Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15579451
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 73860 characters in sequence are not A, C, G, or T
File 20 of 32
Found at i:10617202 original size:8 final size:8
Alignment explanation
Indices: 10617189--10617217 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10617179 CAGCCTTCGA
10617189 TTTTCCCC
1 TTTTCCCC
10617197 TTTTCCCC
1 TTTTCCCC
10617205 TTTTCCCC
1 TTTTCCCC
10617213 TTTTC
1 TTTTC
10617218 GCTTTTCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (8 bp):
TTTTCCCC
Found at i:10624146 original size:127 final size:127
Alignment explanation
Indices: 10623920--10624174 Score: 465
Period size: 127 Copynumber: 2.0 Consensus size: 127
10623910 AGTAGGAAGC
*
10623920 CCCACCGCCCTGCGGTGGCACACTGAAGCTCACACACCAACTACCAAGCCTTAGCCAGCAGCCCC
1 CCCACCGCCCTGCAGTGGCACACTGAAGCTCACACACCAACTACCAAGCCTTAGCCAGCAGCCCC
*
10623985 CCCAAACGGTTCACCCACAGCCCTAGCCAGCAGCTCCACACCCTCCCCAACCCCAACATTTT
66 CACAAACGGTTCACCCACAGCCCTAGCCAGCAGCTCCACACCCTCCCCAACCCCAACATTTT
*
10624047 CCCACCGCCCTGCAGTGGCACACTGAAGCTCACGCACCAACTACCAAGCCTTAGCCAGCAGCCCC
1 CCCACCGCCCTGCAGTGGCACACTGAAGCTCACACACCAACTACCAAGCCTTAGCCAGCAGCCCC
* *
10624112 CACAAACGGTTCACCCGCAGCCCTAGCCAGCAGCTCCACACCCTCCCCACCCCCAACATTTT
66 CACAAACGGTTCACCCACAGCCCTAGCCAGCAGCTCCACACCCTCCCCAACCCCAACATTTT
10624174 C
1 C
10624175 ACCATTTATT
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.25, C:0.48, G:0.15, T:0.13
Consensus pattern (127 bp):
CCCACCGCCCTGCAGTGGCACACTGAAGCTCACACACCAACTACCAAGCCTTAGCCAGCAGCCCC
CACAAACGGTTCACCCACAGCCCTAGCCAGCAGCTCCACACCCTCCCCAACCCCAACATTTT
Found at i:10624254 original size:35 final size:36
Alignment explanation
Indices: 10624162--10624254 Score: 100
Period size: 36 Copynumber: 2.6 Consensus size: 36
10624152 CCCTCCCCAC
* *
10624162 CCCCAACATTTTCACCATTTATTTTCCTTTCTCTCTT
1 CCCC-ACATTTTCACTATTTATTTTCCTTCCTCTCTT
* *
10624199 CCCCATATTTTCA-TCATTTATTTTCCTTCCTTTCTT
1 CCCCACATTTTCACT-ATTTATTTTCCTTCCTCTCTT
* *
10624235 -CCGACATTTTCACTGTTTAT
1 CCCCACATTTTCACTATTTAT
10624255 GTTCTTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
35 15 0.32
36 28 0.60
37 4 0.09
ACGTcount: A:0.16, C:0.31, G:0.02, T:0.51
Consensus pattern (36 bp):
CCCCACATTTTCACTATTTATTTTCCTTCCTCTCTT
Found at i:10629908 original size:11 final size:11
Alignment explanation
Indices: 10629892--10629949 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
10629882 TAAAAAATTT
10629892 TAAAGAAAAAA
1 TAAAGAAAAAA
10629903 TAAAGAAAAAA
1 TAAAGAAAAAA
**
10629914 TAAA-AAATTA
1 TAAAGAAAAAA
** **
10629924 TATTGGTAAAA
1 TAAAGAAAAAA
10629935 TAAAGAAAAAA
1 TAAAGAAAAAA
10629946 TAAA
1 TAAA
10629950 ATATTATATT
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
10 6 0.18
11 28 0.82
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (11 bp):
TAAAGAAAAAA
Found at i:10629922 original size:32 final size:32
Alignment explanation
Indices: 10629881--10629957 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
10629871 ATATTATACG
*
10629881 ATAAAAAATTTTAAAGAAAAAATAAAGAAAAA
1 ATAAAAAATTATAAAGAAAAAATAAAGAAAAA
** **
10629913 ATAAAAAATTATATTGGTAAAATAAAGAAAAA
1 ATAAAAAATTATAAAGAAAAAATAAAGAAAAA
*
10629945 ATAAAATATTATA
1 ATAAAAAATTATA
10629958 TTAATTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (32 bp):
ATAAAAAATTATAAAGAAAAAATAAAGAAAAA
Found at i:10629958 original size:32 final size:32
Alignment explanation
Indices: 10629899--10629959 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
10629889 TTTTAAAGAA
10629899 AAAATAAAGAAAAAATAAAAAATTATATTGGT
1 AAAATAAAGAAAAAATAAAAAATTATATTGGT
*
10629931 AAAATAAAGAAAAAATAAAATATTATATT
1 AAAATAAAGAAAAAATAAAAAATTATATT
10629960 AATTAATAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (32 bp):
AAAATAAAGAAAAAATAAAAAATTATATTGGT
Found at i:10639311 original size:33 final size:33
Alignment explanation
Indices: 10639268--10639347 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 33
10639258 TCCATTAGTG
*
10639268 ATAACAAAAAATATTTTTTAAAAGATGT-TTTAA
