Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 100 of 121
Found at i:17027757 original size:17 final size:17
Alignment explanation
Indices: 17027735--17027771 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
17027725 ATAAAAATGT
* *
17027735 TTTAAATTATTTTTTTA
1 TTTAAACTATATTTTTA
17027752 TTTAAACTATATTTTTA
1 TTTAAACTATATTTTTA
17027769 TTT
1 TTT
17027772 TATATGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTAAACTATATTTTTA
Found at i:17028063 original size:20 final size:21
Alignment explanation
Indices: 17028036--17028077 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17028026 ATAAAAATAA
*
17028036 ATTTTTTCTTGAATTATTTTT
1 ATTTTTCCTTGAATTATTTTT
* *
17028057 ATTTTTCCTTTATTTATTTTT
1 ATTTTTCCTTGAATTATTTTT
17028078 TATAAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (21 bp):
ATTTTTCCTTGAATTATTTTT
Found at i:17028324 original size:32 final size:32
Alignment explanation
Indices: 17028288--17028350 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
17028278 AAATATTTTC
17028288 TATTAAAA-ACAAAAAATATAACTAATA-AATTG
1 TATTAAAACA-AAAAAATATAAC-AATATAATTG
*
17028320 TATTACAACAAAAAAATATAACAATATAATT
1 TATTAAAACAAAAAAATATAACAATATAATT
17028351 TTAAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 4 0.14
32 23 0.82
33 1 0.04
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (32 bp):
TATTAAAACAAAAAAATATAACAATATAATTG
Found at i:17029300 original size:6 final size:6
Alignment explanation
Indices: 17029291--17029317 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17029281 GGTTTTATTT
17029291 TTTTTC TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTT
17029318 ATAATAGTAA
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:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:17029887 original size:27 final size:27
Alignment explanation
Indices: 17029863--17029919 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
17029853 CATCTTTTTG
17029863 ATAAAAATATAATTGTACTCGTTTTCAA
1 ATAAAAA-ATAATTGTACTCGTTTTCAA
17029891 ATAAAAAATAATTGTACTCGTTTTCAA
1 ATAAAAAATAATTGTACTCGTTTTCAA
17029918 AT
1 AT
17029920 TAGATGAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.39
Consensus pattern (27 bp):
ATAAAAAATAATTGTACTCGTTTTCAA
Found at i:17032982 original size:14 final size:15
Alignment explanation
Indices: 17032965--17032994 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17032955 AAAAAAATTA
17032965 TCTTA-AAATTTTTT
1 TCTTACAAATTTTTT
17032979 TCTTACAAATTTTTT
1 TCTTACAAATTTTTT
17032994 T
1 T
17032995 AATTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (15 bp):
TCTTACAAATTTTTT
Found at i:17034092 original size:52 final size:52
Alignment explanation
Indices: 17034036--17034159 Score: 176
Period size: 52 Copynumber: 2.4 Consensus size: 52
17034026 GAGAAAAAAA
* * * *
17034036 ATTCTTAATAGGTAAGTTTGACTTGCAAGAGAAGAATTTTAAAAGGAAAGGG
1 ATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAGAG
* *
17034088 ATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAGAGGAGAGAG
1 ATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAGAG
* *
17034140 ATTTTTAATGGGCAAGTTTG
1 ATTCTTAATAGGCAAGTTTG
17034160 TATGGTTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (52 bp):
ATTCTTAATAGGCAAGTTTGACTTACAAGAGAAGAATTCTAAAAGGAAAGAG
Found at i:17034755 original size:25 final size:25
Alignment explanation
Indices: 17034708--17034758 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
17034698 AAGGTTTGAA
*
17034708 ATGTGACAAGAGTTGAAGATTCAAG
1 ATGTGACAAGAGTCGAAGATTCAAG
* * *
17034733 ATGTGAGAAGAGTCGATGGTTCAAG
1 ATGTGACAAGAGTCGAAGATTCAAG
17034758 A
1 A
17034759 CATGGGAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.31, T:0.24
Consensus pattern (25 bp):
ATGTGACAAGAGTCGAAGATTCAAG
Found at i:17034767 original size:25 final size:25
Alignment explanation
Indices: 17034739--17034794 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
17034729 CAAGATGTGA
**
17034739 GAAGAGTCGATGGTTCAAGACATGG
1 GAAGAGTCGACAGTTCAAGACATGG
* * * *
17034764 GAAGGGTTGACAGTTCGAGATATGG
1 GAAGAGTCGACAGTTCAAGACATGG
17034789 GAAGAG
1 GAAGAG
17034795 CTTGGTTTGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.39, T:0.20
Consensus pattern (25 bp):
GAAGAGTCGACAGTTCAAGACATGG
Found at i:17035049 original size:11 final size:12
Alignment explanation
Indices: 17035033--17035064 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
17035023 AAATCTCATA
17035033 AGAGATTT-TTT
1 AGAGATTTGTTT
17035044 AGAGATTTGTTT
1 AGAGATTTGTTT
17035056 -GAGATTTGT
1 AGAGATTTGT
17035065 CAGATATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (12 bp):
AGAGATTTGTTT
Found at i:17035180 original size:52 final size:52
Alignment explanation
Indices: 17035089--17035245 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
17035079 TGGACAAGAA
* * * * *
17035089 GACTTGCAAAAGAAGAATT-TCAAGAGAAAAAAGACTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCT-AAGAGGAAAGAGATTCTTAATAGGCAAGTTT
* *
17035141 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
* * * *
17035193 GACTTACAAGAGAAGAATTCTAAGAGGAGAGAGATTTTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
17035245 G
1 G
17035246 TATGGTTATA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 90 0.99
53 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:17036636 original size:30 final size:31
Alignment explanation
Indices: 17036602--17036686 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 31
17036592 ATAAGTTATT
*
17036602 AATTTTTACA-TTATATTCAAATAAA-TTTTC
1 AATTTTTA-ATTTATATCCAAATAAACTTTTC
*
17036632 AATTTTTAATTTATATCCAAATAAACTTTTG
1 AATTTTTAATTTATATCCAAATAAACTTTTC
* *
17036663 ACA--TGTAATTTATATCTAAATAAA
1 A-ATTTTTAATTTATATCCAAATAAA
17036687 TTCTTAACAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.02
30 41 0.85
31 5 0.10
32 1 0.02
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.46
Consensus pattern (31 bp):
AATTTTTAATTTATATCCAAATAAACTTTTC
Found at i:17037952 original size:28 final size:28
Alignment explanation
Indices: 17037906--17037960 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
17037896 TGTCGAGAGT
*
17037906 GACAGAATTGTACAAGTAAACATTAAGA
1 GACAGAATAGTACAAGTAAACATTAAGA
* *
17037934 GACAGAATAGTATACGTAAACATTAAG
1 GACAGAATAGTACAAGTAAACATTAAG
17037961 TGAATGCTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (28 bp):
GACAGAATAGTACAAGTAAACATTAAGA
Found at i:17038034 original size:14 final size:14
Alignment explanation
Indices: 17038015--17038041 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17038005 TTGTTTCACT
17038015 AAAAATAATTTTTA
1 AAAAATAATTTTTA
17038029 AAAAATAATTTTT
1 AAAAATAATTTTT
17038042 GTATTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:17038205 original size:34 final size:34
Alignment explanation
Indices: 17038165--17038234 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 34
17038155 CATATCTCAA
* *
17038165 TAAAAAAAATTATTTATAATTCTTAATTTTTAAAT
1 TAAAAAAAA-TAGTGATAATTCTTAATTTTTAAAT
17038200 TAAAAAAAATAGTGATAATTCTTAATTTTTAAAT
1 TAAAAAAAATAGTGATAATTCTTAATTTTTAAAT
17038234 T
1 T
17038235 TAATAATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 24 0.73
35 9 0.27
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (34 bp):
TAAAAAAAATAGTGATAATTCTTAATTTTTAAAT
Found at i:17040891 original size:29 final size:28
Alignment explanation
Indices: 17040812--17040896 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 28
17040802 GTACATAATG
*
17040812 TTACATTTAAATAAAGTACTTATATTTTTA
1 TTACATTTAAATAAAG-ATTTA-ATTTTTA
* ** *
17040842 TTGCATTTAAATAAATTTTTAATTATTTT
1 TTACATTTAAATAAAGATTTAATT-TTTA
*
17040871 TTACATTCAAATAAAGATTTAATTTT
1 TTACATTTAAATAAAGATTTAATTTT
17040897 AATTTGTATC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
28 5 0.11
29 26 0.58
30 14 0.31
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (28 bp):
TTACATTTAAATAAAGATTTAATTTTTA
Found at i:17041577 original size:19 final size:19
Alignment explanation
Indices: 17041553--17041618 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
17041543 GTACGAAGTT
17041553 AGCTAAGACATGCACTAAA
1 AGCTAAGACATGCACTAAA
* *
17041572 AGCTAAGGA-GTGAACTACGTAA
1 AGCTAA-GACATGCACTA---AA
*
17041594 A-CAAAGACATGCACTAAA
1 AGCTAAGACATGCACTAAA
17041612 AGCTAAG
1 AGCTAAG
17041619 GAGTGAACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 3 0.09
19 16 0.46
20 4 0.11
21 9 0.26
22 3 0.09
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AGCTAAGACATGCACTAAA
Found at i:17041612 original size:40 final size:40
Alignment explanation
Indices: 17041557--17041636 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
17041547 GAAGTTAGCT
17041557 AAGACATGCACTAAAAGCTAAGGAGTGAACTACGTAAACA
1 AAGACATGCACTAAAAGCTAAGGAGTGAACTACGTAAACA
17041597 AAGACATGCACTAAAAGCTAAGGAGTGAACTACGTAAACA
1 AAGACATGCACTAAAAGCTAAGGAGTGAACTACGTAAACA
17041637 TAGTTAGCTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (40 bp):
AAGACATGCACTAAAAGCTAAGGAGTGAACTACGTAAACA
Found at i:17041826 original size:24 final size:24
Alignment explanation
Indices: 17041799--17041874 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
17041789 GTATGGGGGT
17041799 TCATTGGGAGGCCCTTGTGGAGGC
1 TCATTGGGAGGCCCTTGTGGAGGC
*** * * *
17041823 TCATTAGGG-GGCTGGTATGGGGGT
1 TCATT-GGGAGGCCCTTGTGGAGGC
17041847 TCATT-GGAGGCCCTTGTGGAGGC
1 TCATTGGGAGGCCCTTGTGGAGGC
17041870 TCATT
1 TCATT
17041875 AGGGGGCTGG
Statistics
Matches: 38, Mismatches: 12, Indels: 5
0.69 0.22 0.09
Matches are distributed among these distances:
22 2 0.05
23 14 0.37
24 19 0.50
25 3 0.08
ACGTcount: A:0.13, C:0.17, G:0.41, T:0.29
Consensus pattern (24 bp):
TCATTGGGAGGCCCTTGTGGAGGC
Found at i:17041874 original size:47 final size:47
