Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 33 of 171
Found at i:15072592 original size:6 final size:6
Alignment explanation
Indices: 15072581--15072615 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
15072571 GAATGAGCAA
15072581 GGCATG GGCATG GGCATG GGCATG GGCATG GGCAT
1 GGCATG GGCATG GGCATG GGCATG GGCATG GGCAT
15072616 TATTCTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.49, T:0.17
Consensus pattern (6 bp):
GGCATG
Found at i:15074121 original size:29 final size:30
Alignment explanation
Indices: 15074083--15074186 Score: 99
Period size: 29 Copynumber: 3.5 Consensus size: 30
15074073 AAATTTGTCA
15074083 TTAAGTTATTGTATATTTTAAATTTTAGAAT
1 TTAAG-TATTGTATATTTTAAATTTTAGAAT
* *
15074114 TT-AGTATT-TATATTTTTATTTTTAGGAAT
1 TTAAGTATTGTATATTTTAAATTTTA-GAAT
* * * * *
15074143 TTAAATACTCTAT-TTTTAGATTTTAAAAT
1 TTAAGTATTGTATATTTTAAATTTTAGAAT
15074172 TTAAGTATTGT-TATT
1 TTAAGTATTGTATATT
15074187 AACATTGTTA
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
28 15 0.26
29 23 0.40
30 15 0.26
31 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.57
Consensus pattern (30 bp):
TTAAGTATTGTATATTTTAAATTTTAGAAT
Found at i:15086438 original size:15 final size:16
Alignment explanation
Indices: 15086411--15086444 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
15086401 TATATGTAAA
15086411 AAAGAATATAAATATC
1 AAAGAATATAAATATC
*
15086427 AAAGAA-ATAAATTTC
1 AAAGAATATAAATATC
15086442 AAA
1 AAA
15086445 ACTCCACGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (16 bp):
AAAGAATATAAATATC
Found at i:15087853 original size:2 final size:2
Alignment explanation
Indices: 15087846--15087894 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
15087836 TTATCACAGC
15087846 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15087888 CT CT CT C
1 CT CT CT C
15087895 ACCTGCTTGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:15089402 original size:6 final size:6
Alignment explanation
Indices: 15089393--15089429 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
15089383 AATTGGTATT
15089393 GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG G
1 GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG G
15089430 ATCGGTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGAAGG
Found at i:15094854 original size:2 final size:2
Alignment explanation
Indices: 15094847--15094911 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
15094837 TATATTTGTC
15094847 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15094889 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
15094912 ATTTTGAATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15095140 original size:3 final size:3
Alignment explanation
Indices: 15095132--15095156 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15095122 TGTATTCCTC
15095132 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
15095157 ATTGAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:15102799 original size:29 final size:29
Alignment explanation
Indices: 15102766--15102927 Score: 82
Period size: 30 Copynumber: 5.5 Consensus size: 29
15102756 GGTCAAAGGG
15102766 AATTTTGGAAAATTTAAGGGTAAAATAGT
1 AATTTTGGAAAATTTAAGGGTAAAATAGT
* ** *
15102795 AATTTTCGGTGAAA-TCGA-GGTCGAAAAT-GG
1 AATTTT-GG-AAAATTTAAGGGT--AAAATAGT
* * *
15102825 AATTTTGGAAAGTTTGAGGGTAAAATGGT
1 AATTTTGGAAAATTTAAGGGTAAAATAGT
* * * *
15102854 AATTTTTGACAAAATT-GGGGTTAAAA-ATGG
1 AATTTTGGA-AAATTTAAGGG-TAAAATA-GT
* * *
15102884 AATTTTGGAAAGTTTAGGGGTAAAATGGT
1 AATTTTGGAAAATTTAAGGGTAAAATAGT
*
15102913 AATTTTTGGACAATT
1 AA-TTTTGGAAAATT
15102928 CAGGGACCTA
Statistics
Matches: 99, Mismatches: 21, Indels: 25
0.68 0.14 0.17
Matches are distributed among these distances:
28 7 0.07
29 38 0.38
30 46 0.46
31 8 0.08
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (29 bp):
AATTTTGGAAAATTTAAGGGTAAAATAGT
Found at i:15102829 original size:30 final size:30
Alignment explanation
Indices: 15102730--15102830 Score: 79
Period size: 30 Copynumber: 3.4 Consensus size: 30
15102720 TCGCGGGAGC
15102730 AAAATGGTAATTTTCGGTGAAATCGAGGTC-
1 AAAATGG-AATTTTCGGTGAAATCGAGGTCG
* * **
15102760 -AAAGGGAATTTT-GG-AAAATTTAAGG--G
1 AAAATGGAATTTTCGGTGAAA-TCGAGGTCG
*
15102786 TAAAATAGTAATTTTCGGTGAAATCGAGGTCG
1 -AAAAT-GGAATTTTCGGTGAAATCGAGGTCG
15102818 AAAATGGAATTTT
1 AAAATGGAATTTT
15102831 GGAAAGTTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 18
0.65 0.12 0.22
Matches are distributed among these distances:
26 3 0.06
27 6 0.12
28 9 0.17
29 12 0.23
30 13 0.25
31 8 0.15
32 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.31
Consensus pattern (30 bp):
AAAATGGAATTTTCGGTGAAATCGAGGTCG
Found at i:15102856 original size:59 final size:57
Alignment explanation
Indices: 15102730--15102918 Score: 236
Period size: 59 Copynumber: 3.2 Consensus size: 57
15102720 TCGCGGGAGC
* *
15102730 AAAATGGTAATTTTCGGTGAAATCGAGGTC-AAAGGGAATTTTGGAAAATTTAAGGGT
1 AAAATGGTAATTTTCGGTGAAATCGAGGTCAAAATGGAATTTTGGAAAGTTT-AGGGT
*
15102787 AAAATAGTAATTTTCGGTGAAATCGAGGTCGAAAATGGAATTTTGGAAAGTTTGAGGGT
1 AAAATGGTAATTTTCGGTGAAATCGAGGTC-AAAATGGAATTTTGGAAAGTTT-AGGGT
* *** * * *
15102846 AAAATGGTAATTTTTGACAAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGAGG-TCAAAATGGAATTTTGGAAAGTTTA-GGGT
15102905 AAAATGGTAATTTT
1 AAAATGGTAATTTT
15102919 TGGACAATTC
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
57 29 0.25
58 1 0.01
59 85 0.73
60 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (57 bp):
AAAATGGTAATTTTCGGTGAAATCGAGGTCAAAATGGAATTTTGGAAAGTTTAGGGT
Found at i:15102879 original size:30 final size:30
Alignment explanation
Indices: 15102842--15102925 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
15102832 GAAAGTTTGA
15102842 GGGTAAAATGGTAATTTTTGACAAAATT-G
1 GGGTAAAATGGTAATTTTTGACAAAATTAG
* **
15102871 GGGTTAAAAATGG-AATTTTGGA-AAGTTTAG
1 GGG-T-AAAATGGTAATTTTTGACAAAATTAG
15102901 GGGTAAAATGGTAATTTTTGGACAA
1 GGGTAAAATGGTAATTTTT-GACAA
15102926 TTCAGGGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
28 7 0.16
29 14 0.31
30 15 0.33
31 9 0.20
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.33
Consensus pattern (30 bp):
GGGTAAAATGGTAATTTTTGACAAAATTAG
Found at i:15104866 original size:6 final size:6
Alignment explanation
Indices: 15104857--15104987 Score: 96
Period size: 6 Copynumber: 22.0 Consensus size: 6
15104847 TTAATATTAT
* *
15104857 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TAAGTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
* *
15104904 TTTAAA TTTAAA -ATAAA TTTAAA TAAGTAAA TTTAAA TTTAAGA --TAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAA-A TTTAAA
** *
15104952 TTTAAA AATAAA TTTAAA ATT-AA TTTAAA CTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
15104988 AAATTAAAAG
Statistics
Matches: 98, Mismatches: 14, Indels: 25
0.72 0.10 0.18
Matches are distributed among these distances:
4 3 0.03
5 19 0.19
6 59 0.60
7 7 0.07
8 10 0.10
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:15104866 original size:17 final size:16
Alignment explanation
Indices: 15104857--15104987 Score: 107
Period size: 17 Copynumber: 8.4 Consensus size: 16
15104847 TTAATATTAT
15104857 TTTAAATTTAATTAAA
1 TTTAAATTTAATTAAA
*
15104873 TTTAAATTTAAAATAAA
1 TTTAAATTT-AATTAAA
*
15104890 TTTAAA--TAAGTAAA
1 TTTAAATTTAATTAAA
*
15104904 TTTAAATTTAAAATAAA
1 TTTAAATTT-AATTAAA
*
15104921 TTTAAA--TAAGTAAA
1 TTTAAATTTAATTAAA
*
15104935 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-TTAAA
15104952 TTTAAA---AA-TAAA
1 TTTAAATTTAATTAAA
*
15104964 TTTAAAATTAATTTAAA
1 TTTAAATTTAA-TTAAA
15104981 CTTTAAA
1 -TTTAAA
15104988 AAATTAAAAG
Statistics
Matches: 97, Mismatches: 5, Indels: 24
0.77 0.04 0.19
Matches are distributed among these distances:
12 10 0.10
14 26 0.27
15 4 0.04
16 13 0.13
17 38 0.39
18 6 0.06
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:15104880 original size:11 final size:11
Alignment explanation
Indices: 15104857--15104980 Score: 77
Period size: 11 Copynumber: 11.5 Consensus size: 11
15104847 TTAATATTAT
*
15104857 TTTAAATTTAA
1 TTTAAATTAAA
15104868 -TTAAATTTAAA
1 TTTAAA-TTAAA
*
15104879 TTTAAAATAAA
1 TTTAAATTAAA
15104890 TTTAAA-T-AA
1 TTTAAATTAAA
*
15104899 -GTAAATTTAAA
1 TTTAAA-TTAAA
*
15104910 TTTAAAATAAA
1 TTTAAATTAAA
15104921 TTTAAA-T-AA
1 TTTAAATTAAA
*
15104930 -GTAAATTTAAA
1 TTTAAA-TTAAA
15104941 TTTAAGA-TAAA
1 TTTAA-ATTAAA
*
15104952 TTTAAAAATAAA
1 TTT-AAATTAAA
15104964 TTTAAAATT-AA
1 TTT-AAATTAAA
15104975 TTTAAA
1 TTTAAA
15104981 CTTTAAAAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 27
0.72 0.06 0.21
Matches are distributed among these distances:
8 8 0.09
9 4 0.04
10 12 0.13
11 41 0.45
12 26 0.28
13 1 0.01
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:15104907 original size:31 final size:31
Alignment explanation
Indices: 15104869--15104974 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
15104859 TAAATTTAAT
15104869 TAAATTTAAATTTAAAATAAATTTAAATAAG
1 TAAATTTAAATTTAAAATAAATTTAAATAAG
15104900 TAAATTTAAATTTAAAATAAATTTAAATAAG
1 TAAATTTAAATTTAAAATAAATTTAAATAAG
*
15104931 TAAATTTAAATTTAAGATAAATTTAAA-AA-
1 TAAATTTAAATTTAAAATAAATTTAAATAAG
*
15104960 TAAATTTAAAATTAA
1 TAAATTTAAATTTAA
15104975 TTTAAACTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 14 0.19
30 2 0.03
31 57 0.78
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (31 bp):
TAAATTTAAATTTAAAATAAATTTAAATAAG
Found at i:15105330 original size:29 final size:29
Alignment explanation
Indices: 15105297--15105359 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
15105287 AATTTATATA
*
15105297 TTTATATTTTTAAAAAATTAAA-ATAAAAT
1 TTTATATTTTT-AAAAAGTAAATATAAAAT
* *
15105326 TTTATATTTTTAGAAAGTAAATATATAAT
1 TTTATATTTTTAAAAAGTAAATATAAAAT
15105355 TTTAT
1 TTTAT
15105360 CACTTACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (29 bp):
TTTATATTTTTAAAAAGTAAATATAAAAT
Found at i:15108384 original size:21 final size:22
Alignment explanation
Indices: 15108346--15108387 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15108336 TGAGAGATCG
*
15108346 AAATTGAATTATATATATTTTT
1 AAATTGAATTAGATATATTTTT
15108368 AAATTGAATT-GATATATTTT
1 AAATTGAATTAGATATATTTT
15108388 ATTGACTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
AAATTGAATTAGATATATTTTT
Found at i:15111246 original size:1 final size:1
Alignment explanation
Indices: 15111240--15111275 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
15111230 ACGCACCTAG
* *
