Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 14 of 117
Found at i:4087348 original size:32 final size:32
Alignment explanation
Indices: 4087314--4087378 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
4087304 TTATTTTTTA
4087314 TTTATAAAATTAAACTTACAT-ATTT-AATTATAT
1 TTTA-AAAATTAAA-TTA-ATAATTTAAATTATAT
*
4087347 TTTAAAAATTATATTAATAATTTAAATTATAT
1 TTTAAAAATTAAATTAATAATTTAAATTATAT
4087379 AAATTATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 2 0.07
31 7 0.24
32 16 0.55
33 4 0.14
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TTTAAAAATTAAATTAATAATTTAAATTATAT
Found at i:4087399 original size:17 final size:18
Alignment explanation
Indices: 4087377--4087419 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
4087367 TTTAAATTAT
*
4087377 ATAAATTATGAAAAAT-G
1 ATAAATTATGAAAAATAA
*
4087394 ATAAATT-TGATAAATAA
1 ATAAATTATGAAAAATAA
4087411 ATAAATTAT
1 ATAAATTAT
4087420 TTTATCATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 14 0.64
18 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (18 bp):
ATAAATTATGAAAAATAA
Found at i:4102397 original size:38 final size:38
Alignment explanation
Indices: 4102346--4102427 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
4102336 AGTCTCTGAC
4102346 TTTTGGCTCTGTCTTTGGTTCGCTTGAGTTTCCGTTTG
1 TTTTGGCTCTGTCTTTGGTTCGCTTGAGTTTCCGTTTG
4102384 TTTTGGCTCTGTCTTTGGTTCGCTTGAGTTTCCGTTTG
1 TTTTGGCTCTGTCTTTGGTTCGCTTGAGTTTCCGTTTG
4102422 TTTTGG
1 TTTTGG
4102428 GACAGAAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.02, C:0.17, G:0.27, T:0.54
Consensus pattern (38 bp):
TTTTGGCTCTGTCTTTGGTTCGCTTGAGTTTCCGTTTG
Found at i:4104820 original size:19 final size:19
Alignment explanation
Indices: 4104785--4104821 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4104775 TATAATATTA
**
4104785 ATTAATTTTGTTGATTTTG
1 ATTAATTTTGTAAATTTTG
4104804 ATTAATTTTGTAAATTTT
1 ATTAATTTTGTAAATTTT
4104822 AATAGATGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (19 bp):
ATTAATTTTGTAAATTTTG
Found at i:4105171 original size:20 final size:19
Alignment explanation
Indices: 4105131--4105182 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
4105121 AAAGAAAAAT
*
4105131 ATTCATTTAAATATTATATA
1 ATTCATTTAAA-AATATATA
4105151 ATTCATTTAAAAATATCATA
1 ATTCATTTAAAAATAT-ATA
4105171 A--CATTTAAAAAT
1 ATTCATTTAAAAAT
4105183 CAAATATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 11 0.37
19 4 0.13
20 15 0.50
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTCATTTAAAAATATATA
Found at i:4105419 original size:28 final size:29
Alignment explanation
Indices: 4105351--4105419 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
4105341 GAAACATTGA
*
4105351 CTTAATTTTTTTAGAATATATCATGTGTT
1 CTTAATTTTTTTAGAAAATATCATGTGTT
* * * ** *
4105380 CTTAAATATTTT-GAAAATGTTTTGTTTT
1 CTTAATTTTTTTAGAAAATATCATGTGTT
4105408 CTTAATTTTTTT
1 CTTAATTTTTTT
4105420 TAGTGAAGAT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (29 bp):
CTTAATTTTTTTAGAAAATATCATGTGTT
Found at i:4105951 original size:42 final size:42
Alignment explanation
Indices: 4105905--4105988 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
4105895 GGATTTAAAG
*
4105905 AAAAAAAAACAAAAAAAGGGA-GAAAAGTCAGTTGCCCAAGTC
1 AAAAAAAAA-AAAAAAAGGGATGAAAAGTCAGCTGCCCAAGTC
* * **
4105947 AAAAAAAAAAAAGAAATGGATGAAAAGTTGGCTGCCCAAGTC
1 AAAAAAAAAAAAAAAAGGGATGAAAAGTCAGCTGCCCAAGTC
4105989 GCCACATCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 9 0.25
42 27 0.75
ACGTcount: A:0.55, C:0.13, G:0.20, T:0.12
Consensus pattern (42 bp):
AAAAAAAAAAAAAAAAGGGATGAAAAGTCAGCTGCCCAAGTC
Found at i:4117757 original size:253 final size:252
Alignment explanation
Indices: 4117309--4117813 Score: 922
Period size: 253 Copynumber: 2.0 Consensus size: 252
4117299 ACAAAAGGGT
* *
4117309 CCCCCCACCTTCCTCTAATCCCTTTGACAAATTCAAGTACTTCAAATAAACAAAAGATATACCTA
1 CCCCCCACCTTCCCCTAATCCCTTTGACAAATTCAACTACTTCAAATAAACAAAAGATATACCTA
*
4117374 GGCTTTGACCAATTGGGGATTTTATAAAGATATACCCAGAAGAAATTACAGAAAGTTGGAAACTG
66 GGCTTTGACCAATCGGGGATTTTATAAAGATATACCCAGAAGAAATTACAGAAAGTTGGAAACTG
4117439 GCAACAGGCTGCAGCAAGTCAATATCAGGGCTGCGAAAGCGATGGTTTAAATCTTGGTCGAGGCA
131 GCAACAGGCTGCAGCAAGTCAATATCAGGGCTGCGAAAGCGATGGTTTAAATCTTGGTCGAGGCA
*
4117504 GTGGACGGTGAAACATGCAAAAACGTTGCGTTTAGAACGTAGGA-GTGGGATTCGATGG
196 GTGGACGGTGAAACATGC-AAAACGTTGCGTTTAGAACGTAGGACG-GGGATACGATGG
*
4117562 CCCCCCACCTTCCCCTAATCCCTTTGACAAATTCAACTGCTTCAAATAAACAAAAGATATACCTA
1 CCCCCCACCTTCCCCTAATCCCTTTGACAAATTCAACTACTTCAAATAAACAAAAGATATACCTA
4117627 GGCTTTGACCAATCGGGGATTTTATAAAGATATACCCAGAAGAAATTACAGAAAGTTGGAAACTG
66 GGCTTTGACCAATCGGGGATTTTATAAAGATATACCCAGAAGAAATTACAGAAAGTTGGAAACTG
* *
4117692 GCAACCGGCTGCAGCAAGTCAATATCAGGGCTGCGAAAGCGATGTTTTAAATCTTGGTCGAGGCA
131 GCAACAGGCTGCAGCAAGTCAATATCAGGGCTGCGAAAGCGATGGTTTAAATCTTGGTCGAGGCA
4117757 GTGGACGGTGAAACATGCAAAACGTTGCGTTTAGAACGTAGGACGGGGATACGATGG
196 GTGGACGGTGAAACATGCAAAACGTTGCGTTTAGAACGTAGGACGGGGATACGATGG
4117814 TGGCAGCAAG
Statistics
Matches: 244, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
252 36 0.15
253 208 0.85
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (252 bp):
CCCCCCACCTTCCCCTAATCCCTTTGACAAATTCAACTACTTCAAATAAACAAAAGATATACCTA
GGCTTTGACCAATCGGGGATTTTATAAAGATATACCCAGAAGAAATTACAGAAAGTTGGAAACTG
GCAACAGGCTGCAGCAAGTCAATATCAGGGCTGCGAAAGCGATGGTTTAAATCTTGGTCGAGGCA
GTGGACGGTGAAACATGCAAAACGTTGCGTTTAGAACGTAGGACGGGGATACGATGG
Found at i:4128151 original size:263 final size:265
Alignment explanation
Indices: 4127704--4128243 Score: 761
Period size: 263 Copynumber: 2.0 Consensus size: 265
4127694 TGAATGATAA
* * * *
4127704 ATTAAATAATGAAAAAATATTAACACACTTTCACTTTAGTAATTTTGACTAAATTATTAAATAAA
1 ATTAAATAA--AAGAAATATTAACACACTTTCACTTTAGTAATCTTAACTAAATTATTAAACAAA
* * * **
4127769 ATATGTAAAATATTATAAAATATGTAAAAAAATAAAATAAATTAAAATTTTATTTTTCATAAGAA
64 ATATGAAAAATATTAGAAAATATGTAAAAAAAAAAAATAAATTAAAAAATTATTTTTCATAAGAA
4127834 TAAAACTATAATAACAATAAAATATATCTTTAAAAAAATTTATAAAC-AAAAAAAATTACAATAG
129 TAAAACTATAATAACAATAAAATATATCTTTAAAAAAATTTATAAACAAAAAAAAATTACAATAG
*
4127898 TAATAGAATATA-CTTAAAAAAAGTTACTGAAAAA-ATTAAAAAATTAATGTATAACATATTACA
194 TAATAAAATATACCTT-AAAAAAGTTACTGAAAAATATTAAAAAATTAATGTATAACATATTACA
4127961 TCTATAGT
258 TCTATAGT
* **
4127969 CTTAAATAAAAGAAATATTAACACACTTTCACTTTAGTAATCTTAACTAAATTATTTTACAAAAT
1 ATTAAATAAAAGAAATATTAACACACTTTCACTTTAGTAATCTTAACTAAATTATTAAACAAAAT
*
4128034 ATGAAAAATGTTAGAAAATATGTGAAAAAAGAAAAAATAAATTGAAAAAATTA-TTTTCATAAGA
66 ATGAAAAATATTAGAAAATATGT-AAAAAA-AAAAAATAAATT-AAAAAATTATTTTTCATAAGA
* *
4128098 ATAAAACTGTAATAACAATAAAATAT-TC-TTAGAAAAAATTTATAAA-TAAAAAAAATTACAAT
128 ATAAAACTATAATAACAATAAAATATATCTTTA-AAAAAATTTATAAACAAAAAAAAATTACAAT
* * *
4128160 AGTAATAAAATATACCTTAAAAAAGTTATTGAAAAATTTTTTTAAAAAATTGATGTATAACATAT
192 AGTAATAAAATATACCTTAAAAAAGTTACTGAAAAA---TATTAAAAAATTAATGTATAACATAT
*
4128225 TACATTTATAGT
254 TACATCTATAGT
4128237 ATTAAAT
1 ATTAAAT
4128244 TTATAAAAAT
Statistics
Matches: 245, Mismatches: 20, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
263 73 0.30
264 67 0.27
265 58 0.24
266 7 0.03
268 40 0.16
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (265 bp):
ATTAAATAAAAGAAATATTAACACACTTTCACTTTAGTAATCTTAACTAAATTATTAAACAAAAT
ATGAAAAATATTAGAAAATATGTAAAAAAAAAAAATAAATTAAAAAATTATTTTTCATAAGAATA
AAACTATAATAACAATAAAATATATCTTTAAAAAAATTTATAAACAAAAAAAAATTACAATAGTA
ATAAAATATACCTTAAAAAAGTTACTGAAAAATATTAAAAAATTAATGTATAACATATTACATCT
ATAGT
Found at i:4130269 original size:20 final size:21
Alignment explanation
Indices: 4130228--4130269 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4130218 TTAAATAAGG
*
4130228 TTATTTAGTAAACAACTAAAA
1 TTATTTAGTAAACAAATAAAA
*
4130249 TTATTTATTAAA-AAATAAAA
1 TTATTTAGTAAACAAATAAAA
4130269 T
1 T
4130270 CCATATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
TTATTTAGTAAACAAATAAAA
Found at i:4130354 original size:17 final size:17
Alignment explanation
Indices: 4130332--4130364 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4130322 TTTAATTATA
*
4130332 ATTTGAATAATTTTAAT
1 ATTTGAATAAATTTAAT
4130349 ATTTGAATAAATTTAA
1 ATTTGAATAAATTTAA
4130365 AATTATCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTTGAATAAATTTAAT
Found at i:4130489 original size:2 final size:2
Alignment explanation
Indices: 4130484--4130521 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4130474 TATATGTTGT
4130484 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4130522 TAGATTCTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4136976 original size:17 final size:17
Alignment explanation
Indices: 4136963--4136997 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4136953 ACAAAGAATG
4136963 CATCAGATCAAAGAAAA
1 CATCAGATCAAAGAAAA
4136980 CATCAGATCAAAGAAAA
1 CATCAGATCAAAGAAAA
4136997 C
1 C
4136998 TCATCCGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.20, G:0.11, T:0.11
Consensus pattern (17 bp):
