Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 71 of 77
Found at i:14323342 original size:2 final size:2
Alignment explanation
Indices: 14323329--14323365 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
14323319 ATCCTTACTT
*
14323329 TC TC TT 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 TC T
14323366 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:14325281 original size:14 final size:13
Alignment explanation
Indices: 14325260--14325292 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
14325250 CTTAAAAAAC
14325260 TTTAAATCTTAAA
1 TTTAAATCTTAAA
14325273 TTGTAAATCTTAAA
1 TT-TAAATCTTAAA
14325287 TTTAAA
1 TTTAAA
14325293 AATTTAGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (13 bp):
TTTAAATCTTAAA
Found at i:14340268 original size:18 final size:18
Alignment explanation
Indices: 14340233--14340268 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14340223 AAAAATTAAA
* *
14340233 TATTAATAATATTGTATT
1 TATTAATAAAATTATATT
14340251 TATTAATAAAATTATATT
1 TATTAATAAAATTATATT
14340269 AGTTGAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TATTAATAAAATTATATT
Found at i:14340442 original size:35 final size:32
Alignment explanation
Indices: 14340375--14340442 Score: 75
Period size: 35 Copynumber: 2.0 Consensus size: 32
14340365 ATATAATATT
*
14340375 AAAGAATATTATAAAATATTAATTAAATTTAA
1 AAAGAATATTATAAAATATTAATTAAAATTAA
*
14340407 AAAGTAATAATTATATAGATATTAGA-TAAAATTAA
1 AAAG-AAT-ATTATA-AAATATTA-ATTAAAATTAA
14340442 A
1 A
14340443 TTTATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
32 4 0.13
33 3 0.10
34 6 0.20
35 16 0.53
36 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (32 bp):
AAAGAATATTATAAAATATTAATTAAAATTAA
Found at i:14340469 original size:25 final size:28
Alignment explanation
Indices: 14340406--14340469 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 28
14340396 ATTAAATTTA
*
14340406 AAAAGTAATAATTATATAGATATTAGAT
1 AAAATTAATAATTATATAGATATTAGAT
*
14340434 AAAATT-A-AATT-TATA-ATATT-TAT
1 AAAATTAATAATTATATAGATATTAGAT
*
14340457 ATAATTAATAATT
1 AAAATTAATAATT
14340470 CTAAGTGATG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 7 0.23
24 6 0.19
25 8 0.26
26 4 0.13
27 1 0.03
28 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (28 bp):
AAAATTAATAATTATATAGATATTAGAT
Found at i:14344259 original size:22 final size:22
Alignment explanation
Indices: 14344233--14344275 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14344223 TTTTAATTAA
14344233 TTAATTATATAATTATATTTAT
1 TTAATTATATAATTATATTTAT
* * *
14344255 TTAATTTTATATTTTTATTTA
1 TTAATTATATAATTATATTTA
14344276 AAAAATAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTAATTATATAATTATATTTAT
Found at i:14346856 original size:24 final size:26
Alignment explanation
Indices: 14346806--14346856 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
14346796 AATATTTTTT
*
14346806 TTATAAAATATTTCTTAAATAAGAAA
1 TTATAAAATATTTCTTAAACAAGAAA
* *
14346832 TTATAAAAT-TTTTTTAAGCAA-AAA
1 TTATAAAATATTTCTTAAACAAGAAA
14346856 T
1 T
14346857 AATTTATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 4 0.18
25 9 0.41
26 9 0.41
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (26 bp):
TTATAAAATATTTCTTAAACAAGAAA
Found at i:14348989 original size:10 final size:10
Alignment explanation
Indices: 14348976--14349017 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
14348966 AAAATACAAA
14348976 AAAATATTTT
1 AAAATATTTT
14348986 AAAATATTTT
1 AAAATATTTT
*
14348996 -AAA-ATTAT
1 AAAATATTTT
14349004 AAAA-ATTTT
1 AAAATATTTT
14349013 AAAAT
1 AAAAT
14349018 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 4 0.14
9 14 0.50
10 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
AAAATATTTT
Found at i:14349013 original size:17 final size:17
Alignment explanation
Indices: 14348985--14349025 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
14348975 AAAAATATTT
14348985 TAAAATATTTTAAAATTA
1 TAAAA-ATTTTAAAATTA
*
14349003 TAAAAATTTTAAAATTT
1 TAAAAATTTTAAAATTA
14349020 TAAAAA
1 TAAAAA
14349026 AAATTCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAAATTTTAAAATTA
Found at i:14349016 original size:8 final size:8
Alignment explanation
Indices: 14348981--14349024 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
14348971 ACAAAAAAAT
14348981 ATTTTAAAA
1 ATTTT-AAA
14348990 TATTTTAAA
1 -ATTTTAAA
*
14348999 ATTATAAAA
1 ATT-TTAAA
14349008 ATTTTAAA
1 ATTTTAAA
14349016 ATTTTAAA
1 ATTTTAAA
14349024 A
1 A
14349025 AAAATTCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 16 0.52
9 10 0.32
10 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
ATTTTAAA
Found at i:14349027 original size:50 final size:50
Alignment explanation
Indices: 14348918--14349035 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
14348908 CCATATCAGC
* *
14348918 ATTAAAATAAAATTTTAAAAAAATTTATAAAATTCTAAAAATTTTTGAAA
1 ATTAAAAAAAAATTTTAAAAAAATTTATAAAATTATAAAAATTTTTGAAA
* *
14348968 AATACAAAAAAATATTTT-AAAATATTT-TAAAATTATAAAAA-TTTT-AAA
1 ATTA-AAAAAAA-ATTTTAAAAAAATTTATAAAATTATAAAAATTTTTGAAA
* *
14349016 ATTTTAAAAAAAATTCTAAA
1 A-TTAAAAAAAAATTTTAAA
14349036 TTTTATTTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
47 4 0.07
48 13 0.23
49 5 0.09
50 16 0.28
51 14 0.25
52 5 0.09
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (50 bp):
ATTAAAAAAAAATTTTAAAAAAATTTATAAAATTATAAAAATTTTTGAAA
Found at i:14349029 original size:20 final size:20
Alignment explanation
Indices: 14348925--14349040 Score: 60
Period size: 19 Copynumber: 5.5 Consensus size: 20
14348915 AGCATTAAAA
14348925 TAAAATTTT-AAAAAAATTT
1 TAAAATTTTAAAAAAAATTT
* *
14348944 ATAAAATTCT--AAAAATTTT
1 -TAAAATTTTAAAAAAAATTT
* **
14348963 TGAAAAATACAAAAAAATATTT
1 T-AAAATTTTAAAAAAA-ATTT
14348985 TAAAATATTTTAAAATTATAAAAATTT
1 T-AAA-ATTTT--AA--A-AAAAATTT
*
14349012 TAAAATTTTAAAAAAAATTC
1 TAAAATTTTAAAAAAAATTT
14349032 T-AAATTTTA
1 TAAAATTTTA
14349041 TTTAAAAGTT
Statistics
Matches: 75, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
18 1 0.01
19 21 0.28
20 16 0.21
21 6 0.08
22 7 0.09
23 4 0.05
25 7 0.09
26 3 0.04
27 6 0.08
28 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.40
Consensus pattern (20 bp):
TAAAATTTTAAAAAAAATTT
Found at i:14349098 original size:18 final size:20
Alignment explanation
Indices: 14349077--14349122 Score: 71
Period size: 17 Copynumber: 2.5 Consensus size: 20
14349067 AAATTAAATT
14349077 TTTTCAAAAAAAT-C-AAAA
1 TTTTCAAAAAAATCCAAAAA
14349095 TTTT-AAAAAAATCCAAAAA
1 TTTTCAAAAAAATCCAAAAA
14349114 TTTTCAAAA
1 TTTTCAAAA
14349123 GAATTTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.32
18 5 0.20
19 8 0.32
20 4 0.16
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (20 bp):
TTTTCAAAAAAATCCAAAAA
Found at i:14350160 original size:10 final size:10
Alignment explanation
Indices: 14350147--14350211 Score: 64
Period size: 10 Copynumber: 6.7 Consensus size: 10
14350137 TTTCCTTAAA
*
14350147 TTTTTATAA-
1 TTTTTAAAAT
*
14350156 TTTTTAAAAA
1 TTTTTAAAAT
*
14350166 TATTTAAAA-
1 TTTTTAAAAT
*
14350175 TATTT-AAAT
1 TTTTTAAAAT
14350184 TTTTTAAAAAT
1 TTTTT-AAAAT
14350195 TTTTTAAAAT
1 TTTTTAAAAT
14350205 TTTTTAA
1 TTTTTAA
14350212 TATTAATATG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
8 3 0.06
9 17 0.35
10 20 0.41
11 9 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:14350171 original size:19 final size:19
Alignment explanation
Indices: 14350144--14350182 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14350134 AATTTTCCTT
* * *
14350144 AAATTTTTATAATTTTTAA
1 AAATATTTAAAATATTTAA
14350163 AAATATTTAAAATATTTAA
1 AAATATTTAAAATATTTAA
14350182 A
1 A
14350183 TTTTTTAAAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATATTTAAAATATTTAA
Found at i:14350208 original size:9 final size:9
Alignment explanation
Indices: 14350144--14350208 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
14350134 AATTTTCCTT
14350144 AAATTTTTA
1 AAATTTTTA
*
14350153 TAATTTTTAA
1 AAATTTTT-A
*
14350163 AAATATTTA
1 AAATTTTTA
*
14350172 AAATATTTA
1 AAATTTTTA
*
14350181 AATTTTTTAA
1 AAATTTTT-A
14350191 AAATTTTTTA
1 AAA-TTTTTA
14350201 AAATTTTT
1 AAATTTTT
14350209 TAATATTAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
9 28 0.60
10 14 0.30
11 5 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
AAATTTTTA
Found at i:14350634 original size:21 final size:22
Alignment explanation
Indices: 14350587--14350651 Score: 123
Period size: 21 Copynumber: 3.0 Consensus size: 22
14350577 AAATACTGGA
14350587 AAAGTTAGCGACCGAGTCGGTC
1 AAAGTTAGCGACCGAGTCGGTC
14350609 AAAGTTAGCGACCGAGTCGG-C
1 AAAGTTAGCGACCGAGTCGGTC
14350630 AAAGTTAGCGACCGAGTCGGTC
1 AAAGTTAGCGACCGAGTCGGTC
14350652 TTTCTTCATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 21 0.50
22 21 0.50
ACGTcount: A:0.28, C:0.23, G:0.32, T:0.17
Consensus pattern (22 bp):
AAAGTTAGCGACCGAGTCGGTC
Found at i:14360460 original size:25 final size:25
Alignment explanation
Indices: 14360432--14360492 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
14360422 AAATAAATCA
* ***
14360432 TTGAAAATTTTAAATTTTTGTTATT
1 TTGAAAATTTTAAAATTTCAATATT
*
14360457 TTGAAAATTTGAAAATTTCAATATT
1 TTGAAAATTTTAAAATTTCAATATT
14360482 TTGAAAATTTT
1 TTGAAAATTTT
14360493 CAATAAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (25 bp):
