Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 86 of 172
Found at i:24557339 original size:19 final size:19
Alignment explanation
Indices: 24557315--24557352 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24557305 AATTATTTAT
24557315 TAAATT-TAATTAGAATATA
1 TAAATTATAATTA-AATATA
*
24557334 TAAATTATATTTAAATATA
1 TAAATTATAATTAAATATA
24557353 ATAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TAAATTATAATTAAATATA
Found at i:24557372 original size:14 final size:14
Alignment explanation
Indices: 24557338--24557379 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
24557328 AATATATAAA
*
24557338 TTATATTTAAATA-
1 TTATAATTAAATAT
*
24557351 TAATAATTAAATAT
1 TTATAATTAAATAT
*
24557365 TTATAATTAGATAT
1 TTATAATTAAATAT
24557379 T
1 T
24557380 GACACCATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (14 bp):
TTATAATTAAATAT
Found at i:24558558 original size:31 final size:29
Alignment explanation
Indices: 24558477--24558559 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
24558467 AAAATTAAAT
* * *
24558477 CAAAAT-AAATTTTCACTTATAAAATTATA
1 CAAAATCAAATTTT-ATTTATAATATTAGA
* * *
24558506 CAAAATCAAAATTCATATATAATATTAGA
1 CAAAATCAAATTTTATTTATAATATTAGA
24558535 CATTAAATCAAATTTTATTTATAAT
1 CA--AAATCAAATTTTATTTATAAT
24558560 TTCATATTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
29 19 0.45
30 5 0.12
31 18 0.43
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.39
Consensus pattern (29 bp):
CAAAATCAAATTTTATTTATAATATTAGA
Found at i:24560992 original size:19 final size:19
Alignment explanation
Indices: 24560957--24560993 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24560947 AACTTAGCCC
**
24560957 AATAAAACCCAGTACCCAA
1 AATAAAACCCAAAACCCAA
24560976 AATAAAACCCAAAACCCA
1 AATAAAACCCAAAACCCA
24560994 TTTACAAAAA
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:0.57, C:0.32, G:0.03, T:0.08
Consensus pattern (19 bp):
AATAAAACCCAAAACCCAA
Found at i:24566318 original size:14 final size:13
Alignment explanation
Indices: 24566291--24566316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24566281 AAATAAAATA
24566291 AAAATAATTTTTT
1 AAAATAATTTTTT
24566304 AAAATAATTTTTT
1 AAAATAATTTTTT
24566317 TACATTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAAATAATTTTTT
Found at i:24566548 original size:2 final size:2
Alignment explanation
Indices: 24566541--24566566 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24566531 AATCAAACTC
24566541 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
24566567 TCATTTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24567320 original size:20 final size:19
Alignment explanation
Indices: 24567295--24567333 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
24567285 GTGCATCTGC
24567295 TTCTTTCCTTCTTTCTCTTT
1 TTCTTTCCTTCTTT-TCTTT
*
24567315 TTCTTTCTTTCTTTTCTTT
1 TTCTTTCCTTCTTTTCTTT
24567334 CTTATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTTCCTTCTTTTCTTT
Found at i:24567321 original size:4 final size:4
Alignment explanation
Indices: 24567295--24567336 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
24567285 GTGCATCTGC
*
24567295 TTCT TTCC TTCT TTCT CTT-T TTCT TTCT TTCTT TTCT TTCT T
1 TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTC-T TTCT TTCT T
24567337 ATTTTGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 2 0.06
4 25 0.76
5 6 0.18
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:24567322 original size:16 final size:17
Alignment explanation
Indices: 24567294--24567336 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
24567284 CGTGCATCTG
*
24567294 CTTCTTTCCTTCTTTCT
1 CTTCTTTCTTTCTTTCT
24567311 CTT-TTTCTTTCTTTCT
1 CTTCTTTCTTTCTTTCT
*
24567327 TTTCTTTCTT
1 CTTCTTTCTT
24567337 ATTTTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
CTTCTTTCTTTCTTTCT
Found at i:24571947 original size:16 final size:16
Alignment explanation
Indices: 24571926--24571957 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24571916 CGTCTAATGG
24571926 TTTTATGAACCACTAT
1 TTTTATGAACCACTAT
*
24571942 TTTTATGAACTACTAT
1 TTTTATGAACCACTAT
24571958 ATAGTAAAGT
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:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTTATGAACCACTAT
Found at i:24574875 original size:12 final size:12
Alignment explanation
Indices: 24574858--24574887 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24574848 CCAATTTATC
*
24574858 TTTTCTTTTCTT
1 TTTTCTTTTCCT
24574870 TTTTCTTTTCCT
1 TTTTCTTTTCCT
24574882 TTTTCT
1 TTTTCT
24574888 GGTAAGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTCCT
Found at i:24575266 original size:31 final size:31
Alignment explanation
Indices: 24575228--24575286 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
24575218 AAATAACGGG
* * *
24575228 TGACTAAAATGATAAATGTATGTAACAACAA
1 TGACTAAAATAATAAAAGTATATAACAACAA
24575259 TGACTAAAATAATAAAAGTATATAACAA
1 TGACTAAAATAATAAAAGTATATAACAA
24575287 TAGTGTTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.25
Consensus pattern (31 bp):
TGACTAAAATAATAAAAGTATATAACAACAA
Found at i:24578275 original size:17 final size:18
Alignment explanation
Indices: 24578243--24578276 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24578233 ATCAATTCAA
24578243 TTAAAACTTATTAAAAAG
1 TTAAAACTTATTAAAAAG
*
24578261 TTAAAA-TTTTTAAAAA
1 TTAAAACTTATTAAAAA
24578277 AAATCCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
TTAAAACTTATTAAAAAG
Found at i:24579500 original size:23 final size:23
Alignment explanation
Indices: 24579474--24579529 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
24579464 TGAATTTTTT
24579474 AAATTTTAAAAATAAA-AAATAAA
1 AAATTTTAAAAA-AAATAAATAAA
** * *
24579497 AAATTACAAAAAAAATAATTTAA
1 AAATTTTAAAAAAAATAAATAAA
24579520 AAATTTTAAA
1 AAATTTTAAA
24579530 TTTAATTAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (23 bp):
AAATTTTAAAAAAAATAAATAAA
Found at i:24579632 original size:16 final size:18
Alignment explanation
Indices: 24579607--24579648 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
24579597 AAGGTAAGTT
*
24579607 TAAAAGATTAAA-AAAA-
1 TAAAATATTAAAGAAAAC
24579623 TAAAATATTAAATGAAAAC
1 TAAAATATTAAA-GAAAAC
24579642 TAAAATA
1 TAAAATA
24579649 ATTTTTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 11 0.50
18 4 0.18
19 7 0.32
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (18 bp):
TAAAATATTAAAGAAAAC
Found at i:24600978 original size:36 final size:35
Alignment explanation
Indices: 24600938--24601049 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 35
24600928 AACAAATCAG
24600938 AACATAGTAGTTGCACATATAGTTTAACAGATCAAA
1 AACATAGTA-TTGCACATATAGTTTAACAGATCAAA
** * * *
24600974 AACAT-GCTATTG-ACATATTCAGATAAAACATAT-TAG
1 AACATAG-TATTGCACATA-T-AG-TTTAACAGATCAAA
*
24601010 AACATATTAATTGCACATATAGTTTAACAGATCAAA
1 AACATAGT-ATTGCACATATAGTTTAACAGATCAAA
24601046 AACA
1 AACA
24601050 GGTTATTGGC
Statistics
Matches: 57, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
34 5 0.09
35 12 0.21
36 23 0.40
37 12 0.21
38 5 0.09
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (35 bp):
AACATAGTATTGCACATATAGTTTAACAGATCAAA
Found at i:24601057 original size:72 final size:72
Alignment explanation
Indices: 24600922--24601057 Score: 218
Period size: 72 Copynumber: 1.9 Consensus size: 72
24600912 GCCCATATGT
* *
24600922 AGATAAAACAAATCAGAACATAGTAGTTGCACATATAGTTTAACAGATCAAAAACATGCTATTGA
1 AGATAAAACAAATCAGAACATAGTAATTGCACATATAGTTTAACAGATCAAAAACAGGCTATTGA
24600987 CATATTC
66 CATATTC
* * * *
24600994 AGATAAAACATATTAGAACATATTAATTGCACATATAGTTTAACAGATCAAAAACAGGTTATTG
1 AGATAAAACAAATCAGAACATAGTAATTGCACATATAGTTTAACAGATCAAAAACAGGCTATTG
24601058 GCCAATTCGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (72 bp):
AGATAAAACAAATCAGAACATAGTAATTGCACATATAGTTTAACAGATCAAAAACAGGCTATTGA
CATATTC
Found at i:24604183 original size:16 final size:16
Alignment explanation
Indices: 24604164--24604196 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24604154 TTCATGTTAC
*
24604164 TTTGGTTATCCTTTGT
1 TTTGCTTATCCTTTGT
24604180 TTTGCTTATCCTTTGT
1 TTTGCTTATCCTTTGT
24604196 T
1 T
24604197 ATATTGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.15, T:0.64
Consensus pattern (16 bp):
TTTGCTTATCCTTTGT
Found at i:24609091 original size:47 final size:47
Alignment explanation
Indices: 24609038--24609182 Score: 158
Period size: 47 Copynumber: 3.1 Consensus size: 47
24609028 TCATATAAGA
*
24609038 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
24609085 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
24609129 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
24609176 ATATTTA
1 ATATTTA
24609183 ATAATAATTA
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:24609127 original size:91 final size:91
Alignment explanation
Indices: 24609023--24609238 Score: 369
Period size: 91 Copynumber: 2.4 Consensus size: 91
24609013 ATGATTTTAG
*
24609023 TAAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
24609088 TTTAATATTAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* *
24609114 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
24609179 TTTAATAATAATTATTTTAAATTATA
66 TTTAATAATAATTATTTTAAATTATA
* * *
24609205 CAAATTCATATAAGAAAATTTATTAGTAATAATT
1 TAAATTCATATAAGAAAATTTATTATTAAGAATT
24609239 ATTTTAAATT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 117 1.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATAATAATTATTTTAAATTATA
Found at i:24609196 original size:47 final size:47
Alignment explanation
Indices: 24609054--24609197 Score: 140
Period size: 47 Copynumber: 3.1 Consensus size: 47
24609044 ATTATTAAGA
* *
24609054 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
* * **
24609101 A-TTT-T-AAATTATATA-AATTCATATAAGA--AAATTT-ATTATCAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATAAT-AATT
*
24609145 ATTTTATGAAATTATATATTATTATTAAATTATATTTAATAATAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
24609192 ATTTTA
1 ATTTTA
24609198 AATTATACAA
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
43 6 0.08
44 20 0.27
45 8 0.11
46 8 0.11
47 26 0.35
48 7 0.09
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATAATAATT
Found at i:24609364 original size:61 final size:60
Alignment explanation
Indices: 24609299--24609496 Score: 174
Period size: 61 Copynumber: 3.3 Consensus size: 60
24609289 ATTTTATAGT
* * *
24609299 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATAATTATA-TAAATTCATATAATAATATTGATTATTAAGAATTTTATTAA
* * * * * *
24609360 ATCATATATTTTAATTAAAATATATTTA-ATAATAAT-TATG-TTAAATT-A-TATTTTA-TAGT