15111240 TTTTTTTTTTTTTTTTTTTTTTATTTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15111276 GGGTTTCATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.03, T:0.94
Consensus pattern (1 bp):
T
Found at i:15112927 original size:2 final size:2
Alignment explanation
Indices: 15112920--15112950 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15112910 GGAAAGCATC
15112920 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
15112951 TTGCGGCGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15116542 original size:54 final size:54
Alignment explanation
Indices: 15116478--15116582 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
15116468 TATAATAAAT
** * * * *
15116478 TTAACCTTCAACTTTTACATATTATATCAATTTAATCATACTTTTAAAAAAAAA
1 TTAACCTTCAAAATTTACAAATGATATCAATTTAATCATAATTCTAAAAAAAAA
* * *
15116532 TTAACTTTCAAAATTTACAAATGATATCAATTTGATCCTAATTCTAAAAAA
1 TTAACCTTCAAAATTTACAAATGATATCAATTTAATCATAATTCTAAAAAA
15116583 CTTAAACAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (54 bp):
TTAACCTTCAAAATTTACAAATGATATCAATTTAATCATAATTCTAAAAAAAAA
Found at i:15116886 original size:2 final size:2
Alignment explanation
Indices: 15116879--15116914 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15116869 CAACAGCAAC
15116879 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15116915 AGACTGTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15117003 original size:21 final size:21
Alignment explanation
Indices: 15116979--15117051 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
15116969 TAATATGAAA
15116979 TTTAAAATTATTTTTATATTT
1 TTTAAAATTATTTTTATATTT
* * *
15117000 TTTAAAAATATTTATGTATTT
1 TTTAAAATTATTTTTATATTT
* * *
15117021 TATAAATTTA-TTTGA-ATTT
1 TTTAAAATTATTTTTATATTT
15117040 TTTAAAAATTAT
1 TTT-AAAATTAT
15117052 AACCAAATAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
19 6 0.15
20 8 0.21
21 25 0.64
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTAAAATTATTTTTATATTT
Found at i:15126973 original size:18 final size:20
Alignment explanation
Indices: 15126951--15126995 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 20
15126941 ATAATTATAT
*
15126951 TAATAAATTTAACA-ATTAA
1 TAATAAATTTAAAATATTAA
15126970 -AAT-AA-TTAAAATATTAA
1 TAATAAATTTAAAATATTAA
15126987 TAATAAATT
1 TAATAAATT
15126996 ATATAATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
16 5 0.24
17 7 0.33
18 6 0.29
19 2 0.10
20 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TAATAAATTTAAAATATTAA
Found at i:15134168 original size:79 final size:79
Alignment explanation
Indices: 15133972--15134208 Score: 377
Period size: 79 Copynumber: 3.0 Consensus size: 79
15133962 CCAAGACTTG
* *
15133972 ATTCATGGATAGAGTCTACACCGACCATCATTGTTGATAACATAAGCTTTGAAGAATTCTCATTA
1 ATTCATCGATAGAGTCTACACCGACCATCATTGTTGATGACATAAGCTTTGAAGAATTCTCATTA
15134037 TGTATAA-TTTTTA
66 TGTATAATTTTTTA
* *
15134050 ATTCATCAATAGAGTCTACACCGATCATCATTGTTGATGACATAAGCTTTGAAGAATTCTCATTA
1 ATTCATCGATAGAGTCTACACCGACCATCATTGTTGATGACATAAGCTTTGAAGAATTCTCATTA
15134115 TGTATAATTTTTTA
66 TGTATAATTTTTTA
* * * * * *
15134129 ATTCATCGATGGAGTCTACACCAACCATCATTATTGATGACATAAGCTTTGAAGGATTTTCATTG
1 ATTCATCGATAGAGTCTACACCGACCATCATTGTTGATGACATAAGCTTTGAAGAATTCTCATTA
15134194 TGTATAATTTTTTA
66 TGTATAATTTTTTA
15134208 A
1 A
15134209 ATTTTTATCA
Statistics
Matches: 146, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
78 68 0.47
79 78 0.53
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (79 bp):
ATTCATCGATAGAGTCTACACCGACCATCATTGTTGATGACATAAGCTTTGAAGAATTCTCATTA
TGTATAATTTTTTA
Found at i:15136065 original size:30 final size:29
Alignment explanation
Indices: 15135998--15136097 Score: 87
Period size: 30 Copynumber: 3.4 Consensus size: 29
15135988 AAAAAAATTA
*
15135998 CCAACTTTTAGGAGGCCTC-CAATTTTTTTT
1 CCAACTTTTAAG-GGCC-CACAATTTTTTTT
* *
15136028 -TAGCTTTTAAGGGCCCACAATTTTTTTT
1 CCAACTTTTAAGGGCCCACAATTTTTTTT
*** *
15136056 ACCAACTTTTAAGGGATTAAAATTTTTTTT
1 -CCAACTTTTAAGGGCCCACAATTTTTTTT
*
15136086 TCAACTTTTAAG
1 CCAACTTTTAAG
15136098 AAACTTAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
27 1 0.02
28 15 0.26
29 19 0.33
30 22 0.39
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (29 bp):
CCAACTTTTAAGGGCCCACAATTTTTTTT
Found at i:15136106 original size:30 final size:30
Alignment explanation
Indices: 15136046--15136110 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
15136036 AAGGGCCCAC
**
15136046 AATTTTTTTTACCAACTTTTAAGGGATTAA
1 AATTTTTTTTACCAACTTTTAAGAAATTAA
*
15136076 AATTTTTTTT-TCAACTTTTAAGAAACTTAA
1 AATTTTTTTTACCAACTTTTAAGAAA-TTAA
15136106 AATTT
1 AATTT
15136111 CATTTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.49
Consensus pattern (30 bp):
AATTTTTTTTACCAACTTTTAAGAAATTAA
Found at i:15142027 original size:21 final size:21
Alignment explanation
Indices: 15142003--15142044 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15141993 AACATAAATC
*
15142003 CAAG-TAATAACAATAACATAA
1 CAAGATAATAA-AAAAACATAA
*
15142024 CAAGATTATAAAAAAACATAA
1 CAAGATAATAAAAAAACATAA
15142045 GTAAAAGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.12, G:0.05, T:0.19
Consensus pattern (21 bp):
CAAGATAATAAAAAAACATAA
Found at i:15142421 original size:58 final size:58
Alignment explanation
Indices: 15142352--15142466 Score: 196
Period size: 58 Copynumber: 2.0 Consensus size: 58
15142342 AAAGGAGTTG
*
15142352 TTTATAAGTGTTATTT-AGGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAA
1 TTTATAAGTGTT-TTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAA
*
15142410 TTTATAAGTGTTTTTGAAGAATGAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
1 TTTATAAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTA
15142467 GTTTGTTGAT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
57 3 0.06
58 51 0.94
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (58 bp):
TTTATAAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGGGTTTAA
Found at i:15144040 original size:298 final size:298
Alignment explanation
Indices: 15143445--15146948 Score: 4770
Period size: 298 Copynumber: 11.8 Consensus size: 298
15143435 TGCAGAAGCT
* * * * * *
15143445 AAATTTTTTGAATGATATATAATCGACTCGACTCCGCCGCCTAAATAAAACATGGTCGGCCCTAC
1 AAATTTTCTGAATGATATAT-A--G--TCGACTCTGCAGCCTGAATAATACATGGTTGGCCCTAC
* * * *
15143510 TGCCTGAGTATTATAGTGCACTAAAGTTAGAAAATAAAAGGTTAATCGACTTCATAGAGTGGGTG
61 CGCCTGAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTG
*** * *
15143575 TAACATTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTAAATTGGGTTCGTCGAGTTTCCAATAG
126 TAACATTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAG
* * * * *
15143640 CCTTTATATTGCTAGAGAATTATGCAAAATGAGAATACATGTGAAAGATTTCATATGAGATATAT
191 CCTTTATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATAT
* * * * *
15143705 GCATGATTCAAGAAATAAGCATTGACAAGCTGTGAAATGATCT
256 GCATGGTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* * * * * *
15143748 AAATTTTTTGAATGATATATAGTCGAATATGCAGCCTGAATAATACATGATTGACCCTACTGCCT
1 AAATTTTCTGAATGATATATAGTCGACTCTGCAGCCTGAATAATACATGGTTGGCCCTACCGCCT
* *
15143813 GAGTATTATAATGCACTAAAGTTAAAAAATAAAAGGTTAACCGGCTTCATAGAGTTGGTGTAACA
66 GAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAACA
* ** * * * *
15143878 TTACTTGTAGGTCTTAGGTCCTCTGTAGTGGGTGCATTGGGTTCATCGAATTTCCAACAGCTTTT
131 TTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTTT
*
15143943 ATATCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCATG
196 ATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCATG
* * *
15144008 ATTCAAGAAATGAGCATTGACAAGCTGTGAAATGATCC
261 GTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* * *
15144046 AAATTTTCTGAATGATATATAGTCAAATCTGTC-GCCTGAATAATACATGATTGGCCCTACCGCC
1 AAATTTTCTGAATGATATATAGTCGACTCTG-CAGCCTGAATAATACATGGTTGGCCCTACCGCC
* *
15144110 TGAGTATTATAGTGCACTAAACTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAAC
65 TGAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAAC
* * * * * * * * **
15144175 ATTACTTGAAGGTCTTAGGTCCTTTGTAGTGTGTGCGTTAGGCTCGCCGAGTTTTCAACAATCTT
130 ATTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTT
* *
15144240 TATGTCGTTAGAGAATTATGCAAAACGAGAATATATGTCAAAGATTCCATATGAGATATATGCAT
195 TATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCAT
* * *
15144305 GGTTCAAGAGATAAGCATTGACAAGCTATGAAATAATCT
260 GGTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* * * *
15144344 AAATTTTTTGAATGATATATAGTGGACTCTGCCA-CCTGAATAATACATGGTTGGCCTTGCCGCC
1 AAATTTTCTGAATGATATATAGTCGACTCTG-CAGCCTGAATAATACATGGTTGGCCCTACCGCC
* * * * * *
15144408 TGAGTATTATAATGTACCAAAGTTAGAAAATGAAAGGTTAATCGACTTCATAGAGTTAGTGTAAG
65 TGAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAAC
* * * * *
15144473 ATTAC-T-TA-----TAAGTCCTTTGTAGTGGGTGTGTTAGGCTCGTCGAGCTTCCAACAACCTT
130 ATTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTT
* *
15144531 TATGTGGCTAGAGAATTATGCAAAATGAGAATACATGTCAAAGATTCCATATGAGATATATGCAT
195 TATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCAT
* * *
15144596 GATTCAAGAAATGAGCATTGACAAGCTGTGAAATGATCC
260 GGTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* *
15144635 AAATTTTCTGAATGATATATAGTTGACTCTATC-GCCTGAATAATACATGGTTGGCCCTACCGCC
1 AAATTTTCTGAATGATATATAGTCGACTCT-GCAGCCTGAATAATACATGGTTGGCCCTACCGCC
* * * * * *
15144699 TGAGTATTATAGTGTACAAAAGTTAGAAAATAAAAGATTAACCGACTTCATGGAGTTGTTGTAAC
65 TGAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAAC
* * * ** * * *
15144764 ATTACTTATAGGTCCTAGGTTCTATGTAGCAGGTGCGTTGGACTCGTCGAGTTTCCAATAGCCTT
130 ATTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTT
* *
15144829 TATGTCTCTAGATAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATAAATATGC
195 TATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGAT--ATATGC
15144894 ATGGTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
258 ATGGTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* * *
15144935 AAATTTTTTGAATGATATATAGTCGACTCTGCCGCCTGAATAATACATGGTTGGCCCTGCCGCCT
1 AAATTTTCTGAATGATATATAGTCGACTCTGCAGCCTGAATAATACATGGTTGGCCCTACCGCCT
* *
15145000 GAGTATTATAATACACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAAAGTTGGTGTAACA
66 GAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAACA
* * * *** *
15145065 TTACTTGTAGATCCTAGATCCTCTATAGTGGGTGTGTTAATCTCGTCGAGTTTCCAATAGCCTTT
131 TTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTTT
* * *
15145130 ATGTCACTAAAGAATTATGCAAAACGAGAATACATGTCAAAGATTTCATATGAGATATATGCATG
196 ATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCATG
15145195 GTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
261 GTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* * * *
