Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 71 of 85
Found at i:24511624 original size:211 final size:212
Alignment explanation
Indices: 24511266--24511670 Score: 638
Period size: 211 Copynumber: 1.9 Consensus size: 212
24511256 AGTACAACTT
*
24511266 AAAAAAAATTACTTTTTTTTCGTGTCAGAGTCAGATATAAATGTACGAAAAAAATAAATAAAAAA
1 AAAAAAAATTACTTTTTTTTCGTGTCAGAGTCAGATATAAATATACG---AAAATAAATAAAAAA
24511331 ATTTCGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATCTTTTTTTTCG
63 ATTTCGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATCTTTTTTTTCG
* *
24511396 TGTCAGAATCAGATATAAATATGCGAAAAAAATTAAAAAAAAATTTGGGTGCTGGCCTGTCAATG
128 TGTCAGAATCAGATATAAATATACGAAAAAAATT-AAAAAAAATTT-GGTGATGGCCTGTCAATG
24511461 GTCGGCACCTAGTACAAATTCA
191 GTCGGCACCTAGTACAAATTCA
*
24511483 AAAAAAAATT-TTTTTTTTTCGTGTCAGAGTCAGATATAAATATACG-AAA-AAATAAAAAAATT
1 AAAAAAAATTACTTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAATAAATAAAAAAATT
* * * *
24511545 TTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTACAAATT-AAAAAAATTCTTTTTTTTTCGTG
66 TCGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATC-TTTTTTTTCGTG
* *
24511609 TCAGAATCAGATATAAATATACGAAAAAAATTAAAAAAAATTTGTTGATGGCCTGTTAATGG
130 TCAGAATCAGATATAAATATACGAAAAAAATTAAAAAAAATTTGGTGATGGCCTGTCAATGG
24511671 CTGACACTCA
Statistics
Matches: 177, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
209 16 0.09
210 20 0.11
211 94 0.53
212 3 0.02
216 34 0.19
217 10 0.06
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (212 bp):
AAAAAAAATTACTTTTTTTTCGTGTCAGAGTCAGATATAAATATACGAAAATAAATAAAAAAATT
TCGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAAATTAAAAAAAAATCTTTTTTTTCGTGT
CAGAATCAGATATAAATATACGAAAAAAATTAAAAAAAATTTGGTGATGGCCTGTCAATGGTCGG
CACCTAGTACAAATTCA
Found at i:24512552 original size:105 final size:100
Alignment explanation
Indices: 24512226--24512631 Score: 264
Period size: 102 Copynumber: 4.0 Consensus size: 100
24512216 GCCAACTCCG
* *
24512226 AAATTTTTTTTAATTTTTTTCGTATATTTATATATGATTTTGACACAAAAAA-AAGAATTTTTTT
1 AAATTTTTTTT-ATTTTTTTCGTATATTTATATCTGATTCTGACA-AAAAAAGAA-AA-TTTTTT
** * *
24512290 TAATTTGTACTGGGTGCCGGCCATTGACAGGTCAGCACCCA
62 TAAACTGT--TGGGTGCCGACCATTGACAGGCCAGCACCCA
* * * **
24512331 AAA-TTTTTTTATTTTTTTCATATATTTATATCTGACTCTGACACGAAAAAA-AAAA---GTAAA
1 AAATTTTTTTTATTTTTTTCGTATATTTATATCTGATTCTGACA--AAAAAAGAAAATTTTTTTA
* *** *** * * * * **
24512391 AACTTTTTTTTAATTG--TATTGGCCGG-CA-CCCAAA
64 AACTGTTGGGT-GCCGACCATTGACAGGCCAGCACCCA
**
24512425 ATTTTTTTTATT-TTTTT--CGTATATTTATATCTGATTCTGACACGAAAAAA-AAGAATTTTTT
1 AAATTTTTT-TTATTTTTTTCGTATATTTATATCTGATTCTGACA--AAAAAAGAA-AATTTTTT
*
24512486 TAAACTGTACTGGGTGCCGACCATTGACAGGTCAGCACCCA
62 TAAACTGT--TGGGTGCCGACCATTGACAGGCCAGCACCCA
* * * *
24512527 AATTTTTTTATTATTTTTTTCGTATATTTATATCTTATTCTGACAAAAAAAGGAAACTTTTTTTT
1 AAATTTTTT-TTATTTTTTTCGTATATTTATATCTGATTCTGACAAAAAAA-GAAAATTTTTTTA
* *
24512592 TACTGTTGGGTGCCGGCCATTGACAGGCCAGCACCCA
64 AACTGTTGGGTGCCGACCATTGACAGGCCAGCACCCA
24512629 AAA
1 AAA
24512632 AATAATTTTT
Statistics
Matches: 231, Mismatches: 51, Indels: 41
0.72 0.16 0.13
Matches are distributed among these distances:
93 33 0.14
94 6 0.03
95 12 0.05
96 9 0.04
97 9 0.04
98 2 0.01
99 7 0.03
100 7 0.03
101 2 0.01
102 45 0.19
103 42 0.18
104 28 0.12
105 29 0.13
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (100 bp):
AAATTTTTTTTATTTTTTTCGTATATTTATATCTGATTCTGACAAAAAAAGAAAATTTTTTTAAA
CTGTTGGGTGCCGACCATTGACAGGCCAGCACCCA
Found at i:24516910 original size:42 final size:42
Alignment explanation
Indices: 24516864--24516960 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
24516854 ACGCTATTTT
* *
24516864 GAGCTTCTGTTTAACCCTTATGGGTTTTTG-TTATGCTCAT-AC
1 GAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTA-GCTC-TCAC
** * *
24516906 GAGCTTCCATTCAACCCTTATGTGTTTCTGTTTAGCTCTCAT
1 GAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCAC
24516948 GAGCTTCTGTTCA
1 GAGCTTCTGTTCA
24516961 GCCTTCGAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 41 0.91
43 3 0.07
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (42 bp):
GAGCTTCTGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCAC
Found at i:24526532 original size:6 final size:6
Alignment explanation
Indices: 24526523--24526571 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
24526513 AATTTTCCTA
*
24526523 TTATTT TTA--T TTATTT TTACTATT TTA-TT TTATTT TCATTT TTATTT
1 TTATTT TTATTT TTATTT TTA-T-TT TTATTT TTATTT TTATTT TTATTT
24526570 TT
1 TT
24526572 GCAGGAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
4 4 0.11
5 5 0.14
6 21 0.58
7 1 0.03
8 5 0.14
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:24526534 original size:23 final size:24
Alignment explanation
Indices: 24526508--24526564 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 24
24526498 GAAAAAAAAC
*
24526508 ATTTTAATTTTCCTATTAT-TTTT
1 ATTTTAATTTTACTATTATATTTT
* *
24526531 A-TTTATTTTTACTATTTTATTTT
1 ATTTTAATTTTACTATTATATTTT
*
24526554 ATTTTCATTTT
1 ATTTTAATTTT
24526565 TATTTTTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 14 0.52
23 6 0.22
24 7 0.26
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (24 bp):
ATTTTAATTTTACTATTATATTTT
Found at i:24527024 original size:7 final size:8
Alignment explanation
Indices: 24527005--24527042 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
24526995 CTTTTCAACA
*
24527005 AAAAAAAC
1 AAAAAAAT
24527013 AAAAAAAT
1 AAAAAAAT
24527021 AAAAAAAAT
1 -AAAAAAAT
24527030 AAAAAAAT
1 AAAAAAAT
24527038 AAAAA
1 AAAAA
24527043 TACTCCTCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.08
Consensus pattern (8 bp):
AAAAAAAT
Found at i:24527026 original size:17 final size:17
Alignment explanation
Indices: 24527004--24527042 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
24526994 TCTTTTCAAC
24527004 AAAAAAAACAAAAAAAT
1 AAAAAAAACAAAAAAAT
*
24527021 AAAAAAAATAAAAAAAT
1 AAAAAAAACAAAAAAAT
24527038 AAAAA
1 AAAAA
24527043 TACTCCTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAT
Found at i:24528696 original size:23 final size:23
Alignment explanation
Indices: 24528666--24528709 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
24528656 CCATAACTAA
24528666 TTGGTGTCCGAGGCGTCCTTGAG
1 TTGGTGTCCGAGGCGTCCTTGAG
24528689 TTGGTGTCCGAGGCGTCCTTG
1 TTGGTGTCCGAGGCGTCCTTG
24528710 GTAGCTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.07, C:0.23, G:0.39, T:0.32
Consensus pattern (23 bp):
TTGGTGTCCGAGGCGTCCTTGAG
Found at i:24535117 original size:31 final size:31
Alignment explanation
Indices: 24535060--24535126 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
24535050 ACAATATATC
*
24535060 ATTTGGTACTTGAGATTGATTTCAATGCTCA
1 ATTTGGTACTTGAGATTGATTCCAATGCTCA
* * *
24535091 ATTTGGTACTTGAG-TTTAGTTCCAATGTTTA
1 ATTTGGTACTTGAGATTGA-TTCCAATGCTCA
24535122 ATTTG
1 ATTTG
24535127 ATATTCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.46
Consensus pattern (31 bp):
ATTTGGTACTTGAGATTGATTCCAATGCTCA
Found at i:24535406 original size:31 final size:31
Alignment explanation
Indices: 24535365--24535427 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
24535355 TATAAAATGA
24535365 TCATTAAATTATTTAAAAGTTTTCATTTAAG
1 TCATTAAATTATTTAAAAGTTTTCATTTAAG
* * *
24535396 TCATTGAATTATTTGAAAGTTTTTATTTAAG
1 TCATTAAATTATTTAAAAGTTTTCATTTAAG
24535427 T
1 T
24535428 TACTAGGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.51
Consensus pattern (31 bp):
TCATTAAATTATTTAAAAGTTTTCATTTAAG
Found at i:24539360 original size:22 final size:22
Alignment explanation
Indices: 24539313--24539369 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
24539303 TTGAAATCTG
24539313 AAAAATAAAGAA-ATTAAATTAA
1 AAAAATAAA-AAGATTAAATTAA
* **
24539335 AAAAATATAAAGATTAAATTTT
1 AAAAATAAAAAGATTAAATTAA
*
24539357 AAAATTAAAAAGA
1 AAAAATAAAAAGA
24539370 ATATCAAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAATAAAAAGATTAAATTAA
Found at i:24545072 original size:17 final size:17
Alignment explanation
Indices: 24545052--24545084 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24545042 AAATTTTTTA
*
24545052 TAAATTTTTAAAGGGCC
1 TAAATTTTAAAAGGGCC
24545069 TAAATTTTAAAAGGGC
1 TAAATTTTAAAAGGGC
24545085 AACATGTCAT
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:0.09, G:0.18, T:0.33
Consensus pattern (17 bp):
TAAATTTTAAAAGGGCC
Found at i:24550348 original size:22 final size:22
Alignment explanation
Indices: 24550289--24550359 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
24550279 TTGCCATATT
*
24550289 TATACACATGCAT-TTTTCATA
1 TATACATATGCATATTTTCATA
*
24550310 TAGTACATACGCATATTTTCCATA
1 TA-TACATATGCATATTTT-CATA
*
24550334 TATA-ATATGCATATTTTTAATA
1 TATACATATGCATA-TTTTCATA
24550356 TATA
1 TATA
24550360 TATACAGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.05
22 24 0.57
23 10 0.24
24 6 0.14
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.44
Consensus pattern (22 bp):
TATACATATGCATATTTTCATA
Found at i:24559775 original size:30 final size:30
Alignment explanation
Indices: 24559734--24559794 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
24559724 CAACAGATTG
*
24559734 AATCGTTAGTATTATTAGATTATTTTATAA
1 AATCGTCAGTATTATTAGATTATTTTATAA
24559764 AATCGTCAGTATTATTAGATTATTTTATAA
1 AATCGTCAGTATTATTAGATTATTTTATAA
24559794 A
1 A
24559795 GTATTATTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (30 bp):
AATCGTCAGTATTATTAGATTATTTTATAA
Found at i:24571347 original size:8 final size:9
Alignment explanation
Indices: 24571329--24571470 Score: 70
Period size: 9 Copynumber: 14.4 Consensus size: 9
24571319 AAAATATTTT
24571329 AAAATTAAA
1 AAAATTAAA
24571338 AAAATTAAA
1 AAAATTAAA
24571347 AAAGTATTTTAAA
1 AAA--A--TTAAA
*
24571360 AAAATTTAA
1 AAAATTAAA
*
24571369 AAATTTAAA
1 AAAATTAAA
*
24571378 AAATTTAAAA
1 AAAATT-AAA
24571388 AAAGTATTTTAAA
1 AAA--A--TTAAA
** **
24571401 AGTATT-TT
1 AAAATTAAA
24571409 AAAATTAAA
1 AAAATTAAA
24571418 AAAATTAAA
1 AAAATTAAA
24571427 AAAGTATTTTAAA
1 AAA--A--TTAAA
*