Alignment explanation
Indices: 17041775--17042107 Score: 448
Period size: 47 Copynumber: 7.2 Consensus size: 47
17041765 ATTGGGTGGT
* * *
17041775 TCATTCGGGGGCTGGTATGGGGGTTCATTGGGAGGCCCTTGTGGAGGC
1 TCATTAGGGGGCTGGTATGGGGGTTCA-TGGGAGGCTCATGTGGAGGC
* * *
17041823 TCATTAGGGGGCTGGTATGGGGGTTCATTGGAGGCCCTTGTGGAGGC
1 TCATTAGGGGGCTGGTATGGGGGTTCATGGGAGGCTCATGTGGAGGC
**
17041870 TCATTAGGGGGCTGGTGCGGGGGTTCATGGGAGGCTCATGTGGAGGC
1 TCATTAGGGGGCTGGTATGGGGGTTCATGGGAGGCTCATGTGGAGGC
* *
17041917 TCATTAGGGGGCTGG--CGGGGGTTCATGGGGGGCTCATGTGGAGGC
1 TCATTAGGGGGCTGGTATGGGGGTTCATGGGAGGCTCATGTGGAGGC
* *
17041962 TCATTAGGGGGCTGG-AGGGGGGTTCATGGGGGGCTCATGTGGAGGC
1 TCATTAGGGGGCTGGTATGGGGGTTCATGGGAGGCTCATGTGGAGGC
* *
17042008 TCATTA--GGGCTGG-A--GGGGCTCATGGGGGGGCTCATGTGGAGGC
1 TCATTAGGGGGCTGGTATGGGGGTTCAT-GGGAGGCTCATGTGGAGGC
* *
17042051 TCATTAGGGGGCTGGTGTGGGGGTTCATGGGAGGCCCATGTGGAGGC
1 TCATTAGGGGGCTGGTATGGGGGTTCATGGGAGGCTCATGTGGAGGC
17042098 TCATTAGGGG
1 TCATTAGGGG
17042108 CTGTGGAGGC
Statistics
Matches: 264, Mismatches: 14, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
42 8 0.03
43 25 0.09
44 8 0.03
45 51 0.19
46 35 0.13
47 103 0.39
48 34 0.13
ACGTcount: A:0.13, C:0.15, G:0.48, T:0.24
Consensus pattern (47 bp):
TCATTAGGGGGCTGGTATGGGGGTTCATGGGAGGCTCATGTGGAGGC
Found at i:17041882 original size:12 final size:11
Alignment explanation
Indices: 17041760--17042109 Score: 63
Period size: 12 Copynumber: 30.4 Consensus size: 11
17041750 TTCACGGGGT
*
17041760 GGCTGATTGGG
1 GGCTCATTGGG
*
17041771 TGGTTCATTCGGG
1 -GGCTCATT-GGG
**
17041784 GGCTGGTATGGG
1 GGCTCAT-TGGG
*
17041796 GGTTCATTGGG
1 GGCTCATTGGG
*
17041807 AGGC-CCTTGTGG
1 -GGCTCATTG-GG
17041819 AGGCTCATTAGGG
1 -GGCTCATT-GGG
**
17041832 GGCTGGTATGGG
1 GGCTCAT-TGGG
* *
17041844 GGTTCATTGGA
1 GGCTCATTGGG
*
17041855 GGC-CCTTGTGG
1 GGCTCATTG-GG
17041866 AGGCTCATTAGGG
1 -GGCTCATT-GGG
** *
17041879 GGCTGGTGCGGG
1 GGCTCAT-TGGG
*
17041891 GGTTCA-TGGG
1 GGCTCATTGGG
*
17041901 AGGCTCATGTGGA
1 -GGCTCAT-TGGG
17041914 GGCTCATTAGGG
1 GGCTCATT-GGG
***
17041926 GGCT-GGCGGG
1 GGCTCATTGGG
* *
17041936 GGTTCATGGGG
1 GGCTCATTGGG
*
17041947 GGCTCATGTGGA
1 GGCTCAT-TGGG
17041959 GGCTCATTAGGG
1 GGCTCATT-GGG
* *
17041971 GGCTGGA-GGGG
1 GGCT-CATTGGG
* *
17041982 GGTTCATGGGG
1 GGCTCATTGGG
*
17041993 GGCTCATGTGGA
1 GGCTCAT-TGGG
*
17042005 GGCTCATT-AG
1 GGCTCATTGGG
*
17042015 GG--C-TGGAGG
1 GGCTCATTG-GG
*
17042024 GGCTCATGGGGG
1 GGCTCAT-TGGG
*
17042036 GGCTCATGTGGA
1 GGCTCAT-TGGG
17042048 GGCTCATTAGGG
1 GGCTCATT-GGG
**
17042060 GGCTGGTGTGGG
1 GGCTCAT-TGGG
*
17042072 GGTTCA-TGGG
1 GGCTCATTGGG
* *
17042082 AGGCCCATGTGGA
1 -GGCTCAT-TGGG
*
17042095 GGCTCATTAGG
1 GGCTCATTGGG
17042106 GGCT
1 GGCT
17042110 GTGGAGGCAC
Statistics
Matches: 238, Mismatches: 67, Indels: 67
0.64 0.18 0.18
Matches are distributed among these distances:
7 1 0.00
8 1 0.00
9 3 0.01
10 20 0.08
11 59 0.25
12 127 0.53
13 25 0.11
14 2 0.01
ACGTcount: A:0.12, C:0.15, G:0.48, T:0.25
Consensus pattern (11 bp):
GGCTCATTGGG
Found at i:17050468 original size:14 final size:14
Alignment explanation
Indices: 17050445--17050474 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17050435 TTTATTAAGT
17050445 CTTATATAAATAAA
1 CTTATATAAATAAA
*
17050459 CTTATTTAAATAAA
1 CTTATATAAATAAA
17050473 CT
1 CT
17050475 CAATATATAT
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:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
CTTATATAAATAAA
Found at i:17061673 original size:27 final size:27
Alignment explanation
Indices: 17061631--17061695 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
17061621 TGGTGGCTTG
*
17061631 TACACTGGTGGTTTCTTGGGAGGTTCA
1 TACACTGGTGGCTTCTTGGGAGGTTCA
*
17061658 TACACTGGTGGCTTCTTTGGAGGTTCA
1 TACACTGGTGGCTTCTTGGGAGGTTCA
17061685 TACACTGGTGG
1 TACACTGGTGG
17061696 TTTGGGTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.15, C:0.17, G:0.32, T:0.35
Consensus pattern (27 bp):
TACACTGGTGGCTTCTTGGGAGGTTCA
Found at i:17061827 original size:102 final size:102
Alignment explanation
Indices: 17061651--17062151 Score: 770
Period size: 102 Copynumber: 4.9 Consensus size: 102
17061641 GTTTCTTGGG
17061651 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
1 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
17061716 TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
66 TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
* * * * *
17061753 AGGTTCGTATACTGGTGGTTTCTTTGGAGGTTCATATACTGGTGGCTTGGGTTCTGGCTTCTCTT
1 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
* * *
17061818 TTTTTGGAGGTGCATAAACAGGTGGTTTTGGTGGCTT
66 TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
* * * *
17061855 AGGTTCATACACAGGAGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGCTCTGGCTTCTCCT
1 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
17061920 TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
66 TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
* * *
17061957 AGGTTCATACACTGGAGGCTTCTTTGGAGGTTCATAAACTGGAGGTTTGGGTTCTGGCTTCTCTT
1 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
*
17062022 T-TTTCGGTGGTGCATAAACTGGTGGCTTTGGTGGCTT
66 TCTTT-GGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
* * * * * *
17062059 AGGCTCATAAACTGGTGGTTTCTTGGGAGGTTCATATACTGGTGGCTTGGGTTCTGGCTTCTCTT
1 AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
* *
17062124 TCTTTGGAGGTGTATAAACTGGGGGCTT
66 TCTTTGGAGGTGCATAAACTGGTGGCTT
17062152 AGGTTCTGGC
Statistics
Matches: 360, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
101 3 0.01
102 354 0.98
103 3 0.01
ACGTcount: A:0.14, C:0.16, G:0.32, T:0.39
Consensus pattern (102 bp):
AGGTTCATACACTGGTGGCTTCTTTGGAGGTTCATACACTGGTGGTTTGGGTTCTGGCTTCTCTT
TCTTTGGAGGTGCATAAACTGGTGGCTTTGGTGGCTT
Found at i:17061997 original size:27 final size:27
Alignment explanation
Indices: 17061918--17062001 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 27
17061908 CTGGCTTCTC
* *
17061918 CTTCTTTGGAGGTGCATAAACTGGTGG
1 CTTCTTTGGAGGTTCATAAACTGGAGG
* *
17061945 CTT-TGGTGGCTTAGGTTCATACACTGGAGG
1 CTTCT-TTGG---AGGTTCATAAACTGGAGG
17061975 CTTCTTTGGAGGTTCATAAACTGGAGG
1 CTTCTTTGGAGGTTCATAAACTGGAGG
17062002 TTTGGGTTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
26 1 0.02
27 23 0.50
30 21 0.46
31 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.33
Consensus pattern (27 bp):
CTTCTTTGGAGGTTCATAAACTGGAGG
Found at i:17062193 original size:45 final size:45
Alignment explanation
Indices: 17062077--17062196 Score: 170
Period size: 45 Copynumber: 2.7 Consensus size: 45
17062067 AAACTGGTGG
* * *
17062077 TTTCTTGGGAGGTTCATATACTGGTGGCTTGGGTTCTGGCTTCTC
1 TTTCTTCGGAGGTTCATATACTGGGGGCTTAGGTTCTGGCTTCTC
* *
17062122 TTTCTTTGGAGGTGT-ATAAACTGGGGGCTTAGGTTCTGGCTTCTC
1 TTTCTTCGGAGGT-TCATATACTGGGGGCTTAGGTTCTGGCTTCTC
*
17062167 TTTCTTCGGAGGTTCATATACGGGGGGCTT
1 TTTCTTCGGAGGTTCATATACTGGGGGCTT
17062197 GGGTGGGTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.02
45 64 0.97
46 1 0.02
ACGTcount: A:0.12, C:0.17, G:0.32, T:0.40
Consensus pattern (45 bp):
TTTCTTCGGAGGTTCATATACTGGGGGCTTAGGTTCTGGCTTCTC
Found at i:17063209 original size:6 final size:6
Alignment explanation
Indices: 17063198--17063235 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
17063188 TATAAAAATA
17063198 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TT
17063236 GCATTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:17063241 original size:18 final size:18
Alignment explanation
Indices: 17063202--17063241 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
17063192 AAAATATTAT
*
17063202 ATTTATATTTATATTTAT
1 ATTTATATTTATATTTAC
*
17063220 ATTTATATTTATATTTGC
1 ATTTATATTTATATTTAC
17063238 ATTT
1 ATTT
17063242 TTTTTGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTATATTTATATTTAC
Found at i:17063484 original size:14 final size:14
Alignment explanation
Indices: 17063467--17063497 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17063457 TCTCTTTTTT
17063467 AAATATATTTTATA
1 AAATATATTTTATA
*
17063481 AAATATGTTTTATA
1 AAATATATTTTATA
17063495 AAA
1 AAA
17063498 AGAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
AAATATATTTTATA
Found at i:17063536 original size:17 final size:17
Alignment explanation
Indices: 17063514--17063551 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
17063504 ATAAAAATGT
*
17063514 TTTAAATTATATTTTTA
1 TTTAAACTATATTTTTA
17063531 TTTAAACTATATTTTTA
1 TTTAAACTATATTTTTA
17063548 TTTA
1 TTTA
17063552 TATGAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAAACTATATTTTTA
Found at i:17063834 original size:20 final size:21
Alignment explanation
Indices: 17063809--17063849 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17063799 ATAAAAATAA
17063809 ATTTTT-CTTGAATTATTTTT
1 ATTTTTCCTTGAATTATTTTT
* *
17063829 ATTTTTCCTTTATTTATTTTT
1 ATTTTTCCTTGAATTATTTTT
17063850 TATAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (21 bp):
ATTTTTCCTTGAATTATTTTT
Found at i:17064093 original size:33 final size:32
Alignment explanation
Indices: 17064056--17064119 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
17064046 AAATATTTTC
17064056 TATTAAAAACAAAAAAATATAACTAATA-AATTG
1 TATT-AAAACAAAAAAATATAAC-AATATAATTG
*
17064089 TATTACAACAAAAAAATATAACAATATAATT
1 TATTAAAACAAAAAAATATAACAATATAATT
17064120 TTAAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 4 0.14
32 21 0.72
33 4 0.14
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (32 bp):
TATTAAAACAAAAAAATATAACAATATAATTG
Found at i:17065642 original size:27 final size:27
Alignment explanation
Indices: 17065618--17065674 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
17065608 CATCTTTTTG
17065618 ATAAAAATATAATTGTACTCGTTTTCAA