15145233 AAATTTTCTGAATGATATATAGTCGACTCTGCCA-CCAGAATAATAAATGGTTGGCCCTGCCGCT
1 AAATTTTCTGAATGATATATAGTCGACTCTG-CAGCCTGAATAATACATGGTTGGCCCTACCGCC
* * *
15145297 TGAGTATTATAAGTACACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAATTGATGTAA
65 TGAGTATTATAA-TGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAA
* * *
15145362 CATTACTTGTAGGTCCTAGGTTCTCTGTAGTGGGTGTGTTGGGCTCGTCAAGTTTCCAACAACCT
129 CATTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCT
15145427 TTATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCA
194 TTATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCA
* * *
15145492 TGATTCAAGAAATGAGCATTGACAAGCTGTGAAATGATCC
259 TGGTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* * *
15145532 AAATTTTCTGAATGATACATAGTCGAATCTGTC-GCCTGAATAATACATGATTGGCCCTACCGCC
1 AAATTTTCTGAATGATATATAGTCGACTCTG-CAGCCTGAATAATACATGGTTGGCCCTACCGCC
*
15145596 TGAGTATTATAATGCACTAAACTTAGAAAATAAAAGGTTAACCGA---C-------TGGTGTAAC
65 TGAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAAC
* * * * * * * * **
15145651 ATTACTTGAAGGTCTTAGGTCCTTTGTAGTGTGTGCGTTAGGCTCGCCGAGTTTTCAACAATCTT
130 ATTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTT
* *
15145716 TATGTCGTTAGAGAATTATGCAAAACGAGAATATATGTCAAAGATTCCATATGAGATATATGCAT
195 TATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCAT
* * *
15145781 GGTTCAAGAGATAAGCATTGACAAGCTATGAAATAATCT
260 GGTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* * * *
15145820 AAATTTTTTGAATGATATATAGTGGACTCTGCTA-CCTGAATAATACATGGTTGGCCTTGCCGCC
1 AAATTTTCTGAATGATATATAGTCGACTCTGC-AGCCTGAATAATACATGGTTGGCCCTACCGCC
* * *
15145884 TGAGTATTATAATGTACCAAAGTTAGAAAATAAAAGGTTAATCGACTTCATAGAGTTGGTGTAAC
65 TGAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAAC
* * * *
15145949 ATTAC-T-TA-----TAGGTCCTTTGTAGTGGGTGTGTTAGGCTCATCGAGTTTCCAACAACCTT
130 ATTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTT
* *
15146007 TATGTGGCTAGAGAATTATGCAAAATGAGAATACATGTCAAAGATTCCATATGAGATATATGCAT
195 TATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCAT
* * *
15146072 GATTCAAGAAATGAGCATTGACAAGCTGTGAAATGATCC
260 GGTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* *
15146111 AAATTTTCTGAATGATATATAGTTGACTCTATC-GCCTGAATAATACATGGTTGGCCCTACCGCC
1 AAATTTTCTGAATGATATATAGTCGACTCT-GCAGCCTGAATAATACATGGTTGGCCCTACCGCC
* * * * *
15146175 TGAGTATTATAGTGTAC-AAAGTTAGAAAATAAAAGATTAACCGACTTCATGGAGTTGTTGTAAC
65 TGAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAAC
* * ** * * *
15146239 ATTACTTATAGGTCCTAGGTCCTATGTAGCAGGTGCGTTGGACTCGTCGAGTTTCCAATAGCCTT
130 ATTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTT
*
15146304 TATGTCGCTAGATAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATAAATATGC
195 TATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGAT--ATATGC
15146369 ATGGTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
258 ATGGTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* * *
15146410 AAATTTTTTGAATGATATATAGTCGACTCTGCCGCCTGAATAATACATGGTTGGCCCTGCCGCCT
1 AAATTTTCTGAATGATATATAGTCGACTCTGCAGCCTGAATAATACATGGTTGGCCCTACCGCCT
* * *
15146475 AAGTATTATAATACACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAAAGTTGGTGTAACA
66 GAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAACA
* * ** *
15146540 TTACTTGTAGATCCTAGGTCCTCTATAGTGGGTGTGTTAAGCTCGTCGAGTTTCCAATAGCCTTT
131 TTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTTT
* * *
15146605 ATGTCACTAAAGAATTATGCAAAACGAGAATACATGTCAAAGATTTCATATGAGATATATGCATG
196 ATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCATG
*
15146670 GTTCAAGAAATGAGCATTGGCAAGCTATGAAATAATCC
261 GTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
* * * *
15146708 AAATTTTCTGAATGATATATAGTCGACTCTGCCA-CCAGAATAATAAATGGTTGGCCCTGCCGCT
1 AAATTTTCTGAATGATATATAGTCGACTCTG-CAGCCTGAATAATACATGGTTGGCCCTACCGCC
* * *
15146772 TGAGTATTATAATACACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAATTGATGTAAC
65 TGAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAAC
* * *
15146837 ATTACTTGTAAGTCCTAGGTTCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAACCTT
130 ATTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTT
15146902 TATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTC
195 TATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTC
15146949 ATAGAATATT
Statistics
Matches: 2852, Mismatches: 306, Indels: 91
0.88 0.09 0.03
Matches are distributed among these distances:
287 1 0.00
288 253 0.09
290 48 0.02
291 467 0.16
292 4 0.00
293 2 0.00
295 1 0.00
296 2 0.00
297 97 0.03
298 1150 0.40
299 389 0.14
300 417 0.15
302 1 0.00
303 20 0.01
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (298 bp):
AAATTTTCTGAATGATATATAGTCGACTCTGCAGCCTGAATAATACATGGTTGGCCCTACCGCCT
GAGTATTATAATGCACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAGTTGGTGTAACA
TTACTTGTAGGTCCTAGGTCCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAGCCTTT
ATGTCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCCATATGAGATATATGCATG
GTTCAAGAAATGAGCATTGACAAGCTATGAAATAATCC
Found at i:15144687 original size:28 final size:28
Alignment explanation
Indices: 15144642--15144701 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
15144632 TCCAAATTTT
* * * *
15144642 CTGAATGATATATAGTTGACTCTATCGC
1 CTGAATAATACATAGTTGACCCTACCGC
* *
15144670 CTGAATAATACATGGTTGGCCCTACCGC
1 CTGAATAATACATAGTTGACCCTACCGC
15144698 CTGA
1 CTGA
15144702 GTATTATAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
CTGAATAATACATAGTTGACCCTACCGC
Found at i:15146163 original size:28 final size:28
Alignment explanation
Indices: 15146118--15146177 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
15146108 TCCAAATTTT
* * * *
15146118 CTGAATGATATATAGTTGACTCTATCGC
1 CTGAATAATACATAGTTGACCCTACCGC
* *
15146146 CTGAATAATACATGGTTGGCCCTACCGC
1 CTGAATAATACATAGTTGACCCTACCGC
15146174 CTGA
1 CTGA
15146178 GTATTATAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
CTGAATAATACATAGTTGACCCTACCGC
Found at i:15147083 original size:179 final size:179
Alignment explanation
Indices: 15146776--15147127 Score: 562
Period size: 179 Copynumber: 2.0 Consensus size: 179
15146766 GCCGCTTGAG
15146776 TATTATAATACACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAATTGATGTAACATTA
1 TATTATAATACACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAATTGATGTAACATTA
* * * **
15146841 CTTGTAAGTCCTAGGTTCTCTGTAGTGGGTGTGTTGGGCTCGTCGAGTTTCCAACAACCTTTATG
66 CTTGTAAGCCCTAAGTTCTCTGTAATGAATGTGTTGGGCTCGTCGAGTTTCCAACAACCTTTATG
* *
15146906 TCGCTAGAGAATTATGCAAAACGAGAATACATGTCAAAGATTCATAGAA
131 TCGCTAAAGAATTATGCAAAACAAGAATACATGTCAAAGATTCATAGAA
* * * *
15146955 TATTATAGTGCACTAAAGTTAGAAAATAAAATGTTAACCGACTTCATAGAGTTGATGTAACATTA
1 TATTATAATACACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAATTGATGTAACATTA
* * *
15147020 CTTGTAGGCCCTAAG-TCTTCTGTAATGAATGTGTTGGGCTCGTCGGGTTTCCAACAGCCTTTAT
66 CTTGTAAGCCCTAAGTTC-TCTGTAATGAATGTGTTGGGCTCGTCGAGTTTCCAACAACCTTTAT
15147084 GTCGCTAAAGAATTATGCAAAACAAGAATACATGTCAAAGATTC
130 GTCGCTAAAGAATTATGCAAAACAAGAATACATGTCAAAGATTC
15147128 CATATGAGAT
Statistics
Matches: 158, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
178 2 0.01
179 156 0.99
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (179 bp):
TATTATAATACACTAAAGTTAGAAAATAAAAGGTTAACCGACTTCATAGAATTGATGTAACATTA
CTTGTAAGCCCTAAGTTCTCTGTAATGAATGTGTTGGGCTCGTCGAGTTTCCAACAACCTTTATG
TCGCTAAAGAATTATGCAAAACAAGAATACATGTCAAAGATTCATAGAA
Found at i:15149661 original size:190 final size:191
Alignment explanation
Indices: 15149332--15149717 Score: 756
Period size: 190 Copynumber: 2.0 Consensus size: 191
15149322 GCTTTTATTG
15149332 CTTTGACTGTGAGTTATAACAGACTTCCTGTCGGCCAAAGTACAAGCCTAAGTCTAAGATATAAA
1 CTTTGACTGTGAGTTATAACAGACTTCCTGTCGGCCAAAGTACAAGCCTAAGTCTAAGATATAAA
15149397 TAGCAACTCACCAAGCAGATGGCTGAACTTGGTTCAACTTTGGTATCTTCTGTAGCACTCTTCAG
66 TAGCAACTCACCAAGCAGATGGCTGAACTTGGTTCAACTTTGGTATCTTCTGTAGCACTCTTCAG
15149462 CTGGAATAAGCAAAGATAATGGCTTTCTAAATATGAAAAACAGCAT-TGTGTAGTCCCAGT
131 CTGGAATAAGCAAAGATAATGGCTTTCTAAATATGAAAAACAGCATATGTGTAGTCCCAGT
*
15149522 CTTTGGCTGTGAGTTATAACAGACTTCCTGTCGGCCAAAGTACAAGCCTAAGTCTAAGATATAAA
1 CTTTGACTGTGAGTTATAACAGACTTCCTGTCGGCCAAAGTACAAGCCTAAGTCTAAGATATAAA
15149587 TAGCAACTCACCAAGCAGATGGCTGAACTTGGTTCAACTTTGGTATCTTCTGTAGCACTCTTCAG
66 TAGCAACTCACCAAGCAGATGGCTGAACTTGGTTCAACTTTGGTATCTTCTGTAGCACTCTTCAG
15149652 CTGGAATAAGCAAAGATAATGGCTTTCTAAATATGAAAAACAGCATATGTGTAGTCCCAGT
131 CTGGAATAAGCAAAGATAATGGCTTTCTAAATATGAAAAACAGCATATGTGTAGTCCCAGT
15149713 CTTTG
1 CTTTG
15149718 TTAAGAGGAG
Statistics
Matches: 194, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
190 175 0.90
191 19 0.10
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (191 bp):
CTTTGACTGTGAGTTATAACAGACTTCCTGTCGGCCAAAGTACAAGCCTAAGTCTAAGATATAAA
TAGCAACTCACCAAGCAGATGGCTGAACTTGGTTCAACTTTGGTATCTTCTGTAGCACTCTTCAG
CTGGAATAAGCAAAGATAATGGCTTTCTAAATATGAAAAACAGCATATGTGTAGTCCCAGT
Found at i:15150268 original size:148 final size:148
Alignment explanation
Indices: 15150008--15150276 Score: 520
Period size: 148 Copynumber: 1.8 Consensus size: 148
15149998 GCCGCACTTG
*
15150008 CTCCGCTCCCACTTGCATGTACATTGCACTTCGTTGAGAGTACATACTCCTGAGTTTCCTCCTTG
1 CTCCGCTCCCACTTGCATGTACATTGCACTTCGCTGAGAGTACATACTCCTGAGTTTCCTCCTTG
*
15150073 GAATAATGCGAAGTTTCTTCACTGCAATTATCCAACATCAACAACTTAGATTTTAAGAGAATTCA
66 GAAAAATGCGAAGTTTCTTCACTGCAATTATCCAACATCAACAACTTAGATTTTAAGAGAATTCA
15150138 TGCCGATTTTCGCACATA
131 TGCCGATTTTCGCACATA
15150156 CTCCGCTCCCACTTGCATGTACATTGCACTTCGCTGAGAGTACATACTCCTGAGTTTCCTCCTTG
1 CTCCGCTCCCACTTGCATGTACATTGCACTTCGCTGAGAGTACATACTCCTGAGTTTCCTCCTTG
15150221 GAAAAATGCGAAGTTTCTTCACTGCAATTATCCAACATCAACAACTTAGATTTTAA
66 GAAAAATGCGAAGTTTCTTCACTGCAATTATCCAACATCAACAACTTAGATTTTAA
15150277 ACTAAAAGAA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
148 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (148 bp):
CTCCGCTCCCACTTGCATGTACATTGCACTTCGCTGAGAGTACATACTCCTGAGTTTCCTCCTTG
GAAAAATGCGAAGTTTCTTCACTGCAATTATCCAACATCAACAACTTAGATTTTAAGAGAATTCA
TGCCGATTTTCGCACATA
Found at i:15150928 original size:155 final size:154
Alignment explanation
Indices: 15150647--15150960 Score: 619
Period size: 155 Copynumber: 2.0 Consensus size: 154
15150637 GACATGAGAG
15150647 ATCATTGAAAGGCTAATGGAAACAAATTTATGTTCCAAAGAAGAGAAGGAACCTACCCAAGGCAC
1 ATCATTGAAAGGCTAATGGAAACAAATTTATGTTCCAAAGAAGAGAAGGAACCTACCCAAGGCAC
15150712 TTCGCAGTAGAAGGCACTCATCACGGAGAAATTCAGGAGCCTCATGGCAGCCTCTTGCCCATGCG
66 TTCGCAGTAGAAGGCACTCATCACGGAGAAATTCAGGAGCCTCATGGCAGCCTCTTGCCCATGCG
15150777 TATTAGAAATTACCGGATGCATGC