1 ATCATATATTATAATT-ATATAAATTCATATAATAATAT-TGATT--ATTAAGAATTTTATTA-A
* *
24609419 ACCATATATTATTATTATATGAAATTCATATAATAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATAATTATAT-AAATTCATATAATAATATTGATTATTAAGAATTTTATTAA
* *
24609480 ATTATATATTTTAATTA
1 ATCATATATTATAATTA
24609497 AAATATATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
58 5 0.05
59 30 0.29
60 21 0.20
61 45 0.43
62 3 0.03
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (60 bp):
ATCATATATTATAATTATATAAATTCATATAATAATATTGATTATTAAGAATTTTATTAA
Found at i:24609364 original size:104 final size:103
Alignment explanation
Indices: 24609114--24609398 Score: 298
Period size: 104 Copynumber: 2.8 Consensus size: 103
24609104 TTAAATTATA
* * * * *
24609114 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATT-ATTAAATTAT
1 TAAATTCATATAAGAATA-TTATTATTAAGAATTTTATTAAATCATATATT-TTAATTAAAATAT
* *
24609178 ATTTAATAATAATTATTTTAAATTATACAAATTCATATAAG
64 ATTTAATAAT-ATTATTATAAATCATACAAATTCATATAAG
* *
24609219 AAAATT--TATTAGTAATAATTATT-TT-A-AATTTTATTAAATCATATATTTTAATTAAAATAT
1 TAAATTCATATAAG-AAT-ATTATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATAT
* * * * * *
24609279 ATTTAATAATATT-TTATAGTATCATA-TATTATGATTTTAG
64 ATTTAATAATATTATTATA-AATCATACAAAT-TCATATAAG
24609319 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATA
1 TAAATTCATATAAGAATATT-ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATA
24609384 TTTAATAATAATTAT
65 TTTAATAAT-ATTAT
24609399 GTTAAATTAT
Statistics
Matches: 150, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
99 6 0.04
100 24 0.16
101 44 0.29
102 8 0.05
103 7 0.05
104 51 0.34
105 9 0.06
106 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (103 bp):
TAAATTCATATAAGAATATTATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATAT
TTAATAATATTATTATAAATCATACAAATTCATATAAG
Found at i:24609413 original size:120 final size:120
Alignment explanation
Indices: 24609246--24609524 Score: 415
Period size: 120 Copynumber: 2.3 Consensus size: 120
24609236 ATTATTTTAA
*
24609246 ATTTT-ATTAAATCATATATTTTAATTAA-AATATAT-TT-AATAATATTTTATAGTATCATATA
1 ATTTTAATTAAA--ATATA-TTTAA-TAATAAT-TATGTTAAATAATATTTTATAGTACCATATA
*
24609307 TTATGATTTTA-GTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATAT
61 TTATGATTATATG-AAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATAT
* *
24609367 ATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTACCATATATTATT
1 ATTTTAATTAAAATATATTTAATAATAATTATGTTAAATAATATTTTATAGTACCATATATTATG
* *
24609432 ATTATATGAAATTCATATAATAATATTGATTATTAAGAATTTTATTAAATTATAT
66 ATTATATGAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATAT
24609487 ATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
24609525 ATATGATTAA
Statistics
Matches: 147, Mismatches: 6, Indels: 11
0.90 0.04 0.07
Matches are distributed among these distances:
118 6 0.04
119 10 0.07
120 119 0.81
121 6 0.04
122 6 0.04
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (120 bp):
ATTTTAATTAAAATATATTTAATAATAATTATGTTAAATAATATTTTATAGTACCATATATTATG
ATTATATGAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATAT
Found at i:24609498 original size:18 final size:17
Alignment explanation
Indices: 24609470--24609504 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24609460 ATTATTAAGA
*
24609470 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24609487 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24609505 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24609510 original size:54 final size:54
Alignment explanation
Indices: 24609333--24609510 Score: 160
Period size: 54 Copynumber: 3.1 Consensus size: 54
24609323 TTCATATAAG
*
24609333 AATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTT
1 AATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
* * * * * *
24609387 AATAATAATTATGTTAAATTATATTTTATAGTACCA-TATATTATTATTATATGAAATTCATATA
1 AATATTGATTA--TT-AA-GA-ATTTTAT--TA-AATTATA-TATT-TTA-ATTAAAAT-ATAT-
*
24609451 AT
53 TT
24609453 AATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
1 AATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
24609507 AATA
1 AATA
24609511 ATAATTATGT
Statistics
Matches: 95, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.15
55 4 0.04
56 8 0.08
57 5 0.05
58 6 0.06
59 13 0.14
61 12 0.13
62 6 0.06
63 5 0.05
64 8 0.08
65 4 0.04
66 10 0.11
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (54 bp):
AATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
Found at i:24618433 original size:6 final size:6
Alignment explanation
Indices: 24618422--24618452 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
24618412 AAAAATTGGT
24618422 TTTATA TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA TTTATA T
24618453 AATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:24620211 original size:28 final size:28
Alignment explanation
Indices: 24620171--24620227 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
24620161 ATGTTTCAGG
24620171 AAAAAGTTAAGAGAAAAACTTATTAACT
1 AAAAAGTTAAGAGAAAAACTTATTAACT
*
24620199 AAAAAGTTAAGAGGAAAACTTATTAACT
1 AAAAAGTTAAGAGAAAAACTTATTAACT
24620227 A
1 A
24620228 TCTTCATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.25
Consensus pattern (28 bp):
AAAAAGTTAAGAGAAAAACTTATTAACT
Found at i:24621013 original size:43 final size:45
Alignment explanation
Indices: 24620965--24621051 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 45
24620955 TAATTGATTA
*
24620965 TATTTTTATTTTTATTTT-TATTAA-AATAATTAACATTATAAAC
1 TATTTTTATTTTTATTTTATATAAATAATAATTAACATTATAAAC
* *
24621008 TATTTTTATTTTTATTTTATATAAATAATAATTTATATTATAAA
1 TATTTTTATTTTTATTTTATATAAATAATAATTAACATTATAAA
24621052 TTTAATTTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 18 0.46
44 5 0.13
45 16 0.41
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (45 bp):
TATTTTTATTTTTATTTTATATAAATAATAATTAACATTATAAAC
Found at i:24639988 original size:30 final size:28
Alignment explanation
Indices: 24639948--24640022 Score: 78
Period size: 32 Copynumber: 2.5 Consensus size: 28
24639938 AATCCTAAAA
* *
24639948 AATATATTATAAAAAATTTATATGTATTT
1 AATAAATTATAAAAAAATTATAT-TATTT
*
24639977 TATAAAGTTATAACAAAAAATTATATTATTT
1 AATAAA-TTAT-A-AAAAAATTATATTATTT
*
24640008 AATATATTATAAAAA
1 AATAAATTATAAAAA
24640023 TAATAATTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 4 0.11
29 5 0.13
30 8 0.21
31 10 0.26
32 11 0.29
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (28 bp):
AATAAATTATAAAAAAATTATATTATTT
Found at i:24640607 original size:15 final size:15
Alignment explanation
Indices: 24640589--24640619 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24640579 ACTAGCATTT
24640589 TGCATACTTTATAAC
1 TGCATACTTTATAAC
24640604 TGCATACTTTATAAC
1 TGCATACTTTATAAC
24640619 T
1 T
24640620 TCATTCGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
TGCATACTTTATAAC
Found at i:24642667 original size:26 final size:26
Alignment explanation
Indices: 24642605--24642669 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
24642595 TATAAATTCT
*
24642605 AATATATATTTATTATTAATATATTAA
1 AATAT-TATTTATTAATAATATATTAA
* *
24642632 TATAAATATTT-TTAATAATATATTAA
1 AAT-ATTATTTATTAATAATATATTAA
24642658 GAATATTATTTA
1 -AATATTATTTA
24642670 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
26 20 0.67
27 9 0.30
28 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
AATATTATTTATTAATAATATATTAA
Found at i:24642881 original size:14 final size:15
Alignment explanation
Indices: 24642845--24642885 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
24642835 ATTTTAAAAA
24642845 AATAATATTAGATAT
1 AATAATATTAGATAT
* *
24642860 -TTATTATTA-ATAT
1 AATAATATTAGATAT
24642873 AATAATATTAGAT
1 AATAATATTAGAT
24642886 TGAAATCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 4
0.71 0.14 0.14
Matches are distributed among these distances:
13 4 0.20
14 14 0.70
15 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (15 bp):
AATAATATTAGATAT
Found at i:24646572 original size:30 final size:31
Alignment explanation
Indices: 24646548--24646612 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
24646538 GTAATTTGAT
*
24646548 ACAT-AAATTTTGATTTTAGTGTAATTGTAC
1 ACATGAAATTTTGATTATAGTGTAATTGTAC
*
24646578 ACATGAAATTTTGATTATAGT-TCAATTATAC
1 ACATGAAATTTTGATTATAGTGT-AATTGTAC
24646609 ACAT
1 ACAT
24646613 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (31 bp):
ACATGAAATTTTGATTATAGTGTAATTGTAC
Found at i:24648565 original size:32 final size:32
Alignment explanation
Indices: 24648507--24648567 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
24648497 TGTTTGATTA
**
24648507 ATTGTATAATTCTATTAGTTTGATCAATGTTC
1 ATTGTATAATTCTATTAAATTGATCAATGTTC
24648539 ATTGTATAATTC-ATTAAATTGAATCAATG
1 ATTGTATAATTCTATTAAATTG-ATCAATG
24648568 ATTATACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.46
Consensus pattern (32 bp):
ATTGTATAATTCTATTAAATTGATCAATGTTC
Found at i:24655782 original size:17 final size:17
Alignment explanation
Indices: 24655760--24655802 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
24655750 TATTTATTTG
24655760 AATTTATATACGAACCA
1 AATTTATATACGAACCA
24655777 AATTTATATACGAACCA
1 AATTTATATACGAACCA
*
24655794 AATTCATAT
1 AATTTATAT
24655803 TCTCATTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (17 bp):
AATTTATATACGAACCA
Found at i:24660980 original size:11 final size:9
Alignment explanation
Indices: 24660954--24660995 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
24660944 AAAAATTAAT
24660954 ATTTAAAAA
1 ATTTAAAAA
24660963 ATTTAAAGAA
1 ATTTAAA-AA
*
24660973 ATTTTAAAA
1 ATTTAAAAA
24660982 A-TTAATAAA
1 ATTTAA-AAA
24660991 ATTTA
1 ATTTA
24660996 CATTTCATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 3 0.11
9 14 0.50
10 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
ATTTAAAAA
Found at i:24667522 original size:32 final size:32
Alignment explanation
Indices: 24667481--24667545 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
24667471 AATGGAAAAA
24667481 TATGTCCATTTTTTGAAGACTTTATAGACTCT
1 TATGTCCATTTTTTGAAGACTTTATAGACTCT
24667513 TATGTCCATTTTTTGAAGACTTTATAGACTCT
1 TATGTCCATTTTTTGAAGACTTTATAGACTCT
24667545 T
1 T
24667546 CTTTGGTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (32 bp):
TATGTCCATTTTTTGAAGACTTTATAGACTCT
Found at i:24671207 original size:23 final size:23
Alignment explanation
Indices: 24671164--24671208 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
24671154 ACATAATAAA
*
24671164 TAATTAGATATAAAACTTGAAAC
1 TAATTAGATATAAAACATGAAAC