24571440 AAAATTTAA
1 AAAATTAAA
*
24571449 AAATTTAAA
1 AAAATTAAA
*
24571458 AAATTTAAA
1 AAAATTAAA
24571467 AAAA
1 AAAA
24571471 GTATTTTAAA
Statistics
Matches: 103, Mismatches: 16, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
8 4 0.04
9 66 0.64
10 6 0.06
11 5 0.05
13 20 0.19
14 2 0.02
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAATTAAA
Found at i:24571355 original size:39 final size:39
Alignment explanation
Indices: 24571280--24571507 Score: 296
Period size: 39 Copynumber: 5.7 Consensus size: 39
24571270 ACCAAAAATT
*
24571280 TATTTTAAAAATTAAAACAAAAATTAAAAAAATATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATTAAAAAAGTATTTTAAAAA
24571323 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
* * * *
24571362 AATTTAAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAA-TTAAAAAAATT-AAAAAAGTATTTTAAAAA
24571403 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
* * * *
24571442 AATTTAAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAA-TTAAAAAAATT-AAAAAAGTATTTTAAAAA
24571483 TATTTTAAAATTAAAAAAA-TAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAA
24571508 TATTTATTAT
Statistics
Matches: 165, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 5 0.03
39 58 0.35
40 40 0.24
41 50 0.30
42 6 0.04
43 6 0.04
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAAATTAAAAAAGTATTTTAAAAA
Found at i:24571378 original size:7 final size:8
Alignment explanation
Indices: 24571359--24571388 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
24571349 AGTATTTTAA
24571359 AAAAATTT
1 AAAAATTT
24571367 AAAAATTT
1 AAAAATTT
24571375 AAAAAATTT
1 -AAAAATTT
24571384 AAAAA
1 AAAAA
24571389 AAGTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAAATTT
Found at i:24571400 original size:80 final size:80
Alignment explanation
Indices: 24571283--24571507 Score: 391
Period size: 80 Copynumber: 2.8 Consensus size: 80
24571273 AAAAATTTAT
* * *
24571283 TTTAAAAATTAAAACAAAAATTAAAAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
1 TTTAAAAATT-TAA-AAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAATTAAA
24571347 AAAGTATTTTAAAAAAA
64 AAAGTATTTTAAAAAAA
24571364 TTTAAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAATTAAAAA
1 TTTAAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAATTAAAAA
24571429 AGTATTTTAAAAAAA
66 AGTATTTTAAAAAAA
24571444 TTTAAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAA-TAAAAA
1 TTTAAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAATTAAAAA
24571508 TATTTATTAT
Statistics
Matches: 140, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
79 19 0.14
80 111 0.79
81 10 0.07
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (80 bp):
TTTAAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAATTAAAAA
AGTATTTTAAAAAAA
Found at i:24571458 original size:7 final size:8
Alignment explanation
Indices: 24571439--24571468 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
24571429 AGTATTTTAA
24571439 AAAAATTT
1 AAAAATTT
24571447 AAAAATTT
1 AAAAATTT
24571455 AAAAAATTT
1 -AAAAATTT
24571464 AAAAA
1 AAAAA
24571469 AAGTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAAATTT
Found at i:24578994 original size:23 final size:25
Alignment explanation
Indices: 24578954--24578999 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
24578944 CAATTCTTAA
*
24578954 AAAAACTGTAAAATAATCGTTAACT
1 AAAAACTGTAAAATAATCATTAACT
*
24578979 AAAAATTGT-AAA-AATCATTAA
1 AAAAACTGTAAAATAATCATTAA
24579000 AAAATTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 3 0.16
25 8 0.42
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.28
Consensus pattern (25 bp):
AAAAACTGTAAAATAATCATTAACT
Found at i:24582969 original size:27 final size:27
Alignment explanation
Indices: 24582939--24583013 Score: 141
Period size: 27 Copynumber: 2.8 Consensus size: 27
24582929 GGTGAACATT
24582939 TTGAACATTTGGCCCATGTGAGGAATG
1 TTGAACATTTGGCCCATGTGAGGAATG
24582966 TTGAACATTTGGCCCATGTGAGGAATG
1 TTGAACATTTGGCCCATGTGAGGAATG
*
24582993 TTGAACATTCGGCCCATGTGA
1 TTGAACATTTGGCCCATGTGA
24583014 TGCACATTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (27 bp):
TTGAACATTTGGCCCATGTGAGGAATG
Found at i:24583223 original size:18 final size:18
Alignment explanation
Indices: 24583200--24583246 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
24583190 CAGCACACAC
*
24583200 ATTTTGACCATCATATCT
1 ATTTTGACCATCATAACT
*
24583218 ATTTTGACCAGCATAACT
1 ATTTTGACCATCATAACT
**
24583236 CCTTTGACCAT
1 ATTTTGACCAT
24583247 AAACAATTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.38
Consensus pattern (18 bp):
ATTTTGACCATCATAACT
Found at i:24587488 original size:42 final size:42
Alignment explanation
Indices: 24587432--24587533 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
24587422 CAGGTTATAT
* * *
24587432 TTCGGTTTAGCCAATGATGCACTTGCGTACCAGTATAATTT-C
1 TTCGGTATATCCAATGATGCACTTACGTACCAGTAT-ATTTAC
* * *
24587474 TTCGGTATATCCAATGATGCACTTACGTTCTAGTATATTTAT
1 TTCGGTATATCCAATGATGCACTTACGTACCAGTATATTTAC
* *
24587516 TTCGGTACATCCGATGAT
1 TTCGGTATATCCAATGAT
24587534 TGCTTCGATA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 4 0.08
42 47 0.92
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (42 bp):
TTCGGTATATCCAATGATGCACTTACGTACCAGTATATTTAC
Found at i:24593733 original size:88 final size:89
Alignment explanation
Indices: 24593640--24593838 Score: 221
Period size: 85 Copynumber: 2.3 Consensus size: 89
24593630 GCTGGTTTTT
* ** ***
24593640 TTTTTTTTTTGTGCACTCAATTGGATACTTGATTTTTTAAAATGCATCAAAAAAGCCCTCAAACT
1 TTTTTTTTTTGTGCACTCAATTGGACACTTGAACTGCCAAAATGCATCAAAAAAGCCCTCAAACT
*
24593705 TTTT-TAAAGCAATTAAG-CCA--
66 TTTTAAAAAGCAATTAAGCCCAGG
* * * *
24593725 TTTGTTTTTTT-TGCACTCAGTTGGGCACTTGAACTGCCAAAATGTATCAAAAAGGCCCTCAAAC
1 TTT-TTTTTTTGTGCACTCAATTGGACACTTGAACTGCCAAAATGCATCAAAAAAGCCCTCAAAC
24593789 TTTTTCGAAAAAGCAATTAAGCCCCAGG
65 TTTTT--AAAAAGCAATTAAG-CCCAGG
24593817 TTTTTTTTTTG-GCACTCAATTG
1 TTTTTTTTTTGTGCACTCAATTG
24593839 CCAAAATTCA
Statistics
Matches: 93, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
85 51 0.55
86 7 0.08
88 12 0.13
90 3 0.03
91 17 0.18
92 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (89 bp):
TTTTTTTTTTGTGCACTCAATTGGACACTTGAACTGCCAAAATGCATCAAAAAAGCCCTCAAACT
TTTTAAAAAGCAATTAAGCCCAGG
Found at i:24594008 original size:9 final size:9
Alignment explanation
Indices: 24593996--24594020 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24593986 TAAAAATTAA
24593996 TAAATTTAT
1 TAAATTTAT
24594005 TAAATTTAT
1 TAAATTTAT
24594014 TAAATTT
1 TAAATTT
24594021 TAATTAAAAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAAATTTAT
Found at i:24594056 original size:19 final size:19
Alignment explanation
Indices: 24594034--24594078 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
24594024 TTAAAAATAT
* *
24594034 TAAAAATACTTAATTTTTA
1 TAAAAATACTAAAATTTTA
**
24594053 TAAAAATTGTAAAATTTTA
1 TAAAAATACTAAAATTTTA
24594072 TAAAAAT
1 TAAAAAT
24594079 CGTAAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
TAAAAATACTAAAATTTTA
Found at i:24594083 original size:19 final size:19
Alignment explanation
Indices: 24594048--24594095 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
24594038 AATACTTAAT
*
24594048 TTTTATAAAAATTGTAAAA
1 TTTTATAAAAATCGTAAAA
24594067 TTTTATAAAAATCGTAAAA
1 TTTTATAAAAATCGTAAAA
**
24594086 AATTATAAAA
1 TTTTATAAAA
24594096 TATAGAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TTTTATAAAAATCGTAAAA
Found at i:24594167 original size:20 final size:22
Alignment explanation
Indices: 24594133--24594192 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
24594123 TTTTATAAAG
24594133 TCGTAAGAA-AATTATAAAAAAA
1 TCGTAA-AAGAATTATAAAAAAA
*
24594155 T-GT-AAAGAATTAT-AAAAAT
1 TCGTAAAAGAATTATAAAAAAA
24594174 TCGTAAAAGAATTATAAAA
1 TCGTAAAAGAATTATAAAA
24594193 CTTATCATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 8 0.24
20 9 0.27
21 12 0.36
22 4 0.12
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.27
Consensus pattern (22 bp):
TCGTAAAAGAATTATAAAAAAA
Found at i:24598788 original size:26 final size:28
Alignment explanation
Indices: 24598741--24598798 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 28
24598731 ACCGTTCTGC
* * * *
24598741 TTTTCTTATTTTATTGCGTAAA-TATT-
1 TTTTCCTATTTTAATACCTAAACTATTG
24598767 TTTTCCTATTTTAATACCTAAACTATTG
1 TTTTCCTATTTTAATACCTAAACTATTG
24598795 TTTT
1 TTTT
24598799 GTTATAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 18 0.69
27 4 0.15
28 4 0.15
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTTCCTATTTTAATACCTAAACTATTG
Found at i:24606152 original size:298 final size:298
Alignment explanation
Indices: 24605616--24606211 Score: 1183
Period size: 298 Copynumber: 2.0 Consensus size: 298
24605606 AACGCTGATG
24605616 ATTGGGCCACTCGAGGTGGTCTTGTTAAGACAGATTGGAGCCAAGCTCCTTTCACTGCTGCTTAC
1 ATTGGGCCACTCGAGGTGGTCTTGTTAAGACAGATTGGAGCCAAGCTCCTTTCACTGCTGCTTAC
*
24605681 AGGAATTACAAGGCTGATGCATGTGTGTGGTCTTCCGGGAAATCATCATGTTCCTCCACCTTACC
66 AGGAATTACAAGGCTGATGCATGTGTGTGGTCTTCCGGGAAATCATCATGTTCCTCCACCTCACC
24605746 CTCTCAAAATGCATGGCTATCGCAAGAACTGGATATAACGAGCCAAGAAAGGCTGAAATGGGTTC
131 CTCTCAAAATGCATGGCTATCGCAAGAACTGGATATAACGAGCCAAGAAAGGCTGAAATGGGTTC
24605811 AGAAAAATTACATGATTTACAATTACTGCACTGACACCAAGCGATTCCCTCAGGGACTTCCTAAA
196 AGAAAAATTACATGATTTACAATTACTGCACTGACACCAAGCGATTCCCTCAGGGACTTCCTAAA
24605876 GAATGCACTGCTCCTTAACAGGGATTTTAATTTAATTT
261 GAATGCACTGCTCCTTAACAGGGATTTTAATTTAATTT
24605914 ATTGGGCCACTCGAGGTGGTCTTGTTAAGACAGATTGGAGCCAAGCTCCTTTCACTGCTGCTTAC
1 ATTGGGCCACTCGAGGTGGTCTTGTTAAGACAGATTGGAGCCAAGCTCCTTTCACTGCTGCTTAC
24605979 AGGAATTACAAGGCTGATGCATGTGTGTGGTCTTCCGGGAAATCATCATGTTCCTCCACCTCACC
66 AGGAATTACAAGGCTGATGCATGTGTGTGGTCTTCCGGGAAATCATCATGTTCCTCCACCTCACC
24606044 CTCTCAAAATGCATGGCTATCGCAAGAACTGGATATAACGAGCCAAGAAAGGCTGAAATGGGTTC
131 CTCTCAAAATGCATGGCTATCGCAAGAACTGGATATAACGAGCCAAGAAAGGCTGAAATGGGTTC
24606109 AGAAAAATTACATGATTTACAATTACTGCACTGACACCAAGCGATTCCCTCAGGGACTTCCTAAA