131 TATTAGAAATTACCGGATGCATGC
15150801 ATCATTGAAAGGCTAATGGAAACAAATTTATGTTCCAAAGAAGAGAAGGAACCTACCCAAAGGCA
1 ATCATTGAAAGGCTAATGGAAACAAATTTATGTTCCAAAGAAGAGAAGGAACCTACCC-AAGGCA
15150866 CTTCGCAGTAGAAGGCACTCATCACGGAGAAATTCAGGAGCCTCATGGCAGCCTCTTGCCCATGC
65 CTTCGCAGTAGAAGGCACTCATCACGGAGAAATTCAGGAGCCTCATGGCAGCCTCTTGCCCATGC
15150931 GTATTAGAAATTACCGGATGCATGC
130 GTATTAGAAATTACCGGATGCATGC
15150956 ATCAT
1 ATCAT
15150961 AAGCAATTAA
Statistics
Matches: 159, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 58 0.36
155 101 0.64
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (154 bp):
ATCATTGAAAGGCTAATGGAAACAAATTTATGTTCCAAAGAAGAGAAGGAACCTACCCAAGGCAC
TTCGCAGTAGAAGGCACTCATCACGGAGAAATTCAGGAGCCTCATGGCAGCCTCTTGCCCATGCG
TATTAGAAATTACCGGATGCATGC
Found at i:15152433 original size:6 final size:6
Alignment explanation
Indices: 15152422--15152447 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15152412 AAGAATAGCT
15152422 GAAAGA GAAAGA GAAAGA GAAAGA GA
1 GAAAGA GAAAGA GAAAGA GAAAGA GA
15152448 GAGCTTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (6 bp):
GAAAGA
Found at i:15152578 original size:26 final size:26
Alignment explanation
Indices: 15152548--15152598 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
15152538 TTTGAATCTC
15152548 TGGTAACGGCTAGTTTGAGGAGCGTT
1 TGGTAACGGCTAGTTTGAGGAGCGTT
15152574 TGGTAACGGCTAGTTTGAGGAGCGT
1 TGGTAACGGCTAGTTTGAGGAGCGT
15152599 GTTTGTGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.39, T:0.29
Consensus pattern (26 bp):
TGGTAACGGCTAGTTTGAGGAGCGTT
Found at i:15158689 original size:12 final size:12
Alignment explanation
Indices: 15158672--15158696 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15158662 AAACTCAAAT
15158672 ATTGGCATAAAC
1 ATTGGCATAAAC
15158684 ATTGGCATAAAC
1 ATTGGCATAAAC
15158696 A
1 A
15158697 AGGAGTAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
ATTGGCATAAAC
Found at i:15160076 original size:7 final size:7
Alignment explanation
Indices: 15160040--15160073 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
15160030 TTGAGGAGTG
15160040 AAAATTC
1 AAAATTC
15160047 AAAATTC
1 AAAATTC
15160054 AAAATTC
1 AAAATTC
*
15160061 AAAATTG
1 AAAATTC
15160068 AAAATT
1 AAAATT
15160074 GAATATTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.29
Consensus pattern (7 bp):
AAAATTC
Found at i:15160348 original size:15 final size:15
Alignment explanation
Indices: 15160325--15160354 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15160315 AAAATTATAA
15160325 CGAAAAGAATAAAAT
1 CGAAAAGAATAAAAT
*
15160340 CGAAGAGAATAAAAT
1 CGAAAAGAATAAAAT
15160355 TTTAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.17, T:0.13
Consensus pattern (15 bp):
CGAAAAGAATAAAAT
Found at i:15160390 original size:21 final size:21
Alignment explanation
Indices: 15160366--15160418 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
15160356 TTAAAAAAAT
*
15160366 AATTGAGAATTCAAAAT-TCAA
1 AATTGAGAATTAAAAATAT-AA
15160387 AATTGA-ATATTAAAAATATAA
1 AATTGAGA-ATTAAAAATATAA
*
15160408 AATTGGGAATT
1 AATTGAGAATT
15160419 GAAGATTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.04
21 24 0.89
22 2 0.07
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.32
Consensus pattern (21 bp):
AATTGAGAATTAAAAATATAA
Found at i:15160553 original size:338 final size:337
Alignment explanation
Indices: 15159928--15160937 Score: 1430
Period size: 336 Copynumber: 3.0 Consensus size: 337
15159918 ATTTGTAATT
*
15159928 AAACGC-C-AGAG-TATGCTTGTCATCCAAACGAATAAATTGATTTGCCATTTAAAAATTATAAC
1 AAACGCGCTAGAGATATGCTTGTCATCCAAACGAATAAGTTGATTTGCCATTTAAAAATTATAAC
* * *
15159990 GAAAAGAATAAAATCAAAGAGAATAAAA-TTTAAAAAATAATTGAGGAGTGAAAATTCAAAATTC
66 GAAAAGAATAAAATCGAAGAGAATAAAATTTTAAAAAATAATTGAGGATTGAAAATTCAAAATTG
* * * * * *
15160054 AAAATTCAAAAT-TGAAAATT--GAATATTAAAATATG-GGAATTGAAGATTTAGGAAGAAAGAA
131 AATATTAAAAATAT-AAAATTGGGAAT-TGAAGAT-TGAAG-ATTGAAGATTTATGAAGAAAGAA
* * * *
15160115 TGAGTATGGAGTATTTGATTGAAAACAATAAAGTTTGGAGGGTAAAGGATTTTTTATGGTTGTTG
192 TGAGTATGGAGTATTTGATTGAAAAAAATAAAGTTTGGAGGGTATAGGAATTTTTATGGTCGTTG
* *
15160180 GAGCCCTGGTAGCCGTTGAAAAAATTACTGTTGAAAGGAAAATGCGTCCTACAGAGCATGTTTTT
257 GAGCCCTAGTAGCCGTTGAAAAAGTTACTGTTGAAAGGAAAATGCGTCCTACAGAGCATGTTTTT
* *
15160245 ACTACCACATTAGTGA
322 GCTGCCACATTAGTGA
* *
15160261 AAACGCG-TCAGATATATGCTTGTCATCCAAACAAATAAGTTGATTTGCCATTTAAAAATTATAA
1 AAACGCGCT-AGAGATATGCTTGTCATCCAAACGAATAAGTTGATTTGCCATTTAAAAATTATAA
* *
15160325 CGAAAAGAATAAAATCGAAGAGAATAAAATTTTAAAAAAATAATTGAGAATTCAAAATTCAAAAT
65 CGAAAAGAATAAAATCGAAGAGAATAAAATTTT-AAAAAATAATTGAGGATTGAAAATTCAAAAT
*
15160390 TGAATATTAAAAATATAAAATTGGGAATTGAAGATTGAAGATTGAAGATTTATGAAGAAAGAAGG
129 TGAATATTAAAAATATAAAATTGGGAATTGAAGATTGAAGATTGAAGATTTATGAAGAAAGAATG
* *
15160455 AGTATGGAGTATTTGATTGAAAAGAATAAAGTTTGGGGGGTATAGGAATTTTTATGGTCGTTGGA
194 AGTATGGAGTATTTGATTGAAAAAAATAAAGTTTGGAGGGTATAGGAATTTTTATGGTCGTTGGA
* * * * *
15160520 GTCCTAATAGCCGTTGAAAAAGTTACTGTTGAAAGGAAAATGCATTCTACA-AGGTATGTTTTTG
259 GCCCTAGTAGCCGTTGAAAAAGTTACTGTTGAAAGGAAAATGCGTCCTACAGA-GCATGTTTTTG
* *
15160584 TTGCTACATTAGTGA
323 CTGCCACATTAGTGA
* * * *
15160599 AAACGCGCTAGAGATATGTTTGTCATCAAAACGAATAAGTTAATTTGCCAATT-AAAATTATAAC
1 AAACGCGCTAGAGATATGCTTGTCATCCAAACGAATAAGTTGATTTGCCATTTAAAAATTATAAC
* * *
15160663 GAAAAGAATAAAATCGAAGAAAATAAAATTTTAAAAAATAATTGAGGATTGAAAATTGAATATTG
66 GAAAAGAATAAAATCGAAGAGAATAAAATTTTAAAAAATAATTGAGGATTGAAAATTCAAAATTG
* *
15160728 AATATTAAAAATATAAAATTGGGAATTGAAGATTAAAGATGGAAGATTTATGAAGAAAGAATGAG
131 AATATTAAAAATATAAAATTGGGAATTGAAGATTGAAGATTGAAGATTTATGAAGAAAGAATGAG
* *
15160793 TATGAAATATTTGATTGAAAAAAATAAAGTTTGGAGGGTATAGGAATTTTTATGGTCGTTGGAGC
196 TATGGAGTATTTGATTGAAAAAAATAAAGTTTGGAGGGTATAGGAATTTTTATGGTCGTTGGAGC
* * * * * * *
15160858 CCGAGTAACAGTTGAAAAAGTTACTGTTGAAAGGAAAATGCGTCTTAAAGGGCATGTTTTCGCTG
261 CCTAGTAGCCGTTGAAAAAGTTACTGTTGAAAGGAAAATGCGTCCTACAGAGCATGTTTTTGCTG
15160923 CCACATTAGTGA
326 CCACATTAGTGA
15160935 AAA
1 AAA
15160938 TGGGACCTGT
Statistics
Matches: 601, Mismatches: 63, Indels: 23
0.87 0.09 0.03
Matches are distributed among these distances:
333 6 0.01
335 3 0.00
336 293 0.49
337 46 0.08
338 241 0.40
339 8 0.01
340 4 0.01
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (337 bp):
AAACGCGCTAGAGATATGCTTGTCATCCAAACGAATAAGTTGATTTGCCATTTAAAAATTATAAC
GAAAAGAATAAAATCGAAGAGAATAAAATTTTAAAAAATAATTGAGGATTGAAAATTCAAAATTG
AATATTAAAAATATAAAATTGGGAATTGAAGATTGAAGATTGAAGATTTATGAAGAAAGAATGAG
TATGGAGTATTTGATTGAAAAAAATAAAGTTTGGAGGGTATAGGAATTTTTATGGTCGTTGGAGC
CCTAGTAGCCGTTGAAAAAGTTACTGTTGAAAGGAAAATGCGTCCTACAGAGCATGTTTTTGCTG
CCACATTAGTGA
Found at i:15162758 original size:70 final size:69
Alignment explanation
Indices: 15162681--15162886 Score: 271
Period size: 70 Copynumber: 3.1 Consensus size: 69
15162671 CAATTATTAG
* *
15162681 AACAACGTAGTTTTGCCTTTTAACTTAATAGTTTTTATTTAAATTTTAAAAAAAAGTAAATATTT
1 AACAACGTAGTATTGCCTTTTAACTTAATAGTTTTTATTTTAATTTTAAAAAAAA-TAAATATTT
15162746 ATCAA
65 ATCAA
* *
15162751 AACAACGTAGTATTGCCTTTTAACTTTATAGTTTTTATTTTAATTTT-AGAAAAATAAATATTTA
1 AACAACGTAGTATTGCCTTTTAACTTAATAGTTTTTATTTTAATTTTAAAAAAAATAAATATTTA
15162815 TCAA
66 TCAA
* * * * * *
15162819 AACAACGTAGTATTACC-----ACTTAATAATTTTTATTTTAACTTTAGAAAAGATAAACATTTA
1 AACAACGTAGTATTGCCTTTTAACTTAATAGTTTTTATTTTAATTTTAAAAAAAATAAATATTTA
15162879 TCAA
66 TCAA
15162883 AACA
1 AACA
15162887 TTTATTTTAA
Statistics
Matches: 123, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
63 22 0.18
64 21 0.17
68 30 0.24
69 6 0.05
70 44 0.36
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (69 bp):
AACAACGTAGTATTGCCTTTTAACTTAATAGTTTTTATTTTAATTTTAAAAAAAATAAATATTTA
TCAA
Found at i:15162908 original size:64 final size:63
Alignment explanation
Indices: 15162707--15162886 Score: 180
Period size: 68 Copynumber: 2.7 Consensus size: 63
15162697 CTTTTAACTT
* * * * * *
15162707 AATAGTTTTTATTTAAATTTTAAAAAAAAGTAAATATTTATCAAAACAACGTAGTATTGCCTTTT
1 AATAATTTTTATTTTAACTTT-AGAAAAA-TAAACATTTATCAAAACAACGTAGTATTACC----
*
15162772 AACTT
60 -ACTC
* * * * *
15162777 TATAGTTTTTATTTTAATTTTAGAAAAATAAATATTTATCAAAACAACGTAGTATTACCACTT
1 AATAATTTTTATTTTAACTTTAGAAAAATAAACATTTATCAAAACAACGTAGTATTACCACTC
15162840 AATAATTTTTATTTTAACTTTAGAAAAGATAAACATTTATCAAAACA
1 AATAATTTTTATTTTAACTTTAGAAAA-ATAAACATTTATCAAAACA
15162887 TTTATTTTAA
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
63 28 0.28
64 18 0.18
68 30 0.30
69 6 0.06
70 19 0.19
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (63 bp):
AATAATTTTTATTTTAACTTTAGAAAAATAAACATTTATCAAAACAACGTAGTATTACCACTC
Found at i:15171724 original size:6 final size:6
Alignment explanation
Indices: 15171711--15171743 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15171701 GTGTGTGTGA
*
15171711 AAGA-C AAGAGC AAGAGC AAGAGC AAGAAC AAGA
1 AAGAGC AAGAGC AAGAGC AAGAGC AAGAGC AAGA
15171744 ACAGCTATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.58, C:0.15, G:0.27, T:0.00
Consensus pattern (6 bp):
AAGAGC
Found at i:15203426 original size:6 final size:6
Alignment explanation
Indices: 15203415--15203463 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
15203405 CAGCCAACCT
* *
15203415 GTTGCA GTTGCA GTTGCA GTTGCA ATTGCA GTTGCA ATTGCA GTTGCA
1 GTTGCA GTTGCA GTTGCA GTTGCA GTTGCA GTTGCA GTTGCA GTTGCA
15203463 G
1 G
15203464 AGAGAAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (6 bp):
GTTGCA
Found at i:15204248 original size:16 final size:16
Alignment explanation
Indices: 15204227--15204266 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
15204217 GATTTAATCT
15204227 TTTAAAATTATAAAAA
1 TTTAAAATTATAAAAA
* *
15204243 TTTAAACTAATAAAAA
1 TTTAAAATTATAAAAA
15204259 -TTAAAATT
1 TTTAAAATT
15204267 TAATTTCGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TTTAAAATTATAAAAA
Found at i:15210677 original size:15 final size:15
Alignment explanation
Indices: 15210657--15210686 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15210647 CTTGCAAATC
15210657 AGTAAATAGAGGCAA
1 AGTAAATAGAGGCAA
15210672 AGTAAATAGAGGCAA
1 AGTAAATAGAGGCAA
15210687 GTACATCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.27, T:0.13
Consensus pattern (15 bp):
AGTAAATAGAGGCAA
Found at i:15220441 original size:25 final size:26
Alignment explanation
Indices: 15220413--15220463 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
15220403 AGTGATAGTC
*
15220413 TCTAGGCATA-TTTGTGAAAAGGAAT
1 TCTAGGCATATTTTGCGAAAAGGAAT
15220438 TCTAGGCATATTTTGCGAAAAGGAAT
1 TCTAGGCATATTTTGCGAAAAGGAAT
15220464 AAAAATGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (26 bp):
