTCAAATTGGCGATTTAAAT
*
16459745 TTTCAAACTGGCGATTTAAAT
1 TTTCAAATTGGCGATTTAAAT
16459766 TTTCAAATT
1 TTTCAAATT
16459775 TGACTTATTG
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:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (21 bp):
TTTCAAATTGGCGATTTAAAT
Found at i:16461480 original size:5 final size:5
Alignment explanation
Indices: 16461470--16461494 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16461460 TTTAATAGAA
16461470 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
16461495 TTTATCTTTA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:16461657 original size:42 final size:43
Alignment explanation
Indices: 16461599--16461830 Score: 256
Period size: 42 Copynumber: 5.5 Consensus size: 43
16461589 TTTTTAAAAG
* **
16461599 CATG-TTTTTAGCGGCGTTTGTGA-AAAAGTGTTGCTAAAGGT
1 CATGATTTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGT
* *
16461640 CATGTTTTTTAGCGGCGTTTGTGGCAAAAAGCGCCGCTAAAGGT
1 CATGATTTTTAGCGGCGTTTGTGAC-AAAAGCGCCGCTAAAGGT
**
16461684 CAT-ATTTTTAGCGGTATTTGTGACAAAAGCGCCGCTAAAGGT
1 CATGATTTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGT
* * * * **
16461726 CATGATCTTTAGCGGCGTTTTTAATAAAAGCGCCGCTAAAGAC
1 CATGATTTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGT
* * **
16461769 CATGATCTTTAGCGGCGTTTGT-ATAAAAGCGCCGCTAAAGAC
1 CATGATTTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGT
* *
16461811 CATGATCTTTAGCAGCGTTT
1 CATGATTTTTAGCGGCGTTT
16461831 TTTTACATAA
Statistics
Matches: 169, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
41 4 0.02
42 78 0.46
43 69 0.41
44 18 0.11
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CATGATTTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGT
Found at i:16461764 original size:85 final size:84
Alignment explanation
Indices: 16461599--16461832 Score: 267
Period size: 85 Copynumber: 2.8 Consensus size: 84
16461589 TTTTTAAAAG
* ** * *
16461599 CATG-TTTTTAGCGGCGTTTGTGAAAAAGTGTTGCTAAAGGTCATGTTTTTTAGCGGCGTTTGTG
1 CATGATTTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTT-T-
** **
16461663 GCAAAAAGCGCCGCTAAAGGT
64 TAAAAAAGCGCCGCTAAAGAC
**
16461684 CAT-ATTTTTAGCGGTATTTGTGACAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTT
1 CATGATTTTTAGCGGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTT
16461748 AATAAAAGCGCCGCTAAAGAC
65 AA-AAAAGCGCCGCTAAAGAC
* ** *
16461769 CATGATCTTTAGCGGCGTTTGT-ATAAAAGCGCCGCTAAAGACCATGATCTTTAGCAGCGTTTTT
1 CATGATTTTTAGCGGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTT
16461833 TTACATAAAC
Statistics
Matches: 127, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
84 1 0.01
85 78 0.61
86 48 0.38
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (84 bp):
CATGATTTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCGTTTTTA
AAAAAGCGCCGCTAAAGAC
Found at i:16462011 original size:14 final size:15
Alignment explanation
Indices: 16461985--16462017 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
16461975 AAGGTTTATA
16461985 GATTATGGAATTAGG
1 GATTATGGAATTAGG
16462000 GATTAT-GAATTAGG
1 GATTATGGAATTAGG
16462014 GATT
1 GATT
16462018 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:16462259 original size:14 final size:14
Alignment explanation
Indices: 16462229--16462274 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
16462219 TAAATAAGAT
*
16462229 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
16462243 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
* *
16462257 TTAGAGGTTAAGAG
1 TTAGGGGTTAGGAG
16462271 TTAG
1 TTAG
16462275 TGATTTAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:16462273 original size:21 final size:21
Alignment explanation
Indices: 16462223--16462274 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
16462213 ATATATTAAA
*
16462223 TAAGATTTAGGGGTTAGTAGT
1 TAAGAGTTAGGGGTTAGTAGT
* *
16462244 TAGGGGTTAGGGGTTAG-AGGT
1 TAAGAGTTAGGGGTTAGTA-GT
16462265 TAAGAGTTAG
1 TAAGAGTTAG
16462275 TGATTTAGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.27, C:0.00, G:0.40, T:0.33
Consensus pattern (21 bp):
TAAGAGTTAGGGGTTAGTAGT
Found at i:16463345 original size:30 final size:30
Alignment explanation
Indices: 16463292--16463348 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
16463282 CTGCAGAAGA
* * **
16463292 AGAAGAAACATCTGTTGTTGAACAAGAACG
1 AGAAGAAACAACTGTCGCCGAACAAGAACG
16463322 AGAAGAAACAACTGTCGCCGAACAAGA
1 AGAAGAAACAACTGTCGCCGAACAAGA
16463349 GTCTGTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (30 bp):
AGAAGAAACAACTGTCGCCGAACAAGAACG
Found at i:16466368 original size:43 final size:43
Alignment explanation
Indices: 16466307--16466397 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
16466297 GTTTGAGTTC
* * * *
16466307 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGAATTATATATTTT
* *
16466349 ATTACCAAGATTTAGTTGATTAAGAAAATGAATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGAATTATATATTTT
16466392 ATTACC
1 ATTACC
16466398 TTGCATATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 4 0.10
43 38 0.90
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGAATTATATATTTT
Found at i:16466666 original size:32 final size:33
Alignment explanation