196 AGAAAAATTACATGATTTACAATTACTGCACTGACACCAAGCGATTCCCTCAGGGACTTCCTAAA
24606174 GAATGCACTGCTCCTTAACAGGGATTTTAATTTAATTT
261 GAATGCACTGCTCCTTAACAGGGATTTTAATTTAATTT
24606212 CTTCCTGGTT
Statistics
Matches: 297, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
298 297 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (298 bp):
ATTGGGCCACTCGAGGTGGTCTTGTTAAGACAGATTGGAGCCAAGCTCCTTTCACTGCTGCTTAC
AGGAATTACAAGGCTGATGCATGTGTGTGGTCTTCCGGGAAATCATCATGTTCCTCCACCTCACC
CTCTCAAAATGCATGGCTATCGCAAGAACTGGATATAACGAGCCAAGAAAGGCTGAAATGGGTTC
AGAAAAATTACATGATTTACAATTACTGCACTGACACCAAGCGATTCCCTCAGGGACTTCCTAAA
GAATGCACTGCTCCTTAACAGGGATTTTAATTTAATTT
Found at i:24606334 original size:10 final size:11
Alignment explanation
Indices: 24606311--24606335 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24606301 TTATTAATTA
24606311 TTTAATATTTT
1 TTTAATATTTT
24606322 TTTAATATTTT
1 TTTAATATTTT
24606333 TTT
1 TTT
24606336 GACACATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTAATATTTT
Found at i:24607857 original size:89 final size:89
Alignment explanation
Indices: 24607694--24607890 Score: 265
Period size: 89 Copynumber: 2.2 Consensus size: 89
24607684 TTAAGGATAC
* * *
24607694 AAAAAAAACCCTCAAA-CTTCTTAAAAAAAGCAATTAAGCCTTACTTTTTTTTTTTTGCACTTAT
1 AAAAAAGACCCTCAAACCTTCTTAAAAAAAGCAATTAAGCCCTAC---TTTTTTTTTGCACTTAA
*
24607758 TTGGGTACTTGAACTTTCAAAATGCAT
63 TTGGGTACTTGAAATTTCAAAATGCAT
** *
24607785 AGCAAATACCCTCAAACCTT-TTCAAAAAAAGCAATTAAGCCCCTAC-TTTTTTTTGCACTTAAT
1 AAAAAAGACCCTCAAACCTTCTT-AAAAAAAGCAATTAAG-CCCTACTTTTTTTTTGCACTTAAT
24607848 TGGGTACTTGAAATTTCAAAATGCAT
64 TGGGTACTTGAAATTTCAAAATGCAT
24607874 AAAAAAGACCCTCAAAC
1 AAAAAAGACCCTCAAAC
24607891 TTAAAAAAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
89 55 0.59
91 15 0.16
92 19 0.20
93 5 0.05
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.32
Consensus pattern (89 bp):
AAAAAAGACCCTCAAACCTTCTTAAAAAAAGCAATTAAGCCCTACTTTTTTTTTGCACTTAATTG
GGTACTTGAAATTTCAAAATGCAT
Found at i:24607989 original size:19 final size:19
Alignment explanation
Indices: 24607949--24608027 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
24607939 GAAAAAAATT
* *
24607949 AAATAT-TAAAAATTAGAAA
1 AAATATATAAAAATT-TATA
24607968 AAATATATAAAAATTTATA
1 AAATATATAAAAATTTATA
*
24607987 AAATTTATAAAACA--TATA
1 AAATATATAAAA-ATTTATA
*
24608005 GAAATATA-AAAAAATTATA
1 -AAATATATAAAAATTTATA
24608024 AAAT
1 AAAT
24608028 TTTATAAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.02
18 12 0.24
19 29 0.57
20 9 0.18
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATATATAAAAATTTATA
Found at i:24608009 original size:28 final size:28
Alignment explanation
Indices: 24607967--24608026 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
24607957 AAAATTAGAA
* * * *
24607967 AAAATATATAAAAATTTATAAAATTTAT
1 AAAACATATAAAAATATAAAAAAATTAT
*
24607995 AAAACATATAGAAATATAAAAAAATTAT
1 AAAACATATAAAAATATAAAAAAATTAT
24608023 AAAA
1 AAAA
24608027 TTTTATAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAACATATAAAAATATAAAAAAATTAT
Found at i:24608110 original size:46 final size:45
Alignment explanation
Indices: 24608054--24608140 Score: 147
Period size: 46 Copynumber: 1.9 Consensus size: 45
24608044 AAAATTATAT
24608054 AAAATATAAAGAAATACAAATTTCGTAAAAAAAATTTATAAATAAA
1 AAAATATAAAGAAATACAAATTTCGTAAAAAAAA-TTATAAATAAA
* *
24608100 AAAATGTAAAGAAATATAAATTTCGTAAAAAAAATTATAAA
1 AAAATATAAAGAAATACAAATTTCGTAAAAAAAATTATAAA
24608141 AATTATCGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 7 0.18
46 32 0.82
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.26
Consensus pattern (45 bp):
AAAATATAAAGAAATACAAATTTCGTAAAAAAAATTATAAATAAA
Found at i:24608352 original size:20 final size:21
Alignment explanation
Indices: 24608316--24608360 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
24608306 TTAAAGGGAC
*
24608316 TTTTTGATGCATTTTATAAAG
1 TTTTTGATGCATTTTATAAAA
24608337 TTTTT-ATG-ATTATTATAAAA
1 TTTTTGATGCATT-TTATAAAA
24608357 TTTT
1 TTTT
24608361 AAAAGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (21 bp):
TTTTTGATGCATTTTATAAAA
Found at i:24617494 original size:121 final size:121
Alignment explanation
Indices: 24617280--24617517 Score: 377
Period size: 121 Copynumber: 2.0 Consensus size: 121
24617270 CAAGTTTAAT
** *
24617280 GAACTAATTAAAGATGCATCACTTAGATCAATCATCAATAATGACATCTTAGCATTGCTATTGCC
1 GAACTAACCAAAGATGCATCACCTAGATCAATCATCAATAATGACATCTTAGCATTGCTATTGCC
* *
24617345 AAATTATTTTAACGACAAATTCCGATCAACCAATTGGACACTACCAAAGACCCAAA
66 AAATTATTTTAACGACAAATTACAATCAACCAATTGGACACTACCAAAGACCCAAA
* * *
24617401 GAACTAACCAAAGATGCATCACCTAGATCAATCATCAATACTGGCATCTTAGCATTGCTATTGTC
1 GAACTAACCAAAGATGCATCACCTAGATCAATCATCAATAATGACATCTTAGCATTGCTATTGCC
* * *
24617466 AGATTATTTTGACGTCAAATTACAATCAACCAATTGGACACTACCAAAGACC
66 AAATTATTTTAACGACAAATTACAATCAACCAATTGGACACTACCAAAGACC
24617518 GACAAAGGAC
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
121 106 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (121 bp):
GAACTAACCAAAGATGCATCACCTAGATCAATCATCAATAATGACATCTTAGCATTGCTATTGCC
AAATTATTTTAACGACAAATTACAATCAACCAATTGGACACTACCAAAGACCCAAA
Found at i:24618893 original size:26 final size:25
Alignment explanation
Indices: 24618849--24618901 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
24618839 TTAAAGTGAC
*
24618849 TATATAAAAAAATTTAATAAATAAAA
1 TATATAAAAAAATTAAAT-AATAAAA
** *
24618875 TATATAAAATTATTAAATATTAAAA
1 TATATAAAAAAATTAAATAATAAAA
24618900 TA
1 TA
24618902 ATATGGGCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
TATATAAAAAAATTAAATAATAAAA
Found at i:24632459 original size:37 final size:36
Alignment explanation
Indices: 24632417--24632493 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 36
24632407 AATCGTACAT
*
24632417 ATTTCA-TATGTTATTATTA-ATTAGTTTCAAACTATAC
1 ATTTCATTAT-TTATT-TTATATTAGTTTCAAAC-ACAC
* *
24632454 ATTTCATTATTTATTTTATATTATTTTTAAACACAC
1 ATTTCATTATTTATTTTATATTAGTTTCAAACACAC
24632490 ATTT
1 ATTT
24632494 GTATTCTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
36 10 0.29
37 22 0.63
38 3 0.09
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (36 bp):
ATTTCATTATTTATTTTATATTAGTTTCAAACACAC
Found at i:24632763 original size:15 final size:16
Alignment explanation
Indices: 24632743--24632784 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
24632733 TACCATTTAA
24632743 TTTTTATATAATAT-T
1 TTTTTATATAATATAT
24632758 TTTTTATA-AATATAT
1 TTTTTATATAATATAT
* *
24632773 TTATTACATAAT
1 TTTTTATATAAT
24632785 TTCTTTCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 15 0.65
16 3 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTATATAATATAT
Found at i:24633215 original size:15 final size:16
Alignment explanation
Indices: 24633195--24633236 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
24633185 TACCATTTAA
24633195 TTTTTATATAATAT-T
1 TTTTTATATAATATAT
24633210 TTTTTATA-AATATAT
1 TTTTTATATAATATAT
* *
24633225 TTATTACATAAT
1 TTTTTATATAAT
24633237 TTCTTTCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 15 0.65
16 3 0.13
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTTTATATAATATAT
Found at i:24633500 original size:452 final size:453
Alignment explanation
Indices: 24632648--24633553 Score: 1805
Period size: 452 Copynumber: 2.0 Consensus size: 453
24632638 TAACAAATAT
24632648 ATAGTAATTTTTTATTTTTTATATTTTTATATAAAATTCAAAAAAACATACAAATTCTATTTAAA
1 ATAGTAATTTTTTATTTTTTATATTTTTATATAAAATTCAAAAAAACATACAAATTCTATTTAAA
24632713 CCCAACACCCATTTTAACATTACCATTTAATTTTTATATAATATTTTTTTATAAATATATTTATT
66 CCCAACACCCATTTTAACATTACCATTTAATTTTTATATAATATTTTTTTATAAATATATTTATT
24632778 ACATAATTTCTTTCACCACCTTTGTATTGTAGGTGAGCCATGATCTATTACATAACAGTATTTTT
131 ACATAATTTCTTTCACCACCTTTGTATTGTAGGTGAGCCATGATCTATTACATAACAGTATTTTT
24632843 CACTTTTTATCTCCCCCACGATAAAAAGAAGTACGTAGCAAATCAACGGCTGTCATAATAGGTGA
196 CACTTTTTATCTCCCCCACGATAAAAAGAAGTACGTAGCAAATCAACGGCTGTCATAATAGGTGA
24632908 GATCATCAATGGTGACGAGGATCAGGACCACCTGGACTTCGTCTCTTCGACTCCAAAGGGTTCCC
261 GATCATCAATGGTGACGAGGATCAGGACCACCTGGACTTCGTCTCTTCGACTCCAAAGGGTTCCC
24632973 AGCGGTTCCCAGCGTTCCTTTTCAAGCTAGCTTGAATGGCTTTCCTGCCTTCCTCTATCAATGCA
326 AGCGGTTCCCAGCGTTCCTTTTCAAGCTAGCTTGAATGGCTTTCCTGCCTTCCTCTATCAATGCA
24633038 CATTTGTTAGTGCCTCCAAATATCTCCGATTTACCATTTGTCTCCCTTACTTCTTGTTTATCA
391 CATTTGTTAGTGCCTCCAAATATCTCCGATTTACCATTTGTCTCCCTTACTTCTTGTTTATCA
24633101 ATAGTAA-TTTTTATTTTTTATATTTTTATATAAAATTCAAAAAAACATACAAATTCTATTTAAA
1 ATAGTAATTTTTTATTTTTTATATTTTTATATAAAATTCAAAAAAACATACAAATTCTATTTAAA
24633165 CCCAACACCCATTTTAACATTACCATTTAATTTTTATATAATATTTTTTTATAAATATATTTATT
66 CCCAACACCCATTTTAACATTACCATTTAATTTTTATATAATATTTTTTTATAAATATATTTATT
24633230 ACATAATTTCTTTCACCACCTTTGTATTGTAGGTGAGCCATGATCTATTACATAACAGTATTTTT
131 ACATAATTTCTTTCACCACCTTTGTATTGTAGGTGAGCCATGATCTATTACATAACAGTATTTTT
24633295 CACTTTTTATCTCCCCCACGATAAAAAGAAGTACGTAGCAAATCAACGGCTGTCATAATAGGTGA
196 CACTTTTTATCTCCCCCACGATAAAAAGAAGTACGTAGCAAATCAACGGCTGTCATAATAGGTGA
24633360 GATCATCAATGGTGACGAGGATCAGGACCACCTGGACTTCGTCTCTTCGACTCCAAAGGGTTCCC
261 GATCATCAATGGTGACGAGGATCAGGACCACCTGGACTTCGTCTCTTCGACTCCAAAGGGTTCCC
24633425 AGCGGTTCCCAGCGTTCCTTTTCAAGCTAGCTTGAATGGCTTTCCTGCCTTCCTCTATCAATGCA
326 AGCGGTTCCCAGCGTTCCTTTTCAAGCTAGCTTGAATGGCTTTCCTGCCTTCCTCTATCAATGCA
24633490 CATTTGTTAGTGCCTCCAAATATCTCCGATTTACCATTTGTCTCCCTTACTTCTTGTTTATCA
391 CATTTGTTAGTGCCTCCAAATATCTCCGATTTACCATTTGTCTCCCTTACTTCTTGTTTATCA
24633553 A
1 A
24633554 CCGGTTTTAT
Statistics
Matches: 453, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
452 446 0.98
453 7 0.02
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (453 bp):
ATAGTAATTTTTTATTTTTTATATTTTTATATAAAATTCAAAAAAACATACAAATTCTATTTAAA
CCCAACACCCATTTTAACATTACCATTTAATTTTTATATAATATTTTTTTATAAATATATTTATT
ACATAATTTCTTTCACCACCTTTGTATTGTAGGTGAGCCATGATCTATTACATAACAGTATTTTT
CACTTTTTATCTCCCCCACGATAAAAAGAAGTACGTAGCAAATCAACGGCTGTCATAATAGGTGA
GATCATCAATGGTGACGAGGATCAGGACCACCTGGACTTCGTCTCTTCGACTCCAAAGGGTTCCC
AGCGGTTCCCAGCGTTCCTTTTCAAGCTAGCTTGAATGGCTTTCCTGCCTTCCTCTATCAATGCA
