Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold444
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: 554371
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
File 4 of 5
Found at i:353992 original size:11 final size:12
Alignment explanation
Indices: 353968--354005 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
353958 TTTAAATATT
353968 TATATTTGATATA
1 TATATTTGA-ATA
353981 TATATTTG-ATA
1 TATATTTGAATA
*
353992 TATATTTAAATA
1 TATATTTGAATA
354004 TA
1 TA
354006 AATATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.43
12 5 0.22
13 8 0.35
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (12 bp):
TATATTTGAATA
Found at i:361753 original size:24 final size:22
Alignment explanation
Indices: 361717--361767 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
361707 ACTAAATTAA
361717 AAATAAAAAATTAAAACAAAAT
1 AAATAAAAAATTAAAACAAAAT
* *
361739 GAAATGAAAAAATTATAGCAAAAT
1 -AAAT-AAAAAATTAAAACAAAAT
361763 AAATA
1 AAATA
361768 CCGAAAACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.04
23 8 0.32
24 16 0.64
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.20
Consensus pattern (22 bp):
AAATAAAAAATTAAAACAAAAT
Found at i:362191 original size:12 final size:10
Alignment explanation
Indices: 362165--362285 Score: 77
Period size: 11 Copynumber: 11.8 Consensus size: 10
362155 ATTTAAGGTA
362165 TTATATATTT
1 TTATATATTT
362175 TTATATATTT
1 TTATATATTT
* *
362185 TAATATATTA
1 TTATATATTT
* *
362195 ATA-ATTTATT
1 TTATATAT-TT
* *
362205 TTATTTAAATT
1 TTATAT-ATTT
362216 TTATCATATTT
1 TTAT-ATATTT
362227 TTATATATTT
1 TTATATATTT
* *
362237 GTATTATAGTT
1 TTA-TATATTT
*
362248 TTATGTTATTT
1 TTAT-ATATTT
362259 TTATTATATTT
1 TTA-TATATTT
*
362270 TAAT-TATTT
1 TTATATATTT
362279 TT-TATAT
1 TTATATAT
362286 CATATAATCA
Statistics
Matches: 83, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
8 1 0.01
9 12 0.14
10 32 0.39
11 36 0.43
12 2 0.02
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.65
Consensus pattern (10 bp):
TTATATATTT
Found at i:362278 original size:42 final size:41
Alignment explanation
Indices: 362165--362278 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 41
362155 ATTTAAGGTA
* *
362165 TTATATATTTTTA-TATATTTTAATATATTAATAATTTATT
1 TTATTTATTTTTATTATATTTTAATATATTTATAATTTATT
* * * *
362205 TTATTTAAATTTTATCATATTTTTATATATTTGT-ATTATAGTT
1 TTATTT-ATTTTTATTATATTTTAATATATTTATAATT-TA-TT
362248 TTATGTTATTTTTATTATATTTTAAT-TATTT
1 TTAT-TTATTTTTATTATATTTTAATATATTT
362279 TTTATATCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
40 5 0.08
41 9 0.15
42 22 0.37
43 22 0.37
44 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.65
Consensus pattern (41 bp):
TTATTTATTTTTATTATATTTTAATATATTTATAATTTATT
Found at i:362760 original size:19 final size:17
Alignment explanation
Indices: 362736--362778 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
362726 TGTGTAAAAA
362736 TAAATACAACATAAATTAT
1 TAAATACAACA-AAATT-T
* *
362755 TAAATATATCAAAATTT
1 TAAATACAACAAAATTT
362772 TAAATAC
1 TAAATAC
362779 GAATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 5 0.24
19 9 0.43
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAATACAACAAAATTT
Found at i:367126 original size:17 final size:17
Alignment explanation
Indices: 367104--367139 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
367094 TGTCTAGATA
*
367104 TATGCATTAGACATAGT
1 TATGCATCAGACATAGT
*
367121 TATGCATCGGACATAGT
1 TATGCATCAGACATAGT
367138 TA
1 TA
367140 ATTCAAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (17 bp):
TATGCATCAGACATAGT
Found at i:372241 original size:28 final size:28
Alignment explanation
Indices: 372204--372258 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
372194 GGGAGAAAGT
372204 AAAATAGATTAAAATTGATTTAATTAAA
1 AAAATAGATTAAAATTGATTTAATTAAA
* *
372232 AAAATGGATTAAATTTGATTTAATTAA
1 AAAATAGATTAAAATTGATTTAATTAA
372259 TTTGATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (28 bp):
AAAATAGATTAAAATTGATTTAATTAAA
Found at i:372262 original size:14 final size:14
Alignment explanation
Indices: 372243--372275 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
372233 AAATGGATTA
372243 AATTTGATTTAA-TT
1 AATTTGA-TTAATTT
372257 AATTTGATTAATTT
1 AATTTGATTAATTT
372271 AATTT
1 AATTT
372276 AAGTTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
AATTTGATTAATTT
Found at i:372358 original size:21 final size:20
Alignment explanation
Indices: 372333--372385 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
372323 ATTTTTTATT
372333 ATTAAAATATAAAATTTAAAA
1 ATTAAAATATAAAA-TTAAAA
* * *
372354 ATTAAATTAATTAAATTAATA
1 ATTAAAAT-ATAAAATTAAAA
*
372375 TTTAAAATATA
1 ATTAAAATATA
372386 TTTAATAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 2 0.08
21 18 0.72
22 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTAAAATATAAAATTAAAA
Found at i:372443 original size:28 final size:28
Alignment explanation
Indices: 372393--372457 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
372383 ATATTTAATA
* * *
372393 AAATATAAATTTAAACTTAATCT-CATTT
1 AAAT-TAAATTAAAAATTAATCTAAATTT
*
372421 AAACTTAAATTAAAAATTCATCTAAATTT
1 AAA-TTAAATTAAAAATTAATCTAAATTT
372450 AAATTAAA
1 AAATTAAA
372458 AACTCAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 23 0.74
29 8 0.26
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.38
Consensus pattern (28 bp):
AAATTAAATTAAAAATTAATCTAAATTT
Found at i:372446 original size:23 final size:23
Alignment explanation
Indices: 372415--372459 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
372405 AAACTTAATC
*
372415 TCATTTAAACTTAAATTAAAAAT
1 TCATCTAAACTTAAATTAAAAAT
*
372438 TCATCTAAATTTAAATTAAAAA
1 TCATCTAAACTTAAATTAAAAA
372460 CTCAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (23 bp):
TCATCTAAACTTAAATTAAAAAT
Found at i:372468 original size:12 final size:11
Alignment explanation
Indices: 372451--372505 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
372441 TCTAAATTTA
372451 AATTAAAAACT
1 AATTAAAAACT
*
372462 CAATTAAAATCT
1 -AATTAAAAACT
372474 AATTAAAAA-T
1 AATTAAAAACT
*
372484 AATAATAAAACT
1 AATTA-AAAACT
372496 CAATTAAAAA
1 -AATTAAAAA
372506 ATAAAATGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 5 0.14
11 12 0.33
12 15 0.42
13 4 0.11
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (11 bp):
AATTAAAAACT
Found at i:372469 original size:23 final size:23
Alignment explanation
Indices: 372398--372482 Score: 70
Period size: 23 Copynumber: 3.7 Consensus size: 23
372388 TAATAAAATA
* *
372398 TAAATTTAAACTT--AATCTCATT
1 TAAATTTAAA-TTAAAAACTCAAT
* *
372420 TAAACTTAAATTAAAAATTC-AT
1 TAAATTTAAATTAAAAACTCAAT
372442 CTAAATTTAAATTAAAAACTCAAT
1 -TAAATTTAAATTAAAAACTCAAT
*
372466 TAAAATCT-AATTAAAAA
1 T-AAATTTAAATTAAAAA
372483 TAATAATAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
21 2 0.04
22 10 0.20
23 32 0.63
24 7 0.14
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAATTTAAATTAAAAACTCAAT
Found at i:372854 original size:15 final size:15
Alignment explanation
Indices: 372834--372865 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
372824 TAATTATTAA
372834 AAATTAATTTAAATT
1 AAATTAATTTAAATT
372849 AAATTAATTTAAATT
1 AAATTAATTTAAATT
372864 AA
1 AA
372866 TAAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTAATTTAAATT
Found at i:373103 original size:25 final size:25
Alignment explanation
Indices: 373066--373142 Score: 59
Period size: 25 Copynumber: 3.0 Consensus size: 25
373056 AAATAAAAAA
**
373066 ATTAATAGCTTTTAAAAATATTAAT
1 ATTAATATTTTTTAAAAATATTAAT
* **
373091 ATTAATATTTTTTTATTATA-TAATT
1 ATTAATATTTTTTAAAAATATTAA-T
*
373116 ATT-ATAATTTTTTAAAAAATTTTAAT
1 ATTAAT-ATTTTTT-AAAAATATTAAT
373142 A
1 A
373143 ATTTTTTATT
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
24 5 0.13
25 26 0.67
26 5 0.13
27 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (25 bp):
ATTAATATTTTTTAAAAATATTAAT
Found at i:373802 original size:23 final size:22
Alignment explanation
Indices: 373770--373812 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
373760 TCTTTTGTCG
373770 TATATATATTAAAATTAAATAA
1 TATATATATTAAAATTAAATAA
**
373792 TATATTATATTATTATTAAAT
1 TATA-TATATTAAAATTAAAT
373813 TATCTAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATATATATTAAAATTAAATAA
Found at i:378892 original size:15 final size:14
Alignment explanation
Indices: 378855--378924 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
378845 ATGTATTTAT
378855 ATTATATTTATAT-
1 ATTATATTTATATA
*
378868 ATTTTAATTTATTATA
1 ATTAT-ATTTA-TATA
*
378884 ATTATATTTAAAATA
1 ATTATATTT-ATATA
*
378899 TTTTATATTTATATA
1 -ATTATATTTATATA
378914 ATT-T-TTTATAT
1 ATTATATTTATAT
378925 GTTAATAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
12 7 0.15
13 5 0.11
14 7 0.15
15 14 0.30
16 13 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATATTTATATA
Found at i:378902 original size:30 final size:30