Indices: 16466630--16466693 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
16466620 CATAGAAATT
16466630 TAATATTTAT-TTGAAAA-ATAATAATATTTATA
1 TAATATTTATCTT-AAAACATAATAATATTTATA
16466662 TAATATTTATCCTTAAAACATAATAATATTTA
1 TAATATTTAT-CTTAAAACATAATAATATTTA
16466694 ATTTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 10 0.34
33 4 0.14
34 15 0.52
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (33 bp):
TAATATTTATCTTAAAACATAATAATATTTATA
Found at i:16466820 original size:43 final size:43
Alignment explanation
Indices: 16466744--16466993 Score: 247
Period size: 43 Copynumber: 5.8 Consensus size: 43
16466734 AAGATATATT
* * *
16466744 TTTAGTGGCGTTTGTGAGAAAAGCACCGCTAAAGGTCTAT-TC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTATGTC
* * * * *
16466786 TATAGCGGCGTTTGTGGGAAAAAGCGCCGCTAAAGCTCAATATA
1 TTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAGGTCTATGTC
* * *
16466830 TTTAGCGGCGTTTGTGGGAAAAGCGACACTAAAAGTCT-TGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTAT-GTC
* * * *
16466873 TTTAGCAGCGTTTTTTGTAAAAGCGCCGCTAAAGGTCT-TGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTAT-GTC
* * *
16466916 TTTAGCGGCGTTTTTTGTAAAAGCGCCGCTAAAAGGT-TATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGGTCTAT-GTC
* *
16466960 TTTAGCGGCGTTTGTTGGAAAAACGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
16466994 TTAGCGACGC
Statistics
Matches: 177, Mismatches: 26, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
42 16 0.09
43 105 0.59
44 56 0.32
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTATGTC
Found at i:16466846 original size:44 final size:44
Alignment explanation
Indices: 16466739--16466851 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
16466729 TTTAGAAGAT
* * * * *
16466739 ATATTTTTAGTGGCGTTTGTGAG-AAAAGCACCGCTAAAGGTCT
1 ATATATTTAGCGGCGTTTGTGGGAAAAAGCACCGCTAAAGCTCA
* * *
16466782 AT-TCTATAGCGGCGTTTGTGGGAAAAAGCGCCGCTAAAGCTCA
1 ATATATTTAGCGGCGTTTGTGGGAAAAAGCACCGCTAAAGCTCA
16466825 ATATATTTAGCGGCGTTTGTGGGAAAA
1 ATATATTTAGCGGCGTTTGTGGGAAAA
16466852 GCGACACTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 16 0.27
43 21 0.36
44 22 0.37
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (44 bp):
ATATATTTAGCGGCGTTTGTGGGAAAAAGCACCGCTAAAGCTCA
Found at i:16466992 original size:87 final size:88
Alignment explanation
Indices: 16466739--16466993 Score: 272
Period size: 86 Copynumber: 3.0 Consensus size: 88
16466729 TTTAGAAGAT
* * * * *
16466739 ATATTTTTAGTGGCGTTTGTGAGAAAAGCACCGCT-AAAGGTCTAT--TCTATAGCGGCGTTTGT
1 ATATATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTATGGTCTTTAGCGGCGTTTGT
*
16466801 GGGAAAAAGCGCCGCTAAAGCTCA
66 TGGAAAAA-CGCCGCTAAAGCTCA
* * * *
16466825 ATATATTTAGCGGCGTTTGTGGGAAAAGCGACACTAAAA-GTCT-TGGTCTTTAGCAGCGTTTTT
1 ATATATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTATGGTCTTTAGCGGCGTTTGT
* * *
16466888 TGTAAAAGCGCCGCTAAAGGTC-
66 TGGAAAAACGCCGCTAAAGCTCA
* * * * * *
16466910 TTGGTCTTTAGCGGCGTTTTTTGTAAAAGCGCCGCTAAAAGGT-TATGGTCTTTAGCGGCGTTTG
1 AT-ATATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTATGGTCTTTAGCGGCGTTTG
16466974 TTGGAAAAACGCCGCTAAAG
65 TTGGAAAAACGCCGCTAAAG
16466994 TTAGCGACGC
Statistics
Matches: 138, Mismatches: 25, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
85 2 0.01
86 77 0.56
87 59 0.43
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (88 bp):
ATATATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGGTCTATGGTCTTTAGCGGCGTTTGT
TGGAAAAACGCCGCTAAAGCTCA
Found at i:16474529 original size:159 final size:159
Alignment explanation
Indices: 16474239--16474554 Score: 524
Period size: 159 Copynumber: 2.0 Consensus size: 159
16474229 ATTTGCCAAA
16474239 ATATTGTGTATGAATTGTATTTGAATGGAATATTGATAAAATATATTAAATTGTGTTAATATAGA
1 ATATTGTGTATGAATTGTATTTGAATGGAATATTGATAAAATATATTAAATTGTGTTAATATAGA
* * *
16474304 TCAAGAAAGAAGAAATAGTGCAAGTGATCGGGGAAAAGAGAAAGTTATCGACTAAATTACAAAAA
66 TCAAGAAAGAAGAAATAGGGCAAGTGATCGGAGAAAAGAGAAAGTTATCAACTAAATTACAAAAA
* *
16474369 TAGTCGTTTTGCATCCGAGGTAAGTTATG
131 TAGTCATTTTGCATACGAGGTAAGTTATG
16474398 ATATTGTGTATGAATTGTATTTGAATGGAATATTGATAAAATATATTAAATTGTGTTAATATAGA
1 ATATTGTGTATGAATTGTATTTGAATGGAATATTGATAAAATATATTAAATTGTGTTAATATAGA
* * * * **
16474463 TCAAGAAAGAAGAAATAGGGGAAGTGATCGGAGAAAAGAGAAGGTTATTAACTAATTTACGGAAA
66 TCAAGAAAGAAGAAATAGGGCAAGTGATCGGAGAAAAGAGAAAGTTATCAACTAAATTACAAAAA
*
16474528 TAGTCATTTTGCATATGAGGTAAGTTA
131 TAGTCATTTTGCATACGAGGTAAGTTA
16474555 CGTGTGAATA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
159 145 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (159 bp):
ATATTGTGTATGAATTGTATTTGAATGGAATATTGATAAAATATATTAAATTGTGTTAATATAGA
TCAAGAAAGAAGAAATAGGGCAAGTGATCGGAGAAAAGAGAAAGTTATCAACTAAATTACAAAAA
TAGTCATTTTGCATACGAGGTAAGTTATG
Found at i:16474755 original size:8 final size:8
Alignment explanation
Indices: 16474742--16474770 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
16474732 CACTAGAGAC
16474742 CAGTGTTA
1 CAGTGTTA
16474750 CAGTGTTA
1 CAGTGTTA
16474758 CAGTGTTA
1 CAGTGTTA
16474766 CAGTG
1 CAGTG
16474771 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:16474884 original size:23 final size:23