CATTTGTTAGTGCCTCCAAATATCTCCGATTTACCATTTGTCTCCCTTACTTCTTGTTTATCA
Found at i:24654297 original size:182 final size:182
Alignment explanation
Indices: 24653990--24654355 Score: 723
Period size: 182 Copynumber: 2.0 Consensus size: 182
24653980 TGGAATGGAC
24653990 AACAAGCTATGGTACAAGACCATGATGTATCAAAAGCCCAAAGAAGCTACAGACTACAGTAACAA
1 AACAAGCTATGGTACAAGACCATGATGTATCAAAAGCCCAAAGAAGCTACAGACTACAGTAACAA
24654055 TAGTGGACGTCCAAAATACCTAAAAAATCCTAGAGCTTATTGAGGAGGAAACAATAGTTGATAAA
66 TAGTGGACGTCCAAAATACCTAAAAAATCCTAGAGCTTATTGAGGAGGAAACAATAGTTGATAAA
24654120 ATCAGCATAATATATGTAAATGCATATATGTGCATACTCAAAAATATCACGA
131 ATCAGCATAATATATGTAAATGCATATATGTGCATACTCAAAAATATCACGA
24654172 AACAAGCTATGGTACAAGACCATGATGTATCAAAAGCCCAAAGAAGCTACAGACTACAGTAACAA
1 AACAAGCTATGGTACAAGACCATGATGTATCAAAAGCCCAAAGAAGCTACAGACTACAGTAACAA
*
24654237 TAGTGGACGTCCAAAATACCTATAAAATCCTAGAGCTTATTGAGGAGGAAACAATAGTTGATAAA
66 TAGTGGACGTCCAAAATACCTAAAAAATCCTAGAGCTTATTGAGGAGGAAACAATAGTTGATAAA
24654302 ATCAGCATAATATATGTAAATGCATATATGTGCATACTCAAAAATATCACGA
131 ATCAGCATAATATATGTAAATGCATATATGTGCATACTCAAAAATATCACGA
24654354 AA
1 AA
24654356 AGGCAATTAA
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 183 1.00
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (182 bp):
AACAAGCTATGGTACAAGACCATGATGTATCAAAAGCCCAAAGAAGCTACAGACTACAGTAACAA
TAGTGGACGTCCAAAATACCTAAAAAATCCTAGAGCTTATTGAGGAGGAAACAATAGTTGATAAA
ATCAGCATAATATATGTAAATGCATATATGTGCATACTCAAAAATATCACGA
Found at i:24655326 original size:30 final size:30
Alignment explanation
Indices: 24655292--24655357 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
24655282 CATTTCGTCC
24655292 TCCTCCTCATCATCATCATCATTTTCATCA
1 TCCTCCTCATCATCATCATCATTTTCATCA
* *
24655322 TCCTCCTCCTCATCATCATCATTTTCATCC
1 TCCTCCTCATCATCATCATCATTTTCATCA
24655352 TCCTCC
1 TCCTCC
24655358 CCCTCCTCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.39
Consensus pattern (30 bp):
TCCTCCTCATCATCATCATCATTTTCATCA
Found at i:24657802 original size:30 final size:30
Alignment explanation
Indices: 24657768--24657833 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
24657758 CATTTCGTCC
24657768 TCCTCCTCATCATCATCATCATTTTCATCA
1 TCCTCCTCATCATCATCATCATTTTCATCA
* *
24657798 TCCTCCTCCTCATCATCATCATTTTCATCC
1 TCCTCCTCATCATCATCATCATTTTCATCA
24657828 TCCTCC
1 TCCTCC
24657834 CCCTCCTCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.39
Consensus pattern (30 bp):
TCCTCCTCATCATCATCATCATTTTCATCA
Found at i:24662303 original size:24 final size:23
Alignment explanation
Indices: 24662275--24662319 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
24662265 TTTTCATAAT
24662275 ATTATTAA-ATTCATATTTAAAATA
1 ATTA-TAATATTCAT-TTTAAAATA
*
24662299 ATTATAATATTTATTTTAAAA
1 ATTATAATATTCATTTTAAAA
24662320 AAAATAACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATAATATTCATTTTAAAATA
Found at i:24663051 original size:37 final size:38
Alignment explanation
Indices: 24662993--24663064 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
24662983 CCGAATATAA
*
24662993 TAAATATATTTTTTTA-ATTTTTAATTTTAAAATACTT
1 TAAAAATATTTTTTTATATTTTTAATTTTAAAATACTT
* *
24663030 TAAAAATATTTTTTTATTTTTTTATTTTTAAAATA
1 TAAAAATATTTTTTTATATTTTTAATTTTAAAATA
24663065 TTTTTTTGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 15 0.48
38 16 0.52
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (38 bp):
TAAAAATATTTTTTTATATTTTTAATTTTAAAATACTT
Found at i:24663360 original size:24 final size:23
Alignment explanation
Indices: 24663332--24663376 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
24663322 TTTTCATAAT
24663332 ATTATTAA-ATTCATATTTAAAATA
1 ATTA-TAATATTCAT-TTTAAAATA
*
24663356 ATTATAATATTTATTTTAAAA
1 ATTATAATATTCATTTTAAAA
24663377 AAAATAACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTATAATATTCATTTTAAAATA
Found at i:24664117 original size:27 final size:26
Alignment explanation
Indices: 24664066--24664128 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
24664056 TATATTTAAA
*
24664066 ATTTTTAAAATACTTTTTCAAATTTTT
1 ATTTTTAAAATAATTTTTCAAA-TTTT
*
24664093 ATTTTTAAAATAATTTTT-AGTATTTT
1 ATTTTTAAAATAATTTTTCA-AATTTT
*
24664119 ATTTTAAAAA
1 ATTTTTAAAA
24664129 AATATGTCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTTTTAAAATAATTTTTCAAATTTT
Found at i:24666500 original size:18 final size:19
Alignment explanation
Indices: 24666463--24666539 Score: 63
Period size: 18 Copynumber: 4.2 Consensus size: 19
24666453 GAATTTGAAA
* * *
24666463 ATTTTGTTTTATATTTAAT
1 ATTTTATTTAATAATTAAT
24666482 ATTTT-TTTAATAATTAAT
1 ATTTTATTTAATAATTAAT
* *
24666500 A-ATTAATTAATTAATT-AT
1 ATTTTATTTAA-TAATTAAT
24666518 -TTTTATTTAATACATTAAT
1 ATTTTATTTAATA-ATTAAT
24666537 ATT
1 ATT
24666540 ATAATATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
17 4 0.09
18 28 0.61
19 12 0.26
20 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (19 bp):
ATTTTATTTAATAATTAAT
Found at i:24667765 original size:19 final size:21
Alignment explanation
Indices: 24667743--24667781 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24667733 AATAATTTAT
24667743 TGATT-CATGTT-TAATAATC
1 TGATTACATGTTGTAATAATC
*
24667762 TGATTATATGTTGTAATAAT
1 TGATTACATGTTGTAATAAT
24667782 ATATGTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (21 bp):
TGATTACATGTTGTAATAATC
Found at i:24668217 original size:24 final size:23
Alignment explanation
Indices: 24668122--24668232 Score: 75
Period size: 24 Copynumber: 4.7 Consensus size: 23
24668112 ATAAAATTAT
* *
24668122 TAAATTATTAAATATTAAAATAA
1 TAAAATATTAAATATTATAATAA
* **
24668145 TATAATA-TAAATATT-TTTTAA
1 TAAAATATTAAATATTATAATAA
*
24668166 -AATAATATTAAAATGATTATACAAAA
1 TAA-AATATT-AAAT-ATTATA-ATAA
*
24668192 TAAAATTATTAAATATTAGAATAA
1 TAAAA-TATTAAATATTATAATAA
*
24668216 TATAATATATAAATATT
1 TAAAATAT-TAAATATT
24668233 TAAAAAAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
20 1 0.01
21 7 0.10
22 9 0.13
23 12 0.18
24 18 0.27
25 6 0.09
26 8 0.12
27 6 0.09
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAAATATTAAATATTATAATAA
Found at i:24672157 original size:28 final size:26
Alignment explanation
Indices: 24672117--24672174 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
24672107 ATACTTTTAA
*
24672117 AATAATAACAAAATTAACAACAA-AAC
1 AATAATAACAAAA-TAAAAACAATAAC
24672143 AATAATTATACAAAATAAAAACAATAAC
1 AATAA-TA-ACAAAATAAAAACAATAAC
24672171 AATA
1 AATA
24672175 TAAAGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.18
27 10 0.36
28 13 0.46
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (26 bp):
AATAATAACAAAATAAAAACAATAAC
Found at i:24672183 original size:22 final size:22
Alignment explanation
Indices: 24672138--24672184 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
24672128 AATTAACAAC
**
24672138 AAAACAATAATTATACAAAATA
1 AAAACAATAACAATACAAAATA
* *
24672160 AAAACAATAACAATATAAAGTA
1 AAAACAATAACAATACAAAATA
24672182 AAA
1 AAA
24672185 TGACAGTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAACAATAACAATACAAAATA
Found at i:24675125 original size:6 final size:7
Alignment explanation
Indices: 24675105--24675138 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
24675095 ATTATATTAT
24675105 ATTAAAA
1 ATTAAAA
24675112 ATTAAAA
1 ATTAAAA
24675119 ATTAAAA
1 ATTAAAA
*
24675126 ATTTAAA
1 ATTAAAA
*
24675133 TTTAAA
1 ATTAAA
24675139 TTTAAGAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (7 bp):
ATTAAAA
Found at i:24681390 original size:17 final size:17
Alignment explanation
Indices: 24681363--24681404 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
24681353 TTTTAAAGTT
*
24681363 TGTAATGTTTTATATTA
1 TGTAATTTTTTATATTA
*
24681380 TGTTATTTTTTATATTA
1 TGTAATTTTTTATATTA
24681397 TGTAATTT
1 TGTAATTT
24681405 ATAATACATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:24683716 original size:158 final size:159
Alignment explanation
Indices: 24683533--24683849 Score: 627
Period size: 158 Copynumber: 2.0 Consensus size: 159
24683523 ATATTTTATA
24683533 TTAAAAATATATTTATAAAATTATTTCAACAAATGATTATTAATGCAATGGTAAGAGATTTTTAT
1 TTAAAAATATATTTATAAAATTATTTCAACAAATGATTATTAATGCAATGGTAAGAGATTTTTAT
24683598 TTGAATTTGTTAGTCTTGTGTTTTATTCTCAAATAATTTTTTTTTATTATATAAAATATTAAAAG
66 TTGAATTTGTTAGTCTTGTGTTTTATTCTCAAATAATTTTTTTTTATTATATAAAATATTAAAAG
24683663 ACTAAAACACCTTTATAATAATATTAATT
131 ACTAAAACACCTTTATAATAATATTAATT
24683692 TTAAAAATAT-TTTATAAAATTATTTCAACAAATGATTATTAATGCAATGGTAAGAGATTTTTAT
1 TTAAAAATATATTTATAAAATTATTTCAACAAATGATTATTAATGCAATGGTAAGAGATTTTTAT
24683756 TTGAATTTGTTAGTCTTGTGTTTTATTCTCAAATAATTTTTTTTTATTATATAAAATATTAAAAG
66 TTGAATTTGTTAGTCTTGTGTTTTATTCTCAAATAATTTTTTTTTATTATATAAAATATTAAAAG
24683821 ACTAAAACACCTTTATAATAATATTAATT
131 ACTAAAACACCTTTATAATAATATTAATT
24683850 ACTTTTTAAA
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
158 148 0.94
159 10 0.06
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (159 bp):
TTAAAAATATATTTATAAAATTATTTCAACAAATGATTATTAATGCAATGGTAAGAGATTTTTAT
TTGAATTTGTTAGTCTTGTGTTTTATTCTCAAATAATTTTTTTTTATTATATAAAATATTAAAAG
ACTAAAACACCTTTATAATAATATTAATT
Found at i:24686572 original size:21 final size:21
Alignment explanation
Indices: 24686543--24686583 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
24686533 GATGCTATTA
24686543 ATTAATTTTAATAATATTATC
1 ATTAATTTTAATAATATTATC
* * *
24686564 ATTATTTTTACTACTATTAT
1 ATTAATTTTAATAATATTAT
24686584 TATGTTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTAATTTTAATAATATTATC
Found at i:24686584 original size:3 final size:3
Alignment explanation
Indices: 24686557--24686659 Score: 73
Period size: 3 Copynumber: 33.3 Consensus size: 3
24686547 ATTTTAATAA
* * * * * * *
24686557 TAT TAT CAT TAT TTT TAC TAC TAT TAT TAT GT-T TAA TAC TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * *
24686602 TAC TAT TACT TTT TTT TATT TAT ATAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT
24686650 TAT TAT TAT T
1 TAT TAT TAT T
24686660 TATTGTTCAT
Statistics
Matches: 80, Mismatches: 15, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