TCTAGGCATATTTTGCGAAAAGGAAT
Found at i:15226891 original size:23 final size:23
Alignment explanation
Indices: 15226843--15226892 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
15226833 AAATTAAAGA
* * *
15226843 TAAAATGTAAAATATTTTTTTTT
1 TAAAATGTAAAATATATATTTAT
*
15226866 TAAAATTTAAAATATATATTTAT
1 TAAAATGTAAAATATATATTTAT
15226889 TAAA
1 TAAA
15226893 CAATTTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TAAAATGTAAAATATATATTTAT
Found at i:15239496 original size:4 final size:4
Alignment explanation
Indices: 15239487--15239516 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
15239477 TTAAAGGGTT
15239487 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
15239517 ACAATTATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:15251729 original size:198 final size:198
Alignment explanation
Indices: 15251389--15251767 Score: 708
Period size: 198 Copynumber: 1.9 Consensus size: 198
15251379 TTGAGATACA
15251389 GTGGTGGCTGCGCTCCTATTTTCTTTGCATACCAACAAAGATAAGTCTCCACATGTGAAACCCAA
1 GTGGTGGCTGCGCTCCTATTTTCTTTGCATACCAACAAAGATAAGTCTCCACATGTGAAACCCAA
15251454 AATCGCAACGGCTCTCCTCATCCCCCTATGTCGTTTTCATTAATCGCTCTTATTATAAATTGGCA
66 AATCGCAACGGCTCTCCTCATCCCCCTATGTCGTTTTCATTAATCGCTCTTATTATAAATTGGCA
15251519 AAAAAAAGTACTAATGAAAACCAAGAACGAAATCCTTTCCAATCCAAAATTGTAACCGTCCGGAG
131 AAAAAAAGTACTAATGAAAACCAAGAACGAAATCCTTTCCAATCCAAAATTGTAACCGTCCGGAG
15251584 TGG
196 TGG
*
15251587 GTGGTGGCTGCGCTCCTATTTTCTTTGCATACCAACAAAGATAAGTCTCCATC-TGTGAATCCCA
1 GTGGTGGCTGCGCTCCTATTTTCTTTGCATACCAACAAAGATAAGTCTCCA-CATGTGAAACCCA
15251651 AAATCGTC-ACGGCTCTCCTCATCCCCCTATGTCGTTTTCATTAATCGCTCTTATTATAAATTGG
65 AAATCG-CAACGGCTCTCCTCATCCCCCTATGTCGTTTTCATTAATCGCTCTTATTATAAATTGG
*
15251715 CAAAAAAGAGTACTAATGAAAACCAAGAACGAAATCCTTTCCAATCCAAAATT
129 CAAAAAAAAGTACTAATGAAAACCAAGAACGAAATCCTTTCCAATCCAAAATT
15251768 TCAAATCCCT
Statistics
Matches: 177, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
198 175 0.99
199 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (198 bp):
GTGGTGGCTGCGCTCCTATTTTCTTTGCATACCAACAAAGATAAGTCTCCACATGTGAAACCCAA
AATCGCAACGGCTCTCCTCATCCCCCTATGTCGTTTTCATTAATCGCTCTTATTATAAATTGGCA
AAAAAAAGTACTAATGAAAACCAAGAACGAAATCCTTTCCAATCCAAAATTGTAACCGTCCGGAG
TGG
Found at i:15263310 original size:23 final size:23
Alignment explanation
Indices: 15263283--15263400 Score: 141
Period size: 23 Copynumber: 5.0 Consensus size: 23
15263273 CTAGCACGCG
15263283 CTCTGATTAGCACTGTGTGTGCT
1 CTCTGATTAGCACTGTGTGTGCT
* * *
15263306 CTCTGTTTAGCACATCT-CGTGCT
1 CTCTGATTAGCAC-TGTGTGTGCT
15263329 CTCTGTTATTAGCACTGTGTGTGCT
1 CTCTG--ATTAGCACTGTGTGTGCT
*
15263354 CTCCGATTAGCACT-TCGTGTGCT
1 CTCTGATTAGCACTGT-GTGTGCT
*
15263377 CTCTGATTAGCACTTTGTGTGCT
1 CTCTGATTAGCACTGTGTGTGCT
15263400 C
1 C
15263401 AGTACTTTGT
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.01
23 59 0.73
24 5 0.06
25 16 0.20
ACGTcount: A:0.13, C:0.25, G:0.22, T:0.40
Consensus pattern (23 bp):
CTCTGATTAGCACTGTGTGTGCT
Found at i:15263349 original size:48 final size:46
Alignment explanation
Indices: 15263283--15263400 Score: 166
Period size: 48 Copynumber: 2.5 Consensus size: 46
15263273 CTAGCACGCG
* *
15263283 CTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACATC-TCGTGCT
1 CTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACATCGT-GTGCT
*
15263329 CTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGTGCT
1 CTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACATCGTGTGCT
*
15263377 CTCTGATTAGCACTTTGTGTGCTC
1 CTCTGATTAGCACTGTGTGTGCTC
15263401 AGTACTTTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 23 0.35
48 41 0.63
49 1 0.02
ACGTcount: A:0.13, C:0.25, G:0.22, T:0.40
Consensus pattern (46 bp):
CTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACATCGTGTGCT
Found at i:15263429 original size:39 final size:39
Alignment explanation
Indices: 15263365--15263439 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
15263355 TCCGATTAGC
*
15263365 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
15263404 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
15263440 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:15263434 original size:23 final size:23
Alignment explanation
Indices: 15263399--15263492 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
15263389 CTTTGTGTGC
*
15263399 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
15263422 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
15263445 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
15263470 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
15263492 T
1 T
15263493 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:15266599 original size:23 final size:23
Alignment explanation
Indices: 15266525--15266738 Score: 151
Period size: 23 Copynumber: 9.5 Consensus size: 23
15266515 TAAACGGAAC
* * *
15266525 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
15266547 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
15266569 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
15266595 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
15266615 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
15266634 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
15266657 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
15266680 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
15266705 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
15266728 AATCAGAGAGC
1 AAACAGAGAGC
15266739 GCGCTAGTGT
Statistics
Matches: 151, Mismatches: 25, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 78 0.52
24 2 0.01
25 28 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:15266633 original size:39 final size:39
Alignment explanation
Indices: 15266579--15266653 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
15266569 GGGCAACAGA
*
15266579 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
15266618 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
15266654 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:15266692 original size:48 final size:46
Alignment explanation
Indices: 15266618--15266738 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
15266608 ACAAAGTACT
* * *
15266618 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTGCTAAACAGA
*
15266664 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTGCTAAACAGA
15266712 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
15266739 GCGCTAGTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGAAGTGCTAAACAGA
Found at i:15273035 original size:23 final size:23
Alignment explanation
Indices: 15272961--15273174 Score: 151
Period size: 23 Copynumber: 9.5 Consensus size: 23
15272951 TAAACGGAAC
* * *
15272961 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
15272983 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
15273005 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
15273031 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
15273051 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
15273070 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
15273093 AATCGGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
15273116 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
15273141 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
15273164 AATCAGAGAGC
1 AAACAGAGAGC
15273175 GCGCTAGTGT
Statistics
Matches: 151, Mismatches: 25, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 78 0.52
24 2 0.01
25 28 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:15273069 original size:39 final size:39
Alignment explanation
Indices: 15273015--15273089 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
15273005 GGGCAACAGA
*
15273015 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
15273054 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
15273090 GCTAATCGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:15273128 original size:48 final size:46
Alignment explanation
Indices: 15273054--15273174 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
15273044 ACAAAGTACT
* * *
15273054 GAGCACACAAAGTGCTAATCAGAGAGCAC-ACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAATCAGAGAGCACGA-GAAGTGCTAAACAGA
*
15273100 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACGAGAAGTGCTAAACAGA
15273148 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
15273175 GCGCTAGTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACGAGAAGTGCTAAACAGA
Found at i:15279014 original size:23 final size:23
Alignment explanation
Indices: 15278987--15279104 Score: 150
Period size: 23 Copynumber: 5.0 Consensus size: 23
15278977 CTAGCGCGCG
15278987 CTCTGATTAGCACTGTGTGTGCT
1 CTCTGATTAGCACTGTGTGTGCT
* *
15279010 CTCTGTTTAGCAC-GTCTCGTGCT
1 CTCTGATTAGCACTGTGT-GTGCT
15279033 CTCTGTTATTAGCACTGTGTGTGCT
1 CTCTG--ATTAGCACTGTGTGTGCT
*
15279058 CTCCGATTAGCACT-TCGTGTGCT
1 CTCTGATTAGCACTGT-GTGTGCT
*
15279081 CTCTGATTAGCACTTTGTGTGCT
1 CTCTGATTAGCACTGTGTGTGCT
15279104 C
1 C
15279105 AGTACTTTGT
Statistics
Matches: 83, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 59 0.71
24 1 0.01
25 16 0.19
26 3 0.04
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (23 bp):
CTCTGATTAGCACTGTGTGTGCT
Found at i:15279053 original size:48 final size:46
Alignment explanation
Indices: 15278987--15279104 Score: 166
Period size: 48 Copynumber: 2.5 Consensus size: 46
15278977 CTAGCGCGCG
* *
15278987 CTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGTGCT
1 CTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GTGCT
*
15279033 CTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGTGCT
1 CTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGTGCT
*
15279081 CTCTGATTAGCACTTTGTGTGCTC
1 CTCTGATTAGCACTGTGTGTGCTC
15279105 AGTACTTTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 23 0.35
48 41 0.63
49 1 0.02
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (46 bp):
CTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGTGCT
Found at i:15279133 original size:39 final size:39
Alignment explanation
Indices: 15279069--15279143 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
15279059 TCCGATTAGC
*
15279069 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
15279108 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
15279144 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:15279138 original size:23 final size:23
Alignment explanation
Indices: 15279103--15279196 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
