Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 35 of 161
Found at i:10711758 original size:41 final size:42
Alignment explanation
Indices: 10711678--10711758 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 42
10711668 TAATATCTAA
* * * **
10711678 TAAATCTAAAATATAATTTTATCTAATTGAACTTGAAAAGTT
1 TAAATCCAAAATATAATTTTATCTAAATAAACTCCAAAAGTT
*
10711720 TAAATCCAAAA-ATAATTTTATCTAAATAAAGTCCAAAAG
1 TAAATCCAAAATATAATTTTATCTAAATAAACTCCAAAAG
10711759 CTCAAAGCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 23 0.70
42 10 0.30
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (42 bp):
TAAATCCAAAATATAATTTTATCTAAATAAACTCCAAAAGTT
Found at i:10723206 original size:12 final size:12
Alignment explanation
Indices: 10723191--10723216 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10723181 TCCATTTGAG
10723191 TTTTTGTTTGCT
1 TTTTTGTTTGCT
10723203 TTTTTGTTTGCT
1 TTTTTGTTTGCT
10723215 TT
1 TT
10723217 ATTAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTGCT
Found at i:10723765 original size:37 final size:37
Alignment explanation
Indices: 10723715--10723787 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
10723705 CAGCCGGGTT
*
10723715 GTGGAGGGTCAATGCCAACTCCCGAAAATCCAAACAC
1 GTGGAGGGTCAATGCCAACTCCCAAAAATCCAAACAC
10723752 GTGGAGGGTCAATGCCAACTCCCAAAAATCCAAACA
1 GTGGAGGGTCAATGCCAACTCCCAAAAATCCAAACA
10723788 TCGGTAGATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.37, C:0.29, G:0.21, T:0.14
Consensus pattern (37 bp):
GTGGAGGGTCAATGCCAACTCCCAAAAATCCAAACAC
Found at i:10727516 original size:22 final size:22
Alignment explanation
Indices: 10727491--10727539 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
10727481 AGTCAATAAT
*
10727491 GTGGCAGAGGCTAGGAGCGACG
1 GTGGCAGAGGCGAGGAGCGACG
*
10727513 GTGGCAGAGGCGAGGAGCGGCG
1 GTGGCAGAGGCGAGGAGCGACG
10727535 GTGGC
1 GTGGC
10727540 GCAAGTTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.18, G:0.55, T:0.08
Consensus pattern (22 bp):
GTGGCAGAGGCGAGGAGCGACG
Found at i:10727954 original size:44 final size:44
Alignment explanation
Indices: 10727888--10728244 Score: 340
Period size: 44 Copynumber: 7.8 Consensus size: 44
10727878 CTTTAGAGGT
* * * *
10727888 ATAAAATTTGTTGCTTTAATCTACTCCACTACAACTTCAGGGAG
1 ATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAG
* *
10727932 ATAAGACTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAG
1 ATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAG
* * * * *
10727976 ATAAAATTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGAAG
1 ATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAG
* * * *
10728020 ACAAGATTTGTAACTTCAATCTACTCCACCGCAACTTCAGGAAG
1 ATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAG
* * * * *
10728064 ATAAGATTTGTAACTTATAGCTTTAATCTATTCCACTGCAACTTTAAGGAA
1 ATAAGATTTG-------TAGCTTCAATCTACTCCACTGCAACTTCAGGGAG
* *
10728115 ATAAGATTAGCT-GTCTTCAATCTACTCCATTGCAACTTCAGGGAG
1 ATAAGATTTG-TAG-CTTCAATCTACTCCACTGCAACTTCAGGGAG
*
10728160 ATAAGATTT-TAGCTGTCTTCAATCTACTCCATTGCAACTTCAGGGAG
1 ATAAGATTTGTA---G-CTTCAATCTACTCCACTGCAACTTCAGGGAG
** *
10728207 ATAAGATTTGTTATTTTCAATCTGCTCCACTGCAACTT
1 ATAAGATTTG-TAGCTTCAATCTACTCCACTGCAACTT
10728245 GTAGCTTGAA
Statistics
Matches: 259, Mismatches: 40, Indels: 27
0.79 0.12 0.08
Matches are distributed among these distances:
43 1 0.00
44 124 0.48
45 55 0.21
47 42 0.16
49 2 0.01
51 35 0.14
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (44 bp):
ATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAG
Found at i:10728241 original size:92 final size:90
Alignment explanation
Indices: 10727903--10728244 Score: 384
Period size: 88 Copynumber: 3.7 Consensus size: 90
10727893 ATTTGTTGCT
* * *
10727903 TTAATCTACTCCACTACAACTTCAGGGAGATAAGACTTGTAGCTTCAATCTACTCCACTGCAACT
1 TTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTACTCCACTGCAACT
* *
10727968 TTAGGGAGATAAAATTTGTAAC-T-
66 TCAGGGAGATAAGATTTGTAACTTC
* * * * *
10727991 TTAATCTGCTCCACTGCAACTTCAGGAAGACAAGATTTGTAACTTCAATCTACTCCACCGCAACT
1 TTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTACTCCACTGCAACT
*
10728056 TCAGGAAGATAAGATTTGTAACTTATAGC
66 TCAGGGAGATAAGATTTGTAAC-T-T--C
* * * * * * *
10728085 TTTAATCTATTCCACTGCAACTTTAAGGAAATAAGATTAGCTGTCTTCAATCTACTCCATTGCAA
1 -TTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTACTCCACTGCAA
*
10728150 CTTCAGGGAGATAAGATTT-TAGCTGTC
64 CTTCAGGGAGATAAGATTTGTAACT-TC
* * *
10728177 TTCAATCTACTCCATTGCAACTTCAGGGAGATAAGATTTGTTATTTTCAATCTGCTCCACTGCAA
1 TT-AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTACTCCACTGCAA
10728242 CTT
64 CTT
10728245 GTAGCTTGAA
Statistics
Matches: 209, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
88 77 0.37
91 3 0.01
92 55 0.26
94 2 0.01
95 34 0.16
96 38 0.18
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (90 bp):
TTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTACTCCACTGCAACT
TCAGGGAGATAAGATTTGTAACTTC
Found at i:10728370 original size:44 final size:45
Alignment explanation
Indices: 10728275--10728649 Score: 190
Period size: 44 Copynumber: 8.3 Consensus size: 45
10728265 TGAAGTGGAA
* * *
10728275 ATAAGATTAGCTATCTTCAATCTACTCCACTGCAACTTCAGGGGG
1 ATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTCAGGGGG
* *
10728320 ATAAGATTTGTTATTTTCAATCTA-TTCACTACAACTTC-GGGGAG
1 ATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTCAGGGG-G
* * * ** ** **
10728364 ATAAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTGTAACTTCAGGGAA
1 ATAAGATTTG-----T-TATCTTCAATCTACTCCACTACAACTTCAGGGGG
* * * * * ** *
10728415 ATAAAATTCGCTATCTTCAATCTGCTCCACTACAACTTTAAAGAG
1 ATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTCAGGGGG
* * * * * * * *
10728460 ATGAGACTCG-TAGCTTTAATCTACTCCACTGCAACTTCAAGGAG
1 ATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTCAGGGGG
* * * **
10728504 ATAAGATTTG-TAGT-TTAAATCTGCTCCACTGCAACTTCAGGGAT
1 ATAAGATTTGTTA-TCTTCAATCTACTCCACTACAACTTCAGGGGG
* * * * *
10728548 ATAAGATTT-ATAGT-TTTAATCTACTCTACTGCAACTTCAGGGAG
1 ATAAGATTTGTTA-TCTTCAATCTACTCCACTACAACTTCAGGGGG
* ** * * * *
10728592 ATAAGATTT-ATGGCTTTAATATGCTCCACTACAACTTCAGGGAG
1 ATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTCAGGGGG
10728636 ATAAGATTTGTTAT
1 ATAAGATTTGTTAT
10728650 GATGACTTCA
Statistics
Matches: 259, Mismatches: 58, Indels: 26
0.76 0.17 0.08
Matches are distributed among these distances:
43 4 0.02
44 171 0.66
45 53 0.20
49 1 0.00
50 8 0.03
51 19 0.07
52 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (45 bp):
ATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTCAGGGGG
Found at i:10728495 original size:140 final size:135
Alignment explanation
Indices: 10728240--10728515 Score: 304
Period size: 140 Copynumber: 2.0 Consensus size: 135
10728230 GCTCCACTGC
*
10728240 AACTTGTAGCTTGAATCTGTTCCACTGAAGTGGAAATAAGATTAGCTATCTTCAATCTACTCCAC
1 AACTTGTAGCTTGAATCTGTTCCACTGAAGTGGAAATAAAATTAGCTATCTTCAATCTACTCCAC
* ** * * * * * **
10728305 TGCAACTTCAGGGGGATAAGATTTGTTATTTTCAATCTATTCACTACAACTTCGGGGAGATAAGA
66 TACAACTTCAAAGAGATAAGACTCGTTACTTTCAATCTATCCACTACAACTTCAAGGAGATAAGA
10728370 TTTGT
131 TTTGT
* * * * *
10728375 AACTTGTAGCTTTAATTTGTTCCACTGTAACTTCAGGGAAATAAAATTCGCTATCTTCAATCTGC
1 AACTTGTAGCTTGAATCTGTTCCACTG-AA-GT---GGAAATAAAATTAGCTATCTTCAATCTAC
* * *
10728440 TCCACTACAACTTTAAAGAGATGAGACTCG-TAGCTTT-AATCTACTCCACTGCAACTTCAAGGA
61 TCCACTACAACTTCAAAGAGATAAGACTCGTTA-CTTTCAATCTA-TCCACTACAACTTCAAGGA
10728503 GATAAGATTTGT
124 GATAAGATTTGT
10728515 A
1 A
10728516 GTTTAAATCT
Statistics
Matches: 115, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
135 25 0.22
136 2 0.02
137 1 0.01
139 8 0.07
140 79 0.69
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (135 bp):
AACTTGTAGCTTGAATCTGTTCCACTGAAGTGGAAATAAAATTAGCTATCTTCAATCTACTCCAC
TACAACTTCAAAGAGATAAGACTCGTTACTTTCAATCTATCCACTACAACTTCAAGGAGATAAGA
TTTGT
Found at i:10728567 original size:88 final size:88
Alignment explanation
Indices: 10728437--10728644 Score: 265
Period size: 88 Copynumber: 2.4 Consensus size: 88
10728427 ATCTTCAATC
* ** * * ** *
10728437 TGCTCCACTACAACTTTAAAGAGATGAGACTCGTAGCTTTAATCTACTCCACTGCAACTTCAAGG
1 TGCTCCACTACAACTTCAGGGAGATAAGATTTATAGTTTTAATCTACTCCACTGCAACTTCAAGG
* *
10728502 AGATAAGATTTGTAG-TTTAAATC
66 AGATAAGATTTATAGCTTT-AATA
* * * *
10728525 TGCTCCACTGCAACTTCAGGGATATAAGATTTATAGTTTTAATCTACTCTACTGCAACTTCAGGG
1 TGCTCCACTACAACTTCAGGGAGATAAGATTTATAGTTTTAATCTACTCCACTGCAACTTCAAGG
*
10728590 AGATAAGATTTATGGCTTTAATA
66 AGATAAGATTTATAGCTTTAATA
10728613 TGCTCCACTACAACTTCAGGGAGATAAGATTT
1 TGCTCCACTACAACTTCAGGGAGATAAGATTT
10728645 GTTATGATGA
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 99 0.97
89 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (88 bp):
TGCTCCACTACAACTTCAGGGAGATAAGATTTATAGTTTTAATCTACTCCACTGCAACTTCAAGG
AGATAAGATTTATAGCTTTAATA
Found at i:10737071 original size:5 final size:5
Alignment explanation
Indices: 10737063--10737091 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
10737053 TTATTTTTTA
10737063 TTTGG TTTGG TTTGG TTTGG TTT-G TTTGG
1 TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG
10737092 GCCCGGACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.00, C:0.00, G:0.38, T:0.62
Consensus pattern (5 bp):
TTTGG
Found at i:10738235 original size:28 final size:26
Alignment explanation
Indices: 10738204--10738255 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
10738194 AAAATTGGAA
* *
10738204 TGAAATGATATTTAAATTTAATAGAAAT
1 TGAAATG-TATATAAAATTAA-AGAAAT
10738232 TGAAATGTATATAAAATTAAAGAA
1 TGAAATGTATATAAAATTAAAGAA
10738256 GGGAAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 11 0.50
28 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.35
Consensus pattern (26 bp):
TGAAATGTATATAAAATTAAAGAAAT
Found at i:10738465 original size:12 final size:11
Alignment explanation
Indices: 10738400--10738464 Score: 51
Period size: 12 Copynumber: 5.7 Consensus size: 11
10738390 AGTTTTAAAT
*
10738400 AAATAAAAGTG
1 AAATAAAATTG
*
10738411 AAATGAAAGTTG
1 AAAT-AAAATTG
*
10738423 AAAT-GAATATG
1 AAATAAAAT-TG
* *
10738434 AAATTAAATTA
1 AAATAAAATTG
10738445 AAATAAAAATTG
1 AAAT-AAAATTG
10738457 AAATAAAA
1 AAATAAAA
10738465 AAATGAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
10 2 0.05
11 19 0.45
12 21 0.50
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (11 bp):
AAATAAAATTG
Found at i:10738502 original size:22 final size:20
Alignment explanation
Indices: 10738474--10738675 Score: 122
Period size: 22 Copynumber: 9.2 Consensus size: 20
10738464 AAAATGAATT
10738474 TGAAAAAAGAATAAATTGAAA
1 TGAAAAAA-AATAAATTGAAA
*
10738495 TGAGAAAAAAAATAAATTGAGA
1 T--GAAAAAAAATAAATTGAAA
* *
10738517 TGAGAAAAAATAAATTTAAA
1 TGAAAAAAAATAAATTGAAA
*
10738537 TGAAATGAAATTCGAAATGAATATGAAA
1 TG-AA--AAA----AAATAAAT-TGAAA
*
10738565 TGAAAATAAATTCTAAATTGAAA
1 TGAAAA-AAA--ATAAATTGAAA
10738588 TGAAAAATGAAATAAATTGAAA
1 TGAAAAA--AAATAAATTGAAA
*
10738610 T-AAGACAAAA-AAATT-AATA
1 TGAA-AAAAAATAAATTGAA-A
*
10738629 TGAAAAAAACTTAAATTGAAA
1 TGAAAAAAA-ATAAATTGAAA
*
10738650 TGAAAAAGAAAATAAATTTAAA
1 TG-AAAA-AAAATAAATTGAAA
10738672 TGAA
1 TGAA
10738676 TTGAAATGTG
Statistics
Matches: 143, Mismatches: 15, Indels: 46
0.70 0.07 0.23
Matches are distributed among these distances:
18 2 0.01
19 11 0.08
20 23 0.16
21 14 0.10
22 45 0.31
23 24 0.17
24 6 0.04
25 2 0.01
26 1 0.01
27 9 0.06
28 6 0.04
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.23
Consensus pattern (20 bp):
TGAAAAAAAATAAATTGAAA
Found at i:10738545 original size:128 final size:132
Alignment explanation
Indices: 10738396--10738712 Score: 339
Period size: 128 Copynumber: 2.4 Consensus size: 132
10738386 ATTAAGTTTT
* * *
10738396 AAATAAA-TAAAAGTGAAATGAAAGTTGAAATGAATATGAAATTAAATTAAAATAAAAATTGAAA
1 AAATAAATTTAAA-TGAAATGAAA-TTGAAATGAATATGAAATGAAAATAAAATAAAAATTGAAA
* * * *
10738460 T-AAAA-AAATGAATTTGAAA-AA-A-GAATAAATTGAA-ATGAGAAAAAAAATAAATTGAGATG
64 TAAAAAGAAAT-AAATTGAAATAAGACAAAAAAATT-AATATGA-AAAAAAAATAAATTGAAATG
*
10738519 -AGAA-A
126 AAAAAGA
* **
10738524 AAATAAATTTAAATGAAATGAAATTCGAAATGAATATGAAATGAAAATAAATTCTAAATTGAAAT
1 AAATAAATTTAAATGAAATGAAATT-GAAATGAATATGAAATGAAAATAAAATAAAAATTGAAAT
**
10738589 GAAAAATGAAATAAATTGAAATAAGACAAAAAAATTAATATGAAAAAAACTTAAATTGAAATGAA
65 -AAAAA-GAAATAAATTGAAATAAGACAAAAAAATTAATATGAAAAAAAAATAAATTGAAATGAA
10738654 AAAGA
128 AAAGA
*
10738659 AAATAAATTTAAATGAATTGAAATGTGAAATGAA-ATGAAATGAGAAATGAAAAT
1 AAATAAATTTAAATGAAATGAAAT-TGAAATGAATATGAAATGA-AAAT-AAAAT
10738713 TGAAATGAAA
Statistics
Matches: 159, Mismatches: 15, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
127 2 0.01
128 51 0.32
129 4 0.03
130 4 0.03
131 8 0.05
132 6 0.04
133 20 0.13
134 23 0.14
135 36 0.23
136 5 0.03
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (132 bp):
AAATAAATTTAAATGAAATGAAATTGAAATGAATATGAAATGAAAATAAAATAAAAATTGAAATA
AAAAGAAATAAATTGAAATAAGACAAAAAAATTAATATGAAAAAAAAATAAATTGAAATGAAAAA
GA
Found at i:10738565 original size:28 final size:27
Alignment explanation
Indices: 10738534--10738610 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 27
10738524 AAATAAATTT
10738534 AAATGAAATGAAATTCGAAATGAATATG-
1 AAATGAAAT-AAATTCGAAATGAA-ATGA
*
10738562 AAATGAAAATAAATTCTAAATTGAAATGAA
1 AAATG-AAATAAATTCGAAA-TGAAATG-A
10738592 AAATGAAATAAATT-GAAAT
1 AAATGAAATAAATTCGAAAT
10738611 AAGACAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
27 1 0.02
28 20 0.47
29 17 0.40
30 5 0.12
ACGTcount: A:0.58, C:0.03, G:0.13, T:0.26
Consensus pattern (27 bp):
AAATGAAATAAATTCGAAATGAAATGA
Found at i:10738571 original size:17 final size:17
Alignment explanation
Indices: 10738534--10738723 Score: 62
Period size: 17 Copynumber: 11.2 Consensus size: 17
10738524 AAATAAATTT
10738534 AAATGAA-ATGAAATTCG-
1 AAATGAATATGAAA-T-GA
10738551 AAATGAATATGAAATGA
1 AAATGAATATGAAATGA
* *
10738568 AAATAAAT-TCTAAATTG-
1 AAATGAATAT-GAAA-TGA
*
10738585 AAATGAAAAATGAAAT-A
1 AAATG-AATATGAAATGA
* * *
10738602 AATTGAAATAAGACAA-AA
1 AAATG-AATATGA-AATGA
*
10738620 AAATTAATATGAAA--A
1 AAATGAATATGAAATGA
*
10738635 AAACTTAA-ATTGAAATGA
1 AAA-TGAATA-TGAAATGA
* * **
10738653 AAAAGAAAAT-AAATTT
1 AAATGAATATGAAATGA
*
10738669 AAATGAAT-TGAAATGTG
1 AAATGAATATGAAATG-A
10738686 AAATGAA-ATGAAATGA
1 AAATGAATATGAAATGA
*
10738702 GAAATGAAAATTGAAATGA
1 -AAATGAATA-TGAAATGA
10738721 AAA
1 AAA
10738724 AAATAAAATT
Statistics
Matches: 133, Mismatches: 20, Indels: 39
0.69 0.10 0.20
Matches are distributed among these distances:
15 6 0.05
16 27 0.20
17 63 0.47
18 28 0.21
19 9 0.07
ACGTcount: A:0.61, C:0.02, G:0.14, T:0.24
Consensus pattern (17 bp):
AAATGAATATGAAATGA
Found at i:10738660 original size:27 final size:27
Alignment explanation
Indices: 10738630--10738681 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
10738620 AAATTAATAT
10738630 GAAAA-AAACTTAAATTGAAATGAAAAA
1 GAAAATAAACTTAAA-TGAAATGAAAAA
* *
10738657 GAAAATAAATTTAAATGAATTGAAA
1 GAAAATAAACTTAAATGAAATGAAA
10738682 TGTGAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (27 bp):
GAAAATAAACTTAAATGAAATGAAAAA
Found at i:10738692 original size:12 final size:11
Alignment explanation
Indices: 10738641--10738722 Score: 62
Period size: 12 Copynumber: 7.3 Consensus size: 11
10738631 AAAAAAACTT
10738641 AAATTGAAATG
1 AAATTGAAATG
**
10738652 AAAAAGAAAAT-
1 AAATTG-AAATG
*
10738663 AAATTTAAATG
1 AAATTGAAATG
10738674 -AATTGAAATGTG
1 AAATTGAAA--TG
10738686 AAA-TGAAATG
1 AAATTGAAATG
*
10738696 AAATGAGAAATG
1 AAAT-TGAAATG
10738708 AAAATTGAAATG
1 -AAATTGAAATG
10738720 AAA
1 AAA
10738723 AAAATAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
10 16 0.29
11 10 0.18
12 23 0.42
13 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (11 bp):
AAATTGAAATG
Found at i:10738914 original size:17 final size:17
Alignment explanation
Indices: 10738875--10738915 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
10738865 GAAATTTAAC
10738875 ATTTTAAAATGGAATGAA
1 ATTTTAAAATGGAA-GAA
10738893 A-TTTAAAATGAGAA-AA
1 ATTTTAAAATG-GAAGAA
10738909 ATTTTAA
1 ATTTTAA
10738916 TTAAATAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 14 0.67
18 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (17 bp):
ATTTTAAAATGGAAGAA
Found at i:10738949 original size:11 final size:11
Alignment explanation
Indices: 10738933--10738981 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
10738923 AGACAAAATT
10738933 TGAAATGAATA
1 TGAAATGAATA
*
10738944 TGAAATGATATT
1 TGAAATGA-ATA
*
10738956 TGAAATGAACA
1 TGAAATGAATA
10738967 TGAAATGAA-A
1 TGAAATGAATA
10738977 TGAAA
1 TGAAA
10738982 GTTGAAATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 6 0.18
11 18 0.53
12 10 0.29
ACGTcount: A:0.53, C:0.02, G:0.18, T:0.27
Consensus pattern (11 bp):
TGAAATGAATA
Found at i:10738951 original size:5 final size:5
Alignment explanation
Indices: 10738933--10738992 Score: 57
Period size: 5 Copynumber: 10.8 Consensus size: 5
10738923 AGACAAAATT
*
10738933 TGAAA TGAATA TGAAA TGATATT TGAAA TGAACA TGAAA TGAAA TGAAA
1 TGAAA TGAA-A TGAAA TGA-A-A TGAAA TGAA-A TGAAA TGAAA TGAAA
10738982 GTTGAAA TGAA
1 --TGAAA TGAA
10738993 TATAAGATGA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
5 27 0.57
6 12 0.26
7 8 0.17
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.27
Consensus pattern (5 bp):
TGAAA
Found at i:10738956 original size:23 final size:23
Alignment explanation
Indices: 10738930--10738974 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
10738920 ATAAGACAAA
*
10738930 ATTTGAAATGAATATGAAATGAT
1 ATTTGAAATGAACATGAAATGAT
10738953 ATTTGAAATGAACATGAAATGA
1 ATTTGAAATGAACATGAAATGA
10738975 AATGAAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.31
Consensus pattern (23 bp):
ATTTGAAATGAACATGAAATGAT
Found at i:10739004 original size:28 final size:28
Alignment explanation
Indices: 10738933--10738992 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
10738923 AGACAAAATT
* *
10738933 TGAA-ATGAATATGAAATGATATTTGAAA
1 TGAACATGAA-ATGAAATGAAAGTTGAAA
10738961 TGAACATGAAATGAAATGAAAGTTGAAA
1 TGAACATGAAATGAAATGAAAGTTGAAA
10738989 TGAA
1 TGAA
10738993 TATAAGATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 24 0.83
29 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.27
Consensus pattern (28 bp):
TGAACATGAAATGAAATGAAAGTTGAAA