Alignment explanation
Indices: 378830--378916 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
378820 TTATTATTGC
* * *
378830 TATA-TTAAATAATTTATGTAT-TTAT-AT
1 TATATTTAAATATTTTATATTTATTATAAT
*
378857 TATATTTATATATTTTA-ATTTATTATAAT
1 TATATTTAAATATTTTATATTTATTATAAT
378886 TATATTTAAAATATTTTATATTTA-TATAAT
1 TATATTT-AAATATTTTATATTTATTATAAT
378916 T
1 T
378917 TTTTATATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 6 0.12
28 14 0.28
29 9 0.18
30 16 0.32
31 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (30 bp):
TATATTTAAATATTTTATATTTATTATAAT
Found at i:378922 original size:18 final size:17
Alignment explanation
Indices: 378856--378935 Score: 73
Period size: 18 Copynumber: 4.9 Consensus size: 17
378846 TGTATTTATA
378856 TTATATTT-AT-ATATT
1 TTATATTTAATAATATT
* *
378871 TTA-ATTT-ATTATA-A
1 TTATATTTAATAATATT
378885 TTATATTTAA-AATATT
1 TTATATTTAATAATATT
*
378901 TTATATTTATATAATTTT
1 TTATATTTA-ATAATATT
378919 TTATATGTTAATAATAT
1 TTATAT-TTAATAATAT
378936 ATAATATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
14 9 0.17
15 13 0.25
16 10 0.19
17 1 0.02
18 17 0.32
19 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (17 bp):
TTATATTTAATAATATT
Found at i:378924 original size:25 final size:25
Alignment explanation
Indices: 378848--378924 Score: 66
Period size: 30 Copynumber: 2.8 Consensus size: 25
378838 ATAATTTATG
* *
378848 TATTTATATTATATTTATATATTTTA
1 TATTTATATAAT-TTTTTATATTTTA
378874 -ATTTATTATAATTATATTTAAAATATTTTA
1 TATTTA-TATAATT-T-TTT---ATATTTTA
378904 TATTTATATAATTTTTTATAT
1 TATTTATATAATTTTTTATAT
378925 GTTAATAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
25 10 0.24
26 6 0.14
27 2 0.05
28 3 0.07
29 1 0.02
30 15 0.36
31 5 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTATATAATTTTTTATATTTTA
Found at i:383421 original size:69 final size:69
Alignment explanation
Indices: 383310--383446 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
383300 TGCATCTGAT
*
383310 ATAGGACACAAAATCATGACATTTCCAAGTTTTAGTTTTCTTAATTTCTTTTTGGAGAAAAAGCC
1 ATAGGACACAAAATCATGACATTTCCAAGTTTTAGTTTTCTTAATTTCTTTTTGAAGAAAAAGCC
383375 TGGC
66 TGGC
383379 ATAGGACACAAAATCATGACATTTCCAAGTTTTAGTTTTCTTAATTTCTTTTTGAAGAAAAAGCC
1 ATAGGACACAAAATCATGACATTTCCAAGTTTTAGTTTTCTTAATTTCTTTTTGAAGAAAAAGCC
383444 TGG
66 TGG
383447 TGACAAAATC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (69 bp):
ATAGGACACAAAATCATGACATTTCCAAGTTTTAGTTTTCTTAATTTCTTTTTGAAGAAAAAGCC
TGGC
Found at i:389295 original size:17 final size:17
Alignment explanation
Indices: 389262--389353 Score: 84
Period size: 17 Copynumber: 5.5 Consensus size: 17
389252 ATTAGATTAA
**
389262 TTAAAG-TATTTAAATT
1 TTAAAGTTATTTTTATT
389278 TTAAAGTTATTTTTATT
1 TTAAAGTTATTTTTATT
**
389295 TTTGAGTTATTTTTAGTT
1 TTAAAGTTATTTTTA-TT
*
389313 TTAATA-TTTTTTTTATT
1 TTAA-AGTTATTTTTATT
*
389330 TTAAA-TTATTTTAATT
1 TTAAAGTTATTTTTATT
389346 TT-AAGTTA
1 TTAAAGTTA
389354 ATTAAGTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
15 2 0.03
16 21 0.33
17 27 0.43
18 12 0.19
19 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (17 bp):
TTAAAGTTATTTTTATT
Found at i:389413 original size:36 final size:35
Alignment explanation
Indices: 389325--389413 Score: 92
Period size: 36 Copynumber: 2.5 Consensus size: 35
389315 AATATTTTTT
* *
389325 TTATTTTAAATTATTTTAATTTTAAGTTAATTAAG
1 TTATTTTAAATTATTTTAAATTCAAGTTAATTAAG
* * *
389360 TT-TATT-ATTTGAGTTTTAAGATTCGAGTTAATTAAG
1 TTATTTTAAATT-A-TTTTAA-ATTCAAGTTAATTAAG
389396 TTATTTTAAATTATTTTA
1 TTATTTTAAATTATTTTA
389414 TCGAATTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
33 3 0.07
34 4 0.10
35 8 0.19
36 20 0.48
37 4 0.10
38 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.09, T:0.56
Consensus pattern (35 bp):
TTATTTTAAATTATTTTAAATTCAAGTTAATTAAG
Found at i:389797 original size:12 final size:12
Alignment explanation
Indices: 389782--389806 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
389772 TTAAATTTTT
389782 TTTTAAATAAAA
1 TTTTAAATAAAA
389794 TTTTAAATAAAA
1 TTTTAAATAAAA
389806 T
1 T
389807 GTTTTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTTAAATAAAA
Found at i:389811 original size:28 final size:27
Alignment explanation
Indices: 389758--389811 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
389748 TAATTTTGTA
* * *
389758 TAAATAAATTATAATTAAATTTTTTTT
1 TAAATAAATTATAAATAAAATGTTTTT
*
389785 TAAATAAAATTTTAAATAAAATGTTTT
1 TAAAT-AAATTATAAATAAAATGTTTT
389812 AAATTTATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
TAAATAAATTATAAATAAAATGTTTTT
Found at i:390582 original size:23 final size:22
Alignment explanation
Indices: 390543--390586 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
390533 TATTTTTATT
390543 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
390565 TAAATATTAA-TATAAAAA-ATA
1 TAAAT-TTAATTATAAAAATATA
390586 T
1 T
390587 TTTAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 13 0.62
23 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:390593 original size:23 final size:23
Alignment explanation
Indices: 390539--390593 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
390529 AAAATATTTT
390539 TATTTAAAT-TTAATTATAAAAA
1 TATTTAAATATTAATTATAAAAA
*
390561 TATATAAATATTAA-TATAAAAAA
1 TATTTAAATATTAATTAT-AAAAA
*
390584 TATTTTAATA
1 TATTTAAATA
390594 ATATTATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTTAAATATTAATTATAAAAA
Found at i:393136 original size:81 final size:80
Alignment explanation
Indices: 392992--393150 Score: 239
Period size: 81 Copynumber: 2.0 Consensus size: 80
392982 ATAAACTATA
** *
392992 TTTTTGGTTTTGGATACTATGCTTGAGACTTGGGAGCATATTGCGGATTGAACTGATGCAATATC
1 TTTTTGGTTTTGGATACTATGCTTGAGACTTGGGAGCATATCACAGATTGAACTGATGCAATATC
393057 TGCTAG-ATGCTTTGC
66 TGCT-GTATGCTTTGC
* * *
393072 TTTTTGGTTCTTGGATACTATGCTTGGGACTTGGGAGCTTATCATAGATTGAACTGATGCAATAT
1 TTTTTGGTT-TTGGATACTATGCTTGAGACTTGGGAGCATATCACAGATTGAACTGATGCAATAT
393137 CTGCTGTATGCTTT
65 CTGCTGTATGCTTT
393151 ACTTGCTTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
80 10 0.14
81 61 0.86
ACGTcount: A:0.21, C:0.14, G:0.25, T:0.40
Consensus pattern (80 bp):
TTTTTGGTTTTGGATACTATGCTTGAGACTTGGGAGCATATCACAGATTGAACTGATGCAATATC
TGCTGTATGCTTTGC
Found at i:393776 original size:43 final size:43
Alignment explanation
Indices: 393728--393811 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
393718 GCAATTTTTG
*
393728 CAGGTCTATTGAATTTTTCTGTTTAGTTTGATGATCATGTTTA
1 CAGGTCTATTGAATTTTTCTGCTTAGTTTGATGATCATGTTTA
* *
393771 CAGGTCTGTTGAATTTTTGTGCTTAGTTTGATGATCATGTT
1 CAGGTCTATTGAATTTTTCTGCTTAGTTTGATGATCATGTT
393812 CATGGGTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.50
Consensus pattern (43 bp):
CAGGTCTATTGAATTTTTCTGCTTAGTTTGATGATCATGTTTA
Found at i:395404 original size:43 final size:44
Alignment explanation
Indices: 395357--395439 Score: 141
Period size: 43 Copynumber: 1.9 Consensus size: 44
395347 CTGATGTTTC
*
395357 CATCTCTTCCTCTATTTTCTTTGCA-TTTTTTGCTCAGTTGAAA
1 CATCTCTTCCTCTATTTTCTTTGCATTTTTTTACTCAGTTGAAA
*
395400 CATCTCTTTCTCTATTTTCTTTGCATTTTTTTACTCAGTT
1 CATCTCTTCCTCTATTTTCTTTGCATTTTTTTACTCAGTT
395440 TGATGATCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
43 24 0.65
44 13 0.35
ACGTcount: A:0.14, C:0.23, G:0.07, T:0.55
Consensus pattern (44 bp):
CATCTCTTCCTCTATTTTCTTTGCATTTTTTTACTCAGTTGAAA
Found at i:413278 original size:18 final size:19
Alignment explanation
Indices: 413251--413301 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
413241 ATGATCTTTC
*
413251 AAAAATTTTTTAAATAAA-T
1 AAAAA-TTTTTAAAAAAATT
*
413270 AAAAATTTTAAAAAAAATT
1 AAAAATTTTTAAAAAAATT
*
413289 AAATATATTTTAA
1 AAAAAT-TTTTAA
413302 TATTTATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 10 0.38
19 11 0.42
20 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTTTTAAAAAAATT
Found at i:416117 original size:93 final size:92
Alignment explanation
Indices: 415959--416136 Score: 302
Period size: 93 Copynumber: 1.9 Consensus size: 92
415949 ATAATTGATA
* *
415959 TTAAGGTATTCACAAATCAAACCCAAAAAACTCTAAAAATTGAAATCTGAAGTGAGCAGAACCTA
1 TTAAGGTATTCACAAATCAAACCCAAAAAACTCTAAAAATTGAAATCTAAAGTGAGCAAAACCTA
416024 TGAAAATGAACTTCAAACTATGCGATT
66 TGAAAATGAACTTCAAACTATGCGATT
* * *
416051 TTAAGGTATTCACAGATCAAACCCAGAAAAATTCTAAAAATTGAAATCTAAAGTTAGCAAAACCT
1 TTAAGGTATTCACAAATCAAACCCA-AAAAACTCTAAAAATTGAAATCTAAAGTGAGCAAAACCT
416116 ATGAAAATGAACTTCAAACTA
65 ATGAAAATGAACTTCAAACTA
416137 GGCACAAAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 24 0.30
93 56 0.70
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (92 bp):
TTAAGGTATTCACAAATCAAACCCAAAAAACTCTAAAAATTGAAATCTAAAGTGAGCAAAACCTA
TGAAAATGAACTTCAAACTATGCGATT
Found at i:416466 original size:81 final size:81
Alignment explanation
Indices: 416331--416490 Score: 266
Period size: 81 Copynumber: 2.0 Consensus size: 81
416321 TGTACTCACT
* * * *