Alignment explanation
Indices: 16474857--16475023 Score: 300
Period size: 23 Copynumber: 7.3 Consensus size: 23
16474847 AGTGTTATTG
16474857 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
16474880 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
16474903 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16474925 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16474948 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16474971 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16474994 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16475017 ATCAGTG
1 ATCAGTG
16475024 ACGTATCCGT
Statistics
Matches: 138, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
22 20 0.14
23 118 0.86
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:16482138 original size:32 final size:32
Alignment explanation
Indices: 16482102--16482171 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
16482092 GGTTTATTTC
16482102 AAGTTAATCAAGAATGAAGGATCATGTCCCGT
1 AAGTTAATCAAGAATGAAGGATCATGTCCCGT
*
16482134 AAGTTAATCGAGAATGAAGGATCATGTCCCGT
1 AAGTTAATCAAGAATGAAGGATCATGTCCCGT
16482166 AAGTTA
1 AAGTTA
16482172 GGACACAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (32 bp):
AAGTTAATCAAGAATGAAGGATCATGTCCCGT
Found at i:16482855 original size:60 final size:61
Alignment explanation
Indices: 16482730--16482849 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
16482720 AATGAAAAGG
* *
16482730 AAATATAAGTAATATCAAATTTAAATATTTTAAAAAGTAAAAAATAATAAATAAATAAAAC
1 AAATATAAATAATATCAAATTTAAACATTTTAAAAAGTAAAAAATAATAAATAAATAAAAC
* * *
16482791 AAATATAAATGATATTAAATTTAAGCA-TTTAAAAAGTAAAAGAATAATAAATAAATAAA
1 AAATATAAATAATATCAAATTTAAACATTTTAAAAAGTAAAA-AATAATAAATAAATAAA
16482850 TAAATAGATA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 14 0.26
61 39 0.74
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (61 bp):
AAATATAAATAATATCAAATTTAAACATTTTAAAAAGTAAAAAATAATAAATAAATAAAAC
Found at i:16482867 original size:73 final size:73
Alignment explanation
Indices: 16482767--16482934 Score: 225
Period size: 73 Copynumber: 2.3 Consensus size: 73
16482757 TTTTAAAAAG
* * *
16482767 TAAA-AAAT-AATAAATAAATAAAACAAATATAAATGATATTAAATTTAAGCATTTAAAAAGTAA
1 TAAATAAATAAATAAATAAATAAAACAAATATAAATAATATCAAATTTAAACATTTAAAAAGTAA
16482830 AAGAATAA
66 AAGAATAA
* * ** *
16482838 TAAATAAATAAATAAATAGATAAAACAAATTTAAATAATATCAAATTTAAATGTTTTAAAAGTAA
1 TAAATAAATAAATAAATAAATAAAACAAATATAAATAATATCAAATTTAAACATTTAAAAAGTAA
16482903 AAGAATAA
66 AAGAATAA
* *
16482911 CAAATAAATAAATAGATAAA-AAAA
1 TAAATAAATAAATAAATAAATAAAA
16482935 TATAAAAGGA
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
71 4 0.05
72 8 0.10
73 72 0.86
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (73 bp):
TAAATAAATAAATAAATAAATAAAACAAATATAAATAATATCAAATTTAAACATTTAAAAAGTAA
AAGAATAA
Found at i:16485967 original size:45 final size:45
Alignment explanation
Indices: 16485903--16486138 Score: 339
Period size: 45 Copynumber: 5.2 Consensus size: 45
16485893 ATGTGCTGAC
* *
16485903 TACTGTTACTGTTACCGATTCGATACTTTGTGTGTCAAATACTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGT
*
16485948 TACTGTTACTGTTACCGATTCAACACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGT
* *
16485993 TACTGTTACTATTACCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGT
* * *
16486038 TACTGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAATACTAT
1 TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGT
** * * *
16486083 TACCATTACTGTTACAGAATC-AGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGA-CACTTTGTGTGTCGAATACTGT
16486128 TACTGTTACTG
1 TACTGTTACTG
16486139 CTACTGCTAC
Statistics
Matches: 171, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 171 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGT
Found at i:16486153 original size:18 final size:18
Alignment explanation
Indices: 16486122--16486156 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16486112 GTGTGTTGAA
* *
16486122 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
16486140 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
16486157 ATTAATGATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:16493037 original size:21 final size:21
Alignment explanation
Indices: 16493011--16493051 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16493001 ATCTGCTCAA
* *
16493011 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
16493032 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
16493052 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:16497725 original size:265 final size:263
Alignment explanation
Indices: 16497247--16498410 Score: 1830
Period size: 263 Copynumber: 4.4 Consensus size: 263
16497237 AAAAAACAAG
* * **
16497247 CATATCCAATTTAAAGCATTTCTCAATGTAATAATATTTTTTT-AAGGTAACAAAGAATTCTAAT
1 CATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTTTTTCAAGGTAACAAAGAGTTCCGAT
* * *
16497311 TCATTGTCGAAATCGGTCCAAAGAAAACCGGATTCGGGGGAATAGGGATAGCACTTTAAGAGACT
66 TCATCGCCGAAATCGGTCCAAAGAAAACCGGATTAGGGGGAATAGGGATAGCACTTTAAGAGACT
* * *
16497376 AAAGTACAACACCACCTGCTAGGAAACAAGCATGGAGATGGGGGGCTAATGATTCAGTCAACACT
131 AAAGTACAACAACACCTGCTAGGAAACAAGCATGGAGATCGGGGGCTAATGATTCAATCAACACT