*
24671187 TAATTA-ATATTAATACATGAAA
1 TAATTAGATA-TAAAACATGAAA
24671209 TATATATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (23 bp):
TAATTAGATATAAAACATGAAAC
Found at i:24673170 original size:6 final size:6
Alignment explanation
Indices: 24673159--24673208 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
24673149 TATATAAGTG
* * *
24673159 GGGAGA GGGAGA GGGAAA AGG-GA GGGAGA GAGAGA GGGAGA GGGATGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGA-GA
24673207 GG
1 GG
24673209 AGGAACGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 3 0.08
6 29 0.81
7 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.62, T:0.02
Consensus pattern (6 bp):
GGGAGA
Found at i:24677402 original size:40 final size:40
Alignment explanation
Indices: 24677356--24677435 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
24677346 CCAAGAAAAT
* *
24677356 ACTCATTTTTACAATGACTATTACATAATCCATAGTACAC
1 ACTCATTTTCACAATAACTATTACATAATCCATAGTACAC
* * *
24677396 ACTCATTTTCATAATAACTATTACATAATCCTTATTACAC
1 ACTCATTTTCACAATAACTATTACATAATCCATAGTACAC
24677436 CACCTCTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.38
Consensus pattern (40 bp):
ACTCATTTTCACAATAACTATTACATAATCCATAGTACAC
Found at i:24686729 original size:13 final size:13
Alignment explanation
Indices: 24686711--24686735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24686701 GAATCGGAAC
24686711 AAATAAAAATAAA
1 AAATAAAAATAAA
24686724 AAATAAAAATAA
1 AAATAAAAATAA
24686736 CATCTCTTTC
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:24687677 original size:129 final size:129
Alignment explanation
Indices: 24687533--24688013 Score: 800
Period size: 129 Copynumber: 3.7 Consensus size: 129
24687523 CTTCAGGGAG
*
24687533 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCACCGTCTTCGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGC
* * * * *
24687598 TCCACTATTACTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGTTGACCAGGGAT
66 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGAGAT
* * *
24687662 ATAGGACTTGTGGCTTAAATCTGCTTCCATACTCTTGAAGATAAGATTTGCCGTCTCCGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGC
*
24687727 TCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGAGAT
66 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGAGAT
**
24687791 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACAGTTGAAGATAAGATTCGCCGTCTTCGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGC
24687856 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGAGAT
66 TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGAGAT
* *** *
24687920 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTTTTGAAGATAAGATTTTTCGTTTTCGATCTGC
1 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGC
*
24687985 TCCGCTATTGCTTAGGGAGACAAGATCTG
66 TCCGCTACTGCTTAGGGAGACAAGATCTG
24688014 CTATATTTAC
Statistics
Matches: 329, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 329 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (129 bp):
ATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGCCGTCTTCGATCTGC
TCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGAGAT
Found at i:24689287 original size:6 final size:7
Alignment explanation
Indices: 24689274--24689311 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
24689264 TACTTTTTCA
24689274 TCATTTT
1 TCATTTT
*
24689281 TTATTTT
1 TCATTTT
24689288 TCA-TTT
1 TCATTTT
24689294 TCACTTTT
1 TCA-TTTT
24689302 TCATTTT
1 TCATTTT
24689309 TCA
1 TCA
24689312 CTCTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 6 0.22
7 15 0.56
8 6 0.22
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (7 bp):
TCATTTT
Found at i:24689309 original size:15 final size:15
Alignment explanation
Indices: 24689274--24689318 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
24689264 TACTTTTTCA
*
24689274 TCATTTTTTA-TTTT
1 TCATTTTTCACTTTT
24689288 TCA-TTTTCACTTTT
1 TCATTTTTCACTTTT
24689302 TCATTTTTCACTCTTT
1 TCATTTTTCACT-TTT
24689318 T
1 T
24689319 TTTTCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 5 0.19
14 10 0.37
15 8 0.30
16 4 0.15
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (15 bp):
TCATTTTTCACTTTT
Found at i:24695409 original size:16 final size:16
Alignment explanation
Indices: 24695375--24695420 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
24695365 ATCAAACCAT
* *
24695375 GAAAAAAAAAG-AAAG
1 GAAAACAAAAGAAAAA
24695390 GAAAACAAAAGAAAAA
1 GAAAACAAAAGAAAAA
24695406 GAAAACAAAA-AAAAA
1 GAAAACAAAAGAAAAA
24695421 TAAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (16 bp):
GAAAACAAAAGAAAAA
Found at i:24695419 original size:15 final size:15
Alignment explanation
Indices: 24695375--24695420 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
24695365 ATCAAACCAT
*
24695375 GAAAA-AAAAAGAAAG
1 GAAAACAAAAA-AAAA
24695390 GAAAACAAAAGAAAAA
1 GAAAACAAAA-AAAAA
24695406 GAAAACAAAAAAAAA
1 GAAAACAAAAAAAAA
24695421 TAAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 10 0.36
16 17 0.61
17 1 0.04
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (15 bp):
GAAAACAAAAAAAAA
Found at i:24695564 original size:15 final size:15
Alignment explanation
Indices: 24695544--24695572 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24695534 GCCGAATCGG
24695544 AAAAAATAAAAATAA
1 AAAAAATAAAAATAA
24695559 AAAAAATAAAAATA
1 AAAAAATAAAAATA
24695573 GCATCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAAATAAAAATAA
Found at i:24697267 original size:43 final size:43
Alignment explanation
Indices: 24697206--24697346 Score: 219
Period size: 43 Copynumber: 3.3 Consensus size: 43
24697196 TCCAATATCT
24697206 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
* * * *
24697249 ATTTGAGATTCCGCGTAAGACCATAGTTGGGCTATTGGTATCG
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
*
24697292 ATTTGAGATTTCGTGTAAGACCATAGCTGAGCTATTGGCATCG
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
**
24697335 ATACGAGATTTC
1 ATTTGAGATTTC
24697347 TATGTAAGGC
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
Found at i:24703675 original size:18 final size:18
Alignment explanation
Indices: 24703643--24703691 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
24703633 AAATAATTCA
*
24703643 AAAATAATTTTTAAAATTT
1 AAAAT-ATTTATAAAATTT
24703662 AAAATATTTATAAAAATTT
1 AAAATATTTAT-AAAATTT
*
24703681 CAAA-ATTTATA
1 AAAATATTTATA
24703692 TTTTTTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 11 0.41
19 15 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATATTTATAAAATTT
Found at i:24705959 original size:34 final size:34
Alignment explanation
Indices: 24705916--24706005 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 34
24705906 TTCTGATTTG
* * * *
24705916 ATATTACATTTTGATCTGATATATGTTTTTGAAA
1 ATATGACATTCTGATATGATATATGTTTATGAAA
**
24705950 ATATGACATTCTGATATGATATATGTTTATGGTA
1 ATATGACATTCTGATATGATATATGTTTATGAAA
*
24705984 ATATGACATTCAGATATGATAT
1 ATATGACATTCTGATATGATAT
24706006 TTGTAAAAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.44
Consensus pattern (34 bp):
ATATGACATTCTGATATGATATATGTTTATGAAA
Found at i:24707214 original size:20 final size:19
Alignment explanation
Indices: 24707182--24707219 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
24707172 TTTATAAAAA
*
24707182 AAACTAAAGAATATATAAT
1 AAACTAAAAAATATATAAT
24707201 AAACTTAAAAAATATATAA
1 AAAC-TAAAAAATATATAA
24707220 AAGAAAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (19 bp):
AAACTAAAAAATATATAAT
Found at i:24711114 original size:9 final size:9
Alignment explanation
Indices: 24711100--24711132 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
24711090 GGTTGAGTTG
24711100 AATTTTTAA
1 AATTTTTAA
24711109 AA-TTTTAA
1 AATTTTTAA
24711117 AATTTTTAA
1 AATTTTTAA
*
24711126 TATTTTT
1 AATTTTT
24711133 TAATCGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
AATTTTTAA
Found at i:24711542 original size:3 final size:3
Alignment explanation
Indices: 24711534--24711564 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
24711524 CTAATGTGTT
24711534 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24711565 CCTTGAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24711828 original size:24 final size:24
Alignment explanation
Indices: 24711800--24711881 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
24711790 CAGAAGACTC
24711800 TAGCCCAAACCTAAACCTGATTCT
1 TAGCCCAAACCTAAACCTGATTCT
* * ** *
24711824 TAGCCCAACAAGCCCAGACCCAATT-A
1 TAGCCC-A-AA-CCTAAACCTGATTCT
* *
24711850 AAGCCCAAACCTAAACCTGAATCT
1 TAGCCCAAACCTAAACCTGATTCT
24711874 TAGCCCAA
1 TAGCCCAA
24711882 CAAGCCCAGA
Statistics
Matches: 41, Mismatches: 13, Indels: 8
0.66 0.21 0.13
Matches are distributed among these distances:
23 8 0.20
24 15 0.37
25 2 0.05
26 7 0.17
27 9 0.22
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (24 bp):
TAGCCCAAACCTAAACCTGATTCT
Found at i:24711855 original size:50 final size:50
Alignment explanation
Indices: 24711801--24711913 Score: 210
Period size: 50 Copynumber: 2.3 Consensus size: 50
24711791 AGAAGACTCT
*
24711801 AGCCCAAACCTAAACCTGATTCTTAGCCCAACAAGCCCAGACCCAATTAA
1 AGCCCAAACCTAAACCTGAATCTTAGCCCAACAAGCCCAGACCCAATTAA
24711851 AGCCCAAACCTAAACCTGAATCTTAGCCCAACAAGCCCAGACCCAATTAA
1 AGCCCAAACCTAAACCTGAATCTTAGCCCAACAAGCCCAGACCCAATTAA
24711901 AGCCCAAA-CTAAA
1 AGCCCAAACCTAAA
24711914 TGACCTGAAT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
49 5 0.08
50 57 0.92
ACGTcount: A:0.41, C:0.35, G:0.10, T:0.14
Consensus pattern (50 bp):
AGCCCAAACCTAAACCTGAATCTTAGCCCAACAAGCCCAGACCCAATTAA
Found at i:24714995 original size:14 final size:14
Alignment explanation
Indices: 24714976--24715006 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24714966 ATAGATGTCG
*
24714976 AATTTTAAGTAATA
1 AATTTTAAATAATA
24714990 AATTTTAAATAATA
1 AATTTTAAATAATA
24715004 AAT
1 AAT
24715007 GTGCAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
AATTTTAAATAATA
Found at i:24715569 original size:21 final size:21
Alignment explanation
Indices: 24715526--24715570 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
24715516 ACCAATGCGT
*
24715526 GAAAATAAAGTAAAAGGAAATA
1 GAAAATAAAG-AAAAGAAAATA
24715548 GAAAATAAA-AAAATGAAAATA
1 GAAAATAAAGAAAA-GAAAATA
24715569 GA
1 GA
24715571 TTAACTCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 8 0.38
22 9 0.43
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (21 bp):
GAAAATAAAGAAAAGAAAATA
Found at i:24728447 original size:21 final size:21
Alignment explanation