1 ATAAAAA-ATAATTGTACTCGTTTTCAA
17065646 ATAAAAAATAATTGTACTCGTTTTCAA
1 ATAAAAAATAATTGTACTCGTTTTCAA
17065673 AT
1 AT
17065675 TAGATGAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.39
Consensus pattern (27 bp):
ATAAAAAATAATTGTACTCGTTTTCAA
Found at i:17069214 original size:2 final size:2
Alignment explanation
Indices: 17069207--17069245 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
17069197 GATCCTTTAA
17069207 AT AT AT AT 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 AT AT AT AT A
17069246 GATTTGATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17069879 original size:52 final size:52
Alignment explanation
Indices: 17069792--17069948 Score: 174
Period size: 52 Copynumber: 3.0 Consensus size: 52
17069782 TGGATAAAAA
* * *
17069792 GACTTACAAAAGAAGAATT-TCAAGAGAAAAAAGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCT-AAGAAAAAAAAGATTCTTAATAGGCAAGTTT
*
17069844 GACTTGCAAGAGAAGAATTCTAA-AAAAAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAAAAAAA-AGATTCTTAATAGGCAAGTTT
* * ** * ** *
17069896 GACTTACAAGAAAAAAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAAAAAAAAGATTCTTAATAGGCAAGTTT
17069948 G
1 G
17069949 TATGGTTATA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 6 0.07
52 79 0.89
53 4 0.04
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.25
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAGAAAAAAAAGATTCTTAATAGGCAAGTTT
Found at i:17070494 original size:31 final size:30
Alignment explanation
Indices: 17070426--17070509 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
17070416 AAGCTTTTAG
*
17070426 CCCAACAAATGGTATCAGAGCTGTGGTGTT
1 CCCAACAAATGGTATCAGAGTTGTGGTGTT
17070456 CCCAACAAATGGTATCAGAGTTGTGGTGTT
1 CCCAACAAATGGTATCAGAGTTGTGGTGTT
* * *
17070486 CCCCAACAAGTAGTATCAAAGTTG
1 -CCCAACAAATGGTATCAGAGTTG
17070510 AAGGTTTGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 29 0.59
31 20 0.41
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (30 bp):
CCCAACAAATGGTATCAGAGTTGTGGTGTT
Found at i:17070579 original size:25 final size:25
Alignment explanation
Indices: 17070551--17070628 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
17070541 CAAGATGTGA
17070551 GAAGAGTCGATGGTTCAAGACATGG
1 GAAGAGTCGATGGTTCAAGACATGG
* ** * *
17070576 GAAGAGTTGACAGTTCGAGATATGG
1 GAAGAGTCGATGGTTCAAGACATGG
* **
17070601 GAAGAG-C-TTGGTTTTAGACATGG
1 GAAGAGTCGATGGTTCAAGACATGG
17070624 GAAGA
1 GAAGA
17070629 AGTAAGCTTA
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
23 15 0.37
25 26 0.63
ACGTcount: A:0.32, C:0.09, G:0.36, T:0.23
Consensus pattern (25 bp):
GAAGAGTCGATGGTTCAAGACATGG
Found at i:17070606 original size:50 final size:48
Alignment explanation
Indices: 17070527--17070628 Score: 116
Period size: 50 Copynumber: 2.1 Consensus size: 48
17070517 GAAACGTGAC
*
17070527 AAGAGTTGAAGATTCAAGATGTGAGAAGAGTCGATGGTTCAAGACATGGG
1 AAGAGTTGAAGATTCAAGATATGAGAAGAG-C-ATGGTTCAAGACATGGG
* * * **
17070577 AAGAGTTGACAG-TTCGAGATATGGGAAGAGCTTGGTTTTAGACATGGG
1 AAGAGTTGA-AGATTCAAGATATGAGAAGAGCATGGTTCAAGACATGGG
17070625 AAGA
1 AAGA
17070629 AGTAAGCTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 18 0.40
49 1 0.02
50 24 0.53
51 2 0.04
ACGTcount: A:0.34, C:0.08, G:0.34, T:0.24
Consensus pattern (48 bp):
AAGAGTTGAAGATTCAAGATATGAGAAGAGCATGGTTCAAGACATGGG
Found at i:17070988 original size:52 final size:53
Alignment explanation
Indices: 17070932--17071057 Score: 195
Period size: 52 Copynumber: 2.4 Consensus size: 53
17070922 AAGAGAAAAA
* *
17070932 AGATTCTTAATAGGTAAGTTTGACTTGCAAGAGAAAAATTCTAA-AAG-GAAAG
1 AGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAAAATTCTAAGAAGAG-AAG
17070984 AGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAAAATTCTAAGAAGAGAAG
1 AGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAAAATTCTAAGAAGAGAAG
*
17071037 -GATTCTTAATGGGCAAGTTTG
1 AGATTCTTAATAGGCAAGTTTG
17071058 TATGGTTATA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
52 62 0.90
53 6 0.09
54 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (53 bp):
AGATTCTTAATAGGCAAGTTTGACTTACAAGAGAAAAATTCTAAGAAGAGAAG
Found at i:17072450 original size:30 final size:29
Alignment explanation
Indices: 17072379--17072472 Score: 89
Period size: 30 Copynumber: 3.2 Consensus size: 29
17072369 TTTAGACATG
* * * * *
17072379 TTTTTATATTTTTATTACATTTAAATAAG
1 TTTTTAAATTTTAATTATATTCAAATAAA
* *
17072408 TTATTAATTTTTACATTATATTCAAATAAA
1 TTTTTAAATTTTA-ATTATATTCAAATAAA
*
17072438 TTTTTAAATTTTAATTTATATCCAAATAAA
1 TTTTTAAATTTTAA-TTATATTCAAATAAA
*
17072468 CTTTT
1 TTTTT
17072473 GACATGTAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
29 10 0.19
30 42 0.81
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.54
Consensus pattern (29 bp):
TTTTTAAATTTTAATTATATTCAAATAAA
Found at i:17072483 original size:30 final size:30
Alignment explanation
Indices: 17072423--17072499 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
17072413 AATTTTTACA
* * *
17072423 TTATATTCAAATAAATTTTTAAATTTTAAT
1 TTATATCCAAATAAATTTTGAAATTGTAAT
*
17072453 TTATATCCAAATAAACTTTTGACA-TGTAAT
1 TTATATCCAAATAAA-TTTTGAAATTGTAAT
*
17072483 TTATATCTAAATAAATT
1 TTATATCCAAATAAATT
17072500 CTTAACAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.05
30 33 0.80
31 6 0.15
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.47
Consensus pattern (30 bp):
TTATATCCAAATAAATTTTGAAATTGTAAT
Found at i:17073762 original size:28 final size:28
Alignment explanation
Indices: 17073722--17073782 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
17073712 ATGTGTTGAG
17073722 AGTGACAGAATTGTACAAGTAAACATTA
1 AGTGACAGAATTGTACAAGTAAACATTA
* *
17073750 AGTGACAGAATTGTATACGTAAACATTA
1 AGTGACAGAATTGTACAAGTAAACATTA
17073778 AGTGA
1 AGTGA
17073783 ATGCTTGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (28 bp):
AGTGACAGAATTGTACAAGTAAACATTA
Found at i:17076699 original size:29 final size:28
Alignment explanation
Indices: 17076621--17076706 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 28
17076611 TACATGAATG
*
17076621 TTACATTTAAATAAATACTTATATTTTTA
1 TTACATTTAAATAAATATTTA-ATTTTTA
* * *
17076650 TTGCATTTAAATAAATTTTTAATTATTTT
1 TTACATTTAAATAAATATTTAATT-TTTA
* * *
17076679 TTACATTCAAATAAAGATTTAAATTTTA
1 TTACATTTAAATAAATATTTAATTTTTA
17076707 ATTTGTATCC
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 6 0.13
29 40 0.87
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (28 bp):
TTACATTTAAATAAATATTTAATTTTTA
Found at i:17077387 original size:19 final size:19
Alignment explanation
Indices: 17077363--17077428 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
17077353 GTACGAAGTT
17077363 AGCTAAGACATGCACTAAA
1 AGCTAAGACATGCACTAAA
* *
17077382 AGCTAAGGA-GTGAACTACGTAA
1 AGCTAA-GACATGCACTA---AA
*
17077404 A-CAAAGACATGCACTAAA
1 AGCTAAGACATGCACTAAA
17077422 AGCTAAG
1 AGCTAAG
17077429 GAGTGAACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 3 0.09
19 16 0.46
20 4 0.11
21 9 0.26
22 3 0.09
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AGCTAAGACATGCACTAAA
Found at i:17077422 original size:40 final size:40
Alignment explanation
Indices: 17077367--17077446 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
17077357 GAAGTTAGCT
17077367 AAGACATGCACTAAAAGCTAAGGAGTGAACTACGTAAACA
1 AAGACATGCACTAAAAGCTAAGGAGTGAACTACGTAAACA
17077407 AAGACATGCACTAAAAGCTAAGGAGTGAACTACGTAAACA
1 AAGACATGCACTAAAAGCTAAGGAGTGAACTACGTAAACA
17077447 TAGTAGCTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.15
Consensus pattern (40 bp):
AAGACATGCACTAAAAGCTAAGGAGTGAACTACGTAAACA
Found at i:17077604 original size:24 final size:23
Alignment explanation
Indices: 17077555--17077611 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 23
17077545 GGGTCCATAA
** *
17077555 GGTGGTTCACGCGGTGGCTGATT
1 GGTGGTTCATTCGGGGGCTGATT
17077578 GGGTGGTTCATTCGGGGGCTG-TAT
1 -GGTGGTTCATTCGGGGGCTGAT-T
17077602 GG-GGTTCATT
1 GGTGGTTCATT
17077612 GGGAGCCCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.28
23 3 0.10
24 18 0.62
ACGTcount: A:0.09, C:0.14, G:0.44, T:0.33
Consensus pattern (23 bp):
GGTGGTTCATTCGGGGGCTGATT
Found at i:17077673 original size:35 final size:35
Alignment explanation
Indices: 17077627--17077703 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
17077617 CCCTTGTGGA
*
17077627 GGCTCATTA-GGGGCTGGTGCGGGGGTTCATGGGGG
1 GGCTCATTAGGGGGCTGGAGCGGGGGTTCAT-GGGG
*
17077662 GGCTCATTAGGGGGCTGGAGGGGGGGTTCATGGGG
1 GGCTCATTAGGGGGCTGGAGCGGGGGTTCATGGGG
17077697 GGCTCAT
1 GGCTCAT
17077704 GTGGAGGCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
35 20 0.51
36 19 0.49
ACGTcount: A:0.10, C:0.14, G:0.53, T:0.22
Consensus pattern (35 bp):
GGCTCATTAGGGGGCTGGAGCGGGGGTTCATGGGG
Found at i:17077712 original size:12 final size:12
Alignment explanation
Indices: 17077647--17077819 Score: 78
Period size: 12 Copynumber: 14.6 Consensus size: 12
17077637 GGGCTGGTGC
* *
17077647 GGGGGTTCATGG
1 GGGGGCTCATGT
17077659 GGGGGCTCAT-T
1 GGGGGCTCATGT
* *
17077670 AGGGGGCTGGA-GG
1 -GGGGGCT-CATGT
*
17077683 GGGGGTTCATG-
1 GGGGGCTCATGT
17077694 GGGGGCTCATGT
1 GGGGGCTCATGT
*
17077706 GGAGGCTCAT-T
1 GGGGGCTCATGT
*
17077717 AGGGGGCTGGA-G-
1 -GGGGGCT-CATGT
* *
17077729 GGGGGTTCATGG
1 GGGGGCTCATGT
17077741 GGGGGCTCATGT
1 GGGGGCTCATGT
*
17077753 GGAGGCTCAT-T
1 GGGGGCTCATGT
**
17077764 AGGGGGCTGGTGT
1 -GGGGGCTCATGT
*
17077777 GGGGGTTCATG-
1 GGGGGCTCATGT
17077788 GGGAGGC-CTATGT
1 GGG-GGCTC-ATGT
*
17077801 GGAGGCTCAT-T
1 GGGGGCTCATGT
17077812 AGGGGGCT
1 -GGGGGCT
17077820 GGTATGGAGG
Statistics
Matches: 120, Mismatches: 24, Indels: 34
0.67 0.13 0.19
Matches are distributed among these distances:
10 1 0.01
11 25 0.21
12 88 0.73
13 6 0.05