*
16497441 AAGAACATAGCAACATTGCATCACACACATATATATAAATAAATGTATGCATTCTCACAGCTGAA
196 AAGAACATAGCAGCATTGCATCACACAC-TATATATAAATAAATGTATGCATTCTCACAGCTGAA
16497506 -CGTA
260 TC-TA
* *
16497510 TATATCCAATGTAAAGCATTTGTCAATGTAATAATATTCTTTTTCAAGGTAACAAAGAGTTCCGA
1 CATATCCAATTTAAAGCATTTGTCAATGTAATAATATT-TTTTTCAAGGTAACAAAGAGTTCCGA
* * * *
16497575 TTCATCGCTGAAATCGGTCCAAAGAAAACAGGATTAGGGAGAATAGGGATAGCACTTTAAGAAAC
65 TTCATCGCCGAAATCGGTCCAAAGAAAACCGGATTAGGGGGAATAGGGATAGCACTTTAAGAGAC
16497640 TAAAGTACAACAACACCTGCTAGGAAACAAGCATGGAGATCGGGGGCTAATGATTCAATCAACAC
130 TAAAGTACAACAACACCTGCTAGGAAACAAGCATGGAGATCGGGGGCTAATGATTCAATCAACAC
*
16497705 TAAGAACATAGCAGCATTGCATCACACAC-ATATATAAATAAACGTATGCATTCTCACAGCTGAA
195 TAAGAACATAGCAGCATTGCATCACACACTATATATAAATAAATGTATGCATTCTCACAGCTGAA
16497769 TCTA
260 TCTA
*
16497773 CATATCCAATTTAAAACATTTGTCAATGTAATAATATTTTTTTTCAAGGTAACAAAGAGTTCCGA
1 CATATCCAATTTAAAGCATTTGTCAATGTAATAATA-TTTTTTTCAAGGTAACAAAGAGTTCCGA
* * *
16497838 TTTACCGCCGAAATCAGTCCAAAGAAAACCGGATTCA-GGGGAATAGGGATAGCACTTTAAGAGA
65 TTCATCGCCGAAATCGGTCCAAAGAAAACCGGATT-AGGGGGAATAGGGATAGCACTTTAAGAGA
* *
16497902 CTAAAGTACAACAACACCTGCTAGGAAATAAGCCTGGAGATCGGGGGCTAATGATTCAATCAACA
129 CTAAAGTACAACAACACCTGCTAGGAAACAAGCATGGAGATCGGGGGCTAATGATTCAATCAACA
16497967 CTAAGAACATAGCAGCATTGCATCACACACATATATATAAATAAATGTATGCATTCTCACAGCTG
194 CTAAGAACATAGCAGCATTGCATCACACAC-TATATATAAATAAATGTATGCATTCTCACAGCTG
16498032 AATCTA
258 AATCTA
* *
16498038 CATATCCAATTTAAAGCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGAT
1 CATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTTTTTCAAGGTAACAAAGAGTTCCGAT
*
16498103 TCATCGCCAAAATCGGTCCAAA-AAAACCGGATTAGGGGGAATAGGGATAGCACTTTAAGAGACT
66 TCATCGCCGAAATCGGTCCAAAGAAAACCGGATTAGGGGGAATAGGGATAGCACTTTAAGAGACT
* * *
16498167 AAAGTACAACAACATCTGCTAGTAAACAAGCATGGAGATCAGGGGCTAATGATTCAATCAACACT
131 AAAGTACAACAACACCTGCTAGGAAACAAGCATGGAGATCGGGGGCTAATGATTCAATCAACACT
* * * * *
16498232 AAGGACATA--TGCA-T-CA-CACACACT-TATAAAAATAAATATATGCATTCTAACAGCTGAAT
196 AAGAACATAGCAGCATTGCATCACACACTATATATAAATAAATGTATGCATTCTCACAGCTGAAT
*
16498291 GTA
261 CTA
* * *
16498294 CATATCCATTTTAAAGCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGAT
1 CATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTTTTTCAAGGTAACAAAGAGTTCCGAT
*
16498359 TCATCGCCAAAATCGGTCCAAA-AAAACCGGATTAGGGGGAATAGGGATAGCA
66 TCATCGCCGAAATCGGTCCAAAGAAAACCGGATTAGGGGGAATAGGGATAGCA
16498411 TTTGTCAATG
Statistics
Matches: 843, Mismatches: 50, Indels: 23
0.92 0.05 0.03
Matches are distributed among these distances:
256 150 0.18
257 1 0.00
258 7 0.01
259 2 0.00
260 1 0.00
261 3 0.00
262 1 0.00
263 386 0.46
264 54 0.06
265 238 0.28
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (263 bp):
CATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTTTTTCAAGGTAACAAAGAGTTCCGAT
TCATCGCCGAAATCGGTCCAAAGAAAACCGGATTAGGGGGAATAGGGATAGCACTTTAAGAGACT
AAAGTACAACAACACCTGCTAGGAAACAAGCATGGAGATCGGGGGCTAATGATTCAATCAACACT
AAGAACATAGCAGCATTGCATCACACACTATATATAAATAAATGTATGCATTCTCACAGCTGAAT
CTA
Found at i:16498480 original size:100 final size:100
Alignment explanation
Indices: 16498308--16498511 Score: 320
Period size: 100 Copynumber: 2.0 Consensus size: 100
16498298 TCCATTTTAA
*
16498308 AGCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGATTCATCGCCAAAATC
1 AGCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTCCGATTCATCGCCAAAATC
* **
16498373 GGTCCAAA-AAAACCGGATTAGGGGGAATAGGGAT
66 GGTCCAAAGAAAACAGGATTAGGACGAATAGGGAT
* *
16498407 AGCATTTGTCAATGTAATAATATTCTTTTTCAAGGTAACAAAGAGTTCCGATTCATCGCCGAAAT
1 AGCATTTGTCAATGTAATAATACT-TTTTTCAAGGTAACAAAGAGTTCCGATTCATCGCCAAAAT
* *
16498472 CGGTCCAAAGGAAACAGGATTAGGACGAATGGGGAT
65 CGGTCCAAAGAAAACAGGATTAGGACGAATAGGGAT
16498508 AGCA
1 AGCA
16498512 CTTTAAGAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 23 0.24
100 47 0.49
101 25 0.26
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (100 bp):
AGCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTCCGATTCATCGCCAAAATC
GGTCCAAAGAAAACAGGATTAGGACGAATAGGGAT
Found at i:16498969 original size:619 final size:619
Alignment explanation
Indices: 16497789--16499029 Score: 2211
Period size: 619 Copynumber: 2.0 Consensus size: 619
16497779 CAATTTAAAA
* *
16497789 CATTTGTCAATGTAATAATATTTTTTTTCAAGGTAACAAAGAGTTCCGATTTACCGCCGAAATCA
1 CATTTGTCAATGTAATAATATTCTTTTTCAAGGTAACAAAGAGTTCCGATTCACCGCCGAAATCA
* * *
16497854 GTCCAAAGAAAACCGGATTCAGGGGAATAGGGATAGCACTTTAAGAGACTAAAGTACAACAACAC
66 GTCCAAAGAAAACAGGATTCAGGCGAATAGGGATAGCACTTTAAGAAACTAAAGTACAACAACAC
* *
16497919 CTGCTAGGAAATAAGCCTGGAGATCGGGGGCTAATGATTCAATCAACACTAAGAACATAGCAGCA
131 CTGCTAGGAAACAAGCATGGAGATCGGGGGCTAATGATTCAATCAACACTAAGAACATAGCAGCA
*
16497984 TTGCATCACACACATATATATAAATAAATGTATGCATTCTCACAGCTGAATCTACATATCCAATT
196 TTGCATCACACACA-ATATATAAATAAACGTATGCATTCTCACAGCTGAATCTACATATCCAATT
*
16498049 TAAAGCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGATTCATCGCCAAA
260 TAAAGCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGATTCATCCCCAAA
*
16498114 ATCGGTCCAAAAAAACCGGATTAGGGGGAATAGGGATAGCACTTTAAGAGACTAAAGTACAACAA
325 ATCGGTCCAAAAAAACCAGATTAGGGGGAATAGGGATAGCACTTTAAGAGACTAAAGTACAACAA