Indices: 24728423--24728463 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24728413 AGGAAAACCC
*
24728423 TAAGATGTAGGGTTTAGGGTA
1 TAAGATATAGGGTTTAGGGTA
*
24728444 TAAGGTATAGGGTTTAGGGT
1 TAAGATATAGGGTTTAGGGT
24728464 TTAATTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.34
Consensus pattern (21 bp):
TAAGATATAGGGTTTAGGGTA
Found at i:24730462 original size:322 final size:322
Alignment explanation
Indices: 24729877--24730513 Score: 1148
Period size: 322 Copynumber: 2.0 Consensus size: 322
24729867 GAGAAAATTG
24729877 TAAATCACGCAAGCGATGGAGTTATTTACACAATGATTTAAAATTTTAGACCGAAGTTGTACCTC
1 TAAATCACGCAAGCGATGGAGTTATTTACACAATGATTTAAAATTTTAGACCGAAGTTGTACCTC
24729942 ATAATAATAGAGACTCCACATAATCTTTTATAGAAATCCACACTTGTATATACATACCCTACCCT
66 ATAATAATAGAGACTCCACATAATCTTTTATAGAAATCCACACTTGTATATACATACCCTACCCT
* **
24730007 GCATACACAACAACATCAATATAGTAATTCATGATTGTTTCCAACTTGCTATCGTCCGTAGCATA
131 ACATACACAACAACATCAATATAGTAATTCATGATTGTTTCCAACTTGAAATCGTCCGTAGCATA
* ** *
24730072 ACAATCTATTTGTTTGTGCAAACACTTAAAAGGACTACCAGCACAGGCTTTAGTTTAAATACAAT
196 AAAATCTATTTGTTTGTGCAAACACACAAAAGGACTACCAACACAGGCTTTAGTTTAAATACAAT
24730137 GACAACTTCCTTAAAGGTTGAGCATTTAAACAACTTCATTTTATGATAATCGAGCTTTAGTT
261 GACAACTTCCTTAAAGGTTGAGCATTTAAACAACTTCATTTTATGATAATCGAGCTTTAGTT
** * *
24730199 TAAATCACGCAAGCGATGGAGTTATTTACACAATGATTTAAGGTTTTAGACTGGAGTTGTACCTC
1 TAAATCACGCAAGCGATGGAGTTATTTACACAATGATTTAAAATTTTAGACCGAAGTTGTACCTC
24730264 ATAATAATAGAGACTCCACATAATCTTTTATAGAAATCCACACTTGTATATACATACCCTACCCT
66 ATAATAATAGAGACTCCACATAATCTTTTATAGAAATCCACACTTGTATATACATACCCTACCCT
* * *
24730329 ACATACAGAACAATATCAATATAGTAATTCATGATTGTTTCTAACTTGAAATCGTCCGTAGCATA
131 ACATACACAACAACATCAATATAGTAATTCATGATTGTTTCCAACTTGAAATCGTCCGTAGCATA
24730394 AAAATCTATTTGTTTGTGCAAACACACAAAAGGACTACCAACACAGGCTTTAGTTTAAATACAAT
196 AAAATCTATTTGTTTGTGCAAACACACAAAAGGACTACCAACACAGGCTTTAGTTTAAATACAAT
24730459 GACAACTTCCTTAAAGGTTGAGCATTTAAACAACTTCATTTTATGATAATCGAGC
261 GACAACTTCCTTAAAGGTTGAGCATTTAAACAACTTCATTTTATGATAATCGAGC
24730514 CTAATGTGGA
Statistics
Matches: 301, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
322 301 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (322 bp):
TAAATCACGCAAGCGATGGAGTTATTTACACAATGATTTAAAATTTTAGACCGAAGTTGTACCTC
ATAATAATAGAGACTCCACATAATCTTTTATAGAAATCCACACTTGTATATACATACCCTACCCT
ACATACACAACAACATCAATATAGTAATTCATGATTGTTTCCAACTTGAAATCGTCCGTAGCATA
AAAATCTATTTGTTTGTGCAAACACACAAAAGGACTACCAACACAGGCTTTAGTTTAAATACAAT
GACAACTTCCTTAAAGGTTGAGCATTTAAACAACTTCATTTTATGATAATCGAGCTTTAGTT
Found at i:24735847 original size:42 final size:42
Alignment explanation
Indices: 24735765--24735847 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
24735755 CTGGTAAATC
* * * * * *
24735765 GGCGTGTGGGTTTACTTCGAAGGGTATATGGCCTGCCACATA
1 GGCGTCTGGGGTTAATTCGAAGGGTACACGACCTGCCACATA
* *
24735807 GGCGTCTGGGGTTAATTCGAAGGGTACACGATCTGGCACAT
1 GGCGTCTGGGGTTAATTCGAAGGGTACACGACCTGCCACAT
24735848 GGGCATGTGA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.20, C:0.19, G:0.34, T:0.27
Consensus pattern (42 bp):
GGCGTCTGGGGTTAATTCGAAGGGTACACGACCTGCCACATA
Found at i:24741156 original size:16 final size:15
Alignment explanation
Indices: 24741130--24741159 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
24741120 TATGATAAAT
24741130 TTTAAAAAATAATAA
1 TTTAAAAAATAATAA
24741145 TTTAAAATAATAATA
1 TTTAAAA-AATAATA
24741160 TATCACATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTAAAAAATAATAA
Found at i:24741307 original size:3 final size:3
Alignment explanation
Indices: 24741299--24741324 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24741289 TGAATACAGA
24741299 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
24741325 ATGTTTAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24742173 original size:10 final size:11
Alignment explanation
Indices: 24742150--24742182 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
24742140 AGCCCTCGAA
24742150 AATACAAAATAT
1 AATACAAAA-AT
24742162 AATA-AAAAAT
1 AATACAAAAAT
24742172 AATACAAAAAT
1 AATACAAAAAT
24742183 CCTCTCTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.30
11 10 0.50
12 4 0.20
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (11 bp):
AATACAAAAAT
Found at i:24746202 original size:125 final size:125
Alignment explanation
Indices: 24745884--24746283 Score: 548
Period size: 125 Copynumber: 3.2 Consensus size: 125
24745874 AAGAAGGATT
* * * *
24745884 TTTTTCTACAGTAGTTTCTGAAAAATTAATTTTCAGAAGACGATTTTGAAAAAATAGTGACAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAA-TAATTTTAAGAAGACGATTCTGAAAAAATAGTGTCAAAA
* *
24745949 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAAGCTCCCATGTGGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAAGCTCCCACGTGGACGCTC
* * *
24746011 TTTTTCTACAGTAGTTCCTTCAAAAAATAATTTTGAGAAGACGTTTCTGAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCC-T-GAAAAATAATTTTAAGAAGACGATTCTGAAAAAATAGTGTCAAA
* * * * *
24746076 AACACTTCAAGCAAGATGCACTGCCAGTAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
64 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
* *
24746138 TTTTTCTACAGTAGTTCCTGAAAAATAATTTTAAGACGACGGTTCTGAAAAAATAGTGTCAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAATAATTTTAAGAAGACGATTCTGAAAAAATAGTGTCAAAAA
* * * * *
24746203 TGCTTCAAGTAGGATGCATTGTCAGCCAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
*
24746263 TTTTTTTTTACAGTAGTTCCT
1 --TTTTTCTACAGTAGTTCCT
24746284 ACTTGGCCTT
Statistics
Matches: 241, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
125 92 0.38
126 1 0.00
127 76 0.32
128 67 0.28
129 5 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAATAATTTTAAGAAGACGATTCTGAAAAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
Found at i:24761939 original size:152 final size:149
Alignment explanation
Indices: 24761664--24761964 Score: 476
Period size: 152 Copynumber: 2.0 Consensus size: 149
24761654 CAATCAATGA
* * *
24761664 TAAAACGCCGCAAAATATTTGAGCAAAACGACTTCTTTTTTCCTTTTATTTCTTTAGTGGCGCTT
1 TAAAACGCCGCAAAAAATATGAGCAAAACGAATTCTTTTTTCCTTTTATTTCTTTAGTGGCGCTT
*
24761729 TTTAAAAAACATCGCAATAGATTGAGCTTTAGCGGCGCTTATTTAGAAACGCCACTATAGATTAA
66 TTTAAAAAACATCGCAATAGATTGAGCTTTAGCGGCGCTTATTTAGAAACGCCACTATAGATCAA
*
24761794 GAATTAGCGGCGCTTCTTG
131 GAATTAGCGACGCTTCTTG
*
24761813 TAAAACGCCGCAAAAAATATGAGCCAAACGAATTCGTTTTTTTTCCTTTTATTTCTTTAGTGGCG
1 TAAAACGCCGCAAAAAATATGAGCAAAACGAATTC---TTTTTTCCTTTTATTTCTTTAGTGGCG
* ** * *
24761878 CTTTTTAAAAAACGTCGTGATAGATTGGGCTTTAGCGGCGCTTATTTAGAAACGCCGCTATAGAT
63 CTTTTTAAAAAACATCGCAATAGATTGAGCTTTAGCGGCGCTTATTTAGAAACGCCACTATAGAT
24761943 CAAGAATTAGCGACGCTTCTTG
128 CAAGAATTAGCGACGCTTCTTG
24761965 CATAACTTAC
Statistics
Matches: 138, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
149 31 0.22
152 107 0.78
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (149 bp):
TAAAACGCCGCAAAAAATATGAGCAAAACGAATTCTTTTTTCCTTTTATTTCTTTAGTGGCGCTT
TTTAAAAAACATCGCAATAGATTGAGCTTTAGCGGCGCTTATTTAGAAACGCCACTATAGATCAA
GAATTAGCGACGCTTCTTG
Found at i:24761941 original size:40 final size:40
Alignment explanation
Indices: 24761867--24761942 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
24761857 CCTTTTATTT
* *
24761867 CTTTAGTGGCGCTTTTTAAAAAACGTCGTGATAGATTGGG
1 CTTTAGCGGCGCTTTTTAAAAAACGCCGTGATAGATTGGG
*
24761907 CTTTAGCGGCGCTTATTT-AGAAACGCCGCT-ATAGAT
1 CTTTAGCGGCGCTT-TTTAAAAAACGCCG-TGATAGAT
24761943 CAAGAATTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
40 27 0.87
41 4 0.13
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
CTTTAGCGGCGCTTTTTAAAAAACGCCGTGATAGATTGGG
Found at i:24761999 original size:25 final size:25
Alignment explanation
Indices: 24761965--24762042 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
24761955 ACGCTTCTTG
**
24761965 CATAACTTACATAATACTTAACTTA
1 CATAACTTACATAATACACAACTTA
*
24761990 CATAACTTACATTATACACAACTTA
1 CATAACTTACATAATACACAACTTA
* * **
24762015 CACAACTTACATTATATGCAACTTA
1 CATAACTTACATAATACACAACTTA
24762040 CAT
1 CAT
24762043 TATACATAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.33
Consensus pattern (25 bp):
CATAACTTACATAATACACAACTTA
Found at i:24762067 original size:25 final size:23
Alignment explanation
Indices: 24762038--24762501 Score: 386
Period size: 25 Copynumber: 19.0 Consensus size: 23
24762028 ATATGCAACT
*
24762038 TACATTATACATAACTTACATAA
1 TACATAATACATAACTTACATAA
*
24762061 CGTACATAAT-CACAACTTACATAA
1 --TACATAATACATAACTTACATAA
24762085 CTTACATAATACATAACTTACATAA
1 --TACATAATACATAACTTACATAA
*
24762110 TCACA-ACTTACATAACTTACATAA
1 T-ACATA-ATACATAACTTACATAA
24762134 TACATAACTTACATAACTTACATAA
1 TACATAA--TACATAACTTACATAA
*
24762159 TACACAACTTACATAACTTACATAA
1 TACATAA--TACATAACTTACATAA
* * **
24762184 TACACAACTTACATAATTTTTATAA
1 TACATAA--TACATAACTTACATAA
*
24762209 TACATATCTTACATAACTTACATAA
1 TACATA--ATACATAACTTACATAA
*
24762234 TACACAACTTACATAACTTACATAA
1 TACATAA--TACATAACTTACATAA
*
24762259 TACACAACTTACATAACTTACATAA
1 TACATAA--TACATAACTTACATAA
*
24762284 AACATAACTTACATAACTTACATAA
1 TACATAA--TACATAACTTACATAA
*
24762309 TACACAACTTACATAACTTACATAA
1 TACATAA--TACATAACTTACATAA
* *
24762334 TACACAACTTACATAACTTTCATAA
1 TACATAA--TACATAACTTACATAA
24762359 TACATAACTTACATAACTTACATAA
1 TACATAA--TACATAACTTACATAA
24762384 -ATCATAACTTACATAACTTACATAA
1 TA-CATAA--TACATAACTTACATAA
* *
24762409 TACACAACTTACATAACTTTCATAA
1 TACATAA--TACATAACTTACATAA
24762434 TACATAACTTACATAACTTACATAA
1 TACATAA--TACATAACTTACATAA
* *
24762459 TTTACATAATACATAA-ATATAT-A
1 --TACATAATACATAACTTACATAA
24762482 T-CAT-AT-CATAACTTACATAA
1 TACATAATACATAACTTACATAA
24762502 CTTATTTATA
Statistics
Matches: 391, Mismatches: 32, Indels: 37
0.85 0.07 0.08
Matches are distributed among these distances:
18 5 0.01
19 6 0.02
20 4 0.01
21 1 0.00
23 6 0.02
24 48 0.12
25 313 0.80
26 1 0.00
27 7 0.02
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (23 bp):
TACATAATACATAACTTACATAA
Found at i:24762182 original size:50 final size:50
Alignment explanation
Indices: 24762046--24762505 Score: 624
Period size: 50 Copynumber: 9.4 Consensus size: 50
24762036 CTTACATTAT
*
24762046 ACATAACTTACATAACGTACATAAT-CACAACTTACAT-A---AC-T--T
1 ACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
24762088 ACATAA--TACATAACTTACATAAT-CACAACTTACATAACTTACATAAT
1 ACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
24762135 ACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
1 ACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
* * ** * *
24762185 ACACAACTTACATAATTTTTATAATACATATCTTACATAACTTACATAAT
1 ACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