ACGTcount: A:0.12, C:0.13, G:0.53, T:0.23
Consensus pattern (12 bp):
GGGGGCTCATGT
Found at i:17077769 original size:82 final size:82
Alignment explanation
Indices: 17077602--17077759 Score: 212
Period size: 82 Copynumber: 1.9 Consensus size: 82
17077592 GGGGCTGTAT
* * *
17077602 GGGGTTCATTGGGAGCCCTTGTGGAGGCTCATTAGGGGCTGGTGCGGGGGTTCATGGGGGGGCTC
1 GGGGTTCATGGGGAGCCCATGTGGAGGCTCATTAGGGGCTGGAGCGGGGGTTCATGGGGGGGCTC
* * *
17077667 ATTAGGGGGCTGGAGGG
66 ATTAGGAGGCTGCAGAG
* *
17077684 GGGGTTCATGGGGGGCTCATGTGGAGGCTCATTAGGGGGCTGGAG-GGGGGTTCATGGGGGGGCT
1 GGGGTTCATGGGGAGCCCATGTGGAGGCTCATTA-GGGGCTGGAGCGGGGGTTCATGGGGGGGCT
17077748 CATGT-GGAGGCT
65 CAT-TAGGAGGCT
17077760 CATTAGGGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
82 58 0.85
83 10 0.15
ACGTcount: A:0.11, C:0.14, G:0.52, T:0.23
Consensus pattern (82 bp):
GGGGTTCATGGGGAGCCCATGTGGAGGCTCATTAGGGGCTGGAGCGGGGGTTCATGGGGGGGCTC
ATTAGGAGGCTGCAGAG
Found at i:17077785 original size:48 final size:47
Alignment explanation
Indices: 17077647--17077821 Score: 264
Period size: 47 Copynumber: 3.7 Consensus size: 47
17077637 GGGCTGGTGC
* * *
17077647 GGGGGTTCATGGGGGGGCTCATTAGGGGGCTGGAGGGGGGGTTCAT-G
1 GGGGGCTCATGTGGAGGCTCATTAGGGGGCTGGA-GGGGGGTTCATGG
17077694 GGGGGCTCATGTGGAGGCTCATTAGGGGGCTGGAGGGGGGTTCATGG
1 GGGGGCTCATGTGGAGGCTCATTAGGGGGCTGGAGGGGGGTTCATGG
*
17077741 GGGGGCTCATGTGGAGGCTCATTAGGGGGCTGGTGTGGGGGTTCATGG
1 GGGGGCTCATGTGGAGGCTCATTAGGGGGCTGGAG-GGGGGTTCATGG
*
17077789 GGAGGC-CTATGTGGAGGCTCATTAGGGGGCTGG
1 GGGGGCTC-ATGTGGAGGCTCATTAGGGGGCTGG
17077822 TATGGAGGCA
Statistics
Matches: 120, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
46 11 0.09
47 67 0.56
48 42 0.35
ACGTcount: A:0.12, C:0.13, G:0.53, T:0.22
Consensus pattern (47 bp):
GGGGGCTCATGTGGAGGCTCATTAGGGGGCTGGAGGGGGGTTCATGG
Found at i:17079192 original size:29 final size:29
Alignment explanation
Indices: 17079149--17079207 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
17079139 AATTGATAAA
* * * *
17079149 TTTATAATTCGAATATCATATTAAATATT
1 TTTAAAATTCAAATACCATATCAAATATT
17079178 TTTAAAATTCAAATACCATATCAAATATT
1 TTTAAAATTCAAATACCATATCAAATATT
17079207 T
1 T
17079208 CACTATAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (29 bp):
TTTAAAATTCAAATACCATATCAAATATT
Found at i:17081571 original size:18 final size:20
Alignment explanation
Indices: 17081550--17081597 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
17081540 AAAAATTTCA
17081550 ATTTAATAAAAAAAT-ATT-
1 ATTTAATAAAAAAATAATTG
** *
17081568 ATTTAAGGATAAAATAATTG
1 ATTTAATAAAAAAATAATTG
17081588 ATTTAATAAA
1 ATTTAATAAA
17081598 TTATTAAAAG
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
18 12 0.55
19 3 0.14
20 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
ATTTAATAAAAAAATAATTG
Found at i:17084476 original size:15 final size:15
Alignment explanation
Indices: 17084442--17084475 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
17084432 CAAAATAAAT
17084442 AAAAATCAAAACCCA
1 AAAAATCAAAACCCA
*
17084457 TAAAATC-AAACCCA
1 AAAAATCAAAACCCA
17084471 AAAAA
1 AAAAA
17084476 AAAAAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAATCAAAACCCA
Found at i:17084978 original size:2 final size:2
Alignment explanation
Indices: 17084930--17084959 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17084920 AAGTTAATTC
17084930 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
17084960 GTTTTTCTCC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:17085311 original size:2 final size:2
Alignment explanation
Indices: 17085306--17085340 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17085296 TGAGTGTGTG
17085306 TA 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 TA T
17085341 TATTTTTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17085500 original size:2 final size:2
Alignment explanation
Indices: 17085493--17085527 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
17085483 AAACCATCTA
17085493 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
17085528 ATAGATATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:17085660 original size:22 final size:22
Alignment explanation
Indices: 17085632--17085679 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
17085622 AGCCAACCTG
17085632 GATAGCTAACTAGTTAGATAGA
1 GATAGCTAACTAGTTAGATAGA
17085654 GATAGCTAACTAGTTAGATAGA
1 GATAGCTAACTAGTTAGATAGA
17085676 GATA
1 GATA
17085680 AATCAGCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (22 bp):
GATAGCTAACTAGTTAGATAGA
Found at i:17085813 original size:27 final size:31
Alignment explanation
Indices: 17085776--17085840 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
17085766 ACAAATTTAC
* *
17085776 AATTCAAAAATTACATTAAAAATTTT-TTA-
1 AATTTAAATATTACATTAAAAATTTTATTAT
* *
17085805 AATTTAAATATTATATTAAATATTTTATTAT
1 AATTTAAATATTACATTAAAAATTTTATTAT
17085836 AATTT
1 AATTT
17085841 GATATATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 22 0.73
30 3 0.10
31 5 0.17
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (31 bp):
AATTTAAATATTACATTAAAAATTTTATTAT
Found at i:17087829 original size:17 final size:19
Alignment explanation
Indices: 17087809--17087855 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
17087799 AAAATTTTTA
17087809 ATTTAATAAAAAATA-TT-
1 ATTTAATAAAAAATAGTTG
* *
17087826 ATTTAACGATAAAATAGTTG
1 ATTTAA-TAAAAAATAGTTG
17087846 ATTTAATAAA
1 ATTTAATAAA
17087856 TTATCAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
17 6 0.26
18 7 0.30
19 4 0.17
20 6 0.26
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (19 bp):
ATTTAATAAAAAATAGTTG
Found at i:17089108 original size:210 final size:210
Alignment explanation
Indices: 17088731--17089111 Score: 645
Period size: 210 Copynumber: 1.8 Consensus size: 210
17088721 TATGTGAGTC
* * * *
17088731 CTCAACGTTCTCTCCTAGAAGGCGCCTGTGAGGAGGTTTATGCTGCTGGATTGGTTGTTTTTGTT
1 CTCAACATCCTCTCCTAGAAGACGCCTGTGAGGAGGTTTATGCTGCTGGATTGGTGGTTTTTGTT
*
17088796 CCGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAGTCTCCCTGGCTCA
66 CCGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAATCTCCCTGGCTCA
* * * *
17088861 TGCTCATGTGGAGGTTTCTCTCCCTTGCCCTTGGGTGGTTTCTCACCAGAGAAAGGACTCTTGTA
131 TGCTCAGGTGGAGGCTTCTCTCCCTTACCCGTGGGTGGTTTCTCACCAGAGAAAGGACTCTTGTA
17088926 TGGTTCGTATGTGTT
196 TGGTTCGTATGTGTT
* *
17088941 CTCAACATCCTCTCCTAGAAGACGTCTGTGAGGAGGTTTATGTTGCTGGATTGGTGGTTTTTGTT
1 CTCAACATCCTCTCCTAGAAGACGCCTGTGAGGAGGTTTATGCTGCTGGATTGGTGGTTTTTGTT
*
17089006 CTGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAATCTCCCTGGCTCA
66 CCGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAATCTCCCTGGCTCA
*
17089071 TGCTCAGGTGGATGCTTCTCTCCCTTACCCGTGGGTGGTTT
131 TGCTCAGGTGGAGGCTTCTCTCCCTTACCCGTGGGTGGTTT
17089112 TTGTTCCGGT
Statistics
Matches: 158, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
210 158 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (210 bp):
CTCAACATCCTCTCCTAGAAGACGCCTGTGAGGAGGTTTATGCTGCTGGATTGGTGGTTTTTGTT
CCGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAATCTCCCTGGCTCA
TGCTCAGGTGGAGGCTTCTCTCCCTTACCCGTGGGTGGTTTCTCACCAGAGAAAGGACTCTTGTA
TGGTTCGTATGTGTT
Found at i:17089531 original size:111 final size:111
Alignment explanation
Indices: 17088993--17089492 Score: 847
Period size: 111 Copynumber: 4.5 Consensus size: 111
17088983 TTGCTGGATT
*
17088993 GGTGGTTTTTGTTCTGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAA
1 GGTGGTTTTTGTTCCGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAA
17089058 TCTCCCTGGCTCATGCTCAGGTGGATGCTTCTCTCCCTTACCCGTG
66 TCTCCCTGGCTCATGCTCAGGTGGATGCTTCTCTCCCTTACCCGTG
*
17089104 GGTGGTTTTTGTTCCGGTGGTTTCTCACCGTAGAATGGACTATAATATTGTTCTTCCTCTAGTAA
1 GGTGGTTTTTGTTCCGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAA
17089169 TCTCCCTGGCTCATGCTCAGGTGGATGCTTCTCTCCCTTACCCGTG
66 TCTCCCTGGCTCATGCTCAGGTGGATGCTTCTCTCCCTTACCCGTG
* *
17089215 GGTGGTTTTTGTTCCGGTGGTTTCTCACCATAGAACGGACTACAATATTGTTCTTCCTCTAGTAA
1 GGTGGTTTTTGTTCCGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAA
17089280 TCTCCCTGGCTCATGCTCAGGTGGATGCTTCTCTCCCTTACCCGTG
66 TCTCCCTGGCTCATGCTCAGGTGGATGCTTCTCTCCCTTACCCGTG
* *
17089326 GGTGGTTTTTGTTCCGGTGGCTTCTCACCATAGAATGGACTATAATATTGCTCTTCCTCTAGTAA
1 GGTGGTTTTTGTTCCGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAA
* ** * * ***
17089391 TCTCGCTGGCTCATGCTCTTGTGGAGGCTTCTCTCCCTTATCCACA
66 TCTCCCTGGCTCATGCTCAGGTGGATGCTTCTCTCCCTTACCCGTG
* * *
17089437 GGTGGCTTTTGTTCCGGTGGTTTCTCACCATAAAATGGACTATAATATGGTTCTTC
1 GGTGGTTTTTGTTCCGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTC
17089493 ATTTACGGAT
Statistics
Matches: 367, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 367 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.38
Consensus pattern (111 bp):
GGTGGTTTTTGTTCCGGTGGTTTCTCACCATAGAATGGACTATAATATTGTTCTTCCTCTAGTAA
TCTCCCTGGCTCATGCTCAGGTGGATGCTTCTCTCCCTTACCCGTG
Found at i:17092904 original size:60 final size:60
Alignment explanation
Indices: 17092838--17093033 Score: 186
Period size: 60 Copynumber: 3.1 Consensus size: 60
17092828 GTAATTTAAT
17092838 AGGGTATTATAGTAAATTTAAATAAATTTTCACATGTCAAATTTTTATAAAGTAATGGTA
1 AGGGTATTATAGTAAATTTAAATAAATTTTCACATGTCAAATTTTTATAAAGTAATGGTA
* * * * **
17092898 AGGGTATTTTAAT-AATTTAATATATAGTTAATTTTATATTACAT-TAAAATTTCATATATAATT
1 AGGGTATTATAGTAAATTT-A-A-ATA---AA--TT-T-TCACATGTCAAATTT--T-TATAAAG
17092961 TAA---TA
53 TAATGGTA
17092966 AGGGTATTATAGTAAATTTAAATAAATTTTCACATGTCAAATTTTTATAAAGTAATGGTA
1 AGGGTATTATAGTAAATTTAAATAAATTTTCACATGTCAAATTTTTATAAAGTAATGGTA
17093026 AGGGTATT
1 AGGGTATT
17093034 TTAATAATTT
Statistics
Matches: 106, Mismatches: 12, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
57 8 0.08
58 1 0.01
59 10 0.09
60 30 0.28