1 ATAATAAAAAATATTTTTTAAAA-ATGTATTTAA
* * *
10639301 ATAATAAAAAATA-ATTTTAATAATTTATTTAA
1 ATAATAAAAAATATTTTTTAAAAATGTATTTAA
10639333 ATAAT-AAAAATATTT
1 ATAATAAAAAATATTT
10639348 AATTTTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 10 0.25
32 18 0.45
33 12 0.30
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (33 bp):
ATAATAAAAAATATTTTTTAAAAATGTATTTAA
Found at i:10639638 original size:118 final size:118
Alignment explanation
Indices: 10639427--10639647 Score: 336
Period size: 118 Copynumber: 1.9 Consensus size: 118
10639417 CGCAGTCTAT
* * * *
10639427 AATGTGAAAAGACAAGTTAGCAGAAGTAGCAGCCATATCAGCGTTGTCCTTCACCACAAATCAAA
1 AATGTGAAAAGACAAATTAGCAGAAGTAGAAGCCACATCAGCGTTGGCCTTCACCACAAATCAAA
* * *
10639492 AGCTGTTCCGCCACAATGGCCATTTGTCCGTTTGTGATCTCGCGATACACTAA
66 AGCTGTTCAGCCACAATGGCCATGTGTCCGTCTGTGATCTCGCGATACACTAA
* *
10639545 AATGTGAAAAGACAAATTAGCAGAAGTAGAAGCTACATCAGCGTTGG-CTCTCACCACGAATCAA
1 AATGTGAAAAGACAAATTAGCAGAAGTAGAAGCCACATCAGCGTTGGCCT-TCACCACAAATCAA
*
10639609 AAGCTGTTGAGCCACAATGGCCATGTGTCCGTCTGTGAT
65 AAGCTGTTCAGCCACAATGGCCATGTGTCCGTCTGTGAT
10639648 TTGAGATACG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
117 2 0.02
118 90 0.98
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (118 bp):
AATGTGAAAAGACAAATTAGCAGAAGTAGAAGCCACATCAGCGTTGGCCTTCACCACAAATCAAA
AGCTGTTCAGCCACAATGGCCATGTGTCCGTCTGTGATCTCGCGATACACTAA
Found at i:10640408 original size:42 final size:42
Alignment explanation
Indices: 10640348--10640433 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
10640338 TGAGGTACTA
* * *
10640348 GTTAGGAAGAGTACTTTGGTAAGGTAATGAGGTCAAAGGAGG
1 GTTAGGAAGAGTAATTTGGTAAGATAATAAGGTCAAAGGAGG
* *
10640390 GTTAGGAGGAGTAATTTGGTAAGATAATAAGGTCAGAGGAGG
1 GTTAGGAAGAGTAATTTGGTAAGATAATAAGGTCAAAGGAGG
10640432 GT
1 GT
10640434 AGTATGGAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.34, C:0.03, G:0.38, T:0.24
Consensus pattern (42 bp):
GTTAGGAAGAGTAATTTGGTAAGATAATAAGGTCAAAGGAGG
Found at i:10644212 original size:2 final size:2
Alignment explanation
Indices: 10644205--10644236 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10644195 TGCTAGAGGT
10644205 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10644237 CCTCCCTCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10656154 original size:59 final size:60
Alignment explanation
Indices: 10656036--10656176 Score: 169
Period size: 59 Copynumber: 2.4 Consensus size: 60
10656026 AACCCAAATT
* * * *
10656036 AGTTGGCCTTGAGATTATTTAAACCTAATTTAGCTAGCACCAAAATTTTAAGCTTAGTTA
1 AGTTGGCCTTGAGATTATTTAAACCTAATCTAGCAAGCACAAAAATTTTAAGCTCAGTTA
* * *
10656096 AGTTGTCCTTGAGA-TCTTTAAACCTAATCTAGCAAGCACAAAAATTTTAA-ATCCAGTTA
1 AGTTGGCCTTGAGATTATTTAAACCTAATCTAGCAAGCACAAAAATTTTAAGCT-CAGTTA
* * *
10656155 AGTTGGTCATAAGATTATTTAA
1 AGTTGGCCTTGAGATTATTTAA
10656177 CTCAATCTAG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
58 1 0.01
59 47 0.70
60 19 0.28
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (60 bp):
AGTTGGCCTTGAGATTATTTAAACCTAATCTAGCAAGCACAAAAATTTTAAGCTCAGTTA
Found at i:10658661 original size:9 final size:9
Alignment explanation
Indices: 10658647--10658697 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
10658637 AATTTCACTC
10658647 AAATTTTTA
1 AAATTTTTA
*
10658656 AAATTTTTT
1 AAATTTTTA
*
10658665 TAATTTTTA
1 AAATTTTTA
*
10658674 AAATTTTTT
1 AAATTTTTA
*
10658683 TAATTTTTA
1 AAATTTTTA
10658692 AAATTT
1 AAATTT
10658698 CTCCACCCAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AAATTTTTA
Found at i:10658669 original size:18 final size:18
Alignment explanation
Indices: 10658648--10658697 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
10658638 ATTTCACTCA
10658648 AATTTTTAAAATTTTTTT
1 AATTTTTAAAATTTTTTT
10658666 AATTTTTAAAATTTTTTT
1 AATTTTTAAAATTTTTTT
10658684 AATTTTTAAAATTT
1 AATTTTTAAAATTT
10658698 CTCCACCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTTTAAAATTTTTTT
Found at i:10659157 original size:21 final size:22
Alignment explanation