* *
24762235 ACACAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAA
1 ACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
24762285 ACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
1 ACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
* * *
24762335 ACACAACTTACATAACTTTCATAATACATAACTTACATAACTTACATAA-
1 ACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
*
24762384 ATCATAACTTACATAACTTACATAATACACAACTTACATAACTTTCATAAT
1 A-CATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
* * * *
24762435 ACATAACTTACATAACTTACATAATTTACATAA--TACATAAATATATATCAT
1 ACATAACTTACATAACTTACATAA--TACACAACTTACATAACT-TACATAAT
24762486 ATCATAACTTACATAACTTA
1 A-CATAACTTACATAACTTA
24762506 TTTATACTTA
Statistics
Matches: 375, Mismatches: 27, Indels: 22
0.88 0.06 0.05
Matches are distributed among these distances:
40 28 0.07
41 1 0.00
42 6 0.02
44 2 0.01
45 1 0.00
47 7 0.02
49 18 0.05
50 281 0.75
51 7 0.02
52 24 0.06
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (50 bp):
ACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATAAT
Found at i:24762220 original size:75 final size:75
Alignment explanation
Indices: 24762045--24762459 Score: 646
Period size: 75 Copynumber: 5.6 Consensus size: 75
24762035 ACTTACATTA
* * *
24762045 TACATAACTTACATAACGTACATAA--T-CACAACTTACATAACTTACATAA--TACATAACTTA
1 TACATAACTTTCATAA--TACATAACTTACATAACTTACATAA--TACACAACTTACATAACTTA
24762105 CATAAT-CACAACT
62 CATAATACACAACT
*
24762118 TACATAACTTACATAATACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATA
1 TACATAACTTTCATAATACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATA
24762183 ATACACAACT
66 ATACACAACT
* * *
24762193 TACATAATTTTTATAATACATATCTTACATAACTTACATAATACACAACTTACATAACTTACATA
1 TACATAACTTTCATAATACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATA
24762258 ATACACAACT
66 ATACACAACT
* *
24762268 TACATAACTTACATAAAACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATA
1 TACATAACTTTCATAATACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATA
24762333 ATACACAACT
66 ATACACAACT
*
24762343 TACATAACTTTCATAATACATAACTTACATAACTTACATAA-ATCATAACTTACATAACTTACAT
1 TACATAACTTTCATAATACATAACTTACATAACTTACATAATA-CACAACTTACATAACTTACAT
24762407 AATACACAACT
65 AATACACAACT
24762418 TACATAACTTTCATAATACATAACTTACATAACTTACATAAT
1 TACATAACTTTCATAATACATAACTTACATAACTTACATAAT
24762460 TTACATAATA
Statistics
Matches: 320, Mismatches: 14, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
71 7 0.02
72 6 0.02
73 17 0.05
74 31 0.10
75 259 0.81
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (75 bp):
TACATAACTTTCATAATACATAACTTACATAACTTACATAATACACAACTTACATAACTTACATA
ATACACAACT
Found at i:24762492 original size:34 final size:34
Alignment explanation
Indices: 24762044--24762501 Score: 219
Period size: 34 Copynumber: 13.8 Consensus size: 34
24762034 AACTTACATT
* ** *
24762044 ATACATAACTTACATAACGTACATAAT-CACAAC
1 ATACATAACATACATAATTTACATAATACATAAC
* *
24762077 TTACATAACTTACATAA--TACATAACTTACAT-A-
1 ATACATAACATACATAATTTACATAA--TACATAAC
* * *
24762109 AT-CACAACTTACATAACTTACATAATACATAAC
1 ATACATAACATACATAATTTACATAATACATAAC
* * *
24762142 TTACATAACTTACATAA--TACACAACTTACATAAC
1 ATACATAACATACATAATTTACATAA--TACATAAC
* * * ***
24762176 TTACAT-A-ATACACAACTTACATAATTTTTATA-
1 ATACATAACATACATAATTTACATAATACATA-AC
* * * *
24762208 ATACATATCTTACATAACTTACATAATACACAAC
1 ATACATAACATACATAATTTACATAATACATAAC
* * *
24762242 TTACATAACTTACATAA--TACACAACTTACATAAC
1 ATACATAACATACATAATTTACATAA--TACATAAC
* *
24762276 TTACATAA-A-ACATAACTTACATAACTTACAT-A-
1 ATACATAACATACATAATTTACATAA--TACATAAC
* * * *
24762308 ATACACAACTTACATAACTTACATAATACACAAC
1 ATACATAACATACATAATTTACATAATACATAAC
* * *
24762342 TTACATAACTTTCATAA--TACATAACTTACATAAC
1 ATACATAACATACATAATTTACATAA--TACATAAC
* *
24762376 TTACATAA-AT-CATAACTTACATAACTTACAT-A-
1 ATACATAACATACATAATTTACATAA--TACATAAC
* *
24762408 ATACACAACTTACATAACTTT-CATAATACATAAC
1 ATACATAACATACATAA-TTTACATAATACATAAC
* *
24762442 TTACATAACTTACATAATTTACATAATACATAA-
1 ATACATAACATACATAATTTACATAATACATAAC
* * *
24762475 ATATATATCATATCATAACTTACATAA
1 ATACATAACATA-CATAATTTACATAA
24762502 CTTATTTATA
Statistics
Matches: 343, Mismatches: 47, Indels: 69
0.75 0.10 0.15
Matches are distributed among these distances:
31 25 0.07
32 67 0.20
33 46 0.13
34 203 0.59
35 2 0.01
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.31
Consensus pattern (34 bp):
ATACATAACATACATAATTTACATAATACATAAC
Found at i:24768023 original size:21 final size:21
Alignment explanation
Indices: 24767999--24768043 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
24767989 CTACAACTTA
*
24767999 AAGTAAAGGCAGCAGCGAGGG
1 AAGTAAAGGCAACAGCGAGGG
*
24768020 AAGTAGAGGCAACAGCGAGGG
1 AAGTAAAGGCAACAGCGAGGG
24768041 AAG
1 AAG
24768044 CAGCGGTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGTAAAGGCAACAGCGAGGG
Found at i:24768082 original size:21 final size:21
Alignment explanation
Indices: 24768005--24768090 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
24767995 CTTAAAGTAA
*
24768005 AGGCAGCAGCGAGGGAAGTAG
1 AGGCAGCAGCGAGGGAAGCAG
*
24768026 AGGCAACAGCGAGGGAAGCAG
1 AGGCAGCAGCGAGGGAAGCAG
* * * *
24768047 CGGTAGTAGTGAGGGAAGCAG
1 AGGCAGCAGCGAGGGAAGCAG
* *
24768068 AGACAGCAGCTAGGGAAGCAG
1 AGGCAGCAGCGAGGGAAGCAG
24768089 AG
1 AG
24768091 CAGAGAAGAA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.35, C:0.15, G:0.44, T:0.06
Consensus pattern (21 bp):
AGGCAGCAGCGAGGGAAGCAG
Found at i:24768441 original size:43 final size:43
Alignment explanation
Indices: 24768391--24768707 Score: 302
Period size: 43 Copynumber: 7.4 Consensus size: 43
24768381 CATTTTTATT
** ** *
24768391 AAAGCGCCGCTAAAGAACATGACCTTTAGTGGCGTTTGTGATA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
* *
24768434 AAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTGTGGTA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
* ** * *
24768477 AAA-CTGTCGCTAAAGGTCATGTTCTTTAGCTTCGTTTTTGGTA
1 AAAGC-GCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
* * * * *
24768520 AAAGCGCCACTAAAGGTCATGTTCTTTAACAGCATTTGTAATA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
** * ** * *
24768563 AAAGAACCACTAAAGAACATG-ACATTTAGCGGTGTTTGTGA-A
1 AAAGCGCCGCTAAAGGTCATGTTC-TTTAGCGGCGTTTGTGATA
**
24768605 AAAATGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
* * *
24768648 AAAGTGCCTCTAAAGATCATGTTCTTTAGCGGCGTTT-T-ATAGA
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAT--A
24768691 AAAGCGCCGCTAAAGGT
1 AAAGCGCCGCTAAAGGT
24768708 GTTTATGTGA
Statistics
Matches: 224, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.01
42 35 0.16
43 186 0.83
44 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATA
Found at i:24769156 original size:12 final size:12
Alignment explanation
Indices: 24769141--24769180 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
24769131 TTAAACCACT
24769141 TCCAACACTACC
1 TCCAACACTACC
*
24769153 TCCAGCACTACC
1 TCCAACACTACC
24769165 TCCAACACTACC
1 TCCAACACTACC
24769177 TCCA
1 TCCA
24769181 CCTCCACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.30, C:0.50, G:0.03, T:0.17
Consensus pattern (12 bp):
TCCAACACTACC
Found at i:24769192 original size:21 final size:24
Alignment explanation
Indices: 24769142--24769192 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
24769132 TAAACCACTT
*
24769142 CCAACACTACCTCCAGCACTACCT
1 CCAACACTACCTCCAGCACTACCA
24769166 CCAACACTACCTCCA-C-CT-CCA
1 CCAACACTACCTCCAGCACTACCA
24769187 CCAACA
1 CCAACA
24769193 GCAGCACCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 8 0.31
22 2 0.08
23 1 0.04
24 15 0.58
ACGTcount: A:0.31, C:0.53, G:0.02, T:0.14
Consensus pattern (24 bp):
CCAACACTACCTCCAGCACTACCA
Found at i:24769226 original size:66 final size:66
Alignment explanation
Indices: 24769156--24769386 Score: 390
Period size: 66 Copynumber: 3.5 Consensus size: 66
24769146 CACTACCTCC
* * * * * *
24769156 AGCACTACCTCCAACACTACCTCCACCTCCACCAACAGCAGCACCACGTCCACTAAGGGAACTGG
1 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
24769221 T
66 T
24769222 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
1 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
24769287 T
66 T
24769288 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
1 AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
24769353 T
66 T
* *
24769354 AGCACTACCTCCAACAATGCTTCTACCTCCACC
1 AGCACTACCTCCAACACTGCTTCCACCTCCACC
24769387 TATTAAACTG
Statistics
Matches: 157, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 157 1.00
ACGTcount: A:0.27, C:0.44, G:0.15, T:0.14
Consensus pattern (66 bp):
AGCACTACCTCCAACACTGCTTCCACCTCCACCAACGGCAGCACCACGCCCACTGAGGGAACCGG
T
Found at i:24769406 original size:24 final size:24
Alignment explanation
Indices: 24769379--24769425 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24769369 AATGCTTCTA
*
24769379 CCTCCACCTATTAAACTGCCTCCT
1 CCTCCACCTATTAAACTACCTCCT
*
24769403 CCTCCACCTGTTAAACTACCTCC
1 CCTCCACCTATTAAACTACCTCC
24769426 ACCAATGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.47, G:0.04, T:0.28
Consensus pattern (24 bp):
CCTCCACCTATTAAACTACCTCCT
Found at i:24769547 original size:57 final size:57
Alignment explanation
Indices: 24769479--24769600 Score: 172
Period size: 57 Copynumber: 2.1 Consensus size: 57
24769469 TCAGAGGCAA
* * * *
24769479 CTTGTGAAGCTGCTTTACGAAAAGCAGATTGGGCAGCAGCTGTTCCATCAGCAGCAG
1 CTTGTGCAGCTGCTTTACGAAAAGCAGAATGGACAGCAGCTGCTCCATCAGCAGCAG
* * *
24769536 CTTGTGCAGCTGCTTTATGAAAAGCAGAATGGACAGCAGCTGCTCTATCAGCAGTAG
1 CTTGTGCAGCTGCTTTACGAAAAGCAGAATGGACAGCAGCTGCTCCATCAGCAGCAG
*
24769593 CATGTGCA
1 CTTGTGCA
24769601 ATTGCTCCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (57 bp):
CTTGTGCAGCTGCTTTACGAAAAGCAGAATGGACAGCAGCTGCTCCATCAGCAGCAG
Found at i:24769561 original size:27 final size:27
Alignment explanation
Indices: 24769479--24769562 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
24769469 TCAGAGGCAA
* *
24769479 CTTGTGAAGCTGCTTTACGAAAAGCAG
1 CTTGTGCAGCTGCTTTATGAAAAGCAG
* * * * **
24769506 ATTGGGCAGCAGCTGTTCCATCAGCAGCAG
1 CTTGTGCAGCTGCT-TT--ATGAAAAGCAG
24769536 CTTGTGCAGCTGCTTTATGAAAAGCAG
1 CTTGTGCAGCTGCTTTATGAAAAGCAG
24769563 AATGGACAGC
Statistics
Matches: 40, Mismatches: 14, Indels: 6
0.67 0.23 0.10
Matches are distributed among these distances:
27 18 0.45
28 2 0.05
29 2 0.05
30 18 0.45
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (27 bp):
CTTGTGCAGCTGCTTTATGAAAAGCAG
Found at i:24783357 original size:89 final size:91
Alignment explanation
