Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 71 of 130
Found at i:14678960 original size:23 final size:23
Alignment explanation
Indices: 14678892--14678960 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
14678882 ACAAACCCCC
*
14678892 AAAAAT-ATAAAATAAAAGAAAAGA
1 AAAAATAATAAAA-AAAAG-ACAGA
* * * *
14678916 GAAAA-ACTAACAAAGAGACAGA
1 AAAAATAATAAAAAAAAGACAGA
14678938 AAAAATAATAAAAAAAAGACAGA
1 AAAAATAATAAAAAAAAGACAGA
14678961 GTCCCGTGAA
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
22 8 0.24
23 18 0.53
24 8 0.24
ACGTcount: A:0.74, C:0.06, G:0.12, T:0.09
Consensus pattern (23 bp):
AAAAATAATAAAAAAAAGACAGA
Found at i:14680907 original size:27 final size:27
Alignment explanation
Indices: 14680847--14680919 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
14680837 ATCTATAATT
*
14680847 ATTTATTTTAAATTATTAAATATGATATA
1 ATTTATTTT-AATT-TTAAAGATGATATA
*
14680876 TTTTATTTTAATTTTAAAGATTGA-ATA
1 ATTTATTTTAATTTTAAAGA-TGATATA
*
14680903 ATTTA-TTTATTTTTAAA
1 ATTTATTTTAATTTTAAA
14680920 TTTTTTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 11 0.28
27 13 0.33
28 7 0.18
29 8 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (27 bp):
ATTTATTTTAATTTTAAAGATGATATA
Found at i:14682263 original size:2 final size:2
Alignment explanation
Indices: 14682256--14682284 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14682246 TGCTGATTTC
14682256 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
14682285 AAGAGGTTAA
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:14683963 original size:118 final size:118
Alignment explanation
Indices: 14683755--14683994 Score: 480
Period size: 118 Copynumber: 2.0 Consensus size: 118
14683745 CTGTTTGATG
14683755 ATCCTTCAATCTGAGGTCTTGCATTCTATTTTATCAGTTAATTGCATGTGGGATTGCTGTGGCTA
1 ATCCTTCAATCTGAGGTCTTGCATTCTATTTTATCAGTTAATTGCATGTGGGATTGCTGTGGCTA
14683820 CTTACAACGAAGGGGCAACAGATTTTAAGGAGACGCCTGCGCACAAAGAGTCT
66 CTTACAACGAAGGGGCAACAGATTTTAAGGAGACGCCTGCGCACAAAGAGTCT
14683873 ATCCTTCAATCTGAGGTCTTGCATTCTATTTTATCAGTTAATTGCATGTGGGATTGCTGTGGCTA
1 ATCCTTCAATCTGAGGTCTTGCATTCTATTTTATCAGTTAATTGCATGTGGGATTGCTGTGGCTA
14683938 CTTACAACGAAGGGGCAACAGATTTTAAGGAGACGCCTGCGCACAAAGAGTCT
66 CTTACAACGAAGGGGCAACAGATTTTAAGGAGACGCCTGCGCACAAAGAGTCT
14683991 ATCC
1 ATCC
14683995 AATCTCGAGA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 122 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (118 bp):
ATCCTTCAATCTGAGGTCTTGCATTCTATTTTATCAGTTAATTGCATGTGGGATTGCTGTGGCTA
CTTACAACGAAGGGGCAACAGATTTTAAGGAGACGCCTGCGCACAAAGAGTCT
Found at i:14684297 original size:21 final size:21
Alignment explanation
Indices: 14684273--14684312 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14684263 TTTTATTTGT
*
14684273 ATTTTAATTTTTTTTAGTTTA
1 ATTTTAATTTTGTTTAGTTTA
**
14684294 ATTTTTGTTTTGTTTAGTT
1 ATTTTAATTTTGTTTAGTT
14684313 AAAAAAGTCC
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:0.17, C:0.00, G:0.10, T:0.72
Consensus pattern (21 bp):
ATTTTAATTTTGTTTAGTTTA
Found at i:14684308 original size:16 final size:15
Alignment explanation
Indices: 14684261--14684309 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
14684251 TTAAATCCTA
*
14684261 AATTTTATTTGTATTTT
1 AATTTT-TTT-TAGTTT
14684278 AATTTTTTTTAGTTT
1 AATTTTTTTTAGTTT
*
14684293 AATTTTTGTTTTGTTT
1 AATTTTT-TTTAGTTT
14684309 A
1 A
14684310 GTTAAAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.41
16 11 0.38
17 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.71
Consensus pattern (15 bp):
AATTTTTTTTAGTTT
Found at i:14685112 original size:20 final size:20
Alignment explanation
Indices: 14685089--14685127 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14685079 TATATATTTA
*
14685089 ATTACATGTTTATTTGCATG
1 ATTACATATTTATTTGCATG
*
14685109 ATTATATATTTATTTGCAT
1 ATTACATATTTATTTGCAT
14685128 ATTTTGCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTACATATTTATTTGCATG
Found at i:14685360 original size:20 final size:18
Alignment explanation
Indices: 14685335--14685439 Score: 85
Period size: 18 Copynumber: 5.8 Consensus size: 18
14685325 TATTTCATGA
14685335 TTATATATTTGCATAGTATT
1 TTATATATTTGCAT-G-ATT
14685355 TTATAT-TATTGCATGA--
1 TTATATAT-TTGCATGATT
* *
14685371 TAATATATTTGCATGATA
1 TTATATATTTGCATGATT
*
14685389 TTATATATTTACATGATT
1 TTATATATTTGCATGATT
14685407 ATTAT-TA-TTGCATGATAAT
1 -TTATATATTTGCATGAT--T
*
14685426 TGATATATTTGCAT
1 TTATATATTTGCAT
14685440 AACATTTTTG
Statistics
Matches: 70, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
16 13 0.19
17 9 0.13
18 21 0.30
19 9 0.13
20 18 0.26
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.50
Consensus pattern (18 bp):
TTATATATTTGCATGATT
Found at i:14685364 original size:36 final size:34
Alignment explanation
Indices: 14685319--14685423 Score: 115
Period size: 36 Copynumber: 3.0 Consensus size: 34
14685309 TGATTAATAA
*
14685319 TATATTTATTTCATGATTATATATTTGCATAGTATTT
1 TATA-TTATTTCATGATTATATATTTGCAT-G-ATAT
* *
14685356 TATATTATTGCATGATAATATATTTGCATGATAT
1 TATATTATTTCATGATTATATATTTGCATGATAT
14685390 TATA-TATTTACATGATTAT-TATTATTGCATGATA
1 TATATTATTT-CATGATTATATA-T-TTGCATGATA
14685424 ATTGATATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
33 6 0.10
34 16 0.27
35 11 0.18
36 23 0.38
37 4 0.07
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (34 bp):
TATATTATTTCATGATTATATATTTGCATGATAT
Found at i:14685377 original size:18 final size:17
Alignment explanation
Indices: 14685315--14685439 Score: 76
Period size: 18 Copynumber: 6.9 Consensus size: 17
14685305 TGTATGATTA
*
14685315 ATAATATATTTATTTCATG
1 ATAATATA--TATTGCATG
*
14685334 ATTATATAT-TTGCATAG
1 ATAATATATATTGCAT-G
**
14685351 TATTTTATATTATTGCATG
1 -ATAATATA-TATTGCATG
14685370 ATAATATAT-TTGCATG
1 ATAATATATATTGCATG
* *
14685386 ATATTATATATTTACATG
1 ATAATATATA-TTGCATG
*
14685404 ATTAT-TATTATTGCATG
1 ATAATATA-TATTGCATG
14685421 ATAATTGATATATTTGCAT
1 ATAA-T-ATATA-TTGCAT
14685440 AACATTTTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 21
0.72 0.09 0.18
Matches are distributed among these distances:
16 20 0.24
17 14 0.17
18 25 0.30
19 11 0.13
20 14 0.17
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (17 bp):
ATAATATATATTGCATG
Found at i:14686521 original size:21 final size:22
Alignment explanation
Indices: 14686463--14686524 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 22
14686453 ATTCTTGTAA
*
14686463 ATTCTTTGTATATATTTTTGCAT
1 ATTCCTTGTATATA-TTTTGCAT
14686486 ATTAACCTT-TA-ATATTTTGC-T
1 ATT--CCTTGTATATATTTTGCAT
14686507 ATTCCTTGTATATATTTT
1 ATTCCTTGTATATATTTT
14686525 ATTATGTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 11 0.32
22 6 0.18
23 6 0.18
24 2 0.06
25 3 0.09
ACGTcount: A:0.24, C:0.11, G:0.06, T:0.58
Consensus pattern (22 bp):
ATTCCTTGTATATATTTTGCAT
Found at i:14692919 original size:35 final size:35
Alignment explanation
Indices: 14692864--14692930 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
14692854 TCAAAGCCTC
* *
14692864 AGTTGTGGGGGAGCATTTTATTTTTCAAAGTTTTTT
1 AGTTGTGAGGGAGCATTTTA-TTTTAAAAGTTTTTT
14692900 AGTTGTGAGGGA-CATTTTATTTTAAAAGTTT
1 AGTTGTGAGGGAGCATTTTATTTTAAAAGTTT
14692931 CACAGCCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 11 0.38
35 7 0.24
36 11 0.38
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (35 bp):
AGTTGTGAGGGAGCATTTTATTTTAAAAGTTTTTT
Found at i:14692976 original size:38 final size:37
Alignment explanation
Indices: 14692919--14693002 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 37
14692909 GGACATTTTA
* * *
14692919 TTTTAAAAGTTTCACAGCCTCAATTGTGGAGGAGTAT
1 TTTTAAAAATTTCAAAGCCTCAATTATGGAGGAGTAT
*
14692956 TTTTCAAAAATTTCAAAGCCTCAATTATGGGGGAGTAT
1 TTTT-AAAAATTTCAAAGCCTCAATTATGGAGGAGTAT
*
14692994 TTTAAAAAA
1 TTTTAAAAA
14693003 AAGTTTCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 9 0.22
38 32 0.78
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (37 bp):
TTTTAAAAATTTCAAAGCCTCAATTATGGAGGAGTAT
Found at i:14693003 original size:38 final size:39
Alignment explanation
Indices: 14692923--14693012 Score: 110
Period size: 38 Copynumber: 2.3 Consensus size: 39
14692913 ATTTTATTTT
* * * **