TTGAAAATTTTAAAATTTCAATATT
Found at i:14360484 original size:17 final size:18
Alignment explanation
Indices: 14360464--14360497 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14360454 ATTTTGAAAA
14360464 TTTGAAAA-TTTCAATAT
1 TTTGAAAATTTTCAATAT
14360481 TTTGAAAATTTTCAATA
1 TTTGAAAATTTTCAATA
14360498 AATAATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
TTTGAAAATTTTCAATAT
Found at i:14362263 original size:23 final size:24
Alignment explanation
Indices: 14362218--14362263 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
14362208 AAAATTATAT
* *
14362218 TATTTGCATAATATTATTTAATAC
1 TATTTGCATAATAATATTGAATAC
*
14362242 TATTTG-ATAGTAATATTGAATA
1 TATTTGCATAATAATATTGAATA
14362264 TTGCGATCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (24 bp):
TATTTGCATAATAATATTGAATAC
Found at i:14362326 original size:28 final size:29
Alignment explanation
Indices: 14362294--14362359 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 29
14362284 AATTTCTCAT
14362294 TTAAATAATATTAAAATT--AAATATATTAA
1 TTAAATAATA-TAAAATTAGAAAT-TATTAA
14362323 -TAAAT--TATAAAATTAGAAATTATTAA
1 TTAAATAATATAAAATTAGAAATTATTAA
14362349 TTAAAATAATA
1 TT-AAATAATA
14362360 ATTTAAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
25 7 0.23
26 8 0.26
27 5 0.16
28 9 0.29
30 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (29 bp):
TTAAATAATATAAAATTAGAAATTATTAA
Found at i:14362329 original size:17 final size:16
Alignment explanation
Indices: 14362294--14362401 Score: 56
Period size: 15 Copynumber: 6.9 Consensus size: 16
14362284 AATTTCTCAT
14362294 TTAAATAATATTAAAA
1 TTAAATAATATTAAAA
14362310 TTAAAT-ATATTAATAAA
1 TTAAATAATATT-A-AAA
*
14362327 TT--ATAAAATTAGAAA
1 TTAAATAATATTA-AAA
*
14362342 TT--ATTA-ATTAAAA
1 TTAAATAATATTAAAA
14362355 -T-AATAAT-TTAAAAA
1 TTAAATAATATT-AAAA
*
14362369 GT-AATAATTATATAAATA
1 TTAAATAA-TAT-TAAA-A
14362387 TTAAATAATATTAAA
1 TTAAATAATATTAAA
14362402 TAAATTGACT
Statistics
Matches: 75, Mismatches: 5, Indels: 23
0.73 0.05 0.22
Matches are distributed among these distances:
12 1 0.01
13 8 0.11
14 8 0.11
15 22 0.29
16 12 0.16
17 13 0.17
18 6 0.08
19 5 0.07
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (16 bp):
TTAAATAATATTAAAA
Found at i:14362362 original size:26 final size:26
Alignment explanation
Indices: 14362300--14362362 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 26
14362290 TCATTTAAAT
14362300 AATATTAAAATT--AAATATATTAATA
1 AATA-TAAAATTAGAAATATATTAATA
14362325 AATTATAAAATTAGAAAT-TATTAATTA
1 AA-TATAAAATTAGAAATATATTAA-TA
14362352 AA-ATAATAATT
1 AATATAA-AATT
14362363 TAAAAAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
25 13 0.39
26 12 0.36
27 8 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
AATATAAAATTAGAAATATATTAATA
Found at i:14368299 original size:10 final size:9
Alignment explanation
Indices: 14368279--14368303 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14368269 TAAGTGCACA
14368279 TTTTATTTT
1 TTTTATTTT
14368288 TTTTATTTT
1 TTTTATTTT
14368297 TTTTATT
1 TTTTATT
14368304 ATAGAAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTATTTT
Found at i:14368355 original size:3 final size:3
Alignment explanation
Indices: 14368347--14368393 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
14368337 TTTTAAAGGT
14368347 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14368394 TAAATAGAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14368996 original size:28 final size:29
Alignment explanation
Indices: 14368937--14368996 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
14368927 TTTTAATGGA
* * * *
14368937 TTTAATTGATTTAAAATAATTTGATTATT
1 TTTAATTGATTAAAAATAAGTTGATCAAT
14368966 TTTAATTG-TTAAAAATAAGTTGATCAAT
1 TTTAATTGATTAAAAATAAGTTGATCAAT
14368994 TTT
1 TTT
14368997 GAATATTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (29 bp):
TTTAATTGATTAAAAATAAGTTGATCAAT
Found at i:14370263 original size:3 final size:3
Alignment explanation
Indices: 14370255--14370282 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14370245 GCCCCACCGC
14370255 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
14370283 GTTTACATCT
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:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:14375214 original size:29 final size:28
Alignment explanation
Indices: 14375177--14375259 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 28
14375167 AAATTATAAA
*
14375177 TAATATTTTTAATAAATTTTTATGT-ATTAT
1 TAAT-TTTTTATTAAATTTTTAT-TAATT-T
14375207 TAATTTTTATATTAAA-TTTTATTAATTT
1 TAATTTTT-TATTAAATTTTTATTAATTT
*
14375235 AAATTTTTTATTAAAATTTTTATTA
1 TAATTTTTTATT-AAATTTTTATTA
14375260 TATCATTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
27 4 0.09
28 12 0.26
29 21 0.45
30 10 0.21
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (28 bp):
TAATTTTTTATTAAATTTTTATTAATTT
Found at i:14375221 original size:12 final size:12
Alignment explanation
Indices: 14375204--14375259 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
14375194 TTTTATGTAT
*
14375204 TATTAATTTTTA
1 TATTAAATTTTA
14375216 TATTAAATTTTA
1 TATTAAATTTTA
*
14375228 TTAATTTAAATTTTT
1 -T-A-TTAAATTTTA
14375243 TATTAAAATTTT-
1 TATT-AAATTTTA
14375255 TATTA
1 TATTA
14375260 TATCATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 1 0.03
12 17 0.45
13 9 0.24
14 2 0.05
15 9 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTAAATTTTA
Found at i:14375236 original size:15 final size:15
Alignment explanation
Indices: 14375218--14375259 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14375208 AATTTTTATA
14375218 TTAAATTTTATTAAT
1 TTAAATTTTATTAAT
14375233 TTAAATTTT-TT-AT
1 TTAAATTTTATTAAT
*
14375246 TAAAATTTTTATTA
1 TTAAA-TTTTATTA
14375260 TATCATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 6 0.26
14 6 0.26
15 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAAATTTTATTAAT
Found at i:14381129 original size:30 final size:30
Alignment explanation
Indices: 14381093--14381156 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
14381083 AGTATGATAT
* *
14381093 TATACTATATTATATCAT-ATTAATAAATAA
1 TATACTAT-TAATATAATAATTAATAAATAA
14381123 TATACTATTAATATAATAATTAATAAATAA
1 TATACTATTAATATAATAATTAATAAATAA
14381153 TATA
1 TATA
14381157 ATACTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (30 bp):
TATACTATTAATATAATAATTAATAAATAA
Found at i:14381136 original size:11 final size:12
Alignment explanation
Indices: 14381113--14381159 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
14381103 TATATCATAT
*
14381113 TAATAAATAATA
1 TAATAATTAATA
*
14381125 TACT-ATTAATA
1 TAATAATTAATA
14381136 TAATAATTAATA
1 TAATAATTAATA
14381148 -AATAATATAATA
1 TAATAAT-TAATA
14381160 CTATTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 15 0.50
12 15 0.50
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAATTAATA
Found at i:14381823 original size:21 final size:21
Alignment explanation
Indices: 14381797--14381838 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
14381787 TATTTTTAAT
14381797 TATTTATTTA-ATTATATATTA
1 TATTTATTTATATT-TATATTA
14381818 TATTTATTTATATTTATATTA
1 TATTTATTTATATTTATATTA
14381839 AAAATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTATTTATATTTATATTA
Found at i:14381830 original size:10 final size:10
Alignment explanation
Indices: 14381797--14381834 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
14381787 TATTTTTAAT
14381797 TATTTATTTA
1 TATTTATTTA
14381807 -ATTATATATTA
1 TATT-TAT-TTA
14381818 TATTTATTTA
1 TATTTATTTA
14381828 TATTTAT
1 TATTTAT
14381835 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 3 0.12
10 13 0.52
11 6 0.24
12 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TATTTATTTA
Found at i:14381854 original size:19 final size:21
Alignment explanation
Indices: 14381827--14381880 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
14381817 ATATTTATTT
14381827 ATATTTATATTAAAAATAAT-
1 ATATTTATATTAAAAATAATA
14381847 AT-TTTATATTTAAAAATAATA
1 ATATTTATA-TTAAAAATAATA
14381868 ATATTT-TATTAAA
1 ATATTTATATTAAA
14381881 TTTAAATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.19
20 18 0.58
21 4 0.13
22 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATTTATATTAAAAATAATA
Found at i:14381871 original size:23 final size:24
Alignment explanation
Indices: 14381824--14381876 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
14381814 ATTATATTTA
14381824 TTTATATTTATATTAAAAATAATAT
1 TTTATATTTATA-TAAAAATAATAT
14381849 TTTATATTTA-A-AAATAATAATAT
1 TTTATATTTATATAAA-AATAATAT
14381872 TTTAT
1 TTTAT
14381877 TAAATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.11
23 13 0.48
24 1 0.04
25 10 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTATATTTATATAAAAATAATAT
Found at i:14381892 original size:5 final size:5
Alignment explanation
Indices: 14381875--14381918 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
14381865 ATAATATTTT
*
14381875 ATTAA ATTTAA ATCAA ATTAA ATTAA ATTAA ATTGAA ATATAA A
1 ATTAA A-TTAA ATTAA ATTAA ATTAA ATTAA ATT-AA AT-TAA A
14381919 ATAATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 21 0.62
6 12 0.35
7 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (5 bp):
ATTAA