Indices: 10659133--10659180 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
10659123 ATTTTACTTT
*
10659133 TTATATTT-AGTTGAA-AGGAAA
1 TTAT-TTTGAGTTGAAGAAGAAA
*
10659154 TTATTTTGAGTTTAAGAAGAAA
1 TTATTTTGAGTTGAAGAAGAAA
10659176 TTATT
1 TTATT
10659181 AATTCTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 10 0.43
22 10 0.43
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.44
Consensus pattern (22 bp):
TTATTTTGAGTTGAAGAAGAAA
Found at i:10666386 original size:30 final size:29
Alignment explanation
Indices: 10666329--10666387 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
10666319 AATTATGATT
*
10666329 TTTTTATTATATTTAATTAAAGTTTTATA
1 TTTTTATTATATTTAAATAAAGTTTTATA
*
10666358 TTTTTATTTTATATTAAATAAA-TATTTATA
1 TTTTTATTATAT-TTAAATAAAGT-TTTATA
10666388 ATTCATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTTATTATATTTAAATAAAGTTTTATA
Found at i:10666669 original size:29 final size:28
Alignment explanation
Indices: 10666637--10666696 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
10666627 AAAATATAAT
10666637 AATTTGATTAAACGTAA-TAAAAAATTTTA
1 AATTTGATTAAA--TAATTAAAAAATTTTA
**
10666666 AATTTTTTTAAATAATTTAAAAAATTTTA
1 AATTTGATTAAATAA-TTAAAAAATTTTA
10666695 AA
1 AA
10666697 GTATCATGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 3 0.11
29 24 0.89
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (28 bp):
AATTTGATTAAATAATTAAAAAATTTTA
Found at i:10669078 original size:13 final size:13
Alignment explanation
Indices: 10669060--10669088 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
10669050 TGTATAATAT
10669060 AAAGGAAATTGAA
1 AAAGGAAATTGAA
10669073 AAAGGAAATTGAA
1 AAAGGAAATTGAA
10669086 AAA
1 AAA
10669089 ATGGAGAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.14
Consensus pattern (13 bp):
AAAGGAAATTGAA
Found at i:10671444 original size:24 final size:24
Alignment explanation
Indices: 10671390--10671445 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
10671380 GTTAAAATGT
* * *
10671390 TGGCCTGGTAGATGATGTGTTAGT
1 TGGCATGGTAGATGATGTGTCAGG
*
10671414 TGACATGGTAGATGATG-GTCAGGG
1 TGGCATGGTAGATGATGTGTCA-GG
10671438 TGGCATGG
1 TGGCATGG
10671446 CAAGTTGTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.20, C:0.09, G:0.41, T:0.30
Consensus pattern (24 bp):
TGGCATGGTAGATGATGTGTCAGG
Found at i:10695056 original size:19 final size:19
Alignment explanation
Indices: 10695032--10695080 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
10695022 GATAAGGTAG
10695032 ATGTTTGGAAGGATTATCC
1 ATGTTTGGAAGGATTATCC
10695051 ATGTTTGGAAGGATTATCC
1 ATGTTTGGAAGGATTATCC
*
10695070 ATGCTTGGAAG
1 ATGTTTGGAAG
10695081 AGTCTTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (19 bp):
ATGTTTGGAAGGATTATCC
Found at i:10698310 original size:15 final size:15
Alignment explanation
Indices: 10698292--10698347 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
10698282 TAAAATTATT
10698292 TTTTTAACAATTACA
1 TTTTTAACAATTACA
* * *
10698307 TTTTCAATAATCACA
1 TTTTTAACAATTACA
* *
10698322 TATTTAACAAGTACA
1 TTTTTAACAATTACA
10698337 TTTTTAACAAT
1 TTTTTAACAAT
10698348 CACAGTACTA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (15 bp):
TTTTTAACAATTACA
Found at i:10698330 original size:30 final size:30
Alignment explanation
Indices: 10698294--10698351 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10698284 AAATTATTTT
* *
10698294 TTTAACAATTACATTTTCAATAATCACATA
1 TTTAACAAGTACATTTTCAACAATCACATA
*
10698324 TTTAACAAGTACATTTTTAACAATCACA
1 TTTAACAAGTACATTTTCAACAATCACA
10698352 GTACTATCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (30 bp):
TTTAACAAGTACATTTTCAACAATCACATA
Found at i:10707129 original size:17 final size:19
Alignment explanation
Indices: 10707093--10707130 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10707083 TTTAAAGTTC
10707093 TTGAAAAATAAACTTCTTA
1 TTGAAAAATAAACTTCTTA
*
10707112 TTGAATAAT-AAC-TCTTA
1 TTGAAAAATAAACTTCTTA
10707129 TT
1 TT
10707131 TTATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (19 bp):
TTGAAAAATAAACTTCTTA