14692923 AAAAGTTTCACAGCCTCAATTGTGGAGGAGTATTTT-TC
1 AAAAATTTCAAAGCCTCAATTATGGAGGAGTATTTTAAA
*
14692961 AAAAATTTCAAAGCCTCAATTATGGGGGAGTATTTTAAA
1 AAAAATTTCAAAGCCTCAATTATGGAGGAGTATTTTAAA
14693000 AAAAAGTTTCAAA
1 AAAAA-TTTCAAA
14693013 ACTCTAAGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
38 32 0.73
39 5 0.11
40 7 0.16
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (39 bp):
AAAAATTTCAAAGCCTCAATTATGGAGGAGTATTTTAAA
Found at i:14693287 original size:12 final size:13
Alignment explanation
Indices: 14693250--14693286 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
14693240 TTATTTGTAT
14693250 TTTAACTTTTTTAG
1 TTTAA-TTTTTTAG
14693264 TTTAATTTTTTAG
1 TTTAATTTTTTAG
14693277 TTTAATTTTT
1 TTTAATTTTT
14693287 ATTTTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (13 bp):
TTTAATTTTTTAG
Found at i:14693971 original size:17 final size:17
Alignment explanation
Indices: 14693943--14693977 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14693933 CTTATTTTTA
14693943 TATTTATTGCATGATATT
1 TATTTATTGCATGA-ATT
14693961 TATTT-TTGCATGAATT
1 TATTTATTGCATGAATT
14693977 T
1 T
14693978 GCATGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (17 bp):
TATTTATTGCATGAATT
Found at i:14694074 original size:24 final size:24
Alignment explanation
Indices: 14694017--14694156 Score: 123
Period size: 24 Copynumber: 6.0 Consensus size: 24
14694007 TTTCTTTGCC
14694017 TAATATATTTATTTG--TG-TTAT
1 TAATATATTTATTTGCATGATTAT
* *
14694038 TTAT-TAATATATTTGCATGATTAT
1 TAATAT-ATTTATTTGCATGATTAT
*
14694062 TAATATATTTATTTGTATGATTA-
1 TAATATATTTATTTGCATGATTAT
*
14694085 T-ATTTAATTTGA-TTGCATGATTAT
1 TAATAT-ATTT-ATTTGCATGATTAT
* * *
14694109 TAATAAATTTAATTGCTTGATTAT
1 TAATATATTTATTTGCATGATTAT
* *
14694133 TAATATATATATTTACATGATTAT
1 TAATATATTTATTTGCATGATTAT
14694157 ATATTTAATT
Statistics
Matches: 94, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
20 1 0.01
21 11 0.12
22 3 0.03
23 18 0.19
24 58 0.62
25 3 0.03
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (24 bp):
TAATATATTTATTTGCATGATTAT
Found at i:14694104 original size:23 final size:23
Alignment explanation
Indices: 14694050--14694176 Score: 98
Period size: 24 Copynumber: 5.5 Consensus size: 23
14694040 ATTAATATAT
* *
14694050 TTGCATGATTATTAATATATTTAT
1 TTGCATGATTA-TAATAAATTTAA
* * * *
14694074 TTGTATGATTATATTTAATTTGA
1 TTGCATGATTATAATAAATTTAA
14694097 TTGCATGATTATTAATAAATTTAA
1 TTGCATGATTA-TAATAAATTTAA
* * * *
14694121 TTGCTTGATTATTAATATATATAT
1 TTGCATGATTA-TAATAAATTTAA
*
14694145 TTACATGATTAT-AT--ATTTAA
1 TTGCATGATTATAATAAATTTAA
*
14694165 TTGCATGTTTAT
1 TTGCATGATTAT
14694177 TTGCATGATT
Statistics
Matches: 82, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
20 14 0.17
22 2 0.02
23 18 0.22
24 48 0.59
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (23 bp):
TTGCATGATTATAATAAATTTAA
Found at i:14694107 original size:47 final size:45
Alignment explanation
Indices: 14694017--14694156 Score: 149
Period size: 47 Copynumber: 3.0 Consensus size: 45
14694007 TTTCTTTGCC
*
14694017 TAATATATTTATTTGTGTTATT-TATTAATATATTTGCATGATTAT
1 TAATATATTTATTTGT-TGATTATATTAATATATTTGCATGATTAT
*
14694062 TAATATATTTATTTGTATGATTATATTTAATTTGA-TTGCATGATTAT
1 TAATATATTTATTTGT-TGATTATA-TTAATAT-ATTTGCATGATTAT
* * * *
14694109 TAATAAATTTAATTGCTTGATTATTAATATATATATTTACATGATTAT
1 TAATATATTTATTTG-TTGATTA-TATTA-ATATATTTGCATGATTAT
14694157 ATATTTAATT
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
45 20 0.25
46 2 0.03
47 40 0.50
48 18 0.22
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (45 bp):
TAATATATTTATTTGTTGATTATATTAATATATTTGCATGATTAT
Found at i:14694159 original size:16 final size:16
Alignment explanation
Indices: 14694138--14694195 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
14694128 ATTATTAATA
14694138 TATATATTTACATGAT
1 TATATATTTACATGAT
14694154 TATATATTTA-ATTGCAT
1 TATATATTTACA-TG-AT
*
14694171 GT-T-TATTTGCATGAT
1 -TATATATTTACATGAT
14694186 TATATATTTA
1 TATATATTTA
14694196 ATTGCATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 1 0.03
15 4 0.12
16 24 0.71
17 4 0.12
18 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (16 bp):
TATATATTTACATGAT
Found at i:14694171 original size:20 final size:20
Alignment explanation
Indices: 14694064--14694202 Score: 69
Period size: 24 Copynumber: 6.8 Consensus size: 20
14694054 ATGATTATTA
* *
14694064 ATATATTTATTTGTATGATT
1 ATATATTTAATTGCATGATT
*
14694084 ATATTTAATTTGATTGCATGATT
1 ATA--T-ATTTAATTGCATGATT
*
14694107 ATTAATAAATTTAATTGCTTGATT
1 A-T-AT--ATTTAATTGCATGATT
* *
14694131 ATTAATATATATATTTACATGATT
1 A-T-ATAT-T-TAATTGCATGATT
14694155 ATATATTTAATTGCATG--T
1 ATATATTTAATTGCATGATT
14694173 -T-TA--T--TTGCATGATT
1 ATATATTTAATTGCATGATT
14694187 ATATATTTAATTGCAT
1 ATATATTTAATTGCAT
14694203 ATTTTGCATA
Statistics
Matches: 93, Mismatches: 10, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
12 7 0.08
14 2 0.02
15 1 0.01
16 4 0.04
17 1 0.01
18 2 0.02
20 17 0.18
21 1 0.01
22 7 0.08
23 17 0.18
24 33 0.35
25 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (20 bp):
ATATATTTAATTGCATGATT
Found at i:14694184 original size:32 final size:32
Alignment explanation
Indices: 14694142--14694202 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
14694132 TTAATATATA
14694142 TATTTACATGATTATATATTTAATTGCATGTT
1 TATTTACATGATTATATATTTAATTGCATGTT
*
14694174 TATTTGCATGATTATATATTTAATTGCAT
1 TATTTACATGATTATATATTTAATTGCAT
14694203 ATTTTGCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (32 bp):
TATTTACATGATTATATATTTAATTGCATGTT
Found at i:14694416 original size:19 final size:19
Alignment explanation
Indices: 14694379--14694417 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14694369 GTTATTATCA
* * *
14694379 TTATTGCATGATTTTATAT
1 TTATTACATGATATGATAT
14694398 TTATTACATGATATGATAT
1 TTATTACATGATATGATAT
14694417 T
1 T
14694418 GTTTGATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (19 bp):
TTATTACATGATATGATAT
Found at i:14694562 original size:20 final size:20
Alignment explanation
Indices: 14694539--14694589 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
14694529 GATTTCATGA
* *
14694539 TTATATATTTGCATGGTATT
1 TTATATATTTGCATGATAAT
14694559 TTATAT-TATTGCATGATAAT
1 TTATATAT-TTGCATGATAAT
*
14694579 TGATATATTTG
1 TTATATATTTG
14694590 AATCACATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.53
Consensus pattern (20 bp):
TTATATATTTGCATGATAAT
Found at i:14698523 original size:15 final size:16
Alignment explanation
Indices: 14698505--14698537 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14698495 GCTACATAAC
14698505 AACCTT-TCCAAGAAA
1 AACCTTATCCAAGAAA
*
14698520 AACCTTATCCCAGAAA
1 AACCTTATCCAAGAAA
14698536 AA
1 AA
14698538 GCTCATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (16 bp):
AACCTTATCCAAGAAA
Found at i:14699473 original size:15 final size:15
Alignment explanation
Indices: 14699453--14699481 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14699443 AGACTGACAC
14699453 AACAACAATAACAAT
1 AACAACAATAACAAT
14699468 AACAACAATAACAA
1 AACAACAATAACAA
14699482 AAACCTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.21, G:0.00, T:0.10
Consensus pattern (15 bp):
AACAACAATAACAAT
Found at i:14710705 original size:37 final size:37
Alignment explanation
Indices: 14710663--14710736 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
14710653 GTAAGTTTAT
14710663 CCTTTTTCCACACATTAAACAATATATATGAGAAGGA
1 CCTTTTTCCACACATTAAACAATATATATGAGAAGGA
* **
14710700 CCTTTTTTCATGCATTAAACAATATATATGAGAAGGA
1 CCTTTTTCCACACATTAAACAATATATATGAGAAGGA
14710737 ATTCCATTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.32
Consensus pattern (37 bp):
CCTTTTTCCACACATTAAACAATATATATGAGAAGGA
Found at i:14711522 original size:10 final size:11
Alignment explanation
Indices: 14711496--14711521 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14711486 TTTCATTTAC
14711496 TTTTTCTTTTT
1 TTTTTCTTTTT
14711507 TTTTTCTTTTT
1 TTTTTCTTTTT
14711518 TTTT
1 TTTT
14711522 CCCTAAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:14713272 original size:17 final size:16
Alignment explanation