CATCAGATCAAAGAAAA
Found at i:4138359 original size:4 final size:4
Alignment explanation
Indices: 4138346--4138378 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
4138336 TTTTGTAGTT
4138346 GAAA -AAA GAAA GAAA GAAA GAAA GAAA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA
4138379 GAGTGAGTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:4138927 original size:11 final size:11
Alignment explanation
Indices: 4138907--4138935 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4138897 ATTATATAAA
4138907 TCAA-TTTAAT
1 TCAATTTTAAT
4138917 TCAATTTTAAT
1 TCAATTTTAAT
4138928 TCAATTTT
1 TCAATTTT
4138936 TCATAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (11 bp):
TCAATTTTAAT
Found at i:4139150 original size:11 final size:12
Alignment explanation
Indices: 4139134--4139163 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4139124 TAAAAAAATT
4139134 AATTTAAT-AAA
1 AATTTAATAAAA
4139145 AATTTAATAAAA
1 AATTTAATAAAA
4139157 AATTTAA
1 AATTTAA
4139164 ACTAATAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATTTAATAAAA
Found at i:4140364 original size:21 final size:22
Alignment explanation
Indices: 4140321--4140364 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
4140311 TAAGTGCTAA
*
4140321 CAATTTTTTACTTTGAGTCATAT
1 CAATTTTTTACTTTGAG-AATAT
*
4140344 CAATTTTTTATTTTGA-AATAT
1 CAATTTTTTACTTTGAGAATAT
4140365 TGTCTTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.55
Consensus pattern (22 bp):
CAATTTTTTACTTTGAGAATAT
Found at i:4140790 original size:16 final size:17
Alignment explanation
Indices: 4140769--4140808 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4140759 TTAAACCAAA
*
4140769 TTATATATA-TATTAAT
1 TTATATATATTATAAAT
4140785 TTATATATATTATAAAT
1 TTATATATATTATAAAT
*
4140802 TTTTATA
1 TTATATA
4140809 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATATATATTATAAAT
Found at i:4140791 original size:14 final size:15
Alignment explanation
Indices: 4140767--4140796 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4140757 AATTAAACCA
4140767 AATTATATATATATT
1 AATTATATATATATT
4140782 AATT-TATATATATT
1 AATTATATATATATT
4140796 A
1 A
4140797 TAAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTATATATATATT
Found at i:4140850 original size:20 final size:22
Alignment explanation
Indices: 4140827--4140883 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 22
4140817 ATAATAATTT
4140827 TATATTAAAATTTAT-TT-AAA
1 TATATTAAAATTTATATTAAAA
4140847 TATATTAAAATTTTATATTAAAA
1 TATATTAAAA-TTTATATTAAAA
4140870 TAATATATAAAATT
1 T-ATAT-TAAAATT
4140884 AATAAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 10 0.31
21 5 0.16
22 2 0.06
23 4 0.12
24 6 0.19
25 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATATTAAAATTTATATTAAAA
Found at i:4140865 original size:13 final size:13
Alignment explanation
Indices: 4140822--4140883 Score: 57
Period size: 13 Copynumber: 5.3 Consensus size: 13
4140812 TAAAAATAAT
4140822 AATTTTATATTAA
1 AATTTTATATTAA
4140835 AA-TTTAT-TT-A
1 AATTTTATATTAA
4140845 AA---TATATTAA
1 AATTTTATATTAA
4140855 AATTTTATATTAA
1 AATTTTATATTAA
**
4140868 AATAATATA-TAA
1 AATTTTATATTAA
4140880 AATT
1 AATT
4140884 AATAAATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
8 3 0.07
9 2 0.05
10 6 0.15
11 2 0.05
12 11 0.27
13 17 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTTTATATTAA
Found at i:4140886 original size:13 final size:14
Alignment explanation
Indices: 4140845--4140893 Score: 59
Period size: 13 Copynumber: 3.7 Consensus size: 14
4140835 AATTTATTTA
4140845 AATATATTAAAATT
1 AATATATTAAAATT
*
4140859 -TTATATTAAAA-T
1 AATATATTAAAATT
4140871 AATATA-TAAAATT
1 AATATATTAAAATT
*
4140884 AATAAATTAA
1 AATATATTAA
4140894 TAAATTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 6 0.21
13 20 0.69
14 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATATTAAAATT
Found at i:4140891 original size:33 final size:32
Alignment explanation
Indices: 4140811--4140891 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
4140801 TTTTTATAAA
* *
4140811 ATAAAAATAAT-AATTTTATATTAAAATTTAT
1 ATAAAATTAATAAATTTTATATTAAAATATAT
* *
4140842 -TTAAATATATTAAAATTTTATATTAAAATAATAT
1 ATAAAAT-TAAT-AAATTTTATATTAAAAT-ATAT
4140876 ATAAAATTAATAAATT
1 ATAAAATTAATAAATT
4140892 AATAAATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
30 4 0.10
31 3 0.08
33 21 0.54
34 6 0.15
35 5 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAAAATTAATAAATTTTATATTAAAATATAT
Found at i:4140901 original size:57 final size:54
Alignment explanation
Indices: 4140782--4140902 Score: 120
Period size: 57 Copynumber: 2.1 Consensus size: 54
4140772 TATATATATT
* * *
4140782 AATTTATATATATTATAAATTTTTATAAAATAAAAATAATAATTTTATATTAAA
1 AATTTAAATATATTATAAATTTTTATAAAATAAAAATAATAATTATAAATTAAA
*
4140836 ATTTATTTAAATATATTA-AAATTTTATATTAAAATAATATATAA-AATTAATAAATTAATA
1 A---ATTTAAATATATTATAAATTTT-TA-TAAAATAA-AAATAATAATT-ATAAATTAA-A
4140896 AATTTAA
1 AATTTAA
4140903 TTCAATTTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
54 1 0.02
56 7 0.13
57 21 0.38
58 12 0.22
59 12 0.22
60 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (54 bp):
AATTTAAATATATTATAAATTTTTATAAAATAAAAATAATAATTATAAATTAAA
Found at i:4142594 original size:31 final size:30
Alignment explanation
Indices: 4142537--4142594 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
4142527 TTCATTTCAT
* * *
4142537 TTATTTTAGTTTTGAAAATTTTTATATTAA
1 TTATTTTAATTTTGAAAATCTATATATTAA
*
4142567 TTATTTATAATTTTTAAAATCTATATAT
1 TTATTT-TAATTTTGAAAATCTATATAT
4142595 GTATGTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 6 0.26
31 17 0.74
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (30 bp):
TTATTTTAATTTTGAAAATCTATATATTAA
Found at i:4142863 original size:2 final size:2
Alignment explanation
Indices: 4142856--4142887 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4142846 TTAGAAATTA
*
4142856 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4142888 GATAGGGGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4145705 original size:14 final size:15
Alignment explanation
Indices: 4145674--4145706 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4145664 TTCTAGTGTA
*
4145674 ATTCCTAGAAAACTC
1 ATTCCTAGAAAACCC
4145689 ATTCCTAG-AAACCC
1 ATTCCTAGAAAACCC
4145703 ATTC
1 ATTC
4145707 TATCAGCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.27
Consensus pattern (15 bp):
ATTCCTAGAAAACCC
Found at i:4146843 original size:14 final size:15
Alignment explanation
Indices: 4146824--4146856 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4146814 AATTTCTTTG
*
4146824 AAAAT-AAAATTTTT
1 AAAATAAAAATTTTC
4146838 AAAATAAAAATTTTC
1 AAAATAAAAATTTTC
4146853 AAAA
1 AAAA
4146857 AGTATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAAAATTTTC
Found at i:4146919 original size:72 final size:73
Alignment explanation
Indices: 4146766--4146920 Score: 199
Period size: 72 Copynumber: 2.1 Consensus size: 73
4146756 TAATAAAAAT
4146766 AAAAAAAAATTCAAAAAAAATATTTTGAGAGAAAAGTTGAAAATATCAAATTTCTTTGAAAATAA
1 AAAAAAAAATTCAAAAAAAATATTTTGAGAGAAAAGTTGAAAATATCAAATTTCTTTGAAAATAA
4146831 AATTTTTA
66 AATTTTTA
* *** * * * *
4146839 AAATAAAAATTTTCAAAAAGTATTTTGAGA-AAAAGTTGAAAGTATC-AATTTTTCTTGAAATTA
1 AAAAAAAAATTCAAAAAAAATATTTTGAGAGAAAAGTTGAAAATATCAAATTTCT-TTGAAAATA
4146902 AAA-TTTTA
65 AAATTTTTA
4146910 GAAAAAAAAAT
1 -AAAAAAAAAT
4146921 ATTTTTGAGG
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
71 11 0.15
72 35 0.49
73 25 0.35
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (73 bp):
AAAAAAAAATTCAAAAAAAATATTTTGAGAGAAAAGTTGAAAATATCAAATTTCTTTGAAAATAA
AATTTTTA
Found at i:4146929 original size:62 final size:61
Alignment explanation
Indices: 4146853--4147017 Score: 199
Period size: 62 Copynumber: 2.7 Consensus size: 61
4146843 AAAAATTTTC
* * *
4146853 AAAAAGTA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAATTTTAGAAA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA-ATTAGAAA
* * * * * **
4146914 AAAAAATATTTTTGAGGAAAAGTTGGAAGTACCAATTTTCCTTAAAAATAAAAATTATCAA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTAGAAA
* *
4146975 GAAAAATATTTTTAAGAAAAAGTT-AAAGTATCAATTTTTCTTG
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
4147018 TATAAAAGCA
Statistics
Matches: 86, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
60 15 0.17
61 33 0.38
62 38 0.44
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (61 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAATTAGAAA
Found at i:4147014 original size:61 final size:61
Alignment explanation
Indices: 4146838--4147014 Score: 193
Period size: 61 Copynumber: 2.9 Consensus size: 61
4146828 TAAAATTTTT
* * *
4146838 AAAATAAAAATTTTC-AAAAAGTA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTT-CTTG
1 AAAATAAAAATTATCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCCTTA
* * ** * * *