Found at i:14382392 original size:10 final size:10
Alignment explanation
Indices: 14382374--14382465 Score: 55
Period size: 10 Copynumber: 9.1 Consensus size: 10
14382364 TAAAAAGTGA
14382374 TTTTAAAAATT
1 TTTTAAAAA-T
*
14382385 TTTTAAAATAA
1 TTTTAAAA-AT
* *
14382396 TTCT-AAAAC
1 TTTTAAAAAT
14382405 TTTT-AAAAT
1 TTTTAAAAAT
* **
14382414 CTAAAAAAAT
1 TTTTAAAAAT
*
14382424 TTTAAAAAAT
1 TTTTAAAAAT
14382434 TTTTCAAAAAT
1 TTTT-AAAAAT
*
14382445 TCTTAAATAA-
1 TTTTAAA-AAT
14382455 TTTTAAAAAT
1 TTTTAAAAAT
14382465 T
1 T
14382466 ATAATAAATT
Statistics
Matches: 63, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
9 11 0.17
10 29 0.46
11 22 0.35
12 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (10 bp):
TTTTAAAAAT
Found at i:14382431 original size:11 final size:10
Alignment explanation
Indices: 14382373--14382463 Score: 62
Period size: 11 Copynumber: 9.0 Consensus size: 10
14382363 TTAAAAAGTG
14382373 ATTTTAAAAA
1 ATTTTAAAAA
*
14382383 TTTTTTAAAATA
1 -ATTTTAAAA-A
*
14382395 ATTCT-AAAA
1 ATTTTAAAAA
*
14382404 CTTTT--AAA
1 ATTTTAAAAA
* *
14382412 ATCTAAAAAA
1 ATTTTAAAAA
14382422 ATTTTAAAAA
1 ATTTTAAAAA
*
14382432 ATTTTTCAAAA
1 A-TTTTAAAAA
*
14382443 ATTCTTAAATA
1 ATT-TTAAAAA
14382454 ATTTTAAAAA
1 ATTTTAAAAA
14382464 TTATAATAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
8 5 0.08
9 4 0.07
10 23 0.38
11 28 0.46
12 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:14383004 original size:15 final size:15
Alignment explanation
Indices: 14382973--14383008 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
14382963 TTAAAATATA
14382973 ATTAAATTACTTATT
1 ATTAAATTACTTATT
14382988 ATATAAATTAC-TATT
1 AT-TAAATTACTTATT
14383003 ATTAAA
1 ATTAAA
14383009 AATCATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 8 0.40
16 8 0.40
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATTACTTATT
Found at i:14383163 original size:21 final size:22
Alignment explanation
Indices: 14383133--14383210 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 22
14383123 TAATATAATA
14383133 ATAT-TTAAAATAGTAATATTT
1 ATATATTAAAATAGTAATATTT
14383154 AT-TATTAAAATAGTAAAAATATTT
1 ATATATTAAAATAGT---AATATTT
14383178 ATACTATTAAAATAGCT-ATATTT
1 ATA-TATTAAAATAG-TAATATTT
*
14383201 -TAAATTAAAA
1 ATATATTAAAA
14383211 GTATCTATTA
Statistics
Matches: 49, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
20 1 0.02
21 19 0.39
22 2 0.04
23 6 0.12
24 9 0.18
26 11 0.22
27 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (22 bp):
ATATATTAAAATAGTAATATTT
Found at i:14383333 original size:18 final size:18
Alignment explanation
Indices: 14383311--14383358 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
14383301 ATTTAAGTAA
14383311 ATATTAAA-AATATTCATT
1 ATATTAAATAATATT-ATT
*
14383329 TTATTAAAATAATATTATT
1 ATATT-AAATAATATTATT
14383348 ATATTAAATAA
1 ATATTAAATAA
14383359 ATTTAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 10 0.38
19 10 0.38
20 6 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATTAAATAATATTATT
Found at i:14384345 original size:21 final size:20
Alignment explanation
Indices: 14384296--14384345 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
14384286 TACCCAATTG
*
14384296 ATCCTATACAAGAAAGGATCC
1 ATCCTAT-CAAGAAAGGATCA
**
14384317 ATTATATCAAGCAAAGGATCA
1 ATCCTATCAAG-AAAGGATCA
14384338 ATCCTATC
1 ATCCTATC
14384346 CCTTGAGTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.24
Consensus pattern (20 bp):
ATCCTATCAAGAAAGGATCA
Found at i:14388163 original size:15 final size:16
Alignment explanation
Indices: 14388135--14388169 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
14388125 AAGAAGGAAG
14388135 AAAAAAATAAAAAATA
1 AAAAAAATAAAAAATA
14388151 AAAAAAATGAAAATAATA
1 AAAAAAAT-AAAA-AATA
14388169 A
1 A
14388170 TAGAGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (16 bp):
AAAAAAATAAAAAATA
Found at i:14388759 original size:18 final size:18
Alignment explanation
Indices: 14388736--14388774 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
14388726 CGTTTTTTTA
*
14388736 ATCCAAATGCCTTAAATG
1 ATCCAAATACCTTAAATG
*
14388754 ATCCAAGTACCTTAAATG
1 ATCCAAATACCTTAAATG
14388772 ATC
1 ATC
14388775 ATCATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (18 bp):
ATCCAAATACCTTAAATG
Found at i:14389654 original size:32 final size:32
Alignment explanation
Indices: 14389591--14389655 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
14389581 AAAAAATTTT
* *
14389591 AATTTAAAATTAATAAATTTATTATCTTTATA
1 AATTTAAAATTAATAAATTTATAATCATTATA
* *
14389623 AATTTAAATTTAATATATTTATGAAT-ATTATA
1 AATTTAAAATTAATAAATTTAT-AATCATTATA
14389655 A
1 A
14389656 TAAATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (32 bp):
AATTTAAAATTAATAAATTTATAATCATTATA
Found at i:14392232 original size:24 final size:24
Alignment explanation
Indices: 14392204--14392261 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
14392194 AATAAAAAAC
*
14392204 TTACTTTATTCTAAGAATATTGGT
1 TTACTTTATTCTAAGAACATTGGT
* *
14392228 TTACTTGATTCTAATAACATTGGT
1 TTACTTTATTCTAAGAACATTGGT
*
14392252 TTATTTTATT
1 TTACTTTATT
14392262 TATAAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.53
Consensus pattern (24 bp):
TTACTTTATTCTAAGAACATTGGT
Found at i:14393023 original size:21 final size:21
Alignment explanation
Indices: 14392998--14393074 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
14392988 TAATATTAAA
14392998 AAATAATTTCAAAAAAATTTT
1 AAATAATTTCAAAAAAATTTT
* * *
14393019 AAATATTTTTAAAAAAATCTT
1 AAATAATTTCAAAAAAATTTT
*
14393040 AAATAATTT--AAAAAATTAT
1 AAATAATTTCAAAAAAATTTT
14393059 -AATAACTTTCAAAAAA
1 AAATAA-TTTCAAAAAA
14393075 TCTAAAATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.11
19 11 0.23
21 31 0.66
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATAATTTCAAAAAAATTTT
Found at i:14393062 original size:18 final size:18
Alignment explanation
Indices: 14393041--14393129 Score: 60
Period size: 18 Copynumber: 4.8 Consensus size: 18
14393031 AAAAATCTTA
14393041 AATAATTTAAAAAATTAT
1 AATAATTTAAAAAATTAT
*
14393059 AATAACTTTCAAAAAATCTAA
1 AATAA-TTT-AAAAAAT-TAT
14393080 AATATTATTT--AAAATTAT
1 AATA--ATTTAAAAAATTAT
* *
14393098 AA-ACAATTAAAAGATTAT
1 AATA-ATTTAAAAAATTAT
14393116 GAA-AATTTAAAAAA
1 -AATAATTTAAAAAA
14393130 AAATCTAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
16 3 0.05
17 1 0.02
18 24 0.43
19 11 0.20
20 7 0.12
21 6 0.11
22 3 0.05
23 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAATTTAAAAAATTAT
Found at i:14393073 original size:39 final size:40
Alignment explanation
Indices: 14392997--14393100 Score: 106
Period size: 39 Copynumber: 2.6 Consensus size: 40
14392987 TTAATATTAA
* **
14392997 AAAATAATTTCAAAAAAATTTTAAATATTTTTAAAAAAATCT
1 AAAATAATTT--AAAAAATTATAAATAACTTTAAAAAAATCT
* *
14393039 TAAATAATTTAAAAAATTAT-AATAACTTTCAAAAAATCT
1 AAAATAATTTAAAAAATTATAAATAACTTTAAAAAAATCT
14393078 AAAATATTATTT--AAAATTATAAA
1 AAAATA--ATTTAAAAAATTATAAA
14393101 CAATTAAAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
39 29 0.55
40 11 0.21
41 4 0.08
42 9 0.17
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (40 bp):
AAAATAATTTAAAAAATTATAAATAACTTTAAAAAAATCT
Found at i:14393093 original size:21 final size:20
Alignment explanation
Indices: 14392997--14393093 Score: 81
Period size: 21 Copynumber: 4.7 Consensus size: 20
14392987 TTAATATTAA
*
14392997 AAAATAATTTCAAAAAAATTT
1 AAAATAATTT-AAAAAAATCT
* *
14393018 TAAATATTTTTAAAAAAATCT
1 AAAATA-ATTTAAAAAAATCT
*
14393039 TAAATAATTT-AAAAAAT-T
1 AAAATAATTTAAAAAAATCT
* *
14393057 ATAATAACTTTCAAAAAATCT
1 AAAATAA-TTTAAAAAAATCT
14393078 AAAATATTATTTAAAA
1 AAAATA--ATTTAAAA
14393094 TTATAAACAA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
18 6 0.10
19 10 0.16
20 10 0.16
21 26 0.42
22 9 0.15
23 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAAAAAAATCT
Found at i:14394726 original size:16 final size:16
Alignment explanation
Indices: 14394705--14394744 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
14394695 AAGGACAAAA
*
14394705 AAAAAAAAAGGAAGGT
1 AAAAAAAAAGGAAGAT
* *
14394721 AAAAAAAAAGTATGAT
1 AAAAAAAAAGGAAGAT
14394737 AAAAAAAA
1 AAAAAAAA
14394745 CAAAATCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (16 bp):
AAAAAAAAAGGAAGAT
Found at i:14395955 original size:20 final size:19
Alignment explanation
Indices: 14395930--14395977 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
14395920 TTATATAATG
14395930 ATTTTAATTTTGTCATTAT
1 ATTTTAATTTTGTCATTAT
* *
14395949 AATTTTATTTTTGTTATTAT
1 -ATTTTAATTTTGTCATTAT
14395969 -TTTTAATTT
1 ATTTTAATTT
14395978 CATCAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.32
20 17 0.68
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (19 bp):
ATTTTAATTTTGTCATTAT
Found at i:14397627 original size:20 final size:20
Alignment explanation
Indices: 14397597--14397643 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
14397587 CTAGGGCAGG
* *
14397597 ATAATATTTAAATATTAAAA
1 ATAATAATTAAATAATAAAA
* *
14397617 CTAATAATTAATTAATAAAA
1 ATAATAATTAAATAATAAAA
14397637 ATAATAA
1 ATAATAA
14397644 AATAATAAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAATAATTAAATAATAAAA
Found at i:14398058 original size:25 final size:25
Alignment explanation