Indices: 14713219--14713272 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
14713209 TTTTTAAGAC
*
14713219 TTTGAATTTTAAGAGGT
1 TTTGAATTTTAGGA-GT
*
14713236 TTTGAATTTTAGGGGAT
1 TTTGAATTTTAGGAG-T
14713253 TTTGAATTTTTAGGAGT
1 TTTGAA-TTTTAGGAGT
14713270 TTT
1 TTT
14713273 TAAAAAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 1 0.03
17 23 0.72
18 8 0.25
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (16 bp):
TTTGAATTTTAGGAGT
Found at i:14714754 original size:28 final size:26
Alignment explanation
Indices: 14714706--14714759 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
14714696 GTCTTATTTC
14714706 TTTTTTTTTATTTTTTAATTAATATA
1 TTTTTTTTTATTTTTTAATTAATATA
14714732 TTTTTTTATTATTATTATT-ATTAATATA
1 TTTTTTT-TTATT-TT-TTAATTAATATA
14714760 CTTAAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.28
27 5 0.20
28 11 0.44
29 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTTTTTATTTTTTAATTAATATA
Found at i:14723109 original size:17 final size:16
Alignment explanation
Indices: 14723056--14723109 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
14723046 TTTTTAAGAC
14723056 TTTGAATTTTAAGAGGT
1 TTTGAATTTTAAG-GGT
*
14723073 TTTGAATTTTAGGGGAT
1 TTTGAATTTTAAGGG-T
*
14723090 TTTGAATTTTTATGGGT
1 TTTGAA-TTTTAAGGGT
14723107 TTT
1 TTT
14723110 TAAAAAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 2 0.06
17 23 0.70
18 8 0.24
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (16 bp):
TTTGAATTTTAAGGGT
Found at i:14723512 original size:22 final size:23
Alignment explanation
Indices: 14723484--14723527 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14723474 ACAATTAGAT
* *
14723484 ATTTATCCTA-ATAAATTTAAAC
1 ATTTATCATACATAAATATAAAC
14723506 ATTTATCATACATAAATATAAA
1 ATTTATCATACATAAATATAAA
14723528 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (23 bp):
ATTTATCATACATAAATATAAAC
Found at i:14723572 original size:9 final size:9
Alignment explanation
Indices: 14723525--14723584 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
14723515 ACATAAATAT
14723525 AAAAAT-AA
1 AAAAATAAA
14723533 AAAAAT-AA
1 AAAAATAAA
* **
14723541 TAATGTAAA
1 AAAAATAAA
*
14723550 AAAAATTTAGA
1 AAAAA--TAAA
14723561 AAAAATAAA
1 AAAAATAAA
14723570 AAAAATAAA
1 AAAAATAAA
14723579 AAAAAT
1 AAAAAT
14723585 TTTTTTACCT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
8 11 0.27
9 22 0.54
11 8 0.20
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (9 bp):
AAAAATAAA
Found at i:14724602 original size:3 final size:3
Alignment explanation
Indices: 14724590--14724629 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
14724580 AATTAATATA
*
14724590 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14724630 ATATACTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:14725466 original size:10 final size:8
Alignment explanation
Indices: 14725443--14725475 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
14725433 ATTTTTTAAT
14725443 TATTTATA
1 TATTTATA
14725451 TATTTATA
1 TATTTATA
14725459 TAATTT-TA
1 T-ATTTATA
14725467 TATTTATA
1 TATTTATA
14725475 T
1 T
14725476 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 4 0.17
8 15 0.65
9 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTTATA
Found at i:14725468 original size:16 final size:17
Alignment explanation
Indices: 14725444--14725475 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14725434 TTTTTTAATT
14725444 ATTTATATATTTATATA
1 ATTTATATATTTATATA
14725461 ATTT-TATATTTATAT
1 ATTTATATATTTATAT
14725476 TAAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTATATATTTATATA
Found at i:14726248 original size:8 final size:8
Alignment explanation
Indices: 14726235--14726262 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
14726225 TGAGCATCTC
14726235 AAAAATTT
1 AAAAATTT
14726243 AAAAATTT
1 AAAAATTT
14726251 AAAAATTT
1 AAAAATTT
14726259 AAAA
1 AAAA
14726263 GGAAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAAATTT
Found at i:14727993 original size:187 final size:187
Alignment explanation
Indices: 14727671--14728231 Score: 1113
Period size: 187 Copynumber: 3.0 Consensus size: 187
14727661 TGTTCACGTG
*
14727671 TGTATTTATGAATGTGTTTTATGTATGTGTGTTTGAGTTGTTTTTGAATCTAGGGAAGGCCACAA
1 TGTATTCATGAATGTGTTTTATGTATGTGTGTTTGAGTTGTTTTTGAATCTAGGGAAGGCCACAA
14727736 TGTTATAGCTTTATCACAAGATTAAATGAAGTTTCAAATGATTTTTGTGCAATAATATCGCTTAC
66 TGTTATAGCTTTATCACAAGATTAAATGAAGTTTCAAATGATTTTTGTGCAATAATATCGCTTAC
14727801 TAGAGTAAATGAAAACATGTTCACCATTCGATTCCTTTCTTATAAAGTCGTGAATAA
131 TAGAGTAAATGAAAACATGTTCACCATTCGATTCCTTTCTTATAAAGTCGTGAATAA
14727858 TGTATTCATGAATGTGTTTTATGTATGTGTGTTTGAGTTGTTTTTGAATCTAGGGAAGGCCACAA
1 TGTATTCATGAATGTGTTTTATGTATGTGTGTTTGAGTTGTTTTTGAATCTAGGGAAGGCCACAA
14727923 TGTTATAGCTTTATCACAAGATTAAATGAAGTTTCAAATGATTTTTGTGCAATAATATCGCTTAC
66 TGTTATAGCTTTATCACAAGATTAAATGAAGTTTCAAATGATTTTTGTGCAATAATATCGCTTAC
14727988 TAGAGTAAATGAAAACATGTTCACCATTCGATTCCTTTCTTATAAAGTCGTGAATAA
131 TAGAGTAAATGAAAACATGTTCACCATTCGATTCCTTTCTTATAAAGTCGTGAATAA
14728045 TGTATTCATGAATGTGTTTTATGTATGTGTGTTTGAGTTGTTTTTGAATCTAGGGAAGGCCACAA
1 TGTATTCATGAATGTGTTTTATGTATGTGTGTTTGAGTTGTTTTTGAATCTAGGGAAGGCCACAA
14728110 TGTTATAGCTTTATCACAAGATTAAATGAAGTTTCAAATGATTTTTGTGCAATAATATCGCTTAC
66 TGTTATAGCTTTATCACAAGATTAAATGAAGTTTCAAATGATTTTTGTGCAATAATATCGCTTAC
14728175 TAGAGTAAATGAAAACATGTTCACCATTCGATTCCTTTCTTATAAAGTCGTGAATAA
131 TAGAGTAAATGAAAACATGTTCACCATTCGATTCCTTTCTTATAAAGTCGTGAATAA
14728232 CTTCATTTTC
Statistics
Matches: 373, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
187 373 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (187 bp):
TGTATTCATGAATGTGTTTTATGTATGTGTGTTTGAGTTGTTTTTGAATCTAGGGAAGGCCACAA
TGTTATAGCTTTATCACAAGATTAAATGAAGTTTCAAATGATTTTTGTGCAATAATATCGCTTAC
TAGAGTAAATGAAAACATGTTCACCATTCGATTCCTTTCTTATAAAGTCGTGAATAA
Found at i:14735591 original size:21 final size:22
Alignment explanation
Indices: 14735566--14735642 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 22
14735556 TTAATATCAA
14735566 ATATTAAAATAGTAATATTTAT
1 ATATTAAAATAGTAATATTTAT
**
14735588 -TATTCAAATATTAAAAATATTTAT
1 ATATT-AAA-A-TAGTAATATTTAT
*
14735612 AGTATTAAAGTAGTAATATTT-T
1 A-TATTAAAATAGTAATATTTAT
14735634 ATATTAAAA
1 ATATTAAAA
14735643 ATATTTATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
21 11 0.25
22 5 0.11
23 10 0.23
24 11 0.25
25 3 0.07
26 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (22 bp):
ATATTAAAATAGTAATATTTAT
Found at i:14744047 original size:24 final size:24
Alignment explanation
Indices: 14744020--14744068 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
14744010 ATAAGTTATA
*
14744020 AGATAACATGATATACAAGCATGT
1 AGATAACATGAGATACAAGCATGT
14744044 AGATAACATGAGATACAAGCATGT
1 AGATAACATGAGATACAAGCATGT
14744068 A
1 A
14744069 ATTGCACACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (24 bp):
AGATAACATGAGATACAAGCATGT
Found at i:14744162 original size:29 final size:27
Alignment explanation
Indices: 14744138--14744191 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
14744128 GAAATTGTAA
14744138 ATTTAA-TTATCAATCATTGTGAATTT
1 ATTTAATTTATCAATCATTGTGAATTT
*
14744164 ATTTAATTTTTATCAATCATTTTGAATT
1 ATTTAA--TTTATCAATCATTGTGAATT
14744192 CAAAATCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
29 18 0.75
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (27 bp):
ATTTAATTTATCAATCATTGTGAATTT
Found at i:14744206 original size:2 final size:2
Alignment explanation
Indices: 14744199--14744227 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14744189 ATTCAAAATC
14744199 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
14744228 ATCTTTACCT
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:14747577 original size:54 final size:55
Alignment explanation
Indices: 14747514--14747623 Score: 213
Period size: 54 Copynumber: 2.0 Consensus size: 55
14747504 AAGCCCTGAA
14747514 GGGGAATGATCCTAATGACGATGTGCTAGA-GGAGGAAAAGGTGATATGAGAAAG
1 GGGGAATGATCCTAATGACGATGTGCTAGAGGGAGGAAAAGGTGATATGAGAAAG
14747568 GGGGAATGATCCTAATGACGATGTGCTAGAGGGAGGAAAAGGTGATATGAGAAAG
1 GGGGAATGATCCTAATGACGATGTGCTAGAGGGAGGAAAAGGTGATATGAGAAAG
14747623 G
1 G
14747624 TTGAATGAAG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 30 0.55