2 1 0.01
3 70 0.88
4 9 0.11
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:24687254 original size:2 final size:2
Alignment explanation
Indices: 24687247--24687272 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24687237 NNNNNNNNNT
24687247 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
24687273 CATTTTTAAT
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):
TA
Found at i:24693596 original size:265 final size:266
Alignment explanation
Indices: 24693121--24693711 Score: 794
Period size: 265 Copynumber: 2.2 Consensus size: 266
24693111 CCTAACCTAT
* *
24693121 AAAGAACATACCAACC-ACAAAAAGATAAGGAAAACTTAGAACCCATTGGAGCAAAAGACATGAA
1 AAAGAACATACCAACCAACAAAAAG-GAAGAAAAACTTAGAACCCATTGGAGCAAAAGACATGAA
* * * * * * *
24693185 ATTTCAACAAAAGCTCAAAAATTTAAAAGAACAGAAGCTACCCATTTCTGGAGATTACAATTATT
65 ATTTCAAAAAAAGCTCAAAAATTTAAAAGAACAGAAGCTACACATTACAGCAAAGTACAATTATT
** * *
24693250 ACACAAAGAACATACCAACCAACAAAAAAGGAAGTGAGAGTTAGAACCCATTAAAGCAAAAGACT
130 ACACAAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTAAAGCAAAAGACT
** * * *
24693315 TAAAACTTTCAACAAAAAGCTCAAAAACTCAATAGACTTGAATCTACACATTACGGCAAAGTATA
195 TAAAACTTTCAAC-AAAAGCTCAAAAACTCAATAGACTTGAAGATACACATTACAGCAAAGCACA
24693380 ATTACAAC
259 ATTACAAC
* * *
24693388 AAAGAACATACTAACCAACAAAAAGGAAGAAAAACTTAGAACCTATTGGAGCAAAGGACATGAAA
1 AAAGAACATACCAACCAACAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACATGAAA
* ** * * * *
24693453 TTTCAAAAAAAGCTCAAAATTTTAGTAG-ACTTGAATCTACATATTACAGCAAAGTATAATTA-T
66 TTTCAAAAAAAGCTCAAAAATTTAAAAGAAC-AGAAGCTACACATTACAGCAAAGTACAATTATT
* **
24693516 A-ACAAAGAACATACGAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACT
130 ACACAAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTAAAGCAAAAGACT
*
24693580 TAAAACTTTCAACAAAAGCTCAAAAATTCAATAGACTTGAAGATACACATTACAGCAAAGCACAA
195 TAAAACTTTCAACAAAAGCTCAAAAACTCAATAGACTTGAAGATACACATTACAGCAAAGCACAA
*
24693645 TTATAAC
260 TTACAAC
** *
24693652 AAAGAACATAGGAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAACAAAAGAC
1 AAAGAACATACCAACCAAC-AAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGAC
24693712 TTAAACTTGA
Statistics
Matches: 283, Mismatches: 38, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
264 69 0.24
265 106 0.37
266 4 0.01
267 96 0.34
268 8 0.03
ACGTcount: A:0.52, C:0.18, G:0.13, T:0.18
Consensus pattern (266 bp):
AAAGAACATACCAACCAACAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACATGAAA
TTTCAAAAAAAGCTCAAAAATTTAAAAGAACAGAAGCTACACATTACAGCAAAGTACAATTATTA
CACAAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTAAAGCAAAAGACTT
AAAACTTTCAACAAAAGCTCAAAAACTCAATAGACTTGAAGATACACATTACAGCAAAGCACAAT
TACAAC
Found at i:24693639 original size:133 final size:132
Alignment explanation
Indices: 24693121--24693716 Score: 723
Period size: 133 Copynumber: 4.5 Consensus size: 132
24693111 CCTAACCTAT
* * * *
24693121 AAAGAACATACCAACC-AC-AAAAAGATAAGGAAAACTTAGAACCCATTGGAGCAAAAGACATGA
1 AAAGAACATACCAACCAACAAAAAAG-GAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAA
* * * * * * * * *
24693184 AATTTCAACAAAAGCTCAAAAATTTAAAAGAAC-AGAAGCTACCCATTTCTGGAGATTACAATTA
65 AATTTCAACAAAAGCTCAAAAATTCAATAG-ACTTGAAGCTACACATTACAGCAAAGTACAATTA
24693248 TTACAC
129 -TA-AC
** * * **
24693254 AAAGAACATACCAACCAACAAAAAAGGAAGTGAGAGTTAGAACCCATTAAAGCAAAAGACTTAAA
1 AAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
* * * *
24693319 ACTTTCAACAAAAAGCTCAAAAACTCAATAGACTTGAATCTACACATTACGGCAAAGTATAATTA
66 A-TTTCAAC-AAAAGCTCAAAAATTCAATAGACTTGAAGCTACACATTACAGCAAAGTACAATTA
*
24693384 CAAC
129 TAAC
* * * * *
24693388 AAAGAACATACTAACCAAC-AAAAAGGAAGAAAAACTTAGAACCTATTGGAGCAAAGGACATGAA
1 AAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
* * * * * * *
24693452 ATTTCAAAAAAAGCTCAAAATTTTAGTAGACTTGAATCTACATATTACAGCAAAGTATAATTATA
66 ATTTCAACAAAAGCTCAAAAATTCAATAGACTTGAAGCTACACATTACAGCAAAGTACAATTATA
24693517 AC
131 AC
*
24693519 AAAGAACATACGAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
1 AAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
* *
24693584 ACTTTCAACAAAAGCTCAAAAATTCAATAGACTTGAAGATACACATTACAGCAAAGCACAATTAT
66 A-TTTCAACAAAAGCTCAAAAATTCAATAGACTTGAAGCTACACATTACAGCAAAGTACAATTAT
24693649 AAC
130 AAC
** *
24693652 AAAGAACATAGGAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAACAAAAGACTTAAA
1 AAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
24693717 CTTGACATAG
Statistics
Matches: 399, Mismatches: 57, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
131 70 0.18
132 48 0.12
133 172 0.43
134 53 0.13
135 16 0.04
136 40 0.10
ACGTcount: A:0.52, C:0.18, G:0.13, T:0.18
Consensus pattern (132 bp):
AAAGAACATACCAACCAACAAAAAAGGAAGAAAAACTTAGAACCCATTGGAGCAAAAGACTTAAA
ATTTCAACAAAAGCTCAAAAATTCAATAGACTTGAAGCTACACATTACAGCAAAGTACAATTATA
AC
Found at i:24695053 original size:17 final size:16
Alignment explanation
Indices: 24695016--24695054 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
24695006 ACGTAATTTA
24695016 TATAAATATATATATAT
1 TATAAA-ATATATATAT
*
24695033 TA-AAAGTATATATAT
1 TATAAAATATATATAT
24695048 TATAAAA
1 TATAAAA
24695055 AAAATTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 11 0.58
16 6 0.32
17 2 0.11
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TATAAAATATATATAT
Found at i:24697791 original size:24 final size:25
Alignment explanation
Indices: 24697764--24697814 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
24697754 AAATGTTTTA
*
24697764 AAAAAATTAACT-TTCGGAATAATT
1 AAAAAATTAACTATTCAGAATAATT
* *
24697788 AAAAAGTTAACTATTCAGACTAATT
1 AAAAAATTAACTATTCAGAATAATT
24697813 AA
1 AA
24697815 TATCATTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (25 bp):
AAAAAATTAACTATTCAGAATAATT
Found at i:24704876 original size:18 final size:20
Alignment explanation
Indices: 24704853--24704893 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
24704843 AAATTTAATA
24704853 TTTAATTTCCCTA-TTTT-T
1 TTTAATTTCCCTACTTTTAT
*
24704871 TTTAATTTCTCTACTTTTAT
1 TTTAATTTCCCTACTTTTAT
24704891 TTT
1 TTT
24704894 TGTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTAATTTCCCTACTTTTAT
Found at i:24704912 original size:24 final size:25
Alignment explanation
Indices: 24704864--24704921 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
24704854 TTAATTTCCC
*
24704864 TATTTTT-TTTAATTTCTCTACTTT
1 TATTTTTGTATAATTTCTCTACTTT
24704888 TATTTTTGTATAATTTGCT-TA-TTT
1 TATTTTTGTATAATTT-CTCTACTTT
24704912 TATTTTTGTA
1 TATTTTTGTA
24704922 ATATTATTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 20 0.65
25 9 0.29
26 2 0.06
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (25 bp):
TATTTTTGTATAATTTCTCTACTTT
Found at i:24705206 original size:27 final size:26
Alignment explanation
Indices: 24705176--24705238 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
24705166 TAACATTTGA
24705176 AATTTAAACTTGACATGTTTTTTTCTT
1 AATTTAAACTTGACAT-TTTTTTTCTT
** * **
24705203 AATTTGGTATTTGAGGTTTTTTTTCTT
1 AATTT-AAACTTGACATTTTTTTTCTT
24705230 AATTTAAAC
1 AATTTAAAC
24705239 ACGTCTATAT
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
26 1 0.04
27 20 0.74
28 6 0.22
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (26 bp):
AATTTAAACTTGACATTTTTTTTCTT
Found at i:24705953 original size:6 final size:6
Alignment explanation
Indices: 24705942--24705968 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24705932 AAAAAAATGA
24705942 TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTT
24705969 AAATTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:24713875 original size:101 final size:102
Alignment explanation
Indices: 24713756--24713962 Score: 407
Period size: 101 Copynumber: 2.0 Consensus size: 102
24713746 TTAATTTTTA
24713756 AAAAACAATTTCTATAATTTTTTTTATTTTTTTTAAATTTAAAAAATTAATTAATTGCTAATGTG
1 AAAAACAATTTCTATAATTTTTTTTATTTTTTTTAAATTTAAAAAATTAATTAATTGCTAATGTG
24713821 ATATTCACATAACAATCTACGTACACATAATGTCAGC
66 ATATTCACATAACAATCTACGTACACATAATGTCAGC
24713858 AAAAACAATTT-TATAATTTTTTTTATTTTTTTTAAATTTAAAAAATTAATTAATTGCTAATGTG
1 AAAAACAATTTCTATAATTTTTTTTATTTTTTTTAAATTTAAAAAATTAATTAATTGCTAATGTG
24713922 ATATTCACATAACAATCTACGTACACATAATGTCAGC
66 ATATTCACATAACAATCTACGTACACATAATGTCAGC
24713959 AAAA
1 AAAA
24713963 TAAACAAACG
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
101 94 0.90
102 11 0.10
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (102 bp):
AAAAACAATTTCTATAATTTTTTTTATTTTTTTTAAATTTAAAAAATTAATTAATTGCTAATGTG
ATATTCACATAACAATCTACGTACACATAATGTCAGC
Found at i:24715517 original size:230 final size:231
Alignment explanation
Indices: 24715248--24715709 Score: 917
Period size: 230 Copynumber: 2.0 Consensus size: 231
24715238 TTAAATCCAT
24715248 TCATATTATTTTTAAAAATATATATTAATTTTAATTTAATATTTAATATTTTAGATGTTTTCTTT
1 TCATATTATTTTTAAAAATATATATTAATTTTAATTTAATATTTAATATTTTAGATGTTTTCTTT
24715313 TATTAAAATTTTAAATTTAGACAACTTAACATATATTTTTTAATATTTACATAGTATTATATTGT
66 TATTAAAATTTTAAATTTAGACAACTTAACATATATTTTTTAATATTTACATAGTATTATATTGT
24715378 TACATATTTAATTGAGCTATAGTGTAAATTTGTCACCATACTATAAGTGGATATTGTAATTTGCC
131 TACATATTTAATTGAGCTATAGTGTAAATTTGTCACCATACTATAAGTGGATATTGTAATTTGCC
24715443 ATTATATTTAATGGGCAAATTTGCACATTAACTCTA
196 ATTATATTTAATGGGCAAATTTGCACATTAACTCTA
24715479 TCATATTA-TTTTAAAAATATATATTAATTTTAATTTAATATTTAATATTTTAGATGTTTTCTTT
1 TCATATTATTTTTAAAAATATATATTAATTTTAATTTAATATTTAATATTTTAGATGTTTTCTTT
24715543 TATTAAAATTTTAAATTTAGACAACTTAACATATATTTTTTAATATTTACATAGTATTATATTGT
66 TATTAAAATTTTAAATTTAGACAACTTAACATATATTTTTTAATATTTACATAGTATTATATTGT
24715608 TACATATTTAATTGAGCTATAGTGTAAATTTGTCACCATACTATAAGTGGATATTGTAATTTGCC
131 TACATATTTAATTGAGCTATAGTGTAAATTTGTCACCATACTATAAGTGGATATTGTAATTTGCC
24715673 ATTATATTTAATGGGCAAATTTGCACATTAACTCTA
196 ATTATATTTAATGGGCAAATTTGCACATTAACTCTA
24715709 T
1 T
24715710 TTAATTTTAT
Statistics
Matches: 231, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
230 223 0.97
231 8 0.03
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (231 bp):
