Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 82 of 106
Found at i:16485176 original size:5 final size:5
Alignment explanation
Indices: 16485147--16485201 Score: 56
Period size: 5 Copynumber: 10.2 Consensus size: 5
16485137 TTCAGCTTCT
*
16485147 AAGAG AGAGAG AAAGAG CAAAGAG AAGAG AAGAG AAGAG AGGAG AAGAG
1 AAGAG A-AGAG -AAGAG --AAGAG AAGAG AAGAG AAGAG AAGAG AAGAG
*
16485196 CAGAG A
1 AAGAG A
16485202 GGAAAAAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
5 28 0.65
6 8 0.19
7 7 0.16
ACGTcount: A:0.56, C:0.04, G:0.40, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:16491176 original size:18 final size:18
Alignment explanation
Indices: 16491139--16491176 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16491129 AATCGAATTA
*
16491139 AATTATATATATGTTATT
1 AATTATATATATATTATT
*
16491157 AATTATATATATATTTTT
1 AATTATATATATATTATT
16491175 AA
1 AA
16491177 ATTTTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
AATTATATATATATTATT
Found at i:16492913 original size:16 final size:16
Alignment explanation
Indices: 16492892--16492944 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
16492882 TTGATATATA
16492892 TTATTTTTTAATTTAT
1 TTATTTTTTAATTTAT
** *
16492908 TTATTTAATATTTTAT
1 TTATTTTTTAATTTAT
16492924 TTATTTATTTTATATTTAT
1 TTA-TT-TTTTA-ATTTAT
16492943 TT
1 TT
16492945 TTAAAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 16 0.57
17 2 0.07
18 3 0.11
19 7 0.25
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTTTAATTTAT
Found at i:16492920 original size:15 final size:14
Alignment explanation
Indices: 16492886--16492944 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 14
16492876 ATCGATTTGA
16492886 TATATATTATTT-TT
1 TATAT-TTATTTATT
16492900 TA-ATTTATTTATT
1 TATATTTATTTATT
16492913 TAATATTTTATTTATT
1 T-ATA-TTTATTTATT
*
16492929 TATTTTATATTTATT
1 TATATT-TATTTATT
16492944 T
1 T
16492945 TTAAAAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
12 6 0.15
13 5 0.13
14 5 0.13
15 12 0.31
16 11 0.28
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATATTTATTTATT
Found at i:16492927 original size:20 final size:20
Alignment explanation
Indices: 16492897--16492944 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
16492887 ATATATTATT
16492897 TTTTAATTTATTTATTTAATA
1 TTTT-ATTTATTTATTTAATA
*
16492918 TTTTATTTATTTATTTTATA
1 TTTTATTTATTTATTTAATA
16492938 -TTTATTT
1 TTTTATTT
16492945 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 7 0.27
20 15 0.58
21 4 0.15
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTTATTTATTTAATA
Found at i:16492939 original size:11 final size:11
Alignment explanation
Indices: 16492905--16492945 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
16492895 TTTTTTAATT
*
16492905 TATTTATTTAA
1 TATTTATTTTA
*
16492916 TATTT-TATT-
1 TATTTATTTTA
16492925 TATTTATTTTA
1 TATTTATTTTA
16492936 TATTTATTTT
1 TATTTATTTT
16492946 TAAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 5 0.20
10 5 0.20
11 15 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTTATTTTA
Found at i:16493009 original size:26 final size:26
Alignment explanation
Indices: 16492956--16493011 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
16492946 TAAAAATAAT
*
16492956 ATTTTATTAATTTAATATTAAATCAA
1 ATTTTATTAATTTAATATCAAATCAA
* *
16492982 ATTTTATATAATTTAA-ATCGAATTAA
1 ATTTTAT-TAATTTAATATCAAATCAA
16493008 ATTT
1 ATTT
16493012 AAATATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTTTATTAATTTAATATCAAATCAA
Found at i:16493071 original size:32 final size:34
Alignment explanation
Indices: 16492996--16493080 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 34
16492986 TATATAATTT
* * *
16492996 AAATCGAATTAAATTTAAATATTTAAAAAAAATT
1 AAATCAAATCAAATTTAAATATTTAAAAAAAATA
* * *
16493030 ATATCAAATCGAATTTAAATA-TT-AAAAATATA
1 AAATCAAATCAAATTTAAATATTTAAAAAAAATA
*
16493062 AAATTAAATCAAATTTAAA
1 AAATCAAATCAAATTTAAA
16493081 ACGAATTAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
32 23 0.55
33 2 0.05
34 17 0.40
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (34 bp):
AAATCAAATCAAATTTAAATATTTAAAAAAAATA
Found at i:16493073 original size:37 final size:34
Alignment explanation
Indices: 16493007--16493075 Score: 93
Period size: 37 Copynumber: 1.9 Consensus size: 34
16492997 AATCGAATTA
* *
16493007 AATTTAAATATTTAAAAAAAATTATATCAAATCG
1 AATTTAAATATTAAAAAAAAATTAAATCAAATCG
16493041 AATTTAAATATTAAAAATATAAAATTAAATCAAAT
1 AATTTAAATATT-AAAA-A-AAAATTAAATCAAAT
16493076 TTAAAACGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 12 0.40
35 3 0.10
36 1 0.03
37 14 0.47
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (34 bp):
AATTTAAATATTAAAAAAAAATTAAATCAAATCG
Found at i:16493731 original size:3 final size:3
Alignment explanation
Indices: 16493723--16493748 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16493713 ATGTTTAAAC
16493723 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
16493749 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:16493753 original size:3 final size:3
Alignment explanation
Indices: 16493747--16493798 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
16493737 AATAATAATA
* * * * * *
16493747 ATT ATT ATT ATT ATT ATT ATT ATT GTT GTT GTT TTT GTT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16493795 ATT A
1 ATT A
16493799 ATCGATAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:16496185 original size:29 final size:31
Alignment explanation
Indices: 16496153--16496220 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
16496143 ATCAACAAGT
*
16496153 AAAATTCAATTCAAA-TCAAA-TAGATTTAA
1 AAAATTCAATTCAAATTCAAATTAAATTTAA
* *
16496182 AAAAATCAATTCAAATTTAAATTAAATTTAA
1 AAAATTCAATTCAAATTCAAATTAAATTTAA
16496213 AAAATTCA
1 AAAATTCA
16496221 TAATACTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 14 0.42
30 4 0.12
31 15 0.45
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.32
Consensus pattern (31 bp):
AAAATTCAATTCAAATTCAAATTAAATTTAA
Found at i:16496217 original size:30 final size:29
Alignment explanation
Indices: 16496153--16496216 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
16496143 ATCAACAAGT
* *
16496153 AAAATTCAATTCAAATCAAATAGATTTAA
1 AAAAATCAATTCAAATCAAATAAATTTAA
*
16496182 AAAAATCAATTCAAATTTAAATTAAATTTAA
1 AAAAATCAATTCAAA-TCAAA-TAAATTTAA
16496213 AAAA
1 AAAA
16496217 TTCATAATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 14 0.47
30 4 0.13
31 12 0.40
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAAATCAATTCAAATCAAATAAATTTAA
Found at i:16496886 original size:13 final size:13
Alignment explanation
Indices: 16496855--16496898 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
16496845 ATGTAGATCG
*
16496855 AATTTTTT-ATTT
1 AATTTTTTAAATT
16496867 AATTTTTTTAAATT
1 AA-TTTTTTAAATT
*
16496881 GATTTTTTAAATT
1 AATTTTTTAAATT
16496894 AATTT
1 AATTT
16496899 AATCTGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 2 0.07
13 21 0.78
14 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (13 bp):
AATTTTTTAAATT
Found at i:16496970 original size:15 final size:14
Alignment explanation
Indices: 16496948--16497006 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 14
16496938 TAAATTTTAA
16496948 ATTTT-ATAT-ATT
1 ATTTTAATATAATT
16496960 ATTTTAATATAA-T