55 25 0.45
ACGTcount: A:0.36, C:0.07, G:0.38, T:0.18
Consensus pattern (55 bp):
GGGGAATGATCCTAATGACGATGTGCTAGAGGGAGGAAAAGGTGATATGAGAAAG
Found at i:14752513 original size:20 final size:20
Alignment explanation
Indices: 14752488--14752539 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
14752478 TTTATATATA
14752488 TATATATATATATATGTGTG
1 TATATATATATATATGTGTG
* * *
14752508 TATATATATGTGTGTGTGTG
1 TATATATATATATATGTGTG
14752528 TATATATATATA
1 TATATATATATA
14752540 AATAGTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (20 bp):
TATATATATATATATGTGTG
Found at i:14752517 original size:14 final size:14
Alignment explanation
Indices: 14752480--14752522 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
14752470 GTGTAAAATT
* * *
14752480 TATATATATATATA
1 TATATATATGTGTG
14752494 TATATATATGTGTG
1 TATATATATGTGTG
14752508 TATATATATGTGTG
1 TATATATATGTGTG
14752522 T
1 T
14752523 GTGTGTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (14 bp):
TATATATATGTGTG
Found at i:14752521 original size:16 final size:16
Alignment explanation
Indices: 14752492--14752534 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
14752482 TATATATATA
14752492 TATATATATATGTGTG
1 TATATATATATGTGTG
*
14752508 TATATATATGTGTGTG
1 TATATATATATGTGTG
* *
14752524 TGTGTATATAT
1 TATATATATAT
14752535 ATATAAATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (16 bp):
TATATATATATGTGTG
Found at i:14754809 original size:15 final size:18
Alignment explanation
Indices: 14754790--14754828 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 18
14754780 TATTCTTTTA
14754790 ATTTTTC-CTCTC-TCCC
1 ATTTTTCTCTCTCTTCCC
14754806 --TTTTCTCTCTCTTCCC
1 ATTTTTCTCTCTCTTCCC
14754822 ATTTTTC
1 ATTTTTC
14754829 AGTCAGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
14 5 0.26
15 5 0.26
16 4 0.21
18 5 0.26
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTTCTCTCTCTTCCC
Found at i:14767983 original size:2 final size:2
Alignment explanation
Indices: 14767972--14768002 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14767962 AATTGTTGTG
14767972 TA TA -A 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
14768003 AAATGAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14768228 original size:19 final size:19
Alignment explanation
Indices: 14768186--14768228 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
14768176 TCTGAAAATT
*
14768186 AAAAAATCTAAAATTTTTT
1 AAAAAATCTAAAATTTTTA
* * *
14768205 GAAAAATTTGAAATTTTTA
1 AAAAAATCTAAAATTTTTA
14768224 AAAAA
1 AAAAA
14768229 TTTATGATAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (19 bp):
AAAAAATCTAAAATTTTTA
Found at i:14768401 original size:29 final size:28
Alignment explanation
Indices: 14768330--14768401 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
14768320 AATAGTAAAG
14768330 AAAAAAA-TTAAAATTTTAATAAAATAC
1 AAAAAAATTTAAAATTTTAATAAAATAC
* * *
14768357 AAAATAATTCTGAAATTTTATTAAAATAC
1 AAAAAAATT-TAAAATTTTAATAAAATAC
14768386 ATAAAAAATTTAAAAT
1 A-AAAAAATTTAAAAT
14768402 ATAAGATTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.16
28 1 0.03
29 23 0.62
30 7 0.19
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (28 bp):
AAAAAAATTTAAAATTTTAATAAAATAC
Found at i:14768534 original size:18 final size:16
Alignment explanation
Indices: 14768504--14768547 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
14768494 TGAATTTATA
*
14768504 GAAACTTTTATTTTTAT
1 GAAAATTTTATTTTT-T
*
14768521 TAAAATTTTCATTTTTT
1 GAAAATTTT-ATTTTTT
14768538 GAAAATTTTA
1 GAAAATTTTA
14768548 GAATTCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 16 0.70
18 6 0.26
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (16 bp):
GAAAATTTTATTTTTT
Found at i:14768582 original size:18 final size:18
Alignment explanation
Indices: 14768561--14768610 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
14768551 TTCTTTTGGG
14768561 TTTTTTTAATTTTAAG-AA
1 TTTTTTTAATTTT-AGTAA
*
14768579 TTTTTTTAACTTTTTGTAA
1 TTTTTTTAA-TTTTAGTAA
*
14768598 TTTTTTAAATTTT
1 TTTTTTTAATTTT
14768611 TAAAAATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (18 bp):
TTTTTTTAATTTTAGTAA
Found at i:14768592 original size:19 final size:19
Alignment explanation
Indices: 14768561--14768631 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 19
14768551 TTCTTTTGGG
14768561 TTTTTTTAA-TTTTAAGAA
1 TTTTTTTAACTTTTAAGAA
*
14768579 TTTTTTTAACTTTT-TGTAA
1 TTTTTTTAACTTTTAAG-AA
* *
14768598 TTTTTTAAATTTTTAA-AA
1 TTTTTTTAACTTTTAAGAA
* *
14768616 ATATTTTAACCTTTTA
1 TTTTTTTAA-CTTTTA
14768632 TTTTAATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
18 18 0.44
19 23 0.56
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTTTAACTTTTAAGAA
Found at i:14768666 original size:20 final size:20
Alignment explanation
Indices: 14768630--14768670 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14768620 TTTAACCTTT
14768630 TATTTTAATAATTTTTACAAA
1 TATTTTAATAATTTTTA-AAA
*
14768651 TATTTT-ATACTTTTTAAAA
1 TATTTTAATAATTTTTAAAA
14768670 T
1 T
14768671 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTTAATAATTTTTAAAA
Found at i:14771761 original size:13 final size:13
Alignment explanation
Indices: 14771724--14771766 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
14771714 ACTTTTAAAA
*
14771724 TTTTTAATCACAC
1 TTTTTAATCATAC
*
14771737 TTTTTTATCATAC
1 TTTTTAATCATAC
*
14771750 TTTTTAAACATA-
1 TTTTTAATCATAC
14771762 TTTTT
1 TTTTT
14771767 TTCAACTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 5 0.19
13 21 0.81
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTTTAATCATAC
Found at i:14774651 original size:3 final size:3
Alignment explanation
Indices: 14774638--14774682 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
14774628 TCAATACTTA
14774638 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14774683 TTATTATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14774687 original size:3 final size:3
Alignment explanation
Indices: 14774681--14774715 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14774671 ATAATAATAA
14774681 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14774716 AAAGAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14775670 original size:10 final size:10
Alignment explanation
Indices: 14775655--14775688 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
14775645 ATTATTAATA
14775655 TTAATATATT
1 TTAATATATT
14775665 TTAATAT-TT
1 TTAATATATT
14775674 TTAAATATATT
1 TT-AATATATT
14775685 TTAA
1 TTAA
14775689 AATTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.18
10 14 0.64
11 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTAATATATT
Found at i:14775896 original size:21 final size:21
Alignment explanation
Indices: 14775847--14775897 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
14775837 TATATAATCA
*
14775847 ATTAAATAATT-AATTATTAT
1 ATTAAATAATTAAATTATAAT
14775867 ATT--ATAATTAAATTATAAT
1 ATTAAATAATTAAATTATAAT
14775886 ATTAAATAATTA
1 ATTAAATAATTA
14775898 GTTAATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.22
19 11 0.41
20 3 0.11
21 7 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTAAATAATTAAATTATAAT
Found at i:14776476 original size:18 final size:18
Alignment explanation
Indices: 14776453--14776501 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
14776443 GTTGCTTAGA
* *
14776453 ATATTTTTATAATATTTT
1 ATATTTTTAAAAGATTTT
14776471 ATATTTTTAAAAAGATTTT
1 ATATTTTT-AAAAGATTTT
*
14776490 ATAATTTTAAAA
1 ATATTTTTAAAA
14776502 AAAATTTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 12 0.44
19 15 0.56
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATATTTTTAAAAGATTTT
Found at i:14776517 original size:20 final size:19
Alignment explanation
Indices: 14776453--14776517 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
14776443 GTTGCTTAGA
* *
14776453 ATATTTTT-ATAATATTTT
1 ATATTTTTAAAAAAATTTT
*
14776471 ATATTTTTAAAAAGATTTT
1 ATATTTTTAAAAAAATTTT
*
14776490 ATAATTTTAAAAAAAATTTT
1 AT-ATTTTTAAAAAAATTTT
*
14776510 ACATTTTT
1 ATATTTTT
14776518 TTTATTCTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
18 8 0.21