4146896 AAATTAAAATTTTAGAAAAAAAAATATTTTTGAGGAAAAGTTGGAAGTACCAA-TTTTCCTTA
1 AAAATAAAA-ATTA-TCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCCTTA
*
4146958 AAAATAAAAATTATCAAGAAAAATATTTTTAAGAAAAAGTT-AAAGTATCAATTTTTC
1 AAAATAAAAATTATCAA-AAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
4147015 TTGTATAAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
58 8 0.09
59 2 0.02
60 10 0.11
61 40 0.43
62 34 0.36
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (61 bp):
AAAATAAAAATTATCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCCTTA
Found at i:4150538 original size:17 final size:18
Alignment explanation
Indices: 4150505--4150540 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4150495 TCAAAGAGAG
*
4150505 AAAAAAATAAAATGAAAA
1 AAAAAAAGAAAATGAAAA
4150523 AAAAAAAGAAAA-GAAAA
1 AAAAAAAGAAAATGAAAA
4150540 A
1 A
4150541 TACCACAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (18 bp):
AAAAAAAGAAAATGAAAA
Found at i:4157984 original size:26 final size:27
Alignment explanation
Indices: 4157954--4158022 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
4157944 AAAAAAAAAA
* *
4157954 GAAAAACTTGAAAAAAATGA-AAA-GT
1 GAAAAAATTGAAAAAAATGAGAAATGG
*
4157979 GAAAAAAGTTTAAAAAAATGAGAAATGG
1 GAAAAAA-TTGAAAAAAATGAGAAATGG
4158007 GAAAAAA-TGAAAAAAA
1 GAAAAAATTGAAAAAAA
4158023 AAAAGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 6 0.16
26 20 0.54
27 3 0.08
28 8 0.22
ACGTcount: A:0.67, C:0.01, G:0.17, T:0.14
Consensus pattern (27 bp):
GAAAAAATTGAAAAAAATGAGAAATGG
Found at i:4158658 original size:48 final size:48
Alignment explanation
Indices: 4158596--4158692 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
4158586 ATGAATATGG
* *
4158596 TGATGAATTGGTCAACATAACCTGTGAGTTACGATCAAATGATGAAAA
1 TGATGAATTAGTCAACATAACCTATGAGTTACGATCAAATGATGAAAA
* * *
4158644 TGATGGATTAGTCAATATAACCTATGAGTTATGATCAAATGATGAAAA
1 TGATGAATTAGTCAACATAACCTATGAGTTACGATCAAATGATGAAAA
4158692 T
1 T
4158693 AATGTGGATC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (48 bp):
TGATGAATTAGTCAACATAACCTATGAGTTACGATCAAATGATGAAAA
Found at i:4159320 original size:14 final size:14
Alignment explanation
Indices: 4159270--4159323 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
4159260 TGTCTTTGAG
4159270 TTTTAAATGAGAATC
1 TTTT-AATGAGAATC
4159285 -TTTAA-GA-AAT-
1 TTTTAATGAGAATC
* *
4159295 TTTAAATAAGAATC
1 TTTTAATGAGAATC
4159309 TTTTAATGAGAATC
1 TTTTAATGAGAATC
4159323 T
1 T
4159324 GTGTCTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
11 7 0.23
12 3 0.10
13 5 0.16
14 16 0.52
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.41
Consensus pattern (14 bp):
TTTTAATGAGAATC
Found at i:4159852 original size:17 final size:17
Alignment explanation
Indices: 4159832--4159874 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
4159822 AAATTTTGAT
4159832 AACCTTAAATCCTTACG
1 AACCTTAAATCCTTACG
* *
4159849 AACCTTAAATCTTTATG
1 AACCTTAAATCCTTACG
4159866 AACCTTAAA
1 AACCTTAAA
4159875 CTCTTGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (17 bp):
AACCTTAAATCCTTACG
Found at i:4159873 original size:34 final size:33
Alignment explanation
Indices: 4159810--4159874 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
4159800 AATTTGAATT
4159810 CTTACGAAACTAAAATTTTGATAACCTTAAATC
1 CTTACGAAACTAAAATTTTGATAACCTTAAATC
* *
4159843 CTTACGAACCTTAAATCTTT-ATGAACCTTAAA
1 CTTACGAAACTAAAAT-TTTGAT-AACCTTAAA
4159875 CTCTTGCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (33 bp):
CTTACGAAACTAAAATTTTGATAACCTTAAATC
Found at i:4159962 original size:16 final size:16
Alignment explanation
Indices: 4159941--4159996 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
4159931 ATGAATTTGA
*
4159941 AAATCTCACAAATCTG
1 AAATCTTACAAATCTG
***
4159957 AAATCTTTTTAATCTG
1 AAATCTTACAAATCTG
*
4159973 AATTCTTACAAATCTG
1 AAATCTTACAAATCTG
4159989 AAAGTCTT
1 AAA-TCTT
4159997 GTGAATATTT
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (16 bp):
AAATCTTACAAATCTG
Found at i:4161146 original size:10 final size:9
Alignment explanation
Indices: 4161131--4161188 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
4161121 AGTCGGTTCC
4161131 TATTTTGATT
1 TATTTT-ATT
4161141 TATTTTATTT
1 TATTTTA-TT
4161151 TATTTTA-T
1 TATTTTATT
4161159 TATTTTTATGT
1 TA-TTTTAT-T
4161170 TA--TTATT
1 TATTTTATT
4161177 TA-TTTATT
1 TATTTTATT
4161185 TATT
1 TATT
4161189 AAGTATTATG
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
7 3 0.07
8 14 0.33
9 7 0.17
10 15 0.36
11 3 0.07
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.74
Consensus pattern (9 bp):
TATTTTATT
Found at i:4161151 original size:15 final size:13
Alignment explanation
Indices: 4161131--4161181 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
4161121 AGTCGGTTCC
*
4161131 TATTTTGATTTATTT
1 TATTTT-ATTT-TAT
4161146 TATTTTATTTTAT
1 TATTTTATTTTAT
*
4161159 TATTTTTATGTTAT
1 TA-TTTTATTTTAT
4161173 TA-TTTATTT
1 TATTTTATTT
4161182 ATTTATTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 6 0.19
13 4 0.12
14 16 0.50
15 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (13 bp):
TATTTTATTTTAT
Found at i:4161165 original size:14 final size:14
Alignment explanation
Indices: 4161148--4161177 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4161138 ATTTATTTTA
*
4161148 TTTTATTTTATTAT
1 TTTTATGTTATTAT
4161162 TTTTATGTTATTAT
1 TTTTATGTTATTAT
4161176 TT
1 TT
4161178 ATTTATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTATGTTATTAT
Found at i:4161195 original size:22 final size:21
Alignment explanation
Indices: 4161154--4161197 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
4161144 TTTATTTTAT
*
4161154 TTTATTATTTTTATGTTATTA
1 TTTATTATTTTTAAGTTATTA
4161175 TTTATTTATTTATTAAG-TATTA
1 TTTA-TTATTT-TTAAGTTATTA
4161197 T
1 T
4161198 GCATGATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTATTATTTTTAAGTTATTA
Found at i:4162034 original size:16 final size:16
Alignment explanation
Indices: 4162013--4162044 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4162003 TAGATTTATT
*
4162013 TTCAATAAAACAAATA
1 TTCAATAAAAAAAATA
4162029 TTCAATAAAAAAAATA
1 TTCAATAAAAAAAATA
4162045 AAATTGATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (16 bp):
TTCAATAAAAAAAATA
Found at i:4166256 original size:12 final size:12
Alignment explanation
Indices: 4166239--4166263 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4166229 TTAACATATA
4166239 AATAATTTTTTT
1 AATAATTTTTTT
4166251 AATAATTTTTTT
1 AATAATTTTTTT
4166263 A
1 A
4166264 TATATAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATAATTTTTTT
Found at i:4167276 original size:15 final size:15
Alignment explanation
Indices: 4167256--4167285 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4167246 ATGGAAATTT
4167256 TTTTTAAGTTTTTAA
1 TTTTTAAGTTTTTAA
*
4167271 TTTTTAATTTTTTAA
1 TTTTTAAGTTTTTAA
4167286 GTGTTTAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (15 bp):
TTTTTAAGTTTTTAA
Found at i:4169157 original size:14 final size:15
Alignment explanation
Indices: 4169133--4169178 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
4169123 GTATGTATTT
*
4169133 TATATATATTTTATA
1 TATAAATATTTTATA
*
4169148 TA-AAATA-TTTAAA
1 TATAAATATTTTATA
*
4169161 TATTAATATTTTATA
1 TATAAATATTTTATA
4169176 TAT
1 TAT
4169179 GCATCCGGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.28
14 8 0.32
15 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATAAATATTTTATA
Found at i:4173247 original size:29 final size:29
Alignment explanation
Indices: 4173215--4173296 Score: 73
Period size: 28 Copynumber: 2.9 Consensus size: 29
4173205 TTTTTAGTAA
4173215 AAATATTTATAAAATTTTTACAAT-TAAAT
1 AAATATTTATAAAATTTTTA-AATATAAAT
* *
4173244 AAAT-TTTGAT-AAATTTTGAATTATAAAT
1 AAATATTT-ATAAAATTTTTAAATATAAAT
* *
4173272 -AATATTTTTAATAATTTTTATATAT
1 AAATATTTATAA-AATTTTTAAATAT
4173297 TATTAATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
27 6 0.14
28 20 0.48
29 16 0.38
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (29 bp):
AAATATTTATAAAATTTTTAAATATAAAT
Found at i:4175610 original size:14 final size:13
Alignment explanation
Indices: 4175591--4175621 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
4175581 TTGTGATTAA
4175591 ATAATTATAAAATT
1 ATAATTAT-AAATT
4175605 ATAATTATAAATT
1 ATAATTATAAATT
4175618 ATAA
1 ATAA
4175622 ATAAAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATAATTATAAATT
Found at i:4175679 original size:22 final size:22
Alignment explanation
Indices: 4175654--4175701 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4175644 ATTATATAAA
*
4175654 TTAATTA-AATTAAATTTTAATT
1 TTAATTATAATTAAATTCT-ATT
*
4175676 TTAATTATTATTAAATTCTATT
1 TTAATTATAATTAAATTCTATT
4175698 TTAA
1 TTAA
4175702 AATTAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATTAAATTCTATT
Found at i:4190257 original size:25 final size:24
Alignment explanation