Indices: 24783239--24783423 Score: 214
Period size: 91 Copynumber: 2.1 Consensus size: 91
24783229 TTCAAAAAAC
* **
24783239 AAAAAGGCAATTAAACCATTGC-TTTTTTTTAAC-CTC-ACTTGGGAACTTGAACTTTCATCATG
1 AAAAAGGCAATTAAACCATTACTTTTTTTTTAACACTCAAC-TGGGAACTTGAACTTTCAAAATG
* * **
24783301 CATCAAAAAGACCCTTAAACTTTTTCA
65 CATAAAAAAGACCCTAAAAAATTTTCA
* * * ** *
24783328 AAAAATGCAATTAAGCCCTTACTTTTTTTTTTGCACTCAACTGGGCACTTGAACTTTCAAAATGC
1 AAAAAGGCAATTAAACCATTACTTTTTTTTTAACACTCAACTGGGAACTTGAACTTTCAAAATGC
*
24783393 ATAAAAAATACCCTAAAAAATTTTCA
66 ATAAAAAAGACCCTAAAAAATTTTCA
24783419 AAAAA
1 AAAAA
24783424 AACACAATTA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
89 18 0.23
90 9 0.11
91 50 0.63
92 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (91 bp):
AAAAAGGCAATTAAACCATTACTTTTTTTTTAACACTCAACTGGGAACTTGAACTTTCAAAATGC
ATAAAAAAGACCCTAAAAAATTTTCA
Found at i:24783449 original size:91 final size:89
Alignment explanation
Indices: 24783278--24783471 Score: 201
Period size: 91 Copynumber: 2.1 Consensus size: 89
24783268 TAACCTCACT
** * * ** **
24783278 TGGGAACTTGAACTTTCATCATGCATCAAAAAGACCCTTAAACTTTTTCAAAAAATGCAATTAAG
1 TGGGAACTTGAACTTTCAAAATGCATAAAAAAGACCCTAAAAAATTTTCAAAAAACACAATTAAG
* **
24783343 CCCTTACTTTTTTTTTTGCACTCAAC
66 CCCCTAC--TCCTTTTTGCACTCAAC
* *
24783369 TGGGCACTTGAACTTTCAAAATGCATAAAAAATACCCTAAAAAATTTTCAAAAAAAACACAATTA
1 TGGGAACTTGAACTTTCAAAATGCATAAAAAAGACCCTAAAAAATTTTC--AAAAAACACAATTA
* *
24783434 AGCCCCTAC-CCTTTTTGCACTGAAT
64 AGCCCCTACTCCTTTTTGCACTCAAC
*
24783459 TGGGTACTTGAAC
1 TGGGAACTTGAAC
24783472 CGCCCTTAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
90 24 0.28
91 41 0.48
93 20 0.24
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (89 bp):
TGGGAACTTGAACTTTCAAAATGCATAAAAAAGACCCTAAAAAATTTTCAAAAAACACAATTAAG
CCCCTACTCCTTTTTGCACTCAAC
Found at i:24783570 original size:19 final size:19
Alignment explanation
Indices: 24783546--24783592 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
24783536 AATGATAACA
24783546 AAAAATTAATAAAATTT-AT
1 AAAAA-TAATAAAATTTAAT
* *
24783565 AAAAATATTAAATTTTAAT
1 AAAAATAATAAAATTTAAT
24783584 AAAAA-AATA
1 AAAAATAATA
24783593 TAAAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATAATAAAATTTAAT
Found at i:24783627 original size:30 final size:29
Alignment explanation
Indices: 24783554--24783628 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
24783544 CAAAAAATTA
24783554 ATAAAATTTATAAAAATATTAAATTTTAAT
1 ATAAAA-TTATAAAAATATTAAATTTTAAT
* *
24783584 AAAAAAATATAAAAATATTTAAATTTT-AT
1 ATAAAATTATAAAAATA-TTAAATTTTAAT
*
24783613 TTAAAATTAGTAAAAA
1 ATAAAATTA-TAAAAA
24783629 AAATTACAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (29 bp):
ATAAAATTATAAAAATATTAAATTTTAAT
Found at i:24783978 original size:9 final size:9
Alignment explanation
Indices: 24783940--24784093 Score: 98
Period size: 9 Copynumber: 16.3 Consensus size: 9
24783930 TTTTATGCAC
*
24783940 TTTATTATT
1 TTTATAATT
*
24783949 TTTATAAAAT
1 TTTAT-AATT
* *
24783959 TGTACAATT
1 TTTATAATT
24783968 TTTATAATT
1 TTTATAATT
24783977 TTTATAATT
1 TTTATAATT
*
24783986 TTTATGATT
1 TTTATAATT
24783995 TTTATAACTTATT
1 TTTAT-A---ATT
*
24784008 TTTAATAAAT
1 TTT-ATAATT
*
24784018 TTTAAATATT
1 TTTATA-ATT
24784028 TTTAT-ATT
1 TTTATAATT
*
24784036 TTTATTATAAT
1 TTTA-TA-ATT
*
24784047 TTAATAATT
1 TTTATAATT
*
24784056 GTTATAATT
1 TTTATAATT
*
24784065 TTTATTGATT
1 TTTA-TAATT
24784075 TTTAT--TT
1 TTTATAATT
24784082 TTTATAATT
1 TTTATAATT
24784091 TTT
1 TTT
24784094 TGCCACATGT
Statistics
Matches: 112, Mismatches: 20, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
7 7 0.06
8 7 0.06
9 58 0.52
10 26 0.23
11 5 0.04
13 7 0.06
14 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:24784321 original size:90 final size:89
Alignment explanation
Indices: 24784210--24784382 Score: 242
Period size: 91 Copynumber: 1.9 Consensus size: 89
24784200 TTTTTATGCA
* * * *
24784210 TTTGATAGTTCAAGTAACCAATTGAGTGCA-AAAAAAAATCTGAGACTTAATTGCTTTTTTTGAA
1 TTTGAAAGTTCAAATAACCAATTGAGTGCACAAAAAAAAGC-AAGACTTAATTGCTTTTTTTGAA
24784274 AA-GTTTGAGGGTCTTTTTTTTATAT
65 AAGGTTTGAGGG-CTTTTTTTTATAT
* *
24784299 TTTGAAAGTTTCAAATACCCAATTGAGTGCACCAAAAAAAAGCAAGGCTTAATTGCTTTTTTTGA
1 TTTGAAAG-TTCAAATAACCAATTGAGTGCA-CAAAAAAAAGCAAGACTTAATTGCTTTTTTTGA
24784364 AAAGGTTTGAGGGCTTTTT
64 AAAGGTTTGAGGGCTTTTT
24784383 ACACCCTTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
89 7 0.09
90 20 0.27
91 29 0.39
92 18 0.24
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (89 bp):
TTTGAAAGTTCAAATAACCAATTGAGTGCACAAAAAAAAGCAAGACTTAATTGCTTTTTTTGAAA
AGGTTTGAGGGCTTTTTTTTATAT
Found at i:24784900 original size:42 final size:44
Alignment explanation
Indices: 24784853--24784946 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 44
24784843 GGTTTTTTGG
24784853 TTTAGGGTTTTTAGG-GT-TAAGG-TTAGGGTTTTGTTAAAATAA
1 TTTAGGGTTTTTAGGTGTGTAAGGTTTAGGGTTTTGTT-AAATAA
* * *
24784895 TTTA-GG--CTTAGGTTTGTAGGGTTTAGGGTTTTGTTAAATAA
1 TTTAGGGTTTTTAGGTGTGTAAGGTTTAGGGTTTTGTTAAATAA
24784936 TTTAGGGTTTT
1 TTTAGGGTTTT
24784947 GGGTTTTAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.12
40 1 0.02
41 16 0.38
42 19 0.45
44 1 0.02
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (44 bp):
TTTAGGGTTTTTAGGTGTGTAAGGTTTAGGGTTTTGTTAAATAA
Found at i:24785088 original size:34 final size:33
Alignment explanation
Indices: 24784996--24785098 Score: 107
Period size: 34 Copynumber: 3.1 Consensus size: 33
24784986 CTCTTTTTTT
* ** * *
24784996 AAAATTAATTAAGTTATTGTTTAGGGGTTTTAA
1 AAAATTAATTAAATTAAGGTTTAGTGTTTTTAA
**
24785029 ATAAATTAAGGAAATTAAGGTTTAGTGTTTTTAA
1 A-AAATTAATTAAATTAAGGTTTAGTGTTTTTAA
* *
24785063 GAAAATTAATTAAATTAGGGTTTAGTTTTTTTAA
1 -AAAATTAATTAAATTAAGGTTTAGTGTTTTTAA
24785097 AA
1 AA
24785099 TTAATATTGT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 3 0.05
34 53 0.93
35 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.44
Consensus pattern (33 bp):
AAAATTAATTAAATTAAGGTTTAGTGTTTTTAA
Found at i:24785384 original size:126 final size:126
Alignment explanation
Indices: 24785159--24785427 Score: 403
Period size: 126 Copynumber: 2.1 Consensus size: 126
24785149 GGATTTTGTT
* * * *
24785159 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAAATAGTGTCAAAA
* * * *
24785224 AGGCTTCAAGCAGGATCCACTGTCAGCAAAATTACTAAAAAAAGCTTACACGTAGACGTTC
66 ACGCTTCAAGCAAGATCCACTGTCAGCAAAATTACTAAAAAAAGCTCACACGTAGACGCTC
* * *
24785285 TTTTTCTACAATAGTTCCTGAAGAAATAATTTTGAGAAAACGTTTCTAAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAAATAGTGTCAAAA
* * * *
24785350 ACGCTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAAGATCCACTGTCAGCAAAATTACTAAAAAAAGCTCACACGTAGACGCTC
24785411 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
24785428 ATGTTTGGCC
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACGGTTCTAAAAAAATAGTGTCAAAA
ACGCTTCAAGCAAGATCCACTGTCAGCAAAATTACTAAAAAAAGCTCACACGTAGACGCTC
Found at i:24786649 original size:13 final size:14
Alignment explanation
Indices: 24786631--24786664 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
24786621 TTTTAAATAA
24786631 TAATGTT-ATTACT
1 TAATGTTCATTACT
24786644 TAATGTTGCATTACT
1 TAATGTT-CATTACT
24786659 TAATGT
1 TAATGT
24786665 ACTTCGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
15 12 0.63
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (14 bp):
TAATGTTCATTACT
Found at i:24787953 original size:36 final size:36
Alignment explanation
Indices: 24787878--24787953 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
24787868 CGATTGCAAC
* *
24787878 AACCTATGGTTTCGTGTAACGGAGTTTGACAGGCTG
1 AACCTATGGTTTCGTGTAACGGAGTTTGACAGACCG
* *
24787914 AACCTATGGTTTCGTGTGATGGAGTTTGACAGACCG
1 AACCTATGGTTTCGTGTAACGGAGTTTGACAGACCG
24787950 AACC
1 AACC
24787954 AATGTAATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (36 bp):
AACCTATGGTTTCGTGTAACGGAGTTTGACAGACCG
Found at i:24788477 original size:24 final size:23
Alignment explanation
Indices: 24788421--24788477 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
24788411 AAGAACTTCT
24788421 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
24788444 ATTTACTATT-AAAATATTAAAAATA
1 ATTT--TATTAAAAATA-TAAAAATA
24788469 ACTTTTATT
1 A-TTTTATT
24788478 TTATTAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 10 0.33
25 13 0.43
26 3 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:24788904 original size:24 final size:23
Alignment explanation
Indices: 24788848--24788904 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
24788838 AAGAACTTAT
*
24788848 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
24788871 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
24788896 ACTTTTATT
1 A-TTTTATT
24788905 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:24789204 original size:428 final size:427
Alignment explanation
Indices: 24788408--24789264 Score: 1357
Period size: 428 Copynumber: 2.0 Consensus size: 427
24788398 TTGCCTTATT
* *
24788408 CAAAAGAACTTCTATTTTATTAAAAATATAAAAATAATTTACTATTAAAATATTAAAAATAACTT
1 CAAAAGAACTTATATTTTATTAAAAATATAAAAATAATTTACTATTAAAATATTAAAAACAACTT
24788473 TTATTTTATTAAATGAAAAAATATAAAAATAGTTTGTACAAATATATTAAAAAATCAATATATGT
66 TTATTTTATTAAATGAAAAAATATAAAAATAGTTTGTACAAATATATTAAAAAATCAATATATGT
* **
24788538 GCTGGTCAGAATCAGTGCCACATGGAGGTGGTCGACGATTACGCGTTGGATTCCTCTTTGGTTCA
131 GCTGGTCAGAATCAGTGCCACATGGAGGTGGTCGACGATTACGCGCTAAATTCCTCTTTGGTTCA
* *
24788603 GCTTTCGGCGGGGATTATGGTTGCTCCGGTTGTGGATGTTGAAAGTATGACCCACCTTGATAGAA
196 GCTTTCGGCGGGGATTATGGTTGCTCCGGTTATGGATGTTGAAAGGATGACCCACCTTGATAGAA
*
24788668 TAAAGAATGTGGAGGTGTTTGCATCACCCATGGCAGAGGTGTTTGAATCCCATAAAGTGATGGGG
261 TAAAGAATGTGGAGGTGTTTGCATCACCCATGGCAGAGGTGTTTGAATCCCATAAAGTGACGGGG
* * *
24788733 ATTGGTAATGAGATGGGCTCCTCGACAGCGCCTCGTGCGATCCCTCCGGTGACGATGGCCTATAT
326 ATTGGTAATGAGATGAGCTCCTCGACAGCGCCTAGTGCGATCCCTCCGGCGACGATGGCCTATAT
* * *
24788798 ATC-TCCAGTTGAGTTAGAGTTATCGGGAAAGGATATG
391 ATCAT-CAGTTGAGTCAGAATTATCGGGAAAGGAGATG
24788835 CAAAAGAACTTATATTTTATTAAAAATATAAAAATAATTTACTATTAAAATATTAAAAACAACTT
1 CAAAAGAACTTATATTTTATTAAAAATATAAAAATAATTTACTATTAAAATATTAAAAACAACTT
*
24788900 TTATTTTATTAAATGAAACAATATAAAAATAGTTTGTACAAATATATTAAAAAAATCAATGTATA
66 TTATTTTATTAAATGAAAAAATATAAAAATAGTTTGTACAAATATATT-AAAAAATCAA--TATA
* *
24788965 TGT-C-GGTCAGAATCAGTGCCACATGGGGGTGGTCGATGATTACGCGCTAAATTCCTCTTTGGT
128 TGTGCTGGTCAGAATCAGTGCCACATGGAGGTGGTCGACGATTACGCGCTAAATTCCTCTTTGGT
* * *
24789028 TCAGCTTTCGGCGGGTG-TTGTGGTTGTTCCGGTTATAGG-TGTTGAAAGGATGACCCATCTTGA
193 TCAGCTTTCGGCGGG-GATTATGGTTGCTCCGGTTAT-GGATGTTGAAAGGATGACCCACCTTGA