Found at i:10739077 original size:21 final size:21
Alignment explanation
Indices: 10739053--10739106 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
10739043 ATGAAAAAAG
*
10739053 AATTGAAATGAGAAAAAATTA
1 AATTGAAATGAAAAAAAATTA
* * *
10739074 AATTTAGATGAAAAAAAAATTT
1 AATTGAAATG-AAAAAAAATTA
10739096 AA-TGAAATGAA
1 AATTGAAATGAA
10739107 GTTTGAAATG
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.08
21 13 0.50
22 11 0.42
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (21 bp):
AATTGAAATGAAAAAAAATTA
Found at i:10739137 original size:33 final size:33
Alignment explanation
Indices: 10739068--10739160 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
10739058 AAATGAGAAA
* * *
10739068 AAATTAAATTT-AGATGAAAAAAAAATTTAATG
1 AAATGAAATTTGAAATGAAAAAAAAATGTAATG
* ** *
10739100 AAATGAAGTTTGAAATGAAAATGAAATGTAATT
1 AAATGAAATTTGAAATGAAAAAAAAATGTAATG
10739133 AAATGAAATTTGAAATGAAAAAAAAATG
1 AAATGAAATTTGAAATGAAAAAAAAATG
10739161 ACAAGACATA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 9 0.18
33 41 0.82
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (33 bp):
AAATGAAATTTGAAATGAAAAAAAAATGTAATG
Found at i:10739152 original size:12 final size:11
Alignment explanation
Indices: 10739098--10739152 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 11
10739088 AAAAATTTAA
*
10739098 TGAAATGAAGTT
1 TGAAATGAA-AT
*
10739110 TGAAATGAAAA
1 TGAAATGAAAT
*
10739121 TGAAATGTAAT
1 TGAAATGAAAT
10739132 T-AAATGAAATT
1 TGAAATGAAA-T
10739143 TGAAATGAAA
1 TGAAATGAAA
10739153 AAAAAATGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 7 0.19
11 12 0.33
12 17 0.47
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (11 bp):
TGAAATGAAAT
Found at i:10745015 original size:19 final size:18
Alignment explanation
Indices: 10744983--10745019 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10744973 CTGAGGTGTC
10744983 TAAAGTGTTCTTGAAGTT
1 TAAAGTGTTCTTGAAGTT
*
10745001 TAAAGCTGTTGTTGAAGTT
1 TAAAG-TGTTCTTGAAGTT
10745020 GAAGCAGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.43
Consensus pattern (18 bp):
TAAAGTGTTCTTGAAGTT
Found at i:10750328 original size:67 final size:67
Alignment explanation
Indices: 10750220--10750348 Score: 240
Period size: 67 Copynumber: 1.9 Consensus size: 67
10750210 TTTTCAATTC
*
10750220 AGAGAGCACACTCCCACGAACCTCATTTCTTACAGCGGGATTACTAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCACGAACCTCATTTCTTACAACGGGATTACTAGTCCAGGCTAAATCCCCTG
10750285 CA
66 CA
*
10750287 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAACGGGATTACTAGTCCAGGCTAAATCCC
1 AGAGAGCACACTCCCACGAACCTCATTTCTTACAACGGGATTACTAGTCCAGGCTAAATCCC
10750349 ATGTAATATA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCACGAACCTCATTTCTTACAACGGGATTACTAGTCCAGGCTAAATCCCCTG
CA
Found at i:10750571 original size:57 final size:57
Alignment explanation
Indices: 10750478--10750586 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 57
10750468 AATTCGGATT
* *
10750478 ACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCAAGATC
1 ACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCGAGAGGGCTATATCAAGATC
* *
10750535 ACCCATCCGGGCTAGAT-CTTTTTCACACATATTCTTCGAGAGGGCTATATCA
1 ACCCATCCGGGCTAAATCCATTTTC-CACATATTCTTCGAGAGGGCTATATCA
10750587 GAATAGAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
56 6 0.13
57 41 0.87
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (57 bp):
ACCCATCCGGGCTAAATCCATTTTCCACATATTCTTCGAGAGGGCTATATCAAGATC
Found at i:10754898 original size:14 final size:14
Alignment explanation
Indices: 10754879--10754918 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
10754869 TTGATTGGCT
10754879 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
10754893 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
10754907 GGAAAATGTTTT
1 GTAAAATGTTTT
10754919 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:10754931 original size:34 final size:35
Alignment explanation
Indices: 10754887--10754953 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
10754877 CTGTAAAATG
* * *
10754887 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
*
10754921 TTTTCTGTAAAATGACTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTAGAAAATATTTT
10754954 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTAGAAAATATTTTAC
Found at i:10754940 original size:20 final size:20
Alignment explanation
Indices: 10754902--10754941 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10754892 CGTAAAATGA
**
10754902 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
10754922 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
10754942 AGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:10764911 original size:66 final size:66
Alignment explanation
Indices: 10764805--10764935 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
10764795 CAAAAGGTTT
* *
10764805 TGGTAGTGTTGGCATTGGCATCAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGGCATTGGCATCAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
10764870 G
66 G
* * *
10764871 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATCTAATTTGAACTCAAAT
1 TGGTAGTGTTGGCATTGGCATCAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
10764936 CACATTTGCG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (66 bp):
TGGTAGTGTTGGCATTGGCATCAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
G
Found at i:10764957 original size:21 final size:21
Alignment explanation
Indices: 10764931--10765007 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
10764921 AATTTGAACT
10764931 CAAATCACATTTGCGGTCACC
1 CAAATCACATTTGCGGTCACC
* * **** * *
10764952 CAAATCATATCTAATTTGAGCT
1 CAAATCACATTTGCGGTCA-CC
10764974 CAAATCACATTTGCGGTCACC
1 CAAATCACATTTGCGGTCACC
*
10764995 CAAATCATATTTG
1 CAAATCACATTTG
10765008 AGGTGATAAA
Statistics
Matches: 38, Mismatches: 17, Indels: 2
0.67 0.30 0.04
Matches are distributed among these distances:
21 25 0.66
22 13 0.34
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (21 bp):
CAAATCACATTTGCGGTCACC
Found at i:10764965 original size:43 final size:43
Alignment explanation
Indices: 10764917--10765004 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
10764907 CTTACTATGA
10764917 ATCTAATTTGAACTCAAATCACATTTGCGGTCACCCAAATCAT
1 ATCTAATTTGAACTCAAATCACATTTGCGGTCACCCAAATCAT
*
10764960 ATCTAATTTGAGCTCAAATCACATTTGCGGTCACCCAAATCAT
1 ATCTAATTTGAACTCAAATCACATTTGCGGTCACCCAAATCAT
10765003 AT
1 AT
10765005 TTGAGGTGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (43 bp):
ATCTAATTTGAACTCAAATCACATTTGCGGTCACCCAAATCAT
Found at i:10765246 original size:16 final size:16
Alignment explanation
Indices: 10765219--10765252 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
10765209 ATTTTAGTAA
10765219 ATTATATAAGAATATTT
1 ATTATATAAGAAT-TTT
10765236 ATTAT-TAAGAATTTT
1 ATTATATAAGAATTTT
10765251 AT
1 AT
10765253 GAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATATAAGAATTTT
Found at i:10765346 original size:16 final size:16
Alignment explanation
Indices: 10765325--10765371 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
10765315 ATAAGAAAAT
10765325 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
10765341 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
10765356 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
10765372 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:10765351 original size:15 final size:15
Alignment explanation
Indices: 10765325--10765371 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
10765315 ATAAGAAAAT
10765325 ATATATTTTAATTATA
1 ATATA-TTTAATTATA
*
10765341 ATATATTTAATAATA
1 ATATATTTAATTATA
10765356 AT-TATGTTAAATTATA
1 ATATAT-TT-AATTATA
10765372 TTTTATAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 3 0.11
15 13 0.48
16 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:10765460 original size:18 final size:17
Alignment explanation
Indices: 10765432--10765466 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10765422 ATTATTAAGA
*
10765432 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
10765449 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
10765467 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:10765719 original size:45 final size:44
Alignment explanation
Indices: 10765630--10765719 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 44
10765620 ACCTCTATTC
* * *
10765630 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCGCTATTCAATTA
*** *
10765674 CATTCAACCAAACAGTTGATTTGCTATTACACCGCTATTCAATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCGCTATTCAATTA
10765719 C
1 C
10765720 GCCTCTATTC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 16 0.42
45 22 0.58
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCGCTATTCAATTA
Found at i:10765746 original size:16 final size:16
Alignment explanation
Indices: 10765708--10765747 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
10765698 TATTACACCG
*
10765708 CTATTCAATTACGCCT
1 CTATTCCATTACGCCT
10765724 CTATTCCATTACGCCT
1 CTATTCCATTACGCCT
10765740 CTATTCCA
1 CTATTCCA
10765748 ATACAACGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.38