1 ATTTTAATATAATT
*
16496973 -TTTTAATATATTT
1 ATTTTAATATAATT
*
16496986 ATGTTTAAAATAATT
1 AT-TTTAATATAATT
16497001 ATTTTA
1 ATTTTA
16497007 TTTTATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 15 0.38
13 6 0.15
14 6 0.15
15 12 0.31
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
ATTTTAATATAATT
Found at i:16497006 original size:20 final size:20
Alignment explanation
Indices: 16496983--16497021 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16496973 TTTTAATATA
*
16496983 TTTATGTTTA-AAATAATTAT
1 TTTAT-TTTATAAAAAATTAT
16497003 TTTATTTTATAAAAAATTA
1 TTTATTTTATAAAAAATTA
16497022 AAAAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTATTTTATAAAAAATTAT
Found at i:16500649 original size:11 final size:9
Alignment explanation
Indices: 16500619--16500643 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16500609 TATATCCCTC
16500619 AACCAAATG
1 AACCAAATG
16500628 AACCAAATG
1 AACCAAATG
16500637 AACCAAA
1 AACCAAA
16500644 AATGAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.24, G:0.08, T:0.08
Consensus pattern (9 bp):
AACCAAATG
Found at i:16500798 original size:34 final size:34
Alignment explanation
Indices: 16500755--16500821 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
16500745 GGCATAGAAT
* *
16500755 TTATAGAATGTATTATCAGTTTTGGTATTTCGTA
1 TTATAGAATGTATTATCAGTATCGGTATTTCGTA
16500789 TTATAGAATGTATTATCAGTATCGGTATTTCGT
1 TTATAGAATGTATTATCAGTATCGGTATTTCGT
16500822 GTAACTTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (34 bp):
TTATAGAATGTATTATCAGTATCGGTATTTCGTA
Found at i:16511852 original size:2 final size:2
Alignment explanation
Indices: 16511845--16511873 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16511835 CAATTAAGTA
16511845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16511874 GATTCCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16514388 original size:42 final size:42
Alignment explanation
Indices: 16514341--16514424 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
16514331 GAGAAAGTGC
*
16514341 TTCTTCTGTCTCTTCACTTTGGTCGTCATGAAGATGAATATT
1 TTCTTCTGTCTCTTCACCTTGGTCGTCATGAAGATGAATATT
16514383 TTCTTCTGTCTCTTCACCTTGGTCGTCATGAAGATGAATATT
1 TTCTTCTGTCTCTTCACCTTGGTCGTCATGAAGATGAATATT
16514425 AGTTTTGTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (42 bp):
TTCTTCTGTCTCTTCACCTTGGTCGTCATGAAGATGAATATT
Found at i:16525430 original size:2 final size:2
Alignment explanation
Indices: 16525423--16525448 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16525413 ATCTACATCA
16525423 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
16525449 TTTTTTTATA
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:16530145 original size:18 final size:17
Alignment explanation
Indices: 16530107--16530148 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
16530097 TACAATATTA
16530107 AATTTAAATTCGAGTTC
1 AATTTAAATTCGAGTTC
* *
16530124 AATTTGAAATTCGATTTG
1 AATTT-AAATTCGAGTTC
16530142 AATTTAA
1 AATTTAA
16530149 TCAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (17 bp):
AATTTAAATTCGAGTTC
Found at i:16531448 original size:21 final size:23
Alignment explanation
Indices: 16531415--16531460 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
16531405 TTATTATTGC
16531415 TTTTTAGATTATAT-T-TATTAA
1 TTTTTAGATTATATATATATTAA
16531436 TTTTTAG-TGTATATATATATTAA
1 TTTTTAGAT-TATATATATATTAA
16531459 TT
1 TT
16531461 AGGACATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.05
21 12 0.55
22 1 0.05
23 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTTTAGATTATATATATATTAA
Found at i:16535294 original size:96 final size:96
Alignment explanation
Indices: 16535130--16535321 Score: 366
Period size: 96 Copynumber: 2.0 Consensus size: 96
16535120 GAAATGGAGT
16535130 AGCAATGCCCATTTAGGAGTTGCTATTGTATGTGCCTGATGCATCACAAGAATAAGCATGACACT
1 AGCAATGCCCATTTAGGAGTTGCTATTGTATGTGCCTGATGCATCACAAGAATAAGCATGACACT
16535195 GCAAACATCTTGCCCGTAATGGGGATTGTAC
66 GCAAACATCTTGCCCGTAATGGGGATTGTAC
* *
16535226 AGCAATGCCCATTTAGGAGTTGCTATTGTATGTGCCTGATGCATCCCAAGAATAAGCATGATACT
1 AGCAATGCCCATTTAGGAGTTGCTATTGTATGTGCCTGATGCATCACAAGAATAAGCATGACACT
16535291 GCAAACATCTTGCCCGTAATGGGGATTGTAC
66 GCAAACATCTTGCCCGTAATGGGGATTGTAC
16535322 TGTGATGAGG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (96 bp):
AGCAATGCCCATTTAGGAGTTGCTATTGTATGTGCCTGATGCATCACAAGAATAAGCATGACACT
GCAAACATCTTGCCCGTAATGGGGATTGTAC
Found at i:16538793 original size:2 final size:2
Alignment explanation
Indices: 16538786--16538816 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16538776 GGAATCAACA
16538786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16538817 GAGAGAGAGA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16540916 original size:23 final size:23
Alignment explanation
Indices: 16540890--16540944 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
16540880 AATTTTCAGA
16540890 TTAATTATTTTAAAAGATAAAAT
1 TTAATTATTTTAAAAGATAAAAT
* * * **
16540913 TTAATAAATTTGAAATCTAAAAT
1 TTAATTATTTTAAAAGATAAAAT
16540936 TTAA-TATTT
1 TTAATTATTT
16540945 ATAATTTTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (23 bp):
TTAATTATTTTAAAAGATAAAAT
Found at i:16547418 original size:2 final size:2
Alignment explanation
Indices: 16547411--16547447 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
16547401 ATTCAATGTG
16547411 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16547448 CAAAAGAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:16547912 original size:16 final size:17
Alignment explanation
Indices: 16547887--16547927 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
16547877 AAAAATTCAA
* *
16547887 AATATCAAAACAA-ATT
1 AATATAAAAAAAATATT
16547903 AA-ATAAAAAAAATATT
1 AATATAAAAAAAATATT
16547919 AATATAAAA
1 AATATAAAA
16547928 TATCAACTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (17 bp):
AATATAAAAAAAATATT
Found at i:16555777 original size:2 final size:2
Alignment explanation
Indices: 16555770--16555794 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16555760 TTAAAATTTG
16555770 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16555795 CTTTTGAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16557786 original size:10 final size:10
Alignment explanation
Indices: 16557762--16557813 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
16557752 GCCAAAAACC
16557762 AAAAAGA-AA
1 AAAAAGAGAA
16557771 AGAAAAGAGAA
1 A-AAAAGAGAA
*
16557782 AAAAACCAGAA
1 AAAAA-GAGAA
*
16557793 AAATAGAGAA
1 AAAAAGAGAA
16557803 AAAAAG-GAA
1 AAAAAGAGAA
16557812 AA
1 AA
16557814 GGGAGAGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 6 0.17
10 19 0.53
11 11 0.31
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (10 bp):
AAAAAGAGAA
Found at i:16557812 original size:19 final size:19
Alignment explanation
Indices: 16557762--16557813 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
16557752 GCCAAAAACC
*
16557762 AAAAAGAAAAGAAAAGAGAA
1 AAAAAGGAAA-AAAAGAGAA
* *
16557782 AAAAACCAGAAAAATAGAGAA
1 AAAAA--GGAAAAAAAGAGAA
16557803 AAAAAGGAAAA
1 AAAAAGGAAAA
16557814 GGGAGAGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 13 0.50
22 3 0.12
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (19 bp):
AAAAAGGAAAAAAAGAGAA