Found at i:10707403 original size:29 final size:28
Alignment explanation
Indices: 10707361--10707484 Score: 115
Period size: 29 Copynumber: 4.4 Consensus size: 28
10707351 TTTCTTGCCT
10707361 TAAATTAAGACAAACATATTTTTTTTTC
1 TAAATTAAGACAAACATATTTTTTTTTC
* * * *
10707389 TAAATTAAGGCCAAACTTGTTTTCTTGTT-
1 TAAATTAA-GACAAACATATTTT-TTTTTC
* * ** *
10707418 TAAATTAAGACAAATATGTTTTCCTATC
1 TAAATTAAGACAAACATATTTTTTTTTC
* *
10707446 TAAATTAAGACATCACATATTTTTTTGTC
1 TAAATTAAGACA-AACATATTTTTTTTTC
10707475 TAAATTAAGA
1 TAAATTAAGA
10707485 TAAATATGTT
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
27 1 0.01
28 31 0.41
29 39 0.52
30 4 0.05
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (28 bp):
TAAATTAAGACAAACATATTTTTTTTTC
Found at i:10707437 original size:28 final size:28
Alignment explanation
Indices: 10707350--10707494 Score: 109
Period size: 28 Copynumber: 5.1 Consensus size: 28
10707340 CAAAAAAAAA
* * *
10707350 TTTTCTTGCCTTAAATTAAGACAAACATA
1 TTTTCTTG-TTTAAATTAAGACAAATATG
* *
10707379 TTTT-TTTTTCTAAATTAAGGCCAAACT-TG
1 TTTTCTTGTT-TAAATTAA-GACAAA-TATG
10707408 TTTTCTTGTTTAAATTAAGACAAATATG
1 TTTTCTTGTTTAAATTAAGACAAATATG
* * *
10707436 TTTTCCTATCTAAATTAAGACATCACATAT-
1 TTTTCTTGTTTAAATTAAGACA--A-ATATG
* *
10707466 TTTT-TTGTCTAAATTAAGATAAATATG
1 TTTTCTTGTTTAAATTAAGACAAATATG
10707493 TT
1 TT
10707495 AAAGCGGTCA
Statistics
Matches: 94, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
26 4 0.04
27 5 0.05
28 36 0.38
29 36 0.38
30 9 0.10
31 4 0.04
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (28 bp):
TTTTCTTGTTTAAATTAAGACAAATATG
Found at i:10711510 original size:30 final size:29
Alignment explanation
Indices: 10711474--10711564 Score: 110
Period size: 30 Copynumber: 3.1 Consensus size: 29
10711464 CATAAGTGTA
*
10711474 TATTTGACTTAAAATAAAAATTTAAAGACT
1 TATTTGA-TTAAAATAAAAATTTAAAAACT
**
10711504 TATTTGATTTAAAATAAAAATAAAAAAACT
1 TATTTGA-TTAAAATAAAAATTTAAAAACT
* * *
10711534 TAATTGAATACAATAAAAATTTAAAAACT
1 TATTTGATTAAAATAAAAATTTAAAAACT
10711563 TA
1 TA
10711565 ATTAAATTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
29 20 0.38
30 32 0.62
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.34
Consensus pattern (29 bp):
TATTTGATTAAAATAAAAATTTAAAAACT
Found at i:10725293 original size:4 final size:4
Alignment explanation
Indices: 10725279--10725308 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
10725269 ACATATATAC
*
10725279 AAAG GAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
10725309 TAAATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:10729149 original size:23 final size:21
Alignment explanation
Indices: 10729071--10729170 Score: 121
Period size: 21 Copynumber: 4.8 Consensus size: 21
10729061 CGACTCCGAT
* *
10729071 CATATGGGGATCTATCACGAG
1 CATATGGGGATCTCTCACGAC
** *
10729092 TGTAAGGGGATCTCTCACGAC
1 CATATGGGGATCTCTCACGAC
10729113 CATATGGGGATCTCTCACGAC
1 CATATGGGGATCTCTCACGAC
* *
10729134 CATATGGGGATTTCTCATG-C
1 CATATGGGGATCTCTCACGAC
10729154 GCATATGGGGATCTCTC
1 -CATATGGGGATCTCTC
10729171 CCGTCGAACT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
20 1 0.01
21 66 0.99
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (21 bp):
CATATGGGGATCTCTCACGAC
Found at i:10730045 original size:39 final size:39
Alignment explanation
Indices: 10729975--10730076 Score: 125
Period size: 39 Copynumber: 2.6 Consensus size: 39
10729965 CCGTAATAAT
* * ** *
10729975 CTCTCCATTCACCACCTCCCCTTTTTTCCCAGAAACAAT
1 CTCTCCCTTCTCCACCTCCCCTTTTCCCCCAGAAACAAC
*
10730014 TTC-CCCTTTCTCCACCTCCCCTTTTCCCCCAGAAACAAC
1 CTCTCCC-TTCTCCACCTCCCCTTTTCCCCCAGAAACAAC
*
10730053 CTCTCCCTTCTCCACTTCCCCTTT
1 CTCTCCCTTCTCCACCTCCCCTTT
10730077 CCTCAATTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.04
39 48 0.91
40 3 0.06
ACGTcount: A:0.17, C:0.49, G:0.02, T:0.32
Consensus pattern (39 bp):
CTCTCCCTTCTCCACCTCCCCTTTTCCCCCAGAAACAAC
Found at i:10730430 original size:12 final size:12
Alignment explanation
Indices: 10730393--10730433 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