416331 ACATAAATCTTGATAGTTAACACTAATTTTGACTATTAAACTTGTGCTCGCCTTATAAATTTTGG
1 ACATAAATCTTGATAGTCAACACTAATTCTGACTATTAAACTTGTGCTCGCCTTATAAATTCTGA
416396 TCGTCAAAAGGATGAA
66 TCGTCAAAAGGATGAA
* *
416412 ACATAAATCTTGGTAGTCAACACTCATTCTGACTATTAAACTTGTGCTCGCCTTATAAATTCTGA
1 ACATAAATCTTGATAGTCAACACTAATTCTGACTATTAAACTTGTGCTCGCCTTATAAATTCTGA
416477 TCGTCAAAAGGATG
66 TCGTCAAAAGGATG
416491 GAATCTTGAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (81 bp):
ACATAAATCTTGATAGTCAACACTAATTCTGACTATTAAACTTGTGCTCGCCTTATAAATTCTGA
TCGTCAAAAGGATGAA
Found at i:416644 original size:128 final size:127
Alignment explanation
Indices: 416412--416691 Score: 334
Period size: 128 Copynumber: 2.2 Consensus size: 127
416402 AAAGGATGAA
* * * * **
416412 ACATAAATCTTGGTAGTCAACACTCATTCTGACTATTAAACTTGTGCTCGCCTTATAAATTCTGA
1 ACATAAATCTTGGTAATCAACACTCATTCTGACAATCAAACTTGTACTCGCCACATAAATTCTGA
* ** * * *
416477 TCGTCAAAAGGATGGAATCTTGATAGTCAACATTTATTTTGACTGTCAGACCTGTGCTCGTT
66 TCATCAAAAGGACAGAATCTTGATACTCAACATTCATTTTAACTGTCAGACCTGTGCTCGTT
* *
416539 ACATAAATCTTGATAATCAACACTCACTT-TGACAAATCAAA-TCTGTACTCGCCACATAAATTT
1 ACATAAATCTTGGTAATCAACACTCA-TTCTGAC-AATCAAACT-TGTACTCGCCACATAAATTC
* * *
416602 TGATCATCAAAAGGACAGAATCTTGATAACT-AACATTCATTTTAATTGTTAGATCTGTGCTCGT
63 TGATCATCAAAAGGACAGAATCTTGAT-ACTCAACATTCATTTTAACTGTCAGACCTGTGCTCGT
416666 T
127 T
416667 ACATAAATCTTGGTAA-CTAACACTC
1 ACATAAATCTTGGTAATC-AACACTC
416692 TCTTCGGTTG
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
127 30 0.23
128 98 0.75
129 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (127 bp):
ACATAAATCTTGGTAATCAACACTCATTCTGACAATCAAACTTGTACTCGCCACATAAATTCTGA
TCATCAAAAGGACAGAATCTTGATACTCAACATTCATTTTAACTGTCAGACCTGTGCTCGTT
Found at i:417520 original size:12 final size:12
Alignment explanation
Indices: 417496--417527 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
417486 TAATAATGAC
417496 ATAATAT-AAAA
1 ATAATATAAAAA
417507 ATAATATAAAAA
1 ATAATATAAAAA
417519 ATAAT-TAAA
1 ATAATATAAA
417528 TTTTATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATATAAAAA
Found at i:420985 original size:16 final size:17
Alignment explanation
Indices: 420954--420987 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
420944 GAAAATTATT
420954 ATTTTAAAAATAAAATA
1 ATTTTAAAAATAAAATA
*
420971 ATTTT-AAATTAAAATA
1 ATTTTAAAAATAAAATA
420987 A
1 A
420988 ATATTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTTTAAAAATAAAATA
Found at i:421339 original size:15 final size:15
Alignment explanation
Indices: 421319--421348 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
421309 ATTATTAAAT
*
421319 AATAATTTAAATTAA
1 AATAATTCAAATTAA
421334 AATAATTCAAATTAA
1 AATAATTCAAATTAA
421349 CGAAAACCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAATTCAAATTAA
Found at i:422028 original size:15 final size:15
Alignment explanation
Indices: 422006--422049 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
421996 CTAATGATTT
422006 TTTAATAATTTA-AA
1 TTTAATAATTTATAA
422020 TTGTAATAACTTTATAA
1 TT-TAATAA-TTTATAA
*
422037 TTCAATAATTTAT
1 TTTAATAATTTAT
422050 TATAGCTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 9 0.35
17 4 0.15
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (15 bp):
TTTAATAATTTATAA
Found at i:423642 original size:3 final size:3
Alignment explanation
Indices: 423634--423658 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
423624 TAAAATTTCT
423634 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
423659 AAGTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:425473 original size:2 final size:2
Alignment explanation
Indices: 425466--425521 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
425456 CAAAAGAAGC
425466 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
425508 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
425522 TCAACCTATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:430048 original size:287 final size:287
Alignment explanation
Indices: 428939--431209 Score: 3637
Period size: 287 Copynumber: 8.0 Consensus size: 287
428929 AATTATATTA
** * *
428939 TTGTAAGTTTTATTTATGATGTTAAAATGTTATTTATATTTAAAAATAATTACTAATTAATGAGA
1 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
* * * * *
429004 ATCTTAGACTGCATT-AGATCATAAGTTGATCTTAAAATCAATCATAAATTACTGTCAATTAATT
66 ATCTTAGACTGCATTGA-ATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTGTCAATCAATT
* * * *
429068 CATGATTTAAATCTTTTAGAATCGATCC--C--AC-TGATCAATGATTTTAATTTAAAGATTACT
130 CATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAGACTACC
*
429128 CATTCAAACTATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAAT
195 CATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAAT
*
429193 TTAATTTATATAAAAACCAACCATAAAT
260 TTAATTTATATAAAAACCAATCATAAAT
* * * *
429221 TTATAAGTTTTATTTATGATGTCGAAACGTTATTTTTATTAAAAAATAATTACTAATTAATGTAA
1 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
*
429286 ATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTTTCAATCAATTC
66 ATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTGTCAATCAATTC
* *
429351 ATGATTTAAATCATTTAGAATCGATCCTACATACGTAATCAATGGTTTTAATTTAAAGACTACCC
131 ATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAGACTACCC
429416 ATTCAAACCATGCTAATTCTTAAA---T-TATTTGTGTTAGACTTATCAAATTCAATGAATAATT
196 ATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATT
*
429477 TAATTTATATAAAAACTAATCATAAAT
261 TAATTTATATAAAAACCAATCATAAAT
429504 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
1 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
* *
429569 ATCTTAGACTGCATTG---GAT--GTTGATCTTAAAGTCAATCATAAATTATTGTCAATCAATTT
66 ATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTGTCAATCAA-TT
* * * * *
429629 TATGATTTAAATTCTTTAGAATCGAT-C--C-TAC-TGATCCATAGTTTTAATTTAAAGATTACC
130 CATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAGACTACC
* *
429689 CATTCAAATCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTTAATGAATAAT
195 CATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAAT
429754 TTAATTTATATAAAAACCAATCATAAAT
260 TTAATTTATATAAAAACCAATCATAAAT
* *
429782 TTGTAAGTTTTATTTATAATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTAA
1 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
429847 ATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTGTCAATCAATTC
66 ATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTGTCAATCAATTC
429912 ATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAGACTACCC
131 ATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAGACTACCC
*
429977 ATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTTAATGAATAATT
196 ATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATT
*
430042 TAATTTATATAAAAACTAATCATAAAT
261 TAATTTATATAAAAACCAATCATAAAT
*
430069 TTGTAAATTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
1 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
* * *
430134 ATCTTAGACGGCATTG---GAT--GTTGATCTTAAAGTCAATCATAAATTATTGTCAATCAATTC
66 ATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTGTCAATCAATTC
* * *
430194 ATGATTTAAATACTTTAGAATCGATCCTACATACGTAATTAATGGTTTTAATTTAAAGACTACCC
131 ATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAGACTACCC
*
430259 ATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTTAATGAATAATT
196 ATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATT
430324 TAATTTATATAAAAACCAATCATAAAT
261 TAATTTATATAAAAACCAATCATAAAT
*
430351 TTGTAAGTTTTATTTATAATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
1 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
* *
430416 ATCTTAGACTGCATT-AGATCATAGGTTGGTCTTAAAGTTAATCATAAATTATTGTCAATTAATT
66 ATCTTAGACTGCATTGA-ATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTGTCAATCAATT
* *
430480 CATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAAACTACT
130 CATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAGACTACC
* *
430545 TATTCAAACCATACTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAAT
195 CATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAAT
430610 TTAATTTATATAAAAACCAATCATAAAT
260 TTAATTTATATAAAAACCAATCATAAAT
* * *
430638 TTGTAAGTTTTATTTATAATGTCAAAACATTATTTATATTTAAAAATAATTACTAATTAATGTGA
1 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
* *
430703 ATCTTAGA-TGCATTGAATCCT--GTTGGTCTTAAAGTCAATCATAAATTATTATCAATCAATTC
66 ATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTGTCAATCAATTC
* * **
430765 ATGATTTAAATCCTTTAGAATCGATTCTACATATGTGATCAATAATTTTAATTTAAAGACTACCC
131 ATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAGACTACCC
*
430830 ATTCAAACCATACTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATT
196 ATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATT
*
430895 TAATTTATATAAAAACTAATCATAAAT
261 TAATTTATATAAAAACCAATCATAAAT
* *
430922 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAATATAATTATTAATTAATGTGA
1 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