Consensus pattern (16 bp):
CTATTCCATTACGCCT
Found at i:10766826 original size:12 final size:12
Alignment explanation
Indices: 10766811--10766835 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10766801 AAATAAAAAC
10766811 TTTTAAATAGTT
1 TTTTAAATAGTT
10766823 TTTTAAATAGTT
1 TTTTAAATAGTT
10766835 T
1 T
10766836 GGTGATCATT
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:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TTTTAAATAGTT
Found at i:10772140 original size:27 final size:27
Alignment explanation
Indices: 10772099--10772168 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
10772089 TGGCGCCTAT
*
10772099 CTGGGAGGCGTCAATGGTGGTGTC-TAC
1 CTGGGAGGCGCCAATGGTGGTGTCAT-C
* *
10772126 CTGGGAGGCGCCAATGGTTGTGTCATT
1 CTGGGAGGCGCCAATGGTGGTGTCATC
*
10772153 CTGAGAGGCGCCAATG
1 CTGGGAGGCGCCAATG
10772169 CTATTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.39, T:0.24
Consensus pattern (27 bp):
CTGGGAGGCGCCAATGGTGGTGTCATC
Found at i:10775594 original size:6 final size:6
Alignment explanation
Indices: 10775579--10775640 Score: 88
Period size: 6 Copynumber: 10.3 Consensus size: 6
10775569 AGAATGTAGT
* * *
10775579 TCTGGG TCTGGC TCTGGC TCTGGC TCTGGC TCTAGC TCTAGC TCTGGC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
*
10775627 TTTGGC TCTGGC TC
1 TCTGGC TCTGGC TC
10775641 CGGTGCATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.03, C:0.31, G:0.31, T:0.35
Consensus pattern (6 bp):
TCTGGC
Found at i:10777296 original size:16 final size:15
Alignment explanation
Indices: 10777265--10777306 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
10777255 ACAAAATCAA
10777265 ATAAAATTTAATTAT
1 ATAAAATTTAATTAT
10777280 ATAAAATTTACATTAT
1 ATAAAATTTA-ATTAT
*
10777296 ATAAAAATTAA
1 ATAAAATTTAA
10777307 ATGAGTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAAATTTAATTAT
Found at i:10777386 original size:38 final size:38
Alignment explanation
Indices: 10777343--10777424 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
10777333 AAAAAGTCAG
10777343 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
*
10777381 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
10777419 TTATAA
1 TTATAA
10777425 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:10777534 original size:60 final size:60
Alignment explanation
Indices: 10777458--10777579 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
10777448 ATACTAAACT
* * * * * *
10777458 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATT-AATTATAAAATAATTAC
*
10777518 AAACACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
10777578 AA
1 AA
10777580 TATTCATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 4 0.07
60 50 0.93
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:10777652 original size:22 final size:22
Alignment explanation
Indices: 10777620--10777991 Score: 274
Period size: 22 Copynumber: 16.9 Consensus size: 22
10777610 ATATTCCCAC
10777620 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
*
10777642 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
10777668 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
*
10777691 ATTATAATATTCATAC---AAA
1 ATTACAATATTCATACAAAAAA
10777710 ATTACAATATTCATAC-AAAAA
1 ATTACAATATTCATACAAAAAA
* *** *
10777731 ATTACAATATTACAATATATTCCCAC
1 ATTACAATATT-C-ATACA--AAAAA
10777757 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
*
10777779 ATTGCAATATTCATACAAAATTATAA
1 ATTACAATATTCATAC-AAA--A-AA
10777805 TATTACAATATTCATACAAAAAA
1 -ATTACAATATTCATACAAAAAA
*
10777828 ATTATAATATTCATAC---AAA
1 ATTACAATATTCATACAAAAAA
10777847 ATTACAATATTCATAC-AAAAA
1 ATTACAATATTCATACAAAAAA
* * * * *
10777868 ATTACTA-ATCCA-AGACTATAA
1 ATTACAATATTCATACA-AAAAA
* * *
10777889 A-TACAA-ATTTAATTATAAAATA
1 ATTACAATA-TTCA-TACAAAAAA
* * *
10777911 TTTACCATATTCATAC---AAC
1 ATTACAATATTCATACAAAAAA
10777930 ATTACAATATTCAT--AAAAAA
1 ATTACAATATTCATACAAAAAA
*
10777950 ATTATAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAA
*
10777972 ATTAAAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
10777992 TTCTAATCTA
Statistics
Matches: 278, Mismatches: 41, Indels: 62
0.73 0.11 0.16
Matches are distributed among these distances:
19 50 0.18
20 24 0.09
21 29 0.10
22 91 0.33
23 22 0.08
24 7 0.03
25 3 0.01
26 22 0.08
27 30 0.11
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (22 bp):
ATTACAATATTCATACAAAAAA
Found at i:10777677 original size:49 final size:49
Alignment explanation
Indices: 10777573--10777857 Score: 314
Period size: 49 Copynumber: 6.1 Consensus size: 49
10777563 TTATAAAATA
* * *
10777573 ATTACAATATTCATAC-AAAAAATTACAATA-T--TACAATATATTCCCAC
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAA-A-ATTACAAT
* *
10777620 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAAT
*
10777669 ATTACAATATTCATACAAAAAAATTATAATATTCATAC------A-AA-
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAAT
* * *
10777710 ATTACAATATTCATAC-AAAAAATTACAATA-T--TACAATATATTCCCAC
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAA-A-ATTACAAT
* *
10777757 ATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAAT
*
10777806 ATTACAATATTCATACAAAAAAATTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAAT
10777855 ATT
1 ATT
10777858 CATACAAAAA
Statistics
Matches: 202, Mismatches: 18, Indels: 34
0.80 0.07 0.13
Matches are distributed among these distances:
37 3 0.01
39 1 0.00
40 13 0.06
41 16 0.08
42 2 0.01
43 1 0.00
46 1 0.00
47 32 0.16
48 26 0.13
49 95 0.47
50 2 0.01
51 10 0.05
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.33
Consensus pattern (49 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAAT
Found at i:10777729 original size:137 final size:137
Alignment explanation
Indices: 10777572--10777872 Score: 602
Period size: 137 Copynumber: 2.2 Consensus size: 137
10777562 ATTATAAAAT
10777572 AATTACAATATTCATACAAAAAATTACAATATTACAATATATTCCCACATTACAATATTCATACA
1 AATTACAATATTCATACAAAAAATTACAATATTACAATATATTCCCACATTACAATATTCATACA
10777637 AAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTATAATATT
66 AAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTATAATATT
10777702 CATACAA
131 CATACAA
10777709 AATTACAATATTCATACAAAAAATTACAATATTACAATATATTCCCACATTACAATATTCATACA
1 AATTACAATATTCATACAAAAAATTACAATATTACAATATATTCCCACATTACAATATTCATACA
10777774 AAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTATAATATT
66 AAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTATAATATT
10777839 CATACAA
131 CATACAA
10777846 AATTACAATATTCATACAAAAAATTAC
1 AATTACAATATTCATACAAAAAATTAC
10777873 TAATCCAAGA
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
137 164 1.00
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.32
Consensus pattern (137 bp):
AATTACAATATTCATACAAAAAATTACAATATTACAATATATTCCCACATTACAATATTCATACA
AAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATTATAATATT
CATACAA
Found at i:10777894 original size:41 final size:41
Alignment explanation
Indices: 10777806--10777991 Score: 116
Period size: 41 Copynumber: 4.5 Consensus size: 41
10777796 AAATTATAAT
* *
10777806 ATTACAATATTCATACAAAAAAATTATAATATTCATACAAA
1 ATTACAATATTCATACAAAAAAATTATAATATCCAGACAAA
10777847 ATTACAATATTCATAC-AAAAAATTACT-A-ATCCAAGACTATAA
1 ATTACAATATTCATACAAAAAAATTA-TAATATCC-AGAC-A-AA
* * * * ** * * *
10777889 A-TACAA-ATTTAATTATAAAATATTTACCATATTCATACAAC
1 ATTACAATA-TTCA-TACAAAAAAATTATAATATCCAGACAAA
* *
10777930 ATTACAATATTCAT--AAAAAAATTATAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAAAAATTATAATATCCAGAC---AAA
*
10777972 ATTAAAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
10777992 TTCTAATCTA
Statistics
Matches: 112, Mismatches: 17, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
39 21 0.19
40 14 0.12
41 29 0.26
42 29 0.26
43 12 0.11
44 7 0.06
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAAATTATAATATCCAGACAAA
Found at i:10777939 original size:19 final size:19
Alignment explanation
Indices: 10777912--10777993 Score: 83
Period size: 19 Copynumber: 4.1 Consensus size: 19
10777902 TATAAAATAT
* *
10777912 TTACCATATTCATACAACA
1 TTACAATATTCATACAAAA
*
10777931 TTACAATATTCATAAAAAAA
1 TTACAATATTCAT-ACAAAA
*
10777951 TTATAATATTCATACAAAAAAA
1 TTACAATATTCATAC---AAAA
*
10777973 TTAAAATATTCATACAAAA
1 TTACAATATTCATACAAAA
10777992 TT
1 TT
10777994 CTAATCTAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
19 19 0.36
20 16 0.30
22 18 0.34
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (19 bp):
TTACAATATTCATACAAAA
Found at i:10777992 original size:83 final size:83
Alignment explanation
Indices: 10777755--10777992 Score: 207
Period size: 83 Copynumber: 2.8 Consensus size: 83
10777745 ATATATTCCC
** *
10777755 ACATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCAT
1 ACATTACAATATTCAT--AAAAAAATTATAATATTCATAC-AAA--A-AA-ATTAAAATATTCAT
* *
10777820 ACAAAAAAATTATAATATTCATACA
59 ACAAAATAATTACAATATTCATACA
* * * * * * *
10777845 AAATTACAATATTCATACAAAAAATTACT-A-ATCCA-AGACTATAAA-TACAAAT-TTAATTAT
1 ACATTACAATATTCATA-AAAAAATTA-TAATATTCATACA-AAAAAATTA-AAATATTCA-TAC
* *