Found at i:16563072 original size:21 final size:21
Alignment explanation
Indices: 16563034--16563073 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16563024 AATCAAAAAG
*
16563034 AAAAAAAAAGGGAAAAAAGCC
1 AAAAAAAAAGAGAAAAAAGCC
* *
16563055 AAAAAAATAGAGAGAAAAG
1 AAAAAAAAAGAGAAAAAAG
16563074 GAAAAAGAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.05, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAGAGAAAAAAGCC
Found at i:16563079 original size:21 final size:20
Alignment explanation
Indices: 16563028--16563079 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
16563018 GCCGAAAATC
*
16563028 AAAAA-GAAAAAAAAAGGGA
1 AAAAAGGAAAAAAAAAGAGA
* *
16563047 AAAAAGCCAAAAAAATAGAGA
1 AAAAAG-GAAAAAAAAAGAGA
*
16563068 GAAAAGGAAAAA
1 AAAAAGGAAAAA
16563080 GAGAGAGTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 16 0.62
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.02
Consensus pattern (20 bp):
AAAAAGGAAAAAAAAAGAGA
Found at i:16564677 original size:18 final size:18
Alignment explanation
Indices: 16564643--16564677 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16564633 ATATAAAATA
*
16564643 AAATAAAAAATTTAAAAC
1 AAATAAAAAATTAAAAAC
*
16564661 AAATTAAAAATTAAAAA
1 AAATAAAAAATTAAAAA
16564678 TATATATCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AAATAAAAAATTAAAAAC
Found at i:16565617 original size:17 final size:17
Alignment explanation
Indices: 16565595--16565627 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16565585 AGATATAATA
16565595 AAATAAAATAATATTAT
1 AAATAAAATAATATTAT
16565612 AAATAAAATAATATTA
1 AAATAAAATAATATTA
16565628 AATAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAAATAATATTAT
Found at i:16565714 original size:16 final size:17
Alignment explanation
Indices: 16565682--16565716 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16565672 ATAAAATAAT
16565682 TTATTTATTTATCAAAA
1 TTATTTATTTATCAAAA
*
16565699 TTATTT-TTTTTCAAAA
1 TTATTTATTTATCAAAA
16565715 TT
1 TT
16565717 TATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTTATTTATCAAAA
Found at i:16565726 original size:17 final size:17
Alignment explanation
Indices: 16565679--16565726 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
16565669 AGAATAAAAT
16565679 AATTTATTTATTTATCAA
1 AATTTATTTATTT-TCAA
*
16565697 AA-TTATTTTTTTTCAA
1 AATTTATTTATTTTCAA
*
16565713 AATTTATATATTTT
1 AATTTATTTATTTT
16565727 TAATTATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 6 0.23
17 18 0.69
18 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTTATTTATTTTCAA
Found at i:16565843 original size:16 final size:16
Alignment explanation
Indices: 16565814--16565847 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16565804 TCGAAGAAGA
* *
16565814 TTAAATAATTTTATAC
1 TTAAAAAATATTATAC
16565830 TTAAAAAATATTATAC
1 TTAAAAAATATTATAC
16565846 TT
1 TT
16565848 TCTTATAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAAAATATTATAC
Found at i:16566817 original size:5 final size:5
Alignment explanation
Indices: 16566807--16566838 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
16566797 CCTTTTACAC
*
16566807 TCCTT TCCTT TCCTT TCCTT ACCTT TCCTT TC
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TC
16566839 ATTAGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.56
Consensus pattern (5 bp):
TCCTT
Found at i:16569743 original size:1 final size:1
Alignment explanation
Indices: 16569728--16569819 Score: 67
Period size: 1 Copynumber: 92.0 Consensus size: 1
16569718 TTTATGTGTC
* * ** * * * * * *
16569728 TTTTTGTTTTGTTTTTTGCTTTTTTGTTTTTGTTTTTTTTTTATTTTTATTTTTGTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
16569793 TGTTTTTGTCTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
16569820 GTGAGTGAAT
Statistics
Matches: 66, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:16569743 original size:6 final size:6
Alignment explanation
Indices: 16569728--16569816 Score: 96
Period size: 6 Copynumber: 14.8 Consensus size: 6
16569718 TTTATGTGTC
* *
16569728 TTTTTG -TTTTG TTTTTTG CTTTTTTG TTTTTG TTTTT- TTTTTA TTTTTA
1 TTTTTG TTTTTG -TTTTTG --TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
16569777 TTTTTG TTTTTG TTTTTG TTTTTG TCTTTT- TTTTT- TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG TTTTT
16569817 TTTGTGAGTG
Statistics
Matches: 77, Mismatches: 1, Indels: 11
0.87 0.01 0.12
Matches are distributed among these distances:
5 19 0.25
6 42 0.55
7 9 0.12
8 7 0.09
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:16573246 original size:25 final size:25
Alignment explanation
Indices: 16573218--16573308 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 25
16573208 AATATTGATA
16573218 TATTATTAAAATATTGAAAATAATT
1 TATTATTAAAATATTGAAAATAATT
16573243 TATTATTAAAATATT-AAAAT-ATT
1 TATTATTAAAATATTGAAAATAATT
* *
16573266 ATATTAATATTAAATACTCGAAGAATAATATT
1 -TATT-AT-TAAAATA-TTGAA-AAT-A-ATT
16573298 TATTATTAAAA
1 TATTATTAAAA
16573309 CGGTATTTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
23 3 0.06
24 9 0.17
25 17 0.31
26 6 0.11
27 1 0.02
28 2 0.04
29 7 0.13
30 2 0.04
31 4 0.07
32 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (25 bp):
TATTATTAAAATATTGAAAATAATT
Found at i:16587524 original size:30 final size:30
Alignment explanation
Indices: 16587508--16587593 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 30
16587498 TTTATTTAGG
16587508 TATAAATTAAAAATTAAAAATTTATTTGAA
1 TATAAATTAAAAATTAAAAATTTATTTGAA
* **** *
16587538 TATAAATTAAAATTTAGGTGTTTA-TTGTA
1 TATAAATTAAAAATTAAAAATTTATTTGAA
*
16587567 TATAAATTAAAGAA-TAAGAATTTATTT
1 TATAAATTAAA-AATTAAAAATTTATTT
16587594 AAATGTAATA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
29 22 0.50
30 22 0.50
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (30 bp):
TATAAATTAAAAATTAAAAATTTATTTGAA
Found at i:16589450 original size:2 final size:2
Alignment explanation
Indices: 16589443--16589472 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
16589433 GCATACATAC
*
16589443 AT AT AT AT AC 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
16589473 CATTGCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16589454 original size:10 final size:10
Alignment explanation
Indices: 16589439--16589471 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
16589429 ACATGCATAC
16589439 ATACATATAT
1 ATACATATAT
16589449 ATACATATAT
1 ATACATATAT
*
16589459 ATATATATAT
1 ATACATATAT
16589469 ATA
1 ATA
16589472 TCATTGCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (10 bp):
ATACATATAT
Found at i:16590787 original size:2 final size:2
Alignment explanation
Indices: 16590782--16590815 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16590772 TGTGTGTGTC
16590782 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16590816 AAACTTAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16598301 original size:20 final size:19
Alignment explanation
Indices: 16598276--16598319 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
16598266 TTAAATTAAA
16598276 TTATATAT-TTTTATTAATTT
1 TTATATATATTTTA--AATTT
16598296 TTATATATATTTTAAATTT
1 TTATATATATTTTAAATTT
16598315 TTATA
1 TTATA
16598320 AATAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATATATATTTTAAATTT
Found at i:16612270 original size:28 final size:28