61 3 0.03
62 3 0.03
63 2 0.02
65 2 0.02
66 3 0.03
67 3 0.03
68 22 0.21
69 10 0.09
70 1 0.01
71 8 0.08
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (60 bp):
AGGGTATTATAGTAAATTTAAATAAATTTTCACATGTCAAATTTTTATAAAGTAATGGTA
Found at i:17092968 original size:68 final size:68
Alignment explanation
Indices: 17092896--17093111 Score: 224
Period size: 68 Copynumber: 3.3 Consensus size: 68
17092886 AAAGTAATGG
*
17092896 TAAGGGTATTTTAATAATTTAATATATAGTTAATTTTATATTACATTAAAATTTCATATATAATT
1 TAAGGGTATTATAATAATTTAATATATAGTTAATTTTATATTACATTAAAATTTCATATATAATT
17092961 TAA
66 TAA
* * *
17092964 TAAGGGTATTATAGTAAATTT-A-A-ATA---AA--TT-T-TCACATGTCAAATTT--T-TATAA
1 TAAGGGTATTATAAT-AATTTAATATATAGTTAATTTTATATTACAT-TAAAATTTCATATATAA
**
17093016 AGTAA
64 TTTAA
*
17093021 TGGTAAGGGTATTTTAATAATTTAATATATAGTTAATTTTATATTACATTAAAATTTCATATATA
1 ---TAAGGGTATTATAATAATTTAATATATAGTTAATTTTATATTACATTAAAATTTCATATATA
17093086 ATTTAA
63 ATTTAA
*
17093092 TAAGGGTATTATAGTAATTT
1 TAAGGGTATTATAATAATTT
17093112 TTAAATAAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
57 8 0.07
58 1 0.01
59 10 0.09
60 22 0.19
61 3 0.03
62 3 0.03
63 2 0.02
65 2 0.02
66 3 0.03
67 3 0.03
68 40 0.34
69 10 0.09
70 1 0.01
71 8 0.07
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (68 bp):
TAAGGGTATTATAATAATTTAATATATAGTTAATTTTATATTACATTAAAATTTCATATATAATT
TAA
Found at i:17092976 original size:128 final size:128
Alignment explanation
Indices: 17092829--17093120 Score: 559
Period size: 128 Copynumber: 2.3 Consensus size: 128
17092819 ATTTAATAAG
17092829 TAATTTAAT-AGGGTATTATAGTAAATTTAAATAAATTTTCACATGTCAAATTTTTATAAAGTAA
1 TAATTTAATAAGGGTATTATAGTAAATTTAAATAAATTTTCACATGTCAAATTTTTATAAAGTAA
17092893 TGGTAAGGGTATTTTAATAATTTAATATATAGTTAATTTTATATTACATTAAAATTTCATATA
66 TGGTAAGGGTATTTTAATAATTTAATATATAGTTAATTTTATATTACATTAAAATTTCATATA
17092956 TAATTTAATAAGGGTATTATAGTAAATTTAAATAAATTTTCACATGTCAAATTTTTATAAAGTAA
1 TAATTTAATAAGGGTATTATAGTAAATTTAAATAAATTTTCACATGTCAAATTTTTATAAAGTAA
17093021 TGGTAAGGGTATTTTAATAATTTAATATATAGTTAATTTTATATTACATTAAAATTTCATATA
66 TGGTAAGGGTATTTTAATAATTTAATATATAGTTAATTTTATATTACATTAAAATTTCATATA
*
17093084 TAATTTAATAAGGGTATTATAGTAATTTTTAAATAAA
1 TAATTTAATAAGGGTATTATAGTAA-ATTTAAATAAA
17093121 ATATCACTTA
Statistics
Matches: 162, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
127 9 0.06
128 143 0.88
129 10 0.06
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (128 bp):
TAATTTAATAAGGGTATTATAGTAAATTTAAATAAATTTTCACATGTCAAATTTTTATAAAGTAA
TGGTAAGGGTATTTTAATAATTTAATATATAGTTAATTTTATATTACATTAAAATTTCATATA
Found at i:17093157 original size:118 final size:118
Alignment explanation
Indices: 17093010--17093230 Score: 300
Period size: 118 Copynumber: 1.9 Consensus size: 118
17093000 TGTCAAATTT
* * ** * *
17093010 TTATAAAGTAATGGTAAGGGTATTTTAATAATTTAATATAT-AGTTAATTTTATATTACATTAAA
1 TTATAAACTAATGGCAAGAATAATTTAATAATTTAATATATGA-TTAATTTTATATCACATTAAA
* * *
17093074 ATTTCATATATAATTTAATAAGGGTATTATAGTAATTTTTAAATAAAATATCAC
65 ATTTAATATATAATTTAATAAAGGTATTACAGTAATTTTTAAATAAAATATCAC
* * ** *
17093128 TTATAAACTAATGGCAAGAATAATTTAATAATTTACTATGTGATTAATTTTATATCATGTTAAAT
1 TTATAAACTAATGGCAAGAATAATTTAATAATTTAATATATGATTAATTTTATATCACATTAAAA
17093193 TTTAATATATAATTTAATAAAGGTATTACAGTAATTTT
66 TTTAATATATAATTTAATAAAGGTATTACAGTAATTTT
17093231 AAAACAAATG
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
118 87 0.99
119 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (118 bp):
TTATAAACTAATGGCAAGAATAATTTAATAATTTAATATATGATTAATTTTATATCACATTAAAA
TTTAATATATAATTTAATAAAGGTATTACAGTAATTTTTAAATAAAATATCAC
Found at i:17093789 original size:31 final size:31
Alignment explanation
Indices: 17093737--17093799 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
17093727 GTAATTTTAG
**
17093737 TCAATAATAAGAATATGTGTATTTTAGTAAT
1 TCAATAATAAGAATAAATGTATTTTAGTAAT
*
17093768 TCAATAATAAGAGA-AAATGTATTTTCGTAAT
1 TCAATAATAAGA-ATAAATGTATTTTAGTAAT
17093799 T
1 T
17093800 ATGATATGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.40
Consensus pattern (31 bp):
TCAATAATAAGAATAAATGTATTTTAGTAAT
Found at i:17096025 original size:243 final size:247
Alignment explanation
Indices: 17095654--17096229 Score: 838
Period size: 243 Copynumber: 2.3 Consensus size: 247
17095644 TTGGTCCCTC
* * * *
17095654 GTGTTTGTCCTCAACATTCTCACCTAGGAGGCGTCTGTGAGGAGGTTTTTCTCCATGTGATGGCT
1 GTGTATGTCCTCAACATCCTCACCTAAGAGGCGTCTGTGAGGAGGTTTTTCTCCATGTGGTGGCT
* *
17095719 CTTTTCCCTTACCCTTTGGTGGTTTGTGTTCCGGTAATGGCTTGTGTTCTGGTGGTTTCTCACCA
66 CCTTTCCCTTACCCTTTGATGGTTTGTGTTCCGGTAATGGCTTGTGTTCTGGTGGTTTCTCACCA
* *
17095784 GGGAATGGCTTTTTGGGTGGTTTACCA-TTTGAGAATCTTGATAGTTCATGTTCA-T-G-T-GGA
131 GGGAATGGCTTTTTGGGTGGTTCACCATTTTG-GAATCTTGATAGCTCATGTTCACTAGTTGGGA
* *
17095844 GGCTTTTCTCCCTTACCCTTGGGTGGTTTAAAACCTGGGGTTTTTGGCGGTTT
195 GGCTTTTCTCCCTTACCCTTGGGTGGTTTAAAACCTGAGGTTTTTGGAGGTTT
* * * *
17095897 GTGTGTGTCCTCAACATCCTCACTTAAGAGGCGTCTGTGAGGAGGTTTTCCCCCATGTGGTGGCT
1 GTGTATGTCCTCAACATCCTCACCTAAGAGGCGTCTGTGAGGAGGTTTTTCTCCATGTGGTGGCT
*
17095962 CCTTTCCCTTACCCTTTGATGGTTTGTTTTCCGGTAATGGCTTGTGTTCTGGTGGTTTCTCACCA
66 CCTTTCCCTTACCCTTTGATGGTTTGTGTTCCGGTAATGGCTTGTGTTCTGGTGGTTTCTCACCA
17096027 GGGAATGGCTTTTTGGGTGGTTCACCATTTTGGAATCTTGATAGCTCATGTTCACGTAGAGGCTT
131 GGGAATGGCTTTTTGGGTGGTTCACCATTTTGGAATCTTGATAGCTCATGTTCAC-T--A-G--T
* * *
17096092 ATGGGGAGGCTTTTCTCCCTTACCCTTGGGTGGTTTGAAACCTGAGTTTTTTGGAGTTTT
190 -T-GGGAGGCTTTTCTCCCTTACCCTTGGGTGGTTTAAAACCTGAGGTTTTTGGAGGTTT
* * * *
17096152 GTGTATGTCCTCACCATCCTCACCCAAAAGGTGTCTGTGAGGAGGTTTTTCTCCATGTGGTGGCT
1 GTGTATGTCCTCAACATCCTCACCTAAGAGGCGTCTGTGAGGAGGTTTTTCTCCATGTGGTGGCT
17096217 CCTTTCCCTTACC
66 CCTTTCCCTTACC
17096230 TTTAGGTGGT
Statistics
Matches: 295, Mismatches: 25, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
243 167 0.57
244 4 0.01
245 1 0.00
249 1 0.00
253 1 0.00
255 121 0.41
ACGTcount: A:0.14, C:0.21, G:0.27, T:0.39
Consensus pattern (247 bp):
GTGTATGTCCTCAACATCCTCACCTAAGAGGCGTCTGTGAGGAGGTTTTTCTCCATGTGGTGGCT
CCTTTCCCTTACCCTTTGATGGTTTGTGTTCCGGTAATGGCTTGTGTTCTGGTGGTTTCTCACCA
GGGAATGGCTTTTTGGGTGGTTCACCATTTTGGAATCTTGATAGCTCATGTTCACTAGTTGGGAG
GCTTTTCTCCCTTACCCTTGGGTGGTTTAAAACCTGAGGTTTTTGGAGGTTT
Found at i:17097874 original size:15 final size:17
Alignment explanation
Indices: 17097842--17097878 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
17097832 GAAAAGATAA
*
17097842 ATTATGTATATTACTAT
1 ATTATATATATTACTAT
17097859 ATTATATATA-TA-TAT
1 ATTATATATATTACTAT
17097874 ATTAT
1 ATTAT
17097879 GCGAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 2 0.11
17 9 0.47
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTATATATATTACTAT
Found at i:17098218 original size:31 final size:30
Alignment explanation
Indices: 17098183--17098280 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
17098173 TGTTGAAAGT
* * *
17098183 TTTATTTAGGTACAAATTATAAGTTTAAGGG
1 TTTATTTAGATACAAATTAGAAG-TTAAGGA
*
17098214 TTTATTTAGATATAAATTAGAAGTTAAGGA
1 TTTATTTAGATACAAATTAGAAGTTAAGGA
* * *
17098244 TTTATTT-GAATATAATTTA-AAGATTAAGAA
1 TTTATTTAG-ATACAAATTAGAAG-TTAAGGA
17098274 TTTATTT
1 TTTATTT
17098281 GAATATAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
29 4 0.07
30 35 0.59
31 20 0.34
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (30 bp):
TTTATTTAGATACAAATTAGAAGTTAAGGA
Found at i:17098248 original size:30 final size:30
Alignment explanation
Indices: 17098196--17098288 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
17098186 ATTTAGGTAC
* *
17098196 AAATTATAAGTTTAAGGGTTTATTT-AGATAT
1 AAATTA-AAGATTAAGGATTTATTTGA-ATAT
17098227 AAATTAGAAG-TTAAGGATTTATTTGAATAT
1 AAATTA-AAGATTAAGGATTTATTTGAATAT
* *
17098257 AATTTAAAGATTAAGAATTTATTTGAATAT
1 AAATTAAAGATTAAGGATTTATTTGAATAT
17098287 AA
1 AA
17098289 TAAAAGTTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
29 3 0.05
30 43 0.77
31 10 0.18
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (30 bp):
AAATTAAAGATTAAGGATTTATTTGAATAT
Found at i:17098289 original size:30 final size:28
Alignment explanation
Indices: 17098214--17098309 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 28
17098204 AGTTTAAGGG
*
17098214 TTTATTT-AGATATAAATTAGAAGTTAAGGA
1 TTTATTTGA-ATAT-AATTA-AAGTTAAGAA
17098244 TTTATTTGAATATAATTTAAAGATTAAGAA
1 TTTATTTGAATATAA-TTAAAG-TTAAGAA
*
17098274 TTTATTTGAATATAATAAAAGTTTAAGAA
1 TTTATTTGAATATAATTAAAG-TTAAGAA
*
17098303 CTTATTT
1 TTTATTT
17098310 AACTAAAGTT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
29 23 0.39
30 35 0.59
31 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.44
Consensus pattern (28 bp):
TTTATTTGAATATAATTAAAGTTAAGAA
Found at i:17098653 original size:27 final size:28
Alignment explanation
Indices: 17098623--17098678 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
17098613 AATATCTATT
*
17098623 AAAT-TATAGTAAAATATTTTAATT-TAA
1 AAATATATAATAAAATA-TTTAATTATAA
*
17098650 AAATATTTAATAAAATATTTAATTATAA
1 AAATATATAATAAAATATTTAATTATAA
17098678 A
1 A
17098679 TTTATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (28 bp):
AAATATATAATAAAATATTTAATTATAA
Found at i:17098658 original size:15 final size:15
Alignment explanation
Indices: 17098633--17098678 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 15
17098623 AAATTATAGT
17098633 AAAATATTTTAATTTA
1 AAAATA-TTTAATTTA
17098649 AAAATATTTAA--T-
1 AAAATATTTAATTTA
17098661 AAAATATTTAATTATA
1 AAAATATTTAATT-TA
17098677 AA
1 AA
17098679 TTTATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 11 0.42
13 1 0.04
15 6 0.23
16 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATATTTAATTTA
Found at i:17098820 original size:29 final size:31
Alignment explanation
Indices: 17098755--17098813 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