Indices: 14398045--14398104 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
14398035 AAAATTATAC
14398045 TAATAATATTTTATGAATATTAAAA
1 TAATAATATTTTATGAATATTAAAA
*
14398070 TAATAATAATTTATGAATATTAAAA
1 TAATAATATTTTATGAATATTAAAA
14398095 TAATAATATT
1 TAATAATATT
14398105 CATATTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (25 bp):
TAATAATATTTTATGAATATTAAAA
Found at i:14398074 original size:22 final size:23
Alignment explanation
Indices: 14398046--14398126 Score: 85
Period size: 25 Copynumber: 3.5 Consensus size: 23
14398036 AAATTATACT
14398046 AATAATAT-TTTATGAATATTAA
1 AATAATATATTTATGAATATTAA
14398068 AATAATAATAATTTATGAATATTAA
1 AATAAT-AT-ATTTATGAATATTAA
* * *
14398093 AATAATAATATTCAT-ATTAATAA
1 AATAAT-ATATTTATGAATATTAA
*
14398116 AATAAAATATT
1 AATAATATATT
14398127 ATTTTATAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
22 11 0.21
23 13 0.25
24 5 0.10
25 23 0.44
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (23 bp):
AATAATATATTTATGAATATTAA
Found at i:14398266 original size:18 final size:20
Alignment explanation
Indices: 14398245--14398281 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14398235 TTAAATTAAA
14398245 ATTAA-ATAA-AATATTTTT
1 ATTAATATAATAATATTTTT
14398263 ATTAATATAATAATATTTT
1 ATTAATATAATAATATTTT
14398282 AAGTTGGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTAATATAATAATATTTTT
Found at i:14398504 original size:34 final size:33
Alignment explanation
Indices: 14398459--14398529 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
14398449 GAGTCCGTTC
* **
14398459 AAATTTGATTTTAATTTTGTTTGATTTATTAGA
1 AAATTTGATTTTAATTTTGTTTAATCCATTAGA
*
14398492 AAATTTCGATTTTGATTTTGTTTAATCCATTAGA
1 AAATTT-GATTTTAATTTTGTTTAATCCATTAGA
14398526 AAAT
1 AAAT
14398530 AGACTCAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 6 0.18
34 27 0.82
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.52
Consensus pattern (33 bp):
AAATTTGATTTTAATTTTGTTTAATCCATTAGA
Found at i:14400259 original size:20 final size:20
Alignment explanation
Indices: 14400231--14400277 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
14400221 GCATGTGACA
14400231 ATTGACGCTATAAAGGAGAT
1 ATTGACGCTATAAAGGAGAT
*
14400251 ATTGCCGCTATAAAGGAGAT
1 ATTGACGCTATAAAGGAGAT
14400271 ATTGACG
1 ATTGACG
14400278 TTACAGGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (20 bp):
ATTGACGCTATAAAGGAGAT
Found at i:14400949 original size:32 final size:33
Alignment explanation
Indices: 14400873--14400951 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 33
14400863 ATTTTAGTTA
*
14400873 TTATAAATAATT-TTAATTTAAAATTAATAAAT
1 TTATAAATAATTATAAATTTAAAATTAATAAAT
* * * * *
14400905 ATAT-CATCATTATAAATTTAAATTTAATATAT
1 TTATAAATAATTATAAATTTAAAATTAATAAAT
14400937 TTATAAAT-ATTATAA
1 TTATAAATAATTATAA
14400952 TAAATAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
31 5 0.14
32 30 0.81
33 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (33 bp):
TTATAAATAATTATAAATTTAAAATTAATAAAT
Found at i:14403568 original size:24 final size:24
Alignment explanation
Indices: 14403536--14403590 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
14403526 AAAAAACTTG
14403536 CTTTATTCTAAGAACATTGGTTTA
1 CTTTATTCTAAGAACATTGGTTTA
*
14403560 CTTTATTCTAATAACATTGGTTTA
1 CTTTATTCTAAGAACATTGGTTTA
*
14403584 TTTTATT
1 CTTTATT
14403591 TATAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (24 bp):
CTTTATTCTAAGAACATTGGTTTA
Found at i:14404343 original size:17 final size:17
Alignment explanation
Indices: 14404318--14404370 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
14404308 TTCAAAAAAG
14404318 AATTTAAAATAATTCTAA
1 AATTTAAAA-AATTCTAA
14404336 AA-TTAAAAAA-TCTAAA
1 AATTTAAAAAATTCT-AA
*
14404352 AATTTAAAAAATTTTAA
1 AATTTAAAAAATTCTAA
14404369 AA
1 AA
14404371 AAATTCTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 3 0.10
16 6 0.19
17 18 0.58
18 4 0.13
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTTAAAAAATTCTAA
Found at i:14404365 original size:9 final size:9
Alignment explanation
Indices: 14404313--14404420 Score: 53
Period size: 10 Copynumber: 11.4 Consensus size: 9
14404303 ATAATTTCAA
14404313 AAAAGAATTT
1 AAAA-AATTT
14404323 AAAATAATTCT
1 AAAA-AATT-T
14404334 --AAAA-TT
1 AAAAAATTT
*
14404340 AAAAAATCT
1 AAAAAATTT
14404349 -AAAAATTT
1 AAAAAATTT
14404357 AAAAAATTTT
1 AAAAAA-TTT
14404367 AAAAAAATTCTT
1 -AAAAAA-T-TT
*
14404379 AAATAATTT
1 AAAAAATTT
*
14404388 AATAAATTAT
1 AAAAAATT-T
* *
14404398 AATAAATTAC
1 AAAAAATT-T
*
14404408 AAAAAATCT
1 AAAAAATTT
14404417 AAAA
1 AAAA
14404421 TATTATTTAA
Statistics
Matches: 79, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
6 1 0.01
7 1 0.01
8 13 0.16
9 20 0.25
10 28 0.35
11 14 0.18
12 2 0.03
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAAATTT
Found at i:14404426 original size:29 final size:28
Alignment explanation
Indices: 14404393--14404479 Score: 68
Period size: 29 Copynumber: 3.0 Consensus size: 28
14404383 AATTTAATAA
* *
14404393 ATTATAATAAATTACAAAAAATCTAAAAT
1 ATTAT-ATAAATTAAAAAAAATCTAAAAG
* * *
14404422 ATTATTTAAAATTATAAACAAT-TAAAAG
1 ATTATAT-AAATTAAAAAAAATCTAAAAG
*
14404450 ATTATGAGAAATTCAAAAAAAAATCTAAAA
1 ATTAT-ATAAATT--AAAAAAAATCTAAAA
14404480 AATTTAACAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
28 16 0.36
29 17 0.38
30 7 0.16
31 5 0.11
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (28 bp):
ATTATATAAATTAAAAAAAATCTAAAAG
Found at i:14405995 original size:24 final size:24
Alignment explanation
Indices: 14405963--14406009 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
14405953 AAAAAAATTT
14405963 CTTTATTCTAAGAACATTGGTTTA
1 CTTTATTCTAAGAACATTGGTTTA
*
14405987 CTTTATTCTAATAACATTGGTTT
1 CTTTATTCTAAGAACATTGGTTT
14406010 GAATTTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.49
Consensus pattern (24 bp):
CTTTATTCTAAGAACATTGGTTTA
Found at i:14406189 original size:22 final size:22
Alignment explanation
Indices: 14406164--14406242 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
14406154 TATTTAGATT
14406164 AGTTTATAT-TTAATGTATTATG
1 AGTTTATATATT-ATGTATTATG
*
14406186 AGTTTATATATTATGTATTATT
1 AGTTTATATATTATGTATTATG
* * * *
14406208 A--ATATATGTTATATATTATT
1 AGTTTATATATTATGTATTATG
14406228 AGTTTATTATATTAT
1 AGTTTA-TATATTAT
14406243 AATATTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
20 17 0.36
22 21 0.45
23 9 0.19
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (22 bp):
AGTTTATATATTATGTATTATG
Found at i:14406199 original size:15 final size:15
Alignment explanation
Indices: 14406179--14406248 Score: 51
Period size: 15 Copynumber: 4.8 Consensus size: 15
14406169 ATATTTAATG
14406179 TATTATGAGT-TTATA
1 TATTAT-AGTATTATA
14406194 TATTAT-GTATTAT-
1 TATTATAGTATTATA
* *
14406207 TAATATA-TGTTATA
1 TATTATAGTATTATA
14406221 TATTATTAGT-TTATTA
1 TATTA-TAGTATTA-TA
*
14406237 TATTATAATATT
1 TATTATAGTATT
14406249 TTATTTAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
13 12 0.27
14 8 0.18
15 14 0.32
16 10 0.23
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
TATTATAGTATTATA
Found at i:14406219 original size:20 final size:20
Alignment explanation
Indices: 14406190--14406228 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14406180 ATTATGAGTT
*
14406190 TATATATTATGTATTATTAA
1 TATATATTATATATTATTAA
*
14406210 TATATGTTATATATTATTA
1 TATATATTATATATTATTA
14406229 GTTTATTATA
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:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATATTATATATTATTAA
Found at i:14412148 original size:22 final size:20
Alignment explanation
Indices: 14412131--14412170 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14412121 TGAAAAACAT
*
14412131 AAACACAATAGGGAAAAATAAA
1 AAACA-AATAGAGAAAAA-AAA
14412153 AAACAAATAGAGAAAAAA
1 AAACAAATAGAGAAAAAA
14412171 TATAGAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 11 0.65
22 5 0.29
ACGTcount: A:0.72, C:0.07, G:0.12, T:0.07
Consensus pattern (20 bp):
AAACAAATAGAGAAAAAAAA
Found at i:14412171 original size:22 final size:22
Alignment explanation
Indices: 14412131--14412172 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14412121 TGAAAAACAT
*
14412131 AAACACAATAGGGAAAAATAAA
1 AAACACAATAGGAAAAAATAAA
14412153 AAACA-AATAGAGAAAAAATA
1 AAACACAATAG-GAAAAAATA
14412173 TAGAGAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.07, G:0.12, T:0.10
Consensus pattern (22 bp):
AAACACAATAGGAAAAAATAAA
Found at i:14413398 original size:31 final size:31
Alignment explanation
Indices: 14413363--14413421 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
14413353 TTAGGTATAT
*
14413363 TTTTATTTTATATTGTGTTT-ATTTGTTTATC
1 TTTTATTTTATATTAT-TTTAATTTGTTTATC
*
14413394 TTTTATTTTATTTTATTTTAATTTGTTT
1 TTTTATTTTATATTATTTTAATTTGTTT
14413422 CTTTGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.75
Consensus pattern (31 bp):
TTTTATTTTATATTATTTTAATTTGTTTATC
Found at i:14413440 original size:21 final size:23
Alignment explanation
Indices: 14413395--14413448 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
14413385 TTGTTTATCT
*
14413395 TTTATTTTATTTTATTTTAATTTG
1 TTTA-TTTGTTTTATTTTAATTTG
*
14413419 TTTCTTTGTTTTA-TTT-ATTTG
1 TTTATTTGTTTTATTTTAATTTG
14413440 TTTATTTGT
1 TTTATTTGT
14413449 AAATATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.48