Alignment explanation
Indices: 16612231--16612287 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
16612221 AACTCAAGAT
16612231 TTTAGAGATTTTTGTAAATTGTAAGGCA
1 TTTAGAGATTTTTGTAAATTGTAAGGCA
16612259 TTTAGAGATTTTTGTAAATTGTAAGGCA
1 TTTAGAGATTTTTGTAAATTGTAAGGCA
16612287 T
1 T
16612288 CAATCCTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.44
Consensus pattern (28 bp):
TTTAGAGATTTTTGTAAATTGTAAGGCA
Found at i:16622977 original size:32 final size:33
Alignment explanation
Indices: 16622926--16622991 Score: 84
Period size: 32 Copynumber: 2.0 Consensus size: 33
16622916 TTTTTTATTT
16622926 TTAATATTCGAATCCGATCCGATAA-TATATAAAA
1 TTAATATTCGAATCCGATCCGA-AATTA-ATAAAA
*
16622960 TTAA-ATTCG-ATTCGATCCGAAATTAATAAAA
1 TTAATATTCGAATCCGATCCGAAATTAATAAAA
16622991 T
1 T
16622992 ATTATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 9 0.30
32 12 0.40
33 5 0.17
34 4 0.13
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (33 bp):
TTAATATTCGAATCCGATCCGAAATTAATAAAA
Found at i:16623019 original size:18 final size:18
Alignment explanation
Indices: 16622998--16623055 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
16622988 AAATATTATT
16622998 TTAAATATAAATATAAAA
1 TTAAATATAAATATAAAA
* *
16623016 TTAAATATATATAAAAAAA
1 TTAAATATAAAT-ATAAAA
16623035 TATATAAT-TAAATATAAAA
1 T-TA-AATATAAATATAAAA
16623054 TT
1 TT
16623056 TAAAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 12 0.36
19 12 0.36
20 6 0.18
21 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAAATATAAATATAAAA
Found at i:16623035 original size:14 final size:15
Alignment explanation
Indices: 16623008--16623040 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
16622998 TTAAATATAA
16623008 ATATAAAATTAAATAT
1 ATATAAAA-TAAATAT
16623024 ATATAAAA-AAATAT
1 ATATAAAATAAATAT
16623038 ATA
1 ATA
16623041 ATTAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATAAAATAAATAT
Found at i:16623055 original size:12 final size:12
Alignment explanation
Indices: 16623000--16623055 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
16622990 ATATTATTTT
16623000 AAATATAAATATA
1 AAAT-TAAATATA
16623013 AAATTAAATATA
1 AAATTAAATATA
**
16623025 TATAAAAAAATATA
1 -A-AATTAAATATA
*
16623039 TAATTAAATATA
1 AAATTAAATATA
16623051 AAATT
1 AAATT
16623056 TAAAAAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
12 21 0.60
13 5 0.14
14 9 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTAAATATA
Found at i:16623067 original size:12 final size:12
Alignment explanation
Indices: 16623052--16623077 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16623042 TTAAATATAA
16623052 AATTTAAAAAAT
1 AATTTAAAAAAT
16623064 AATTTAAAAAAT
1 AATTTAAAAAAT
16623076 AA
1 AA
16623078 GTTTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATTTAAAAAAT
Found at i:16627549 original size:186 final size:182
Alignment explanation
Indices: 16627235--16627607 Score: 674
Period size: 186 Copynumber: 2.0 Consensus size: 182
16627225 TAAATCTATC
*
16627235 AACAGGACAAGAAAAAATGATTTAGTCTTTGTTTACCACATGGTGCCAATTCTAATTTTTGGAAT
1 AACAGGACAAGAAAAAATGATATAGTCTTTGTTTACCACATGGTGCCAATTCTAATTTTTGGAAT
* *
16627300 TATTACAATCAACAAACTTGGTAGAAAGTTTACTGATGTCATGGTGTCTTTAGAATGTTCCATTC
66 TATTACAATCAACAAACTCGGTAGAAAGTTTACCGATGTCATGGTGTCTTTAGAATGTTCCATTC
16627365 ATCTTATTACTCCCAAATTGAGAAAATTATTGCAATGGTCCAAGTTAATGCTGTTT
131 ATCTTATTACTCCCAAATTGAGAAAATTATTGC-A---TCCAAGTTAATGCTGTTT
*
16627421 AACAGGACAAGAAAAAATGATATAGTCTTTGTTTACCACTTGGTGCCAATTCTAATTTTTGGAAT
1 AACAGGACAAGAAAAAATGATATAGTCTTTGTTTACCACATGGTGCCAATTCTAATTTTTGGAAT
16627486 TATTACAATCAACAAACTCGGTAGAAAGTTTACCGATGTCATGGTGTCTTTAGAATGTTCCATTC
66 TATTACAATCAACAAACTCGGTAGAAAGTTTACCGATGTCATGGTGTCTTTAGAATGTTCCATTC
16627551 ATCTTATTACTCCCAAATTGAGAAAATTATTGCATCCAAGTTAATGCTGTTT
131 ATCTTATTACTCCCAAATTGAGAAAATTATTGCATCCAAGTTAATGCTGTTT
16627603 AACAG
1 AACAG
16627608 TGGTTTTTAT
Statistics
Matches: 183, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
182 23 0.13
185 1 0.01
186 159 0.87
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (182 bp):
AACAGGACAAGAAAAAATGATATAGTCTTTGTTTACCACATGGTGCCAATTCTAATTTTTGGAAT
TATTACAATCAACAAACTCGGTAGAAAGTTTACCGATGTCATGGTGTCTTTAGAATGTTCCATTC
ATCTTATTACTCCCAAATTGAGAAAATTATTGCATCCAAGTTAATGCTGTTT
Found at i:16631121 original size:1 final size:1
Alignment explanation
Indices: 16631115--16631141 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
16631105 CCATGCTGGG
16631115 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
16631142 CAAGATTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16632241 original size:27 final size:27
Alignment explanation
Indices: 16632210--16632264 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
16632200 CGAACAAATA
16632210 ACATAACATTGTTTAATCATTCTTCAC
1 ACATAACATTGTTTAATCATTCTTCAC
*
16632237 ACATAACATTGTTTAATCCTTCTTCAC
1 ACATAACATTGTTTAATCATTCTTCAC
16632264 A
1 A
16632265 GACGCGCACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.40
Consensus pattern (27 bp):
ACATAACATTGTTTAATCATTCTTCAC
Found at i:16639361 original size:17 final size:18
Alignment explanation
Indices: 16639339--16639372 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16639329 CCCAGGGCCC
16639339 AAGTCATAAG-CCACTCT
1 AAGTCATAAGCCCACTCT
*
16639356 AAGTCATGAGCCCACTC
1 AAGTCATAAGCCCACTC
16639373 GGTCCATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (18 bp):
AAGTCATAAGCCCACTCT
Found at i:16653489 original size:85 final size:85
Alignment explanation
Indices: 16653356--16653520 Score: 233
Period size: 85 Copynumber: 1.9 Consensus size: 85
16653346 TAAGAAATTT
* * *
16653356 ATTTGAGATTGACTAGATATTACTTGATGAACAAAAAGACTTGTAAAAAAAAAATTTTAAGAGAA
1 ATTTAAGATTGACTAGATATTACTTGATGAACAAAAAGACTTGTAAAAAAAAAATTCTAAGAAAA
*
16653421 AATGTATTCTTGATAGACAA
66 AATGAATTCTTGATAGACAA
* * * *
16653441 ATTTAAGATTGATTAGATATTACTTGAT-AGATAAAAAGTCTTGTAAAAAAAGAATTCTAAGAAA
1 ATTTAAGATTGACTAGATATTACTTGATGA-ACAAAAAGACTTGTAAAAAAAAAATTCTAAGAAA
*
16653505 AAATGAATTTTTGATA
65 AAATGAATTCTTGATA
16653521 TGCAAGTTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
84 1 0.01
85 69 0.99
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (85 bp):
ATTTAAGATTGACTAGATATTACTTGATGAACAAAAAGACTTGTAAAAAAAAAATTCTAAGAAAA
AATGAATTCTTGATAGACAA
Found at i:16655143 original size:3 final size:3
Alignment explanation
Indices: 16655135--16655173 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
16655125 ATGCAGACTC
16655135 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16655174 GCAAGAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16657685 original size:36 final size:36
Alignment explanation
Indices: 16657645--16657721 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
16657635 ATTAACGTAT
16657645 GAATATACTTAACCTAACATGTGAGGCGT-TGTTAAA
1 GAATATACTTAACCTAACATGTGAGGC-TCTGTTAAA
* * * *
16657681 GAATATACTTCACCTGACATGTGTGTCTCTGTTAAA
1 GAATATACTTAACCTAACATGTGAGGCTCTGTTAAA
16657717 GAATA
1 GAATA
16657722 GTTCATTGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 1 0.03
36 35 0.97
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (36 bp):
GAATATACTTAACCTAACATGTGAGGCTCTGTTAAA
Found at i:16661054 original size:24 final size:25
Alignment explanation
Indices: 16661007--16661054 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