16498179 CATCTGCTAGTAAACAAGCATGGAGATCAGGGGCTAATGATTCAATCAACACTAAGGACATATGC
390 CATCTGCTAGTAAACAAGCATGGAGATCAGGGGCTAATGATTCAATCAACACTAAGGACATATGC
16498244 ATCACACACACTTATAAAAATAAATATATGCATTCTAACAGCTGAATGTACATATCCATTTTAAA
455 ATCACACACACTTATAAAAATAAATATATGCATTCTAACAGCTGAATGTACATATCCATTTTAAA
*
16498309 GCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGATTCATCGCCAAAATCG
520 GCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGATTCATCGCCAAAATCA
16498374 GTCCAAAAAAACCGGATTAGGGGGAATAGGGATAG
585 GTCCAAAAAAACCGGATTAGGGGGAATAGGGATAG
* *
16498409 CATTTGTCAATGTAATAATATTCTTTTTCAAGGTAACAAAGAGTTCCGATTCATCGCCGAAATCG
1 CATTTGTCAATGTAATAATATTCTTTTTCAAGGTAACAAAGAGTTCCGATTCACCGCCGAAATCA
* * *
16498474 GTCCAAAGGAAACAGGATT-AGGACGAATGGGGATAGCACTTTAAGAAACTAAAGTACACCAACA
66 GTCCAAAGAAAACAGGATTCAGG-CGAATAGGGATAGCACTTTAAGAAACTAAAGTACAACAACA
16498538 CCTGCTAGGAAACAAGCATGGAGATCGGGGGCTAATGATTCAATCAACACTAAGAACATAGCAGC
130 CCTGCTAGGAAACAAGCATGGAGATCGGGGGCTAATGATTCAATCAACACTAAGAACATAGCAGC
*
16498603 ATTGCATCACACAC-ATATATAAATGAACGTATGCATTCTCACAGCTGAATCTACATATCCAATT
195 ATTGCATCACACACAATATATAAATAAACGTATGCATTCTCACAGCTGAATCTACATATCCAATT
* *
16498667 TAAAGCATTTGTCAATGTAATAATATTTATTTTCAAGGTAACAAAGAG-TTCTGATTCATCCCCG
260 TAAAGCATTTGTCAATGTAATAATACTT-TTTTCAAGGTAACAAAGAGTTTC-GATTCATCCCCA
* *
16498731 AAATCGGTCCGAAGAAAACCAGATT-GGGGGAATAGTGATAGCACTTTAAGAGACTAAAGTACAA
323 AAATCGGTCC-AAAAAAACCAGATTAGGGGGAATAGGGATAGCACTTTAAGAGACTAAAGTACAA
16498795 CAACATCTGCTAGTAAACAAGCATGGAGATCAGGGGCTAATGATTCAATCAACACTAAGGACATA
387 CAACATCTGCTAGTAAACAAGCATGGAGATCAGGGGCTAATGATTCAATCAACACTAAGGACATA
16498860 TGCATCACACACACTTATAAAAATAAATATATGCATTCTAACAGCTGAATGTACATATCCATTTT
452 TGCATCACACACACTTATAAAAATAAATATATGCATTCTAACAGCTGAATGTACATATCCATTTT
16498925 AAAGCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGATTCATCGCCAAAA
517 AAAGCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGATTCATCGCCAAAA
*
16498990 TCAGTTCAAAAAAACCGGATTAGGGGGAATAGGGATAG
582 TCAGTCCAAAAAAACCGGATTAGGGGGAATAGGGATAG
16499028 CA
1 CA
16499030 CTTTAAGAGA
Statistics
Matches: 595, Mismatches: 22, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
618 78 0.13
619 313 0.53
620 204 0.34
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (619 bp):
CATTTGTCAATGTAATAATATTCTTTTTCAAGGTAACAAAGAGTTCCGATTCACCGCCGAAATCA
GTCCAAAGAAAACAGGATTCAGGCGAATAGGGATAGCACTTTAAGAAACTAAAGTACAACAACAC
CTGCTAGGAAACAAGCATGGAGATCGGGGGCTAATGATTCAATCAACACTAAGAACATAGCAGCA
TTGCATCACACACAATATATAAATAAACGTATGCATTCTCACAGCTGAATCTACATATCCAATTT
AAAGCATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGATTCATCCCCAAAA
TCGGTCCAAAAAAACCAGATTAGGGGGAATAGGGATAGCACTTTAAGAGACTAAAGTACAACAAC
ATCTGCTAGTAAACAAGCATGGAGATCAGGGGCTAATGATTCAATCAACACTAAGGACATATGCA
TCACACACACTTATAAAAATAAATATATGCATTCTAACAGCTGAATGTACATATCCATTTTAAAG
CATTTGTCAATGTAATAATACTTTTTTCAAGGTAACAAAGAGTTTCGATTCATCGCCAAAATCAG
TCCAAAAAAACCGGATTAGGGGGAATAGGGATAG
Found at i:16503895 original size:29 final size:28
Alignment explanation
Indices: 16503827--16503887 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
16503817 AAAAATAATT
16503827 AAAATATTAT-AA-TTTTTTTATTTACC
1 AAAATATTATAAATTTTTTTTATTTACC
*
16503853 AAAATATTATAAATTTTTTTTATTTATC
1 AAAATATTATAAATTTTTTTTATTTACC
16503881 AAAATAT
1 AAAATAT
16503888 ACTAAAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 10 0.31
27 2 0.06
28 20 0.62
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
AAAATATTATAAATTTTTTTTATTTACC
Found at i:16504544 original size:19 final size:19
Alignment explanation
Indices: 16504520--16504578 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
16504510 TCTAATTAAG
*
16504520 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTCATT
* *
16504539 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTCATT
16504557 TAATAACTCTATTTTCATT
1 TAATAACTCTATTTTCATT
16504576 TAA
1 TAA
16504579 AATATAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTCATT
Found at i:16504866 original size:19 final size:19
Alignment explanation
Indices: 16504805--16504868 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
16504795 TTATTTTTTA
16504805 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
16504824 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
*
16504842 ACATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
16504861 AAATTAAA
1 AAATTAAA
16504869 CTATTTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:16505217 original size:27 final size:27
Alignment explanation
Indices: 16505179--16505235 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
16505169 TTAGTCCTTC
16505179 GGCACCATTGGTGCCGCCAATCACATT
1 GGCACCATTGGTGCCGCCAATCACATT
* *
16505206 GGCACCTTTGGTGCTGCCAATCACATT
1 GGCACCATTGGTGCCGCCAATCACATT
16505233 GGC
1 GGC
16505236 CTGATCAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.19, C:0.32, G:0.25, T:0.25
Consensus pattern (27 bp):
GGCACCATTGGTGCCGCCAATCACATT
Found at i:16505844 original size:265 final size:263
Alignment explanation
Indices: 16505373--16506557 Score: 1673
Period size: 265 Copynumber: 4.6 Consensus size: 263
16505363 AAAAAAAAAG
* *
16505373 CATATCCAATTTAAAGCATTTGTCAATGTAATAATA-TTTTTT-AAGGTAACAAAGAATTCTAAT