* * * *
430987 ATTTTAGACTGCATTGGATCATAGGTTGGTTTTCAAGTCAATCATAAATTATTGTCAATCAATTC
66 ATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTGTCAATCAATTC
* * * * *
431052 ATGATTTAAATCTTTTAGAATCGATCCTACATACATGATCAATGATTTTAATTTAAAGATTATCC
131 ATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAGACTACCC
*
431117 ATTCAAACCATGCTAATTCTTAAATTTTATATTTGGGTTAGACTTATCAAATTCAATGAATAATT
196 ATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATT
*
431182 TAATTTATATAAAAATCAATCATAAAT
261 TAATTTATATAAAAACCAATCATAAAT
431209 T
1 T
431210 ATTATCAATC
Statistics
Matches: 1847, Mismatches: 111, Indels: 57
0.92 0.06 0.03
Matches are distributed among these distances:
274 49 0.03
275 3 0.00
276 1 0.00
277 1 0.00
278 177 0.10
279 25 0.01
280 2 0.00
281 2 0.00
282 436 0.24
283 177 0.10
284 258 0.14
285 14 0.01
286 15 0.01
287 687 0.37
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.41
Consensus pattern (287 bp):
TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
ATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATCATAAATTATTGTCAATCAATTC
ATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGGTTTTAATTTAAAGACTACCC
ATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATT
TAATTTATATAAAAACCAATCATAAAT
Found at i:430424 original size:569 final size:567
Alignment explanation
Indices: 428939--431209 Score: 3690
Period size: 569 Copynumber: 4.0 Consensus size: 567
428929 AATTATATTA
* * *
428939 TTGTAAGTTTTATTTATGATGTTAAAATGTTATTTATATTTAAAAATAATTACTAATTAATGAGA
1 TTGTAAGTTTTATTTATGATGTCAAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
* * * *
429004 ATCTTAGACTGCATTAGATCATAAGTTGATCTTAAAATCAATCATAAATTACTGTCAATTAATTC
66 ATCTTAGACTGCATT-G--GAT--GTTGATCTTAAAGTCAATCATAAATTATTGTCAATCAATTC
* * *
429069 ATGATTTAAATCTTTTAGAATCGATCC--C-AC-TGATCAATGATTTTAATTTAAAGATTACTCA
126 ATGATTTAAATC-TTTAGAATCGATCCTACTACGTGATCAATAATTTTAATTTAAAGACTACCCA
*
429130 TTCAAACTATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATTT
190 TTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATTT
* * * *
429195 AATTTATATAAAAACCAACCATAAATTTATAAGTTTTATTTATGATGTCGAAACGTTATTTTTAT
255 AATTTATATAAAAACCAATCATAAATTTGTAAGTTTTATTTATAATGTCGAAACGTTATTTATAT
*
429260 TAAAAAATAATTACTAATTAATGTAAATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTC
320 TTAAAAATAATTACTAATTAATGTAAATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTC
* * *
429325 AATCATAAATTATTTTCAATCAATTCATGATTTAAATCATTTAGAATCGATCCTACATACGTAAT
385 AATCATAAATTATTGTCAATCAATTCATGATTTAAATCCTTTAGAATCGATCCTACATACGTGAT
429390 CAATGGTTTTAATTTAAAGACTACCCATTCAAACCATGCTAATTCTTAAA---T-TATTTGTGTT
450 CAATGGTTTTAATTTAAAGACTACCCATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTT
429451 AGACTTATCAAATTCAATGAATAATTTAATTTATATAAAAACTAATCATAAAT
515 AGACTTATCAAATTCAATGAATAATTTAATTTATATAAAAACTAATCATAAAT
*
429504 TTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
1 TTGTAAGTTTTATTTATGATGTCAAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
*
429569 ATCTTAGACTGCATTGGATGTTGATCTTAAAGTCAATCATAAATTATTGTCAATCAATTTTATGA
66 ATCTTAGACTGCATTGGATGTTGATCTTAAAGTCAATCATAAATTATTGTCAATCAA-TTCATGA
* * *
429634 TTTAAATTCTTTAGAATCGAT-C--CTAC-TGATCCATAGTTTTAATTTAAAGATTACCCATTCA
130 TTTAAA-TCTTTAGAATCGATCCTACTACGTGATCAATAATTTTAATTTAAAGACTACCCATTCA
* *
429695 AATCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTTAATGAATAATTTAATT
194 AACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATTTAATT
429760 TATATAAAAACCAATCATAAATTTGTAAGTTTTATTTATAATGTCGAAACGTTATTTATATTTAA
259 TATATAAAAACCAATCATAAATTTGTAAGTTTTATTTATAATGTCGAAACGTTATTTATATTTAA
429825 AAATAATTACTAATTAATGTAAATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATC
324 AAATAATTACTAATTAATGTAAATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATC
429890 ATAAATTATTGTCAATCAATTCATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAAT
389 ATAAATTATTGTCAATCAATTCATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAAT
429955 GGTTTTAATTTAAAGACTACCCATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGAC
454 GGTTTTAATTTAAAGACTACCCATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGAC
*
430020 TTATCAAATTTAATGAATAATTTAATTTATATAAAAACTAATCATAAAT
519 TTATCAAATTCAATGAATAATTTAATTTATATAAAAACTAATCATAAAT
* *
430069 TTGTAAATTTTATTTATGATGTCGAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
1 TTGTAAGTTTTATTTATGATGTCAAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
*
430134 ATCTTAGACGGCATTGGATGTTGATCTTAAAGTCAATCATAAATTATTGTCAATCAATTCATGAT
66 ATCTTAGACTGCATTGGATGTTGATCTTAAAGTCAATCATAAATTATTGTCAATCAATTCATGAT
* * **
430199 TTAAATACTTTAGAATCGATCCTACATACGTAATTAATGGTTTTAATTTAAAGACTACCCATTCA
131 TTAAAT-CTTTAGAATCGATCCTAC-TACGTGATCAATAATTTTAATTTAAAGACTACCCATTCA
*
430264 AACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTTAATGAATAATTTAATT
194 AACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATTTAATT
430329 TATATAAAAACCAATCATAAATTTGTAAGTTTTATTTATAATGTCGAAACGTTATTTATATTTAA
259 TATATAAAAACCAATCATAAATTTGTAAGTTTTATTTATAATGTCGAAACGTTATTTATATTTAA
* *
430394 AAATAATTACTAATTAATGTGAATCTTAGACTGCATT-AGATCATAGGTTGGTCTTAAAGTTAAT
324 AAATAATTACTAATTAATGTAAATCTTAGACTGCATTGA-ATCATAGGTTGGTCTTAAAGTCAAT
*
430458 CATAAATTATTGTCAATTAATTCATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAA
388 CATAAATTATTGTCAATCAATTCATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAA
* ** *
430523 TGGTTTTAATTTAAAAACTACTTATTCAAACCATACTAATTCTTAAATTTTATATTTGTGTTAGA
453 TGGTTTTAATTTAAAGACTACCCATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGA
*
430588 CTTATCAAATTCAATGAATAATTTAATTTATATAAAAACCAATCATAAAT
518 CTTATCAAATTCAATGAATAATTTAATTTATATAAAAACTAATCATAAAT
* *
430638 TTGTAAGTTTTATTTATAATGTCAAAACATTATTTATATTTAAAAATAATTACTAATTAATGTGA
1 TTGTAAGTTTTATTTATGATGTCAAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
* * *
430703 ATCTTAGA-TGCATTGAATCCTGTTGGTCTTAAAGTCAATCATAAATTATTATCAATCAATTCAT
66 ATCTTAGACTGCATTGGA---TGTTGATCTTAAAGTCAATCATAAATTATTGTCAATCAATTCAT
* *
430767 GATTTAAATCCTTTAGAATCGATTCTACATATGTGATCAATAATTTTAATTTAAAGACTACCCAT
128 GATTTAAAT-CTTTAGAATCGATCCTAC-TACGTGATCAATAATTTTAATTTAAAGACTACCCAT
*
430832 TCAAACCATACTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATTTA
191 TCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATTTA
* *
430897 ATTTATATAAAAACTAATCATAAATTTGTAAGTTTTATTTATGATGTCGAAACGTTATTTATATT
256 ATTTATATAAAAACCAATCATAAATTTGTAAGTTTTATTTATAATGTCGAAACGTTATTTATATT
* * * * * * *
430962 TAAATATAATTATTAATTAATGTGAATTTTAGACTGCATTGGATCATAGGTTGGTTTTCAAGTCA
321 TAAAAATAATTACTAATTAATGTAAATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCA
* *
431027 ATCATAAATTATTGTCAATCAATTCATGATTTAAATCTTTTAGAATCGATCCTACATACATGATC
386 ATCATAAATTATTGTCAATCAATTCATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATC
* * * *
431092 AATGATTTTAATTTAAAGATTATCCATTCAAACCATGCTAATTCTTAAATTTTATATTTGGGTTA
451 AATGGTTTTAATTTAAAGACTACCCATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTA
431157 GACTTATCAAATTCAATGAATAATTTAATTTATATAAAAA-TCAATCATAAAT
516 GACTTATCAAATTCAATGAATAATTTAATTTATATAAAAACT-AATCATAAAT
431209 T
1 T
431210 ATTATCAATC
Statistics
Matches: 1606, Mismatches: 81, Indels: 32
0.93 0.05 0.02
Matches are distributed among these distances:
560 37 0.02
561 352 0.22
562 4 0.00
563 1 0.00
564 27 0.02
565 259 0.16
567 1 0.00
568 11 0.01
569 461 0.29
571 453 0.28
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.41
Consensus pattern (567 bp):
TTGTAAGTTTTATTTATGATGTCAAAACGTTATTTATATTTAAAAATAATTACTAATTAATGTGA
ATCTTAGACTGCATTGGATGTTGATCTTAAAGTCAATCATAAATTATTGTCAATCAATTCATGAT
TTAAATCTTTAGAATCGATCCTACTACGTGATCAATAATTTTAATTTAAAGACTACCCATTCAAA
CCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTTATCAAATTCAATGAATAATTTAATTTA
TATAAAAACCAATCATAAATTTGTAAGTTTTATTTATAATGTCGAAACGTTATTTATATTTAAAA
ATAATTACTAATTAATGTAAATCTTAGACTGCATTGAATCATAGGTTGGTCTTAAAGTCAATCAT
AAATTATTGTCAATCAATTCATGATTTAAATCCTTTAGAATCGATCCTACATACGTGATCAATGG
TTTTAATTTAAAGACTACCCATTCAAACCATGCTAATTCTTAAATTTTATATTTGTGTTAGACTT
ATCAAATTCAATGAATAATTTAATTTATATAAAAACTAATCATAAAT
Found at i:434908 original size:16 final size:16
Alignment explanation
Indices: 434889--434922 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
434879 TAATATGATA
434889 TTATAATTATT-ATTTT
1 TTATAATT-TTAATTTT
434905 TTATAATTTTAATTTT
1 TTATAATTTTAATTTT
434921 TT
1 TT
434923 TATTATCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 15 0.88
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATAATTTTAATTTT
Found at i:446830 original size:26 final size:25
Alignment explanation
Indices: 446791--446849 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
446781 AGTAAATATA
446791 AAATTTAATTTTTA-GGTTTAATTTT
1 AAATTTAATTTTTATGGTTTAA-TTT
*
446816 AAATTTAATTATTTATGTTTTAATTT
1 AAATTTAATT-TTTATGGTTTAATTT
*
446842 GAATTTAA
1 AAATTTAA