16660997 ATTATTGCAA
* *
16661007 GTTCTGATAAATGGTAGACTTGCTT
1 GTTCTGATAAAAGGTAGACCTGCTT
*
16661032 GTTCTTATAAAAGG-AGACCTGCT
1 GTTCTGATAAAAGGTAGACCTGCT
16661055 CAAGCTAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
GTTCTGATAAAAGGTAGACCTGCTT
Found at i:16666805 original size:2 final size:2
Alignment explanation
Indices: 16666798--16666848 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
16666788 GGGTTTTAAT
* *
16666798 TA TA TA TA -A AA TA TA TA AA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
16666838 TA TA TA CA TA T
1 TA TA TA TA TA T
16666849 TTTGGGGTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:16666821 original size:17 final size:17
Alignment explanation
Indices: 16666799--16666839 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
16666789 GGTTTTAATT
16666799 ATATATAAAATATATAA
1 ATATATAAAATATATAA
* *
16666816 ATATATAATATATATAT
1 ATATATAAAATATATAA
16666833 ATATATA
1 ATATATA
16666840 TATACATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATATAAAATATATAA
Found at i:16667562 original size:22 final size:19
Alignment explanation
Indices: 16667518--16667562 Score: 54
Period size: 22 Copynumber: 2.2 Consensus size: 19
16667508 AAATTTAAAT
*
16667518 TATATTATTTTTATAATTT
1 TATATTATTTTTATAATTA
16667537 TATATTATATTTTAAATAATTA
1 TATATTAT-TTTT--ATAATTA
16667559 TATA
1 TATA
16667563 AATTTAAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 4 0.18
22 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTATTTTTATAATTA
Found at i:16682919 original size:2 final size:2
Alignment explanation
Indices: 16682907--16682961 Score: 58
Period size: 2 Copynumber: 27.5 Consensus size: 2
16682897 TTAACTAAAC
* * *
16682907 TA TA AA TA TA TA TA TA TA TA CA TA TA -A CTA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
*
16682949 TA CA TA TA TA TA T
1 TA TA TA TA TA TA T
16682962 TGCATTAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
1 1 0.02
2 41 0.95
3 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:16682922 original size:12 final size:12
Alignment explanation
Indices: 16682916--16682961 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
16682906 CTATAAATAT
16682916 ATATATATATAC
1 ATATATATATAC
*
16682928 ATATA-ACTATAA
1 ATATATA-TATAC
16682940 ATATATATATAC
1 ATATATATATAC
16682952 ATATATATAT
1 ATATATATAT
16682962 TGCATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 1 0.03
12 28 0.93
13 1 0.03
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:16682944 original size:28 final size:28
Alignment explanation
Indices: 16682904--16682960 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
16682894 TGTTTAACTA
*
16682904 AACTATAAATATATATATATATACATAT
1 AACTATAAATATATATATACATACATAT
*
16682932 AACTATAAATATATATATACATATATAT
1 AACTATAAATATATATATACATACATAT
16682960 A
1 A
16682961 TTGCATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (28 bp):
AACTATAAATATATATATACATACATAT
Found at i:16694860 original size:19 final size:20
Alignment explanation
Indices: 16694828--16694869 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
16694818 AAATTAAATT
* *
16694828 ATTTTTATTATTTAAATCAA
1 ATTTTTAATATTTAAATAAA
16694848 ATTTTTAAT-TTTAAATAAA
1 ATTTTTAATATTTAAATAAA
16694867 ATT
1 ATT
16694870 AATACTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTTAATATTTAAATAAA
Found at i:16710239 original size:470 final size:467
Alignment explanation
Indices: 16709355--16710295 Score: 1607
Period size: 470 Copynumber: 2.0 Consensus size: 467
16709345 TTAATAAGTT
* *
16709355 ATTT-GAGTTCGATTAAAATAAAATTTAAATTTGATTTAATTATTAATGAATCGAATTCGAGTAA
1 ATTTCGAGTTCGATTAAAATAAAATTTAAATTCGATTTAATTATTAATAAATCGAATTCGAGTAA
* * * * *
16709419 TTTAATTTATCGATCGAGTCAAGTTTGAATATTTTTATATTTGATTTAAGTAGTTCACTAGTTTA
66 TTTAATTTATCGATCGAGTCAAGTTCGAATATTTTTATACTTGATTCAAGTAATTCACGAGTTTA
*
16709484 ATCATATTTTTATATTTAAATTTTTATTATTATTTTAATTAATAAAATATCTCGAATTCGAACTC
131 ATCATACTTTTATATTTAAATTTTTATTATTATTTTAATTAATAAAATATCTCGAATTCGAACTC
*
16709549 AAATATAAATAATTAAATTTTTATCGAATATAAGAATTAAGTTTATTTTAATATATTAATCAAAC
196 AAATATAAATAATTAAATTTTTATCGAATATAAGAATCAAGTTTATTTTAATATATTAATCAAAC
* * * * *
16709614 TTAAGCGAACGAGTTCGAGTAGTTCGATTTCGATGACGAATCGAACTCGAACTAAAAAAATGAAA
261 TTAAACGAACGAATTCGAGTAGCTCGATTTCGATGACGAATCAAACTCGAACTAAAAAAATAAAA
*
16709679 CTCGATCGAATTCAAATCGAATATCAAACTTCGAATTGAGAATCGAGCTCAAACTTGAACTTCTT
326 CTCGATCGAATTCAAATCGAATATCAAACTTCGAATTGAGAATCGAGCTCAAACTCGAACTTCTT
* *
16709744 ACTGTATCTGTATCGACTCGACTTGACTCGATTATATTCGTATTCTGAATGACATACGGTATATG
391 ACTGTATCTGTATCGACTCGACTTGACTCG---ATATCCGTACTCTGAATGACATACGGTATATG
16709809 CATCCAAATTCACTG
453 CATCCAAATTCACTG
**
16709824 ATTTCGAGTTCGATTCGAATAAAATTTAAATTCGATTTAATTATT-ATCAAATCGAATTCGAGTA
1 ATTTCGAGTTCGATTAAAATAAAATTTAAATTCGATTTAATTATTAAT-AAATCGAATTCGAGTA
*
16709888 ATTTGATTTATCGATCGAGTCAAGTTCGAATATTTTTATACTTGATTCAAGTAATTCACGAGTTT
65 ATTTAATTTATCGATCGAGTCAAGTTCGAATATTTTTATACTTGATTCAAGTAATTCACGAGTTT
* *
16709953 AATCGTACTTTTATATTTAAATTTTTATTATTATTTTAATTAATAAAATATTTCGAATTCGAACT
130 AATCATACTTTTATATTTAAATTTTTATTATTATTTTAATTAATAAAATATCTCGAATTCGAACT
*
16710018 CGAATATAAATAATTAAATTTTTATCGAATATAAGAATCAAGTTTATTTTAATATATTAATCAAA
195 CAAATATAAATAATTAAATTTTTATCGAATATAAGAATCAAGTTTATTTTAATATATTAATCAAA
16710083 CTTAAACGAACGAATTCGAGTAGCTCGATTTCGATGACGAATCAAACTCGAACTAAAAAAATAAA
260 CTTAAACGAACGAATTCGAGTAGCTCGATTTCGATGACGAATCAAACTCGAACTAAAAAAATAAA
*
16710148 ACTCGATCGAATTCAAATCGAATATCAAACTTTGAATTGAGAATCGAGCTCAAACTCGAACTTCT
325 ACTCGATCGAATTCAAATCGAATATCAAACTTCGAATTGAGAATCGAGCTCAAACTCGAACTTCT
*
16710213 TACTGTATCTGTATCGACTCGACTTGACTCGATATCCGTACTCTGAATGACATACGGTGTATGCA
390 TACTGTATCTGTATCGACTCGACTTGACTCGATATCCGTACTCTGAATGACATACGGTATATGCA
16710278 TCCAAATTCACTG
455 TCCAAATTCACTG
16710291 ATTTC
1 ATTTC
16710296 ACTCCAACTC
Statistics
Matches: 445, Mismatches: 25, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
467 49 0.11
469 6 0.01
470 390 0.88
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (467 bp):
ATTTCGAGTTCGATTAAAATAAAATTTAAATTCGATTTAATTATTAATAAATCGAATTCGAGTAA
TTTAATTTATCGATCGAGTCAAGTTCGAATATTTTTATACTTGATTCAAGTAATTCACGAGTTTA
ATCATACTTTTATATTTAAATTTTTATTATTATTTTAATTAATAAAATATCTCGAATTCGAACTC
AAATATAAATAATTAAATTTTTATCGAATATAAGAATCAAGTTTATTTTAATATATTAATCAAAC
TTAAACGAACGAATTCGAGTAGCTCGATTTCGATGACGAATCAAACTCGAACTAAAAAAATAAAA
CTCGATCGAATTCAAATCGAATATCAAACTTCGAATTGAGAATCGAGCTCAAACTCGAACTTCTT
ACTGTATCTGTATCGACTCGACTTGACTCGATATCCGTACTCTGAATGACATACGGTATATGCAT
CCAAATTCACTG
Found at i:16722304 original size:2 final size:2
Alignment explanation
Indices: 16722297--16722323 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16722287 AAGGGATGGA
16722297 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
16722324 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16722328 original size:2 final size:2
Alignment explanation
Indices: 16722323--16722351 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16722313 ATATATATAT
16722323 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 A
16722352 TTTTACTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16722949 original size:30 final size:30
Alignment explanation
Indices: 16722891--16722949 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