22 3 0.11
23 8 0.30
24 3 0.11
ACGTcount: A:0.15, C:0.02, G:0.07, T:0.76
Consensus pattern (23 bp):
TTTATTTGTTTTATTTTAATTTG
Found at i:14414876 original size:60 final size:59
Alignment explanation
Indices: 14414778--14414913 Score: 184
Period size: 60 Copynumber: 2.3 Consensus size: 59
14414768 TAAAATGATA
*
14414778 AAAAAGATGATCTAGACAGAGTCGAGATCAAAACAAGTGACTGAGATTGAATCACG-AGTC
1 AAAAAGATGATCTAGACAGAATCGAGATCAAAACAAGTGACTGAGATTGAA-C-CGAAGTC
* * * * *
14414838 AAAAAGATGATCTAGACTGAATTGAGATTAAAATAAGTGACTGAGATTGAACTGTAAGTC
1 AAAAAGATGATCTAGACAGAATCGAGATCAAAACAAGTGACTGAGATTGAACCG-AAGTC
14414898 AAAAAGATGATCTAGA
1 AAAAAGATGATCTAGA
14414914 TCAAGTCAGG
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
58 1 0.01
59 1 0.01
60 66 0.97
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (59 bp):
AAAAAGATGATCTAGACAGAATCGAGATCAAAACAAGTGACTGAGATTGAACCGAAGTC
Found at i:14415707 original size:16 final size:15
Alignment explanation
Indices: 14415680--14415709 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
14415670 TTTTAGTTTC
14415680 CTTTTTTTTTTTTTG
1 CTTTTTTTTTTTTTG
14415695 CTTTTTTTATTTTTT
1 CTTTTTTT-TTTTTT
14415710 TTTATTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.03, C:0.07, G:0.03, T:0.87
Consensus pattern (15 bp):
CTTTTTTTTTTTTTG
Found at i:14416024 original size:14 final size:14
Alignment explanation
Indices: 14416005--14416043 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
14415995 GCCCCATCAA
14416005 TTTCTCTTTCATTT
1 TTTCTCTTTCATTT
*
14416019 TTTCTCTTT-TTTT
1 TTTCTCTTTCATTT
*
14416032 TTTCTTTTTCAT
1 TTTCTCTTTCAT
14416044 CATTTTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTCTCTTTCATTT
Found at i:14419080 original size:3 final size:3
Alignment explanation
Indices: 14419072--14419157 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
14419062 AAAATAGTAA
14419072 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14419120 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14419158 GAAAATCTAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14419489 original size:22 final size:22
Alignment explanation
Indices: 14419464--14419530 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
14419454 CAAATTTGGG
* *
14419464 AAACCCAAAAGCAAATCAAATC
1 AAACCCAAAAGAAAATAAAATC
*
14419486 AAACTCAAAAGAAAATAAAATC
1 AAACCCAAAAGAAAATAAAATC
14419508 ATAGAACCC-AAAGAAAA-AAAATC
1 --A-AACCCAAAAGAAAATAAAATC
14419531 TTAGAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 19 0.50
23 6 0.16
24 9 0.24
25 4 0.11
ACGTcount: A:0.64, C:0.19, G:0.06, T:0.10
Consensus pattern (22 bp):
AAACCCAAAAGAAAATAAAATC
Found at i:14427548 original size:193 final size:192
Alignment explanation
Indices: 14427209--14427581 Score: 583
Period size: 193 Copynumber: 1.9 Consensus size: 192
14427199 TTTTTATTTA
*
14427209 TTAAAAAAAATATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATGATTCTTAAAATGTT
1 TTAAAAAAAATATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTT
*
14427274 CAAGTACGTTGGTAACATTAAAAGAATTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTC
66 CAAGTACGTTGGTAACATTAAAAGAATTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACTC
* *
14427339 GGAATACTTTTAGAATCTCATCTTTGGAGG-CTCGAATTTATTTTTCATAAGGAATTGCCATG
131 GGAATACTTTTAGAATCTCATCTTTGGAGGTCT-AAATTTACTTTTCATAAGGAATTGCCATG
* * * * *
14427401 TTAAAAAAATTTATTCTCGAGAAAAATAATTTAAAACTTTTTTATTGAAATAATTCTTAAAATGT
1 TTAAAAAAA-ATATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATG-
*
14427466 TTC-AGTACGTTGGTAACATTAGAAA-AACTT-TTTCTCACCTAAAGATTTCTTAAAGTATCTCT
64 TTCAAGTACGTTGGTAACATTA-AAAGAA-TTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCT
14427528 ACTCGGAATACTTTTAGAATCTCATCTTTGGAGGTCTAAATTTACTTTTCATAA
127 ACTCGGAATACTTTTAGAATCTCATCTTTGGAGGTCTAAATTTACTTTTCATAA
14427582 AAAAATTATA
Statistics
Matches: 166, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
192 9 0.05
193 147 0.89
194 10 0.06
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (192 bp):
TTAAAAAAAATATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTT
CAAGTACGTTGGTAACATTAAAAGAATTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACTC
GGAATACTTTTAGAATCTCATCTTTGGAGGTCTAAATTTACTTTTCATAAGGAATTGCCATG
Found at i:14427866 original size:14 final size:14
Alignment explanation
Indices: 14427849--14427905 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
14427839 TTCTTCATGT
*
14427849 TTTTTTATTACTTA
1 TTTTTTATTAATTA
14427863 TTTTTAATTTATTAATTA
1 -TTTT--T-TATTAATTA
*
14427881 ATTTTTATTAATTA
1 TTTTTTATTAATTA
*
14427895 TTTTTTTTTAA
1 TTTTTTATTAA
14427906 AAAAATCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
14 18 0.51
15 5 0.14
17 4 0.11
18 8 0.23
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTTATTAATTA
Found at i:14427875 original size:18 final size:18
Alignment explanation
Indices: 14427852--14427905 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
14427842 TTCATGTTTT
*
14427852 TTTATTACTTATTTTTAA
1 TTTATTAATTATTTTTAA
14427870 TTTATTAATTAATTTTT-A
1 TTTATTAATT-ATTTTTAA
* * *
14427888 TTAATTATTTTTTTTTAA
1 TTTATTAATTATTTTTAA
14427906 AAAAATCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 5 0.17
18 19 0.63
19 6 0.20
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTAATTATTTTTAA
Found at i:14428239 original size:18 final size:19
Alignment explanation
Indices: 14428202--14428240 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
14428192 CATAAATATT
*
14428202 AATAAAATAATATATAAAA
1 AATAAAATAAAATATAAAA
*
14428221 AATAAAA-AAAATTTAAAA
1 AATAAAATAAAATATAAAA
14428239 AA
1 AA
14428241 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATATAAAA
Found at i:14429163 original size:21 final size:21
Alignment explanation
Indices: 14429107--14429178 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
14429097 GGCGATCACG
14429107 GGTGGTGGCAGTGTAGGGTCT
1 GGTGGTGGCAGTGTAGGGTCT
*
14429128 GGTAGT--CAG-GT-GGGTCT
1 GGTGGTGGCAGTGTAGGGTCT
14429145 GGTGGTGGCAGTGTAGGGTCT
1 GGTGGTGGCAGTGTAGGGTCT
14429166 GGTGGTGGCAGTG
1 GGTGGTGGCAGTG
14429179 GTGCCGGGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
17 11 0.24
18 2 0.04
19 6 0.13
20 2 0.04
21 24 0.53
ACGTcount: A:0.10, C:0.10, G:0.53, T:0.28
Consensus pattern (21 bp):
GGTGGTGGCAGTGTAGGGTCT
Found at i:14429170 original size:18 final size:18
Alignment explanation
Indices: 14429109--14429170 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 18
14429099 CGATCACGGG
14429109 TGGTGGCAGTGTAGGGTC
1 TGGTGGCAGTGTAGGGTC
*
14429127 TGGTAGTCAG-GT-GGGTC
1 TGGT-GGCAGTGTAGGGTC
14429144 TGGTGGTGGCAGTGTAGGGTC
1 ---TGGTGGCAGTGTAGGGTC
14429165 TGGTGG
1 TGGTGG
14429171 TGGCAGTGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
17 5 0.14
18 12 0.33
19 8 0.22
20 6 0.17
21 5 0.14
ACGTcount: A:0.10, C:0.10, G:0.52, T:0.29
Consensus pattern (18 bp):
TGGTGGCAGTGTAGGGTC
Found at i:14429279 original size:17 final size:17
Alignment explanation
Indices: 14429233--14429280 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
14429223 TCTACTTTTT
14429233 TTTTGTATTTTTTTGTA
1 TTTTGTATTTTTTTGTA
**
14429250 TTTCATATTTTTTTGTA
1 TTTTGTATTTTTTTGTA
*
14429267 TTTTGTATCTTTTT
1 TTTTGTATTTTTTT
14429281 ATTATACTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.75
Consensus pattern (17 bp):
TTTTGTATTTTTTTGTA
Found at i:14429679 original size:48 final size:47
Alignment explanation
Indices: 14429435--14430571 Score: 1394
Period size: 48 Copynumber: 24.2 Consensus size: 47
14429425 TTTATTTATC
* * * *
14429435 GAAAATGCTCCTCTCA-CTTGAGGCTCGACAACTTTAAAAATCT--T-G
1 GAAAAAGCTCCTCTCAGC-AGAGGCTCAACAACTTT-AAAATCTCATCT
* *
14429480 GAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* *
14429527 GAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAA-ATC-T-T
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
**
14429571 GAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTGTCT
1 GAAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCT
*
14429620 GAAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
1 GAAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
14429668 GAAAAAGGCTCCTCTCAGCAGAGGCTCAAC-ACTTTAAAAATCTCATCTT
1 GAAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATC-T
* *
14429717 GGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCT
* *
14429765 GAAAAAGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAAT-TCATTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* *
14429811 GAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCA--T
1 GAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* *
14429857 GAAAAAGCTCCTC-CTAGCAGAGGCTAAACAACTTTAAAATCTCTTCTT
1 GAAAAAGCTCCTCTC-AGCAGAGGCTCAACAACTTTAAAATCTCATC-T
* * * *
14429905 GAAAAAGCTCCTCTCAACAGAGGCTCCACAATTTTAAAA-ATC-T-T
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* ** * *
14429949 GGAAAAGCTCCTCTCAATAGAGGCTCCATAACTTTAAAATCTCATCT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* * *
14429996 GAAAAAGCTCTTCTCAGCAGAGGTTCAACAACTTTAAAATCTCTTCT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* *
14430043 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTCTTCTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC-T
* ** *