* * *
24789091 TAGAATAAAGAATGTTGAGGTGTTTGCATCACCCATGGTAGAGGTGTTTGAATCCCATAAGGTGA
256 TAGAATAAAGAATGTGGAGGTGTTTGCATCACCCATGGCAGAGGTGTTTGAATCCCATAAAGTGA
** * *
24789156 CGGGGATTGGTAATGAGATGAGCTCC-CAGATGGTGCCTAGTGCGATCCCTCTGGCGACGATGGC
321 CGGGGATTGGTAATGAGATGAGCTCCTC-GACAGCGCCTAGTGCGATCCCTCCGGCGACGATGGC
*
24789220 CTATATATCATCGGTTGAGTCAGAATTATCGGGAAAGGAGATG
385 CTATATATCATCAGTTGAGTCAGAATTATCGGGAAAGGAGATG
24789263 CA
1 CA
24789265 CCGGGCCATG
Statistics
Matches: 395, Mismatches: 28, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
427 111 0.28
428 272 0.69
429 5 0.01
430 7 0.02
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (427 bp):
CAAAAGAACTTATATTTTATTAAAAATATAAAAATAATTTACTATTAAAATATTAAAAACAACTT
TTATTTTATTAAATGAAAAAATATAAAAATAGTTTGTACAAATATATTAAAAAATCAATATATGT
GCTGGTCAGAATCAGTGCCACATGGAGGTGGTCGACGATTACGCGCTAAATTCCTCTTTGGTTCA
GCTTTCGGCGGGGATTATGGTTGCTCCGGTTATGGATGTTGAAAGGATGACCCACCTTGATAGAA
TAAAGAATGTGGAGGTGTTTGCATCACCCATGGCAGAGGTGTTTGAATCCCATAAAGTGACGGGG
ATTGGTAATGAGATGAGCTCCTCGACAGCGCCTAGTGCGATCCCTCCGGCGACGATGGCCTATAT
ATCATCAGTTGAGTCAGAATTATCGGGAAAGGAGATG
Found at i:24791119 original size:30 final size:30
Alignment explanation
Indices: 24791085--24791149 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
24791075 ATTAATTAAA
* *
24791085 GAGAGCTTTGAGAAATTTAATGAGAAATTT
1 GAGAGCTTTAAGAAATTTAAGGAGAAATTT
*
24791115 GAGAGCTTTAAGAAATTTAGGGAGAAATTT
1 GAGAGCTTTAAGAAATTTAAGGAGAAATTT
24791145 GAGAG
1 GAGAG
24791150 TTTTTTGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.28, T:0.29
Consensus pattern (30 bp):
GAGAGCTTTAAGAAATTTAAGGAGAAATTT
Found at i:24794712 original size:26 final size:26
Alignment explanation
Indices: 24794679--24794731 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
24794669 ATATATTAAA
24794679 AATATTTAGTTAAATTCAGGTTCATT
1 AATATTTAGTTAAATTCAGGTTCATT
24794705 AATATTTAGTTAAATTCAGGTTCATT
1 AATATTTAGTTAAATTCAGGTTCATT
24794731 A
1 A
24794732 CAACATCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (26 bp):
AATATTTAGTTAAATTCAGGTTCATT
Found at i:24796938 original size:20 final size:20
Alignment explanation
Indices: 24796888--24796932 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
24796878 TTGTAGCAGC
* *
24796888 AATATCGATACCTTAGGAAA
1 AATATCAATACCTTAAGAAA
*
24796908 TATATCAATACCTTAAGAAA
1 AATATCAATACCTTAAGAAA
24796928 AATAT
1 AATAT
24796933 TTATACTGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (20 bp):
AATATCAATACCTTAAGAAA
Found at i:24797418 original size:22 final size:22
Alignment explanation
Indices: 24797359--24797411 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
24797349 AGAACAGGTT
24797359 TTTAGCGGCATTTTTTTAGGCC
1 TTTAGCGGCATTTTTTTAGGCC
24797381 TTTAGCGGCATTTTTTTAGGCC
1 TTTAGCGGCATTTTTTTAGGCC
24797403 TTTAGCGGC
1 TTTAGCGGC
24797412 GCTTTTTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (22 bp):
TTTAGCGGCATTTTTTTAGGCC
Found at i:24797419 original size:21 final size:22
Alignment explanation
Indices: 24797359--24797419 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
24797349 AGAACAGGTT
**
24797359 TTTAGCGGCATTTTTTTAGGCC
1 TTTAGCGGCAGCTTTTTAGGCC
**
24797381 TTTAGCGGCATTTTTTTAGGCC
1 TTTAGCGGCAGCTTTTTAGGCC
24797403 TTTAGCGGC-GCTTTTTA
1 TTTAGCGGCAGCTTTTTA
24797420 ACGCCACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
21 6 0.16
22 31 0.84
ACGTcount: A:0.13, C:0.18, G:0.23, T:0.46
Consensus pattern (22 bp):
TTTAGCGGCAGCTTTTTAGGCC
Found at i:24797614 original size:42 final size:42
Alignment explanation
Indices: 24797490--24797718 Score: 259
Period size: 43 Copynumber: 5.4 Consensus size: 42
24797480 ACGTCGCTAA
* *
24797490 CTTTTGCGGCGCTTATAGAAAAAGACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAA-ACGCCGCTAAAGATCATGTT
* *
24797534 CTTTAGCGGCACTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAA-AAACGCCGCTAAAGATCATGTT
24797577 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
* * *
24797619 CTTTAGCGGCGCTTAGGAAGAAAATGCTGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TCATGTT
* * *
24797662 CTATAGCGGCGCTT-GGTCAAAAATGCCGCTAACAG-T-AGTGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAA-AGATCA-TGTT
*
24797704 CTTTAGCGGTGCTTA
1 CTTTAGCGGCGCTTA
24797719 TTTCACAAAC
Statistics
Matches: 163, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
41 1 0.01
42 73 0.45
43 75 0.46
44 14 0.09
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
Found at i:24797651 original size:85 final size:85
Alignment explanation
Indices: 24797490--24797718 Score: 261
Period size: 85 Copynumber: 2.7 Consensus size: 85
24797480 ACGTCGCTAA
* * * *
24797490 CTTTTGCGGCGCTTATAGAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCACTAAGGAAAT
1 CTTTAGCGGCGCTTA-GGAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAT
*
24797555 AAACGCCGCT-AAAGATCATGTT
64 AAACGCCGCTAAAAG-TAATGTT
24797577 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAGA-A
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAA-ATA
* *
24797641 AATGCTGCTAAAAGTAATGTT
65 AACGCCGCTAAAAGTAATGTT
* * * *
24797662 CTATAGCGGCGCTT-GGTCAAAAATGCCGCTAACAG-T-AGTGTTCTTTAGCGGTGCTTA
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTA
24797719 TTTCACAAAC
Statistics
Matches: 126, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
84 3 0.02
85 96 0.76
86 13 0.10
87 14 0.11
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (85 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAATAA
ACGCCGCTAAAAGTAATGTT
Found at i:24798190 original size:21 final size:21
Alignment explanation
Indices: 24798166--24798234 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
24798156 GCTTCTATCG
* *
24798166 CTGCTTCTGTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
24798187 CTGCTTCTCTTGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
24798208 CTGCTTCCCTCACTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
24798229 TTGCTT
1 CTGCTT
24798235 TAAGTTATTG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.03, C:0.39, G:0.20, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:24803685 original size:9 final size:9
Alignment explanation
Indices: 24803671--24803994 Score: 161
Period size: 9 Copynumber: 38.0 Consensus size: 9
24803661 TTATACATTG
24803671 TGTAAGTTA
1 TGTAAGTTA
*
24803680 TGTAAGTTG
1 TGTAAGTTA
* *
24803689 CGTAAGTTG
1 TGTAAGTTA
24803698 TGT-A-TTA
1 TGTAAGTTA
* *
24803705 TGAAACTTA
1 TGTAAGTTA
24803714 TGTAAGTTA
1 TGTAAGTTA
*
24803723 TGT--CTTA
1 TGTAAGTTA
24803730 TGTAAGTTA
1 TGTAAGTTA
* *
24803739 TGCAAATTA
1 TGTAAGTTA
24803748 TGT-A-TTA
1 TGTAAGTTA
*
24803755 TGTAACTTA
1 TGTAAGTTA
*
24803764 TGTAAGTTG
1 TGTAAGTTA
24803773 TGT-A-TTA
1 TGTAAGTTA
*
24803780 TATAAGTTA
1 TGTAAGTTA
*
24803789 TGTAAGTTG
1 TGTAAGTTA
24803798 TGT-A-TTA
1 TGTAAGTTA
24803805 TGTAAGTTA
1 TGTAAGTTA
*
24803814 TGTAAGTTTT
1 TGTAAG-TTA
** *
24803824 TGT-TTTTG
1 TGTAAGTTA
24803832 TGT-A-TTA
1 TGTAAGTTA
*
24803839 TGTAACTTA
1 TGTAAGTTA
* *
24803848 TTTAATTTA
1 TGTAAGTTA
* *
24803857 TGTAGGGTA
1 TGTAAGTTA
24803866 TGTATTA-TTA
1 TGTA--AGTTA
*
24803876 TGTAACTTA
1 TGTAAGTTA
* *
24803885 TTTAATTTA
1 TGTAAGTTA
* *
24803894 TGTAGGGTA
1 TGTAAGTTA
24803903 TGTAAGTTA
1 TGTAAGTTA
*
24803912 TGTAAGTTG
1 TGTAAGTTA
24803921 TGT-A-TTA
1 TGTAAGTTA
* *
24803928 TTTACA--CA
1 TGTA-AGTTA
*
24803936 TGTAAGTTG
1 TGTAAGTTA
24803945 TGT-A-TTA
1 TGTAAGTTA
24803952 TGTAAGTTA
1 TGTAAGTTA
*
24803961 TGCAAGTTA
1 TGTAAGTTA
24803970 TGT-A-TTA
1 TGTAAGTTA
* *
24803977 AGTAGGTTA
1 TGTAAGTTA
24803986 TGTAAGTTA
1 TGTAAGTTA
24803995 CGTATTATCT
Statistics
Matches: 236, Mismatches: 55, Indels: 48
0.70 0.16 0.14
Matches are distributed among these distances:
7 45 0.19
8 23 0.10
9 157 0.67
10 11 0.05
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:24803748 original size:25 final size:25
Alignment explanation
Indices: 24803677--24803821 Score: 182
Period size: 25 Copynumber: 5.8 Consensus size: 25
24803667 ATTGTGTAAG
** *
24803677 TTATGTAAGTTGCGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* * *
24803702 TTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTATGTA
* *
24803727 TTATGTAAGTTATGCAAATTATGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* *
24803752 TTATGTAACTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
* *
24803777 TTATATAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTATGTA
24803802 TTATGTAAGTTATGTAAGTT
1 TTATGTAAGTTATGTAAGTT
24803822 TTTGTTTTTG
Statistics
Matches: 102, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 102 1.00
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGTTATGTA
Found at i:24803820 original size:34 final size:34
Alignment explanation
Indices: 24803671--24803973 Score: 152
Period size: 34 Copynumber: 8.6 Consensus size: 34
24803661 TTATACATTG
**
24803671 TGTAAGTTATGTAAGTTGCGTAAGTTGTGTATTA
1 TGTAAGTTATGTAAGTTATGTAAGTTGTGTATTA
* * * *
24803705 TGAAACTTATGTAAGTTATGT--CTTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGTAAGTTGTGT-A-TTA
* * * * *
24803739 TGCAAATTATGT-A-TTATGTAACTTATGTAAGTTG
1 TGTAAGTTATGTAAGTTATGTAAGTTGTGT-A-TTA
*
24803773 TGT-A-TTATATAAGTTATGTAAGTTGTGTATTA
1 TGTAAGTTATGTAAGTTATGTAAGTTGTGTATTA
* **
24803805 TGTAAGTTATGTAAGTTTTTGT-TTTTGTGTATTA
1 TGTAAGTTATGTAAG-TTATGTAAGTTGTGTATTA
* * * * *
24803839 TGTAACTTATTTAATTTATGTAGGGTATGTATTATTA
1 TGTAAGTTATGTAAGTTATGTA-AGT-TGT-GTATTA
* * * * * *
24803876 TGTAACTTATTTAATTTATGTAGGGTATGTAAGTTA
1 TGTAAGTTATGTAAGTTATGTAAGTTGTGT-A-TTA
* *
24803912 TGTAAGTTGTGTATTATTTACACATGTAAGTTGTGTATTA
1 TGTAAGTTATGTA--AGTT----ATGTAAGTTGTGTATTA
*
24803952 TGTAAGTTATGCAAGTTATGTA
1 TGTAAGTTATGTAAGTTATGTA
24803974 TTAAGTAGGT
Statistics
Matches: 211, Mismatches: 37, Indels: 42
0.73 0.13 0.14
Matches are distributed among these distances:
32 21 0.10
33 11 0.05
34 93 0.44
35 9 0.04
36 18 0.09
37 27 0.13
38 7 0.03
40 14 0.07
41 1 0.00
42 10 0.05
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (34 bp):
TGTAAGTTATGTAAGTTATGTAAGTTGTGTATTA
Found at i:24803840 original size:50 final size:50
Alignment explanation
Indices: 24803677--24804002 Score: 215
Period size: 50 Copynumber: 6.6 Consensus size: 50
24803667 ATTGTGTAAG
** * *
24803677 TTATGTAAGTTGCGTAAGTTGTGTATTATGAAACTTATGTAAGTTATGTC
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAACTTATGTAAGTTATGTA
* * * *
24803727 TTATGTAAGTTATGCAAATTATGTATTATGTAACTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAACTTATGTAAGTTATGTA
* * *
24803777 TTATATAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTTTTGT-