Indices: 4190202--4190259 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
4190192 AAATCATAAA
*
4190202 AATAATTTTAAAATATAAAAAAGT
1 AATAATTTTAAAATATAAAAAAAT
*
4190226 AAGAATTTT-AAATATTAAAAAAAT
1 AATAATTTTAAAATA-TAAAAAAAT
4190250 ACATAATTTT
1 A-ATAATTTT
4190260 GAAACATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.17
24 17 0.59
25 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (24 bp):
AATAATTTTAAAATATAAAAAAAT
Found at i:4191522 original size:32 final size:32
Alignment explanation
Indices: 4191481--4191541 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
4191471 AAATTTTTAA
4191481 ATTTATTAAAAAGTAGTAATGAATTTAAATTT
1 ATTTATTAAAAAGTAGTAATGAATTTAAATTT
4191513 ATTTATTAAAAAGTAGTAATGAATTTAAA
1 ATTTATTAAAAAGTAGTAATGAATTTAAA
4191542 ATTTTAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (32 bp):
ATTTATTAAAAAGTAGTAATGAATTTAAATTT
Found at i:4194832 original size:18 final size:19
Alignment explanation
Indices: 4194806--4194850 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4194796 CTCTACTATT
*
4194806 TTATATTTTT-CCATTTTC
1 TTATTTTTTTGCCATTTTC
* *
4194824 TTATTTTTTTGTCTTTTTC
1 TTATTTTTTTGCCATTTTC
4194843 TTATTTTT
1 TTATTTTT
4194851 AGTTTCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTTTTTTGCCATTTTC
Found at i:4196439 original size:24 final size:24
Alignment explanation
Indices: 4196406--4196463 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
4196396 ACAGCCGCAG
*
4196406 CAGCAGCAGCA-ACAACAACAACCA
1 CAGCAACAGCAGA-AACAACAACCA
* *
4196430 CAGCAACAGCAGAAGCAGCAACCA
1 CAGCAACAGCAGAAACAACAACCA
*
4196454 CAGCCACAGC
1 CAGCAACAGC
4196464 TACAGCCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.45, C:0.38, G:0.17, T:0.00
Consensus pattern (24 bp):
CAGCAACAGCAGAAACAACAACCA
Found at i:4196461 original size:30 final size:30
Alignment explanation
Indices: 4196406--4196469 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
4196396 ACAGCCGCAG
*
4196406 CAGCAGCAGCAACAACAACAACCACAGCAA
1 CAGCAGAAGCAACAACAACAACCACAGCAA
* * * *
4196436 CAGCAGAAGCAGCAACCACAGCCACAGCTA
1 CAGCAGAAGCAACAACAACAACCACAGCAA
4196466 CAGC
1 CAGC
4196470 CACTCTTTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.38, G:0.17, T:0.02
Consensus pattern (30 bp):
CAGCAGAAGCAACAACAACAACCACAGCAA
Found at i:4209829 original size:30 final size:30
Alignment explanation
Indices: 4209749--4209829 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
4209739 TGGATTTTGA
* *
4209749 AAAAATTAATTTATGATATAAATTAAATGTT
1 AAAAATTTATTTA-GATATAAATTAAATATT
* * *
4209780 GAAAGTTTATTTAGTTATAAATTAACA-ATT
1 AAAAATTTATTTAGATATAAATTAA-ATATT
*
4209810 AAAAATTTATTTAAATATAA
1 AAAAATTTATTTAGATATAA
4209830 TTCAAAATCA
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 29 0.73
31 11 0.28
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (30 bp):
AAAAATTTATTTAGATATAAATTAAATATT
Found at i:4213596 original size:2 final size:2
Alignment explanation
Indices: 4213583--4213615 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4213573 CTCTGATCTG
*
4213583 TC TC TA 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 T
4213616 TTTAATTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.45, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4215630 original size:33 final size:33
Alignment explanation
Indices: 4215584--4215647 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
4215574 ATAAATGAAA
* *
4215584 ATATATGAATATGTGTTTATTTGTATTAAAAGT
1 ATATATGAATATGTATTTATTTGAATTAAAAGT
*
4215617 ATATATGAGTATGTATTTATTTGAATTAAAA
1 ATATATGAATATGTATTTATTTGAATTAAAA
4215648 ATATTTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (33 bp):
ATATATGAATATGTATTTATTTGAATTAAAAGT
Found at i:4215679 original size:21 final size:22
Alignment explanation
Indices: 4215640--4215680 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4215630 TATTTATTTG
* *
4215640 AATTAAAAATATTTCATAAAAA
1 AATTAAAAAGATCTCATAAAAA
4215662 AATTAAAAAGATCT-ATAAA
1 AATTAAAAAGATCTCATAAA
4215681 TTTTGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
AATTAAAAAGATCTCATAAAAA
Found at i:4218934 original size:96 final size:96
Alignment explanation
Indices: 4218770--4218945 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
4218760 GGTCATTGGG
* * * * *
4218770 ATATAAAAACGTTAAGGTTACACACCTTGATTAACCGATTTTAAGGGAAGAGAGTAATGGCTATG
1 ATATAAAAACGTTAAGGCTACACACCCTGATAAACCGATTTTAAGGGAAAAGAGTAATGGCCATG
*
4218835 TGACAAGTGGTGTTAGAGCCAGCTGTGGAAA
66 TGACAAGTGATGTTAGAGCCAGCTGTGGAAA
* * * *
4218866 ATATAAAAATGTTGAGGCTACACACCCTGATAAATCGATTTTGAGGAGAAAAG-GTAATGGCCAT
1 ATATAAAAACGTTAAGGCTACACACCCTGATAAACCGATTTTAAGG-GAAAAGAGTAATGGCCAT
4218930 GTGACAAGTGATGTTA
65 GTGACAAGTGATGTTA
4218946 AAAGCAACTC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 64 0.93
97 5 0.07
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (96 bp):
ATATAAAAACGTTAAGGCTACACACCCTGATAAACCGATTTTAAGGGAAAAGAGTAATGGCCATG
TGACAAGTGATGTTAGAGCCAGCTGTGGAAA
Found at i:4219845 original size:56 final size:56
Alignment explanation
Indices: 4219751--4219862 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 56
4219741 TCTAGGGATA
4219751 TTAGCGATGTACCACAGAGGACAGTGATCATTCGTTGGAGTAGGAG-AAGATGTCAC
1 TTAGCGATGTACCACAGAGGACAGTGATCATTCGTTGGAGT-GGAGAAAGATGTCAC
* *
4219807 TTAGCGATGTACCACAGAGGACAGTGATTATTCTTTGGAGTGGAGAAAGATGTCAC
1 TTAGCGATGTACCACAGAGGACAGTGATCATTCGTTGGAGTGGAGAAAGATGTCAC
4219863 AATCCTAAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
55 4 0.08
56 49 0.92
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.25
Consensus pattern (56 bp):
TTAGCGATGTACCACAGAGGACAGTGATCATTCGTTGGAGTGGAGAAAGATGTCAC
Found at i:4220092 original size:192 final size:192
Alignment explanation
Indices: 4219765--4220125 Score: 587
Period size: 192 Copynumber: 1.9 Consensus size: 192
4219755 CGATGTACCA
* *
4219765 CAGAGGACAGTGATCATTCGTTGGAGTAGGAGAAGATGTCACTTAGCGATGTACCACAGAGGACA
1 CAGAGGACAGTGATCATTCGTTGGAATAGGAGAAGATGTCACTTAGCGATGTACCACAAAGGACA
* *
4219830 GTGATTATTCTTTGGAGTGGAGAAAGATGTCACAATCCTAAGGAAGAGCCATGAATTTCACATCG
66 GTGATCATTCGTTGGAGTGGAGAAAGATGTCACAATCCTAAGGAAGAGCCATGAATTTCACATCG
*
4219895 ACTGTATACTAGAATTGATCATGAGATATAAAGGTTCACCCCACCTCTAACTTGTGAATCCT
131 ACTGTATACTAGAATTGATCATGAGATATAAAAGTTCACCCCACCTCTAACTTGTGAATCCT
* * * *
4219957 CAGAGGACAGTGATTATTCGTTGGAATGGGGGAAGATGTCACTTAGCGATGTACCACAAAGGATA
1 CAGAGGACAGTGATCATTCGTTGGAATAGGAGAAGATGTCACTTAGCGATGTACCACAAAGGACA
* * * * * *
4220022 GTGATCATTCGTTGGAGTGGGGGAGGATGTCACAATCCTAAGGAGGAGCCATTAATTTCACATTG
66 GTGATCATTCGTTGGAGTGGAGAAAGATGTCACAATCCTAAGGAAGAGCCATGAATTTCACATCG
4220087 ACTGTATACTAGAATTGATCATGAGATATAAAAGTTCAC
131 ACTGTATACTAGAATTGATCATGAGATATAAAAGTTCAC
4220126 ACAGAATATA
Statistics
Matches: 154, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
192 154 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (192 bp):
CAGAGGACAGTGATCATTCGTTGGAATAGGAGAAGATGTCACTTAGCGATGTACCACAAAGGACA
GTGATCATTCGTTGGAGTGGAGAAAGATGTCACAATCCTAAGGAAGAGCCATGAATTTCACATCG
ACTGTATACTAGAATTGATCATGAGATATAAAAGTTCACCCCACCTCTAACTTGTGAATCCT
Found at i:4220299 original size:47 final size:47
Alignment explanation
Indices: 4220246--4220335 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
4220236 TGTACCATAA
*
4220246 AGGACAGTGATCATTCGTTGGAGTGAGG-AATGATGTCACAATCACAG
1 AGGACAGTGATCATTCGTTGGAGTG-GGAAAGGATGTCACAATCACAG
*
4220293 AGGACAGTGATCATTCGTTGGAGTGGGAAAGGATGTTACAATC
1 AGGACAGTGATCATTCGTTGGAGTGGGAAAGGATGTCACAATC
4220336 CTAAAGAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
46 2 0.05
47 38 0.95
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.24
Consensus pattern (47 bp):
AGGACAGTGATCATTCGTTGGAGTGGGAAAGGATGTCACAATCACAG
Found at i:4220537 original size:136 final size:136
Alignment explanation
Indices: 4220291--4220561 Score: 427
Period size: 136 Copynumber: 2.0 Consensus size: 136
4220281 TCACAATCAC
* * * *
4220291 AGAGGACAGTGATCATTCGTTGGAGTGGGAAAGGATGTTACAATCCTAAAGAGGAGCCATGAATT
1 AGAGGACAGTGATCATTCGTTGGAGGGGGAAAGAATGTCACAATCCTAAAGAGAAGCCATGAATT
*
4220356 TCACATCGACTGTATACTAGAATTGATCATAAGATATAAAGATTCACACCACCTTTAACTTGTGA
66 TCACATCGACTGTATACTAGAATTGATCATAAGATATAAAAATTCACACCACCTTTAACTTGTGA
4220421 ATCCTT
131 ATCCTT
* * * *
4220427 AGAGGATAGTGATCATTCGTTGGAGAGGGGAAA-AATGTCACAATTCTAAGGAGAAGTCATGAAT
1 AGAGGACAGTGATCATTCGTTGGAG-GGGGAAAGAATGTCACAATCCTAAAGAGAAGCCATGAAT
* *
4220491 TTCACATCGACTGTATACTAGAATTGATCATGAGATATAAAAATTCACACCACCTTTAACTTGTT
65 TTCACATCGACTGTATACTAGAATTGATCATAAGATATAAAAATTCACACCACCTTTAACTTGTG
4220556 AATCCT
130 AATCCT
4220562 CTTTTGTGAA
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
136 117 0.95
137 6 0.05
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (136 bp):
AGAGGACAGTGATCATTCGTTGGAGGGGGAAAGAATGTCACAATCCTAAAGAGAAGCCATGAATT
TCACATCGACTGTATACTAGAATTGATCATAAGATATAAAAATTCACACCACCTTTAACTTGTGA
ATCCTT
Found at i:4222710 original size:2 final size:2
Alignment explanation