15279093 CTTTGTGTGC
*
15279103 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
15279126 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
15279149 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
15279174 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
15279196 T
1 T
15279197 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:15281375 original size:23 final size:23
Alignment explanation
Indices: 15281349--15281533 Score: 190
Period size: 23 Copynumber: 8.2 Consensus size: 23
15281339 ACACTAGCGC
15281349 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
15281372 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
15281395 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
15281420 GCTCTCTGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
15281443 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
15281466 G--CTC-----AGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
*
15281482 ACTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
15281507 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
15281530 GCTC
1 GCTC
15281534 AGTACTTTGT
Statistics
Matches: 137, Mismatches: 10, Indels: 30
0.77 0.06 0.17
Matches are distributed among these distances:
16 11 0.08
18 3 0.02
21 3 0.02
22 4 0.03
23 78 0.57
24 1 0.01
25 34 0.25
26 3 0.02
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:15281418 original size:48 final size:45
Alignment explanation
Indices: 15281349--15281528 Score: 194
Period size: 48 Copynumber: 4.0 Consensus size: 45
15281339 ACACTAGCGC
* *
15281349 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCT-GT
15281395 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCTGATTAGCACTTC-TGT
* * * *
15281443 GCTCTCTGATTAGCACTTTGTGTG--CTC--AGTA-C-TTTGTGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCTGT
*
15281482 ACTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTT-TGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCTGT
15281528 G
1 G
15281529 TGCTCAGTAC
Statistics
Matches: 112, Mismatches: 11, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
39 10 0.09
40 2 0.02
41 16 0.14
42 3 0.03
43 3 0.03
44 3 0.03
45 3 0.03
46 27 0.24
47 2 0.02
48 42 0.38
49 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.42
Consensus pattern (45 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCTGT
Found at i:15281499 original size:41 final size:39
Alignment explanation
Indices: 15281434--15281510 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 39
15281424 TCTGATTAGC
* *
15281434 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTGTGTGTGCTCAGT
*
15281473 ACTTTGTGTACTCTCTGTTATTAGCACTGTGTGTGCTC
1 ACTTCGTGTACTCTCTG--ATTAGCACTGTGTGTGCTC
15281511 TCTGATTAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 15 0.45
41 18 0.55
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTGTGTGTGCTCAGT
Found at i:15281564 original size:87 final size:84
Alignment explanation
Indices: 15281367--15281622 Score: 236
Period size: 87 Copynumber: 3.0 Consensus size: 84
15281357 ATTAGCACTG
* *
15281367 TGTGTGCTCTCTGTTTAGCACGTCTCGTG-CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATT
1 TGTGTACTCTCTGTTTAGCAC-T-TTGTGTCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATT
15281431 AGCACTTCGTGTGCTCTCTGAT
64 AGCACTTCGTGTGCTCTCT-AT
* * * * * *
15281453 T-AGCACTTTGTGTGCTCAGTACTTTGTGTACTCTCTGTTATTAGCACTGTGTGTGCTCTCTGAT
1 TGTGTACTCTCTGT--TTAGCACTTTGTGT-CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGAT
*
15281517 TAGCACTTTGTGTGCTCAGTACT-T
63 TAGCACTTCGTGTGCTC--T-CTAT
** *
15281541 TGTGTACTCTCTGTTTAGCACTTTGTGTGCTCTCTGTTGCCTAGCACT-TATGTGCTCTCTG-TT
1 TGTGTACTCTCTGTTTAGCACTTTGTGT-CTCTCTGTT-ATTAGCACTGTGTGTGCTCTCTGATT
* *
15281604 CAGTACTTCG-GTACTCTCT
64 -AGCACTTCGTGTGCTCTCT
15281623 GTTTGTTCCG
Statistics
Matches: 138, Mismatches: 22, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
83 2 0.01
84 1 0.01
85 11 0.08
86 9 0.07
87 95 0.69
88 9 0.07
89 9 0.07
90 2 0.01
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.43
Consensus pattern (84 bp):
TGTGTACTCTCTGTTTAGCACTTTGTGTCTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAG
CACTTCGTGTGCTCTCTAT
Found at i:15281567 original size:23 final size:23
Alignment explanation
Indices: 15281537--15281626 Score: 87
Period size: 23 Copynumber: 3.9 Consensus size: 23
15281527 TGTGCTCAGT
15281537 ACTTTGTGTACTCTCTGTTTAGC
1 ACTTTGTGTACTCTCTGTTTAGC
*
15281560 ACTTTGTGTGCTCTCTGTTGCCTAGC
1 ACTTTGTGTACTCTCTGTT---TAGC
* *
15281586 ACTTATGTG--CTCTCTGTTCAGT
1 ACTT-TGTGTACTCTCTGTTTAGC
*
15281608 ACTTCG-GTACTCTCTGTTT
1 ACTTTGTGTACTCTCTGTTT
15281627 GTTCCGTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 15 0.27
23 18 0.32
25 9 0.16
26 8 0.14
27 4 0.07
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (23 bp):
ACTTTGTGTACTCTCTGTTTAGC
Found at i:15281597 original size:64 final size:62
Alignment explanation
Indices: 15281415--15281576 Score: 270
Period size: 64 Copynumber: 2.6 Consensus size: 62
15281405 ATTAGCACTG
* * *
15281415 TGTGTGCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGTACTT
1 TGTGTACTCTCTGTTTAGCACTTTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGTACTT
*
15281477 TGTGTACTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGTACTT
1 TGTGTACTCTCTG-T-TTAGCACTTTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGTACTT
15281541 TGTGTACTCTCTGTTTAGCACTTTGTGTGCTCTCTG
1 TGTGTACTCTCTGTTTAGCACTTTGTGTGCTCTCTG
15281577 TTGCCTAGCA
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
62 33 0.35
63 1 0.01
64 59 0.63
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (62 bp):
TGTGTACTCTCTGTTTAGCACTTTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGTACTT
Found at i:15298370 original size:45 final size:45
Alignment explanation
Indices: 15298321--15298416 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
15298311 CAGGCAATGG
* * * * *
15298321 TGGTGGTGGTGGTGGTGATTTTGGCAGGGGGGGAGGTGTAGGCAA
1 TGGTGGTCGTGGTGGAGATTTCGGCAGAGGGGGAGGTATAGGCAA
* *
15298366 TGGTGGTCTTGGTGGAGGTTTCGGCAGAGGGGGAGGTATAGGCAA
1 TGGTGGTCGTGGTGGAGATTTCGGCAGAGGGGGAGGTATAGGCAA
15298411 TGGTGG
1 TGGTGG
15298417 AGCCGGGGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.15, C:0.06, G:0.53, T:0.26
Consensus pattern (45 bp):
TGGTGGTCGTGGTGGAGATTTCGGCAGAGGGGGAGGTATAGGCAA
Found at i:15305065 original size:5 final size:6
Alignment explanation
Indices: 15305050--15305079 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
15305040 AAGATGAATT
*
15305050 AAAAAG AAAAAG AAAAAG AAAAAG AGAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
15305080 TAGAGAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:15311995 original size:21 final size:21
Alignment explanation
Indices: 15311940--15311995 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
15311930 AACTTTGTTG
*
15311940 TTTTACTATTGTTTTTCCATT
1 TTTTACTACTGTTTTTCCATT
*
15311961 TTTTA-TGCTGTTTTTCCATT
1 TTTTACTACTGTTTTTCCATT
*
15311981 TTTTACTACTATTTT
1 TTTTACTACTGTTTT
15311996 GCAATCATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.14, C:0.14, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTACTACTGTTTTTCCATT
Found at i:15320090 original size:13 final size:13
Alignment explanation
Indices: 15320074--15320137 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
15320064 ATAAATTTAG
15320074 TTTTTAAAAATAC
1 TTTTTAAAAATAC
* *
15320087 -TTTTCAAAATCAA
1 TTTTTAAAAAT-AC
* *
15320100 TTTTTCAAAACAC
1 TTTTTAAAAATAC
*
15320113 TTTTTAAAAGTA-
1 TTTTTAAAAATAC
15320125 TTTTTCAAAAATA
1 TTTTT-AAAAATA
15320138 ATACTAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 14 0.35
13 17 0.43
14 9 0.22
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.44
Consensus pattern (13 bp):
TTTTTAAAAATAC
Found at i:15320103 original size:26 final size:25
Alignment explanation
Indices: 15320074--15320137 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
15320064 ATAAATTTAG
15320074 TTTTTAAAAATACTTTTCAAAA-TCAA
1 TTTTTAAAAATACTTTTCAAAAGT--A
* * *
15320100 TTTTTCAAAACACTTTTTAAAAGTA
1 TTTTTAAAAATACTTTTCAAAAGTA
15320125 TTTTTCAAAAATA
1 TTTTT-AAAAATA
15320138 ATACTAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
25 6 0.19
26 24 0.77
27 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTTTAAAAATACTTTTCAAAAGTA
Found at i:15335994 original size:18 final size:18
Alignment explanation
Indices: 15335971--15336005 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15335961 GTTCAATGTG
*
15335971 TAATTAATTTAAAATTTT
1 TAATTAATTAAAAATTTT
15335989 TAATTAATTAAAAATTT
1 TAATTAATTAAAAATTT
15336006 ATTATCGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAAAATTTT
Found at i:15351097 original size:12 final size:12
Alignment explanation
Indices: 15351080--15351110 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15351070 TTTAAACTCG
15351080 GAACTTGGAATA
1 GAACTTGGAATA
15351092 GAACTTGGAATA
1 GAACTTGGAATA
*
15351104 AAACTTG
1 GAACTTG
15351111 TTTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.26
Consensus pattern (12 bp):
GAACTTGGAATA
Found at i:15352182 original size:22 final size:22
Alignment explanation
Indices: 15352148--15352189 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15352138 ACATAATTCA
* *
15352148 ATAATGAATATTTATTATTTAT
1 ATAAAGAACATTTATTATTTAT
15352170 ATAAAGAACATTTATTATTT
1 ATAAAGAACATTTATTATTT
15352190 TGTTTTAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
ATAAAGAACATTTATTATTTAT
Found at i:15370938 original size:6 final size:7
Alignment explanation
Indices: 15370919--15370949 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
15370909 AGCTTACTGA
15370919 CCTTTTT
1 CCTTTTT
15370926 CCTTTTT
1 CCTTTTT
15370933 CCTTTTT
1 CCTTTTT
15370940 CCTTTTT
1 CCTTTTT
15370947 CCT
1 CCT
15370950 AATAATTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (7 bp):
CCTTTTT
Found at i:15371277 original size:12 final size:12
Alignment explanation
Indices: 15371255--15371299 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
15371245 TTCCATTTCC
15371255 AAATT-TTTTAT
1 AAATTATTTTAT
15371266 AAATTATTTTAT
1 AAATTATTTTAT
*
15371278 ACATTA-TTTAT
1 AAATTATTTTAT
*
15371289 AATTTATTTTA
1 AAATTATTTTA
15371300 ACTCTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 14 0.48
12 15 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
AAATTATTTTAT
Found at i:15375185 original size:6 final size:6
Alignment explanation
Indices: 15375176--15375203 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15375166 AAAGAAGAAA