17098745 ATAATTTTTA
*
17098755 AAATATTATATTAATTAATAAATTTATAAATC
1 AAATATCATATTAA-TAATAAATTTATAAATC
17098787 AAATATCATATTAA-AA-AAATTT-TAAAT
1 AAATATCATATTAATAATAAATTTATAAAT
17098814 TTAAATACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 5 0.19
29 6 0.23
30 2 0.08
32 13 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (31 bp):
AAATATCATATTAATAATAAATTTATAAATC
Found at i:17098868 original size:2 final size:2
Alignment explanation
Indices: 17098861--17098885 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17098851 TCCCTTTCAA
17098861 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 A
17098886 ATTAAGAGTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17099802 original size:3 final size:3
Alignment explanation
Indices: 17099794--17099821 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17099784 AAAAAGTTAT
17099794 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
17099822 ATTTTAAGTT
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:17099971 original size:24 final size:22
Alignment explanation
Indices: 17099943--17099995 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
17099933 AGTTAATCTT
17099943 AAATTAAATGCATAAATAAATTAA
1 AAATTAAAT-CATAAATAAA-TAA
*
17099967 AAATTAAAATCATTAATAAATAA
1 AAATT-AAATCATAAATAAATAA
*
17099990 TAATTA
1 AAATTA
17099996 TAATATGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 7 0.27
24 14 0.54
25 4 0.15
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (22 bp):
AAATTAAATCATAAATAAATAA
Found at i:17100888 original size:30 final size:30
Alignment explanation
Indices: 17100780--17100890 Score: 125
Period size: 30 Copynumber: 3.7 Consensus size: 30
17100770 ATTTTTATTA
** *
17100780 TATTTAAAT-AATGCTTAATCTTTAATTTG
1 TATTTAAATAAATTTTTAATATTTAATTTG
* * * *
17100809 AACTTAAATAAGTTTTTAAGATTTAATTTG
1 TATTTAAATAAATTTTTAATATTTAATTTG
*
17100839 TATTTAAATAGATTTTTAATATTTAATTTG
1 TATTTAAATAAATTTTTAATATTTAATTTG
**
17100869 TATTTAAATAAATAATTAATAT
1 TATTTAAATAAATTTTTAATAT
17100891 AAATCAATCT
Statistics
Matches: 66, Mismatches: 15, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
29 7 0.11
30 59 0.89
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (30 bp):
TATTTAAATAAATTTTTAATATTTAATTTG
Found at i:17100924 original size:17 final size:17
Alignment explanation
Indices: 17100902--17100935 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17100892 AATCAATCTT
17100902 TTATTTGAAATA-AAAAC
1 TTATTT-AAATACAAAAC
17100919 TTATTTAAATACAAAAC
1 TTATTTAAATACAAAAC
17100936 AAAATTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (17 bp):
TTATTTAAATACAAAAC
Found at i:17101052 original size:2 final size:2
Alignment explanation
Indices: 17101045--17101076 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
17101035 CTATAACTTA
*
17101045 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17101077 GAAATTCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:17101369 original size:20 final size:20
Alignment explanation
Indices: 17101344--17101384 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
17101334 AATATCATTT
17101344 AATTTAT-TGATAATATATAA
1 AATTTATATGATAATA-ATAA
*
17101364 AATTTATATGTTAATAATAA
1 AATTTATATGATAATAATAA
17101384 A
1 A
17101385 TCATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AATTTATATGATAATAATAA
Found at i:17102139 original size:20 final size:21
Alignment explanation
Indices: 17102103--17102154 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
17102093 TTCGAAATTA
17102103 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
17102125 ATAAAATATTATTTTT-AAAT
1 ATAAAATATTATTTTTAAAAT
17102145 ATAAAATATT
1 ATAAAATATT
17102155 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 14 0.47
21 5 0.17
22 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:17102178 original size:8 final size:8
Alignment explanation
Indices: 17102140--17102193 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
17102130 ATATTATTTT
17102140 TAAATATA
1 TAAATATA
*
17102148 -AAATATT
1 TAAATATA
17102155 TAAATATA
1 TAAATATA
*
17102163 TAATTATA
1 TAAATATA
17102171 TAAATATA
1 TAAATATA
17102179 TATATATATA
1 TA-A-ATATA
17102189 TAAAT
1 TAAAT
17102194 TAATTAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
7 6 0.15
8 24 0.62
9 2 0.05
10 7 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TAAATATA
Found at i:17102326 original size:17 final size:18
Alignment explanation
Indices: 17102301--17102336 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17102291 AATCTTATCC
*
17102301 AAAACTTAATTTTA-AAA
1 AAAAATTAATTTTATAAA
17102318 AAAAATTAATTTTATAAA
1 AAAAATTAATTTTATAAA
17102336 A
1 A
17102337 TTAGATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATTAATTTTATAAA
Found at i:17113976 original size:37 final size:36
Alignment explanation
Indices: 17113934--17114010 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
17113924 TCTTAATAAG
* **
17113934 TAATAATATTAAATAAATGTATTCTTA-ATTTTATTT
1 TAATAACATTAAATAAAAATATT-TTACATTTTATTT
*
17113970 ATAATAACATTAAGTAAAAATATTTTACATTTTATTT
1 -TAATAACATTAAATAAAAATATTTTACATTTTATTT
17114007 TAAT
1 TAAT
17114011 TTTATTATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 7 0.20
37 28 0.80
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (36 bp):
TAATAACATTAAATAAAAATATTTTACATTTTATTT
Found at i:17114113 original size:71 final size:70
Alignment explanation
Indices: 17114026--17114313 Score: 278
Period size: 71 Copynumber: 4.0 Consensus size: 70
17114016 TATGAGTAGT
*
17114026 AACATTCATTACTTTTTTATCTTAAAAACATAATTTTTATTAAAATTTTAAAATTTCAAAAATAA
1 AACATTCATCA-TTTTTTATCTTAAAAACATAATTTTTATTAAAATTTTAAAATTTCAAAAATAA
17114091 AATTTC
65 AATTTC
* * ** * * *
17114097 AACATTCACTCATTTTTTATGTTCAAAATGTGATTTTTATTAAAATTTCAAAATTTTAAAAATAA
1 AACATTCA-TCATTTTTTATCTTAAAAACATAATTTTTATTAAAATTTTAAAATTTCAAAAATAA
*
17114162 AATTTT
65 AATTTC
* * * * *
17114168 AAGATTCGTTACATTTCTTATCTTAAAAACA-AAGTATTTATTAAAATTTTAGAACTTT-AAAAA
1 AACATTC-AT-CATTTTTTATCTTAAAAACATAA-TTTTTATTAAAATTTTA-AAATTTCAAAAA
*
17114231 TAAAGTTTC
62 TAAAATTTC
* * * * *
17114240 AACATCCATGATATTTTTAAT-TTAAAAA-ATGTGATTTTTGTTAAAATTTTAAATTTTCAAAAA
1 AACATTCATCAT-TTTTT-ATCTTAAAAACA--TAATTTTTATTAAAATTTTAAAATTTCAAAAA
17114303 TAAAATTTC
62 TAAAATTTC
17114312 AA
1 AA
17114314 TATCTATTAC
Statistics
Matches: 174, Mismatches: 32, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
70 3 0.02
71 84 0.48
72 81 0.47
73 6 0.03
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (70 bp):
AACATTCATCATTTTTTATCTTAAAAACATAATTTTTATTAAAATTTTAAAATTTCAAAAATAAA
ATTTC
Found at i:17114208 original size:143 final size:143
Alignment explanation
Indices: 17114029--17114310 Score: 378
Period size: 143 Copynumber: 2.0 Consensus size: 143
17114019 GAGTAGTAAC
* *
17114029 ATTCATTACTTTTTTATCTTAAAAACATAATTTTTATTAAAATTTTA-AAATTTCAAAAATAAAA
1 ATTCATTACTTTCTTATCTTAAAAACATAATATTTATTAAAATTTTAGAAATTT-AAAAATAAAA
* *
17114093 TTTCAACATTCACTCAT-TTTTT-ATGTT-CAAAATGTGATTTTTATTAAAATTTCAAAATTTT-
65 TTTCAACATCCA-TCATATTTTTAAT-TTAAAAAATGTGATTTTTATTAAAATTT-AAAATTTTC
17114154 AAAAATAAAATTTTAAG
127 AAAAATAAAATTTTAAG
* *
17114171 ATTCGTTACATTTCTTATCTTAAAAACA-AAGTATTTATTAAAATTTTAGAACTTTAAAAATAAA
1 ATTCATTAC-TTTCTTATCTTAAAAACATAA-TATTTATTAAAATTTTAGAAATTTAAAAATAAA
* * * *
17114235 GTTTCAACATCCATGATATTTTTAATTTAAAAAATGTGATTTTTGTTAAAATTTTAAATTTTCAA
64 ATTTCAACATCCATCATATTTTTAATTTAAAAAATGTGATTTTTATTAAAATTTAAAATTTTCAA
17114300 AAATAAAATTT
129 AAATAAAATTT
17114311 CAATATCTAT
Statistics
Matches: 123, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
142 13 0.11
143 67 0.54
144 43 0.35
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (143 bp):
ATTCATTACTTTCTTATCTTAAAAACATAATATTTATTAAAATTTTAGAAATTTAAAAATAAAAT
TTCAACATCCATCATATTTTTAATTTAAAAAATGTGATTTTTATTAAAATTTAAAATTTTCAAAA
ATAAAATTTTAAG
Found at i:17114227 original size:72 final size:71
Alignment explanation
Indices: 17114026--17114313 Score: 264
Period size: 72 Copynumber: 4.0 Consensus size: 71
17114016 TATGAGTAGT
17114026 AACATTCATTAC-TTTTTTATCTTAAAAACATAA-TTTTTATTAAAATTTTAAAATTTCAAAAAT
1 AACATTCATTACATTTTTTATCTTAAAAACA-AAGTTTTTATTAAAATTTTAAAATTT-AAAAAT
17114089 AAAATTTC
64 AAAATTTC
* * * *** *
17114097 AACATTCACT-CATTTTTTATGTTCAAAA-TGTGATTTTTATTAAAATTTCAAAATTTTAAAAAT
1 AACATTCATTACATTTTTTATCTTAAAAACAAAG-TTTTTATTAAAATTTTAAAA-TTTAAAAAT
*
17114160 AAAATTTT
64 AAAATTTC
* * * * *
17114168 AAGATTCGTTACATTTCTTATCTTAAAAACAAAGTATTTATTAAAATTTTAGAACTTTAAAAATA
1 AACATTCATTACATTTTTTATCTTAAAAACAAAGTTTTTATTAAAATTTTA-AAATTTAAAAATA
*
17114233 AAGTTTC
65 AAATTTC
* * * * ** * *
17114240 AACATCCATGATATTTTTAAT-TTAAAAA-ATGTGATTTTTGTTAAAATTTTAAATTTTCAAAAA
1 AACATTCATTACATTTTTTATCTTAAAAACA-AAG-TTTTTATTAAAATTTTAAAATTT-AAAAA
17114303 TAAAATTTC
63 TAAAATTTC
17114312 AA
1 AA
17114314 TATCTATTAC
Statistics
Matches: 172, Mismatches: 35, Indels: 19
0.76 0.15 0.08
Matches are distributed among these distances:
70 2 0.01
71 75 0.44
72 92 0.53
73 3 0.02
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (71 bp):
AACATTCATTACATTTTTTATCTTAAAAACAAAGTTTTTATTAAAATTTTAAAATTTAAAAATAA
AATTTC
Found at i:17117518 original size:24 final size:24
Alignment explanation
Indices: 17117491--17117544 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
17117481 ATAAAATTTA
17117491 TTATTATATTAAAAATTAAAAATG
1 TTATTATATTAAAAATTAAAAATG
* * * * *
17117515 TTATTATTTTATAATTTAAAATTT
1 TTATTATATTAAAAATTAAAAATG
17117539 TTATTA
1 TTATTA
17117545 CATATAAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTATTATATTAAAAATTAAAAATG
Found at i:17117555 original size:17 final size:17
Alignment explanation