446850 ATTAAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 10 0.33
26 14 0.47
27 6 0.20
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (25 bp):
AAATTTAATTTTTATGGTTTAATTT
Found at i:447326 original size:19 final size:19
Alignment explanation
Indices: 447302--447368 Score: 86
Period size: 18 Copynumber: 3.6 Consensus size: 19
447292 ATTTAAAAAG
*
447302 ATTTAAATAA-AAATATTAA
1 ATTTAAAAAATAAAT-TTAA
447321 ATTTAAAAAATAAATTTAA
1 ATTTAAAAAATAAATTTAA
*
447340 A-TTAAAAAATAAATTT-T
1 ATTTAAAAAATAAATTTAA
447357 ATTTAAAAAATA
1 ATTTAAAAAATA
447369 TAGCTCAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
17 1 0.02
18 25 0.57
19 14 0.32
20 4 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTTAAAAAATAAATTTAA
Found at i:447755 original size:17 final size:16
Alignment explanation
Indices: 447741--447787 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
447731 AGATTTAAGG
447741 AAAAATTAAATTTAAA
1 AAAAATTAAATTTAAA
* *
447757 TAAAAAATATATTTAAA
1 -AAAAATTAAATTTAAA
447774 AATAAATTAAATTT
1 AA-AAATTAAATTT
447788 TAATTTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAATTAAATTTAAA
Found at i:447983 original size:15 final size:16
Alignment explanation
Indices: 447958--448003 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
447948 TTAGTAAAAA
*
447958 AATATATTAAATTATT
1 AATAAATTAAATTATT
447974 AA-AAATTAAATT-TT
1 AATAAATTAAATTATT
447988 AATAAA-TAAATATATT
1 AATAAATTAAAT-TATT
448004 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 9 0.35
15 13 0.50
16 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAAATTAAATTATT
Found at i:448846 original size:26 final size:27
Alignment explanation
Indices: 448802--448868 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
448792 ATTTTTTTTA
* *
448802 TATATTTAAATAATAATATT-TTTATAAT
1 TATATATAAAT-ATAATATTATATAT-AT
*
448830 TATATCTAAATAT-ATATTATATATAT
1 TATATATAAATATAATATTATATATAT
448856 TATATATAAATAT
1 TATATATAAATAT
448869 TTTAAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 19 0.54
27 6 0.17
28 10 0.29
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TATATATAAATATAATATTATATATAT
Found at i:448853 original size:9 final size:9
Alignment explanation
Indices: 448839--448863 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
448829 TTATATCTAA
448839 ATATATATT
1 ATATATATT
448848 ATATATATT
1 ATATATATT
448857 ATATATA
1 ATATATA
448864 AATATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
ATATATATT
Found at i:449078 original size:24 final size:23
Alignment explanation
Indices: 449051--449105 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
449041 TTTATTTTTT
*
449051 ATATATATTTAAATATAAA-TATGA
1 ATATATATTTAAA-A-AAATTATAA
*
449075 ATATAATTTTTAAAAAAATTATAA
1 ATAT-ATATTTAAAAAAATTATAA
449099 ATATATA
1 ATATATA
449106 AAAATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 5 0.19
24 13 0.50
25 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATATATTTAAAAAAATTATAA
Found at i:450227 original size:17 final size:17
Alignment explanation
Indices: 450205--450237 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
450195 AAAGTTTATA
*
450205 TTTATATTTAAATATTT
1 TTTATATATAAATATTT
450222 TTTATATATAAATATT
1 TTTATATATAAATATT
450238 GAACATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATATATAAATATTT
Found at i:451043 original size:20 final size:19
Alignment explanation
Indices: 451015--451067 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
451005 ATATATATTT
*
451015 AAATATATTTAAATTTTTATA
1 AAAT-TATTTAAATATTT-TA
*
451036 AAATTATTTTATATATTTTA
1 AAATTA-TTTAAATATTTTA
*
451056 AAATTTTTTAAA
1 AAATTATTTAAA
451068 AAATTATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.19
20 9 0.33
21 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AAATTATTTAAATATTTTA
Found at i:451044 original size:30 final size:32
Alignment explanation
Indices: 451010--451074 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
451000 TATAGATATA
*
451010 TATTTAA-ATATATTT-AAA-TTTTTATAAAAT
1 TATTTAATATAT-TTTAAAATTTTTTAAAAAAT
*
451040 TATTTTATATATTTTAAAATTTTTTAAAAAAT
1 TATTTAATATATTTTAAAATTTTTTAAAAAAT
451072 TAT
1 TAT
451075 ATTTTTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 9 0.30
31 7 0.23
32 14 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TATTTAATATATTTTAAAATTTTTTAAAAAAT
Found at i:452316 original size:18 final size:19
Alignment explanation
Indices: 452277--452317 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
452267 TATAACTGTT
* *
452277 TAAAAAAATTTTAAATATA
1 TAAAAAAATTTTAAAAAAA
452296 TAAAAAAA-TTTAAAAAAA
1 TAAAAAAATTTTAAAAAAA
452314 TAAA
1 TAAA
452318 TATACTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAAAATTTTAAAAAAA
Found at i:455785 original size:2 final size:2
Alignment explanation
Indices: 455778--455816 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
455768 GTAGCTTTTA
455778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
455817 AAAAAATTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:457204 original size:16 final size:16
Alignment explanation
Indices: 457185--457239 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
457175 TAATAAACAT
457185 TAATTAAAATAAATAA
1 TAATTAAAATAAATAA
*
457201 TAATTACAA-AAATATA
1 TAATTAAAATAAATA-A
* *
457217 TAATAAAAATTAA-AA
1 TAATTAAAATAAATAA
*
457232 TTATTAAA
1 TAATTAAA
457240 TAATAATTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 12 0.39
16 17 0.55
17 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATTAAAATAAATAA
Found at i:457231 original size:19 final size:19
Alignment explanation
Indices: 457162--457254 Score: 64
Period size: 19 Copynumber: 4.7 Consensus size: 19
457152 TATATTTATT
457162 ATAATTATAAATATAATAA-A
1 ATAATTA-AAATAT-ATAATA
*
457182 CATTAATTAAAATAAATAATA
1 -A-TAATTAAAATATATAATA
* **
457203 ATTACAAAAATATATAATA
1 ATAATTAAAATATATAATA
*
457222 AAAATTAAAAT-TATTAAATA
1 ATAATTAAAATATA-T-AATA
*
457242 ATAATTATAATAT
1 ATAATTAAAATAT
457255 TATATCGATA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
18 2 0.04
19 22 0.39
20 18 0.32
21 8 0.14
22 6 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAATTAAAATATATAATA
Found at i:457449 original size:14 final size:14
Alignment explanation
Indices: 457430--457474 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
457420 TTCGATGATA
457430 TTATAATTAATATT
1 TTATAATTAATATT
*
457444 TTATAATTTTAATTTT
1 TTATAA--TTAATATT
*
457460 TTATTATTAATATT
1 TTATAATTAATATT
457474 T
1 T
457475 ATCGTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 14 0.54
16 12 0.46
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATAATTAATATT
Found at i:458212 original size:15 final size:17
Alignment explanation
Indices: 458194--458225 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
458184 ATTAATTAAT
458194 TATTTAT-T-ACAAAAA
1 TATTTATGTAACAAAAA
458209 TATTTATGTAACAAAAA
1 TATTTATGTAACAAAAA
458226 AACTTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
TATTTATGTAACAAAAA
Found at i:459982 original size:13 final size:13
Alignment explanation
Indices: 459964--459990 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
459954 AATAAACCGA
459964 ATTAATCAAATTT
1 ATTAATCAAATTT
459977 ATTAATCAAATTT
1 ATTAATCAAATTT
459990 A
1 A
459991 ATCAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAATCAAATTT
Found at i:460680 original size:19 final size:18
Alignment explanation
Indices: 460643--460682 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
460633 TATGGTTTGG
460643 AATAATATTTTTAATTTA
1 AATAATATTTTTAATTTA
460661 AATAATATAATTTT-ATTTA
1 AATAATAT--TTTTAATTTA
460680 AAT
1 AAT
460683 TTAATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 8 0.40
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATAATATTTTTAATTTA
Found at i:460711 original size:20 final size:20
Alignment explanation
Indices: 460678--460717 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
460668 TAATTTTATT
460678 TAAATTTAATTATAAAAATA
1 TAAATTTAATTATAAAAATA
460698 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
460718 GTTTTTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATTTAATTATAAAAATA
Found at i:461174 original size:4 final size:4
Alignment explanation
Indices: 461165--461190 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
461155 TTCATTAGAA
461165 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
461191 AGTCAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:461442 original size:17 final size:18
Alignment explanation
Indices: 461422--461463 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 18
461412 TAAAAAAGTT
461422 AAAAATTTTAAAAA-AAA
1 AAAAATTTTAAAAATAAA
461439 AAAAATTTTAAAAATAAA
1 AAAAATTTTAAAAATAAA
461457 AATAAAT
1 AA-AAAT
461464 AATATAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.61
18 5 0.22
19 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTTTAAAAATAAA
Found at i:462057 original size:20 final size:20