19 15 0.38
20 16 0.41
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
ATATTTTTAAAAAAATTTT
Found at i:14776911 original size:23 final size:22
Alignment explanation
Indices: 14776883--14776971 Score: 92
Period size: 24 Copynumber: 3.9 Consensus size: 22
14776873 TTTAGAAAAT
14776883 TTTTAAAAATTCAAAATATTGAA
1 TTTTAAAAATT-AAAATATTGAA
14776906 TTTTAAAAAATTAAAATA-TGAA
1 TTTT-AAAAATTAAAATATTGAA
* *
14776928 TTTAAAAAATTCAAAAAATAT-AA
1 TTTTAAAAATT-AAAATAT-TGAA
14776951 CTTGTTAAAAATTAAAATATT
1 -TT-TTAAAAATTAAAATATT
14776972 TAAAAATATT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
21 7 0.12
22 12 0.21
23 13 0.23
24 16 0.29
25 8 0.14
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (22 bp):
TTTTAAAAATTAAAATATTGAA
Found at i:14777006 original size:21 final size:23
Alignment explanation
Indices: 14776957--14777007 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
14776947 ATAACTTGTT
14776957 AAAAATTAAAATATTTAAAAATA
1 AAAAATTAAAATATTTAAAAATA
** *
14776980 TTAAATTAATA-ATTT-AAAATA
1 AAAAATTAAAATATTTAAAAATA
14777001 AAAAATT
1 AAAAATT
14777008 TCTAAAATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 11 0.48
22 4 0.17
23 8 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATTAAAATATTTAAAAATA
Found at i:14778446 original size:3 final size:3
Alignment explanation
Indices: 14778440--14778477 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
14778430 AATAATAATA
*
14778440 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
14778478 AATAGTGATA
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:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:14778985 original size:13 final size:13
Alignment explanation
Indices: 14778967--14778991 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14778957 TAATCTTAAT
14778967 AATAAATAAATTG
1 AATAAATAAATTG
14778980 AATAAATAAATT
1 AATAAATAAATT
14778992 TTTTAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATAAATAAATTG
Found at i:14780618 original size:15 final size:16
Alignment explanation
Indices: 14780588--14780649 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
14780578 ACATTAAAAA
*
14780588 TTATAAAAATTTAATT
1 TTATAAAAATTAAATT
14780604 TTATAAAAA-TAAA-T
1 TTATAAAAATTAAATT
*
14780618 TT-T-AATATTAAA-T
1 TTATAAAAATTAAATT
*
14780631 ATATAAAAATTAAAATT
1 TTATAAAAATT-AAATT
14780648 TT
1 TT
14780650 TTTATAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 4 0.11
15 8 0.22
16 12 0.33
17 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATAAAAATTAAATT
Found at i:14780643 original size:21 final size:21
Alignment explanation
Indices: 14780585--14780643 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
14780575 TTGACATTAA
*
14780585 AAAT-TATAAAAATTTAATTTT
1 AAATATATAAAAA-TTAATATT
* **
14780606 ATAA-AAATAAATTTTAATATT
1 A-AATATATAAAAATTAATATT
14780627 AAATATATAAAAATTAA
1 AAATATATAAAAATTAA
14780644 AATTTTTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
20 2 0.07
21 19 0.68
22 7 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATATATAAAAATTAATATT
Found at i:14780874 original size:19 final size:22
Alignment explanation
Indices: 14780838--14780887 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 22
14780828 AAATTTTTTT
14780838 TATTAAAATATAAGTATTTTAA
1 TATTAAAATATAAGTATTTTAA
14780860 TATTAAAA-A-AA-TATTTTAA
1 TATTAAAATATAAGTATTTTAA
*
14780879 AATTAAAAT
1 TATTAAAAT
14780888 TAAATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 15 0.58
20 2 0.08
21 1 0.04
22 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TATTAAAATATAAGTATTTTAA
Found at i:14781566 original size:100 final size:105
Alignment explanation
Indices: 14781374--14781585 Score: 299
Period size: 111 Copynumber: 2.0 Consensus size: 105
14781364 TTTTCACCAC
14781374 AGCATAACCACTATTTAATCACTAATTTTAAAAACATCAATATCATTTTTCAATTTCAACGGTGC
1 AGCATAACCACTATTTAATCACTAATTTTAAAAACATCAATATCA--TTTCAATTTCAA--GT--
* *
14781439 ATTGAATGCGCCCTTGTTTTACATTCTTTCATCGAATAAACGATAA
60 ATTCAACGCGCCCTTGTTTTACATTCTTTCATCGAATAAACGATAA
* *
14781485 AGCATAACCACTATTTAATCACTAATTTTAATAACATCAATATCA-TT-ATTTTCAA-T-TTCAA
1 AGCATAACCACTATTTAATCACTAATTTTAAAAACATCAATATCATTTCAATTTCAAGTATTCAA
14781546 CG-GCCCTTGTTTTACATTCTTTCATCGAATAAACGATAA
66 CGCGCCCTTGTTTTACATTCTTTCATCGAATAAACGATAA
14781585 A
1 A
14781586 TTGGCTTAAC
Statistics
Matches: 97, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
100 38 0.39
101 5 0.05
104 1 0.01
107 7 0.07
108 2 0.02
111 44 0.45
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.37
Consensus pattern (105 bp):
AGCATAACCACTATTTAATCACTAATTTTAAAAACATCAATATCATTTCAATTTCAAGTATTCAA
CGCGCCCTTGTTTTACATTCTTTCATCGAATAAACGATAA
Found at i:14785683 original size:19 final size:21
Alignment explanation
Indices: 14785659--14785698 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14785649 TGTGTGTAAA
14785659 TTTTAA-AAAATT-TTAATAT
1 TTTTAATAAAATTATTAATAT
14785678 TTTTAATAAAATTATTAATAT
1 TTTTAATAAAATTATTAATAT
14785699 AATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 6 0.32
21 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTAATAAAATTATTAATAT
Found at i:14792900 original size:26 final size:25
Alignment explanation
Indices: 14792846--14792900 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
14792836 CTCACTTAAG
*
14792846 AATTTTATAAAAATTTACCATTTGA
1 AATTTTATAAAAATTTACCATTGGA
* *
14792871 AATTTT-TATAAATTTCATCATTGGA
1 AATTTTATAAAAATTT-ACCATTGGA
14792896 TAATT
1 -AATT
14792901 AATAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 8 0.32
25 13 0.52
26 4 0.16
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (25 bp):
AATTTTATAAAAATTTACCATTGGA
Found at i:14792991 original size:13 final size:13
Alignment explanation
Indices: 14792955--14793017 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
14792945 TTTTTAATTT
*
14792955 AATAATTAAAAAA
1 AATAAATAAAAAA
*
14792968 CAA-AAACAAAAAA
1 -AATAAATAAAAAA
*
14792981 AATAAATAAAATA
1 AATAAATAAAAAA
** *
14792994 CTTAAATAAAATA
1 AATAAATAAAAAA
14793007 AATAAATAAAA
1 AATAAATAAAA
14793018 TACCAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
12 2 0.05
13 36 0.90
14 2 0.05
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AATAAATAAAAAA
Found at i:14792991 original size:26 final size:26
Alignment explanation
Indices: 14792955--14793026 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
14792945 TTTTTAATTT
*
14792955 AATAATTAAAAAACAAAAACAAAAAA
1 AATAAATAAAAAACAAAAACAAAAAA
* ** * *
14792981 AATAAATAAAATACTTAAATAAAATA
1 AATAAATAAAAAACAAAAACAAAAAA
*
14793007 AATAAATAAAATACCAAAAA
1 AATAAATAAAA-AACAAAAA
14793027 AATTCGAAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
26 31 0.89
27 4 0.11
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (26 bp):
AATAAATAAAAAACAAAAACAAAAAA
Found at i:14793018 original size:13 final size:13
Alignment explanation
Indices: 14792975--14793019 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
14792965 AAACAAAAAC
*
14792975 AAAAAAAATAAAT
1 AAAATAAATAAAT
**
14792988 AAAATACTTAAAT
1 AAAATAAATAAAT
14793001 AAAATAAATAAAT
1 AAAATAAATAAAT
14793014 AAAATA
1 AAAATA
14793020 CCAAAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:14797363 original size:18 final size:20
Alignment explanation
Indices: 14797342--14797388 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
14797332 AAAGTGGTGA
14797342 AAAAGCAAAG-AAAATAAG-
1 AAAAGCAAAGAAAAATAAGC
14797360 AAAAG-AAAGAAAAATAAGC
1 AAAAGCAAAGAAAAATAAGC
*
14797379 AAAATCAAAG
1 AAAAGCAAAG
14797389 TTTAGGGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 13 0.52
19 4 0.16
20 4 0.16
ACGTcount: A:0.72, C:0.06, G:0.15, T:0.06
Consensus pattern (20 bp):
AAAAGCAAAGAAAAATAAGC
Found at i:14801513 original size:4 final size:4
Alignment explanation
Indices: 14801504--14801533 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
14801494 GAGTTTATCC
14801504 CTTT CTTT CTTT CTTT CTTT CTTT -TTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT
14801534 CCAAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
CTTT
Found at i:14802718 original size:58 final size:57
Alignment explanation
Indices: 14802554--14802700 Score: 204