10730383 TCGTGGTGGC
*
10730393 TGCTGCTGCGGT
1 TGCTGTTGCGGT
**
10730405 TGCTGTTGTTGT
1 TGCTGTTGCGGT
10730417 TGCTGTTGCGGT
1 TGCTGTTGCGGT
10730429 TGCTG
1 TGCTG
10730434 CTGCTCCTGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.39, T:0.44
Consensus pattern (12 bp):
TGCTGTTGCGGT
Found at i:10732862 original size:28 final size:28
Alignment explanation
Indices: 10732830--10732883 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
10732820 GATTGAAACT
10732830 TTATTTATATTT-GATATAATTTATTTAC
1 TTATTTATATTTAG-TATAATTTATTTAC
*
10732858 TTATTTATATTTAGTGTAATTTATTT
1 TTATTTATATTTAGTATAATTTATTT
10732884 GTTTGTAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (28 bp):
TTATTTATATTTAGTATAATTTATTTAC
Found at i:10734084 original size:40 final size:40
Alignment explanation
Indices: 10734030--10734105 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
10734020 GAATTATATC
*
10734030 TCATTAATTTTATTAAAAAAAT-TTAA-AATTTATATTGAA
1 TCATTAATATTATTAAAAAAATCTTAATAA-TTATATTGAA
10734069 TCATTGAATATTATTAAAAAAATCTTAATAATTATAT
1 TCATT-AATATTATTAAAAAAATCTTAATAATTATAT
10734106 CTAAATTATC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
39 5 0.15
40 16 0.48
41 10 0.30
42 2 0.06
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (40 bp):
TCATTAATATTATTAAAAAAATCTTAATAATTATATTGAA
Found at i:10735671 original size:20 final size:20
Alignment explanation
Indices: 10735646--10735684 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10735636 GACTATGATA
10735646 GTATATTGCATGT-ATTTTAG
1 GTATA-TGCATGTCATTTTAG
*
10735666 GTATATGTATGTCATTTTA
1 GTATATGCATGTCATTTTA
10735685 ATAGTCGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (20 bp):
GTATATGCATGTCATTTTAG
Found at i:10744379 original size:18 final size:18
Alignment explanation
Indices: 10744331--10744379 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
10744321 TTTTTAAGCT
*
10744331 TTTTTTTAAAAAAATTTA
1 TTTTTTTAAAAAAAGTTA
**
10744349 TTTTTAGAAAAAAAGTTA
1 TTTTTTTAAAAAAAGTTA
10744367 TTTTTTTATAAAA
1 TTTTTTTA-AAAA
10744380 GGCTTTTCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTTTTAAAAAAAGTTA
Found at i:10754104 original size:33 final size:33
Alignment explanation
Indices: 10754067--10754134 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
10754057 AAATCACTAT
*
10754067 AATGCTAATTTGCTAGCTAACTCTTGGTTCGTC
1 AATGCTAAGTTGCTAGCTAACTCTTGGTTCGTC
10754100 AATGCTAAGTTGCTAGCTAACTCTTGGTTCGTC
1 AATGCTAAGTTGCTAGCTAACTCTTGGTTCGTC
10754133 AA
1 AA
10754135 AGTTTAATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (33 bp):
AATGCTAAGTTGCTAGCTAACTCTTGGTTCGTC
Found at i:10758882 original size:34 final size:34
Alignment explanation
Indices: 10758839--10758904 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
10758829 GATGACAAAG
*
10758839 CGTGTTAATGGGAAACTAGCTTCAATCGGTACAT
1 CGTGTTAATGGGAAACCAGCTTCAATCGGTACAT
*
10758873 CGTGTTAATGGGAGACCAGCTTCAATCGGTAC
1 CGTGTTAATGGGAAACCAGCTTCAATCGGTAC
10758905 TCCCCTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (34 bp):
CGTGTTAATGGGAAACCAGCTTCAATCGGTACAT
Found at i:10766199 original size:2 final size:2
Alignment explanation
Indices: 10766192--10766221 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10766182 ATGATTTTTC
10766192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10766222 TTTCTTTCTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10767492 original size:14 final size:14
Alignment explanation
Indices: 10767473--10767512 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
10767463 TCTTATCGGA
10767473 ATTTAAAATTTTAG
1 ATTTAAAATTTTAG
* *
10767487 ATTTAAGATTTCAG
1 ATTTAAAATTTTAG
*
10767501 AATTAAAATTTT
1 ATTTAAAATTTT
10767513 TAATTAATTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (14 bp):
ATTTAAAATTTTAG
Found at i:10768053 original size:17 final size:17
Alignment explanation
Indices: 10768033--10768065 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10768023 AAGTTGAGAT
10768033 TTTTTTTTAATTTTTAA