Indices: 4222703--4222730 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4222693 GTTCTCAAGT
4222703 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4222731 AGAGAGAGAG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4222735 original size:2 final size:2
Alignment explanation
Indices: 4222730--4222758 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4222720 GTGTGTGTGT
4222730 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
4222759 TCTATGAGCA
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4226284 original size:2 final size:2
Alignment explanation
Indices: 4226277--4226305 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4226267 CCCGAAGAAA
4226277 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4226306 TTTGAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4228016 original size:3 final size:3
Alignment explanation
Indices: 4228008--4228043 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4227998 ATAAAAGAGA
4228008 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
4228044 GTAATTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4235873 original size:20 final size:21
Alignment explanation
Indices: 4235840--4235878 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4235830 TTTGTTTGTT
4235840 TTTTTTAATATATT-TTTAAA
1 TTTTTTAATATATTATTTAAA
4235860 TTTTTTAACT-TATTATTTA
1 TTTTTTAA-TATATTATTTA
4235879 TTTAGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTTAATATATTATTTAAA
Found at i:4236980 original size:32 final size:32
Alignment explanation
Indices: 4236912--4236976 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
4236902 ATATATATTT
** *
4236912 AATATGATATTTAAACTATAAATTTATTAATT
1 AATATGATATTTAAAAAATAAATTTATTAATA
* *
4236944 AATATGATATTTAAAAAAT-TATTTATTCATA
1 AATATGATATTTAAAAAATAAATTTATTAATA
4236975 AA
1 AA
4236977 ATATTATAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (32 bp):
AATATGATATTTAAAAAATAAATTTATTAATA
Found at i:4237005 original size:22 final size:23
Alignment explanation
Indices: 4236977--4237026 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
4236967 TATTCATAAA
*
4236977 ATATTATAACTTAAAATTA-ATT
1 ATATTATAAATTAAAATTACATT
*
4236999 ATATTATAAATTAATATTACATT
1 ATATTATAAATTAAAATTACATT
4237022 A-ATTA
1 ATATTA
4237027 ATAATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATTATAAATTAAAATTACATT
Found at i:4237037 original size:31 final size:32
Alignment explanation
Indices: 4236991--4237078 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 32
4236981 TATAACTTAA
*
4236991 AATTAATTATATTATAAATT-AATATTACATT
1 AATTAATAATATTATAAATTAAATATTACATT
* *
4237022 AATTAATAATTTTATAATTTAAATATTACATT
1 AATTAATAATATTATAAATTAAATATTACATT
*
4237054 AA--AA-AA-ATTTTAAATTTAAATATTA
1 AATTAATAATATTATAAA-TTAAATATTA
4237079 TAATAAATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 5 0.10
29 12 0.24
30 2 0.04
31 17 0.35
32 13 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (32 bp):
AATTAATAATATTATAAATTAAATATTACATT
Found at i:4237078 original size:29 final size:31
Alignment explanation
Indices: 4237002--4237093 Score: 106
Period size: 32 Copynumber: 3.1 Consensus size: 31
4236992 ATTAATTATA
* *
4237002 TTATAAATT-AATATTACATTAATTAATAATT
1 TTATAATTTAAATATTACATTAA-TAAAAATT
4237033 TTATAATTTAAATATTACATTAA-AAAAATT
1 TTATAATTTAAATATTACATTAATAAAAATT
*
4237063 TTA-AATTTAAATATT--A-TAATAAATATT
1 TTATAATTTAAATATTACATTAATAAAAATT
4237090 TTAT
1 TTAT
4237094 TATAATTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
26 3 0.05
27 10 0.18
29 12 0.22
30 9 0.16
31 8 0.15
32 13 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (31 bp):
TTATAATTTAAATATTACATTAATAAAAATT
Found at i:4240733 original size:12 final size:13
Alignment explanation
Indices: 4240708--4240736 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4240698 AACGAGAAAG
4240708 AAAAATTTTAAAA
1 AAAAATTTTAAAA
4240721 AAAAATTTTAAAA
1 AAAAATTTTAAAA
4240734 AAA
1 AAA
4240737 GGACTCTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAAATTTTAAAA
Found at i:4242397 original size:18 final size:19
Alignment explanation
Indices: 4242374--4242410 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
4242364 TATATTACTC
4242374 TATATTTTT-AATATTTTA
1 TATATTTTTAAATATTTTA
4242392 TATATTTTTAAATATTTTA
1 TATATTTTTAAATATTTTA
4242411 ATTACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATATTTTTAAATATTTTA
Found at i:4242400 original size:19 final size:18
Alignment explanation
Indices: 4242374--4242410 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
4242364 TATATTACTC
*
4242374 TATATTTTTAATATTTTA
1 TATATTTTAAATATTTTA
4242392 TATATTTTTAAATATTTTA
1 TATA-TTTTAAATATTTTA
4242411 ATTACTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATTTTAAATATTTTA
Found at i:4247881 original size:22 final size:22
Alignment explanation
Indices: 4247849--4247895 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4247839 CCCTTCCTCG
* *
4247849 GTTCTAGTCTAACAGACAACTA
1 GTTCTACTCTAACACACAACTA
* *
4247871 GTTCTACTCTAGCCCACAACTA
1 GTTCTACTCTAACACACAACTA
4247893 GTT
1 GTT
4247896 TAACCTAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (22 bp):
GTTCTACTCTAACACACAACTA
Found at i:4257388 original size:20 final size:17
Alignment explanation
Indices: 4257343--4257374 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4257333 ATAAATTCAC
4257343 TAAA-TTAATTATTAAA
1 TAAACTTAATTATTAAA
4257359 TAAACTTAATTATTAA
1 TAAACTTAATTATTAA
4257375 GTAATATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAACTTAATTATTAAA
Found at i:4260242 original size:231 final size:231
Alignment explanation
Indices: 4259839--4260302 Score: 928
Period size: 231 Copynumber: 2.0 Consensus size: 231
4259829 CTGACAGATT
4259839 ATTCAAGACTAAGCTAGTAACATAAGTCACACAGAATTTGTTCTCAATAATGAAAACATATTCTA
1 ATTCAAGACTAAGCTAGTAACATAAGTCACACAGAATTTGTTCTCAATAATGAAAACATATTCTA
4259904 GAATATTGCATTTATCCCAACTAGTGAAAGGAGGCTGATAAAGGAAGAGAATGATATTGTTTCTG
66 GAATATTGCATTTATCCCAACTAGTGAAAGGAGGCTGATAAAGGAAGAGAATGATATTGTTTCTG
4259969 CTCATCAGCACTGAGCTGTCTCCAACTTCTATCATTTCCTTGAAGAGACTAGATATATTTCCACC
131 CTCATCAGCACTGAGCTGTCTCCAACTTCTATCATTTCCTTGAAGAGACTAGATATATTTCCACC
4260034 AAAGCCACCTAAATACTTGATGCTACTAAGTTTTCA
196 AAAGCCACCTAAATACTTGATGCTACTAAGTTTTCA
4260070 ATTCAAGACTAAGCTAGTAACATAAGTCACACAGAATTTGTTCTCAATAATGAAAACATATTCTA
1 ATTCAAGACTAAGCTAGTAACATAAGTCACACAGAATTTGTTCTCAATAATGAAAACATATTCTA
4260135 GAATATTGCATTTATCCCAACTAGTGAAAGGAGGCTGATAAAGGAAGAGAATGATATTGTTTCTG
66 GAATATTGCATTTATCCCAACTAGTGAAAGGAGGCTGATAAAGGAAGAGAATGATATTGTTTCTG
4260200 CTCATCAGCACTGAGCTGTCTCCAACTTCTATCATTTCCTTGAAGAGACTAGATATATTTCCACC
131 CTCATCAGCACTGAGCTGTCTCCAACTTCTATCATTTCCTTGAAGAGACTAGATATATTTCCACC
4260265 AAAGCCACCTAAATACTTGATGCTACTAAGTTTTCA
196 AAAGCCACCTAAATACTTGATGCTACTAAGTTTTCA
4260301 AT
1 AT
4260303 CCAGTCCCAA
Statistics
Matches: 233, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 233 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (231 bp):
ATTCAAGACTAAGCTAGTAACATAAGTCACACAGAATTTGTTCTCAATAATGAAAACATATTCTA
GAATATTGCATTTATCCCAACTAGTGAAAGGAGGCTGATAAAGGAAGAGAATGATATTGTTTCTG
CTCATCAGCACTGAGCTGTCTCCAACTTCTATCATTTCCTTGAAGAGACTAGATATATTTCCACC
AAAGCCACCTAAATACTTGATGCTACTAAGTTTTCA
Found at i:4271187 original size:62 final size:60
Alignment explanation
Indices: 4271121--4271238 Score: 132
Period size: 62 Copynumber: 1.9 Consensus size: 60
4271111 TTATGAGCAC
* *
4271121 ATTATTCAAGATGTTTTTTGCTT-GA-AACATCTTCAATAATCTCCTTATAAAAAATTAAGGGG
1 ATTATTCAAGACGTTTTTT--TTAGATAACACCTTCAATAATC-CCTT-TAAAAAATTAAGGGG
* * *
4271183 ATTATTGAAGGCGTTTTTTTTCAGATAACGCCTTCAATAATCCCTTTAAAAAATTA
1 ATTATTCAAGACGTTTTTTTT-AGATAACACCTTCAATAATCCCTTTAAAAAATTA
4271239 GATGAGATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
60 2 0.04
61 10 0.21
62 22 0.46
63 14 0.29
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (60 bp):
ATTATTCAAGACGTTTTTTTTAGATAACACCTTCAATAATCCCTTTAAAAAATTAAGGGG
Found at i:4271435 original size:65 final size:64
Alignment explanation
Indices: 4271333--4271505 Score: 233
Period size: 65 Copynumber: 2.7 Consensus size: 64
4271323 TTCAAAAACG
* * *
4271333 CCTTCAATAATTTTCTC-ATCAAAATTTAAGGGGATTATTGAAGGCATTTTTTTTACAAAAAAAT
1 CCTTCAATAATCTTCTCTA-AAAAATTTAAGAGGATTATTGAAGGCATTTTTTTTA-AAAAAAAT
4271397 A
64 A
* * * *
4271398 CCTTCAATAATCTTCTCTAAAAAATTTAAGAGAATTATTGAAGGTATTTTTTTTATAGAAAATA
1 CCTTCAATAATCTTCTCTAAAAAATTTAAGAGGATTATTGAAGGCATTTTTTTTAAAAAAAATA
*
4271462 CCTTCAATAGTCCTT-TCTAAAAAATTTAAGAGGATTATTGAAGG
1 CCTTCAATAAT-CTTCTCTAAAAAATTTAAGAGGATTATTGAAGG
4271506 TGTTTTTTGC
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 45 0.46
65 51 0.53
66 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.38
Consensus pattern (64 bp):
CCTTCAATAATCTTCTCTAAAAAATTTAAGAGGATTATTGAAGGCATTTTTTTTAAAAAAAATA
Found at i:4271481 original size:64 final size:65
Alignment explanation
Indices: 4271333--4271513 Score: 242