Period size: 57 Copynumber: 2.6 Consensus size: 57
14802544 TTTGATTTCA
* * * *
14802554 TATTTTGACTTAGGTTTAGACTAAGTCATTTTCGACCTTTGCTTAGTTTGGTCACTT
1 TATTTTAACTTAGGCTTAGACCAAGTCATTTTCGACCTTGGCTTAGTTTGGTCACTT
** * *
14802611 CGTTTCAACTTAGGCTTAGACCAACTCATTTTCGACCTTGGCTTAGTTTGGTCATCTT
1 TATTTTAACTTAGGCTTAGACCAAGTCATTTTCGACCTTGGCTTAGTTTGGTCA-CTT
*
14802669 TATTTTAACTTAGGCTTAGACCAAGTAATTTT
1 TATTTTAACTTAGGCTTAGACCAAGTCATTTT
14802701 TTACTTCGGC
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
57 46 0.61
58 30 0.39
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (57 bp):
TATTTTAACTTAGGCTTAGACCAAGTCATTTTCGACCTTGGCTTAGTTTGGTCACTT
Found at i:14802896 original size:58 final size:58
Alignment explanation
Indices: 14802800--14802964 Score: 158
Period size: 58 Copynumber: 2.9 Consensus size: 58
14802790 TGAACATTAA
* * * * * *
14802800 CTCAATCTGGTCATTTTCATT-TGACTTATGTTCAGACCAAGTCATTTTTGACCTT-G
1 CTCAATCCGATCATTTTCATTGTAACTTAGGCTCAGACCAAGTCATTTTTAACCTTAG
* * *
14802856 CTTCAATCCGATCATCTTT-GTT-TCAACTTAGGCTTAGACCAAATCATTTTTAACCTTAG
1 C-TCAATCCGATCAT-TTTCATTGT-AACTTAGGCTCAGACCAAGTCATTTTTAACCTTAG
* * * *
14802915 CTCAGTTCGATCATTTTCATTGTGACTTAGGCTCAAACCAAGTCATTTTT
1 CTCAATCCGATCATTTTCATTGTAACTTAGGCTCAGACCAAGTCATTTTT
14802965 TACTTTGGCC
Statistics
Matches: 87, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
56 1 0.01
57 17 0.20
58 66 0.76
59 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (58 bp):
CTCAATCCGATCATTTTCATTGTAACTTAGGCTCAGACCAAGTCATTTTTAACCTTAG
Found at i:14803143 original size:122 final size:123
Alignment explanation
Indices: 14802951--14803176 Score: 285
Period size: 122 Copynumber: 1.8 Consensus size: 123
14802941 TTAGGCTCAA
* * *
14802951 ACCAAGTCATTTTTTACTTTGGCCTAGTCCTATCACCTTCATGTTTGACCTTGGTTCAATCCAAT
1 ACCAAATCATTTTTTACTTTAGCCTAGTCATATCACCTTCATGTTTGACCTTGGTTCAATCCAAT
* * *
14803016 CACC-TTATTTTTTACCTTGGCTAAGTTCGGTCATTTTCAATTTCAATTTAGATTTAG
66 AACCTTTATGTTTTACCTTAGCTAAGTTCGGTCATTTTCAATTTCAATTTAGATTTAG
* * * * * *
14803073 ACCAAATCATTTTTTACTTTAG-CTCAGTCATGTCATCTTTATGTTTTACCTTGGTTCAATCTAG
1 ACCAAATCATTTTTTACTTTAGCCT-AGTCATATCACCTTCATGTTTGACCTTGGTTCAATCCAA
* * *
14803137 TAACCTTTTATGTTTTACCTTAGTTCAGTTTGGTCATTTT
65 TAACC-TTTATGTTTTACCTTAGCTAAGTTCGGTCATTTT
14803177 TATTTTTTAT
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
121 2 0.02
122 56 0.65
124 28 0.33
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (123 bp):
ACCAAATCATTTTTTACTTTAGCCTAGTCATATCACCTTCATGTTTGACCTTGGTTCAATCCAAT
AACCTTTATGTTTTACCTTAGCTAAGTTCGGTCATTTTCAATTTCAATTTAGATTTAG
Found at i:14803148 original size:33 final size:32
Alignment explanation
Indices: 14803110--14803198 Score: 97
Period size: 33 Copynumber: 2.8 Consensus size: 32
14803100 TCATGTCATC
14803110 TTTATGTTTTACCTTGGTTCAATCTAGTAACCT
1 TTTATGTTTTACCTTGGTTCAATCTAGTAA-CT
* * * * * *
14803143 TTTATGTTTTACCTTAGTTCAGTTTGGTCATT
1 TTTATGTTTTACCTTGGTTCAATCTAGTAACT
* *
14803175 TTTATTTTTTATCTTGGTTCAATC
1 TTTATGTTTTACCTTGGTTCAATC
14803199 CAATTATTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
32 20 0.44
33 25 0.56
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (32 bp):
TTTATGTTTTACCTTGGTTCAATCTAGTAACT
Found at i:14803938 original size:21 final size:21
Alignment explanation
Indices: 14803896--14803938 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14803886 TTATTTAGTG
* *
14803896 ATTTATTTCTTACCTATTTTT
1 ATTTATTTCTTAACTATCTTT
*
14803917 ATTTATTTCTTAATTATCTTT
1 ATTTATTTCTTAACTATCTTT
14803938 A
1 A
14803939 CTTTGTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTATTTCTTAACTATCTTT
Found at i:14809798 original size:20 final size:20
Alignment explanation
Indices: 14809761--14809798 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
14809751 CTTTTTAAAA
*
14809761 TAATGATAATTAATTAATTT
1 TAATGATAAATAATTAATTT
14809781 TAAT-ATAAATAATATAAT
1 TAATGATAAATAAT-TAAT
14809799 ACATTCATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
TAATGATAAATAATTAATTT
Found at i:14809889 original size:15 final size:15
Alignment explanation
Indices: 14809865--14809907 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
14809855 CATAAAATTG
*
14809865 AATTAGAATTAACTT
1 AATTATAATTAACTT
*
14809880 AATTATAATTTAATTT
1 AATTATAA-TTAACTT
*
14809896 AATAATAATTAA
1 AATTATAATTAA
14809908 AGATAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (15 bp):
AATTATAATTAACTT
Found at i:14812954 original size:15 final size:17
Alignment explanation
Indices: 14812932--14812977 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 17
14812922 CAAATGATTT
14812932 ATACAAAATAAATA-AA
1 ATACAAAATAAATATAA
14812948 A-ACAAAATAAAATATAA
1 ATACAAAAT-AAATATAA
14812965 ATACATAAATAAA
1 ATACA-AAATAAA
14812978 ACATGCATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.27
16 6 0.23
17 3 0.12
18 6 0.23
19 4 0.15
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.20
Consensus pattern (17 bp):
ATACAAAATAAATATAA
Found at i:14816977 original size:46 final size:45
Alignment explanation
Indices: 14816925--14817018 Score: 161
Period size: 46 Copynumber: 2.1 Consensus size: 45
14816915 TCTACAATAC
*
14816925 AAAAAAAAGAATAAAGAAAAATTTTTATTAGAAACAAAGAGTCTTG
1 AAAAAAAAGAATAAAGAAAAATTTTTATTA-AAAAAAAGAGTCTTG
*
14816971 AAAAAAAAGAATAAAGAAAAGTTTTTATTAAAAAAAAGAGTCTTG
1 AAAAAAAAGAATAAAGAAAAATTTTTATTAAAAAAAAGAGTCTTG
14817016 AAA
1 AAA
14817019 GAATTGATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 17 0.37
46 29 0.63
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.23
Consensus pattern (45 bp):
AAAAAAAAGAATAAAGAAAAATTTTTATTAAAAAAAAGAGTCTTG
Found at i:14817673 original size:17 final size:18
Alignment explanation
Indices: 14817653--14817692 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
14817643 AAAAAAGTCT
*
14817653 AAAATA-AAAAAGACAAA
1 AAAATATAAAAAGAAAAA
*
14817670 AAAATATAAAAATAAAAA
1 AAAATATAAAAAGAAAAA
14817688 AAAAT
1 AAAAT
14817693 TCAAGCTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (18 bp):
AAAATATAAAAAGAAAAA
Found at i:14818127 original size:11 final size:11
Alignment explanation
Indices: 14818111--14818145 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
14818101 GTATTTATAA
14818111 AATTAATAAAT
1 AATTAATAAAT
14818122 AATTAATAAAT
1 AATTAATAAAT
*
14818133 AATT-TTAAAT
1 AATTAATAAAT
14818143 AAT
1 AAT
14818146 AGTTTTGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATTAATAAAT
Found at i:14818222 original size:29 final size:29
Alignment explanation
Indices: 14818189--14818244 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
14818179 AAAAAATTAA
* *
14818189 ATTTATTTATTAGTTTATTATATAATATT
1 ATTTATTTACTAATTTATTATATAATATT
14818218 ATTTATTTACTAATTTATTATATAATA
1 ATTTATTTACTAATTTATTATATAATA
14818245 ACAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (29 bp):
ATTTATTTACTAATTTATTATATAATATT
Found at i:14818582 original size:2 final size:2
Alignment explanation
Indices: 14818575--14818602 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14818565 AATACGAGGA
14818575 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
14818603 GAAATAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14819653 original size:18 final size:17
Alignment explanation
Indices: 14819632--14819674 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14819622 ATTTTTTAAT
14819632 TATTTATTAATTTTAAAA
1 TATTTATTAA-TTTAAAA
* *
14819650 TATTAAATAATTTAAAA
1 TATTTATTAATTTAAAA
14819667 T-TTTATTA
1 TATTTATTA
14819675 TATATAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTATTAATTTAAAA
Found at i:14819686 original size:23 final size:23
Alignment explanation
Indices: 14819631--14819691 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
14819621 AATTTTTTAA
14819631 TTATT-TAT-TAATTTTAAAA--
1 TTATTATATATAATTTTAAAATT
14819650 -TATTA-A-ATAA-TTTAAAATT
1 TTATTATATATAATTTTAAAATT
14819669 TTATTATATATAATTTTAAAATT
1 TTATTATATATAATTTTAAAATT
14819692 AAGATTCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
17 7 0.21
18 8 0.24
20 5 0.15
21 1 0.03
22 4 0.12
23 9 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTATTATATATAATTTTAAAATT
Found at i:14822779 original size:2 final size:2