1 CATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTTTTTCAAGGTAACAAAGAGTTCCAAT
* *
16505436 TCATTG-TCGAAATCGGTCCAAAGAAAACCGGATTCGGGGTAATAGGGATAGCACTTTAAGAGAC
66 TCATCGCT-GAAATCGGTCCAAAGAAAACCGGATTCGGGGGAATAGGGATAGCACTTTAAGAGAC
*
16505500 TAAAGTACAACACCACCTGCTAGGAAACAAGCATGGAGATGGGGGGCTAATGATTCAGTCAACAC
130 TAAAGTACAACACCACCTGCTAGGAAACAAGCATGGAGATGGGGGGCTAATGATTCAATCAACAC
*
16505565 TAAGAACATAGCAACATTGCATCACACACATATATATAAATAAATGTATGCATTCTCACAGCTGA
195 TAAGAACATAGCAACATTGCATCACACACACATATATAAATAAATGTATGCATTCTCACAGCTGA
16505630 ACGTA
260 AC-TA
* * *
16505635 TATATCCAATGTAAAGCATTTGTCAATGTAATAATATTCTTTTTCAAGGTAACAAAGAGTTCCGA
1 CATATCCAATTTAAAGCATTTGTCAATGTAATAATATT-TTTTTCAAGGTAACAAAGAGTTCCAA
* * * *
16505700 TTCATCGCTGAAATCGGTCCAAAGAAAACAGGATTAGGGAGAATAGGGATAGCACTTTAAGAAAC
65 TTCATCGCTGAAATCGGTCCAAAGAAAACCGGATTCGGGGGAATAGGGATAGCACTTTAAGAGAC
* *
16505765 TAAAGTACAACAACACCTGCTAGGAAACAAGCATGGAGATGGGGGGCTAATGATTCAGTCAACAC
130 TAAAGTACAACACCACCTGCTAGGAAACAAGCATGGAGATGGGGGGCTAATGATTCAATCAACAC
* *
16505830 TAATAACATAGCAACATTGCATCACACACACATATATAAATAAACGTATGCATTCTCACAGCTGA
195 TAAGAACATAGCAACATTGCATCACACACACATATATAAATAAATGTATGCATTCTCACAGCTGA
*
16505895 GTCTA
260 -ACTA
* * **
16505900 CATATCCAGTTTAAAACATTTGTCAATGTAATAATATTTTTTTTCAAGGTAACAAAGAGTTCCGG
1 CATATCCAATTTAAAGCATTTGTCAATGTAATAATA-TTTTTTTCAAGGTAACAAAGAGTTCCAA
* * * *
16505965 TTTACCGCCGAAATCAGTCCAAAGAAAACCGGATTCGGGGGAATAGGGATAGCACTTTAAGAGAC
65 TTCATCGCTGAAATCGGTCCAAAGAAAACCGGATTCGGGGGAATAGGGATAGCACTTTAAGAGAC
* * * *
16506030 TAAAGTACAACAACACCTGCTAGGAAATAAGCCTGGAGATCGGGGGCTAATGATTCAATCAACAC
130 TAAAGTACAACACCACCTGCTAGGAAACAAGCATGGAGATGGGGGGCTAATGATTCAATCAACAC
* * *
16506095 TAAGAACATAGCAGCATTGCATCACACACACATATAAAAATAAATGTATGCATACTCACAGCTGA
195 TAAGAACATAGCAACATTGCATCACACACACATATATAAATAAATGTATGCATTCTCACAGCTGA
16506160 ATCTA
260 A-CTA
*
16506165 CATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTATTTTCAAGGTAACAAAGAATTCCAA
1 CATATCCAATTTAAAGCATTTGTCAATGTAATAATATTT-TTTTCAAGGTAACAAAGAGTTCCAA
* *
16506230 TTCATTG-TCGAAATCAGTCCAAAGAAAACCGGATTCGGGGGAATAGGGATAGCACTTTAAGAGA
65 TTCATCGCT-GAAATCGGTCCAAAGAAAACCGGATTCGGGGGAATAGGGATAGCACTTTAAGAGA
*
16506294 CTAAAGTACAACACCACCTGCT-GG------G-A---A-A-------CAAATGATTCAATCAACA
129 CTAAAGTACAACACCACCTGCTAGGAAACAAGCATGGAGATGGGGGGCTAATGATTCAATCAACA
* * * *
16506340 GTAGGAACATAGCAGCATTGCAT--CACACATATATATAAATAAATGTATGCATTCTCACAGCTG
194 CTAAGAACATAGCAACATTGCATCACACACACATATATAAATAAATGTATGCATTCTCACAGCTG
*
16506403 AATATA
259 AA-CTA
*
16506409 CATATCCAATTTAAAGGATTTGTCAATGTAATAATATTTATTTTCAAGGTAACAAAGAGTTCCAA
1 CATATCCAATTTAAAGCATTTGTCAATGTAATAATATTT-TTTTCAAGGTAACAAAGAGTTCCAA
* * * * *
16506474 TTCATCACCGAAATTGGTCCAAAGAAAACCAGATTCGGGGGTATAGGGATAGCACTTTAAGAGAC
65 TTCATCGCTGAAATCGGTCCAAAGAAAACCGGATTCGGGGGAATAGGGATAGCACTTTAAGAGAC
16506539 TAAAGTACAACACCACCTG
130 TAAAGTACAACACCACCTG
16506558 TTTCGGGTCA
Statistics
Matches: 847, Mismatches: 66, Indels: 38
0.89 0.07 0.04
Matches are distributed among these distances:
244 181 0.21
246 38 0.04
253 1 0.00
254 1 0.00
258 1 0.00
262 34 0.04
263 1 0.00
264 10 0.01
265 576 0.68
266 4 0.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (263 bp):
CATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTTTTTCAAGGTAACAAAGAGTTCCAAT
TCATCGCTGAAATCGGTCCAAAGAAAACCGGATTCGGGGGAATAGGGATAGCACTTTAAGAGACT
AAAGTACAACACCACCTGCTAGGAAACAAGCATGGAGATGGGGGGCTAATGATTCAATCAACACT
AAGAACATAGCAACATTGCATCACACACACATATATAAATAAATGTATGCATTCTCACAGCTGAA
CTA
Found at i:16506511 original size:244 final size:245
Alignment explanation
Indices: 16506078--16506557 Score: 809
Period size: 244 Copynumber: 2.0 Consensus size: 245
16506068 ATCGGGGGCT
16506078 AATGATTCAATCAACACTAAGAACATAGCAGCATTGCATCACACACACATATAAAAATAAATGTA
1 AATGATTCAATCAACACTAAGAACATAGCAGCATTGCAT-ACACACACATATAAAAATAAATGTA
*
16506143 TGCATACTCACAGCTGAATCTACATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTATTT
65 TGCATACTCACAGCTGAATATACATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTATTT
*** *
16506208 TCAAGGTAACAAAGAATTCCAATTCATTGTCGAAATCAGTCCAAAGAAAACCGGATTCGGGGGAA
130 TCAAGGTAACAAAGAATTCCAATTCATCACCGAAATCAGTCCAAAGAAAACCAGATTCGGGGGAA
16506273 TAGGGATAGCACTTTAAGAGACTAAAGTACAACACCACCTGCTGGGAAACA
195 TAGGGATAGCACTTTAAGAGACTAAAGTACAACACCACCTGCTGGGAAACA
* * * *
16506324 AATGATTCAATCAACAGTAGGAACATAGCAGCATTGCAT-CACACATATATATAAATAAATGTAT
1 AATGATTCAATCAACACTAAGAACATAGCAGCATTGCATACACACACATATAAAAATAAATGTAT
* *
16506388 GCATTCTCACAGCTGAATATACATATCCAATTTAAAGGATTTGTCAATGTAATAATATTTATTTT
66 GCATACTCACAGCTGAATATACATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTATTTT
* ** *
16506453 CAAGGTAACAAAGAGTTCCAATTCATCACCGAAATTGGTCCAAAGAAAACCAGATTCGGGGGTAT
131 CAAGGTAACAAAGAATTCCAATTCATCACCGAAATCAGTCCAAAGAAAACCAGATTCGGGGGAAT
16506518 AGGGATAGCACTTTAAGAGACTAAAGTACAACACCACCTG
196 AGGGATAGCACTTTAAGAGACTAAAGTACAACACCACCTG
16506558 TTTCGGGTCA
Statistics
Matches: 219, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
244 182 0.83
246 37 0.17
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.26
Consensus pattern (245 bp):
AATGATTCAATCAACACTAAGAACATAGCAGCATTGCATACACACACATATAAAAATAAATGTAT