16722881 AATAATATTT
* * *
16722891 GACCTGGAATGGTGCTCATGTGATTGCATA
1 GACCTGGAATGGTACTCATATGAATGCATA
*
16722921 GACCTGGAATGGTACTCGTATGAATGCAT
1 GACCTGGAATGGTACTCATATGAATGCAT
16722950 GGAACAGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (30 bp):
GACCTGGAATGGTACTCATATGAATGCATA
Found at i:16726989 original size:2 final size:2
Alignment explanation
Indices: 16726984--16727008 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16726974 AAAAAAAAAG
16726984 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
16727009 CTTTTTTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16733703 original size:5 final size:6
Alignment explanation
Indices: 16733685--16733711 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16733675 AAAGTAACAA
16733685 TTGTTT TTGTTT TTGTTT TTGTTT TTG
1 TTGTTT TTGTTT TTGTTT TTGTTT TTG
16733712 AAGTCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (6 bp):
TTGTTT
Found at i:16740055 original size:21 final size:20
Alignment explanation
Indices: 16740005--16740056 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
16739995 TTCCTTTTTT
16740005 TTTTTTTTTTTACATTTCAA
1 TTTTTTTTTTTACATTTCAA
* ** * *
16740025 ATTTACTTTTTATGATTTTAA
1 TTTTTTTTTTTA-CATTTCAA
16740046 TTTTTTTTTTT
1 TTTTTTTTTTT
16740057 TACTTTTTGT
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTTTTTTTACATTTCAA
Found at i:16743727 original size:19 final size:19
Alignment explanation
Indices: 16743705--16743741 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16743695 TTTAACATTA
16743705 AAATAATTTAGTAATTTTT
1 AAATAATTTAGTAATTTTT
* *
16743724 AAATTATTTATTAATTTT
1 AAATAATTTAGTAATTTT
16743742 ATAAGTGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
AAATAATTTAGTAATTTTT
Found at i:16744018 original size:5 final size:5
Alignment explanation
Indices: 16744008--16744138 Score: 76
Period size: 5 Copynumber: 25.6 Consensus size: 5
16743998 GTTATGATAC
* * *
16744008 TATAT TATAT TATAT TATTAT TACTAT TGTA- T-TAT TATGT TATAG TATAT
1 TATAT TATAT TATAT TA-TAT TA-TAT TATAT TATAT TATAT TATAT TATAT
* * *
16744058 TATA- T-TAG TATAT TACAT TACTAC TACTA- T-TAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TA-TAT TA-TAT TATAT TA-TAT TATAT
*
16744102 CATAT TATAT TATTAT TATTAT TATTAT TATTAT TAT
1 TATAT TATAT TA-TAT TA-TAT TA-TAT TA-TAT TAT
16744139 TATTTCATTT
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
3 6 0.06
4 5 0.05
5 50 0.48
6 43 0.41
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:16744028 original size:3 final size:3
Alignment explanation
Indices: 16744010--16744142 Score: 92
Period size: 3 Copynumber: 48.3 Consensus size: 3
16744000 TATGATACTA
* * * *
16744010 TAT TA- TAT TA- TAT TAT TAT TAC TAT T-G TAT TAT TA- TGT TA- TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
16744053 TA- TAT TA- TAT TAG TA- TAT TA- CAT TAC TAC TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
16744097 TA- TAT CA- TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16744142 T
1 T
16744143 TCATTTATTT
Statistics
Matches: 105, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
2 20 0.19
3 85 0.81
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:16744040 original size:17 final size:16
Alignment explanation
Indices: 16744010--16744138 Score: 105
Period size: 18 Copynumber: 7.4 Consensus size: 16
16744000 TATGATACTA
16744010 TATTATATTATATTAT
1 TATTATATTATATTAT
*
16744026 TATTACTATTGTATTAT
1 TATTA-TATTATATTAT
*
16744043 TATGTTATAGTATATTATAT
1 TA--TTATATTATA-T-TAT
* * *
16744063 TAGTATATTACATTAC
1 TATTATATTATATTAT
*
16744079 TACTACTATTATTATTAT
1 TATTA-TATTA-TATTAT
16744097 TATATCATATTATATTAT
1 TAT-T-ATATTATATTAT
16744115 TATTATTATTATTATTAT
1 TATTA-TATTA-TATTAT
16744133 TATTAT
1 TATTAT
16744139 TATTTCATTT
Statistics
Matches: 91, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
16 12 0.13
17 25 0.27
18 38 0.42
19 10 0.11
20 6 0.07
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (16 bp):
TATTATATTATATTAT
Found at i:16744072 original size:45 final size:44
Alignment explanation
Indices: 16744008--16744141 Score: 135
Period size: 48 Copynumber: 2.9 Consensus size: 44
16743998 GTTATGATAC
* *
16744008 TATATTATATTATATTATTATTACTATTGTATTATTATGTTATA
1 TATATTATATTATATTATTATTACTATTCTATTATTATATTATA
*
16744052 GTATATTATATTAGTA-TATTACATTACTACTACTATTATTATTATTATA
1 -TATATTATATTA-TATTATT--ATTACTA-TTCTATTATTA-TATTATA
* *
16744101 TCATATTATATTATTATTATTATTATTATTATTATTATTAT
1 T-ATATTATATTA-TATTATTATTACTATT-CTATTATTAT
16744142 TTCATTTATT
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
45 16 0.22
46 2 0.03
47 9 0.12
48 24 0.32
49 19 0.26
50 4 0.05
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (44 bp):
TATATTATATTATATTATTATTACTATTCTATTATTATATTATA
Found at i:16745028 original size:14 final size:14
Alignment explanation
Indices: 16745003--16745048 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
16744993 AAATCATAGG
16745003 TTATCTTTTTTTGTT
1 TTATC-TTTTTTGTT
16745018 TTATCTTTTTT-TT
1 TTATCTTTTTTGTT
*
16745031 TTA-ATTTTTTGATT
1 TTATCTTTTTTG-TT
16745045 TTAT
1 TTAT
16745049 TCATTTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
14 11 0.41
15 5 0.19
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (14 bp):
TTATCTTTTTTGTT
Found at i:16745046 original size:16 final size:15
Alignment explanation
Indices: 16745023--16745110 Score: 65
Period size: 17 Copynumber: 5.7 Consensus size: 15
16745013 TTGTTTTATC
16745023 TTTT-TTTTTTAATT
1 TTTTATTTTTTAATT
*
16745037 TTTTGATTTTATTCATT
1 TTTT-ATTTT-TTAATT
*
16745054 TTATA-TTTTTAATT
1 TTTTATTTTTTAATT
*
16745068 TATTT-TATTTTCAATT
1 T-TTTAT-TTTTTAATT
16745084 TTTTATTTTTACTAATT
1 TTTTATTTTT--TAATT
*
16745101 ATTTATTTTT
1 TTTTATTTTT
16745111 ATTGAATATT
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
14 10 0.17
15 12 0.21
16 15 0.26
17 21 0.36
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (15 bp):
TTTTATTTTTTAATT
Found at i:16745046 original size:27 final size:31
Alignment explanation
Indices: 16745009--16745078 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
16744999 TAGGTTATCT
16745009 TTTTTTG-TTTTA-TC-TTTT-T-TTTTTAA
1 TTTTTTGATTTTATTCATTTTATATTTTTAA
16745035 TTTTTTGATTTTATTCATTTTATATTTTTAA
1 TTTTTTGATTTTATTCATTTTATATTTTTAA
*
16745066 TTTATTTTATTTT
1 TTT-TTTGATTTT
16745079 CAATTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 2 0.05
29 4 0.11
30 1 0.03
31 10 0.27
32 8 0.22
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (31 bp):
TTTTTTGATTTTATTCATTTTATATTTTTAA
Found at i:16745178 original size:6 final size:6
Alignment explanation
Indices: 16745167--16745193 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16745157 AATAAGTTAA
16745167 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
16745194 TCTTTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:16748799 original size:17 final size:17
Alignment explanation
Indices: 16748777--16748810 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16748767 GTTTGGTAGG
*
16748777 AAAGAAGAAAAATAAAA
1 AAAGAACAAAAATAAAA
16748794 AAAGAACAAAAATAAAA
1 AAAGAACAAAAATAAAA
16748811 CAATGGGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.82, C:0.03, G:0.09, T:0.06
Consensus pattern (17 bp):
AAAGAACAAAAATAAAA