TCATATTATTTTTAAAAATATATATTAATTTTAATTTAATATTTAATATTTTAGATGTTTTCTTT
TATTAAAATTTTAAATTTAGACAACTTAACATATATTTTTTAATATTTACATAGTATTATATTGT
TACATATTTAATTGAGCTATAGTGTAAATTTGTCACCATACTATAAGTGGATATTGTAATTTGCC
ATTATATTTAATGGGCAAATTTGCACATTAACTCTA
Found at i:24730061 original size:18 final size:19
Alignment explanation
Indices: 24730015--24730061 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
24730005 TAGCTAATTA
24730015 AATTTAAA-TAAAACTCTT
1 AATTTAAACTAAAACTCTT
*
24730033 AA--TATACTAAAACTC-T
1 AATTTAAACTAAAACTCTT
24730049 AATTTAAACTAAA
1 AATTTAAACTAAA
24730062 CTTTCTTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
16 6 0.25
17 8 0.33
18 10 0.42
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTTAAACTAAAACTCTT
Found at i:24730945 original size:20 final size:20
Alignment explanation
Indices: 24730920--24730971 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
24730910 TTGTTATTCC
24730920 AGAAAATAGAATTTATACTT
1 AGAAAATAGAATTTATACTT
24730940 AGAAAATAGAATTTATACTT
1 AGAAAATAGAATTTATACTT
24730960 AGAAAATA-AATT
1 AGAAAATAGAATT
24730972 CACAATACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.33
Consensus pattern (20 bp):
AGAAAATAGAATTTATACTT
Found at i:24731477 original size:4 final size:4
Alignment explanation
Indices: 24731468--24731496 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
24731458 TTTCGAACTT
24731468 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA T
24731497 CGAAAAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:24734940 original size:15 final size:16
Alignment explanation
Indices: 24734910--24734941 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24734900 TTATATTATA
24734910 AAAATATTATTAAATT
1 AAAATATTATTAAATT
24734926 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
24734941 A
1 A
24734942 TATTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:24734945 original size:25 final size:26
Alignment explanation
Indices: 24734902--24734954 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
24734892 TTCTTGATTT
24734902 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
24734929 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
24734953 AT
1 AT
24734955 TAAGATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:24734962 original size:25 final size:22
Alignment explanation
Indices: 24734912--24734969 Score: 53
Period size: 24 Copynumber: 2.4 Consensus size: 22
24734902 ATATTATAAA
**
24734912 AATATTATTAAATTAAAATATTAT
1 AATA-TATT-AATTAAAATAAGAT
24734936 AAATTATATTAATTAAAATTAAGAT
1 -AA-TATATTAATTAAAA-TAAGAT
24734961 AATATATTA
1 AATATATTA
24734970 TAGGAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 7 0.24
24 10 0.34
25 10 0.34
26 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATTAATTAAAATAAGAT
Found at i:24734969 original size:28 final size:27
Alignment explanation
Indices: 24734913--24734971 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
24734903 TATTATAAAA
24734913 ATATTATTAAATTAAAATATTATAAATT
1 ATATTATTAAATTAAAATA-TATAAATT
* *
24734941 ATATTAATTAAAATTAAGATA-ATATATT
1 ATATT-ATT-AAATTAAAATATATAAATT
24734969 ATA
1 ATA
24734972 GGAAACAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.52
29 3 0.11
30 10 0.37
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
ATATTATTAAATTAAAATATATAAATT
Found at i:24739749 original size:2 final size:2
Alignment explanation
Indices: 24739738--24739788 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
24739728 CTAATCGTAA
* *
24739738 AT AT -T AT AT AT AT CT AT AT AT CT 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
24739779 AT AT AT AT AT
1 AT AT AT AT AT
24739789 TACTTCTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:24742452 original size:3 final size:3
Alignment explanation
Indices: 24742444--24742477 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
24742434 TATATATCTT
24742444 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24742478 GAAATAGCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24743849 original size:19 final size:18
Alignment explanation
Indices: 24743798--24743849 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
24743788 TAGATTTAAT
24743798 TTAAAAAAATA-AAAATA
1 TTAAAAAAATATAAAATA
* * *
24743815 TTAATATAATATTAAACTA
1 TTAAAAAAATA-TAAAATA
24743834 TTAAAAAAATTATAAA
1 TTAAAAAAA-TATAAA
24743850 TAACACTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 9 0.33
19 16 0.59
20 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAAAAATATAAAATA
Found at i:24744670 original size:57 final size:57
Alignment explanation
Indices: 24744602--24744773 Score: 335
Period size: 57 Copynumber: 3.0 Consensus size: 57
24744592 AGTCTCTCTC
*
24744602 TCTCTCTATATATAGTCCTTTTTTAATTGTATATATTTTAAAATTATATATAAATTT
1 TCTCTCTATATATAGTCCTTTTTTAATGGTATATATTTTAAAATTATATATAAATTT
24744659 TCTCTCTATATATAGTCCTTTTTTAATGGTATATATTTTAAAATTATATATAAATTT
1 TCTCTCTATATATAGTCCTTTTTTAATGGTATATATTTTAAAATTATATATAAATTT
24744716 TCTCTCTATATATAGTCCTTTTTTAATGGTATATATTTTAAAATTATATATAAATTT
1 TCTCTCTATATATAGTCCTTTTTTAATGGTATATATTTTAAAATTATATATAAATTT
24744773 T
1 T
24744774 GGTTTAATGT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 114 1.00
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (57 bp):
TCTCTCTATATATAGTCCTTTTTTAATGGTATATATTTTAAAATTATATATAAATTT
Found at i:24748871 original size:14 final size:14
Alignment explanation
Indices: 24748835--24748868 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
24748825 TCATCATTTG
24748835 CCTATAACCAAAAC
1 CCTATAACCAAAAC
24748849 CCTATAACCAAAAC
1 CCTATAACCAAAAC
24748863 CC-ATAA
1 CCTATAA
24748869 ACCCATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:24749378 original size:14 final size:14
Alignment explanation
Indices: 24749361--24749394 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24749351 TATAATTTCT
24749361 AAATAATAACAATA
1 AAATAATAACAATA
*
24749375 AAATAATAATAATA
1 AAATAATAACAATA
*
24749389 TAATAA
1 AAATAA
24749395 CGAAATGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:24749408 original size:36 final size:36
Alignment explanation
Indices: 24749332--24749408 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 36
24749322 TAGCAAAATT
* * ** * *
24749332 AACAATAAAATAAGAGTTATATAATTTCTAAATAAT
1 AACAATAAAATAAGAATAATATAATAACGAAATAAC
* *
24749368 AACAATAAAATAATAATAATATAATAACGAAATGAC
1 AACAATAAAATAAGAATAATATAATAACGAAATAAC
24749404 AACAA
1 AACAA
24749409 AATAGTGATA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (36 bp):
AACAATAAAATAAGAATAATATAATAACGAAATAAC
Found at i:24766898 original size:107 final size:108
Alignment explanation
Indices: 24766701--24766914 Score: 421
Period size: 107 Copynumber: 2.0 Consensus size: 108
24766691 CCAATACCAG
24766701 TCAAGTTAAGACTCAATCGACATATTTAATAATTTAATTATTTTGAAATAAATTGGAAAATTTTA
1 TCAAGTTAAGACTCAATCGACATATTTAATAATTTAATTATTTTGAAATAAATTGGAAAATTTTA
24766766 ATTATTTATTTTATATTCAAAATTTCCAATCATTAAATAAATA
66 ATTATTTATTTTATATTCAAAATTTCCAATCATTAAATAAATA
24766809 TCAAGTTAAG-CTCAATCGACATATTTAATAATTTAATTATTTTGAAATAAATTGGAAAATTTTA
1 TCAAGTTAAGACTCAATCGACATATTTAATAATTTAATTATTTTGAAATAAATTGGAAAATTTTA
24766873 ATTATTTATTTTATATTCAAAATTTCCAATCATTAAATAAAT
66 ATTATTTATTTTATATTCAAAATTTCCAATCATTAAATAAAT
24766915 GTATATTAAT
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 96 0.91
108 10 0.09
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (108 bp):
TCAAGTTAAGACTCAATCGACATATTTAATAATTTAATTATTTTGAAATAAATTGGAAAATTTTA
ATTATTTATTTTATATTCAAAATTTCCAATCATTAAATAAATA
Found at i:24768964 original size:89 final size:87
Alignment explanation
Indices: 24768821--24768993 Score: 251
Period size: 89 Copynumber: 2.0 Consensus size: 87
24768811 AAATATATAT
24768821 AGCCAAAAAAGTTTTACCTGAGGCCCGACCCGTTTTCTAAACGGGCCTCGTTTTTTTGCCCAAA-
1 AGCCAAAAAAGTTTTACCTGAGGCCCGACCCGTTTTCTAAACGGGCC-CGTTTTTTTGCCCAAAT
24768885 CTCATATTTCAGGCCTATATTTCCG
65 C-CATATTTC-GGCCTATATTTCCG
* * * **
24768910 AGCCAAAAAAGTTTTA-CTCGAGGCCCGGCCTGTTTTCTAAATGGGCCTTTTTTTTTGCCCAAAT
1 AGCCAAAAAAGTTTTACCT-GAGGCCCGACCCGTTTTCTAAACGGGCCCGTTTTTTTGCCCAAAT
24768974 CCATATTTCGGCCTATATTT
65 CCATATTTCGGCCTATATTT
24768994 TTACCTTAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
87 11 0.14
88 24 0.31
89 42 0.55
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (87 bp):
AGCCAAAAAAGTTTTACCTGAGGCCCGACCCGTTTTCTAAACGGGCCCGTTTTTTTGCCCAAATC
CATATTTCGGCCTATATTTCCG
Found at i:24774134 original size:228 final size:223
Alignment explanation
Indices: 24773602--24774271 Score: 1042
Period size: 223 Copynumber: 3.0 Consensus size: 223
24773592 TCACTTTTAG
* * ** * * * *
24773602 TATATGGAGATCCTTGAAGGTTCGTGATTGTGTTTATTACTGTCTAGAACTTAAGCTCCTAAATA
1 TATATGGAGATCCTCGATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAAATA
*
24773667 GTTAGATTGATTTACATTTTGGCATACTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCTTTA
66 GTTAGATTGATTTACATTTTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCTTTA
* *
24773732 TATCATTTGTTTTGGCCATCCACAGTATTGTTCGAGTCCTCATGCATGTGCCTTTCATAGTTATC
131 TATCATTTGTTTTGGCCATCCA-AGTCTTGTT-GAGTCCTCATGCATGTGCCTTTCTTAGTTATC
*
24773797 AATATTTCAAAGCATCTTTGTGCATGCGTT
194 AATATTTCAAAGCATCTTTGTGCATGTGTT
*
24773827 TA-AT-GAGATCCTCAATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAAATA
1 TATATGGAGATCCTCGATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAAATA
*
24773890 GTTAGATTGGTTTACATTTTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCTTTA
66 GTTAGATTGATTTACATTTTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCTTTA
* * * *
24773955 TGTCATTTGTTTTGGCCGTCCATAGTCTTGTTGAGTCCTCATGCATGTGCCTTTTTTAGTTACCA
131 TATCATTTGTTTTGGCCATCCA-AGTCTTGTTGAGTCCTCATGCATGTGCCTTTCTTAGTTATCA
24774020 ATATTTCAAAGCATCTTTGTGCATGTGTTT
195 ATATTTCAAAGCATCTTTGTGCATGTG-TT
24774050 AATGATATGGAGATCCTCGATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAA
1 --T-ATATGGAGATCCTCGATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAA
*
24774115 ATAGTTAGATTGATTTACATATTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCT
63 ATAGTTAGATTGATTTACATTTTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCT
** *
24774180 TTATATCATTTGTTTTGGCCATCC-AGTCTCATCTGAGTCCTCATGGATGTGCCTTTCTTAGTTA
128 TTATATCATTTGTTTTGGCCATCCAAGTCTTGT-TGAGTCCTCATGCATGTGCCTTTCTTAGTTA
24774244 TCAATA-TTCAAAGCATCTTTGTGCATGT
192 TCAATATTTCAAAGCATCTTTGTGCATGT
24774272 ATTTTATCAC
Statistics
Matches: 409, Mismatches: 29, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
222 56 0.14
223 143 0.35
224 2 0.00
225 3 0.01
226 29 0.07
227 36 0.09
228 140 0.34
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (223 bp):
TATATGGAGATCCTCGATGGTTCGCAATTGAGTTTATCATTATCTAGAACTTAAGCTCCTAAATA
GTTAGATTGATTTACATTTTGGCATAGTAGTGAAGCTCACAACTTATATGTCTCTTCTAGCTTTA
TATCATTTGTTTTGGCCATCCAAGTCTTGTTGAGTCCTCATGCATGTGCCTTTCTTAGTTATCAA
TATTTCAAAGCATCTTTGTGCATGTGTT
Found at i:24791648 original size:3 final size:3
Alignment explanation
Indices: 24791640--24791711 Score: 92
Period size: 3 Copynumber: 23.7 Consensus size: 3
24791630 TTGTTATTTC
* *
24791640 TAT TAT TAT TA- AAT TAGT TTT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
24791685 TAT TAT TAT TAT TATT TAT CAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TA
24791712 GTTTTATTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 54 0.90
4 5 0.08
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:24792345 original size:12 final size:12
Alignment explanation
Indices: 24792324--24792355 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24792314 TTTTATAGCC
*
24792324 TTATTCATTTCT
1 TTATTTATTTCT
24792336 TTATTTATTTCT
1 TTATTTATTTCT
24792348 TTATTTAT
1 TTATTTAT
24792356 ATTTTCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATTTCT
Found at i:24793321 original size:2 final size:2
Alignment explanation
Indices: 24793314--24793343 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24793304 GAGTGAGTGA
24793314 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
24793344 TTAGTGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:24800840 original size:42 final size:42
Alignment explanation
Indices: 24800793--24800873 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
24800783 TTCCTCCAGA
* * *
24800793 ACCTCCTGCCCCGATTAGAGCTAGTTCTCCTCCACCACCACC
1 ACCTCCTGCCCCAATTAGAGCCAGTCCTCCTCCACCACCACC
*
24800835 ACCTCCTGCCCCAATTAGAGCCAGTCCTCCTGCACCACC
1 ACCTCCTGCCCCAATTAGAGCCAGTCCTCCTCCACCACC
24800874 TCCCGCACCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.20, C:0.48, G:0.12, T:0.20
Consensus pattern (42 bp):
ACCTCCTGCCCCAATTAGAGCCAGTCCTCCTCCACCACCACC
Found at i:24806351 original size:18 final size:18
Alignment explanation
Indices: 24806314--24806351 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
24806304 CCAGAGTTTT
*
24806314 AAGATAAACAGAGCCGAA
1 AAGATAAACAGAGCCAAA
24806332 AAGATAAACA-AGGCCAAA
1 AAGATAAACAGA-GCCAAA
24806350 AA
1 AA
24806352 AGAAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.61, C:0.16, G:0.18, T:0.05
Consensus pattern (18 bp):
AAGATAAACAGAGCCAAA
Found at i:24811427 original size:16 final size:16
Alignment explanation
Indices: 24811408--24811438 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24811398 TATGAGATCG
24811408 GATTATTTCAAATTTC
1 GATTATTTCAAATTTC
*
24811424 GATTATTTTAAATTT
1 GATTATTTCAAATTT
24811439 GTATCATTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
GATTATTTCAAATTTC
Found at i:24814454 original size:181 final size:179
Alignment explanation
Indices: 24814147--24814495 Score: 502
Period size: 181 Copynumber: 1.9 Consensus size: 179
24814137 TAAAAAAAAA
* * * * * *
24814147 AAACTAAATTCAAAACGACTTGAACTCGAAAAGATTTGAATCTAAAATTCATTCAAACTTGAAAT
1 AAACTAAATTCAAAACAACTTAAACTCGAAAAGATTTAAATCTAAAAATCACTCAAACTTAAAAT
* * *
24814212 GATCCAAATATGAGACTAACCAAAATGAAATGATTCGGAAAAATTAAAACTCAAATTGGATTAAT
66 GATCCAAATATGAGACTAAACAAAATGAAATGATTCGAAAAAAGTAAAACTCAAATTGGATTAAT
* * *
24814277 ATAAATTGGTCCGATTTGCCCAATTGATTAGTCTAGTTTTTCAAATGACTT
131 ATAAATTAGCCCGATTTG--CAATTAATTAGTCTAGTTTTTCAAATGACTT
* * * *
24814328 AAACTAAATTCAAAATAACTTAAACTCGAAAATATTTAAATCTAAAAATGACTCGAACTTAAAAT
1 AAACTAAATTCAAAACAACTTAAACTCGAAAAGATTTAAATCTAAAAATCACTCAAACTTAAAAT
*
24814393 GATCCAAATATGATG-CTAAACAAAATGAAATGATTCGAAAAAAGTAAAACTCAATTTGGATTAA
66 GATCCAAATATGA-GACTAAACAAAATGAAATGATTCGAAAAAAGTAAAACTCAAATTGGATTAA
*
24814457 TATAAATTAGCCCGATTTGCGATTAATTAGTCTAGTTTT
130 TATAAATTAGCCCGATTTGCAATTAATTAGTCTAGTTTT
24814496 CCTAATCGCA
Statistics
Matches: 149, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
179 18 0.12
181 130 0.87
182 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.30
Consensus pattern (179 bp):
AAACTAAATTCAAAACAACTTAAACTCGAAAAGATTTAAATCTAAAAATCACTCAAACTTAAAAT
GATCCAAATATGAGACTAAACAAAATGAAATGATTCGAAAAAAGTAAAACTCAAATTGGATTAAT
ATAAATTAGCCCGATTTGCAATTAATTAGTCTAGTTTTTCAAATGACTT
Found at i:24822303 original size:20 final size:21
Alignment explanation
Indices: 24822248--24822304 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
24822238 AAATGATTTT
*
24822248 TTAAAATTCA-AAAAATTATA
1 TTAAAAATCATAAAAATTATA
*
24822268 TTAAAAATCATTAAAATTACT-
1 TTAAAAATCATAAAAATTA-TA
*
24822289 TTAAAAGT-ATAAAAAT
1 TTAAAAATCATAAAAAT
24822305 AAAAAATAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 16 0.52
21 14 0.45
22 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (21 bp):
TTAAAAATCATAAAAATTATA
Found at i:24823381 original size:24 final size:24
Alignment explanation
Indices: 24823354--24823400 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
24823344 ACACATAAAA
*
24823354 AAATTTAACAAATAAAAATAATAC
1 AAATTTAAAAAATAAAAATAATAC
24823378 AAATTTAAAAAATAAAAATAATA
1 AAATTTAAAAAATAAAAATAATA
24823401 AATTAATAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (24 bp):
AAATTTAAAAAATAAAAATAATAC
Found at i:24823755 original size:6 final size:6
Alignment explanation
Indices: 24823746--24823790 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
24823736 ATCAATATAT
*
24823746 ATTAAA ATTAAA ATTAAA ATTAAA ATTTAAA AATATAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA A-TTAAA ATTA-AA ATTAAA A
24823791 CTCAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 24 0.69
7 11 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:24823763 original size:12 final size:12
Alignment explanation
Indices: 24823746--24823790 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 12
24823736 ATCAATATAT
24823746 ATTAAAATTAAA
1 ATTAAAATTAAA
24823758 ATTAAAATTAAA
1 ATTAAAATTAAA
*
24823770 ATTTAAAAATATAA
1 A-TTAAAATTA-AA
24823784 ATTAAAA
1 ATTAAAA
24823791 CTCAAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 13 0.43
13 14 0.47
14 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATTAAAATTAAA
Found at i:24823785 original size:26 final size:25
Alignment explanation
Indices: 24823747--24823801 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
24823737 TCAATATATA
* *
24823747 TTAAAATTAAAATTAAAATTAAAAT
1 TTAAAAATAAAATTAAAACTAAAAT
*
24823772 TTAAAAATATAAATTAAAACTCAAAT
1 TTAAAAATA-AAATTAAAACTAAAAT
24823798 TTAA
1 TTAA
24823802 GTATACAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TTAAAAATAAAATTAAAACTAAAAT
Found at i:24828161 original size:31 final size:31
Alignment explanation
Indices: 24828126--24828190 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
24828116 AACAACCTAA
*
24828126 TGACTTTAATAAAAATTTTCGAATAATTTAG
1 TGACTTAAATAAAAATTTTCGAATAATTTAG
* *
24828157 TGACTTAAATGAAAATTTTCGAATAGTTTAG
1 TGACTTAAATAAAAATTTTCGAATAATTTAG
24828188 TGA
1 TGA
24828191 GTTTTGAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (31 bp):
TGACTTAAATAAAAATTTTCGAATAATTTAG
Found at i:24836380 original size:16 final size:16
Alignment explanation
Indices: 24836359--24836389 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24836349 GTTATGTGAA
24836359 AAAAATATATTTTATG
1 AAAAATATATTTTATG
*
24836375 AAAAATATTTTTTAT
1 AAAAATATATTTTAT
24836390 AATTTATTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AAAAATATATTTTATG
Found at i:24847449 original size:16 final size:16
Alignment explanation
Indices: 24847428--24847458 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24847418 GTTATGTGAA
24847428 AAAAATATATTTTATG
1 AAAAATATATTTTATG
*
24847444 AAAAATATTTTTTAT
1 AAAAATATATTTTAT
24847459 AATTTATTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AAAAATATATTTTATG
Found at i:24848163 original size:31 final size:31
Alignment explanation
Indices: 24848128--24848194 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
24848118 GTTAAAAGTT
*
24848128 AATCATTGAATTATTCAAAAATTTTCATTTA
1 AATCATTGAACTATTCAAAAATTTTCATTTA
* * * *
24848159 AATCATTGAACTCTTCGAAAGTTTTTATTTA
1 AATCATTGAACTATTCAAAAATTTTCATTTA
24848190 AATCA
1 AATCA
24848195 ATAGGTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (31 bp):
AATCATTGAACTATTCAAAAATTTTCATTTA
Found at i:24851233 original size:526 final size:527
Alignment explanation
Indices: 24850231--24851283 Score: 2099
Period size: 526 Copynumber: 2.0 Consensus size: 527
24850221 TTAAACATTC
24850231 AACACAAAACCTAGTATATTTTATTATTTTAAAATTAAAATTAAAAAAACATTTTTTAAAAATAT
1 AACACAAAACCTAGTATATTTTATTATTTTAAAATTAAAATTAAAAAAACATTTTTTAAAAATAT
24850296 ATATATTCATGTTTTTTTTAACCATCCATATATTCAACCATCACCAAAATGCTTTTCTCGTACTA
66 ATATATTCATGTTTTTTTTAACCATCCATATATTCAACCATCACCAAAATGCTTTTCTCGTACTA
24850361 TCCATATATATATATATATTAATTTGTGTGCCAGTTTCTCGTAAAATAAAATAAAATAAGTCTCT
131 TCCATATATATATATATATTAATTTGTGTGCCAGTTTCTCGTAAAATAAAATAAAATAAGTCTCT
24850426 TATGATATAAAAATAAATAAATAAACCTAAAAAACTTAATTAAATAAATAAATGAGCAAGTTGGT
196 TATGATATAAAAATAAATAAATAAACCTAAAAAACTTAATTAAATAAATAAATGAGCAAGTTGGT
24850491 AAAGTTGATGTTAATGTGACCATATTCTATATTTTATTTTTATTTTTATTTTTATGAAGACAGTC
261 AAAGTTGATGTTAATGTGACCATATTCTATATTTTATTTTTATTTTTATTTTTATGAAGACAGTC
24850556 GGTGCTTAAAATAAAAATCATGGGTTGCTTTCTATGAAAATTAATATTTGTACTATAGGTATCGG
326 GGTGCTTAAAATAAAAATCATGGGTTGCTTTCTATGAAAATTAATATTTGTACTATAGGTATCGG
24850621 ATTCCAACACAGATTCAAATATTTCAAATCCATTTTAGTATATTATTTTTTATTTTCTTTTTGTT