14430091 AAAAAAGCTCCTCTCAATAGAGGCTCCACAACTTTAAAATCTCATCT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* *
14430138 GAAAAAGCT-CTCTCAGCAAAGGCTCAACAACTTTAAAATCTCTTCT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* * * **
14430184 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTTAAATTTTTTCTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC-T
* *
14430232 GAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATCT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* * * *
14430279 GAAAAAGTTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTTCTTCTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC-T
* * * **
14430327 GAAAAAGCTCCTCTCAACAGAGGCTCAATAACTTTAAAATTTTTTCTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC-T
* * *
14430375 GAAAAAGCTCATCTCAACAGAGGCTCCACAACTTTAAAATCTCATCT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* *
14430422 GAAAGAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATCT--TCTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC-T
*
14430468 GAAAAAGCTCCTCTCAACAGAGGCTC-ACAACTTTAAAATCTCATCT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
* * *
14430514 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAATTTCTTCTT
1 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC-T
*
14430562 AAAAAAGCTC
1 GAAAAAGCTC
14430572 ATCTGTTAAA
Statistics
Matches: 961, Mismatches: 100, Indels: 59
0.86 0.09 0.05
Matches are distributed among these distances:
44 51 0.05
45 111 0.12
46 118 0.12
47 302 0.31
48 320 0.33
49 59 0.06
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.27
Consensus pattern (47 bp):
GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
Found at i:14429871 original size:95 final size:92
Alignment explanation
Indices: 14429435--14430571 Score: 1287
Period size: 95 Copynumber: 12.1 Consensus size: 92
14429425 TTTATTTATC
* * * *
14429435 GAAAATGCTCCTCTC-ACTTGAGGCTCGACAACTTTAAAAATCT--TGGAAAAGGCTCCTCTCAG
1 GAAAAAGCTCCTCTCAAC-AGAGGCTCAACAACTTT-AAAATCTCAT-GAAAAAGCTCCTCTCAG
14429497 CAGAGGCTCAACAACTTTAAAATCTCATTT
63 CAGAGGCTCAACAACTTTAAAATCTCATTT
* *
14429527 GAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCT--TGAAAAAGGCTCCTCTCAGC
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTT-AAAATCTCATGAAAAA-GCTCCTCTCAGC
** *
14429590 AGAGGCTCAACAACTTTAAAAATCTTGTCT
64 AGAGGCTCAACAACTTT-AAAATCTCATTT
* *
14429620 GAAAAAGGCTCCTTTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTGAAAAAGGCTCCTCTCA
1 GAAAAA-GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCA--TGAAAAA-GCTCCTCTCA
14429685 GCAGAGGCTCAAC-ACTTTAAAAATCTCATCTT
62 GCAGAGGCTCAACAACTTT-AAAATCTCAT-TT
* * *
14429717 GGAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATTTGAAAAAGCTCCTTTCAG
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTT-AAAATCTCA--TGAAAAAGCTCCTCTCAG
14429782 CAGAGGCTCAACAACTTTAAAAT-TCATTT
63 CAGAGGCTCAACAACTTTAAAATCTCATTT
*
14429811 GAAAAGGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATGAAAAAGCTCCTC-CTAGC
1 GAAAA-AGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATGAAAAAGCTCCTCTC-AGC
* *
14429875 AGAGGCTAAACAACTTTAAAATCTCTTCTT
64 AGAGGCTCAACAACTTTAAAATCTCAT-TT
* * * **
14429905 GAAAAAGCTCCTCTCAACAGAGGCTCCACAATTTTAAAAATCT--TGGAAAAGCTCCTCTCAATA
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTT-AAAATCTCATGAAAAAGCTCCTCTCAGCA
* * *
14429968 GAGGCTCCATAACTTTAAAATCTCATCT
65 GAGGCTCAACAACTTTAAAATCTCATTT
* * * *
14429996 GAAAAAGCTCTTCTCAGCAGAGGTTCAACAACTTTAAAATCTCTTCTGAAAAAGCTCCTCTCAGC
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTC--ATGAAAAAGCTCCTCTCAGC
* *
14430061 AGAGGCTCAACAACTTTAAAATTTCTTCTT
64 AGAGGCTCAACAACTTTAAAATCTCAT-TT
* * *
14430091 AAAAAAGCTCCTCTCAATAGAGGCTCCACAACTTTAAAATCTCATCTGAAAAAGCT-CTCTCAGC
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCA--TGAAAAAGCTCCTCTCAGC
*
14430155 AAAGGCTCAACAACTTTAAAATCTC-TTCT
64 AGAGGCTCAACAACTTTAAAATCTCATT-T
* * * * * *
14430184 GAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTTAAATTTTTTCTTGAAAAAGCTCCTCTCAA
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAA-CTTTAAA--ATCTCATGAAAAAGCTCCTCTCAG
* *
14430249 CAGAGGCTCCACAACTTTAAAATCTCATCT
63 CAGAGGCTCAACAACTTTAAAATCTCATTT
* ** * *
14430279 GAAAAAGTTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTTCTTCTTGAAAAAGCTCCTCTCAA
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA--TC-TCATGAAAAAGCTCCTCTCAG
* * **
14430344 CAGAGGCTCAATAACTTTAAAATTTTTTCTT
63 CAGAGGCTCAACAACTTTAAAATCTCAT-TT
* * * *
14430375 GAAAAAGCTCATCTCAACAGAGGCTCCACAACTTTAAAATCTCATCTGAAAGAGCTCCTCTTAGC
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCA--TGAAAAAGCTCCTCTCAGC
14430440 AGAGGCTCAACAACTTTAAAATCT--TCTT
64 AGAGGCTCAACAACTTTAAAATCTCAT-TT
14430468 GAAAAAGCTCCTCTCAACAGAGGCTC-ACAACTTTAAAATCTCATCTGAAAAAGCTCCTCTCAGC
1 GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCA--TGAAAAAGCTCCTCTCAGC
* * *
14430532 AGAGGCTCAACAATTTTAAAATTTCTTCTT
64 AGAGGCTCAACAACTTTAAAATCTCAT-TT
*
14430562 AAAAAAGCTC
1 GAAAAAGCTC
14430572 ATCTGTTAAA
Statistics
Matches: 910, Mismatches: 97, Indels: 74
0.84 0.09 0.07
Matches are distributed among these distances:
90 7 0.01
91 37 0.04
92 199 0.22
93 114 0.13
94 164 0.18
95 222 0.24
96 108 0.12
97 59 0.06
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.27
Consensus pattern (92 bp):
GAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATGAAAAAGCTCCTCTCAGCAG
AGGCTCAACAACTTTAAAATCTCATTT
Found at i:14430597 original size:124 final size:120
Alignment explanation
Indices: 14430461--14430691 Score: 374
Period size: 124 Copynumber: 1.9 Consensus size: 120
14430451 AACTTTAAAA
*
14430461 TCTTCTTGAAAAAGCTCCTCTCAACAGAGGCT-CACAACTTTAAAATCTCATCTGAAAAAGCTCC
1 TCTTCTTAAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATCTG-AAAAGCTCC
*
14430525 TCTCAGCAGAGGCTCAACAATTTTAAAATTTCTTCTTAAAAAAGCTCATCTGTTAAAATT
65 TCT---CAGAGGCTCAACAACTTTAAAA-TTCTTCTTAAAAAAGCTCATCTGTTAAAATT
*
14430585 TCTTCTTAAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCTTCTGAAAAGCTCCT
1 TCTTCTTAAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATCTGAAAAGCTCCT
*
14430650 CTCAGAGGCTCAACAACTTTAAAATTCTTCTTGAAAAAGCTC
66 CTCAGAGGCTCAACAACTTTAAAATTCTTCTTAAAAAAGCTC
14430692 CTCTCAACAG
Statistics
Matches: 102, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
120 17 0.17
121 21 0.21
124 43 0.42
125 21 0.21
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (120 bp):
TCTTCTTAAAAAAGCTCCTCTCAACAGAGGCTCCACAACTTTAAAATCTCATCTGAAAAGCTCCT
CTCAGAGGCTCAACAACTTTAAAATTCTTCTTAAAAAAGCTCATCTGTTAAAATT
Found at i:14430717 original size:47 final size:47
Alignment explanation
Indices: 14430577--14430724 Score: 225
Period size: 47 Copynumber: 3.2 Consensus size: 47
14430567 AGCTCATCTG
* *
14430577 TTAAAATTTCTTCTTAAAAAAGCTCCTCTCAACAGAGGCTCCACAACT
1 TTAAAA-TTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACT
14430625 TTAAAATCTCTTC-TG-AAAAGCTCCTCT---CAGAGGCTCAACAACT
1 TTAAAAT-TCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACT
14430668 TTAAAATTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACT
1 TTAAAATTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACT
14430715 TTAAAATTCT
1 TTAAAATTCT
14430725 CTTCTGTTTT
Statistics
Matches: 92, Mismatches: 2, Indels: 13
0.86 0.02 0.12
Matches are distributed among these distances:
42 5 0.05
43 24 0.26
44 12 0.13
46 12 0.13
47 28 0.30
48 11 0.12
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (47 bp):
TTAAAATTCTTCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACT
Found at i:14439035 original size:4 final size:5
Alignment explanation
Indices: 14438986--14439046 Score: 58
Period size: 5 Copynumber: 12.6 Consensus size: 5
14438976 AATAAACATT
* *
14438986 TTTTG TTTTG TTTTG TTTTG -TTT- TTGTG TTTTGAG ATTT- TTTTG -TTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT--G TTTTG TTTTG TTTTG
14439034 TTTTG TTTTG TTT
1 TTTTG TTTTG TTT
14439047 AGTATTATAC
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
4 12 0.26
5 30 0.65
7 4 0.09
ACGTcount: A:0.03, C:0.00, G:0.20, T:0.77
Consensus pattern (5 bp):
TTTTG
Found at i:14439515 original size:15 final size:15
Alignment explanation
Indices: 14439488--14439521 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14439478 TTTTTATTGT
14439488 TTTTGATTTGTTTTG
1 TTTTGATTTGTTTTG
14439503 TTTT-ATTTGGTTTTG
1 TTTTGATTT-GTTTTG
14439518 TTTT
1 TTTT
14439522 TTTTTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.06, C:0.00, G:0.18, T:0.76
Consensus pattern (15 bp):
TTTTGATTTGTTTTG
Found at i:14440320 original size:193 final size:192
Alignment explanation
Indices: 14439981--14440333 Score: 582
Period size: 193 Copynumber: 1.8 Consensus size: 192
14439971 TTTTTATTTA
*
14439981 TTAAAAAAAATATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATGATTCTTAAAATGTT
1 TTAAAAAAAATATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTT
* *
14440046 TAAGTACGTTGGTAATATTAAAAGAATTCTTTCTCACCTAGAGATTTCTTAAAGCATCTCTACTC
66 TAAGTACGTTGGTAACATTAAAAGAATTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACTC
14440111 GGAATACTTTTAGAATCTCATCTTTGGAGGCTCGAATTTATTTTTCACAAGGAATTGCCATG
131 GGAATACTTTTAGAATCTCATCTTTGGAGGCTCGAATTTATTTTTCACAAGGAATTGCCATG
* * * * *
14440173 TTAAAAAAATTTATTCTCGAGAAAAATAATTTAAAACTTTTTTATTGAAATAATTCTTAAAATGT