10777905 AAAATATTTACCATATTCATACA
61 AAAATAATTACAATATTCATACA
10777928 ACATTACAATATTCATAAAAAAATTATAATATTCATACAAAAAAATTAAAATATTCATACAAAAT
1 ACATTACAATATTCATAAAAAAATTATAATATTCATACAAAAAAATTAAAATATTCATACAAAAT
10777993 TCTAATCTAA
Statistics
Matches: 117, Mismatches: 21, Indels: 27
0.71 0.13 0.16
Matches are distributed among these distances:
81 1 0.01
82 15 0.13
83 60 0.51
84 9 0.08
86 1 0.01
87 2 0.02
88 5 0.04
89 9 0.08
90 15 0.13
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (83 bp):
ACATTACAATATTCATAAAAAAATTATAATATTCATACAAAAAAATTAAAATATTCATACAAAAT
AATTACAATATTCATACA
Found at i:10782940 original size:102 final size:101
Alignment explanation
Indices: 10782809--10782993 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 101
10782799 ACCCGGTTCA
* * *
10782809 CATAGTAGCCTGCACATAGTACTACACATGTGACC-AT-TTTCATCTGATACACGTAATAGCTTG
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCGTTC--C-GATACACGTAATAGCCTG
*
10782872 CATATAGTACTACACACGTGATCGAAGCTATCCGATACG
63 CACATAGTACTACACACGTGATCGAAGCTATCCGATACG
* * *
10782911 CATAGTAGCCTTCACATAGTACTACACATGCGACCTATCGTTCCGGTACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCGTTCCGATACACGTAATAGCCTGCAC
*
10782976 ATAGTACTACACATGTGA
66 ATAGTACTACACACGTGA
10782994 CCTATCAACT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
101 34 0.47
102 34 0.47
103 2 0.03
104 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCGTTCCGATACACGTAATAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGATACG
Found at i:10782977 original size:50 final size:50
Alignment explanation
Indices: 10782807--10782999 Score: 194
Period size: 51 Copynumber: 3.8 Consensus size: 50
10782797 ATACCCGGTT
*
10782807 CACATAGTAGCCTGCACATAGTACTACACATGTGACC-AT-TTTCATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCGTTC--C-GATA
* * * * * * * *
10782858 CACGTAATAGCTTGCATATAGTACTACACACGTGATCGA-AGCTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCG-T-TCCGATA
* * * *
10782909 CGCATAGTAGCCTTCACATAGTACTACACATGCGACCTATCGTTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCGTTCCGATA
*
10782959 CACGTAGTAGCCTGCACATAGTACTACACATGTGACCTATC
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCTATC
10783000 AACTTCACTT
Statistics
Matches: 114, Mismatches: 23, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
50 43 0.38
51 65 0.57
52 3 0.03
53 1 0.01
54 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCGTTCCGATA
Found at i:10783062 original size:11 final size:11
Alignment explanation
Indices: 10783046--10783079 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
10783036 CTGGGAATTC
10783046 TCACTTTTTTT
1 TCACTTTTTTT
10783057 TCAC-TTTTTT
1 TCACTTTTTTT
10783067 TCACTTTTCTTT
1 TCACTTTT-TTT
10783079 T
1 T
10783080 TACCAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 7 0.33
12 4 0.19
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.71
Consensus pattern (11 bp):
TCACTTTTTTT
Found at i:10784146 original size:15 final size:14
Alignment explanation
Indices: 10784110--10784137 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10784100 TATTTAATAC
10784110 AATAATTTTTTATT
1 AATAATTTTTTATT
10784124 AATAATTTTTTATT
1 AATAATTTTTTATT
10784138 TTATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATAATTTTTTATT
Found at i:10786673 original size:21 final size:21
Alignment explanation
Indices: 10786647--10786702 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
10786637 AATAGTGATG
*
10786647 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
10786668 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
**
10786689 GTAGTGAGATTAGA
1 GCGGTGAGATTAGA
10786703 AACAGCGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.07, G:0.34, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:10786848 original size:27 final size:27
Alignment explanation
Indices: 10786815--10786866 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
10786805 GAAGTTTTTA
*
10786815 AAATTATTTAACAATTA-CAAAATTAAT
1 AAATTA-TTAAAAATTATCAAAATTAAT
*
10786842 AAATTATTAAAAATTATTAAAATTA
1 AAATTATTAAAAATTATCAAAATTA
10786867 TATTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (27 bp):
AAATTATTAAAAATTATCAAAATTAAT
Found at i:10786850 original size:19 final size:19
Alignment explanation
Indices: 10786828--10786867 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10786818 TTATTTAACA
10786828 ATTACAAAATTAAT-AAATT
1 ATTA-AAAATTAATAAAATT
*
10786847 ATTAAAAATTATTAAAATT
1 ATTAAAAATTAATAAAATT
10786866 AT
1 AT
10786868 ATTTATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAAAAATTAATAAAATT
Found at i:10788934 original size:6 final size:6
Alignment explanation
Indices: 10788919--10788953 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
10788909 GCAACCCAAT
*
10788919 GGGAAG GGGAAA GGGAAG GGGAAG GGGAAAG GGGA
1 GGGAAG GGGAAG GGGAAG GGGAAG GGG-AAG GGGA
10788954 GAAGAACGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:10798036 original size:2 final size:2
Alignment explanation
Indices: 10798029--10798055 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10798019 TGAAAAGATT
10798029 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
10798056 TCCTATAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10798728 original size:12 final size:13
Alignment explanation
Indices: 10798711--10798739 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10798701 AATTAGTATT
10798711 AGAAAAAGAAAA-
1 AGAAAAAGAAAAG
10798723 AGAAAAAGAAAAG
1 AGAAAAAGAAAAG
10798736 AGAA
1 AGAA
10798740 TCCAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAG
Found at i:10802755 original size:43 final size:42
Alignment explanation
Indices: 10802708--10802844 Score: 141
Period size: 42 Copynumber: 3.2 Consensus size: 42
10802698 TCTCAGACGT
* *
10802708 GGTCTTACATGCAATCAAATAACGATGCCACTGTCCCAAACAA
1 GGTCTTACACGCAATCAAAT-ACGATGCCAATGTCCCAAACAA
* * * *
10802751 GGTCTTACACGTAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGCAATCAAATACGATGCCAATGTCCCAAACAA
* * * *
10802793 GGTCTTACACGTAAATCTCAAAT-CGATGCCAACGTCCCAGACAT
1 GGTCTTACACG-CAA--TCAAATACGATGCCAATGTCCCAAACAA
10802837 GGTCTTAC
1 GGTCTTAC
10802845 GCAAAATCAC
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
42 30 0.37
43 19 0.23
44 28 0.34
45 5 0.06
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGCAATCAAATACGATGCCAATGTCCCAAACAA
Found at i:10802785 original size:42 final size:42
Alignment explanation
Indices: 10802689--10802844 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 42
10802679 AGCTCGTACA
* * * * * *
10802689 ATGCCAACGTCTCAGACGTGGTCTTACATGCAATCAAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATAT-ACG
* * *
10802732 ATGCCACTGTCCCAAACAAGGTCTTACACGTAATCATATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATACG
*
10802774 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATCAT-ATA-CG
*
10802818 ATGCCAACGTCCCAGACATGGTCTTAC
1 ATGCCAATGTCCCAGACATGGTCTTAC
10802845 GCAAAATCAC
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
42 32 0.33
43 36 0.38
44 28 0.29
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATATACG
Found at i:10805438 original size:19 final size:19
Alignment explanation
Indices: 10805416--10805468 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
10805406 TTGGTGCTCG
10805416 AAGCGCATCCTGGCGCACA
1 AAGCGCATCCTGGCGCACA
* * *
10805435 AAGCGCATACTAGCACACA
1 AAGCGCATCCTGGCGCACA
*
10805454 AAGTGCATCCTGGCG
1 AAGCGCATCCTGGCG
10805469 TGTAAGTGTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.13
Consensus pattern (19 bp):
AAGCGCATCCTGGCGCACA
Found at i:10813088 original size:30 final size:30
Alignment explanation
Indices: 10813054--10813116 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
10813044 ACTTATTTTA
10813054 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
10813084 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
10813114 TTG
1 TTG
10813117 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:10819929 original size:29 final size:29
Alignment explanation
Indices: 10819887--10819960 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
10819877 GAAGAGGTGG
10819887 AGAACTTGTTCGTTGAGAGTTCGCGATGA
1 AGAACTTGTTCGTTGAGAGTTCGCGATGA
10819916 AGAACTTGTTCGTTGAGAGTTCGCGATGA
1 AGAACTTGTTCGTTGAGAGTTCGCGATGA
*
10819945 AGAACTTGTTCATTGA
1 AGAACTTGTTCGTTGA
10819961 ATTGAATTGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (29 bp):
AGAACTTGTTCGTTGAGAGTTCGCGATGA
Found at i:10821042 original size:18 final size:18
Alignment explanation
Indices: 10821008--10821040 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10820998 CTTTCTTCTT
10821008 CTTT-TTTTTATATTTTA
1 CTTTATTTTTATATTTTA
10821025 CTTTATTTTTA-ATTTT
1 CTTTATTTTTATATTTT
10821041 TAATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (18 bp):
CTTTATTTTTATATTTTA
Found at i:10824530 original size:17 final size:18
Alignment explanation
Indices: 10824502--10824535 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10824492 TAATTATACA
10824502 GTTCCAAATTTGTCAAAT
1 GTTCCAAATTTGTCAAAT
10824520 GTTCC-AATTTGTCAAA
1 GTTCCAAATTTGTCAAA