Alignment explanation
Indices: 462025--462063 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
462015 TATTATTTTT
*
462025 TATTATAATTTTATTTAAAA
1 TATTATAATTTTATATAAAA
462045 TATTAT-ATATTTATATAAA
1 TATTATAAT-TTTATATAAA
462064 TTTTAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATAATTTTATATAAAA
Found at i:462429 original size:28 final size:29
Alignment explanation
Indices: 462382--462456 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
462372 ACATGTGTGA
* *
462382 AAAGCAAAAATAATTAAAA-TTGTTTGAGG
1 AAAGAAAAAATTA-TAAAATTTGTTTGAGG
* *
462411 AAATATAAAATTATAAAATTTTGTTTGAGG
1 AAAGAAAAAATTATAAAA-TTTGTTTGAGG
462441 AAAGAAAAAATTATAA
1 AAAGAAAAAATTATAA
462457 TATTATCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
28 5 0.13
29 9 0.24
30 24 0.63
ACGTcount: A:0.55, C:0.01, G:0.13, T:0.31
Consensus pattern (29 bp):
AAAGAAAAAATTATAAAATTTGTTTGAGG
Found at i:463632 original size:7 final size:7
Alignment explanation
Indices: 463573--463612 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
463563 AATTTAATAA
463573 AAAAATT
1 AAAAATT
463580 AAAAATT
1 AAAAATT
463587 AAAAATT
1 AAAAATT
463594 AAAAATT
1 AAAAATT
463601 AAAAATT
1 AAAAATT
463608 AAAAA
1 AAAAA
463613 ATATTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:464430 original size:18 final size:17
Alignment explanation
Indices: 464407--464440 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
464397 AAGGTGTTAT
464407 ATATATATATCAAAATAA
1 ATATATA-ATCAAAATAA
*
464425 ATATATAATTAAAATA
1 ATATATAATCAAAATA
464441 TTATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATATAATCAAAATAA
Found at i:464718 original size:12 final size:13
Alignment explanation
Indices: 464681--464719 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
464671 ATAATATTAG
464681 ATATAATTATAAAA
1 ATATAATTA-AAAA
464695 ATATAATGTAAAAA
1 ATATAAT-TAAAAA
464709 ATA-AATTAAAA
1 ATATAATTAAAA
464720 TATGAAACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.21
13 3 0.12
14 14 0.58
15 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
ATATAATTAAAAA
Found at i:467069 original size:18 final size:17
Alignment explanation
Indices: 467048--467088 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
467038 AATAATTTAC
*
467048 ATATTTATATAAATTTT
1 ATATTTATATAAATATT
*
467065 GATATATATATAAATATT
1 -ATATTTATATAAATATT
467083 ATATTT
1 ATATTT
467089 TAATTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
ATATTTATATAAATATT
Found at i:467908 original size:20 final size:19
Alignment explanation
Indices: 467885--467924 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
467875 TTTTTTTACA
*
467885 TAAAAATGATTAATTTTTTT
1 TAAAAAGGA-TAATTTTTTT
*
467905 TAAAAAGGATCATTTTTTT
1 TAAAAAGGATAATTTTTTT
467924 T
1 T
467925 GCATACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (19 bp):
TAAAAAGGATAATTTTTTT
Found at i:468647 original size:10 final size:10
Alignment explanation
Indices: 468629--468671 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
468619 GCCTATGTAT
*
468629 TTATATTATA
1 TTATTTTATA
468639 TTATTTTATAA
1 TTATTTTAT-A
*
468650 TTATTTTAAA
1 TTATTTTATA
*
468660 ATATTTTATA
1 TTATTTTATA
468670 TT
1 TT
468672 TATATAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTATTTTATA
Found at i:468693 original size:25 final size:25
Alignment explanation
Indices: 468659--468724 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 25
468649 ATTATTTTAA
*
468659 AATATTTTATATTTATATAAATATT
1 AATAATTTATATTTATATAAATATT
*
468684 AATAATTTATA-TTATATAAATTTT
1 AATAATTTATATTTATATAAATATT
* *
468708 AATTATTT-TATTAATAT
1 AATAATTTATATTTATAT
468725 TATATTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.06
24 24 0.67
25 10 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
AATAATTTATATTTATATAAATATT
Found at i:468898 original size:15 final size:14
Alignment explanation
Indices: 468880--469033 Score: 80
Period size: 15 Copynumber: 11.4 Consensus size: 14
468870 TAACATAATT
468880 ATATAAATATAATAA
1 ATATAAATAT-ATAA
468895 ATATAAA-AT-TAA
1 ATATAAATATATAA
*
468907 AAAT-AATATGATATA
1 ATATAAATAT-ATA-A
**
468922 ATATAAATATATTT
1 ATATAAATATATAA
* *
468936 TTA-AAATTTATATA
1 ATATAAATATATA-A
*
468950 ATATAAAT-TATTA
1 ATATAAATATATAA
*
468963 ATAT--TTATATAA
1 ATATAAATATATAA
*
468975 ATA-AAATATTTTAA
1 ATATAAATA-TATAA
468989 ATATAAATATAATATA
1 ATATAAATAT-ATA-A
*
469005 ATA-AAATATTTAA
1 ATATAAATATATAA
469018 ATAT---TATATAA
1 ATATAAATATATAA
469029 ATATA
1 ATATA
469034 TAAATTATCA
Statistics
Matches: 106, Mismatches: 17, Indels: 35
0.67 0.11 0.22
Matches are distributed among these distances:
11 13 0.12
12 15 0.14
13 18 0.17
14 21 0.20
15 30 0.28
16 9 0.08
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.42
Consensus pattern (14 bp):
ATATAAATATATAA
Found at i:468907 original size:21 final size:21
Alignment explanation
Indices: 468882--468932 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
468872 ACATAATTAT
468882 ATAAATATAATA-AATATAAA
1 ATAAATATAATATAATATAAA
* * *
468902 ATTAAAAATAATATGATATAAT
1 A-TAAATATAATATAATATAAA
468924 ATAAATATA
1 ATAAATATA
468933 TTTTTAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAATATAATATAATATAAA
Found at i:468948 original size:28 final size:27
Alignment explanation
Indices: 468917--469005 Score: 98
Period size: 24 Copynumber: 3.4 Consensus size: 27
468907 AAATAATATG
468917 ATATAATATAAATATATTTTTAAAATTT
1 ATATAATATAAATATA-TTTTAAAATTT
*
468945 ATATAATATAAAT-TA--TTAATATTT
1 ATATAATATAAATATATTTTAAAATTT
**
468969 ATATAA-ATAAA-ATATTTTAAATATAA
1 ATATAATATAAATATATTTTAAA-ATTT
468995 ATATAATATAA
1 ATATAATATAA
469006 TAAAATATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.13
24 14 0.27
25 4 0.08
26 8 0.15
27 6 0.12
28 13 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
ATATAATATAAATATATTTTAAAATTT
Found at i:469032 original size:19 final size:18
Alignment explanation
Indices: 468995--469038 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
468985 TTAAATATAA
468995 ATAT-AATATAATAAAAT
1 ATATAAATATAATAAAAT
* *
469012 ATTTAAATATTATATAAAT
1 ATATAAATATAATA-AAAT
469031 ATATAAAT
1 ATATAAAT
469039 TATCAAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 3 0.14
18 8 0.36
19 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATAAATATAATAAAAT
Found at i:470175 original size:3 final size:3
Alignment explanation
Indices: 470167--470198 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
470157 AATCTAAATA
470167 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
470199 AGAATAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:471147 original size:2 final size:2
Alignment explanation
Indices: 471087--471131 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
471077 CCAAAGAAAC
* *
471087 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
471129 AT A
1 AT A
471132 GTGTGTGCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:471387 original size:15 final size:15
Alignment explanation
Indices: 471369--471402 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
471359 AATTAATTAA
471369 ATATTA-ATATATATT
1 ATATTATATATAT-TT
471384 ATATTATATATATTT
1 ATATTATATATATTT
471399 ATAT
1 ATAT
471403 AATTAAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTATATATATTT
Found at i:471468 original size:16 final size:16
Alignment explanation
Indices: 471421--471468 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
471411 TTTTTATTTG
*
471421 TATTTATTATTTTTAAA
1 TATTTATT-TTTTTATA
*
471438 TATTAATTTTTTTATA
1 TATTTATTTTTTTATA
*
471454 TATTTATTTATTTAT
1 TATTTATTTTTTTAT
471469 TAATAATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTTATTTTTTTATA
Found at i:471946 original size:16 final size:16
Alignment explanation
Indices: 471921--471957 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
471911 ATTTTTATCA
*
471921 TAAATTTAAAAATA-T
1 TAAATTTTAAAATATT
471936 TAAATTTTAAAATATT
1 TAAATTTTAAAATATT
471952 TAAATT
1 TAAATT
471958 AATTGATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATTTTAAAATATT
Found at i:472268 original size:110 final size:109
Alignment explanation
Indices: 472143--472423 Score: 271
Period size: 110 Copynumber: 2.5 Consensus size: 109
472133 TACGAACTCT
472143 CTTTATAT-AGAACAATTTATTTTTCTCATAAATTACATAATATTCAAGCACCAAGGGATTGACC
1 CTTTATATAAG-ACAATTTATTTTT-TCATAAATTACATAATATTCAAGCACCAAGGGATTGACC
* * *
472207 TCGAAAGAGATCATTGTCTAAAGTCATAAAGTGGCATATGAATTCC
64 TCGAAAGAGATCATTGTCTAAAGTCATAAACTGACATATGAATGCC
* * * * * ** *
472253 CTTTATATAAGACAATTCATTTTTGGCCTAAATTACATAGTATTCGAA-CACAAAAAGATTGATC
1 CTTTATATAAGACAATTTATTTTT-TCATAAATTACATAATATTC-AAGCACCAAGGGATTGACC
* * * * ** *
472317 TTGAAATAGATCATTGTTTAGAGTCATAAACTGATGTATGAATGCT
64 TCGAAAGAGATCATTGTCTAAAGTCATAAACTGACATATGAATGCC
* * * * *
472363 CTTTACATAAGATAATTTATTTTTTACATAAATT-CATATAGCATTCGAGCATCAAGGGATT
1 CTTTATATAAGACAATTTATTTTTT-CATAAATTACATA-A-TATTCAAGCACCAAGGGATT