1 TTTTTTTTAATTTTTAA
*
10768050 TTTTTTTTATTTTTTA
1 TTTTTTTTAATTTTTA
10768066 TCAACTTGAG
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTAATTTTTAA
Found at i:10778973 original size:17 final size:16
Alignment explanation
Indices: 10778950--10778989 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
10778940 AATCATTAGA
*
10778950 TATTAAAATCTATAAT
1 TATTAAAATATATAAT
*
10778966 TAATTAAATTATATAAT
1 T-ATTAAAATATATAAT
10778983 TATTAAA
1 TATTAAA
10778990 TCAAACCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTAAAATATATAAT
Found at i:10779685 original size:9 final size:9
Alignment explanation
Indices: 10779673--10779746 Score: 51
Period size: 9 Copynumber: 8.1 Consensus size: 9
10779663 TTTATTTAAT
10779673 TTATTTTTA
1 TTATTTTTA
*
10779682 TTATTATTA
1 TTATTTTTA
* * *
10779691 TGAATTTCA
1 TTATTTTTA
* *
10779700 TTAATTTAA
1 TTATTTTTA
*
10779709 TTATTATTA
1 TTATTTTTA
10779718 TTAAATTTTT-
1 TT--ATTTTTA
*
10779728 TTCTTTTTA
1 TTATTTTTA
10779737 TTATTTTTA
1 TTATTTTTA
10779746 T
1 T
10779747 CTCATTTTAT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
8 5 0.10
9 37 0.76
10 2 0.04
11 5 0.10
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (9 bp):
TTATTTTTA
Found at i:10781337 original size:17 final size:18
Alignment explanation
Indices: 10781303--10781342 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
10781293 ACCACCACAC
10781303 TTAAATTCTTATTAATAA
1 TTAAATTCTTATTAATAA
*
10781321 TTAAATT-TTATTTATAA
1 TTAAATTCTTATTAATAA
10781338 TTAAA
1 TTAAA
10781343 AGAAGAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAAATTCTTATTAATAA
Found at i:10783381 original size:21 final size:21
Alignment explanation
Indices: 10783331--10783370 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10783321 AATATACTAA
10783331 ATTTATAATTTTTTAATTTAAT
1 ATTTA-AATTTTTTAATTTAAT
*
10783353 ATTAAAATTTTTT-ATTTA
1 ATTTAAATTTTTTAATTTA
10783371 TGATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTAAATTTTTTAATTTAAT
Found at i:10783986 original size:61 final size:60
Alignment explanation
Indices: 10783911--10784043 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 60
10783901 CTATTTGACA
* * * * * *
10783911 AAAAATACTCAAAATATTTAAAAGTTTTTTTTCATATATAAAAAATTACTCCAAAATGTTT
1 AAAAATGCTTAAAATATTCAAAA-ATTCTTTTCATATATAAAAAATTACTCCAAAATGCTT
* * * * *
10783972 AAAAATGCTTAAAATGTTCAAAAATTCTTTTCGTGTATTAAAAATTATTCCAAAATGCTT
1 AAAAATGCTTAAAATATTCAAAAATTCTTTTCATATATAAAAAATTACTCCAAAATGCTT
*
10784032 CAAAA-GCTTAAA
1 AAAAATGCTTAAA
10784044 CGTTTTTCTT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 7 0.12
60 34 0.57
61 19 0.32
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (60 bp):
AAAAATGCTTAAAATATTCAAAAATTCTTTTCATATATAAAAAATTACTCCAAAATGCTT
Found at i:10797327 original size:23 final size:23
Alignment explanation
Indices: 10797301--10797350 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
10797291 AGCTTTGGCA
* *
10797301 TGTAACATCTTGGAGCCATGGTG
1 TGTAACATCATGAAGCCATGGTG
*
10797324 TGTAACATCATGAAGCCATGTTG
1 TGTAACATCATGAAGCCATGGTG
10797347 TGTA
1 TGTA
10797351 GTTTATTACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (23 bp):
TGTAACATCATGAAGCCATGGTG
Found at i:10798082 original size:17 final size:17
Alignment explanation
Indices: 10798055--10798096 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
10798045 CATTTTAAGT
10798055 TCTTGATTAAATAA-AAC
1 TCTT-ATTAAATAATAAC
10798072 TCATTATTAAATAATAAC
1 TC-TTATTAAATAATAAC
10798090 TCTTATT
1 TCTTATT
10798097 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TCTTATTAAATAATAAC
Found at i:10798272 original size:31 final size:29
Alignment explanation
Indices: 10798237--10798384 Score: 140
Period size: 29 Copynumber: 5.0 Consensus size: 29
10798227 TTAAGACAAC
*
10798237 TCTTGTCTTTAATTAAGATAAAAATATTTT
1 TCTTGTC-TAAATTAAGATAAAAATATTTT
* *
10798267 ATCTTGTCTAAATTGAGAT-AATATATTTT
1 -TCTTGTCTAAATTAAGATAAAAATATTTT
* * *
10798296 T-TTATCTAGATTAAGACAAAAAATATTTT
1 TCTTGTCTAAATTAAGA-TAAAAATATTTT
* *
10798325 TCTTGTCTTAAATTAAGACAAACATA-TTT