10824536 AAAGCACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (18 bp):
GTTCCAAATTTGTCAAAT
Found at i:10829931 original size:11 final size:11
Alignment explanation
Indices: 10829909--10829966 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
10829899 AACTAATCCT
10829909 CTCTCAAATTTC
1 CTCTC-AATTTC
*
10829921 CTATCAATTTC
1 CTCTCAATTTC
*
10829932 CTCTAAATTTC
1 CTCTCAATTTC
* *
10829943 CCCTCAATTTG
1 CTCTCAATTTC
*
10829954 CTCTCAAATTC
1 CTCTCAATTTC
10829965 CT
1 CT
10829967 TCCAAATTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 33 0.89
12 4 0.11
ACGTcount: A:0.24, C:0.33, G:0.02, T:0.41
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:10829965 original size:22 final size:23
Alignment explanation
Indices: 10829909--10829963 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
10829899 AACTAATCCT
*
10829909 CTCTCAAATTTCCTATCAATTTC
1 CTCTCAAATTTCCCATCAATTTC
* *
10829932 CTCT-AAATTTCCCCTCAATTTG
1 CTCTCAAATTTCCCATCAATTTC
10829954 CTCTCAAATT
1 CTCTCAAATT
10829964 CCTTCCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 19 0.68
23 9 0.32
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (23 bp):
CTCTCAAATTTCCCATCAATTTC
Found at i:10830025 original size:51 final size:51
Alignment explanation
Indices: 10829945--10830043 Score: 132
Period size: 51 Copynumber: 1.9 Consensus size: 51
10829935 TAAATTTCCC
10829945 CTCAATTTGCTCTCAAATTCCTTCCAAATTTC-TTTCAAAT-CCATATTTAAT
1 CTCAATTTGCTCTCAAATTCCTTCCAAATTTCATTT-AAATACC-TATTTAAT
* *
10829996 CTCAATTTGCTCTCAAGTT-CTTCTTAAATTTCATTTAAATACCTATTT
1 CTCAATTTGCTCTCAAATTCCTTC-CAAATTTCATTTAAATACCTATTT
10830044 TTAAATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
50 4 0.09
51 34 0.79
52 5 0.12
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.45
Consensus pattern (51 bp):
CTCAATTTGCTCTCAAATTCCTTCCAAATTTCATTTAAATACCTATTTAAT
Found at i:10832201 original size:126 final size:125
Alignment explanation
Indices: 10831935--10832504 Score: 820
Period size: 126 Copynumber: 4.5 Consensus size: 125
10831925 CCCAAACATG
* *
10831935 CTACCGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * * *
10832000 TAGAAGCG-ATTTTATACTATTTGCTCAAAAACGTCAAGTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
*
10832059 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTTTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * *
10832123 CTTGCAGCGTTGTTTTATACTATTTACTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
65 CTTGAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* *
10832185 CTACTGTAGCAAAAGCGCGTTCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
10832250 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTTCAGGAC
66 TTGAAGCG-TTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * *
10832312 CAACTCTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTTTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
*
10832377 TTGAAGTGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * * * *
10832437 CTACTGTAGCAAAAGCGCGTACATGTGGGCGAGACTTTAAAAAATTCTTCTTATAAATCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTTCACAAATTCTTCTCATAAAGCATCCTG
10832502 CTT
65 CTT
10832505 TGCTTTTATC
Statistics
Matches: 401, Mismatches: 38, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
123 2 0.00
124 65 0.16
125 36 0.09
126 218 0.54
127 80 0.20
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:10832642 original size:10 final size:9
Alignment explanation
Indices: 10832620--10832657 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
10832610 CTTTTTCTCC
*
10832620 AAAAACCCT
1 AAAAATCCT
10832629 AAAAATCCT
1 AAAAATCCT
10832638 AAAAA-CCTT
1 AAAAATCC-T
10832647 AAAAATCCT
1 AAAAATCCT
10832656 AA
1 AA
10832658 CTTGGGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAAATCCT
Found at i:10832643 original size:18 final size:18
Alignment explanation
Indices: 10832620--10832657 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
10832610 CTTTTTCTCC
10832620 AAAAACCCTAAAAATCCT
1 AAAAACCCTAAAAATCCT
*
10832638 AAAAACCTTAAAAATCCT
1 AAAAACCCTAAAAATCCT
10832656 AA
1 AA
10832658 CTTGGGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAACCCTAAAAATCCT
Found at i:10833466 original size:14 final size:13
Alignment explanation
Indices: 10833450--10833474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10833440 AAATATATAT
10833450 TTTTTTATTTTTA
1 TTTTTTATTTTTA
10833463 TTTTTTATTTTT
1 TTTTTTATTTTT
10833475 TAATTTTAAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:10833514 original size:5 final size:6
Alignment explanation
Indices: 10833497--10833522 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10833487 ACTTTTAAAA
10833497 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
10833523 AAATAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:10833524 original size:40 final size:42
Alignment explanation
Indices: 10833455--10833541 Score: 124
Period size: 40 Copynumber: 2.1 Consensus size: 42
10833445 TATATTTTTT
*
10833455 TATTTTTATTTTTTATTTTTTAATTTTAAAATACTTTTAAAA
1 TATTTTTATTTTTTATTTTTTAATTTTAAAATAATTTTAAAA
* **
10833497 TATTTTTA-TTTTTA-TTTTTATTTTTAAAATAATTTTTTAA
1 TATTTTTATTTTTTATTTTTTAATTTTAAAATAATTTTAAAA
10833537 TATTT
1 TATTT
10833542 ATTCGGGCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 27 0.66
41 6 0.15
42 8 0.20
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (42 bp):
TATTTTTATTTTTTATTTTTTAATTTTAAAATAATTTTAAAA
Found at i:10836634 original size:44 final size:44
Alignment explanation
Indices: 10836571--10836735 Score: 195
Period size: 44 Copynumber: 3.6 Consensus size: 44
10836561 ATTTGAGTAC
10836571 TTCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTT
1 TTCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTT
* *
10836615 TTCTGATCAATGACAAGTGATGAGTGGTAGCTTTAGCTACACTT
1 TTCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTT
* * *
10836659 ATCTGATCAGTGACAAGTGACAAGTAATGAGAGGTAGCTTTAGCTTCACTT
1 TTCTGATCAGTGACAAGTG---A-T-A--AGTGGTAGCTTTAGCTACACTT
* * *
10836710 ATCTGATCAGGGACAAGTGACAAGTG
1 TTCTGATCAGTGACAAGTGATAAGTG
10836736 ATAAATGTGA
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
44 62 0.60
46 1 0.01
47 1 0.01
48 2 0.02
51 38 0.37
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (44 bp):
TTCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTT
Found at i:10836680 original size:51 final size:51
Alignment explanation
Indices: 10836625--10836737 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 51
10836615 TTCTGATCAA
* *
10836625 TGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAG
1 TGACAAGTGATGAGAGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAG
* *
10836676 TGACAAGTAATGAGAGGTAGCTTTAGCTTCACTTATCTGATCAGGGACAAG
1 TGACAAGTGATGAGAGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAG
10836727 TGACAAGTGAT
1 TGACAAGTGAT
10836738 AAATGTGATC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (51 bp):
TGACAAGTGATGAGAGGTAGCTTTAGCTACACTTATCTGATCAGGGACAAG
Found at i:10840703 original size:12 final size:12
Alignment explanation
Indices: 10840686--10840720 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
10840676 CGGCCTGCCC
10840686 ATATTAATTTTT
1 ATATTAATTTTT
10840698 ATATT-ATTTTT
1 ATATTAATTTTT
10840709 ATA-TAATTTTT
1 ATATTAATTTTT
10840720 A
1 A
10840721 AATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 16 0.73
12 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:10840901 original size:30 final size:27
Alignment explanation
Indices: 10840843--10840894 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
10840833 CTTAACAAGT
10840843 AAATGCCTCTAAAATAATAACAAAAAC
1 AAATGCCTCTAAAATAATAACAAAAAC
*
10840870 AAATGCCTTTAAAATAATAACAAAA
1 AAATGCCTCTAAAATAATAACAAAA
10840895 TTAACAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.60, C:0.15, G:0.04, T:0.21
Consensus pattern (27 bp):
AAATGCCTCTAAAATAATAACAAAAAC
Found at i:10843211 original size:3 final size:3
Alignment explanation
Indices: 10843203--10843229 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10843193 TTTTGAAGAT
10843203 GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA
10843230 ATGCGTGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GTA
Found at i:10847240 original size:34 final size:34
Alignment explanation
Indices: 10847197--10847263 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
10847187 TAGATATTAA
10847197 CATAATTTAGAGATTTCTACGGATCAAGACACAT
1 CATAATTTAGAGATTTCTACGGATCAAGACACAT
10847231 CATAATTTAGAGATTTCTACGGATCAAGACACA
1 CATAATTTAGAGATTTCTACGGATCAAGACACA
10847264 AGTGAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (34 bp):
CATAATTTAGAGATTTCTACGGATCAAGACACAT
Found at i:10848962 original size:20 final size:20
Alignment explanation
Indices: 10848933--10848975 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
10848923 CCATCACTAG
10848933 TTTCAATTTTTTTTCTT-CTT
1 TTTCAATTTTTTTT-TTACTT
*
10848953 TTTCACTTTTTTTTTTACTT
1 TTTCAATTTTTTTTTTACTT
10848973 TTT
1 TTT
10848976 TTTCTCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCAATTTTTTTTTTACTT
Found at i:10848965 original size:23 final size:24
Alignment explanation