Alignment explanation
Indices: 14822772--14822797 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14822762 CATGCCTGAA
14822772 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
14822798 TCTCTTCACA
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:14823163 original size:2 final size:2
Alignment explanation
Indices: 14823158--14823183 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14823148 GTGTGTGTCA
14823158 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
14823184 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14823188 original size:2 final size:2
Alignment explanation
Indices: 14823183--14823215 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14823173 TCTCTCTCTC
14823183 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14823216 CTTACCAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14831507 original size:15 final size:16
Alignment explanation
Indices: 14831484--14831521 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
14831474 AACAATTTGT
*
14831484 TTTGGTGATG-AATTA
1 TTTGATGATGAAATTA
14831499 TTTGATGATGAAATTA
1 TTTGATGATGAAATTA
14831515 TTT-ATGA
1 TTTGATGA
14831522 ATTAATTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTGATGATGAAATTA
Found at i:14842659 original size:3 final size:3
Alignment explanation
Indices: 14842647--14842787 Score: 125
Period size: 3 Copynumber: 47.7 Consensus size: 3
14842637 TATATTTTTC
*
14842647 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATCT -TT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * *
14842691 ATT -TT CTT TTT CTGCT A-T ATT A-T ACT A-T GTT A-T ATCGT ATT ATT
1 ATT ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT AT--T ATT ATT
*
14842735 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14842783 ATT AT
1 ATT AT
14842788 ATTTTCTTTT
Statistics
Matches: 118, Mismatches: 8, Indels: 24
0.79 0.05 0.16
Matches are distributed among these distances:
2 12 0.10
3 101 0.86
4 1 0.01
5 4 0.03
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14842797 original size:5 final size:5
Alignment explanation
Indices: 14842789--14842836 Score: 53
Period size: 5 Copynumber: 9.2 Consensus size: 5
14842779 TGTTATTATA
*
14842789 TTTTC TTTTT TTTTC TTTTC TTTTC -TTTC TTTCCTCC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT--T-C TTTTC TTTTC
14842836 T
1 T
14842837 GTTATGATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 4 0.11
5 27 0.73
6 1 0.03
7 1 0.03
8 4 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:14843250 original size:9 final size:10
Alignment explanation
Indices: 14843227--14843262 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
14843217 ATCTAAGAAT
*
14843227 TTTTTTTGGA
1 TTTTTTTGAA
*
14843237 TTTTTTTTAA
1 TTTTTTTGAA
14843247 TTTTTTTGAA
1 TTTTTTTGAA
14843257 TTTTTT
1 TTTTTT
14843263 GGGTTTGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:14843623 original size:12 final size:13
Alignment explanation
Indices: 14843601--14843639 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
14843591 CTTTTTTCCA
14843601 TTTTTATTTTATT
1 TTTTTATTTTATT
14843614 TTTTTA-TTTATT
1 TTTTTATTTTATT
*
14843626 TTGTTATTTTATT
1 TTTTTATTTTATT
14843639 T
1 T
14843640 CTAACCCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:14843625 original size:17 final size:17
Alignment explanation
Indices: 14843603--14843639 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14843593 TTTTTCCATT
*
14843603 TTTATTTTATTTTTTTA
1 TTTATTTTATTATTTTA
*
14843620 TTTATTTTGTTATTTTA
1 TTTATTTTATTATTTTA
14843637 TTT
1 TTT
14843640 CTAACCCGTT
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:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTATTTTATTATTTTA
Found at i:14854792 original size:31 final size:33
Alignment explanation
Indices: 14854745--14854812 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 33
14854735 CATCCTCTCA
14854745 ATCA-TTTATTTTTGACAT-TGACTCAATCCTG
1 ATCACTTTATTTTTGACATGTGACTCAATCCTG
* * *
14854776 GTCACTTTA-TTTTGACATGTGATTTAATCCTG
1 ATCACTTTATTTTTGACATGTGACTCAATCCTG
14854808 ATCAC
1 ATCAC
14854813 ATGATTCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (33 bp):
ATCACTTTATTTTTGACATGTGACTCAATCCTG
Found at i:14854874 original size:89 final size:89
Alignment explanation
Indices: 14854745--14855242 Score: 402
Period size: 89 Copynumber: 5.6 Consensus size: 89
14854735 CATCCTCTCA
* * * * ** * * *
14854745 ATCATTTATTTTTGACATTGACTCAATCCTGGTCACTTTATTTTGACATGTGATTTAATCCTGAT
1 ATCATTTATTTTCGACCTCGACTCGATCCTTATCGCTTTATTTCGACTTGTGATTTAATCCTGAT
*
14854810 CACATGATTCATGGTTTCGTCTTG
66 CACATGATTCATGGTTTCGTCCTG
* * ** **
14854834 ATCATTTATTTTCAACCTCAACTCGATCCTTATCGCTTTATTTCGACTCAT-AGTTTCGTCCT-A
1 ATCATTTATTTTCGACCTCGACTCGATCCTTATCGCTTTATTTCGACTTGTGA-TTTAATCCTGA
* *
14854897 GTCACATGATTCATGGTTTCATCCCG
65 -TCACATGATTCATGGTTTCGTCCTG
* * * * * * *
14854923 ATTATTT-TTTT-TACCTTGACTCGATCCTTGTCGCTTTATTTCGACTTCTGATTTCATCCCGAT
1 ATCATTTATTTTCGACCTCGACTCGATCCTTATCGCTTTATTTCGACTTGTGATTTAATCCTGAT
* * **
14854986 CACATGATTCGTGGTTTCATCCCA
66 CACATGATTCATGGTTTCGTCCTG
* * * * *
14855010 ATCATTTATTTTTGACCTCGACTCGGT-CTTGATCGCTTTATTTCGATTTGTGGTTTAATCCTGG
1 ATCATTTATTTTCGACCTCGACTCGATCCTT-ATCGCTTTATTTCGACTTGTGATTTAATCCTGA
** *
14855074 TCACATGATTTGTAGTTTCGTCCTG
65 TCACATGATTCATGGTTTCGTCCTG
* * ** ** * ** * * **
14855099 ATCATTTATTTTCGACCTCAATTTTATCCTGCTCGCTTTATTTCGAGTCATGGTTTTATCCCAAT
1 ATCATTTATTTTCGACCTCGACTCGATCCTTATCGCTTTATTTCGACTTGTGATTTAATCCTGAT
*
14855164 CAC-TGATTCATGGTTTCGT-TTCG
66 CACATGATTCATGGTTTCGTCCT-G
* * *
14855187 ATCATTTATTTTCGACCTCGACCCAATCC-TAGTCGCTTTATTT-GACTTGTGGTTTA
1 ATCATTTATTTTCGACCTCGACTCGATCCTTA-TCGCTTTATTTCGACTTGTGATTTA
14855243 GTCCAGTCAC
Statistics
Matches: 324, Mismatches: 75, Indels: 22
0.77 0.18 0.05
Matches are distributed among these distances:
87 78 0.24
88 64 0.20
89 180 0.56
90 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.44
Consensus pattern (89 bp):
ATCATTTATTTTCGACCTCGACTCGATCCTTATCGCTTTATTTCGACTTGTGATTTAATCCTGAT
CACATGATTCATGGTTTCGTCCTG
Found at i:14855079 original size:176 final size:178
Alignment explanation
Indices: 14854748--14855233 Score: 428
Period size: 176 Copynumber: 2.8 Consensus size: 178
14854738 CCTCTCAATC
* * *
14854748 ATTTATTTTTGACATTGACTCAATCCTGGTCACTTTATTTTGACATGTGATTTAATCCTGATCAC
1 ATTTATTTTTGACATTGACTCAATCCTGGTCACTTTATTTCGACATCTGATTTAATCCCGATCAC
* ***
14854813 ATGATTCATGGTTTCGTCTTGATCATTTATTTTCAACCTCAACTCGATCCTTATCGCTTTATTTC
66 ATGATTCATGGTTTCATCCCAATCATTTATTTTCAACCTCAACTCGATCCTTATCGCTTTATTTC
**
14854878 GACTCATAGTTTCGTCCTAGTCACATGATTCATGGTTTCATCCCGATT
131 GACTCATAGTTTAATCCTAGTCACATGATTCATGGTTTCATCCCGATT
* * * * * *
14854926 ATTT-TTTTT-ACCTTGACTCGATCCTTGTCGCTTTATTTCGACTTCTGATTTCATCCCGATCAC
1 ATTTATTTTTGACATTGACTCAATCCTGGTCACTTTATTTCGACATCTGATTTAATCCCGATCAC
* ** * *
14854989 ATGATTCGTGGTTTCATCCCAATCATTTATTTTTGACCTCGACTCGGT-CTTGATCGCTTTATTT
66 ATGATTCATGGTTTCATCCCAATCATTTATTTTCAACCTCAACTCGATCCTT-ATCGCTTTATTT
* ** * * ** * * * *
14855053 CGATTTGTGGTTTAATCCTGGTCACATGATTTGTAGTTTCGTCCTGATC
130 CGACTCATAGTTTAATCCTAGTCACATGATTCATGGTTTCATCCCGATT
* * ** * ** * * * * * *
14855102 ATTTATTTTCGACCTCAATTTTATCCTGCTCGCTTTATTTCGA-GTCATGGTTTTATCCCAATCA
1 ATTTATTTTTGACATTGACTCAATCCTGGTCACTTTATTTCGACATC-TGATTTAATCCCGATCA
* ** * * * * *
14855166 C-TGATTCATGGTTTCGTTTCGATCATTTATTTTCGACCTCGACCCAATCC-TAGTCGCTTTATT
65 CATGATTCATGGTTTCATCCCAATCATTTATTTTCAACCTCAACTCGATCCTTA-TCGCTTTATT
14855229 T-GACT
129 TCGACT
14855234 TGTGGTTTAG
Statistics
Matches: 249, Mismatches: 53, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
175 3 0.01
176 140 0.56
177 61 0.24
178 45 0.18
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (178 bp):
ATTTATTTTTGACATTGACTCAATCCTGGTCACTTTATTTCGACATCTGATTTAATCCCGATCAC
ATGATTCATGGTTTCATCCCAATCATTTATTTTCAACCTCAACTCGATCCTTATCGCTTTATTTC
GACTCATAGTTTAATCCTAGTCACATGATTCATGGTTTCATCCCGATT
Found at i:14855397 original size:26 final size:26
Alignment explanation
Indices: 14855365--14855426 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
14855355 GCTGTAGACA
14855365 CTCATTTTGGT-TAGGGCCCAATTAGG
1 CTCATTTTGGTCTA-GGCCCAATTAGG