1 TCTTGTC-TAAATTAAGATAAAAATATTTT
* *
10798354 TCTTGTCTAAATTAAGACCAAACATATTTT
1 TCTTGTCTAAATTAAGA-TAAAAATATTTT
10798384 T
1 T
10798385 TTATTTAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
27 12 0.12
28 11 0.11
29 37 0.37
30 23 0.23
31 16 0.16
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (29 bp):
TCTTGTCTAAATTAAGATAAAAATATTTT
Found at i:10798321 original size:29 final size:29
Alignment explanation
Indices: 10798247--10798403 Score: 133
Period size: 29 Copynumber: 5.4 Consensus size: 29
10798237 TCTTGTCTTT
* *
10798247 AATTAAGATAAAA-ATATTTTATCTTGTCTA
1 AATTAAGACAAAACATATTTT-T-TTATCTA
* * *
10798277 AATT--GAGATAATATATTTTTTTATCTA
1 AATTAAGACAAAACATATTTTTTTATCTA
* * *
10798304 GATTAAGACAAAAAATATTTTTCTTGTCTTA
1 AATTAAGACAAAACATATTTTT-TTATC-TA
* *
10798335 AATTAAGAC-AAACATATTTTCTTGTCTA
1 AATTAAGACAAAACATATTTTTTTATCTA
* *
10798363 AATTAAGACCAAACATATTTTTTTATTTA
1 AATTAAGACAAAACATATTTTTTTATCTA
*
10798392 AATTAGGACAAA
1 AATTAAGACAAA
10798404 TATGTTAAAG
Statistics
Matches: 105, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
27 9 0.09
28 17 0.16
29 51 0.49
30 18 0.17
31 10 0.10
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (29 bp):
AATTAAGACAAAACATATTTTTTTATCTA
Found at i:10798386 original size:88 final size:88
Alignment explanation
Indices: 10798237--10798403 Score: 221
Period size: 88 Copynumber: 1.9 Consensus size: 88
10798227 TTAAGACAAC
* * * * *
10798237 TCTTGTCTTTAATTAAGATAAAAATATTTTATCTTGTCTAAATTGAGATAATATATTTTTTTATC
1 TCTTGTCTTAAATTAAGACAAAAATATTTTATCTTGTCTAAATTAAGAAAACATATTTTTTTATC
*
10798302 TAGATTAAGACAAAAAATATTTT
66 TAAATTAAGACAAAAAATATTTT
*
10798325 TCTTGTCTTAAATTAAGACAAACATA-TTT-TCTTGTCTAAATTAAGACCAAACATATTTTTTTA
1 TCTTGTCTTAAATTAAGACAAAAATATTTTATCTTGTCTAAATTAAGA--AAACATATTTTTTTA
* *
10798388 TTTAAATTAGGACAAA
64 TCTAAATTAAGACAAA
10798404 TATGTTAAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
86 16 0.24
87 3 0.04
88 49 0.72
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.44
Consensus pattern (88 bp):
TCTTGTCTTAAATTAAGACAAAAATATTTTATCTTGTCTAAATTAAGAAAACATATTTTTTTATC
TAAATTAAGACAAAAAATATTTT
Found at i:10801384 original size:30 final size:29
Alignment explanation
Indices: 10801276--10801380 Score: 99
Period size: 29 Copynumber: 3.6 Consensus size: 29
10801266 TATTTAAAGA
*
10801276 AATTCAAATAAAC-CTTTATACTTTTATTAT
1 AATT-AAATAAACTC-TTATACTTTTATTTT
*
10801306 -ATTAAATCAAACTCTTATATTTTTATTTT
1 AATTAAAT-AAACTCTTATACTTTTATTTT
** *
10801335 AAACAAAAAAAGCTCTTATACTTTTATTTT
1 AATTAAATAAA-CTCTTATACTTTTATTTT
10801365 AAGTTAAATAAA-TCTT
1 AA-TTAAATAAACTCTT
10801381 TATAATTAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
28 4 0.07
29 27 0.44
30 24 0.39
31 6 0.10
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (29 bp):
AATTAAATAAACTCTTATACTTTTATTTT
Found at i:10801521 original size:33 final size:33
Alignment explanation
Indices: 10801448--10801521 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
10801438 TTAATGTGGT
* * ** *
10801448 ATATTAATATATTATAATTGATGATGTTATGAT
1 ATATTAATATATCATAATTGAAGATGACATGAC
* *
10801481 ATGTTAATGTATCATAATTGAAGATGACATGAC
1 ATATTAATATATCATAATTGAAGATGACATGAC
10801514 ATATTAAT
1 ATATTAAT
10801522 TTAGCATGAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.42
Consensus pattern (33 bp):
ATATTAATATATCATAATTGAAGATGACATGAC
Found at i:10803756 original size:18 final size:18
Alignment explanation
Indices: 10803735--10803778 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10803725 CATTTTTGTC
10803735 TATTCAAACAATTATATT
1 TATTCAAACAATTATATT
* *
10803753 TATTTAAATAATTATATT
1 TATTCAAACAATTATATT
*
10803771 TGTTCAAA
1 TATTCAAA
10803779 ATATTATGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (18 bp):
TATTCAAACAATTATATT
Found at i:10803784 original size:18 final size:18
Alignment explanation
Indices: 10803744--10803785 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10803734 CTATTCAAAC
*
10803744 AATTATATTTATTTAAAT
1 AATTATATTTATTAAAAT
*