Indices: 17117533--17117574 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
17117523 TTATAATTTA
17117533 AAATTTTTA-TTACATAT
1 AAATTTTTATTTA-ATAT
*
17117550 AAATTTTAATTTAATAT
1 AAATTTTTATTTAATAT
*
17117567 CAATTTTT
1 AAATTTTT
17117575 TTCTTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATTTTTATTTAATAT
Found at i:17117676 original size:21 final size:22
Alignment explanation
Indices: 17117644--17117684 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
17117634 TATTAATTTT
17117644 AATATTATCCATTATAATAATA
1 AATATTATCCATTATAATAATA
17117666 AATATTA-CCATTATAATAA
1 AATATTATCCATTATAATAA
17117685 CTAATCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATTATCCATTATAATAATA
Found at i:17119409 original size:8 final size:8
Alignment explanation
Indices: 17119396--17119441 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
17119386 TTATATGTGA
17119396 ATTTAATT
1 ATTTAATT
17119404 ATTTAATT
1 ATTTAATT
* *
17119412 ATATAATA
1 ATTTAATT
17119420 ATTT-ATT
1 ATTTAATT
17119427 ATTTAATT
1 ATTTAATT
17119435 ATTTAAT
1 ATTTAAT
17119442 GATTATGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTAATT
Found at i:17119482 original size:23 final size:24
Alignment explanation
Indices: 17119434--17119484 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
17119424 ATTATTTAAT
*
17119434 TATTTAATGATTATGTAAATATAA
1 TATTTAATGATTATGTAAATAAAA
*
17119458 TATTT-ATTATTAT-TAAATTAAAA
1 TATTTAATGATTATGTAAA-TAAAA
17119481 TATT
1 TATT
17119485 AGTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 15 0.62
24 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
TATTTAATGATTATGTAAATAAAA
Found at i:17120550 original size:71 final size:71
Alignment explanation
Indices: 17120466--17120834 Score: 314
Period size: 71 Copynumber: 5.3 Consensus size: 71
17120456 TAATAAAAAT
** * *
17120466 TATGTTTTTTATCTTAAAAGTACGATCTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTGAA
1 TATG-TTTTTATCTTAAAAACACGATTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCAA
17120531 CATCCAC
65 CATCCAC
* *
17120538 TATGTTTTTATCTTAAAAACACGATTTTTGTTAAAATTTCATAATTTCAAAAATATAATTTCAAC
1 TATGTTTTTATCTTAAAAACACGATTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCAAC
* *
17120603 ATCTAT
66 ATCCAC
* * * * * * **
17120609 TACT-CTTTTATCTTATAAACATGATTTTTGTTAAAATTTCAGAATTTTGAAAATATAGTTTTGA
1 TA-TGTTTTTATCTTAAAAACACGATTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCAA
*
17120673 CATTC-C
65 CATCCAC
* ** * *
17120679 T-TGCGTTTTATATCTT-AAAA-ATGGGTTCT-TT---A-TT-AAAATTTTAAAAATATAATTTA
1 TAT--GTTTT-TATCTTAAAAACACGATTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTC
17120735 AACATCCAC
63 AACATCCAC
* * * * * *
17120744 TGATTTTTTTATCATAAAAGCAC-AGTTTTTATAAAAATTTCAAAA-TTTGAAAATATAATTTCA
1 T-ATGTTTTTATCTTAAAAACACGA-TTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCA
17120807 ACATCCAC
64 ACATCCAC
*
17120815 TATATTTTTTATCTTAAAAA
1 TAT-GTTTTTATCTTAAAAA
17120835 TGCAATACTT
Statistics
Matches: 236, Mismatches: 43, Indels: 37
0.75 0.14 0.12
Matches are distributed among these distances:
64 28 0.12
65 11 0.05
66 5 0.02
67 2 0.01
68 1 0.00
69 2 0.01
70 10 0.04
71 162 0.69
72 15 0.06
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.44
Consensus pattern (71 bp):
TATGTTTTTATCTTAAAAACACGATTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCAAC
ATCCAC
Found at i:17122275 original size:20 final size:20
Alignment explanation
Indices: 17122250--17122289 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17122240 ATATCCAAAC
17122250 TTTTATAAGTAAATCATGAA
1 TTTTATAAGTAAATCATGAA
17122270 TTTTATAAGTAAATCATGAA
1 TTTTATAAGTAAATCATGAA
17122290 AGACGTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTATAAGTAAATCATGAA
Found at i:17123544 original size:15 final size:16
Alignment explanation
Indices: 17123524--17123558 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17123514 CTAACTAAAC
*
17123524 AATAAAT-ATAAATTA
1 AATAAATAATAAATAA
17123539 AATAAATAATAAATAA
1 AATAAATAATAAATAA
17123555 AATA
1 AATA
17123559 CTTGTGGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAATAATAAATAA
Found at i:17126863 original size:30 final size:31
Alignment explanation
Indices: 17126816--17126894 Score: 119
Period size: 30 Copynumber: 2.6 Consensus size: 31
17126806 AATGCTTATC
*
17126816 TTTAATTTG-ACTTAAATAAG-TTTTTAAGA
1 TTTAATTTGTATTTAAATAAGATTTTTAAGA
*
17126845 TTTAATTTGTATTTAAAT-AGATTTTTAATA
1 TTTAATTTGTATTTAAATAAGATTTTTAAGA
17126875 TTTAATTTGTATTTAAATAA
1 TTTAATTTGTATTTAAATAA
17126895 ATATTAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 11 0.24
30 33 0.73
31 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (31 bp):
TTTAATTTGTATTTAAATAAGATTTTTAAGA
Found at i:17126938 original size:17 final size:17
Alignment explanation
Indices: 17126916--17126949 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17126906 AATCAATCTT
17126916 TTATTTGAAATA-AAAAC
1 TTATTT-AAATACAAAAC
17126933 TTATTTAAATACAAAAC
1 TTATTTAAATACAAAAC
17126950 AAATTAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (17 bp):
TTATTTAAATACAAAAC
Found at i:17127379 original size:20 final size:20
Alignment explanation
Indices: 17127354--17127394 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
17127344 AATATCATTT
17127354 AATTTAT-TGATAATATATAA
1 AATTTATATGATAATA-ATAA
*
17127374 AATTTATATGTTAATAATAA
1 AATTTATATGATAATAATAA
17127394 A
1 A
17127395 TCATAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AATTTATATGATAATAATAA
Found at i:17128153 original size:21 final size:21
Alignment explanation
Indices: 17128115--17128167 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
17128105 TCCGAAATTA
17128115 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTT-AAAT
17128137 ATAAAATATTA-TTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
17128157 ATAAAAATATT
1 AT-AAAATATT
17128168 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.20
21 13 0.43
22 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:17128166 original size:8 final size:8
Alignment explanation
Indices: 17128152--17128203 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
17128142 ATATTATTTT
17128152 TAAATATA
1 TAAATATA
* *
17128160 AAAATATT
1 TAAATATA
17128168 TAAATATA
1 TAAATATA
*
17128176 TAATTATA
1 TAAATATA
17128184 TAAATATA
1 TAAATATA
* *
17128192 TATATAAA
1 TAAATATA
17128200 TAAA
1 TAAA
17128204 AAATTAATTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATATA
Found at i:17128176 original size:18 final size:20
Alignment explanation
Indices: 17128115--17128178 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
17128105 TCCGAAATTA
17128115 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA--TTTTAAAAT
*
17128137 ATAAAATATTATTTTTAAAT
1 ATAAAATATTATTTTAAAAT
17128157 ATAAAA-A-TA-TTTAAATAT
1 ATAAAATATTATTTTAAA-AT
17128175 ATAA
1 ATAA
17128179 TTATATAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
17 5 0.13
18 8 0.21
19 1 0.03
20 14 0.36
22 11 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAAAATATTATTTTAAAAT
Found at i:17128192 original size:16 final size:16
Alignment explanation
Indices: 17128135--17128193 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
17128125 ATTTTTTAAA
*
17128135 ATATAAA-ATATTATT
1 ATATAAATATATAATT
* * *
17128150 -TTTAAATATAAAAAT
1 ATATAAATATATAATT
*
17128165 ATTTAAATATATAATT
1 ATATAAATATATAATT
17128181 ATATAAATATATA
1 ATATAAATATATA
17128194 TATAAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
14 5 0.14
15 5 0.14
16 25 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATAAATATATAATT
Found at i:17137743 original size:14 final size:14
Alignment explanation
Indices: 17137726--17137752 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17137716 TTTGGAGTAA
17137726 ATCATTTTGAGTTG
1 ATCATTTTGAGTTG
17137740 ATCATTTTGAGTT
1 ATCATTTTGAGTT
17137753 AGGCCGAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (14 bp):
ATCATTTTGAGTTG
Found at i:17138467 original size:5 final size:5
Alignment explanation
Indices: 17138459--17138487 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
17138449 ATCTTATCAA
17138459 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
17138488 AGATTAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:17139903 original size:37 final size:36
Alignment explanation
Indices: 17139861--17139937 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
17139851 TCTTAATAAG
* **
17139861 TAATAATATTAAATAAATGTATTCTTA-ATTTTATTT
1 TAATAACATTAAATAAAAATATT-TTACATTTTATTT
*
17139897 ATAATAACATTAAGTAAAAATATTTTACATTTTATTT
1 -TAATAACATTAAATAAAAATATTTTACATTTTATTT
17139934 TAAT
1 TAAT
17139938 TTTATTATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 7 0.20
37 28 0.80
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (36 bp):
TAATAACATTAAATAAAAATATTTTACATTTTATTT
Found at i:17140040 original size:71 final size:70
Alignment explanation
Indices: 17139953--17140240 Score: 278
Period size: 71 Copynumber: 4.0 Consensus size: 70
17139943 TATGAGTAGT
*
17139953 AACATTCATTACTTTTTTATCTTAAAAACATAATTTTTATTAAAATTTTAAAATTTCAAAAATAA
1 AACATTCATCA-TTTTTTATCTTAAAAACATAATTTTTATTAAAATTTTAAAATTTCAAAAATAA
17140018 AATTTC
65 AATTTC
* * ** * * *
17140024 AACATTCACTCATTTTTTATGTTCAAAATGTGATTTTTATTAAAATTTCAAAATTTTAAAAATAA
1 AACATTCA-TCATTTTTTATCTTAAAAACATAATTTTTATTAAAATTTTAAAATTTCAAAAATAA
*
17140089 AATTTT
65 AATTTC
* * * * *
17140095 AAGATTCGTTACATTTCTTATCTTAAAAACA-AAGTATTTATTAAAATTTTAGAACTTT-AAAAA
1 AACATTC-AT-CATTTTTTATCTTAAAAACATAA-TTTTTATTAAAATTTTA-AAATTTCAAAAA
*
17140158 TAAAGTTTC
62 TAAAATTTC
* * * * *
17140167 AACATCCATGATATTTTTAAT-TTAAAAA-ATGTGATTTTTGTTAAAATTTTAAATTTTCAAAAA
1 AACATTCATCAT-TTTTT-ATCTTAAAAACA--TAATTTTTATTAAAATTTTAAAATTTCAAAAA