* *
14855391 C-CTATTTTGATCTAGGCCCGATTAGG
1 CTC-ATTTTGGTCTAGGCCCAATTAGG
14855417 CTCATTTTGG
1 CTCATTTTGG
14855427 CCCTAACCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 1 0.03
26 26 0.87
27 3 0.10
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (26 bp):
CTCATTTTGGTCTAGGCCCAATTAGG
Found at i:14855513 original size:3 final size:3
Alignment explanation
Indices: 14855501--14855632 Score: 118
Period size: 3 Copynumber: 46.3 Consensus size: 3
14855491 TTTATTTTTC
*
14855501 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATCT ATT -CT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* * *
14855544 ACT A-T GTT A-T ATC A-T ATT A-T ATT ATT ATT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
14855587 ACT ACT ACT ACT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
14855633 CTATATTTTT
Statistics
Matches: 112, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
2 13 0.12
3 96 0.86
4 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:14855675 original size:20 final size:19
Alignment explanation
Indices: 14855638--14855679 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
14855628 TATTACTATA
14855638 TTTTTCTTTTTTTCCTTTC
1 TTTTTCTTTTTTTCCTTTC
*
14855657 TTTTTCTTTTCTTTTCTTTC
1 TTTTTCTTTT-TTTCCTTTC
14855677 TTT
1 TTT
14855680 CCTCATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTCTTTTTTTCCTTTC
Found at i:14855690 original size:24 final size:23
Alignment explanation
Indices: 14855638--14855690 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
14855628 TATTACTATA
**
14855638 TTTTTCTTTTTTTCCTTTCTTTT
1 TTTTTCTTTTTTTCCTTTCTCAT
14855661 TCTTTTCTTTTCTTT-CTTTCCTCAT
1 T-TTTTCTTTT-TTTCCTTT-CTCAT
14855686 TTTTT
1 TTTTT
14855691 TTCTATTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 1 0.04
24 17 0.68
25 7 0.28
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTCTTTTTTTCCTTTCTCAT
Found at i:14855691 original size:20 final size:20
Alignment explanation
Indices: 14855644--14855691 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
14855634 TATATTTTTC
*
14855644 TTTTTTTCCTTTCTTTTTC-
1 TTTTTTTCCTTTCTTTCTCA
*
14855663 TTTTCTTTTCTTTCTTTCCTCA
1 TTTT-TTTCCTTTCTTT-CTCA
14855685 TTTTTTT
1 TTTTTTT
14855692 TCTATTCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.17
20 11 0.46
21 5 0.21
22 4 0.17
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTTCCTTTCTTTCTCA
Found at i:14856431 original size:18 final size:18
Alignment explanation
Indices: 14856408--14856442 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14856398 CTTTTTCCTT
*
14856408 TTTTCTATTTTTATTTTA
1 TTTTCTAATTTTATTTTA
14856426 TTTTCTAATTTTATTTT
1 TTTTCTAATTTTATTTT
14856443 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTAATTTTATTTTA
Found at i:14856437 original size:26 final size:25
Alignment explanation
Indices: 14856408--14856458 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
14856398 CTTTTTCCTT
*
14856408 TTTTCTATTTTTATTTTATTTTCTAA
1 TTTTATATTTTTATTTTA-TTTCTAA
*
14856434 TTTTATTTTTTTATTTTATTTCTAA
1 TTTTATATTTTTATTTTATTTCTAA
14856459 CCCATTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTATATTTTTATTTTATTTCTAA
Found at i:14860640 original size:20 final size:20
Alignment explanation
Indices: 14860615--14860654 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14860605 ATATCCCTTC
14860615 CGCTTTTGATTGAATTTAAA
1 CGCTTTTGATTGAATTTAAA
*
14860635 CGCTTTTGATTGCATTTAAA
1 CGCTTTTGATTGAATTTAAA
14860655 TGATTGATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (20 bp):
CGCTTTTGATTGAATTTAAA
Found at i:14861148 original size:12 final size:12
Alignment explanation
Indices: 14861125--14861166 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
14861115 ATTTAATAAT
14861125 TCATATTTTTATA
1 TCATA-TTTTATA
14861138 TCATATTTTATA
1 TCATATTTTATA
14861150 TCATATTTTATA
1 TCATATTTTATA
14861162 -CATAT
1 TCATAT
14861167 AATTATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.17
12 19 0.66
13 5 0.17
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (12 bp):
TCATATTTTATA
Found at i:14861203 original size:19 final size:19
Alignment explanation
Indices: 14861179--14861233 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
14861169 TTATATAATT
*
14861179 TATTAAAATATAAATATGA
1 TATTAAATTATAAATATGA
14861198 TATT-AATTATATAATAT-A
1 TATTAAATTATA-AATATGA
*
14861216 T-TTAAATTTTAAATATGA
1 TATTAAATTATAAATATGA
14861234 AAATAACACA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 7 0.23
18 15 0.48
19 9 0.29
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
TATTAAATTATAAATATGA
Found at i:14861206 original size:23 final size:25
Alignment explanation
Indices: 14861158--14861215 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 25
14861148 TATCATATTT
* *
14861158 TATACATATAATTATATAATTTATTA
1 TATA-ATATAAATATATAATTAATTA
14861184 -A-AATATAAATATGAT-ATTAATTA
1 TATAATATAAATAT-ATAATTAATTA
14861207 TATAATATA
1 TATAATATA
14861216 TTTAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
23 16 0.59
24 4 0.15
25 7 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TATAATATAAATATATAATTAATTA
Found at i:14861206 original size:35 final size:36
Alignment explanation
Indices: 14861166--14861233 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
14861156 TTTATACATA
*
14861166 TAATTATATAATTTA-TTAAAATATAAATATGATAT
1 TAATTATATAATATATTTAAAATATAAATATGATAT
* *
14861201 TAATTATATAATATATTTAAATTTTAAATATGA
1 TAATTATATAATATATTTAAAATATAAATATGA
14861234 AAATAACACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 14 0.48
36 15 0.52
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (36 bp):
TAATTATATAATATATTTAAAATATAAATATGATAT
Found at i:14861343 original size:19 final size:20
Alignment explanation
Indices: 14861321--14861360 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
14861311 AATATAACAC
*
14861321 GAATAAATATAAATA-ATAT
1 GAATAAACATAAATAGATAT
*
14861340 GAATATACATAAATAGATAT
1 GAATAAACATAAATAGATAT
14861360 G
1 G
14861361 TTAACACACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (20 bp):
GAATAAACATAAATAGATAT
Found at i:14861502 original size:24 final size:24
Alignment explanation
Indices: 14861468--14861518 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
14861458 ATAACGTAAT
* *
14861468 AAATTTGACATATTAATAATATAA
1 AAATTTGACATATTAACAAAATAA
*
14861492 AAATTTTACATATTAACAAAATAA
1 AAATTTGACATATTAACAAAATAA
14861516 AAA
1 AAA
14861519 AATTAATACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATTTGACATATTAACAAAATAA
Found at i:14863614 original size:9 final size:9
Alignment explanation
Indices: 14863602--14863659 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
14863592 ATTAAAATAA
*
14863602 ATATTAAAA
1 ATATTAAAC
14863611 ATATGTTAAAC
1 ATA--TTAAAC
* *
14863622 GTGTTAAAC
1 ATATTAAAC
14863631 ATATTAAAC
1 ATATTAAAC
* *
14863640 GTATTAAAT
1 ATATTAAAC
14863649 ATATTAAAC
1 ATATTAAAC
14863658 AT
1 AT
14863660 GTGATTTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
9 32 0.84
11 6 0.16
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (9 bp):
ATATTAAAC
Found at i:14863637 original size:18 final size:18
Alignment explanation
Indices: 14863616--14863657 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
14863606 TAAAAATATG
*
14863616 TTAAACGTGTTAAACATA
1 TTAAACGTATTAAACATA
*
14863634 TTAAACGTATTAAATATA
1 TTAAACGTATTAAACATA
14863652 TTAAAC
1 TTAAAC
14863658 ATGTGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (18 bp):
TTAAACGTATTAAACATA
Found at i:14865533 original size:30 final size:29
Alignment explanation
Indices: 14865499--14865596 Score: 92
Period size: 30 Copynumber: 3.3 Consensus size: 29
14865489 ATGTTAAAGG
*
14865499 CTTATTTAAGTACAAATTAAAAGTTAATGA
1 CTTATTTAAATACAAATTAAAAGTTAA-GA
* *
14865529 CTTATTTAAATATC-AATAAAAAGTTAAAA
1 CTTATTTAAATA-CAAATTAAAAGTTAAGA
* *
14865558 TCTTATTTAAATTCAAATT-TAAGATTAAGA
1 -CTTATTTAAATACAAATTAAAAG-TTAAGA
*
14865588 GTTATTTAA
1 CTTATTTAA
14865597 GTGTAATAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
29 13 0.23
30 42 0.75
31 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (29 bp):
CTTATTTAAATACAAATTAAAAGTTAAGA
Done.