15375176 GAGAGG GAGAGG GAGAGG GAGAGG GAGA
1 GAGAGG GAGAGG GAGAGG GAGAGG GAGA
15375204 AGAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:15375470 original size:27 final size:26
Alignment explanation
Indices: 15375414--15375483 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 26
15375404 TTTTAAAAAA
* *
15375414 TAATTATTTTATTTTATTTTTAATATT
1 TAATAATTTTA-TATATTTTTAATATT
* *
15375441 TAATAATTTTATATATTTTTTATTTAT
1 TAATAATTTTATATATTTTTAATAT-T
*
15375468 TAAAAATTTTTATATA
1 TAATAA-TTTTATATA
15375484 GTCATCCTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 11 0.31
27 16 0.44
28 9 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TAATAATTTTATATATTTTTAATATT
Found at i:15385595 original size:37 final size:38
Alignment explanation
Indices: 15385554--15385632 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 38
15385544 TTCAAAGCAA
*
15385554 TAAAGTGACACCTAGTATCTCATCG-ACCTAGCCGAAG
1 TAAAGTGACACCTAGTACCTCATCGAACCTAGCCGAAG
* * * *
15385591 TAAAGTGATACCTAGTACCTCATTGAATCTATCCGAAG
1 TAAAGTGACACCTAGTACCTCATCGAACCTAGCCGAAG
15385629 TAAA
1 TAAA
15385633 ATAATGACAC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 22 0.61
38 14 0.39
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (38 bp):
TAAAGTGACACCTAGTACCTCATCGAACCTAGCCGAAG
Found at i:15393225 original size:20 final size:20
Alignment explanation
Indices: 15393197--15393245 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
15393187 ATTTTTTGAA
* *
15393197 TATATTATTATTTTATGTAT
1 TATAATATTATTTTATGTAC
15393217 TATAATATTATTTTATGTAC
1 TATAATATTATTTTATGTAC
15393237 TAGTAATAT
1 TA-TAATAT
15393246 ACTAATTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (20 bp):
TATAATATTATTTTATGTAC
Found at i:15393398 original size:16 final size:17
Alignment explanation
Indices: 15393367--15393404 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
15393357 TTATACATAT
15393367 ATAATTATAGTATTAAA
1 ATAATTATAGTATTAAA
*
15393384 ATAATTTTA-TATTAAA
1 ATAATTATAGTATTAAA
*
15393400 TTAAT
1 ATAAT
15393405 GTTTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATAATTATAGTATTAAA
Found at i:15401032 original size:15 final size:16
Alignment explanation
Indices: 15400996--15401042 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
15400986 AAAATATCAC
15400996 TAAAAATA--ATTGAAA
1 TAAAAATATTATT-AAA
15401011 TAAAAATATTATTAAA
1 TAAAAATATTATTAAA
*
15401027 T-AAAATATTTTTAAA
1 TAAAAATATTATTAAA
15401042 T
1 T
15401043 TTTTTAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 22 0.76
16 4 0.14
17 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
TAAAAATATTATTAAA
Found at i:15403387 original size:59 final size:59
Alignment explanation
Indices: 15403253--15403404 Score: 160
Period size: 59 Copynumber: 2.6 Consensus size: 59
15403243 TTGATCATGT
* * * *
15403253 CATGGCTGACACCCCTTTTTATCAGATAAAAAATTTAAATTTTTTTATATTGGCTATTG
1 CATGGCTGACACCCCTTTTTATCAGATAAAAAAATTAAAATTTTTTATATTGGCCATTA
* * * ** * *
15403312 TATGGTTAACACCCCTTTTTATTTGATAAAAAAATTAAAATTTTTTGTGTTGGCCATTA
1 CATGGCTGACACCCCTTTTTATCAGATAAAAAAATTAAAATTTTTTATATTGGCCATTA
* * * *
15403371 CATGGCCGACATCCCTTTTTCTCTAAATAAAAAA
1 CATGGCTGACACCCCTTTTTATC-AGATAAAAAA
15403405 TCAAATTTTT
Statistics
Matches: 72, Mismatches: 20, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
59 64 0.89
60 8 0.11
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.40
Consensus pattern (59 bp):
CATGGCTGACACCCCTTTTTATCAGATAAAAAAATTAAAATTTTTTATATTGGCCATTA
Found at i:15403652 original size:118 final size:120
Alignment explanation
Indices: 15403431--15403663 Score: 350
Period size: 118 Copynumber: 2.0 Consensus size: 120
15403421 CGGTCATGAT
* *
15403431 TTTTTGTCAGATAAAAAATTCAATTTTTTTGGCGTTGGCTATGCCATGTTCGACACTCCCTTTTT
1 TTTTTGTCAGATAAAAAATTCAATATTTTTGGCGTTGGCCATGCCATGTTCGACACTCCCTTTTT
* *
15403496 TATCTGGTAAAAAATCATTTTTTTGTGTGTTGGTCATGCAATGGCCGACATCCCC
66 TATCTGGTAAAAAATAATTTTTTTGTGTGTTGGTCATGCAATAGCCGACATCCCC
* *
15403551 TTTTTGTCAGATAAAAAATTCAA-ATTTTTGGTGTTGGCCATTG-CATGGTT-GACAC-CTCTTT
1 TTTTTGTCAGATAAAAAATTCAATATTTTTGGCGTTGGCCA-TGCCAT-GTTCGACACTCCCTTT
15403612 TTTATCTGGTAAAAAATTAATTTTTTT-TGTGTTGGTCATGCAATAGCCGACA
64 TTTATCTGGTAAAAAA-TAATTTTTTTGTGTGTTGGTCATGCAATAGCCGACA
15403664 CCAACTTTTC
Statistics
Matches: 104, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
118 45 0.43
119 31 0.30
120 28 0.27
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (120 bp):
TTTTTGTCAGATAAAAAATTCAATATTTTTGGCGTTGGCCATGCCATGTTCGACACTCCCTTTTT
TATCTGGTAAAAAATAATTTTTTTGTGTGTTGGTCATGCAATAGCCGACATCCCC
Found at i:15403664 original size:59 final size:59
Alignment explanation
Indices: 15403442--15403665 Score: 217
Period size: 59 Copynumber: 3.8 Consensus size: 59
15403432 TTTTGTCAGA
* * **
15403442 TAAAAAATTCAATTTTTTTGGCGTTGG-CTATGCCATGTTCGACACTCCCTTTTTTATCTGG
1 TAAAAAATTCAATTTTTTTGGTGTTGGTC-ATGCAATGGCCGACA--CCCTTTTTTATCTGG
* * * *
15403503 TAAAAAA-TC-ATTTTTTTGTGTGTTGGTCATGCAATGGCCGACATCCCCTTTTTGTCAGA
1 TAAAAAATTCAATTTTTTTG-GTGTTGGTCATGCAATGGCCGACA-CCCTTTTTTATCTGG
* * **
15403562 TAAAAAATTCAA-ATTTTTGGTGTTGGCCATTGC-ATGGTTGACACCTCTTTTTTATCTGG
1 TAAAAAATTCAATTTTTTTGGTGTTGGTCA-TGCAATGGCCGACACC-CTTTTTTATCTGG
* *
15403621 TAAAAAATT-AATTTTTTTTGTGTTGGTCATGCAATAGCCGACACC
1 TAAAAAATTCAATTTTTTTGGTGTTGGTCATGCAATGGCCGACACC
15403666 AACTTTTCCT
Statistics
Matches: 133, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
58 7 0.05
59 86 0.65
60 31 0.23
61 9 0.07
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (59 bp):
TAAAAAATTCAATTTTTTTGGTGTTGGTCATGCAATGGCCGACACCCTTTTTTATCTGG
Found at i:15407275 original size:85 final size:84
Alignment explanation
Indices: 15407171--15407466 Score: 436
Period size: 85 Copynumber: 3.5 Consensus size: 84
15407161 AATTTAACAT
* * * **
15407171 TATTTAAATAAAAAAATTATTATTATATTTCAATTTATATTAAATAACATGTTGATTTGACAATA
1 TATTTAAAT-AAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATA
*
15407236 TATTATTTATCAAATTTTAA
65 CATTATTTATCAAATTTTAA
* *
15407256 TATTTAAAT-AAAAA-TATTATTATATTACAATTTTTATCAAATAATGTGTAGATTTGACAACAC
1 TATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAC
15407319 ATTATTTATCAAATTTTAA
66 ATTATTTATCAAATTTTAA
*
15407338 TATTT-AATAAAAAAGATTATTATTATATTACAATTTTTATCAAATAATGTGTTAATTTGACAAT
1 TATTTAAAT-AAAAA-ATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAAT
*
15407402 ACATTATTTACCAAATTTTAA
64 ACATTATTTATCAAATTTTAA
* *
15407423 TATTTAAATTAAAAATTATTATTATATTTCAATTTTTATCAAAT
1 TATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAAT
15407467 TTTAAATTTA
Statistics
Matches: 192, Mismatches: 14, Indels: 11
0.88 0.06 0.05
Matches are distributed among these distances:
81 3 0.02
82 65 0.34
83 9 0.05
84 30 0.16
85 82 0.43
86 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (84 bp):
TATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTGTTGATTTGACAATAC
ATTATTTATCAAATTTTAA
Found at i:15409947 original size:29 final size:28
Alignment explanation
Indices: 15409912--15410003 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 28
15409902 TTACTTTTAA
* * **
15409912 AATTTAATTTGTAATTTCGTTTTTATTTT
1 AATTTAATTTCTAATTTC-TGTAAATTTT
15409941 AATTTAATTTCTAATTTTCTGTAAATTTT
1 AATTTAATTTCTAA-TTTCTGTAAATTTT
* *
15409970 AATTTTAATTTCTAATTTCCTGTATATTCT
1 AA-TTTAATTTCTAATTT-CTGTAAATTTT
15410000 AATT
1 AATT
15410004 ATTTTTTTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 27 0.50
30 27 0.50
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (28 bp):
AATTTAATTTCTAATTTCTGTAAATTTT
Found at i:15409979 original size:30 final size:30
Alignment explanation
Indices: 15409936--15410003 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
15409926 TTTCGTTTTT
*
15409936 ATTTTAA-TTTAATTTCTAATTTTCTGTAA
1 ATTTTAATTTTAATTTCTAATTTCCTGTAA
*
15409965 ATTTTAATTTTAATTTCTAATTTCCTGTAT
1 ATTTTAATTTTAATTTCTAATTTCCTGTAA
*
15409995 ATTCTAATT
1 ATTTTAATT
15410004 ATTTTTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 7 0.20
30 28 0.80
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (30 bp):
ATTTTAATTTTAATTTCTAATTTCCTGTAA
Found at i:15430069 original size:28 final size:30
Alignment explanation
Indices: 15430032--15430088 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
15430022 ATATTTTGAT
*
15430032 TCTTTG-AAAA-TATAAAAATTTAATTTAA
1 TCTTTGAAAAATTATAAAAATATAATTTAA
* *
15430060 TCTTTTAAAAATTATAAAGATATAATTTA
1 TCTTTGAAAAATTATAAAAATATAATTTA
15430089 TTAAAATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 4 0.17
30 15 0.62
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (30 bp):
TCTTTGAAAAATTATAAAAATATAATTTAA
Found at i:15435011 original size:14 final size:14
Alignment explanation
Indices: 15434992--15435021 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15434982 AAGGTTTAAA
15434992 AATTTTAATTAATT
1 AATTTTAATTAATT
*
15435006 AATTTTATTTAATT
1 AATTTTAATTAATT
15435020 AA
1 AA
15435022 AGATTTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTTAATTAATT
Found at i:15435533 original size:20 final size:20
Alignment explanation
Indices: 15435504--15435541 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15435494 TAATTTCCTA
* *
15435504 AATTTGTATCGGTAAAAGGG
1 AATTTATATCAGTAAAAGGG
15435524 AATTTATATCAGTAAAAG
1 AATTTATATCAGTAAAAG
15435542 TTTCTTTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (20 bp):
AATTTATATCAGTAAAAGGG
Found at i:15436564 original size:2 final size:2
Alignment explanation
Indices: 15436559--15436584 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15436549 TTTTTTTATC
15436559 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15436585 TAAAATTTCT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15440941 original size:2 final size:2
Alignment explanation
Indices: 15440934--15440961 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15440924 ATAATCATTT
15440934 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
15440962 TAAATTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15446225 original size:2 final size:2
Alignment explanation
Indices: 15446206--15446255 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
15446196 TGAAATTCAG
* *
15446206 AT AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15446248 AT AT AT AT
1 AT AT AT AT
15446256 CCATTCAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15448346 original size:56 final size:56
Alignment explanation
Indices: 15448237--15448349 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
15448227 TAGCCTCCTT
*
15448237 GGTCCTGTTATGAAGAGGAGAGGGAAAAAAAGAAAAGAAAGGAAAAAAGGGAAAGA