391 ATTCCAACACAGATTCAAATATTTCAAATCCATTTTAGTATATTATTTTTTATTTTCTTTTTGTT
24850686 GTAAATAAAAATTAATATAGATTTATTTTGAATTTTCTTTTATCATTATTAATACATTCAAATCG
456 GTAAATAAAAATTAATATAGATTTATTTTGAATTTTCTTTTATCATTATTAATACATTCAAATCG
24850751 ATAATAA
521 ATAATAA
24850758 AACACAAAA-CTAGTATATTTTATTATTTTAAAATTAAAATTAAAAAAACATTTTTTAAAAATAT
1 AACACAAAACCTAGTATATTTTATTATTTTAAAATTAAAATTAAAAAAACATTTTTTAAAAATAT
24850822 ATATATTCATGTTTTTTTTAACCATCCATATATTCAACCATCACCAAAATGCTTTTCTCGTACTA
66 ATATATTCATGTTTTTTTTAACCATCCATATATTCAACCATCACCAAAATGCTTTTCTCGTACTA
24850887 TCCATATATATATATATATTAATTTGTGTGCCAGTTTCTCGTAAAATAAAATAAAATAAGTCTCT
131 TCCATATATATATATATATTAATTTGTGTGCCAGTTTCTCGTAAAATAAAATAAAATAAGTCTCT
24850952 TATGATATAAAAATAAATAAATAAACCTAAAAAACTTAATTAAATAAATAAATGAGCAAGTTGGT
196 TATGATATAAAAATAAATAAATAAACCTAAAAAACTTAATTAAATAAATAAATGAGCAAGTTGGT
24851017 AAAGTTGATGTTAATGTGACCATATTCTATATTTTATTTTTATTTTTATTTTTATGAAGACAGTC
261 AAAGTTGATGTTAATGTGACCATATTCTATATTTTATTTTTATTTTTATTTTTATGAAGACAGTC
24851082 GGTGCTTAAAATAAAAATCATGGGTTGCTTTCTATGAAAATTAATATTTGTACTATAGGTATCGG
326 GGTGCTTAAAATAAAAATCATGGGTTGCTTTCTATGAAAATTAATATTTGTACTATAGGTATCGG
24851147 ATTCCAACACAGATTCAAATATTTCAAATCCATTTTAGTATATTATTTTTTATTTTCTTTTTGTT
391 ATTCCAACACAGATTCAAATATTTCAAATCCATTTTAGTATATTATTTTTTATTTTCTTTTTGTT
24851212 GTAAATAAAAATTAATATAGATTTATTTTGAATTTTCTTTTATCATTATTAATACATTCAAATCG
456 GTAAATAAAAATTAATATAGATTTATTTTGAATTTTCTTTTATCATTATTAATACATTCAAATCG
24851277 ATAATAA
521 ATAATAA
24851284 CTTTATTTTT
Statistics
Matches: 526, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
526 517 0.98
527 9 0.02
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (527 bp):
AACACAAAACCTAGTATATTTTATTATTTTAAAATTAAAATTAAAAAAACATTTTTTAAAAATAT
ATATATTCATGTTTTTTTTAACCATCCATATATTCAACCATCACCAAAATGCTTTTCTCGTACTA
TCCATATATATATATATATTAATTTGTGTGCCAGTTTCTCGTAAAATAAAATAAAATAAGTCTCT
TATGATATAAAAATAAATAAATAAACCTAAAAAACTTAATTAAATAAATAAATGAGCAAGTTGGT
AAAGTTGATGTTAATGTGACCATATTCTATATTTTATTTTTATTTTTATTTTTATGAAGACAGTC
GGTGCTTAAAATAAAAATCATGGGTTGCTTTCTATGAAAATTAATATTTGTACTATAGGTATCGG
ATTCCAACACAGATTCAAATATTTCAAATCCATTTTAGTATATTATTTTTTATTTTCTTTTTGTT
GTAAATAAAAATTAATATAGATTTATTTTGAATTTTCTTTTATCATTATTAATACATTCAAATCG
ATAATAA
Found at i:24851860 original size:30 final size:31
Alignment explanation
Indices: 24851826--24851891 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
24851816 AACAGTCCAG
24851826 TGACTTAAAT-AAAACTTTCAAATAGTTCAA
1 TGACTTAAATGAAAACTTTCAAATAGTTCAA
* * * *
24851856 TGACTTACATGAAAACTTTCGAGTAGTTCAG
1 TGACTTAAATGAAAACTTTCAAATAGTTCAA
24851887 TGACT
1 TGACT
24851892 ATTTTGTAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTCAAATAGTTCAA
Found at i:24858603 original size:31 final size:31
Alignment explanation
Indices: 24858565--24858626 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
24858555 CCATATATAA
24858565 ATTAAGTTATATTTGTACAATGATTTTTTTT
1 ATTAAGTTATATTTGTACAATGATTTTTTTT
*
24858596 ATTAAGTTATATTTTTACAATGATTTTTTTT
1 ATTAAGTTATATTTGTACAATGATTTTTTTT
24858627 CTCTTTTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.60
Consensus pattern (31 bp):
ATTAAGTTATATTTGTACAATGATTTTTTTT
Found at i:24870660 original size:11 final size:11
Alignment explanation
Indices: 24870644--24870670 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
24870634 CCACACACGA
24870644 AAGATTCAATC
1 AAGATTCAATC
24870655 AAGATTCAATC
1 AAGATTCAATC
24870666 AAGAT
1 AAGAT
24870671 CCAGATCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (11 bp):
AAGATTCAATC
Found at i:24873678 original size:14 final size:14
Alignment explanation
Indices: 24873659--24873687 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24873649 TATTGGTAAC
24873659 TTCATCTATATAAT
1 TTCATCTATATAAT
24873673 TTCATCTATATAAT
1 TTCATCTATATAAT
24873687 T
1 T
24873688 AAAAATTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (14 bp):
TTCATCTATATAAT
Found at i:24875366 original size:23 final size:21
Alignment explanation
Indices: 24875334--24875383 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
24875324 AAAATACATA
*
24875334 AAATTATTATTTAACCAATTTT
1 AAATTTTTA-TTAACCAATTTT
*
24875356 AATATTTTTATTAATCAATTTT
1 AA-ATTTTTATTAACCAATTTT
24875378 AAATTT
1 AAATTT
24875384 AAAATTTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 15 0.60
23 6 0.24
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATTTTTATTAACCAATTTT
Found at i:24876074 original size:29 final size:30
Alignment explanation
Indices: 24876042--24876099 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
24876032 CTAGATTAAA
* *
24876042 TTAATCTTTCTACTATTAAATA-AATCAAT
1 TTAATCCTTCTACTATTAAAAAGAATCAAT
*
24876071 TTAATCCTTGTACTATTAAAAAGAATCAA
1 TTAATCCTTCTACTATTAAAAAGAATCAA
24876100 ACAACGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (30 bp):
TTAATCCTTCTACTATTAAAAAGAATCAAT
Found at i:24878504 original size:3 final size:3
Alignment explanation
Indices: 24878496--24878528 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
24878486 TCTGATGCCT
24878496 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24878529 CAACAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24880275 original size:21 final size:21
Alignment explanation
Indices: 24880250--24880297 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
24880240 TTAAATAAAA
*
24880250 AAATTATATAT-TTTTATAAT
1 AAATTATATATATTTAATAAT
*
24880270 ATAATT-TATCTATTTAATAAT
1 A-AATTATATATATTTAATAAT
24880291 AAATTAT
1 AAATTAT
24880298 TTTATGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATTATATATATTTAATAAT
Found at i:24880794 original size:3 final size:3
Alignment explanation
Indices: 24880786--24880824 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
24880776 ATGCATCCTA
24880786 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24880825 CCATGTGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24893050 original size:34 final size:35
Alignment explanation
Indices: 24893007--24893165 Score: 180
Period size: 35 Copynumber: 4.6 Consensus size: 35
24892997 AAAAATACCT
* * *
24893007 GGAGAGATTCCCTGCAA-TAAATGATGTGTGAACA
1 GGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
*
24893041 GGAGAGATTCCCTGCAACAAAATAATGCCTGAACA
1 GGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
* * * *
24893076 GGAAAGATTCCC-ACAA-GAAATAATGTGTGAACA
1 GGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
*
24893109 GGGGAGATTCCCTGCAACAAAATAATGCGTGAACA
1 GGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
* * * *
24893144 TGAAATATTCCCTGCAAGAAAA
1 GGAGAGATTCCCTGCAACAAAA
24893166 GACAAGTGAA
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
33 24 0.23
34 23 0.22
35 56 0.54
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (35 bp):
GGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
Found at i:24893110 original size:68 final size:69
Alignment explanation
Indices: 24893011--24893164 Score: 238
Period size: 68 Copynumber: 2.2 Consensus size: 69
24893001 ATACCTGGAG
* *
24893011 AGATTCCCTGCAATAAATGATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCCTGAACA
1 AGATTCCCTGCAAGAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCCTGAACA
24893076 GGAA
66 GGAA
* * *
24893080 AGATTCCC-ACAAGAAATAATGTGTGAACAGGGGAGATTCCCTGCAACAAAATAATGCGTGAACA
1 AGATTCCCTGCAAGAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCCTGAACA
*
24893144 TGAA
66 GGAA
*
24893148 ATATTCCCTGCAAGAAA
1 AGATTCCCTGCAAGAAA
24893165 AGACAAGTGA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
68 61 0.80
69 15 0.20
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (69 bp):
AGATTCCCTGCAAGAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCCTGAACA
GGAA
Found at i:24896038 original size:14 final size:15
Alignment explanation
Indices: 24896016--24896092 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
24896006 CAATCAAACA
24896016 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
24896030 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
24896045 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
24896065 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
24896079 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
24896093 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:24896057 original size:20 final size:20
Alignment explanation
Indices: 24896032--24896071 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24896022 AATATTTTCC
*
24896032 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
24896052 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
24896072 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:24896077 original size:34 final size:35
Alignment explanation
Indices: 24896020--24896086 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
24896010 CAAACACCAG
*
24896020 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
24896055 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
24896087 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:24901537 original size:21 final size:21
Alignment explanation
Indices: 24901512--24901565 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
24901502 CCATTATTTT
*
24901512 TAATCTCACCGCTACAGT-AT
1 TAATCTCACCGCTACAGTAAC
*
24901532 TCAATCTCACCGCTATAGTAAC
1 T-AATCTCACCGCTACAGTAAC
24901554 TAATCTCACCGC
1 TAATCTCACCGC
24901566 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.28
Consensus pattern (21 bp):
TAATCTCACCGCTACAGTAAC
Found at i:24902545 original size:41 final size:41
Alignment explanation
Indices: 24902488--24902572 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
24902478 AAGTGATTCT
*
24902488 ATAAAAAAAATTTTTAAAAATAACTTTTAAGTATTCGATTG
1 ATAAAAAAAAATTTTAAAAATAACTTTTAAGTATTCGATTG
24902529 ATAAAAAAAAATTTTAAAAATAACTTTTAAGTATTCGATTG
1 ATAAAAAAAAATTTTAAAAATAACTTTTAAGTATTCGATTG
24902570 ATA
1 ATA
24902573 TGTAAATTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.38
Consensus pattern (41 bp):
ATAAAAAAAAATTTTAAAAATAACTTTTAAGTATTCGATTG
Done.