1 TTAAAAAAA-ATATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGT
* * *
14440238 TTCAGTACGTTGGTAACATTAGAAGAACTT-TTTCTCACCTAAAGATTTCTTAAAGTATCTCTAC
65 TTAAGTACGTTGGTAACATTAAAAGAA-TTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTAC
14440302 TCGGAATACTTTTAGAATCTCATCTTTGGAGG
129 TCGGAATACTTTTAGAATCTCATCTTTGGAGG
14440334 TCTAAATTTA
Statistics
Matches: 148, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
192 9 0.06
193 137 0.93
194 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (192 bp):
TTAAAAAAAATATTCTCAAGAAAAATAAATCAAAACCTTTTTATTGAAATAATTCTTAAAATGTT
TAAGTACGTTGGTAACATTAAAAGAATTCTTTCTCACCTAAAGATTTCTTAAAGCATCTCTACTC
GGAATACTTTTAGAATCTCATCTTTGGAGGCTCGAATTTATTTTTCACAAGGAATTGCCATG
Found at i:14440659 original size:14 final size:14
Alignment explanation
Indices: 14440640--14440675 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14440630 TTACTTTTAA
14440640 TTTATTAATTAATT
1 TTTATTAATTAATT
*
14440654 TTTATTAATTATTT
1 TTTATTAATTAATT
*
14440668 TTTTTTAA
1 TTTATTAA
14440676 AAAATCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTAATTAATT
Found at i:14441917 original size:18 final size:18
Alignment explanation
Indices: 14441894--14441955 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 18
14441884 CGATCACGGG
14441894 TGGTGGCAGTGTAGGGTC
1 TGGTGGCAGTGTAGGGTC
14441912 TGGTGGTCAG-GT-GGGTC
1 TGGTGG-CAGTGTAGGGTC
14441929 TGGTGGTGGCAGTGTAGGGTC
1 ---TGGTGGCAGTGTAGGGTC
14441950 TGGTGG
1 TGGTGG
14441956 GTTTGATGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
17 5 0.13
18 14 0.37
19 6 0.16
20 8 0.21
21 5 0.13
ACGTcount: A:0.08, C:0.10, G:0.53, T:0.29
Consensus pattern (18 bp):
TGGTGGCAGTGTAGGGTC
Found at i:14441918 original size:21 final size:21
Alignment explanation
Indices: 14441892--14441955 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
14441882 GGCGATCACG
14441892 GGTGGTGGCAGTGTAGGGTCT
1 GGTGGTGGCAGTGTAGGGTCT
14441913 GGTGGT--CAG-GT-GGGTCT
1 GGTGGTGGCAGTGTAGGGTCT
14441930 GGTGGTGGCAGTGTAGGGTCT
1 GGTGGTGGCAGTGTAGGGTCT
14441951 GGTGG
1 GGTGG
14441956 GTTTGATGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
17 12 0.31
18 2 0.05
19 6 0.15
20 2 0.05
21 17 0.44
ACGTcount: A:0.08, C:0.09, G:0.55, T:0.28
Consensus pattern (21 bp):
GGTGGTGGCAGTGTAGGGTCT
Found at i:14441957 original size:30 final size:30
Alignment explanation
Indices: 14441916--14441972 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
14441906 AGGGTCTGGT
*
14441916 GGTCAGGTGGGTCTGGTGGTGGCAGTGTAG
1 GGTCAGGTGGGTCTGATGGTGGCAGTGTAG
* *
14441946 GGTCTGGTGGGTTTGATGGTGGCAGTG
1 GGTCAGGTGGGTCTGATGGTGGCAGTG
14441973 GTGCCGGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.09, C:0.09, G:0.53, T:0.30
Consensus pattern (30 bp):
GGTCAGGTGGGTCTGATGGTGGCAGTGTAG
Found at i:14442063 original size:17 final size:17
Alignment explanation
Indices: 14442026--14442064 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14442016 TTCTACTTTT
*
14442026 TTTTTGTATTTCATATT
1 TTTTTGTATTTCATATC
**
14442043 TTTTTGTATTTTGTATC
1 TTTTTGTATTTCATATC
14442060 TTTTT
1 TTTTT
14442065 ATTATACTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (17 bp):
TTTTTGTATTTCATATC
Found at i:14443468 original size:14 final size:15
Alignment explanation
Indices: 14443449--14443477 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14443439 AGAGAATTTC
14443449 ATAAT-ATAATTTTT
1 ATAATAATAATTTTT
14443463 ATAATAATAATTTTT
1 ATAATAATAATTTTT
14443478 TCATCCTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATAATAATTTTT
Found at i:14443624 original size:39 final size:39
Alignment explanation
Indices: 14443581--14443676 Score: 183
Period size: 39 Copynumber: 2.5 Consensus size: 39
14443571 ATACATTTTT
14443581 AATCTTACCAAACTATTGGAGGATCAAAATCTTGAATTA
1 AATCTTACCAAACTATTGGAGGATCAAAATCTTGAATTA
*
14443620 AATCTTACCAAACTATTGGAGGTTCAAAATCTTGAATTA
1 AATCTTACCAAACTATTGGAGGATCAAAATCTTGAATTA
14443659 AATCTTACCAAACTATTG
1 AATCTTACCAAACTATTG
14443677 AAAGATTTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (39 bp):
AATCTTACCAAACTATTGGAGGATCAAAATCTTGAATTA
Found at i:14443661 original size:102 final size:101
Alignment explanation
Indices: 14443465--14443646 Score: 233
Period size: 102 Copynumber: 1.8 Consensus size: 101
14443455 TAATTTTTAT
* * *** *
14443465 AATAATAATTTTTTCATCCTACCAAACTATTTGAGGATTTTAATCTTGAATTAAGTCGTACCAAA
1 AATAATAATTTTTTAATCCTACCAAACTATTGGAGGATCAAAATCTTGAATTAAATCGTACCAAA
* *
14443530 CTATTGAAGGATTTAATGAATTTTTTAAATAAAATAA
66 CTATTGAAGGATTCAA-GAATTTATTAAATAAAATAA
* *
14443567 AATAATACA-TTTTTAATCTTACCAAACTATTGGAGGATCAAAATCTTGAATTAAATCTTACCAA
1 AATAATA-ATTTTTTAATCCTACCAAACTATTGGAGGATCAAAATCTTGAATTAAATCGTACCAA
*
14443631 ACTATTGGAGG-TTCAA
65 ACTATTGAAGGATTCAA
14443647 AATCTTGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
101 4 0.06
102 64 0.93
103 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (101 bp):
AATAATAATTTTTTAATCCTACCAAACTATTGGAGGATCAAAATCTTGAATTAAATCGTACCAAA
CTATTGAAGGATTCAAGAATTTATTAAATAAAATAA
Found at i:14444510 original size:24 final size:24
Alignment explanation
Indices: 14444461--14444507 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
14444451 ATAAGGCAAC
* *
14444461 AAATATCATACTAATTGAATTCCA
1 AAATATCATACTAATTAAAATCCA
14444485 AAATATCATACTAATTCAAAATC
1 AAATATCATACTAATT-AAAATC
14444508 AAACTCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATATCATACTAATTAAAATCCA
Found at i:14446105 original size:16 final size:17
Alignment explanation
Indices: 14446074--14446105 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14446064 TTAAAAATAG
14446074 AATTTTCACAATTCTAA
1 AATTTTCACAATTCTAA
14446091 AATTTTCAC-ATTCTA
1 AATTTTCACAATTCTA
14446106 TGAGTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTTCACAATTCTAA
Found at i:14448052 original size:44 final size:44
Alignment explanation
Indices: 14447989--14448073 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 44
14447979 ACACCAGTGT
14447989 TAGGATTCTAAAGGTGGCT-CTCA-CTGTGTAGCACTTAGCTCTTG
1 TAGGATTCTAAAGGTGGCTCCT-ATC-GTGTAGCACTTAGCTCTTG
* *
14448033 TAGGATTGTAAAGGTGGCTCCTATCGTGTATCACTTAGCTC
1 TAGGATTCTAAAGGTGGCTCCTATCGTGTAGCACTTAGCTC
14448074 CTATTCGACT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 34 0.92
45 3 0.08
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (44 bp):
TAGGATTCTAAAGGTGGCTCCTATCGTGTAGCACTTAGCTCTTG
Found at i:14449970 original size:19 final size:20
Alignment explanation
Indices: 14449925--14449975 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
14449915 TTTATTCAAA
*
14449925 ATATCATTTATTATTATTTT
1 ATATTATTTATTATTATTTT
14449945 ATTTATTATTTATTATT-TTTT
1 A--TATTATTTATTATTATTTT
*
14449966 ATATTGTTTA
1 ATATTATTTA
14449976 AATAAACGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 8 0.30
20 1 0.04
21 5 0.19
22 13 0.48
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
ATATTATTTATTATTATTTT
Found at i:14450111 original size:14 final size:13
Alignment explanation
Indices: 14450092--14450130 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
14450082 AATTTTCTTT
14450092 AAAAATTACATTTA
1 AAAAATT-CATTTA
14450106 AAAAATTCATTTA
1 AAAAATTCATTTA
**
14450119 AGCAATTCATTT
1 AAAAATTCATTT
14450131 CTTTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (13 bp):
AAAAATTCATTTA
Found at i:14450837 original size:9 final size:10
Alignment explanation
Indices: 14450793--14450839 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
14450783 CCAATGACCC
14450793 CAAAAAATGT
1 CAAAAAATGT
*
14450803 CAAAAAATTT
1 CAAAAAATGT
*
14450813 GAAAAAATGT
1 CAAAAAATGT
14450823 CAAAAAAT-T
1 CAAAAAATGT
*
14450832 CTAAAAAT
1 CAAAAAAT
14450840 ATTCCTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.23
Consensus pattern (10 bp):
CAAAAAATGT
Found at i:14450838 original size:20 final size:20
Alignment explanation
Indices: 14450794--14450831 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14450784 CAATGACCCC
14450794 AAAAAATGTCAAAAAATTTG
1 AAAAAATGTCAAAAAATTTG
14450814 AAAAAATGTCAAAAAATT
1 AAAAAATGTCAAAAAATT
14450832 CTAAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (20 bp):
AAAAAATGTCAAAAAATTTG
Found at i:14451414 original size:3 final size:3
Alignment explanation
Indices: 14451408--14451467 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
14451398 GAAATAAATA
14451408 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14451456 AAT AAT AAT AAT
1 AAT AAT AAT AAT
14451468 TTTATGAGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14456252 original size:10 final size:9
Alignment explanation
Indices: 14456223--14456357 Score: 70
Period size: 10 Copynumber: 14.4 Consensus size: 9
14456213 CCATTTTCAT
14456223 TTTTATTT-
1 TTTTATTTA
14456231 TTATTATTTTA
1 TT-TTA-TTTA
14456242 TTTTATCTTA
1 TTTTAT-TTA
14456252 TCTTT-TATTA
1 T-TTTAT-TTA
14456262 TTCTTATTT-
1 TT-TTATTTA
14456271 TCTTTA-TTA
1 T-TTTATTTA
14456280 TTCTTA-TTA
1 TT-TTATTTA
14456289 TTCTTATTTA
1 TT-TTATTTA
*
14456299 TTATATTTTA
1 TTTTA-TTTA
*
14456309 TTATTATCTA
1 TT-TTATTTA
14456319 TTATTATTTA
1 TT-TTATTTA
*
14456329 TTATATTT-
1 TTTTATTTA
14456337 TATTTATTTA
1 T-TTTATTTA
14456347 -TTTATTT-
1 TTTTATTTA
14456354 TTTT
1 TTTT
14456358 GACCTTATCT
Statistics
Matches: 104, Mismatches: 7, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