472424 AATCCCGAAA
Statistics
Matches: 134, Mismatches: 31, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
109 4 0.03
110 114 0.85
111 16 0.12
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (109 bp):
CTTTATATAAGACAATTTATTTTTTCATAAATTACATAATATTCAAGCACCAAGGGATTGACCTC
GAAAGAGATCATTGTCTAAAGTCATAAACTGACATATGAATGCC
Found at i:472759 original size:3 final size:3
Alignment explanation
Indices: 472751--472813 Score: 78
Period size: 3 Copynumber: 21.3 Consensus size: 3
472741 ACCCTTTTAA
*
472751 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAA- AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
472796 AA- AAT GAAT AAT AA- AAT A
1 AAT AAT -AAT AAT AAT AAT A
472814 CTTTTTGTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 5 0.09
3 43 0.81
4 5 0.09
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:475461 original size:17 final size:17
Alignment explanation
Indices: 475439--475475 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
475429 AAAATAGTCT
475439 CGTAAGAAATGAAGGGC
1 CGTAAGAAATGAAGGGC
475456 CGTAAGAAATGAAGGGC
1 CGTAAGAAATGAAGGGC
475473 CGT
1 CGT
475476 GGAGTTATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.35, T:0.14
Consensus pattern (17 bp):
CGTAAGAAATGAAGGGC
Found at i:479068 original size:13 final size:13
Alignment explanation
Indices: 479050--479074 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
479040 TGTTACTCTT
479050 GAGTATTAATGTG
1 GAGTATTAATGTG
479063 GAGTATTAATGT
1 GAGTATTAATGT
479075 ATCTTACGTA
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:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (13 bp):
GAGTATTAATGTG
Found at i:480118 original size:14 final size:15
Alignment explanation
Indices: 480093--480125 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
480083 ATTTCAATAT
*
480093 TTATATATATTTTTA
1 TTATATATATTTTAA
480108 TTATA-ATATTTTAA
1 TTATATATATTTTAA
480122 TTAT
1 TTAT
480126 TTTTGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATATATATTTTAA
Found at i:480659 original size:7 final size:7
Alignment explanation
Indices: 480627--480669 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
480617 AATTTAATAA
480627 TTTATAT
1 TTTATAT
*
480634 ATTTACAT
1 -TTTATAT
*
480642 TATAT-T
1 TTTATAT
480648 TTTATAT
1 TTTATAT
480655 TTTATAT
1 TTTATAT
480662 TTTATAT
1 TTTATAT
480669 T
1 T
480670 GTAATTGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATAT
Found at i:484522 original size:13 final size:13
Alignment explanation
Indices: 484504--484530 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
484494 GATGAACCTT
484504 GATGTTCTAATTG
1 GATGTTCTAATTG
484517 GATGTTCTAATTG
1 GATGTTCTAATTG
484530 G
1 G
484531 TTACCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.44
Consensus pattern (13 bp):
GATGTTCTAATTG
Found at i:485989 original size:8 final size:8
Alignment explanation
Indices: 485976--486036 Score: 72
Period size: 8 Copynumber: 7.9 Consensus size: 8
485966 TTCCAGCCTT
485976 TATATATG
1 TATATATG
485984 TATATA--
1 TATATATG
485990 TATATATG
1 TATATATG
485998 TATATATG
1 TATATATG
* * *
486006 TATGTGTA
1 TATATATG
486014 TATATATG
1 TATATATG
*
486022 TATGTATG
1 TATATATG
486030 TATATAT
1 TATATAT
486037 ATGTATGTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 6 0.14
8 37 0.86
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:485993 original size:4 final size:4
Alignment explanation
Indices: 485976--486038 Score: 54
Period size: 4 Copynumber: 15.8 Consensus size: 4
485966 TTCCAGCCTT
* * * * * *
485976 TATA TATG TATA TATA TATA TGTA TATA TGTA TGTG TATA TATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* *
486024 TGTA TGTA TATA TAT
1 TATA TATA TATA TAT
486039 GTATGTGTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:486015 original size:20 final size:20
Alignment explanation
Indices: 485976--486054 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
485966 TTCCAGCCTT
*
485976 TATATATGTATATATATATA
1 TATATATGTATGTATATATA
*
485996 TGTATATATGTATGTGTATATA
1 --TATATATGTATGTATATATA
*
486018 TATGTATGTATGTATATATA
1 TATATATGTATGTATATATA
* *
486038 TGTATGTGTATGTATAT
1 TATATATGTATGTATAT
486055 GCAACACTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 32 0.64
22 18 0.36
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (20 bp):
TATATATGTATGTATATATA
Found at i:486025 original size:28 final size:28
Alignment explanation
Indices: 485976--486052 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
485966 TTCCAGCCTT
*
485976 TATATATGTATATATATATATGTATATA
1 TATATATGTATATATATGTATGTATATA
* * *
486004 TGTATGTGTATATATATGTATGTATGTA
1 TATATATGTATATATATGTATGTATATA
* *
486032 TATATATGTATGTGTATGTAT
1 TATATATGTATATATATGTAT
486053 ATGCAACACT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.51
Consensus pattern (28 bp):
TATATATGTATATATATGTATGTATATA
Found at i:486044 original size:14 final size:14
Alignment explanation
Indices: 485976--486042 Score: 98
Period size: 14 Copynumber: 4.8 Consensus size: 14
485966 TTCCAGCCTT
485976 TATATATGTATATA
1 TATATATGTATATA
485990 TATATATGTATATA
1 TATATATGTATATA
* *
486004 TGTATGTGTATATA
1 TATATATGTATATA
* *
486018 TATGTATGTATGTA
1 TATATATGTATATA
486032 TATATATGTAT
1 TATATATGTAT
486043 GTGTATGTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 46 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (14 bp):
TATATATGTATATA
Found at i:486055 original size:16 final size:16
Alignment explanation
Indices: 485998--486055 Score: 89
Period size: 16 Copynumber: 3.5 Consensus size: 16
485988 TATATATATG
485998 TATATATGTATGTGTA
1 TATATATGTATGTGTA
486014 TATATATGTATGTATGTA
1 TATATATGTATG--TGTA
486032 TATATATGTATGTGTA
1 TATATATGTATGTGTA
*
486048 TGTATATG
1 TATATATG
486056 CAACACTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
16 23 0.59
18 16 0.41
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (16 bp):
TATATATGTATGTGTA
Found at i:486576 original size:24 final size:27
Alignment explanation
Indices: 486543--486598 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 27
486533 AATTTAGTTT
486543 ATATTATTATTT-AATTT-TT-TAAAA
1 ATATTATTATTTAAATTTATTATAAAA
*
486567 ATATTTTTATTTAAATTTAATTATAAAA
1 ATATTATTATTTAAATTT-ATTATAAAA
486595 ATAT
1 ATAT
486599 AAATGATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 11 0.41
25 5 0.19
27 2 0.07
28 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTATTATTTAAATTTATTATAAAA
Found at i:486971 original size:31 final size:31
Alignment explanation
Indices: 486927--486996 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
486917 AAATTTATTG
* *
486927 AAATATAAAAAATAATAAATTATATTTAAAAT
1 AAATAT-AAAAATAATAAATTATAGTAAAAAT
* * *
486959 AAATATAGAAATAATAATTTTTAGTAAAAAT
1 AAATATAAAAATAATAAATTATAGTAAAAAT
486990 AAATATA
1 AAATATA
486997 TATCTGACTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (31 bp):
AAATATAAAAATAATAAATTATAGTAAAAAT
Found at i:487580 original size:18 final size:19
Alignment explanation
Indices: 487545--487594 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
487535 AAATTACATG
487545 AAAATAATTTATACTTTTAA
1 AAAAT-ATTTATACTTTTAA
*
487565 AAAATATTTTTA-TTTTAA
1 AAAATATTTATACTTTTAA
*
487583 ATAATATTTATA
1 AAAATATTTATA
487595 ATATAAGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 16 0.59
19 6 0.22
20 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAATATTTATACTTTTAA
Found at i:488043 original size:19 final size:19
Alignment explanation
Indices: 487999--488043 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
487989 ATTAAATTCG
*
487999 ATTTAAATTAATATTTATT
1 ATTTAAAATAATATTTATT
** *
488018 AAATAAAATAATATTTTTT
1 ATTTAAAATAATATTTATT
488037 ATTTAAA
1 ATTTAAA
488044 TTTAATTATA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAAAATAATATTTATT
Found at i:488060 original size:22 final size:22
Alignment explanation
Indices: 488035--488112 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 22
488025 ATAATATTTT
488035 TTATTTAAATTTAATTATAAAA
1 TTATTTAAATTTAATTATAAAA
*
488057 TTATATAAATATTAA-TATAAAA
1 TTATTTAAAT-TTAATTATAAAA
* *
488079 ATATATT-AATAT-ATTATAAATAA
1 TTAT-TTAAATTTAATTAT-AA-AA
*
488102 TAATTTAAATT
1 TTATTTAAATT
488113 ATTAAATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
20 1 0.02
21 4 0.09
22 26 0.60
23 12 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATTTAAATTTAATTATAAAA
Found at i:488935 original size:16 final size:16
Alignment explanation
Indices: 488900--488964 Score: 78
Period size: 16 Copynumber: 4.0 Consensus size: 16
488890 AGTTTAAGGC
488900 ATTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
*
488916 ATTTTAAATTT-GATT
1 ATTTTAAATTTAAATT
*
488931 AATTTTAAGTTTAAATT
1 -ATTTTAAATTTAAATT
*
488948 ATTTTTATATTTAAATT
1 A-TTTTAAATTTAAATT
488965 GATCTATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 3 0.07
16 22 0.54
17 16 0.39
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