GCATACTCACAGCTGAATATACATATCCAATTTAAAGCATTTGTCAATGTAATAATATTTATTTT
CAAGGTAACAAAGAATTCCAATTCATCACCGAAATCAGTCCAAAGAAAACCAGATTCGGGGGAAT
AGGGATAGCACTTTAAGAGACTAAAGTACAACACCACCTGCTGGGAAACA
Found at i:16512696 original size:42 final size:42
Alignment explanation
Indices: 16512626--16512721 Score: 99
Period size: 42 Copynumber: 2.3 Consensus size: 42
16512616 GAAAACACCA
*
16512626 CAAAAAGTTAGAGCTATAGCGGCATTTTT-TTCATAAA-CACTG
1 CAAAAAGTTAGGGCTATAGCGGCATTTTTATT-ATAAATCAC-G
* * **
16512668 CAAAAAGTTAGGGCTATAGC-TCTGTTTTTATTATAAATGGCG
1 CAAAAAGTTAGGGCTATAGCGGC-ATTTTTATTATAAATCACG
16512710 CAAAAAGTTAGG
1 CAAAAAGTTAGG
16512722 AAGCAATAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
41 1 0.02
42 42 0.91
43 3 0.07
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (42 bp):
CAAAAAGTTAGGGCTATAGCGGCATTTTTATTATAAATCACG
Found at i:16519050 original size:21 final size:21
Alignment explanation
Indices: 16519025--16519072 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
16519015 TTAAAATTCT
16519025 AAAAATCAAGGACCAAAAATG
1 AAAAATCAAGGACCAAAAATG
16519046 AAAAATCAAGGACCAAAAATG
1 AAAAATCAAGGACCAAAAATG
16519067 AAAAAT
1 AAAAAT
16519073 TAATTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAATCAAGGACCAAAAATG
Found at i:16525165 original size:27 final size:28
Alignment explanation
Indices: 16525126--16525180 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
16525116 ATATTCATAG
*
16525126 TCACTCAATTATTAGTAAAT-TTTTTTA
1 TCACTCAACTATTAGTAAATGTTTTTTA
*
16525153 TCACTTAACTATTAGTAAATGTTTTTTA
1 TCACTCAACTATTAGTAAATGTTTTTTA
16525181 GCTACCTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (28 bp):
TCACTCAACTATTAGTAAATGTTTTTTA
Found at i:16533397 original size:59 final size:59
Alignment explanation
Indices: 16533304--16533432 Score: 138
Period size: 58 Copynumber: 2.2 Consensus size: 59
16533294 TCTAATTAAA
* * * * *
16533304 ATTTTCAAAAATTTTGAGGGTTTACTTCAAATTTTTAAAACTTTT-AGGGGTTTAATGAG
1 ATTTTCAAAAATTGTGAGAGTTTACTT-AAAATTTTAAAACTTTTGAAGGGTTTAATAAG
* *
16533363 ATTTTTCAAAAATTGTG-GAGTTTGA-TTAAAATTTTAAAAGTTTTGAAGGTTTTAATAAG
1 A-TTTTCAAAAATTGTGAGAGTTT-ACTTAAAATTTTAAAACTTTTGAAGGGTTTAATAAG
*
16533422 AATTTCAAAAA
1 ATTTTCAAAAA
16533433 AGCTTAGAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
58 24 0.41
59 20 0.34
60 15 0.25
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.43
Consensus pattern (59 bp):
ATTTTCAAAAATTGTGAGAGTTTACTTAAAATTTTAAAACTTTTGAAGGGTTTAATAAG
Found at i:16551323 original size:15 final size:16
Alignment explanation
Indices: 16551305--16551338 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16551295 TTATTTTCCT
*
16551305 AAAAA-AAATGTTCTA
1 AAAAATAAATGTTCGA
16551320 AAAAATAAATGTTCGA
1 AAAAATAAATGTTCGA
16551336 AAA
1 AAA
16551339 TTTTGATATT
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:0.62, C:0.06, G:0.09, T:0.24
Consensus pattern (16 bp):
AAAAATAAATGTTCGA
Found at i:16556830 original size:28 final size:28
Alignment explanation
Indices: 16556780--16556834 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
16556770 CATAATTTTT
16556780 CTATATTTTTCATTTGTTAAAACTAATTC
1 CTATATTTTTCATTTGTTAAAAC-AATTC
* * *
16556809 CTATCTTTTT-ATTTTTTCAAACAATT
1 CTATATTTTTCATTTGTTAAAACAATT
16556835 TAATTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 10 0.43
29 9 0.39
ACGTcount: A:0.29, C:0.15, G:0.02, T:0.55
Consensus pattern (28 bp):
CTATATTTTTCATTTGTTAAAACAATTC
Found at i:16556854 original size:19 final size:19
Alignment explanation
Indices: 16556832--16556873 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
16556822 TTTTCAAACA
16556832 ATTTAATT-TTTTTCTTTTT
1 ATTTAATTATTTTTC-TTTT
**
16556851 ATTTCTTTATTTTTCTTTT
1 ATTTAATTATTTTTCTTTT
16556870 ATTT
1 ATTT
16556874 TTCCTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (19 bp):
ATTTAATTATTTTTCTTTT
Found at i:16566591 original size:21 final size:21
Alignment explanation
Indices: 16566565--16566604 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16566555 TATAAAAATA
*
16566565 ATATTA-ATATAATATTCTAAT
1 ATATTATAAATAA-ATTCTAAT
16566586 ATATTATAAATAAATTCTA
1 ATATTATAAATAAATTCTA
16566605 GTACTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTATAAATAAATTCTAAT
Found at i:16566630 original size:16 final size:16
Alignment explanation
Indices: 16566611--16566660 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 16
16566601 TCTAGTACTA
*
16566611 ATATATATTAGAATAT
1 ATATATAATAGAATAT
16566627 ATATATAATAGAATAGAT
1 ATATATAATAGAAT--AT
16566645 AAATATATAATAGAAT
1 --ATATATAATAGAAT
16566661 TAATATTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 13 0.45
18 2 0.07
20 14 0.48
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (16 bp):
ATATATAATAGAATAT
Found at i:16569042 original size:156 final size:150
Alignment explanation
Indices: 16568758--16569063 Score: 407
Period size: 156 Copynumber: 2.0 Consensus size: 150
16568748 CTATGGCACT
* ** *
16568758 GGCACCGGCTCCACCTCCGGCTAGCTTAAATGGAAGTTGTAGCACTAGTGTCAGCTTGATTAGCA
1 GGCACCAGCTCCACCTCCGGCTAGCTTAAATGGAAGTTGTAGCACTAGCATCAGCCTGATTAGCA
* * * *
16568823 GTGGTTGTAGCAGCAGCGGCGGTGTATTTTCGAGCTTATTTACCTCCTCGACTGTATCTGCAAGC