8 16 0.15
9 35 0.34
10 45 0.43
11 8 0.08
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTATTTA
Found at i:14456280 original size:3 final size:3
Alignment explanation
Indices: 14456225--14456340 Score: 68
Period size: 3 Copynumber: 39.7 Consensus size: 3
14456215 ATTTTCATTT
* * * *
14456225 TTA TTT TTA TTA TT- TTA TT- TTA -TC TTA TCTT TTA TTA TTC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * *
14456268 TT- TTCT TTA TTA TTC TTA TTA TTC TTA TTTA TTA -TA TT- TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
14456312 TTA TCTA TTA TTA TTTA TTA -TA TT- TTA TT
1 TTA T-TA TTA TTA -TTA TTA TTA TTA TTA TT
14456341 TATTTATTTA
Statistics
Matches: 87, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
2 15 0.17
3 59 0.68
4 13 0.15
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:14456299 original size:52 final size:51
Alignment explanation
Indices: 14456215--14456354 Score: 134
Period size: 52 Copynumber: 2.8 Consensus size: 51
14456205 TGTAGGGCCC
* * *
14456215 ATTTTCATTT-TTATTTTTATTATTTTATTTTATCTTATCTTTTATTATTCT-T
1 ATTTTC-TTTATTATTCTTATTATTTTATTTTA--TTATATTTTATTATTATCT
14456267 ATTTTCTTTATTATTCTTATTATTCTTA-TTTATTATATTTTATTATTATCT
1 ATTTTCTTTATTATTCTTATTATT-TTATTTTATTATATTTTATTATTATCT
* *
14456318 ATTATTATTTATTA-TATT-TTA-TTTA-TTTATT-TATTTT
1 ATT-TTCTTTATTATTCTTATTATTTTATTTTATTATATTTT
14456355 TTTGACCTTA
Statistics
Matches: 79, Mismatches: 5, Indels: 13
0.81 0.05 0.13
Matches are distributed among these distances:
47 6 0.08
48 9 0.11
49 1 0.01
50 18 0.23
51 10 0.13
52 32 0.41
53 3 0.04
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (51 bp):
ATTTTCTTTATTATTCTTATTATTTTATTTTATTATATTTTATTATTATCT
Found at i:14456328 original size:30 final size:29
Alignment explanation
Indices: 14456215--14456340 Score: 105
Period size: 30 Copynumber: 4.3 Consensus size: 29
14456205 TGTAGGGCCC
* * *
14456215 ATTTTCATTTTTATTTTTATTATTTTATTTT
1 ATTTT-ATTATTATTATTATTA-TTTATTAT
* * *
14456246 ATCTTATCTTTTATTATTCTTATTT-TCT-T
1 ATTTTAT-TATTATTATTATTATTTAT-TAT
* * *
14456275 -TATTATTCTTATTATTCTTATTTATTAT
1 ATTTTATTATTATTATTATTATTTATTAT
14456303 ATTTTATTATTATCTATTATTATTTATTAT
1 ATTTTATTATTAT-TATTATTATTTATTAT
14456333 ATTTTATT
1 ATTTTATT
14456341 TATTTATTTA
Statistics
Matches: 81, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
27 17 0.21
28 7 0.09
29 12 0.15
30 29 0.36
31 16 0.20
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (29 bp):
ATTTTATTATTATTATTATTATTTATTAT
Found at i:14456522 original size:37 final size:37
Alignment explanation
Indices: 14456481--14456551 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
14456471 AAAGATTGAA
* *
14456481 TCTCAATCTCAGAGGGAGTTAGGATTGATCAGAAGAG
1 TCTCAATCTCAAAGGGAGTTAGGATTGATAAGAAGAG
*
14456518 TCTCAATCTCAAAGGGAGTTGGGATTGATAAGAA
1 TCTCAATCTCAAAGGGAGTTAGGATTGATAAGAA
14456552 ACTCTTCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (37 bp):
TCTCAATCTCAAAGGGAGTTAGGATTGATAAGAAGAG
Found at i:14457266 original size:19 final size:19
Alignment explanation
Indices: 14457224--14457288 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
14457214 AGCCATTTCG
* *
14457224 ATTTTTTTTGGTAATTTTGT
1 ATTTTTTTTTGT-ATTTTTT
14457244 -TTTTTTTTTGTATTTTTT
1 ATTTTTTTTTGTATTTTTT
* *
14457262 ATTTTATTTATGTGTTTGTTT
1 ATTTT-TTTTTGTATTT-TTT
14457283 ATTTTT
1 ATTTTT
14457289 AAGAGTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 6 0.16
19 14 0.37
20 10 0.26
21 8 0.21
ACGTcount: A:0.12, C:0.00, G:0.11, T:0.77
Consensus pattern (19 bp):
ATTTTTTTTTGTATTTTTT
Found at i:14457587 original size:60 final size:59
Alignment explanation
Indices: 14457483--14457757 Score: 267
Period size: 60 Copynumber: 4.6 Consensus size: 59
14457473 GTTTTTGGGG
* * * * *
14457483 AAAGTTAAAAATATCAATTTCCCTTGAAAATAAAAAGGTTTAAAAAATATATTTTTAAGGA
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAA-TTTTAAAAAATATATTTTTAAGGA
* * *
14457544 AAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAATTTGTAAAAAAT-T-TTTTGAAGG-
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT-TAAAAAATATATTTTTAAGGA
* * * *
14457601 AAAGTTGAAAATATCAA-TTTCCTTTGAAAATAAAAAGGTTTAAAAAAATATATTTTTAGGGA
1 AAAGTTGAAAGTATCAATTTTCC-TTAAAAAT-AAAA--TTTTAAAAAATATATTTTTAAGGA
* *
14457663 AAAGTTGGAAGTATCAATTTTCCTTAAAAATAAAAATTATCAAGAAAA-ATA-TTTTAAGGA
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATT-TTAA-AAAATATATTTTTAAGGA
* *
14457723 AAAGTTAAAAGTATCAACTTTCCTT-AAAATAAAAT
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAT
14457758 CTCTTAAATG
Statistics
Matches: 180, Mismatches: 23, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
56 4 0.02
57 22 0.12
58 17 0.09
59 15 0.08
60 48 0.27
61 38 0.21
62 31 0.17
63 5 0.03
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (59 bp):
AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTAAAAAATATATTTTTAAGGA
Found at i:14457589 original size:118 final size:120
Alignment explanation
Indices: 14457465--14457756 Score: 387
Period size: 118 Copynumber: 2.4 Consensus size: 120
14457455 TTGGAGCACG
14457465 AAAAAAATGTTTTTGGGGAAAGTTAAAAATATCAATTTCCCTTGAAAATAAAAAGGTTT-AAAAA
1 AAAAAAAT-TTTTTGGGGAAAGTTAAAAATATCAATTTCCCTTGAAAATAAAAAGGTTTAAAAAA
* * *
14457529 ATATATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAAT-AAAATT-TG
65 ATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAATTATC
* * * *
14457583 TAAAAAATTTTTTGAAGGAAAGTTGAAAATATCAATTTCCTTTGAAAATAAAAAGGTTTAAAAAA
1 AAAAAAATTTTTTG-GGGAAAGTTAAAAATATCAATTTCCCTTGAAAATAAAAAGGTTTAAAAAA
* *
14457648 ATATATTTTTAGGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAATAAAAATTATC
65 ATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAATTATC
** * *
14457704 AAGAAAAATATTTTAAGGAAAAGTTAAAAGTATCAACTTT-CCTT-AAAATAAAA
1 AA-AAAAAT-TTTTTGGGGAAAGTTAAAAATATCAA-TTTCCCTTGAAAATAAAA
14457757 TCTCTTAAAT
Statistics
Matches: 150, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
117 6 0.04
118 48 0.32
119 47 0.31
120 6 0.04
121 11 0.07
122 25 0.17
123 7 0.05
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (120 bp):
AAAAAAATTTTTTGGGGAAAGTTAAAAATATCAATTTCCCTTGAAAATAAAAAGGTTTAAAAAAA
TATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAATTATC
Found at i:14467907 original size:33 final size:33
Alignment explanation
Indices: 14467843--14467923 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 33
14467833 GGAGTCTAAA
* **
14467843 AGATACAAACGCCACTAATGTAGAGGTGTTTTC
1 AGATACAAACGCCACTAAAGTAGAGACGTTTTC
* * *
14467876 AGATTCAAACGCCTCTAAAGTAGCGACGTTTTC
1 AGATACAAACGCCACTAAAGTAGAGACGTTTTC
* *
14467909 AGTTACAAATGCCAC
1 AGATACAAACGCCAC
14467924 CAATGCAACA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (33 bp):
AGATACAAACGCCACTAAAGTAGAGACGTTTTC
Found at i:14467941 original size:133 final size:134
Alignment explanation
Indices: 14467670--14467948 Score: 303
Period size: 133 Copynumber: 2.1 Consensus size: 134
14467660 AATAATGGTG
* * *
14467670 TTTTTCTCATAAAAATGCCACTAAATTAGCAATGTCTAAAAGATATAAATGCTACTAATATAGAG
1 TTTTTCTCATAAAAAT-CCACTAAATTAGCAATGTCTAAAAGATACAAACGCCACTAATATAGAG
* * * * * * *
14467735 GCATTTTTAGATTCAAACGCTTCTAAAGTAACAACATTTTTAGTTATAAACACTATCAAAGCAAT
65 GCATTTTCAGATTCAAACGCCTCTAAAGTAACAACATTTTCAGTTACAAACACCACCAAAGCAAC
* *
14467800 GTC-G
130 ATCAT
* * *
14467804 TTTTTCTCATAAAATAT-CACTGAATTAGCGGA-GTCTAAAAGATACAAACGCCACTAATGTAGA
1 TTTTTCTCATAAAA-ATCCACTAAATTAGC-AATGTCTAAAAGATACAAACGCCACTAATATAGA
** * * * ** *
14467867 GGTGTTTTCAGATTCAAACGCCTCTAAAGTAGCGACGTTTTCAGTTACAAATGCCACCAATGCAA
64 GGCATTTTCAGATTCAAACGCCTCTAAAGTAACAACATTTTCAGTTACAAACACCACCAAAGCAA
14467932 CATCAT
129 CATCAT
14467938 TTTTTCTCATA
1 TTTTTCTCATA
14467949 TAAACGTCAC
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
133 91 0.76
134 26 0.22
135 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (134 bp):
TTTTTCTCATAAAAATCCACTAAATTAGCAATGTCTAAAAGATACAAACGCCACTAATATAGAGG
CATTTTCAGATTCAAACGCCTCTAAAGTAACAACATTTTCAGTTACAAACACCACCAAAGCAACA
TCAT
Found at i:14471467 original size:26 final size:26
Alignment explanation
Indices: 14471436--14471490 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
14471426 CAAGGTGATT
14471436 AAATTTCTCTTTGCTCAATGACCAAA
1 AAATTTCTCTTTGCTCAATGACCAAA
* *
14471462 AAATTTCTCTTTGTTCAATGGCCAAA
1 AAATTTCTCTTTGCTCAATGACCAAA
14471488 AAA
1 AAA
14471491 ATGTATCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (26 bp):
AAATTTCTCTTTGCTCAATGACCAAA
Found at i:14478907 original size:13 final size:13
Alignment explanation
Indices: 14478889--14478915 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14478879 TCATGCTAGA
14478889 ACAAAGCACATTG
1 ACAAAGCACATTG
14478902 ACAAAGCACATTG
1 ACAAAGCACATTG
14478915 A
1 A
14478916 TGTTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.15, T:0.15
Consensus pattern (13 bp):
ACAAAGCACATTG
Found at i:14480902 original size:23 final size:23
Alignment explanation
Indices: 14480875--14480921 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
14480865 TAATTAAAAA
*
14480875 AATATGATATAGGTATATCTAAT
1 AATATGATATAGGTACATCTAAT
*
14480898 AATATGATATAGGTACATTTAAT
1 AATATGATATAGGTACATCTAAT
14480921 A
1 A
14480922 TAGGAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (23 bp):
AATATGATATAGGTACATCTAAT
Done.