ATTTTAAATTTAAATT
Found at i:489552 original size:11 final size:11
Alignment explanation
Indices: 489553--489582 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
489543 ATACATTTTA
489553 TTAAATATATT
1 TTAAATATATT
*
489564 TTAAAAATATT
1 TTAAATATATT
489575 TTAAATAT
1 TTAAATAT
489583 TAATTCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTAAATATATT
Found at i:490233 original size:20 final size:20
Alignment explanation
Indices: 490208--490251 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
490198 AAGAATTGAA
*
490208 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
**
490228 GAGGGATACTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
490248 GAGG
1 GAGG
490252 AAGCCTCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.50, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:490394 original size:27 final size:27
Alignment explanation
Indices: 490330--490400 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
490320 AAACAAGCCT
* * *
490330 CCATATTTGACAAATACAAAGGAAATCA
1 CCATTTTTGACAAACACAAA-GAAACCA
490358 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
490385 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
490401 TATGGGTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:493342 original size:16 final size:16
Alignment explanation
Indices: 493321--493352 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
493311 AAGATCAGCC
493321 TAAGCTGCAACCACAG
1 TAAGCTGCAACCACAG
493337 TAAGCTGCAACCACAG
1 TAAGCTGCAACCACAG
493353 AGCATACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.19, T:0.12
Consensus pattern (16 bp):
TAAGCTGCAACCACAG
Found at i:493572 original size:20 final size:20
Alignment explanation
Indices: 493538--493583 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
493528 AAGAATTGAA
*
493538 GAGGGATACAAGAGAGCGAT
1 GAGGGATACAAGAGAGCGAG
** *
493558 GAGGGATACTGGAGAGGGAG
1 GAGGGATACAAGAGAGCGAG
493578 GAGGGA
1 GAGGGA
493584 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.50, T:0.09
Consensus pattern (20 bp):
GAGGGATACAAGAGAGCGAG
Found at i:493700 original size:28 final size:29
Alignment explanation
Indices: 493660--493730 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 29
493650 AAACAAGCTT
* *
493660 CCATATTTGACAAATACAAAGAA-AACCA
1 CCATTTTTGACAAATACAAAAAATAACCA
*
493688 CTATTTTTGAC-AA-ACAAAAAATAACCA
1 CCATTTTTGACAAATACAAAAAATAACCA
493715 CCATTTTTGACAAATA
1 CCATTTTTGACAAATA
493731 TATTAGTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.19
27 17 0.47
28 11 0.31
29 1 0.03
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.25
Consensus pattern (29 bp):
CCATTTTTGACAAATACAAAAAATAACCA
Found at i:495505 original size:23 final size:23
Alignment explanation
Indices: 495479--495522 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
495469 TATAATTATT
495479 TTTAAAAAAT-AATATTTAATAAA
1 TTTAAAAAATAAAT-TTTAATAAA
*
495502 TTTAAAAATTAAATTTTAATA
1 TTTAAAAAATAAATTTTAATA
495523 TTTATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAAAAAATAAATTTTAATAAA
Found at i:496048 original size:2 final size:2
Alignment explanation
Indices: 496041--496085 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
496031 AAAGTGCTCC
496041 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
496083 AT A
1 AT A
496086 ACTTTATGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:498617 original size:15 final size:15
Alignment explanation
Indices: 498597--498651 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
498587 AAAAATTATA
498597 ATTAATTTAAATTTG
1 ATTAATTTAAATTTG
* *
498612 AGTAATTTCAAATTTAA
1 ATTAATTT-AAATTT-G
*
498629 ATTATTTTAAATTTG
1 ATTAATTTAAATTTG
498644 ATTAATTT
1 ATTAATTT
498652 TAAGTTTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 14 0.44
16 12 0.38
17 6 0.19
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (15 bp):
ATTAATTTAAATTTG
Found at i:498652 original size:16 final size:16
Alignment explanation
Indices: 498597--498654 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
498587 AAAAATTATA
498597 ATTAA-TTTAAATTTG
1 ATTAATTTTAAATTTG
* * *
498612 AGTAATTTCAAATTTAA
1 ATTAATTTTAAATTT-G
498629 ATT-ATTTTAAATTTG
1 ATTAATTTTAAATTTG
498644 ATTAATTTTAA
1 ATTAATTTTAA
498655 GTTTAAATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 7 0.21
16 25 0.74
17 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (16 bp):
ATTAATTTTAAATTTG
Found at i:498667 original size:16 final size:16
Alignment explanation
Indices: 498589--498668 Score: 63
Period size: 16 Copynumber: 5.0 Consensus size: 16
498579 TTTTTTAAAA
*
498589 AAATTATAATTAA-TTT
1 AAATT-TAAATAATTTT
* * *
498605 AAATTTGAGTAATTTC
1 AAATTTAAATAATTTT
*
498621 AAATTTAAATTATTTT
1 AAATTTAAATAATTTT
* *
498637 AAATTTGATTAATTTT
1 AAATTTAAATAATTTT
* *
498653 AAGTTTAAATCATTTT
1 AAATTTAAATAATTTT
498669 TATATTTGAA
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
15 5 0.10
16 44 0.90
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (16 bp):
AAATTTAAATAATTTT
Found at i:498668 original size:32 final size:33
Alignment explanation
Indices: 498602--498677 Score: 100
Period size: 32 Copynumber: 2.3 Consensus size: 33
498592 TTATAATTAA
*
498602 TTTAAATTTGAGTAATTTCAAATTTAAATTA-T
1 TTTAAATTTGAGTAATTTCAAATTTAAATCATT
* * *
498634 TTTAAATTTGATTAATTTTAAGTTTAAATCATT
1 TTTAAATTTGAGTAATTTCAAATTTAAATCATT
*
498667 TTTATATTTGA
1 TTTAAATTTGA
498678 ATTGATCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
32 27 0.71
33 11 0.29
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.54
Consensus pattern (33 bp):
TTTAAATTTGAGTAATTTCAAATTTAAATCATT
Found at i:499256 original size:11 final size:12
Alignment explanation
Indices: 499242--499287 Score: 60
Period size: 14 Copynumber: 3.8 Consensus size: 12
499232 GATTTTTTTA
499242 TTTTAAATATATT
1 TTTTAAATATA-T
499255 TTATTAAATATAT
1 TT-TTAAATATAT
499268 TTTTAAA-ATA-
1 TTTTAAATATAT
499278 TTTTAAATAT
1 TTTTAAATAT
499288 TAATTCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 7 0.23
11 5 0.16
12 5 0.16
13 5 0.16
14 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTTTAAATATAT
Found at i:499446 original size:27 final size:27
Alignment explanation
Indices: 499405--499456 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
499395 AATTAAATCG
499405 ATTAAACTAAATTTAA-TCAATTTTTTA
1 ATTAAACTAAATTTAACT-AATTTTTTA
* *
499432 ATTAAATTAATTTTAACTAATTTTT
1 ATTAAACTAAATTTAACTAATTTTT
499457 CCTCCCCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTAAACTAAATTTAACTAATTTTTTA
Found at i:502038 original size:2 final size:2
Alignment explanation
Indices: 502031--502071 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
502021 AAAGTGCTCC
502031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
502072 ACTTTATGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:504368 original size:3 final size:3
Alignment explanation
Indices: 504362--504420 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
504352 ACCTAAAAAA
* *
504362 AAT AAT AAT AAT AAT AA- AAT AAA AAT -CT ACCAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT
504407 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
504421 ATCTGTAGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 3 0.06
3 43 0.90
5 2 0.04
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:505060 original size:43 final size:42
Alignment explanation
Indices: 504987--505067 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
504977 TGATTTTCGG
*
504987 TTAAATGAAATAATTTTTTAATTTTAAATTAAAATTTATATCA
1 TTAAATGAAATAATTTTTTAATTATAAATT-AAATTTATATCA
*
505030 TTAAATTAAAT-ATATTTTTAATTA-ATAATTAAATTTAT
1 TTAAATGAAATAAT-TTTTTAATTATA-AATTAAATTTAT
505068 TTAACATCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 11 0.32
43 23 0.68
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (42 bp):
TTAAATGAAATAATTTTTTAATTATAAATTAAATTTATATCA
Found at i:505517 original size:44 final size:44
Alignment explanation
Indices: 505468--505552 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
505458 GTATAAATTT
* * *
505468 AATTTTTTTATTTAAAT-TTAATTATAAATATTAATATAAAAATA
1 AATTTTTTAATTTAAATATT-ATTATAAATAATAAAATAAAAATA
* *
505512 AATTTTTTAATTTTAATATTATTTTAAATAATAAAATAAAA
1 AATTTTTTAATTTAAATATTATTATAAATAATAAAATAAAA
505553 TTTTAAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 33 0.94
45 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (44 bp):
AATTTTTTAATTTAAATATTATTATAAATAATAAAATAAAAATA
Found at i:505523 original size:33 final size:33
Alignment explanation
Indices: 505484--505546 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
505474 TTTATTTAAA
505484 TTTAATTATAAATATTAATATAAA-AATAAATTT
1 TTTAATT-TAAATATTAATATAAATAATAAATTT
* * *
505517 TTTAATTTTAATATTATTTTAAATAATAAA
1 TTTAATTTAAATATTAATATAAATAATAAA
505547 ATAAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
TTTAATTTAAATATTAATATAAATAATAAATTT
Done.