1 TTATGTAAGTTATGTAAGTTGTGTATTATGTAACTTATGTAAG-TTATGTA
* * * * * *
24803827 TTTTGT--G-TAT-T-A--TGT-AACTTATTTAATTTATGTAGGGTATGTATTA
1 TTATGTAAGTTATGTAAGTTGTGTA-TTATGTAACTTATGTAAGTTATG---TA
* * * * * * *
24803873 TTATGTAACTTATTTAATTTATGTAGGGTATGTAAGTTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTAAGTTGTGTA--TTATGTAACTTATGTAAGTTATGTA
* * * *
24803925 TTATTTACA--CATGTAAGTTGTGTATTATGTAAGTTATGCAAGTTATGTA
1 TTATGTA-AGTTATGTAAGTTGTGTATTATGTAACTTATGTAAGTTATGTA
* * **
24803974 TTAAGTAGGTTATGTAAGTTACGTATTAT
1 TTATGTAAGTTATGTAAGTTGTGTATTAT
24804003 CTAAATTAAT
Statistics
Matches: 211, Mismatches: 47, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
42 4 0.02
43 18 0.09
45 2 0.01
46 6 0.03
47 3 0.01
48 1 0.00
49 30 0.14
50 101 0.48
51 17 0.08
52 8 0.04
53 3 0.01
54 1 0.00
55 17 0.08
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (50 bp):
TTATGTAAGTTATGTAAGTTGTGTATTATGTAACTTATGTAAGTTATGTA
Found at i:24803879 original size:37 final size:37
Alignment explanation
Indices: 24803834--24803906 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
24803824 TGTTTTTGTG
24803834 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
24803871 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
24803907 AGTTATGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (37 bp):
TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
Found at i:24803985 original size:25 final size:25
Alignment explanation
Indices: 24803939--24804001 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
24803929 TTACACATGT
* *
24803939 AAGTTGTGTATTATGTAAGTTATGC
1 AAGTTATGTATTAAGTAAGTTATGC
* *
24803964 AAGTTATGTATTAAGTAGGTTATGT
1 AAGTTATGTATTAAGTAAGTTATGC
*
24803989 AAGTTACGTATTA
1 AAGTTATGTATTA
24804002 TCTAAATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.22, T:0.43
Consensus pattern (25 bp):
AAGTTATGTATTAAGTAAGTTATGC
Found at i:24804002 original size:16 final size:17
Alignment explanation
Indices: 24803711--24803994 Score: 101
Period size: 16 Copynumber: 16.7 Consensus size: 17
24803701 ATTATGAAAC
*
24803711 TTATGTAAGTTATGT-C
1 TTATGTAAGTTATGTAG
* *
24803727 TTATGTAAGTTATGCAAA
1 TTATGTAAGTTATG-TAG
*
24803745 TTATGT-A-TTATGTAAC
1 TTATGTAAGTTATGT-AG
*
24803761 TTATGTAAGTTGTGTA-
1 TTATGTAAGTTATGTAG
*
24803777 TTATATAAGTTATGTAAG
1 TTATGTAAGTTATGT-AG
*
24803795 TTGTGT-A-TTATGTAAG
1 TTATGTAAGTTATGT-AG
* **
24803811 TTATGTAAGTTTTTGTTT
1 TTATGTAAG-TTATGTAG
* *
24803829 TTGTGT-A-TTATGTAAC
1 TTATGTAAGTTATGT-AG
* *
24803845 TTATTTAATTTATGTAGG
1 TTATGTAAGTTATGTA-G
* *
24803863 GTATGTATTA-TTATGTAAC
1 TTATGTA--AGTTATGT-AG
* *
24803882 TTATTTAATTTATGTAGG
1 TTATGTAAGTTATGTA-G
*
24803900 GTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGT-AG
* * *
24803918 TTGTGT-A-TTATTTAC
1 TTATGTAAGTTATGTAG
** *
24803933 ACATGTAAGTTGTGTA-
1 TTATGTAAGTTATGTAG
*
24803949 TTATGTAAGTTATGCAAG
1 TTATGTAAGTTATG-TAG
*
24803967 TTATGT-A-TTAAGTAGG
1 TTATGTAAGTTATGTA-G
24803983 TTATGTAAGTTA
1 TTATGTAAGTTA
24803995 CGTATTATCT
Statistics
Matches: 197, Mismatches: 44, Indels: 52
0.67 0.15 0.18
Matches are distributed among these distances:
15 10 0.05
16 85 0.43
17 20 0.10
18 63 0.32
19 17 0.09
20 2 0.01
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.49
Consensus pattern (17 bp):
TTATGTAAGTTATGTAG
Found at i:24807169 original size:115 final size:117
Alignment explanation
Indices: 24807029--24807275 Score: 266
Period size: 115 Copynumber: 2.1 Consensus size: 117
24807019 GCGTTTTTAT
* * * *
24807029 AAAAAACGCCGCTAATATCAATAAACAGT-ATAAAAACGATGTCGTTTTGTCTAAC-TTTCAACC
1 AAAAACCGCCGCTAATACCAATAAACA-TCATAAAAACGACGTCGTTTTGTCGAACTTTTCAACC
* * * * * *
24807092 AAATAATAAAAGTAAACAACGTCGTATTACAGAAATTTTTGCGGC-ATTTATG
65 AAAGAAGAAAACTAAACAACGTCGTATTAAAGAAATATTTGCGGCGATTTAGG
* ** * * *
24807144 TAAAACCGCCGCTAATACCGGTAAACATCATCAAAGCGACGTCGTTTTGTCGAACTTTTCGACCA
1 AAAAACCGCCGCTAATACCAATAAACATCATAAAAACGACGTCGTTTTGTCGAACTTTTCAACCA
* * * * * *
24807209 GAGCAGAACACTAAACGATGTCGTATTAAAGAAATATTTGCGGCGTTTTAGG
66 AAGAAGAAAACTAAACAACGTCGTATTAAAGAAATATTTGCGGCGATTTAGG
24807261 AAAAACCGCCGCTAA
1 AAAAACCGCCGCTAA
24807276 ATCCCCAAGC
Statistics
Matches: 106, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
114 1 0.01
115 44 0.42
116 42 0.40
117 19 0.18
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (117 bp):
AAAAACCGCCGCTAATACCAATAAACATCATAAAAACGACGTCGTTTTGTCGAACTTTTCAACCA
AAGAAGAAAACTAAACAACGTCGTATTAAAGAAATATTTGCGGCGATTTAGG
Found at i:24807611 original size:23 final size:23
Alignment explanation
Indices: 24807587--24807632 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
24807577 ATATATGTAT
24807587 AATT-TAAATATAATCAACATTATA
1 AATTATAAAT-TAATCAA-ATTATA
*
24807611 AATTATAAATTATTCAAATTAT
1 AATTATAAATTAATCAAATTAT
24807633 TCAAATAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTATAAATTAATCAAATTATA
Found at i:24807748 original size:27 final size:28
Alignment explanation
Indices: 24807704--24807763 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
24807694 TAACTAACAC
* * *
24807704 AATAT-TAATATATTTATAT-GTTTCAT
1 AATATATAACATATATATATCGTTGCAT
24807730 AATATATAACATATATATATCGTTGCAT
1 AATATATAACATATATATATCGTTGCAT
24807758 -ATATAT
1 AATATAT
24807764 CTTTTTCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 18 0.62
28 6 0.21
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (28 bp):
AATATATAACATATATATATCGTTGCAT
Found at i:24808873 original size:82 final size:81
Alignment explanation
Indices: 24808699--24808979 Score: 205
Period size: 82 Copynumber: 3.4 Consensus size: 81
24808689 AGATTTTATT
* * * **
24808699 ATTAGCGGCGCTTTTACAAAAAACGCCGCTAAAAGAAC-GAACAATAGCGGCATTTTTA-AACAA
1 ATTAGCGGCGCTTTT-C-AAAAACGCCGCT-AAAGACCAGAGCATTAGCGGC-GCTTTACAA-AA
* * * *
24808762 GCGCCGCTAAATGACACA-A-T
61 ACGCCGCTAAAAGGC-CAGAGA
* * * *
24808782 ATTACCGGCGCTTTTCCAAAAACGCCGCTAATGACCAGATCATTAGTGGCGCTTATTA-AAAAAC
1 ATTAGCGGCGCTTTT-CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGC-T-TTACAAAAAC
*
24808846 GCCGCT-AAAGGCCAGAGC
63 GCCGCTAAAAGGCCAGAGA
* * * * *
24808864 ATTAGCGGCGCTTATAAGAAAACGCCGCTAAAGGCTAGAGCATTAGCGGCGCTTTACGAAAATCG
1 ATTAGCGGCGCTTTTCA-AAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTAC-AAAAACG
* *
24808929 CCGCTAAAAGGTCGGAGA
64 CCGCTAAAAGGCCAGAGA
* *
24808947 ATTAGCGGCGATTTGTCAAAAACGCCGATAAAG
1 ATTAGCGGCGCTTT-TCAAAAACGCCGCTAAAG
24808980 GCCCAAAAAA
Statistics
Matches: 159, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
80 5 0.03
81 12 0.08
82 85 0.53
83 55 0.35
84 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (81 bp):
ATTAGCGGCGCTTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTACAAAAACGCC
GCTAAAAGGCCAGAGA
Found at i:24808896 original size:41 final size:40
Alignment explanation
Indices: 24808799--24808982 Score: 190
Period size: 41 Copynumber: 4.5 Consensus size: 40
24808789 GCGCTTTTCC
* * * *
24808799 AAAAACGCCGCTAATGACCAGATCATTAGTGGCGCTTATTA
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTA-TA
24808840 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATA
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATA
*
24808880 AGAAAACGCCGCTAAAGGCTAGAGCATTAGCGGCGCTT-TA
1 A-AAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATA
* * * * * * *
24808920 CGAAAATCGCCGCTAAAAGGTCGGAGAATTAGCGGCGATTTGTC
1 --AAAAACGCCGCT-AAAGGCCAGAGCATTAGCGGCG-CTTATA
*
24808964 AAAAACGCCGATAAAGGCC
1 AAAAACGCCGCTAAAGGCC
24808983 CAAAAAATAT
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
40 5 0.04
41 85 0.70
42 29 0.24
43 2 0.02
44 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATA
Found at i:24808973 original size:42 final size:38
Alignment explanation
Indices: 24808699--24808981 Score: 161
Period size: 41 Copynumber: 6.9 Consensus size: 38
24808689 AGATTTTATT
* * *
24808699 ATTAGCGGCGCTTTTACAAAAAACGCCGCTAAAAGAACGAAC
1 ATTAGCGGCG-TTTT-C-AAAAACGCCGCTAAAGGCA-GAGC
* * * * * **
24808741 AATAGCGGCATTTTTAAACAAGCGCCGCTAAATGACACAAT
1 ATTAGCGGCGTTTTCAAA-AA-CGCCGCTAAA-GGCAGAGC
* * * *
24808782 ATTACCGGCGCTTTTCCAAAAACGCCGCTAATGACCAGATC
1 ATTAGCGGCG-TTTT-CAAAAACGCCGCTAAAG-GCAGAGC
* *
24808823 ATTAGTGGCGCTTATTAAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCG-TT-TTCAAAAACGCCGCTAAAGG-CAGAGC
* *
24808864 ATTAGCGGCGCTTATAAGAAAACGCCGCTAAAGGCTAGAGC
1 ATTAGCGGCG-TTTTCA-AAAACGCCGCTAAAGGC-AGAGC
* * * *
24808905 ATTAGCGGCGCTTTACGAAAATCGCCGCTAAAAGGTCGGAGA
1 ATTAGCGGCG-TTTTC-AAAAACGCCGCT-AAAGG-CAGAGC
*
24808947 ATTAGCGGCGATTTGTCAAAAACGCCGATAAAGGC
1 ATTAGCGGCG-TTT-TCAAAAACGCCGCTAAAGGC
24808982 CCAAAAAATA
Statistics
Matches: 192, Mismatches: 35, Indels: 30
0.75 0.14 0.12
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 127 0.66
42 49 0.26
43 5 0.03
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (38 bp):
ATTAGCGGCGTTTTCAAAAACGCCGCTAAAGGCAGAGC
Found at i:24809066 original size:39 final size:40
Alignment explanation
Indices: 24809035--24809110 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 40
24809025 GGCGCTTTTT
*
24809035 GGAAAATGCCGCTAATGCTT-ATTTTTAGCGGCGTTTTCC
1 GGAAAATGCCGCTAAAGCTTAATTTTTAGCGGCGTTTTCC
* ** *
24809074 GGGATGTGCCGCTAAAGCTTAATTTTTAGTGGCGTTT
1 GGAAAATGCCGCTAAAGCTTAATTTTTAGCGGCGTTT
24809111 GTTATCCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 16 0.52
40 15 0.48
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (40 bp):
GGAAAATGCCGCTAAAGCTTAATTTTTAGCGGCGTTTTCC
Found at i:24815664 original size:25 final size:25
Alignment explanation
Indices: 24815635--24815684 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
24815625 TCCACATTCG
24815635 CTCGTTAATCCTCTTAAAAGAATTA
1 CTCGTTAATCCTCTTAAAAGAATTA
24815660 CTCGTTAATCCTCTTAAAAGAATTA
1 CTCGTTAATCCTCTTAAAAGAATTA
24815685 ACTACTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (25 bp):
CTCGTTAATCCTCTTAAAAGAATTA
Found at i:24816048 original size:20 final size:20
Alignment explanation
Indices: 24816012--24816049 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24816002 AAAAAATTAT
*
24816012 TTATATACAAGTTATAAAAA
1 TTATATACAAGTCATAAAAA
24816032 TTATATTACAAG-CATAAA
1 TTATA-TACAAGTCATAAA
24816050 TAGGTATGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
TTATATACAAGTCATAAAAA
Found at i:24816187 original size:17 final size:18
Alignment explanation
Indices: 24816154--24816186 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24816144 AATTTATAAT
24816154 AAAAATTATATTATTTTC
1 AAAAATTATATTATTTTC
24816172 AAAAA-TATATT-TTTT
1 AAAAATTATATTATTTT
24816187 TATCTTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (18 bp):
AAAAATTATATTATTTTC
Done.