Indices: 10848939--10848994 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
10848929 CTAGTTTCAA
10848939 TTTTTTTTCTTCTTTTTCACT-TT
1 TTTTTTTTCTTCTTTTTCACTCTT
* * *
10848962 TTTTTTTACTTTTTTTTCTCTCTT
1 TTTTTTTTCTTCTTTTTCACTCTT
10848986 TTTATTTTT
1 TTT-TTTTT
10848995 TTAACGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 18 0.67
24 5 0.19
25 4 0.15
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTTTTCTTCTTTTTCACTCTT
Found at i:10848966 original size:12 final size:12
Alignment explanation
Indices: 10848951--10848993 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
10848941 TTTTTTCTTC
10848951 TTTTTCACTTTT
1 TTTTTCACTTTT
*
10848963 TTTTTTACTTTT
1 TTTTTCACTTTT
*
10848975 TTTTCTCTCTTTT
1 TTTT-TCACTTTT
10848988 TATTTT
1 T-TTTT
10848994 TTTAACGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 15 0.58
13 8 0.31
14 3 0.12
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCACTTTT
Found at i:10849149 original size:26 final size:25
Alignment explanation
Indices: 10849107--10849183 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 25
10849097 TAAAATTTCC
10849107 CCCCTTCTTTCACTATTTTTAATTTT
1 CCCCTT-TTTCACTATTTTTAATTTT
* *
10849133 CCCCTTTTTCCATTATTTTTAATTTC
1 CCCCTTTTT-CACTATTTTTAATTTT
10849159 CCCGCTTTTTCACT-TTTTTAATTTT
1 CCC-CTTTTTCACTATTTTTAATTTT
10849184 AAATTTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
25 13 0.29
26 26 0.58
27 6 0.13
ACGTcount: A:0.14, C:0.26, G:0.01, T:0.58
Consensus pattern (25 bp):
CCCCTTTTTCACTATTTTTAATTTT
Found at i:10849293 original size:20 final size:20
Alignment explanation
Indices: 10849270--10849317 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
10849260 ATTGGCAGTG
* * *
10849270 CTTTTTTTAATTTTGCTTTC
1 CTTTTTTTAACTTTGCTGTA
*
10849290 CTTTTTTTCACTTTGCTGTA
1 CTTTTTTTAACTTTGCTGTA
10849310 CTTTTTTT
1 CTTTTTTT
10849318 TTCCTTTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.08, C:0.17, G:0.06, T:0.69
Consensus pattern (20 bp):
CTTTTTTTAACTTTGCTGTA
Found at i:10849316 original size:22 final size:21
Alignment explanation
Indices: 10849291--10849335 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
10849281 TTTGCTTTCC
10849291 TTTTTTTCACTTTGCTGTACTT
1 TTTTTTTC-CTTTGCTGTACTT
*
10849313 TTTTTTTCCTTTGCTGTGCTT
1 TTTTTTTCCTTTGCTGTACTT
10849334 TT
1 TT
10849336 CCCATAGGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.04, C:0.18, G:0.11, T:0.67
Consensus pattern (21 bp):
TTTTTTTCCTTTGCTGTACTT
Found at i:10861349 original size:54 final size:54
Alignment explanation
Indices: 10861267--10861377 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 54
10861257 AACATGAATA
****
10861267 TTATTATTGATGCATTTTCATGTATAACTTCGAAACTTTAGAACTCAAAAGTTG
1 TTATTATTGATGCATGAAAATGTATAACTTCGAAACTTTAGAACTCAAAAGTTG
*
10861321 TTATTATTGATGCATGAAAATGTATAACTTCGAAACTTTGGAACTCAAAAGTTG
1 TTATTATTGATGCATGAAAATGTATAACTTCGAAACTTTAGAACTCAAAAGTTG
10861375 TTA
1 TTA
10861378 CGCTATTATG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (54 bp):
TTATTATTGATGCATGAAAATGTATAACTTCGAAACTTTAGAACTCAAAAGTTG
Found at i:10866467 original size:13 final size:13
Alignment explanation
Indices: 10866445--10866484 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
10866435 TTCAATGGGT
*
10866445 AATTGAACTTGAA
1 AATTGGACTTGAA
*
10866458 AATTGGACTTAAA
1 AATTGGACTTGAA
10866471 AATTGGACTTGAA
1 AATTGGACTTGAA
10866484 A
1 A
10866485 TCGAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (13 bp):
AATTGGACTTGAA
Found at i:10866713 original size:11 final size:11
Alignment explanation
Indices: 10866699--10866723 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10866689 GGCCGACTAA
10866699 TGGTTGAGTAG
1 TGGTTGAGTAG
10866710 TGGTTGAGTAG
1 TGGTTGAGTAG
10866721 TGG
1 TGG
10866724 AAAAATTACG
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:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (11 bp):
TGGTTGAGTAG
Found at i:10866892 original size:21 final size:20
Alignment explanation
Indices: 10866851--10866893 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
10866841 ATAAATATTT
*
10866851 TATTAATTTAATAGATTTAA
1 TATTAATTTAATAGATATAA
**
10866871 TATTAAATTTAATCTATATAA
1 TATT-AATTTAATAGATATAA
10866892 TA
1 TA
10866894 AAATATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (20 bp):
TATTAATTTAATAGATATAA
Found at i:10873663 original size:19 final size:19
Alignment explanation
Indices: 10873641--10873712 Score: 135
Period size: 19 Copynumber: 3.8 Consensus size: 19
10873631 ATGTGTCAGG
10873641 ATGCACTTCGTGTGCCAGT
1 ATGCACTTCGTGTGCCAGT
10873660 ATGCACTTCGTGTGCCAGT
1 ATGCACTTCGTGTGCCAGT
10873679 ATGCACTTCGTGTGCCAGT
1 ATGCACTTCGTGTGCCAGT
*
10873698 ATGCACTTCATGTGC
1 ATGCACTTCGTGTGC
10873713 AAGTTTCCCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.17, C:0.26, G:0.25, T:0.32
Consensus pattern (19 bp):
ATGCACTTCGTGTGCCAGT
Found at i:10873683 original size:38 final size:38
Alignment explanation
Indices: 10873603--10873712 Score: 139
Period size: 38 Copynumber: 2.9 Consensus size: 38
10873593 GTACGGCTTT
* * * ** * *
10873603 ATGCACTTTGTGTACCAGAATGTGCTTTATGTGTCAGG
1 ATGCACTTCGTGTGCCAGTATGCACTTCATGTGCCAGG
* *
10873641 ATGCACTTCGTGTGCCAGTATGCACTTCGTGTGCCAGT
1 ATGCACTTCGTGTGCCAGTATGCACTTCATGTGCCAGG
10873679 ATGCACTTCGTGTGCCAGTATGCACTTCATGTGC
1 ATGCACTTCGTGTGCCAGTATGCACTTCATGTGC
10873713 AAGTTTCCCT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (38 bp):
ATGCACTTCGTGTGCCAGTATGCACTTCATGTGCCAGG
Found at i:10874444 original size:23 final size:23
Alignment explanation
Indices: 10874418--10874491 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
10874408 TAAAAGAGAA
10874418 ACAAATCCCTAAAATTGTGGAAG
1 ACAAATCCCTAAAATTGTGGAAG
* * *
10874441 ACAAATACCTACAATT-TAGCCAA-
1 ACAAATCCCTAAAATTGT-G-GAAG
*
10874464 ACAAATCCTTAAAATTGTGGAAG
1 ACAAATCCCTAAAATTGTGGAAG
10874487 ACAAA
1 ACAAA
10874492 AATACCTACA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
22 3 0.08
23 34 0.85
24 3 0.08
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (23 bp):
ACAAATCCCTAAAATTGTGGAAG
Found at i:10874514 original size:48 final size:48
Alignment explanation
Indices: 10874416--10874539 Score: 189
Period size: 48 Copynumber: 2.6 Consensus size: 48
10874406 AATAAAAGAG
*
10874416 AAACAAATCCCTAAAATTGTGGAAGAC--AAATACCTACAATTTAGCC
1 AAACAAATCCTTAAAATTGTGGAAGACAAAAATACCTACAATTTAGCC
10874462 AAACAAATCCTTAAAATTGTGGAAGACAAAAATACCTACAATTTAGCC
1 AAACAAATCCTTAAAATTGTGGAAGACAAAAATACCTACAATTTAGCC
* * *
10874510 AAACAAATCCCTAAAAATTATGAAAGACAA
1 AAACAAAT-CCTTAAAATTGTGGAAGACAA
10874540 CTTGACTTGA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
46 26 0.37
48 27 0.38
49 18 0.25
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (48 bp):
AAACAAATCCTTAAAATTGTGGAAGACAAAAATACCTACAATTTAGCC
Found at i:10874515 original size:25 final size:25
Alignment explanation
Indices: 10874443--10874516 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 25
10874433 TGTGGAAGAC
10874443 AAATACCTACAATTTAGCCAAAC--
1 AAATACCTACAATTTAGCCAAACAA
* *
10874466 AAAT-CCTTAAAATTGT-G-GAAGACAA
1 AAATACC-TACAATT-TAGCCAA-ACAA
10874491 AAATACCTACAATTTAGCCAAACAA
1 AAATACCTACAATTTAGCCAAACAA
10874516 A
1 A
10874517 TCCCTAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
22 4 0.10
23 13 0.33
24 2 0.05
25 16 0.41
26 4 0.10
ACGTcount: A:0.50, C:0.20, G:0.08, T:0.22
Consensus pattern (25 bp):
AAATACCTACAATTTAGCCAAACAA
Found at i:10874522 original size:23 final size:22
Alignment explanation
Indices: 10874416--10874525 Score: 71
Period size: 23 Copynumber: 4.7 Consensus size: 22
10874406 AATAAAAGAG
*
10874416 AAACAAATCCCTAAAATTGTGG
1 AAACAAATCCCTAAAATTGTGC
* *
10874438 AAGACAAATACCTACAATT-TAGCC
1 AA-ACAAATCCCTAAAATTGT-G-C
* *
10874462 AAACAAATCCTTAAAATTGTGG
1 AAACAAATCCCTAAAATTGTGC
* *
10874484 AAGACAAAAATACCTACAATT-TAGCC
1 AA-AC--AAATCCCTAAAATTGT-G-C
10874510 AAACAAATCCCTAAAA
1 AAACAAATCCCTAAAA
10874526 ATTATGAAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 17
0.69 0.14 0.18
Matches are distributed among these distances:
22 5 0.08
23 41 0.62
24 4 0.06
25 14 0.21
26 2 0.03
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (22 bp):
AAACAAATCCCTAAAATTGTGC
Found at i:10876755 original size:36 final size:36
Alignment explanation
Indices: 10876684--10876769 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
10876674 TTATTGAAAT
*
10876684 ATTAAAATATTTTAATAATAAATATATAGATTATAA
1 ATTAAAATATTTTAATAATAAATATATAGAATATAA
* * **
10876720 ATTATAAATA-TTTAATAATAAATGTTTTTAATATAA
1 ATTA-AAATATTTTAATAATAAATATATAGAATATAA
**
10876756 ATGCAAATATTTTA
1 ATTAAAATATTTTA
10876770 TTATTATAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
35 5 0.12
36 31 0.76
37 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (36 bp):
ATTAAAATATTTTAATAATAAATATATAGAATATAA
Found at i:10879909 original size:15 final size:15
Alignment explanation
Indices: 10879891--10879920 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
10879881 CTTGTTTCGC
10879891 TTTTTTTTTT-CTTT
1 TTTTTTTTTTGCTTT
10879905 TTTTTTTTTTGCTTT
1 TTTTTTTTTTGCTTT
10879920 T
1 T