Period size: 64 Copynumber: 2.8 Consensus size: 65
4271323 TTCAAAAACG
* * * *
4271333 CCTTCAATAATTTTCTC-ATCAAAATTTAAGGGGATTATTGAAGGCATTTTTTTTACAAAAAAAT
1 CCTTCAATAATCTTCTCTA-AAAAATTTAAGAGGATTATTGAAGGTATTTTTTTTACAAAAAAAT
4271397 A
65 A
* * *
4271398 CCTTCAATAATCTTCTCTAAAAAATTTAAGAGAATTATTGAAGGTATTTTTTTTA-TAGAAAATA
1 CCTTCAATAATCTTCTCTAAAAAATTTAAGAGGATTATTGAAGGTATTTTTTTTACAAAAAAATA
* *
4271462 CCTTCAATAGTCCTT-TCTAAAAAATTTAAGAGGATTATTGAAGGTGTTTTTT
1 CCTTCAATAAT-CTTCTCTAAAAAATTTAAGAGGATTATTGAAGGTATTTTTT
4271514 GCCTGAAATG
Statistics
Matches: 104, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
64 52 0.50
65 51 0.49
66 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (65 bp):
CCTTCAATAATCTTCTCTAAAAAATTTAAGAGGATTATTGAAGGTATTTTTTTTACAAAAAAATA
Found at i:4274425 original size:34 final size:34
Alignment explanation
Indices: 4274373--4274451 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
4274363 ACAAATGCCA
* * * * *
4274373 CTAATATAGCTACGTTTTTCAGATGCAAACGTCG
1 CTAATATAACGACATTTTTCAGATACAAACATCG
* *
4274407 CTAATATAACGACATTTTTTAGATACAAATATCG
1 CTAATATAACGACATTTTTCAGATACAAACATCG
*
4274441 TTAATATAACG
1 CTAATATAACG
4274452 GTATTTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (34 bp):
CTAATATAACGACATTTTTCAGATACAAACATCG
Found at i:4274579 original size:6 final size:6
Alignment explanation
Indices: 4274568--4274621 Score: 67
Period size: 6 Copynumber: 9.0 Consensus size: 6
4274558 AGATGGGTCC
*
4274568 ATTTTT ATTTTT ATTTATT ATTATT ATTATTT ATTTTT A-TTTT A-TTTT
1 ATTTTT ATTTTT ATTT-TT ATTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
4274616 ATTTTT
1 ATTTTT
4274622 TTAGACTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 10 0.23
6 23 0.53
7 10 0.23
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:4274586 original size:10 final size:10
Alignment explanation
Indices: 4274571--4274621 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
4274561 TGGGTCCATT
4274571 TTTATTTTTA
1 TTTATTTTTA
*
4274581 TTTATTATTA
1 TTTATTTTTA
4274591 -TTATTATTTA
1 TTTATT-TTTA
*
4274601 TTTTTATTTTA
1 TTTAT-TTTTA
4274612 TTTTATTTTT
1 -TTTATTTTT
4274622 TTAGACTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
9 5 0.15
10 12 0.36
11 11 0.33
12 5 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:4274616 original size:16 final size:16
Alignment explanation
Indices: 4274568--4274621 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
4274558 AGATGGGTCC
4274568 ATTTTTATTTT-TATTT
1 ATTTTTATTTTAT-TTT
*
4274584 ATTATTATTATTA-TTT
1 ATTTTTATT-TTATTTT
4274600 ATTTTTATTTTATTTT
1 ATTTTTATTTTATTTT
4274616 ATTTTT
1 ATTTTT
4274622 TTAGACTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 3 0.09
16 28 0.85
17 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTTTATTTTATTTT
Found at i:4274968 original size:11 final size:11
Alignment explanation
Indices: 4274954--4274979 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4274944 TTTGGTTTTT
4274954 TTTTTTGGAAA
1 TTTTTTGGAAA
4274965 TTTTTTGGAAA
1 TTTTTTGGAAA
4274976 TTTT
1 TTTT
4274980 CCAAATTTTG
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:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (11 bp):
TTTTTTGGAAA
Found at i:4275032 original size:31 final size:32
Alignment explanation
Indices: 4274996--4275061 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
4274986 TTTGATGAAT
4274996 TTTTTCAAAGCTAG-TTGAATTTTTCGATAA-G
1 TTTTTCAAAG-TAGATTGAATTTTTCGATAACG
* * *
4275027 TTTTTCGATGTCGATTGAATTTTTCGATAACG
1 TTTTTCAAAGTAGATTGAATTTTTCGATAACG
4275059 TTT
1 TTT
4275062 CCCGAATCCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 2 0.07
31 24 0.80
32 4 0.13
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (32 bp):
TTTTTCAAAGTAGATTGAATTTTTCGATAACG
Found at i:4275492 original size:9 final size:8
Alignment explanation
Indices: 4275476--4275526 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
4275466 GCCGTTTTGA
4275476 TTTTT-TT
1 TTTTTATT
*
4275483 TTTGTATT
1 TTTTTATT
4275491 TTTTTATT
1 TTTTTATT
4275499 TTCTTTAGTT
1 TT-TTTA-TT
*
4275509 TTTTTGGTT
1 TTTTT-ATT
4275518 TTTTTATT
1 TTTTTATT
4275526 T
1 T
4275527 ATATGTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
7 4 0.11
8 14 0.39
9 14 0.39
10 4 0.11
ACGTcount: A:0.08, C:0.02, G:0.08, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:4275537 original size:27 final size:26
Alignment explanation
Indices: 4275470--4275538 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 26
4275460 AGCTGAGCCG
4275470 TTTTGATTTTTTTTTTGTATTTTTTTA
1 TTTT-ATTTTTTTTTTGTATTTTTTTA
* *
4275497 TTTTCTTTAGTTTTTTTG-GTTTTTTTA
1 TTTTATTT--TTTTTTTGTATTTTTTTA
*
4275524 TTTATATGTTTTTTT
1 TTT-TATTTTTTTTT
4275539 AAGTGTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
26 9 0.26
27 15 0.43
28 11 0.31
ACGTcount: A:0.10, C:0.01, G:0.09, T:0.80
Consensus pattern (26 bp):
TTTTATTTTTTTTTTGTATTTTTTTA
Found at i:4275668 original size:16 final size:17
Alignment explanation
Indices: 4275643--4275684 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
4275633 AGTATCAATT
*
4275643 TTTCTTAAAAAT-AAAA
1 TTTCTAAAAAATAAAAA
4275659 TTTCTAAAAAATAAAAA
1 TTTCTAAAAAATAAAAA
*
4275676 TTTTTAAAA
1 TTTCTAAAA
4275685 GATATTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTCTAAAAAATAAAAA
Found at i:4275743 original size:16 final size:16
Alignment explanation
Indices: 4275718--4275758 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
4275708 AGTATCAATT
4275718 TTTCTTAAAAAT-AAAA
1 TTTC-TAAAAATAAAAA
4275734 TTTCTAAAAATAAAAA
1 TTTCTAAAAATAAAAA
*
4275750 TTTCCAAAA
1 TTTCTAAAA
4275759 GATATTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (16 bp):
TTTCTAAAAATAAAAA
Found at i:4275788 original size:74 final size:75
Alignment explanation
Indices: 4275606--4275799 Score: 302
Period size: 75 Copynumber: 2.6 Consensus size: 75
4275596 CATTTTCAAG
* *
4275606 AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCTAAAAAAT
1 AAAAGATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCTAAAAAAT
**
4275671 AAAAATTTTT
66 AAAAATTTCC
*
4275681 AAAAGATATTTTTGATAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCT-AAAAAT
1 AAAAGATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCTAAAAAAT
4275745 AAAAATTTCC
66 AAAAATTTCC
* * *
4275755 AAAAGATATTTTTGAGGAAAAGTTAAAAATATCAATTTTT-TTAAA
1 AAAAGATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAA
4275800 TTAAAATAAA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
73 5 0.05
74 50 0.45
75 55 0.50
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (75 bp):
AAAAGATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCTAAAAAAT
AAAAATTTCC
Found at i:4275890 original size:60 final size:59
Alignment explanation
Indices: 4275826--4276043 Score: 262
Period size: 60 Copynumber: 3.6 Consensus size: 59
4275816 TATTTTGCGA
* * * *
4275826 AAAAGTTGGAAGTACCAATTTTTCTTAAAAGTAAAAATTATTAAGAAAAGTATTTTGATG
1 AAAAGTTGAAAGTACCAATTTTTCTTAAAA-TAAAAATTATCAAGAAAAATATTTTGAAG
* * * *
4275886 AAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAAATT-TCAAAAAAATATATTTTGAAA
1 AAAAGTTGAAAGTACCAATTTTTCTTAAAATAAAAATTATCAAGAAAA-ATATTTTGAAG
4275945 AAAAGTTGAAAGTACCAATTTTT-TTAAAAAATAAAAATTATCAAGAAAAAATATTTT-AAG
1 AAAAGTTGAAAGTACCAATTTTTCTT--AAAATAAAAATTATCAAG-AAAAATATTTTGAAG
* *
4276005 AAAAAGTTGAAAGTATCAATTTTTTTTTAAAATAAAAAT
1 -AAAAGTTGAAAGTACCAA-TTTTTCTTAAAATAAAAAT
4276044 CTCTAAATGC
Statistics
Matches: 137, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
58 9 0.07
59 37 0.27
60 41 0.30
61 39 0.28
62 9 0.07
63 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (59 bp):
AAAAGTTGAAAGTACCAATTTTTCTTAAAATAAAAATTATCAAGAAAAATATTTTGAAG
Found at i:4276012 original size:61 final size:62
Alignment explanation
Indices: 4275816--4276043 Score: 276
Period size: 61 Copynumber: 3.8 Consensus size: 62
4275806 TAAAAAAAGG
* * * * *
4275816 TATTTTG-CGAAAAAGTTGGAAGTACCAATTTTTCTTAAAAGTAAAAATTATTAAG-AAAAG
1 TATTTTGAAGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAAA
* * *
4275876 TATTTTGATG-AAAAGTTGAAAGTATCAATTTTTCTT-AAAATTAAAATT-TCAA-AAAAATA
1 TATTTTGAAGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAA-A
4275935 TATTTTGAA-AAAAAGTTGAAAGTACCAATTTTT-TTAAAAAATAAAAATTATCAAGAAAAAA
1 TATTTTGAAGAAAAAGTTGAAAGTACCAATTTTTCTT-AAAAATAAAAATTATCAAGAAAAAA
* * *
4275996 TATTTT-AAGAAAAAGTTGAAAGTATCAATTTTTTTTTAAAATAAAAAT
1 TATTTTGAAGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAAT
4276044 CTCTAAATGC
Statistics
Matches: 146, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
58 9 0.06
59 40 0.27
60 44 0.30
61 46 0.32
62 7 0.05
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (62 bp):
TATTTTGAAGAAAAAGTTGAAAGTACCAATTTTTCTTAAAAATAAAAATTATCAAGAAAAAA
Found at i:4276064 original size:119 final size:119
Alignment explanation
Indices: 4275734--4276046 Score: 295