66 GTGGTTGTAGCAGCAGCAGCGGTGTATTTGCAAGCTTATTTACCTCCTCAACTGTATCTGCAAGC
*
16568888 ATTCGACCTCCTCAACCTCC
131 ATACGACCTCCTCAACCTCC
* ** *
16568908 GGCACCAGCTCCACCAT-CGGCTGGCTTAAATGGAAGTTGTAGCGGTAGCATCAGCCTGGTTAGC
1 GGCACCAGCTCCACC-TCCGGCTAGCTTAAATGGAAGTTGTAGCACTAGCATCAGCCTGATTAGC
* *
16568972 AGTGGTGCTAGCAATAGCAGCAGCAGTGGTGTATTTGCAAGCTTATTTGCCTCCTCAACTGTATC
65 AGTGGT--T-G---TAGCAGCAGCAGCGGTGTATTTGCAAGCTTATTTACCTCCTCAACTGTATC
16569037 TGCAAGCATACGACCTCCTCAACCTCC
124 TGCAAGCATACGACCTCCTCAACCTCC
16569064 TGCTTTAACC
Statistics
Matches: 134, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
150 60 0.45
151 1 0.01
152 1 0.01
153 1 0.01
156 71 0.53
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (150 bp):
GGCACCAGCTCCACCTCCGGCTAGCTTAAATGGAAGTTGTAGCACTAGCATCAGCCTGATTAGCA
GTGGTTGTAGCAGCAGCAGCGGTGTATTTGCAAGCTTATTTACCTCCTCAACTGTATCTGCAAGC
ATACGACCTCCTCAACCTCC
Found at i:16571898 original size:88 final size:86
Alignment explanation
Indices: 16571795--16572019 Score: 247
Period size: 89 Copynumber: 2.5 Consensus size: 86
16571785 AAATTTAGAA
** * *
16571795 TTTTTTTGATGCATTTTAACGGTTCAAGTATTCAATTGAGTGCAAAAAAA-AAGGGTTTAATTGC
1 TTTTTTTGATGCATTTTAAAAGTTCAAGTA-TCAATTGAGTGCAAAAAAAGAAGGGCTTAATTAC
16571859 TTTTTTTGAAAAAAAAATTGAAGG
65 TTTTTTTG--AAAAAAATTGAAGG
* * * * **
16571883 TCTTTTTT-ATACATTTTAAAAGTTCAAGTACCCAATTAAGTACAAAAAAAGGGCGGGGCTTAAT
1 T-TTTTTTGATGCATTTTAAAAGTTCAAGTA-TCAATTGAGTGCAAAAAAA--GAAGGGCTTAAT
**
16571947 TACTTTTTTTGAAAAAGTTTGAAGG
62 TACTTTTTTTGAAAAAAATTGAAGG
*
16571972 TTTTTTTGATGCATTTTAAAAGTTCAAGTATCGAATTGAGTGTAAAAA
1 TTTTTTTGATGCATTTTAAAAGTTCAAGTATC-AATTGAGTGCAAAAA
16572020 GAAATACAGG
Statistics
Matches: 113, Mismatches: 18, Indels: 11
0.80 0.13 0.08
Matches are distributed among these distances:
88 43 0.38
89 52 0.46
91 18 0.16
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.38
Consensus pattern (86 bp):
TTTTTTTGATGCATTTTAAAAGTTCAAGTATCAATTGAGTGCAAAAAAAGAAGGGCTTAATTACT
TTTTTTGAAAAAAATTGAAGG
Found at i:16572019 original size:89 final size:84
Alignment explanation
Indices: 16571778--16572019 Score: 247
Period size: 88 Copynumber: 2.8 Consensus size: 84
16571768 GAGGATTAAA
**
16571778 TTTTGAAAAATTTAGAA--TTTTTTTGATGCATTTTAACGGTTCAAGTATTCAATTGAGTGCAAA
1 TTTTGAAAAATTT-GAAGGTTTTTTTGATGCATTTTAAAAGTTCAAGTA-TCAATTGAGTGCAAA
* *
16571841 AAAAAAGGGTTTAATTGCTTT
64 AAAAAAGGGCTTAATTACTTT
* * * * *
16571862 TTTTGAAAAAAAAATTGAAGGTCTTTTTT-ATACATTTTAAAAGTTCAAGTACCCAATTAAGTAC
1 TTTTG---AAAAATTTGAAGGT-TTTTTTGATGCATTTTAAAAGTTCAAGTA-TCAATTGAGTGC
**
16571926 AAAAAAAGGGCGGGGCTTAATTACTTT
61 AAAAAAA---AAGGGCTTAATTACTTT
*
16571953 TTTTGAAAAAGTTTGAAGGTTTTTTTGATGCATTTTAAAAGTTCAAGTATCGAATTGAGTGTAAA
1 TTTTGAAAAA-TTTGAAGGTTTTTTTGATGCATTTTAAAAGTTCAAGTATC-AATTGAGTGCAAA
16572018 AA
64 AA
16572020 GAAATACAGG
Statistics
Matches: 128, Mismatches: 18, Indels: 19
0.78 0.11 0.12
Matches are distributed among these distances:
84 5 0.04
86 3 0.02
87 7 0.05
88 48 0.38
89 47 0.37
91 18 0.14
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (84 bp):
TTTTGAAAAATTTGAAGGTTTTTTTGATGCATTTTAAAAGTTCAAGTATCAATTGAGTGCAAAAA
AAAAGGGCTTAATTACTTT
Found at i:16586052 original size:31 final size:31
Alignment explanation
Indices: 16585998--16586063 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
16585988 GTAATTATAC
*
16585998 ACATGAAACTTTTATTGTGATTCAGATT-TAT
1 ACATGAAACTTTTATTGTAATTCA-ATTGTAT
*
16586029 ACATGAAAC-TTTACTTTTAATTCAATTGTAT
1 ACATGAAACTTTTA-TTGTAATTCAATTGTAT
16586060 ACAT
1 ACAT
16586064 TTAAGTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 7 0.23
31 24 0.77
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (31 bp):
ACATGAAACTTTTATTGTAATTCAATTGTAT
Found at i:16593296 original size:16 final size:16
Alignment explanation
Indices: 16593275--16593344 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
16593265 TTTGGTTCGC
* *
16593275 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
16593291 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
16593307 TATAATGGAATAGAGG
1 TGTAATGGAATAGAGG
16593323 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
16593339 TGTAAT
1 TGTAAT
16593345 AGCAAATCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.33, C:0.00, G:0.34, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:16593428 original size:39 final size:43
Alignment explanation
Indices: 16593323--16593432 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
16593313 GGAATAGAGG
16593323 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
** * ***
16593368 TGTAATGGAATAGAGACGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
16593408 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
16593433 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.40
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:16593599 original size:18 final size:17
Alignment explanation
Indices: 16593578--16593612 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16593568 TTATTATTAA
*
16593578 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16593596 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16593613 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Done.