Found at i:16750661 original size:46 final size:46
Alignment explanation
Indices: 16750592--16750682 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
16750582 CAGCTGCTAG
16750592 TTAGTTTTTCCTCTCTAAAGTCTTCATACGGTTCATGGATATTTTA
1 TTAGTTTTTCCTCTCTAAAGTCTTCATACGGTTCATGGATATTTTA
* *
16750638 TTAGTTTTTCCTCTCTAATGTCTTCATATGGTTCATGGATATTTT
1 TTAGTTTTTCCTCTCTAAAGTCTTCATACGGTTCATGGATATTTT
16750683 GTTATCCCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (46 bp):
TTAGTTTTTCCTCTCTAAAGTCTTCATACGGTTCATGGATATTTTA
Found at i:16760547 original size:1 final size:1
Alignment explanation
Indices: 16760543--16760573 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
16760533 TTTTTAATTT
16760543 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
16760574 CATTGTGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16761069 original size:2 final size:2
Alignment explanation
Indices: 16761064--16761093 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16761054 TAATGCCGAA
16761064 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
16761094 GCAAAAGCGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16761570 original size:14 final size:14
Alignment explanation
Indices: 16761553--16761582 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16761543 ATAAATACAT
16761553 GTGTATGTATGTAC
1 GTGTATGTATGTAC
*
16761567 GTGTATGTGTGTAC
1 GTGTATGTATGTAC
16761581 GT
1 GT
16761583 ACATGATATA
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:0.17, C:0.07, G:0.33, T:0.43
Consensus pattern (14 bp):
GTGTATGTATGTAC
Found at i:16769107 original size:46 final size:46
Alignment explanation
Indices: 16769040--16769130 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
16769030 TTCTTATTAA
16769040 TGAGGTGTTATCATATGATTTATCTTATTAATGAGTTGTCATTATG
1 TGAGGTGTTATCATATGATTTATCTTATTAATGAGTTGTCATTATG
16769086 TGAGGTGTTATCATATGATTTATCTTATTAATGAGTTGTCATTAT
1 TGAGGTGTTATCATATGATTTATCTTATTAATGAGTTGTCATTAT
16769131 ATGATTCACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (46 bp):
TGAGGTGTTATCATATGATTTATCTTATTAATGAGTTGTCATTATG
Found at i:16771276 original size:92 final size:92
Alignment explanation
Indices: 16771173--16771351 Score: 331
Period size: 92 Copynumber: 1.9 Consensus size: 92
16771163 GCTTTAAAAT
*
16771173 AAGAGAATTGATGATAAAATCTAAAGGTCAAACATTGCCACAATTATCGCATAAATTTTATTTGA
1 AAGAGAATTGATCATAAAATCTAAAGGTCAAACATTGCCACAATTATCGCATAAATTTTATTTGA
16771238 AATTTCTAGAAGATAAAAAAGATTTTA
66 AATTTCTAGAAGATAAAAAAGATTTTA
* *
16771265 AAGAGAATTGATCATAAAATCTAAAGGTCAAACATTGTCACAATTGTCGCATAAATTTTATTTGA
1 AAGAGAATTGATCATAAAATCTAAAGGTCAAACATTGCCACAATTATCGCATAAATTTTATTTGA
16771330 AATTTCTAGAAGATAAAAAAGA
66 AATTTCTAGAAGATAAAAAAGA
16771352 ATACGATTAT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 84 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (92 bp):
AAGAGAATTGATCATAAAATCTAAAGGTCAAACATTGCCACAATTATCGCATAAATTTTATTTGA
AATTTCTAGAAGATAAAAAAGATTTTA
Found at i:16775581 original size:29 final size:29
Alignment explanation
Indices: 16775548--16775615 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
16775538 AAATTGATAA
16775548 TTAAAATTAAGTCGATCAATTTTTTATTT
1 TTAAAATTAAGTCGATCAATTTTTTATTT
**
16775577 TTAAAATTAAGTCGATTGATTTTTTATTT
1 TTAAAATTAAGTCGATCAATTTTTTATTT
16775606 TTAAAATTAA
1 TTAAAATTAA
16775616 AAATCAAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.51
Consensus pattern (29 bp):
TTAAAATTAAGTCGATCAATTTTTTATTT
Found at i:16777456 original size:3 final size:3
Alignment explanation
Indices: 16777448--16777480 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16777438 AATTGCATCT
16777448 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16777481 AGAATATCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:16778619 original size:23 final size:25
Alignment explanation
Indices: 16778575--16778620 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
16778565 TTTGTTTTAG
**
16778575 TTTATATAATATTAAATTTAAATTT
1 TTTATATAATATTAAAGATAAATTT
16778600 TTTATA-AAT-TTAAAGATAAAT
1 TTTATATAATATTAAAGATAAAT
16778621 AATTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 3 0.16
25 6 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTATATAATATTAAAGATAAATTT
Found at i:16789292 original size:28 final size:27
Alignment explanation
Indices: 16789230--16789295 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
16789220 ATAATAAAAA
16789230 AATAAAAATATATCATTAAATTAAATAT
1 AATAAAAAT-TATCATTAAATTAAATAT
* *
16789258 AAT-AAAATTAT-ATTTAATTCATATAT
1 AATAAAAATTATCATTAAATT-AAATAT
16789284 ACATAAAAATTA
1 A-ATAAAAATTA
16789296 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 7 0.21
26 9 0.27
27 7 0.21
28 10 0.30
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAAAAATTATCATTAAATTAAATAT
Found at i:16791939 original size:3 final size:3
Alignment explanation
Indices: 16791931--16791958 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16791921 TCTAGTACTG
16791931 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16791959 TATTAAAATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16794441 original size:13 final size:13
Alignment explanation
Indices: 16794423--16794460 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
16794413 GAAAAGAAAG
16794423 AAAAATTTGTAAT
1 AAAAATTTGTAAT
16794436 AAAAATTTGTAAT
1 AAAAATTTGTAAT
16794449 AAAAATTTGTAA
1 AAAAATTTGTAA
16794461 CAACTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (13 bp):
AAAAATTTGTAAT
Found at i:16802919 original size:8 final size:7
Alignment explanation
Indices: 16802903--16802935 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
16802893 GGATTATGAC
16802903 AAAA-AA
1 AAAAGAA
16802909 AAAAGAA
1 AAAAGAA
16802916 AAAAGAA
1 AAAAGAA
16802923 AAAAGAA
1 AAAAGAA
16802930 GAAAAG
1 -AAAAG
16802936 CCAAAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 4 0.16
7 16 0.64
8 5 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:16816774 original size:19 final size:19
Alignment explanation
Indices: 16816750--16816787 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16816740 ATACAAAAGA
**
16816750 TTTAATTTTTTTAATTTAT
1 TTTAATTTTAGTAATTTAT
16816769 TTTAATTTTAGTAATTTAT
1 TTTAATTTTAGTAATTTAT
16816788 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTAATTTTAGTAATTTAT
Found at i:16837498 original size:6 final size:6
Alignment explanation
Indices: 16837489--16837522 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
16837479 AATGCAACAA
*
16837489 AAAAAC AAAAAC AAAAAC AAAAAC AAGAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
16837523 TGTGGGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:16842788 original size:4 final size:4
Alignment explanation
Indices: 16842779--16842807 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
16842769 AATGAAGATT
16842779 TTAA TTAA TTAA TTAA TTAA TT-A TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
16842808 TTATGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (4 bp):
TTAA
Found at i:16850370 original size:2 final size:2
Alignment explanation
Indices: 16850363--16850388 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16850353 TTGTAAAACA
16850363 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