Period size: 119 Copynumber: 2.7 Consensus size: 119
4275724 AAAAATAAAA
* * * * *
4275734 TTTC-TAAAAATAAAAATT-TCCA-AAAGATATTTTTGAGGAAAAGTTAAAAATATCAATTTTT-
1 TTTCTTAAAAATAAAAATTATCAAGAAAAATA-TTTTGAAGAAAAGTTGAAAGTATCAATTTTTC
* ** *** ** *
4275795 TT-AAATTAAAA--T-AAAAAAAGGTATTTTGCGAAAAAGTTGGAAGTACCAATT
65 TTAAAATAAAAATCTCAAAAAAATATATAAGGAAAAAAAGTTGAAAGTACCAATT
* * * *
4275846 TTTCTTAAAAGTAAAAATTATTAAGAAAAGTATTTTGATGAAAAGTTGAAAGTATCAATTTTTCT
1 TTTCTTAAAAATAAAAATTATCAAGAAAAATATTTTGAAGAAAAGTTGAAAGTATCAATTTTTCT
* * ***
4275911 TAAAATTAAAATTTCAAAAAAATATATTTTGAAAAAAAGTTGAAAGTACCAATT
66 TAAAATAAAAATCTCAAAAAAATATATAAGGAAAAAAAGTTGAAAGTACCAATT
4275965 TTT-TTAAAAAATAAAAATTATCAAGAAAAAATATTTT-AAGAAAAAGTTGAAAGTATCAATTTT
1 TTTCTT-AAAAATAAAAATTATCAAG-AAAAATATTTTGAAG-AAAAGTTGAAAGTATCAA-TTT
*
4276028 TTTTTAAAATAAAAATCTC
62 TTCTTAAAATAAAAATCTC
4276047 TAAATGCTTT
Statistics
Matches: 169, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
112 4 0.02
113 13 0.08
114 30 0.18
115 7 0.04
116 9 0.05
118 3 0.02
119 56 0.33
120 28 0.17
121 19 0.11
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (119 bp):
TTTCTTAAAAATAAAAATTATCAAGAAAAATATTTTGAAGAAAAGTTGAAAGTATCAATTTTTCT
TAAAATAAAAATCTCAAAAAAATATATAAGGAAAAAAAGTTGAAAGTACCAATT
Found at i:4279586 original size:16 final size:15
Alignment explanation
Indices: 4279565--4279594 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4279555 CCTTCGAGTT
4279565 TTAGTCCACAACAAGC
1 TTAGTCCAC-ACAAGC
4279581 TTAGTCCACACAAG
1 TTAGTCCACACAAG
4279595 ATATACCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (15 bp):
TTAGTCCACACAAGC
Found at i:4290413 original size:22 final size:22
Alignment explanation
Indices: 4290381--4290427 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4290371 CCCTTCCTCG
* *
4290381 GTTCTAGTCTAACAGACAACTA
1 GTTCTACTCTAACACACAACTA
* *
4290403 GTTCTACTCTAGCCCACAACTA
1 GTTCTACTCTAACACACAACTA
4290425 GTT
1 GTT
4290428 AACCTAGAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (22 bp):
GTTCTACTCTAACACACAACTA
Found at i:4313822 original size:65 final size:64
Alignment explanation
Indices: 4313753--4313930 Score: 202
Period size: 65 Copynumber: 2.8 Consensus size: 64
4313743 CAAAAACGTT
* *
4313753 TTCAATAATTTTCTCATCAAAATTTAAGGGGATTATTGAAGGTATTTTTTTTATAAAAAAATACC
1 TTCAATAATTTTCTCATAAAAATTTAAGAGGATTATTGAAGGTATTTTTTTTA-AAAAAAATACC
* * * * * *
4313818 TTCAATAATCTTCTC-TAAAAAATTTAAGAGAATTATTGAATGTA-TTTTTTTACAGAAAATATC
1 TTCAATAATTTTCTCAT-AAAAATTTAAGAGGATTATTGAAGGTATTTTTTTTAAAAAAAATACC
* *
4313881 TTCAATAGTCCTTTCT-A-AAAAATTTAAGAGGATTATTGAAGGTGTTTTTT
1 TTCAATAAT--TTTCTCATAAAAATTTAAGAGGATTATTGAAGGTATTTTTT
4313931 GCCTGAAATA
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
63 40 0.42
64 14 0.15
65 41 0.43
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (64 bp):
TTCAATAATTTTCTCATAAAAATTTAAGAGGATTATTGAAGGTATTTTTTTTAAAAAAAATACC
Found at i:4313898 original size:63 final size:63
Alignment explanation
Indices: 4313771--4313956 Score: 232
Period size: 63 Copynumber: 2.9 Consensus size: 63
4313761 TTTTCTCATC
* * *
4313771 AAAATTTAAGGGGATTATTGAAGGTATTTTTTTTATAAAAAAATACCTTCAATAAT-CTTCTCTA
1 AAAATTTAAGAGGATTATTGAAGGTA-TTTTTTTA-CAGAAAATACCTTCAATAATCCTT-TCTA
4313835 A
63 A
* * * *
4313836 AAAATTTAAGAGAATTATTGAATGTATTTTTTTACAGAAAATATCTTCAATAGTCCTTTCTAA
1 AAAATTTAAGAGGATTATTGAAGGTATTTTTTTACAGAAAATACCTTCAATAATCCTTTCTAA
* ** *
4313899 AAAATTTAAGAGGATTATTGAAGGTGTTTTTTGCCTG-AAATACCTTCAATAATCCTTT
1 AAAATTTAAGAGGATTATTGAAGGTATTTTTTTACAGAAAATACCTTCAATAATCCTTT
4313957 TTGCAAATAG
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
62 19 0.18
63 52 0.50
64 11 0.10
65 23 0.22
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (63 bp):
AAAATTTAAGAGGATTATTGAAGGTATTTTTTTACAGAAAATACCTTCAATAATCCTTTCTAA
Found at i:4315865 original size:31 final size:32
Alignment explanation
Indices: 4315827--4315887 Score: 115
Period size: 31 Copynumber: 1.9 Consensus size: 32
4315817 ATTGAAAATC
4315827 TATGTCTTAGCCTTTCATATATTCT-TTTCAA
1 TATGTCTTAGCCTTTCATATATTCTCTTTCAA
4315858 TATGTCTTAGCCTTTCATATATTCTCTTTC
1 TATGTCTTAGCCTTTCATATATTCTCTTTC
4315888 TCTTAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.20, C:0.21, G:0.07, T:0.52
Consensus pattern (32 bp):
TATGTCTTAGCCTTTCATATATTCTCTTTCAA
Found at i:4315879 original size:19 final size:19
Alignment explanation
Indices: 4315827--4315879 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 19
4315817 ATTGAAAATC
4315827 TATGTCTTAGCCTTTCATA
1 TATGTCTTAGCCTTTCATA
4315846 TAT-TC-T----TTTCA-A
1 TATGTCTTAGCCTTTCATA
4315858 TATGTCTTAGCCTTTCATA
1 TATGTCTTAGCCTTTCATA
4315877 TAT
1 TAT
4315880 TCTCTTTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 14
0.66 0.00 0.34
Matches are distributed among these distances:
12 4 0.15
13 7 0.26
14 1 0.04
17 1 0.04
18 7 0.26
19 7 0.26
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.51
Consensus pattern (19 bp):
TATGTCTTAGCCTTTCATA
Found at i:4316876 original size:34 final size:34
Alignment explanation
Indices: 4316838--4316911 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
4316828 TAAAGCAACG
* *
4316838 TTTTTTAGATGCAAACGTCACTAATATAACGATA
1 TTTTTTAGATACAAACATCACTAATATAACGATA
* * *
4316872 TTTTTTAGATACAAATATCATTAATATAACGGTA
1 TTTTTTAGATACAAACATCACTAATATAACGATA
4316906 TTTTTT
1 TTTTTT
4316912 TTGAAAATAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (34 bp):
TTTTTTAGATACAAACATCACTAATATAACGATA
Found at i:4317030 original size:6 final size:6
Alignment explanation
Indices: 4317019--4317078 Score: 61
Period size: 6 Copynumber: 10.0 Consensus size: 6
4317009 AGATGGGTCC
* * *
4317019 ATTTTT ATTTTT ATTTATT ATTATT ATTATTT ATTATT ATTATT A-TTTT
1 ATTTTT ATTTTT ATTT-TT ATTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
4317068 A-TTTT ATTTTT
1 ATTTTT ATTTTT
4317079 TTGGACTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 9 0.19
6 28 0.60
7 10 0.21
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:4317041 original size:3 final size:3
Alignment explanation
Indices: 4317023--4317075 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
4317013 GGGTCCATTT
*
4317023 TTA TTT TTA TTTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
4317069 TT- TTA TT
1 TTA TTA TT
4317076 TTTTTGGACT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 4 0.09
3 34 0.77
4 6 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:4317048 original size:16 final size:16
Alignment explanation
Indices: 4317023--4317075 Score: 81
Period size: 16 Copynumber: 3.3 Consensus size: 16
4317013 GGGTCCATTT
*
4317023 TTATTTTTATTTATTA
1 TTATTATTATTTATTA
4317039 TTATTATTATTTATTA
1 TTATTATTATTTATTA
4317055 TTATTATTATTTTATT-
1 TTATTATTA-TTTATTA
4317071 TTATT
1 TTATT
4317076 TTTTTGGACT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 29 0.83
17 6 0.17
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTATTATTTATTA
Found at i:4318120 original size:16 final size:17
Alignment explanation
Indices: 4318095--4318136 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
4318085 AGTATCAATT
*
4318095 TTTCTTAAAAAT-AAAA
1 TTTCTAAAAAATAAAAA
4318111 TTTCTAAAAAATAAAAA
1 TTTCTAAAAAATAAAAA
*
4318128 TTTTTAAAA
1 TTTCTAAAA
4318137 GATATTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTCTAAAAAATAAAAA
Found at i:4318154 original size:75 final size:74
Alignment explanation
Indices: 4318041--4318251 Score: 309
Period size: 75 Copynumber: 2.8 Consensus size: 74
4318031 TAATAAATAT
* *
4318041 AAAAT-AAAATTTTCAAGAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAA
1 AAAATAAAAATTTTC---AAAAGATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAA
4318105 ATAAAATTTCTAA
63 ATAAAATTTCT-A
* * *
4318118 AAAATAAAAATTTTTAAAAGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA
1 AAAATAAAAATTTTCAAAAGATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
4318183 AAATTTCTA
66 AAATTTCTA
* *
4318192 AAAATAAAAATTTTCAAAAGATATTTTTGAGAAAAAGTTAAAAATATCAATTTTT-TTAAA
1 AAAATAAAAATTTTCAAAAGATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAA
4318252 TTAAAATAAA
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
73 5 0.04
74 51 0.41
75 54 0.44
77 5 0.04
78 8 0.07
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.36
Consensus pattern (74 bp):
AAAATAAAAATTTTCAAAAGATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
AAATTTCTA
Found at i:4318418 original size:60 final size:60
Alignment explanation
Indices: 4318278--4318419 Score: 143
Period size: 60 Copynumber: 2.4 Consensus size: 60
4318268 GTATTTTACG
* * *
4318278 AAAAGTTGGAAGTATCAATTTTCTTAAAATAAAAATTATTAAAGAAAAAGAATTTTGATG
1 AAAAGTTGAAAGTATCAATTTTCTTAAAATAAAAATTATCAAAGAAAAAGAATTTTGATA
* *
4318338 AAAAGTTGAAA-TACTTAATTTTCGTTAAATATTAAAAATT-TCAAA-AAAATA-TATTTTGA-A
1 AAAAGTTGAAAGTA-TCAATTTTC-TTAAA-A-TAAAAATTATCAAAGAAAA-AGAATTTTGATA
4318398 AAAAG-TGAAAAGTATCAATTTT
1 AAAAGTTG-AAAGTATCAATTTT