10879921 AAAATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (15 bp):
TTTTTTTTTTGCTTT
Found at i:10880487 original size:14 final size:15
Alignment explanation
Indices: 10880468--10880496 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10880458 TTTTTTGACA
10880468 TAAATA-TTAAAAAT
1 TAAATATTTAAAAAT
10880482 TAAATATTTAAAAAT
1 TAAATATTTAAAAAT
10880497 ATTTATGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATATTTAAAAAT
Found at i:10885873 original size:52 final size:48
Alignment explanation
Indices: 10885854--10886056 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
10885844 TGACAAGTGG
* *
10885854 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10885900 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
10885952 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
10885998 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
10886044 AAAGTGATAAGTG
1 AAAGTGATAAGTG
10886057 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:10885908 original size:98 final size:98
Alignment explanation
Indices: 10885788--10886056 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
10885778 TTTGAGTACT
*
10885788 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10885853 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
10885886 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
10885951 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
10885984 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
10886049 GATAAGTG
65 GAAAAGTG
10886057 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:10886064 original size:37 final size:37
Alignment explanation
Indices: 10886020--10886165 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
10886010 GATAGCTTTA
*
10886020 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
10886057 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
10886094 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
10886131 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
10886166 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:10887387 original size:126 final size:126
Alignment explanation
Indices: 10887143--10887394 Score: 353
Period size: 126 Copynumber: 2.0 Consensus size: 126
10887133 GATAAAATCA
* * * *
10887143 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGATTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
10887208 AGGTTCTAAAAAAATAATTTCGACTTGACGTTTCTGAGTAAATAGTTTAAAAAAACGCTTC
66 AGGTTCTAAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
* * * * *
10887269 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCGTTTTTGCTACAGT
1 AAGCAGGATGATTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
10887334 TGG-TCTTGGAAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAAACGCTT
66 AGGTTC-T-AAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTT
10887395 AAAGTAAGGG
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
125 2 0.02
126 59 0.54
127 49 0.45
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (126 bp):
AAGCAGGATGATTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTTCTAAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAAACGCTTC
Found at i:10889806 original size:20 final size:18
Alignment explanation
Indices: 10889783--10889823 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
10889773 TACAATTTTC
10889783 TTTTCAAAATTTCAAAATGA
1 TTTTCAAAA-TTCAAAAT-A
*
10889803 TTTTTAAAATTCAAAATA
1 TTTTCAAAATTCAAAATA
10889821 TTT
1 TTT
10889824 ATAAAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 8 0.40
20 8 0.40
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (18 bp):
TTTTCAAAATTCAAAATA
Found at i:10889817 original size:19 final size:19
Alignment explanation
Indices: 10889783--10889829 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
10889773 TACAATTTTC
*
10889783 TTTTCAAAATTTCAAAATGA
1 TTTTTAAAATTTCAAAAT-A
10889803 TTTTTAAAA-TTCAAAATA
1 TTTTTAAAATTTCAAAATA
*
10889821 TTTATAAAA
1 TTTTTAAAA
10889830 AATCCAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.36
19 8 0.32
20 8 0.32
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (19 bp):
TTTTTAAAATTTCAAAATA
Found at i:10889828 original size:18 final size:20
Alignment explanation
Indices: 10889788--10889829 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
10889778 TTTTCTTTTC
*
10889788 AAAATTTCAAAATGATTTTT
1 AAAATTTCAAAATGATTTAT
10889808 AAAA-TTCAAAAT-ATTTAT
1 AAAATTTCAAAATGATTTAT
10889826 AAAA
1 AAAA
10889830 AATCCAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 8 0.38
20 4 0.19
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAATTTCAAAATGATTTAT
Found at i:10889830 original size:19 final size:19
Alignment explanation
Indices: 10889783--10889830 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
10889773 TACAATTTTC
*
10889783 TTTTCAAAATTTCAAAATGA
1 TTTT-AAAAATTCAAAATGA
*
10889803 TTTTTAAAATTCAAAAT-A
1 TTTTAAAAATTCAAAATGA
10889821 TTTATAAAAA
1 TTT-TAAAAA
10889831 ATCCAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (19 bp):
TTTTAAAAATTCAAAATGA
Found at i:10889867 original size:23 final size:24
Alignment explanation
Indices: 10889818--10889867 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
10889808 AAAATTCAAA
***
10889818 ATATTTATAAAAAATCCAAAGTTT
1 ATATTTATAAAAAATCCAAAAAAT
*
10889842 ATATTT-TAAAAAATCTAAAAAAT
1 ATATTTATAAAAAATCCAAAAAAT
10889865 ATA
1 ATA
10889868 CAAAGAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (24 bp):
ATATTTATAAAAAATCCAAAAAAT
Found at i:10899329 original size:9 final size:9
Alignment explanation
Indices: 10899311--10899363 Score: 79
Period size: 9 Copynumber: 5.9 Consensus size: 9
10899301 TTTAGTTAAA
10899311 AATTAACCG
1 AATTAACCG
*
10899320 AATTACCCG
1 AATTAACCG
10899329 AATTAACCG
1 AATTAACCG
* *
10899338 GATTACCCG
1 AATTAACCG
10899347 AATTAACCG
1 AATTAACCG
10899356 AATTAACC
1 AATTAACC
10899364 AAGTTGAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTAACCG
Found at i:10899334 original size:18 final size:18
Alignment explanation
Indices: 10899311--10899360 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
10899301 TTTAGTTAAA
10899311 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
*
10899329 AATTAACCGGATTACCCG
1 AATTAACCGAATTACCCG
10899347 AATTAACCGAATTA
1 AATTAACCGAATTA
10899361 ACCAAGTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:10899783 original size:13 final size:13
Alignment explanation
Indices: 10899765--10899819 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
10899755 AAGGGCTAGT
*
10899765 AAAGTGTTTTTGA
1 AAAGTGCTTTTGA
* *
10899778 AAAGTGCTGTGGA
1 AAAGTGCTTTTGA
*
10899791 AAAGTACTTTTGA
1 AAAGTGCTTTTGA
* *
10899804 GAAGTGTTTTTGA
1 AAAGTGCTTTTGA
10899817 AAA
1 AAA
10899820 ATTTAAGTGT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (13 bp):
AAAGTGCTTTTGA
Found at i:10902604 original size:32 final size:32
Alignment explanation
Indices: 10902568--10902629 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
10902558 AGCTTTTGGT
10902568 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
10902600 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
10902630 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:10903928 original size:36 final size:37
Alignment explanation
Indices: 10903852--10903936 Score: 127
Period size: 39 Copynumber: 2.3 Consensus size: 37
10903842 GCAGTAAAGC
* *
10903852 AAAGCGGTAATCCAGAATTTTCCCTGAAAATTCTAATCG
1 AAAGCAGTAAGCCAGAATTTTCCCTG--AATTCTAATCG
10903891 AAAGCAGTAAGCCAGAATTTTCCCTG-ATTCTAATCG
1 AAAGCAGTAAGCCAGAATTTTCCCTGAATTCTAATCG
10903927 AAAGCAGTAA
1 AAAGCAGTAA
10903937 AGCAAAAGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 20 0.45
39 24 0.55
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (37 bp):
AAAGCAGTAAGCCAGAATTTTCCCTGAATTCTAATCG
Found at i:10903955 original size:22 final size:22
Alignment explanation
Indices: 10903927--10903976 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
10903917 ATTCTAATCG
10903927 AAAGCAGTAAAGCAAAAGAAGT
1 AAAGCAGTAAAGCAAAAGAAGT
* * *
10903949 AAAGCAGTAAGGCACAAGCAGT
1 AAAGCAGTAAAGCAAAAGAAGT
10903971 AAAGCA
1 AAAGCA
10903977 AAAGAAGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.54, C:0.14, G:0.24, T:0.08
Consensus pattern (22 bp):
AAAGCAGTAAAGCAAAAGAAGT
Found at i:10905252 original size:35 final size:35
Alignment explanation
Indices: 10905213--10905314 Score: 87
Period size: 28 Copynumber: 3.1 Consensus size: 35
10905203 AAGAGGTAAC
*
10905213 TAAAAGAGGCAATCTACATAAAGGTCAATCAATGT
1 TAAAAGAGGCAAACTACATAAAGGTCAATCAATGT
* * *
10905248 TAAAAGA-GTAAAATAGA-AAGAGGT-AA-C--TG-
1 TAAAAGAGGCAAACTACATAA-AGGTCAATCAATGT
*
10905277 --AAAGAGGCAACCTACATAAAGGTCAATCAATGT
1 TAAAAGAGGCAAACTACATAAAGGTCAATCAATGT
10905310 TAAAA
1 TAAAA
10905315 TAGTAGAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 20
0.64 0.10 0.26
Matches are distributed among these distances:
27 5 0.10
28 10 0.20
29 4 0.08
30 3 0.06
32 3 0.06
33 4 0.08
34 10 0.20
35 10 0.20
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.20
Consensus pattern (35 bp):
TAAAAGAGGCAAACTACATAAAGGTCAATCAATGT
Done.