16850389 ATATACACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:16857109 original size:15 final size:17
Alignment explanation
Indices: 16857068--16857119 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
16857058 CATAAATGCA
* *
16857068 AATTCAAAATATATCCCT
1 AATT-AAAATAAAACCCT
16857086 AATTAAAAT-AAACCCT
1 AATTAAAATAAAACCCT
16857102 AA-TAAAATAAAACCCT
1 AATTAAAATAAAACCCT
16857118 AA
1 AA
16857120 GGTGATTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 6 0.19
16 16 0.52
17 5 0.16
18 4 0.13
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (17 bp):
AATTAAAATAAAACCCT
Found at i:16865051 original size:2 final size:2
Alignment explanation
Indices: 16865044--16865073 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16865034 CCTTTATCAT
16865044 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16865074 ATTTCTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16868197 original size:2 final size:2
Alignment explanation
Indices: 16868192--16868224 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16868182 TTTTTATCTT
16868192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16868225 GGATGAGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16869725 original size:5 final size:6
Alignment explanation
Indices: 16869708--16869732 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16869698 GTTGGGTCTC
16869708 TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT T
16869733 ATATACAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:16870081 original size:3 final size:3
Alignment explanation
Indices: 16870067--16870096 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
16870057 TGATCGTGAA
*
16870067 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16870097 AAGAGCTAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:16875823 original size:2 final size:2
Alignment explanation
Indices: 16875816--16875854 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
16875806 GCAAAATACA
* * *
16875816 AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16875855 ATCTCCTTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16880333 original size:21 final size:21
Alignment explanation
Indices: 16880290--16880333 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
16880280 ACTGTCAAGG
*
16880290 TCGTCATCATTATCATCATCA
1 TCGTCATCATTATCATCAGCA
* *
16880311 TCGTCATCATTATTATTAGCA
1 TCGTCATCATTATCATCAGCA
16880332 TC
1 TC
16880334 AACATCAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (21 bp):
TCGTCATCATTATCATCAGCA
Found at i:16892835 original size:17 final size:16
Alignment explanation
Indices: 16892813--16892846 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
16892803 TAAATTTATT
16892813 AAATTAAAGTAATATAA
1 AAATTAAAGTAA-ATAA
*
16892830 AAATTAAATTAAATAA
1 AAATTAAAGTAAATAA
16892846 A
1 A
16892847 TTATAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAATTAAAGTAAATAA
Found at i:16902658 original size:4 final size:4
Alignment explanation
Indices: 16902649--16902676 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
16902639 ATTCTCTTTA
16902649 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
16902677 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:16902685 original size:3 final size:3
Alignment explanation
Indices: 16902671--16902708 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
16902661 ATTTATTTAT
*
16902671 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16902709 CCGATGACTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:16903134 original size:11 final size:12
Alignment explanation
Indices: 16903113--16903137 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16903103 CCATTATATT
16903113 TTAATTTTTTTA
1 TTAATTTTTTTA
16903125 TTAATTTTTTTA
1 TTAATTTTTTTA
16903137 T
1 T
16903138 CAAACCAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTAATTTTTTTA
Found at i:16905411 original size:13 final size:12
Alignment explanation
Indices: 16905369--16905407 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
16905359 TTTATTTAAC
*
16905369 ATTAAAAAATTT
1 ATTAAAATATTT
16905381 ATTAATAAT-TTT
1 ATTAA-AATATTT
16905393 ATTAAAATATTT
1 ATTAAAATATTT
16905405 ATT
1 ATT
16905408 TAAAGATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 3 0.12
12 19 0.79
13 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTAAAATATTT
Found at i:16905507 original size:20 final size:22
Alignment explanation
Indices: 16905478--16905518 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
16905468 ATAGTAAAAT
16905478 TTTTTAATTT-ATTAATTTTAC
1 TTTTTAATTTAATTAATTTTAC
*
16905499 TTTTT-ATTTAATTACTTTTA
1 TTTTTAATTTAATTAATTTTA
16905519 ATTAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTAATTTAATTAATTTTAC
Found at i:16906237 original size:37 final size:36
Alignment explanation
Indices: 16906169--16906272 Score: 124
Period size: 37 Copynumber: 2.9 Consensus size: 36
16906159 GATATTTATC
* * *
16906169 ATTTTCAAAAAA-AATTTAACACTTCTTAAAAATAA
1 ATTTTTAAAAAATAATATAACACTTCTCAAAAATAA
*
16906204 ATTTTTAAAAAATAATCATAACACTTCTCAAAAATAT
1 ATTTTTAAAAAATAAT-ATAACACTTCTCAAAAATAA
* *
16906241 ATTTTTAAAAAAT--TATAATACTTTTCAAAAAT
1 ATTTTTAAAAAATAATATAACACTTCTCAAAAAT
16906273 GCATTTGGCT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
34 16 0.26
35 12 0.20
36 3 0.05
37 30 0.49
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (36 bp):
ATTTTTAAAAAATAATATAACACTTCTCAAAAATAA
Found at i:16908327 original size:27 final size:26
Alignment explanation
Indices: 16908289--16908351 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
16908279 ATAAAATAAA
* *
16908289 ATAATATAATTTAATCTAATTTTATTT
1 ATAATATTATTTAATCTAATTATA-TT
* *
16908316 ATAATATTATTTTATCTTATTATATT
1 ATAATATTATTTAATCTAATTATATT
16908342 ATAATATTAT
1 ATAATATTAT
16908352 ATACCAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAATATTATTTAATCTAATTATATT
Found at i:16908340 original size:18 final size:17
Alignment explanation
Indices: 16908307--16908343 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
16908297 ATTTAATCTA
16908307 ATTTTATTTATAATATT
1 ATTTTATTTATAATATT
*
16908324 ATTTTATCTTATTATATT
1 ATTTTAT-TTATAATATT
16908342 AT
1 AT
16908344 AATATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATTTATAATATT
Found at i:16908349 original size:13 final size:13
Alignment explanation
Indices: 16908305--16908353 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
16908295 TAATTTAATC
*
16908305 TAATTTTAT-TTA
1 TAATATTATATTA
*
16908317 TAATATTATTTTA
1 TAATATTATATTA
**
16908330 TCTTATTATATTA
1 TAATATTATATTA
16908343 TAATATTATAT
1 TAATATTATAT
16908354 ACCAAACACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 8 0.27
13 22 0.73
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TAATATTATATTA
Found at i:16909000 original size:20 final size:22
Alignment explanation
Indices: 16908970--16909018 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 22
16908960 AAGTAGAAAG
16908970 TAAAA-TGAAATA-AT-TATAA
1 TAAAATTGAAATATATATATAA
16908989 TAAAATTGAAATATATATATAA
1 TAAAATTGAAATATATATATAA
16909011 TGAAAATT
1 T-AAAATT
16909019 ATTTTTGGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 7 0.27
21 2 0.08
22 6 0.23
23 6 0.23
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (22 bp):
TAAAATTGAAATATATATATAA
Done.