4318420 TTTTTAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
59 4 0.06
60 33 0.48
61 18 0.26
62 6 0.09
63 8 0.12
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (60 bp):
AAAAGTTGAAAGTATCAATTTTCTTAAAATAAAAATTATCAAAGAAAAAGAATTTTGATA
Found at i:4324162 original size:29 final size:29
Alignment explanation
Indices: 4324124--4324193 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
4324114 TATTAATTTT
* * *
4324124 TAATTTTTTATTTATATATATTTATATAA
1 TAATATTTTATTTATATATATTTAAAAAA
* ** *
4324153 TGATATTTTAAATATTTATATTTAAAAAA
1 TAATATTTTATTTATATATATTTAAAAAA
4324182 TAATATTTTATT
1 TAATATTTTATT
4324194 AATTTAAGTT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (29 bp):
TAATATTTTATTTATATATATTTAAAAAA
Found at i:4329510 original size:13 final size:13
Alignment explanation
Indices: 4329494--4329518 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4329484 TTTGGTTTTT
4329494 TTTTGTATTTATA
1 TTTTGTATTTATA
4329507 TTTTGTATTTAT
1 TTTTGTATTTAT
4329519 GTGTTTGTTT
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:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTTGTATTTATA
Found at i:4329657 original size:17 final size:18
Alignment explanation
Indices: 4329635--4329676 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
4329625 TGAAAGTATC
4329635 AAATTTCTTTAAAAAT-A
1 AAATTTCTTTAAAAATAA
4329652 AAATTTC-TTAAAAATAA
1 AAATTTCTTTAAAAATAA
4329669 AAATTTCT
1 AAATTTCT
4329677 AAAAGATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTCTTTAAAAATAA
Found at i:4329720 original size:59 final size:58
Alignment explanation
Indices: 4329655--4330024 Score: 295
Period size: 60 Copynumber: 6.1 Consensus size: 58
4329645 AAAAATAAAA
*
4329655 TTTCTTAAAAATAAAAATTTCTAAAAGATATTTTTAAGGAAAAGTTGAAAGTATCAATT
1 TTTCTTAAAAATAAAAATTTC-AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATT
* *
4329714 TTTCTTAAAAAT-AAAATTTCTAAAAATAAAAATTTTCAAAAGTATTTTGAGAAAAAGTTGAAAG
1 TTTCTTAAAAATAAAAATTTC-----A-AAAAA---T----A-T-TTTTAAGGAAAAGTTGAAAG
*
4329778 TATTAATT
51 TATCAATT
* ** * *
4329786 TTT-TT--AAATTAAAATTAAAAAAAATA-TTTTGAGGAAAAGTTGAAAGTACCAATT
1 TTTCTTAAAAATAAAAATTTCAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATT
*
4329840 TTTCTTAAAAATAAAAATTATCAAGAAAA-ATATTTTAA-GAAAAGTTGAAAGTATTAATT
1 TTTCTTAAAAATAAAAATT-TCAA-AAAATAT-TTTTAAGGAAAAGTTGAAAGTATCAATT
* ** * * * * * *
4329899 TTTTTTTGAAATTAAAATTTCAGAAAAAAATATTTTGAGAAAAAGTTGGAAGTACCAATT
1 TTTCTTAAAAATAAAAATTTCA-AAAAATAT-TTTTAAGGAAAAGTTGAAAGTATCAATT
* *
4329959 TTTCTTAAAAATAAAAATTATCAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAAAT
1 TTTCTTAAAAATAAAAATT-TCAAAAAATAT-TTTTAAGGAAAAGTTGAAAGTATCAATT
4330019 TTTCTT
1 TTTCTT
4330025 GTACAAAAGC
Statistics
Matches: 251, Mismatches: 34, Indels: 51
0.75 0.10 0.15
Matches are distributed among these distances:
54 28 0.11
55 2 0.01
57 11 0.04
58 18 0.07
59 59 0.24
60 75 0.30
61 4 0.02
62 1 0.00
63 4 0.02
64 5 0.02
65 1 0.00
66 1 0.00
69 4 0.02
70 7 0.03
71 3 0.01
72 28 0.11
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (58 bp):
TTTCTTAAAAATAAAAATTTCAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATT
Found at i:4329747 original size:74 final size:75
Alignment explanation
Indices: 4329602--4329801 Score: 263
Period size: 75 Copynumber: 2.7 Consensus size: 75
4329592 ATTTTCAAGA
* *
4329602 AAAAAATATTTTTTAA-AAAAAGTTGAAAGTATCAA-ATTTCTTTAAAAATAAAATTTCTTAAAA
1 AAAAGATA-TTTTTAAGAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAATAAAATTTCTTAAAA
4329665 ATAAAAA-TTTC
64 ATAAAAATTTTC
*
4329676 TAAAAGATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTC-TAAAAA
1 -AAAAGATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCTTAAAAA
4329740 TAAAAATTTTC
65 TAAAAATTTTC
* * *
4329751 AAAAG-TA-TTTTGAGAAAAAGTTGAAAGTATTAATTTTT-TT-AAATTAAAATT
1 AAAAGATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT
4329802 AAAAAAAATA
Statistics
Matches: 115, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
70 10 0.09
71 2 0.02
72 28 0.24
73 2 0.02
74 24 0.21
75 45 0.39
76 4 0.03
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (75 bp):
AAAAGATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCTTAAAAAT
AAAAATTTTC
Found at i:4329748 original size:16 final size:16
Alignment explanation
Indices: 4329714--4329744 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4329704 AGTATCAATT
4329714 TTTCTTAAAAATAAAA
1 TTTCTTAAAAATAAAA
4329730 TTTC-TAAAAATAAAA
1 TTTCTTAAAAATAAAA
4329745 ATTTTCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTCTTAAAAATAAAA
Found at i:4329875 original size:60 final size:59
Alignment explanation
Indices: 4329730--4330024 Score: 331
Period size: 60 Copynumber: 5.1 Consensus size: 59
4329720 AAAAATAAAA
* * * *
4329730 TTTC-TAAAAATAAAAATTTTC--AAAAGTATTTTGAGAAAAAGTTGAAAGTATTAATT
1 TTTCTTAAAAATAAAAATTATCAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATT
* *
4329786 TTT-TT--AAATTAAAATTA--AAAAAAATATTTTGAGGAAAAGTTGAAAGTACCAATT
1 TTTCTTAAAAATAAAAATTATCAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATT
* *
4329840 TTTCTTAAAAATAAAAATTATCAAGAAAAATATTTT-AAGAAAAGTTGAAAGTATTAATT
1 TTTCTTAAAAATAAAAATTATCAA-AAAAATATTTTGAGGAAAAGTTGAAAGTATCAATT
* ** * * * *
4329899 TTTTTTTGAAATTAAAATT-TCAGAAAAAAATATTTTGAGAAAAAGTTGGAAGTACCAATT
1 TTTCTTAAAAATAAAAATTATC--AAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATT
* *
4329959 TTTCTTAAAAATAAAAATTATCAAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAAAT
1 TTTCTTAAAAATAAAAATTATC-AAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATT
4330019 TTTCTT
1 TTTCTT
4330025 GTACAAAAGC
Statistics
Matches: 197, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
54 44 0.22
55 2 0.01
56 4 0.02
57 11 0.06
58 2 0.01
59 48 0.24
60 84 0.43
61 2 0.01
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.36
Consensus pattern (59 bp):
TTTCTTAAAAATAAAAATTATCAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATT
Found at i:4329959 original size:119 final size:112
Alignment explanation
Indices: 4329730--4330013 Score: 412
Period size: 119 Copynumber: 2.5 Consensus size: 112
4329720 AAAAATAAAA
* * *
4329730 TTTC-TAAAAATAAAAATTTTC--AAAAGTATTTTGAGAAAAAGTTGAAAGTATTAATTTTTTTA
1 TTTCTTAAAAATAAAAATTATCAAAAAAATATTTTAAG-AAAAGTTGAAAGTATTAATTTTTTTA
*
4329792 AATTAAAATTAAAAAAAATATTTTGAGGAAAAGTTGAAAGTACCAATT
65 AATTAAAATTAAAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAATT
4329840 TTTCTTAAAAATAAAAATTATCAAGAAAAATATTTTAAGAAAAGTTGAAAGTATTAATTTTTTTT
1 TTTCTTAAAAATAAAAATTATCAA-AAAAATATTTTAAGAAAAGTTGAAAGTATTAA--TTTTTT
*
4329905 TGAAATTAAAATTTCAGAAAAAAATATTTTGAGAAAAAGTTGGAAGTACCAATT
63 T-AAATTAAAA-TT-A-AAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAATT
4329959 TTTCTTAAAAATAAAAATTATCAAAAAAAATATTTTAAGGAAAAGTTGAAAGTAT
1 TTTCTTAAAAATAAAAATTATC-AAAAAAATATTTTAA-GAAAAGTTGAAAGTAT
4330014 CAAATTTTCT
Statistics
Matches: 157, Mismatches: 5, Indels: 14
0.89 0.03 0.08
Matches are distributed among these distances:
110 4 0.03
111 16 0.10
113 18 0.11
114 12 0.08
115 7 0.04
116 9 0.06
117 2 0.01
118 1 0.01
119 70 0.45
120 18 0.11
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.36
Consensus pattern (112 bp):
TTTCTTAAAAATAAAAATTATCAAAAAAATATTTTAAGAAAAGTTGAAAGTATTAATTTTTTTAA
ATTAAAATTAAAAAAAATATTTTGAGAAAAAGTTGAAAGTACCAATT
Found at i:4330720 original size:2 final size:2
Alignment explanation
Indices: 4330713--4330747 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4330703 CATCTCCTTT
4330713 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4330748 TTACACCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4330822 original size:16 final size:15
Alignment explanation
Indices: 4330784--4330826 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
4330774 TTTGAGCTCT
4330784 TTCTTTTTT-TATTA
1 TTCTTTTTTCTATTA
*
4330798 TT-ATTTTTCTATATA
1 TTCTTTTTTCTAT-TA
4330813 TTCTTTTTTCTATT
1 TTCTTTTTTCTATT
4330827 TAGAGAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 5 0.21
14 5 0.21
15 5 0.21
16 9 0.38
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.74
Consensus pattern (15 bp):
TTCTTTTTTCTATTA
Found at i:4332871 original size:22 final size:22
Alignment explanation
Indices: 4332845--4332898 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
4332835 ATAATTATTT
*
4332845 TATTTAAAAATTTATTTAAATA
1 TATTTAAAAATTTATTAAAATA
**
4332867 TATTTAAATTTTTATTAAAATA
1 TATTTAAAAATTTATTAAAATA
*
4332889 -ATATAAAAAT
1 TATTTAAAAAT
4332899 AAAAATTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTTAAAAATTTATTAAAATA
Found at i:4333946 original size:14 final size:16
Alignment explanation
Indices: 4333922--4333953 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4333912 ATTGATTTGT
4333922 ATAATTATTTAA-AAA
1 ATAATTATTTAATAAA
4333937 ATAA-TATTTAATAAA
1 ATAATTATTTAATAAA
4333952 AT
1 AT
4333954 TTAAAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATTATTTAATAAA
Done.