1 GGTCCTGTTATGAAGAGGAGAGGAAAAAAAAGAAAAGAAAGGAAAAAAGGGAAAGA
* * *
15448293 GGTCTTGTTATGAGGAGGAGAGGAAAAAAAAAGAAAAGAAAGGAGAAAA-GGAAAGA
1 GGTCCTGTTATGAAGAGGAGAGG-AAAAAAAAGAAAAGAAAGGAAAAAAGGGAAAGA
15448349 G
1 G
15448350 AAAAGTCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 29 0.56
57 23 0.44
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.10
Consensus pattern (56 bp):
GGTCCTGTTATGAAGAGGAGAGGAAAAAAAAGAAAAGAAAGGAAAAAAGGGAAAGA
Found at i:15450517 original size:49 final size:48
Alignment explanation
Indices: 15450456--15450609 Score: 184
Period size: 49 Copynumber: 3.1 Consensus size: 48
15450446 GAAATTAATT
* * *
15450456 AAATTAAGTTAGAAACAAATTGATATTGTTCTTAATTTAATCAAAACCA
1 AAATTAATTTAGAAACAAATT-AAATTGTTCTTAATTTAATTAAAACCA
15450505 AAATTAATTTAGAAACAAATTAAAGTTGATT-TTAATTTAATTAAAACCA
1 AAATTAATTTAGAAACAAATTAAA-TTG-TTCTTAATTTAATTAAAACCA
* * *** *
15450554 AAATTAATCTAGAAACAAACTAAGATTAACCTTAATTTAATTAAAACAA
1 AAATTAATTTAGAAACAAATTAA-ATTGTTCTTAATTTAATTAAAACCA
15450603 AAATTAA
1 AAATTAA
15450610 ATCAAAATCC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
48 2 0.02
49 87 0.95
50 3 0.03
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (48 bp):
AAATTAATTTAGAAACAAATTAAATTGTTCTTAATTTAATTAAAACCA
Found at i:15462167 original size:16 final size:16
Alignment explanation
Indices: 15462118--15462171 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
15462108 GAAAATTTAT
*
15462118 ATTTTCCATCTTTCTA
1 ATTTTCCATCTTTCCA
* * *
15462134 TTTTTCTATCCCTT-CA
1 ATTTTCCAT-CTTTCCA
15462150 ATTTTCCATCTTTCCA
1 ATTTTCCATCTTTCCA
15462166 ATTTTC
1 ATTTTC
15462172 TTTCCACCCA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTCCATCTTTCCA
Found at i:15467976 original size:19 final size:18
Alignment explanation
Indices: 15467952--15467996 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
15467942 GTATATTGAA
15467952 TATGATAAAATAATTTAAT
1 TATGATAAAATAATTT-AT
**
15467971 TATGATTTAATAATTTAT
1 TATGATAAAATAATTTAT
*
15467989 TATTATAA
1 TATGATAA
15467997 TATTTGGATT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (18 bp):
TATGATAAAATAATTTAT
Found at i:15468218 original size:3 final size:3
Alignment explanation
Indices: 15468210--15468237 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15468200 AACAGTTGTT
15468210 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15468238 ATAAAGCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15469542 original size:19 final size:21
Alignment explanation
Indices: 15469520--15469572 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
15469510 TTTTTAAAAA
*
15469520 ATTATAAATTTGTAAAAATATT
1 ATTA-AAATTTATAAAAATATT
15469542 ATTAAAATTTATAAAAATATT
1 ATTAAAATTTATAAAAATATT
*
15469563 AAATAAAATT
1 -ATTAAAATT
15469573 AAAGGGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTAAAATTTATAAAAATATT
Found at i:15471571 original size:30 final size:32
Alignment explanation
Indices: 15471535--15471598 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 32
15471525 AATCTATATC
*
15471535 TTTATTA-TTTTTAAAGGATTAAATTA-AATT
1 TTTATTATTTTTTAAAGGATTAAAATATAATT
*
15471565 TTTATTATTTTTTAAAGGGTTAAAATATAATT
1 TTTATTATTTTTTAAAGGATTAAAATATAATT
15471597 TT
1 TT
15471599 ATCATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 7 0.23
31 17 0.57
32 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (32 bp):
TTTATTATTTTTTAAAGGATTAAAATATAATT
Found at i:15473593 original size:25 final size:25
Alignment explanation
Indices: 15473542--15473593 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
15473532 CAAATTAAAC
* * * *
15473542 TTTACAAATATTTTATATTAATTTT
1 TTTAAAAATATTTAAAATTAATATT
*
15473567 TTTAAAAATATTTAAAATTTATATT
1 TTTAAAAATATTTAAAATTAATATT
15473592 TT
1 TT
15473594 ATACACCACC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTAAAAATATTTAAAATTAATATT
Found at i:15474685 original size:17 final size:17
Alignment explanation
Indices: 15474663--15474697 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15474653 TATGGTCTAG
15474663 GATTTTATATTACTTCT
1 GATTTTATATTACTTCT
15474680 GATTTTATATTACTTCT
1 GATTTTATATTACTTCT
15474697 G
1 G
15474698 TCAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.09, T:0.57
Consensus pattern (17 bp):
GATTTTATATTACTTCT
Found at i:15475757 original size:38 final size:39
Alignment explanation
Indices: 15475714--15475793 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 39
15475704 AGACACGAAA
*
15475714 AGTTTATGAG-TGTTAGGAATAAAATTATATTTGGGTTT
1 AGTTTATGAGTTGTTAAGAATAAAATTATATTTGGGTTT
* *
15475752 AGTTTATGAGTTTTTTTAAGAATGAAATTATATTTGGGTTT
1 AGTTTATGAG--TTGTTAAGAATAAAATTATATTTGGGTTT
15475793 A
1 A
15475794 AAAATATTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 10 0.28
41 26 0.72
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.47
Consensus pattern (39 bp):
AGTTTATGAGTTGTTAAGAATAAAATTATATTTGGGTTT
Found at i:15487244 original size:17 final size:17
Alignment explanation
Indices: 15487222--15487256 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15487212 AAAAACCTAC
15487222 GTAAATAAATACCATAT
1 GTAAATAAATACCATAT
15487239 GTAAATAAATACCATAT
1 GTAAATAAATACCATAT
15487256 G
1 G
15487257 AAGTTAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (17 bp):
GTAAATAAATACCATAT
Found at i:15492154 original size:26 final size:26
Alignment explanation
Indices: 15492125--15492177 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
15492115 AACTTAAAAA
15492125 TATTTAAATTTATTTAAAAAAACATT
1 TATTTAAATTTATTTAAAAAAACATT
*
15492151 TATTTAAATTTATTTAAACAAACATT
1 TATTTAAATTTATTTAAAAAAACATT
15492177 T
1 T
15492178 TGATTTTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (26 bp):
TATTTAAATTTATTTAAAAAAACATT
Found at i:15494645 original size:18 final size:18
Alignment explanation
Indices: 15494622--15494661 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
15494612 TATTCAATTT
15494622 TATTATTATTCTAATAAA
1 TATTATTATTCTAATAAA
15494640 TATTATTATTCTAATAAA
1 TATTATTATTCTAATAAA
15494658 TATT
1 TATT
15494662 GGAATTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTATTATTCTAATAAA
Found at i:15494807 original size:21 final size:21
Alignment explanation
Indices: 15494783--15494824 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15494773 AGTAAATTAC
15494783 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
15494804 TAAATACAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
15494825 CGAGATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:15498948 original size:20 final size:18
Alignment explanation
Indices: 15498916--15498960 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
15498906 ACAATATATA
15498916 TTTTTTTGTTTTTCT-TT
1 TTTTTTTGTTTTTCTCTT
15498933 TCTTTTTTGTCCTTTTCTCTT
1 T-TTTTTTGT--TTTTCTCTT
15498954 TTTTTTT
1 TTTTTTT
15498961 TTCTTCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.04
18 8 0.33
20 12 0.50
21 3 0.12
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTTTGTTTTTCTCTT
Found at i:15498974 original size:20 final size:19
Alignment explanation
Indices: 15498916--15498965 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
15498906 ACAATATATA
*
15498916 TTTTTTTGTTTTTCTTTTC
1 TTTTTTTCTTTTTCTTTTC
15498935 TTTTTTGTCCTTTTCTCTTTT-
1 TTTTTT-T-CTTTT-TCTTTTC
15498956 TTTTTTTCTT
1 TTTTTTTCTT
15498966 CTTGTCTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 10 0.37
22 6 0.22
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.82
Consensus pattern (19 bp):
TTTTTTTCTTTTTCTTTTC
Found at i:15499896 original size:158 final size:157
Alignment explanation
Indices: 15499716--15500030 Score: 603
Period size: 158 Copynumber: 2.0 Consensus size: 157
15499706 AATTAATAAT
15499716 AAACAATAAATATGCATATTATTAAAATGAAAAAATTAAATTAAATTGTTTATCATAATGTTATC
1 AAACAATAAATATGCATATTATTAAAATGAAAAAATTAAATTAAATTGTTTATCATAATGTTATC
15499781 ATCAATTTTGAATTGGTGTCAAATTAACTTATGACATCAATTCAATTAAATAGATTATCAATGTA
66 ATCAATTTTGAATTGGTGTCAAATTAACTTATGACATCAATTCAATTAAATAGATTATCAATGTA
*
15499846 TACCACTGATGAATGTAATAAAGTATG
131 TACCACCGATGAATGTAATAAAGTATG
*
15499873 AAACAATAAAATATGCATGTTATTAAAATGAAAAAATTAAATTAAATTGTTTATCATAATGTTAT
1 AAACAAT-AAATATGCATATTATTAAAATGAAAAAATTAAATTAAATTGTTTATCATAATGTTAT
15499938 CATCAATTTTGAATTGGTGTCAAATTAACTTATGACATCAATTCAATTAAATAGATTATCAATGT
65 CATCAATTTTGAATTGGTGTCAAATTAACTTATGACATCAATTCAATTAAATAGATTATCAATGT
15500003 ATACCACCGATGAATGTAATAAAGTATG
130 ATACCACCGATGAATGTAATAAAGTATG
15500031 CATAATAAAA
Statistics
Matches: 155, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
157 7 0.05
158 148 0.95
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.36
Consensus pattern (157 bp):
AAACAATAAATATGCATATTATTAAAATGAAAAAATTAAATTAAATTGTTTATCATAATGTTATC
ATCAATTTTGAATTGGTGTCAAATTAACTTATGACATCAATTCAATTAAATAGATTATCAATGTA
TACCACCGATGAATGTAATAAAGTATG
Found at i:15501474 original size:18 final size:17
Alignment explanation
Indices: 15501446--15501547 Score: 61
Period size: 17 Copynumber: 5.9 Consensus size: 17
15501436 GAAAAAGATG
* *
15501446 ATATTTAAAATTATTTA
1 ATATTTTAAATAATTTA
*
15501463 ATAATTTTAAATAATTTT
1 AT-ATTTTAAATAATTTA
*
15501481 ATATTTTAAAAAAATAATATA
1 ATATTTT----AAATAATTTA
*
15501502 ATAATTTT-AATAATTTT
1 AT-ATTTTAAATAATTTA
*
15501519 ATA-TTTAAA-AAATT-
1 ATATTTTAAATAATTTA
15501533 A-ATTTTAAATAATTT
1 ATATTTTAAATAATTT
15501548 GCTGCGTGAC
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
13 1 0.01
14 7 0.10
15 11 0.16
16 3 0.04
17 16 0.24
18 14 0.21
21 10 0.15
22 5 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTTAAATAATTTA
Found at i:15501547 original size:39 final size:39
Alignment explanation
Indices: 15501452--15501535 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
15501442 GATGATATTT
* *
15501452 AAAATTATTTAATAATTTTAAATAATTTTATATTTTAAA
1 AAAATAATATAATAATTTTAAATAATTTTATATTTTAAA
15501491 AAAATAATATAATAATTTT-AATAATTTTATA-TTTAAA
1 AAAATAATATAATAATTTTAAATAATTTTATATTTTAAA
*
15501528 AAATTAAT
1 AAAATAAT
15501536 TTTAAATAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
37 13 0.31
38 12 0.29
39 17 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (39 bp):
AAAATAATATAATAATTTTAAATAATTTTATATTTTAAA
Found at i:15501933 original size:18 final size:18
Alignment explanation
Indices: 15501910--15501947 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
15501900 GTAATAAAAT
15501910 ATGTATAATAAA-ATTAAA
1 ATGTATAA-AAATATTAAA
15501928 ATGTATAAAAATATTAAA
1 ATGTATAAAAATATTAAA
15501946 AT
1 AT
15501948 AAAGCTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
ATGTATAAAAATATTAAA
Done.