17140230 TAAAATTTC
62 TAAAATTTC
17140239 AA
1 AA
17140241 TATCTATTAC
Statistics
Matches: 174, Mismatches: 32, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
70 3 0.02
71 84 0.48
72 81 0.47
73 6 0.03
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (70 bp):
AACATTCATCATTTTTTATCTTAAAAACATAATTTTTATTAAAATTTTAAAATTTCAAAAATAAA
ATTTC
Found at i:17140135 original size:143 final size:143
Alignment explanation
Indices: 17139956--17140237 Score: 378
Period size: 143 Copynumber: 2.0 Consensus size: 143
17139946 GAGTAGTAAC
* *
17139956 ATTCATTACTTTTTTATCTTAAAAACATAATTTTTATTAAAATTTTA-AAATTTCAAAAATAAAA
1 ATTCATTACTTTCTTATCTTAAAAACATAATATTTATTAAAATTTTAGAAATTT-AAAAATAAAA
* *
17140020 TTTCAACATTCACTCAT-TTTTT-ATGTT-CAAAATGTGATTTTTATTAAAATTTCAAAATTTT-
65 TTTCAACATCCA-TCATATTTTTAAT-TTAAAAAATGTGATTTTTATTAAAATTT-AAAATTTTC
17140081 AAAAATAAAATTTTAAG
127 AAAAATAAAATTTTAAG
* *
17140098 ATTCGTTACATTTCTTATCTTAAAAACA-AAGTATTTATTAAAATTTTAGAACTTTAAAAATAAA
1 ATTCATTAC-TTTCTTATCTTAAAAACATAA-TATTTATTAAAATTTTAGAAATTTAAAAATAAA
* * * *
17140162 GTTTCAACATCCATGATATTTTTAATTTAAAAAATGTGATTTTTGTTAAAATTTTAAATTTTCAA
64 ATTTCAACATCCATCATATTTTTAATTTAAAAAATGTGATTTTTATTAAAATTTAAAATTTTCAA
17140227 AAATAAAATTT
129 AAATAAAATTT
17140238 CAATATCTAT
Statistics
Matches: 123, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
142 13 0.11
143 67 0.54
144 43 0.35
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (143 bp):
ATTCATTACTTTCTTATCTTAAAAACATAATATTTATTAAAATTTTAGAAATTTAAAAATAAAAT
TTCAACATCCATCATATTTTTAATTTAAAAAATGTGATTTTTATTAAAATTTAAAATTTTCAAAA
ATAAAATTTTAAG
Found at i:17140154 original size:72 final size:71
Alignment explanation
Indices: 17139953--17140240 Score: 264
Period size: 72 Copynumber: 4.0 Consensus size: 71
17139943 TATGAGTAGT
17139953 AACATTCATTAC-TTTTTTATCTTAAAAACATAA-TTTTTATTAAAATTTTAAAATTTCAAAAAT
1 AACATTCATTACATTTTTTATCTTAAAAACA-AAGTTTTTATTAAAATTTTAAAATTT-AAAAAT
17140016 AAAATTTC
64 AAAATTTC
* * * *** *
17140024 AACATTCACT-CATTTTTTATGTTCAAAA-TGTGATTTTTATTAAAATTTCAAAATTTTAAAAAT
1 AACATTCATTACATTTTTTATCTTAAAAACAAAG-TTTTTATTAAAATTTTAAAA-TTTAAAAAT
*
17140087 AAAATTTT
64 AAAATTTC
* * * * *
17140095 AAGATTCGTTACATTTCTTATCTTAAAAACAAAGTATTTATTAAAATTTTAGAACTTTAAAAATA
1 AACATTCATTACATTTTTTATCTTAAAAACAAAGTTTTTATTAAAATTTTA-AAATTTAAAAATA
*
17140160 AAGTTTC
65 AAATTTC
* * * * ** * *
17140167 AACATCCATGATATTTTTAAT-TTAAAAA-ATGTGATTTTTGTTAAAATTTTAAATTTTCAAAAA
1 AACATTCATTACATTTTTTATCTTAAAAACA-AAG-TTTTTATTAAAATTTTAAAATTT-AAAAA
17140230 TAAAATTTC
63 TAAAATTTC
17140239 AA
1 AA
17140241 TATCTATTAC
Statistics
Matches: 172, Mismatches: 35, Indels: 19
0.76 0.15 0.08
Matches are distributed among these distances:
70 2 0.01
71 75 0.44
72 92 0.53
73 3 0.02
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (71 bp):
AACATTCATTACATTTTTTATCTTAAAAACAAAGTTTTTATTAAAATTTTAAAATTTAAAAATAA
AATTTC
Found at i:17143470 original size:24 final size:24
Alignment explanation
Indices: 17143410--17143472 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
17143400 AATAAAATAA
17143410 TAAATTTTATTATTATATTAAAAAT
1 TAAATTTT-TTATTATATTAAAAAT
** * * * *
17143435 TAAAAATATTATTATTTTATAATT
1 TAAATTTTTTATTATATTAAAAAT
17143459 TAAATTTTTTATTA
1 TAAATTTTTTATTA
17143473 CATATAAATT
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TAAATTTTTTATTATATTAAAAAT
Found at i:17145341 original size:8 final size:8
Alignment explanation
Indices: 17145328--17145373 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
17145318 TTGTATGTGA
17145328 ATTTAATT
1 ATTTAATT
17145336 ATTTAATT
1 ATTTAATT
* *
17145344 ATATAATA
1 ATTTAATT
17145352 ATTT-ATT
1 ATTTAATT
17145359 ATTTAATT
1 ATTTAATT
17145367 ATTTAAT
1 ATTTAAT
17145374 GATTATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 6 0.18
8 27 0.82
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTAATT
Found at i:17145399 original size:31 final size:31
Alignment explanation
Indices: 17145328--17145400 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
17145318 TTGTATGTGA
* * *
17145328 ATTTAATTATTTAATTATATAATAATTTATT
1 ATTTAATTATTTAATGATATAATAATATAAT
17145359 ATTTAATTATTTAATGAT-TATATAAATATAAT
1 ATTTAATTATTTAATGATATA-AT-AATATAAT
17145391 ATTT-ATTATT
1 ATTTAATTATT
17145401 ATTAAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 2 0.05
31 25 0.68
32 10 0.27
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (31 bp):
ATTTAATTATTTAATGATATAATAATATAAT
Found at i:17145414 original size:23 final size:24
Alignment explanation
Indices: 17145366--17145416 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
17145356 ATTATTTAAT
*
17145366 TATTTAATGATTATATAAATATAA
1 TATTTAATGATTATATAAATAAAA
*
17145390 TATTT-ATTATTAT-TAAATTAAAA
1 TATTTAATGATTATATAAA-TAAAA
17145413 TATT
1 TATT
17145417 AGTAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 15 0.62
24 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TATTTAATGATTATATAAATAAAA
Found at i:17146460 original size:71 final size:70
Alignment explanation
Indices: 17146385--17146749 Score: 275
Period size: 71 Copynumber: 5.2 Consensus size: 70
17146375 ACTATGTTTT
* * * *
17146385 TTTTTATCTTAAAAGTACGATCTTTGTTAAAATTTTAAAATTTTAAAAATATAATTTGAACATCC
1 TTTTTATCTTAAAAATAC-ATTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCAACATCC
*
17146450 ACTATG
65 ATTATG
* * *
17146456 TTTTTATCTTAAAAACATA-ATTTTTGTTAAAATTTCATAATTTCAAGAATATAATTTCAACATC
1 TTTTTATCTT-AAAA-ATACATTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCAACATC
* *
17146520 TATTACG
64 CATTATG
* * * * * ** *
17146527 CTTTTATTTTATAAACATA-ATTTTTGTTAAAATTTCAGAATTTTGAAAATATAGTTTTGACATT
1 TTTTTATCTTA-AAA-ATACATTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCAACATC
**
17146591 CATTGCG
64 CATTATG
*** * * *
17146598 TTTTATATCTTAAAAAT-GGGTTCT-TT---A-TT-AAAATTTTAAAAATATAATTTAAACTTCC
1 TTTT-TATCTTAAAAATACATTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCAACATCC
*
17146656 ATTGATC
65 ATT-ATG
* * * * *
17146663 TTTTTATCATAAAAACACAGTTTTTATAAAAATTTCAAAA-TTTGAAAATATAATTTCAACATCC
1 TTTTTATCTTAAAAATACA-TTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCAACATCC
17146727 ACTATAT-
65 A-T-TATG
17146734 TTTTTATCTTAAAAAT
1 TTTTTATCTTAAAAAT
17146750 GCAATATTTT
Statistics
Matches: 229, Mismatches: 49, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
64 35 0.15
65 6 0.03
66 4 0.02
67 1 0.00
69 2 0.01
70 7 0.03
71 154 0.67
72 17 0.07
73 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (70 bp):
TTTTTATCTTAAAAATACATTTTTGTTAAAATTTCAAAATTTTAAAAATATAATTTCAACATCCA
TTATG
Found at i:17149441 original size:15 final size:16
Alignment explanation
Indices: 17149421--17149455 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17149411 TTAACTAAAC
*
17149421 AATAAAT-ATAAATTA
1 AATAAATAATAAATAA
17149436 AATAAATAATAAATAA
1 AATAAATAATAAATAA
17149452 AATA
1 AATA
17149456 CTTTTGGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAATAATAAATAA
Found at i:17149441 original size:22 final size:21
Alignment explanation
Indices: 17149410--17149454 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
17149400 CTTGACTTTC
*
17149410 ATTAACTAAACAATAAATATAA
1 ATTAAATAAACAATAAATA-AA
*
17149432 ATTAAATAAATAATAAATAAA
1 ATTAAATAAACAATAAATAAA
17149453 AT
1 AT
17149455 ACTTTTGGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
ATTAAATAAACAATAAATAAA
Found at i:17153605 original size:12 final size:13
Alignment explanation
Indices: 17153565--17153594 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
17153555 GCATACTTTA
17153565 CATTCACCACATG
1 CATTCACCACATG
17153578 CATTCACCACATG
1 CATTCACCACATG
17153591 CATT
1 CATT
17153595 ACATCATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.37, G:0.07, T:0.27
Consensus pattern (13 bp):
CATTCACCACATG
Found at i:17156034 original size:20 final size:20
Alignment explanation
Indices: 17155998--17156036 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17155988 AAAGTCAATT
*
17155998 GGTAAAAAAAATTAAAAAAG
1 GGTAAAAAAAATAAAAAAAG
17156018 GGTAAAAAATAA-AAAAAAA
1 GGTAAAAAA-AATAAAAAAA
17156037 TGGGATTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (20 bp):
GGTAAAAAAAATAAAAAAAG
Found at i:17156670 original size:24 final size:24
Alignment explanation
Indices: 17156642--17156806 Score: 116
Period size: 24 Copynumber: 7.2 Consensus size: 24
17156632 TGCGTGATTG
*
17156642 ATTTAATTGCTTGATTATTAATAT
1 ATTTAATTGCATGATTATTAATAT
* *
17156666 ATTTATTTGCATG---ATTAACAT
1 ATTTAATTGCATGATTATTAATAT
**
17156687 ATTT-ATTGTGTGATTTATTAATAT
1 ATTTAATTGCATGA-TTATTAATAT
* *
17156711 A--T--TTGGATGATTACTAATAT
1 ATTTAATTGCATGATTATTAATAT
* * * *
17156731 ATTTATTTGTATCATTA-T-ATTT
1 ATTTAATTGCATGATTATTAATAT
*
17156753 AATTTGATTGCATGATTATTAATAT
1 -ATTTAATTGCATGATTATTAATAT
* *
17156778 ATTTAATTGCATAATTATTAATAC
1 ATTTAATTGCATGATTATTAATAT
17156802 ATTTA
1 ATTTA
17156807 TCTATGTGAT
Statistics
Matches: 109, Mismatches: 21, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
20 15 0.14
21 17 0.16
22 5 0.05
23 14 0.13
24 55 0.50
25 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (24 bp):
ATTTAATTGCATGATTATTAATAT
Found at i:17156942 original size:18 final size:18
Alignment explanation
Indices: 17156919--17156977 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
17156909 TTGTATGGTG
17156919 TGATTTTATATAATTGCA
1 TGATTTTATATAATTGCA
* *
17156937 TGA-TTTAT-TACATGGTA
1 TGATTTTATATA-ATTGCA
* *
17156954 TGATTCTATATTATTGCA
1 TGATTTTATATAATTGCA
*
17156972 CGATTT
1 TGATTT
17156978 ATTGCATGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
16 2 0.07
17 12 0.40
18 15 0.50
19 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (18 bp):
TGATTTTATATAATTGCA
Done.