10803762 AATTATATTTGTTCAAAAT
1 AATTATATTTATT-AAAAT
10803781 -ATTAT
1 AATTAT
10803786 GCTTGTACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
AATTATATTTATTAAAAT
Found at i:10807413 original size:15 final size:15
Alignment explanation
Indices: 10807393--10807433 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
10807383 TGAGTTTTTT
10807393 AAATTTTGATTGATC
1 AAATTTTGATTGATC
*
10807408 AAATTTTGATTGATT
1 AAATTTTGATTGATC
10807423 AAATTTTGATT
1 AAATTTTGATT
10807434 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.51
Consensus pattern (15 bp):
AAATTTTGATTGATC
Found at i:10812126 original size:19 final size:18
Alignment explanation
Indices: 10812096--10812191 Score: 53
Period size: 18 Copynumber: 5.3 Consensus size: 18
10812086 TAAAACAATT
10812096 AAAAT-AAAATATATA-A
1 AAAATAAAAATATATATA
* *
10812112 TATA-AAAAAT-TATATTA
1 AAAATAAAAATATATA-TA
10812129 AAAATAAAAATATATATA
1 AAAATAAAAATATATATA
*
10812147 AGATTATAATAAA-A-A-ATA
1 A-A-AATAA-AAATATATATA
10812165 AAAATAAAATATATGATATTA
1 AAAATAAAA-ATAT-ATA-TA
10812186 AAAATA
1 AAAATA
10812192 TATTTAAGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 23
0.67 0.07 0.26
Matches are distributed among these distances:
15 6 0.10
16 12 0.20
17 5 0.08
18 13 0.22
19 7 0.12
20 6 0.10
21 11 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAATAAAAATATATATA
Found at i:10812144 original size:29 final size:29
Alignment explanation
Indices: 10812111--10812191 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 29
10812101 AAAATATATA
10812111 ATATAAAAAATTATATTAAAAATAAAAAT
1 ATATAAAAAATTATATTAAAAATAAAAAT
* * *
10812140 ATATATAAGATTATAATAAAAAATAAAAAT
1 ATATAAAAAATTAT-ATTAAAAATAAAAAT
* * *
10812170 A-A-AATATATGATATTAAAAATA
1 ATATAAAAAATTATATTAAAAATA
10812192 TATTTAAGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
27 9 0.21
28 6 0.14
29 13 0.30
30 15 0.35
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (29 bp):
ATATAAAAAATTATATTAAAAATAAAAAT
Found at i:10812175 original size:69 final size:70
Alignment explanation
Indices: 10812086--10812234 Score: 187
Period size: 69 Copynumber: 2.1 Consensus size: 70
10812076 ATATTTTTTG
* *
10812086 TAAAACAATTAAAATAAAATATATAATATAAAAAAT-TATATTAA-AAATAAAAATATATATAAG
1 TAAAA-AATAAAAATAAAATATATAATATAAAAAATATAT-TTAAGAAATAAAAATATATA-AAA
10812149 ATT-ATAA
63 ATTAATAA
* * * * *
10812156 TAAAAAATAAAAATAAAATATATGATATTAAAAATATATTTAAGAAATGATATTATATAAAAATT
1 TAAAAAATAAAAATAAAATATATAATATAAAAAATATATTTAAGAAATAAAAATATATAAAAATT
10812221 AATAA
66 AATAA
10812226 TAAAAAATA
1 TAAAAAATA
10812235 CAAGTATATT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
69 36 0.52
70 33 0.48
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (70 bp):
TAAAAAATAAAAATAAAATATATAATATAAAAAATATATTTAAGAAATAAAAATATATAAAAATT
AATAA
Found at i:10812219 original size:16 final size:15
Alignment explanation
Indices: 10812170--10812231 Score: 51
Period size: 16 Copynumber: 4.3 Consensus size: 15
10812160 AAATAAAAAT
*
10812170 AAAATATATGATATTA
1 AAAATATATTATA-TA
10812186 AAAATATATT-TA-A
1 AAAATATATTATATA
*
10812199 GAAATGATATTATATA
1 AAAAT-ATATTATATA
*
10812215 AAAAT-TAATA-ATA
1 AAAATATATTATATA
10812228 AAAA
1 AAAA
10812232 ATACAAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 12 0.31
14 9 0.23
15 4 0.10
16 14 0.36
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (15 bp):
AAAATATATTATATA
Found at i:10815948 original size:96 final size:96
Alignment explanation
Indices: 10815762--10815953 Score: 237
Period size: 96 Copynumber: 2.0 Consensus size: 96
10815752 AAATTTACTT
* * * * *
10815762 TAAAAAGTATGCAAGTGCAATAAACTTTATATTTTCATACATAAAGGTAGTTTTGAAAATTAACA
1 TAAAAAGCATGCAAGTGCAATAAACTTTAGATTTTCATACACAAAAGTAATTTTGAAAATTAACA
*
10815827 TCATATTCTCAACAATGAATCTCTAAACCAA
66 TCATATTCTCAACAAAGAATCTCTAAACCAA
* *
10815858 TAAAAAGCATGCAATTG-AATTAAACTTTAGATTTTTATACACAAAAGTAATTTTGAAAATTAAC
1 TAAAAAGCATGCAAGTGCAA-TAAACTTTAGATTTTCATACACAAAAGTAATTTTGAAAATTAAC
* * *
10815922 A-CTATATTCT-AAGTAAAGTATTTCTAAACCAA
65 ATC-ATATTCTCAA-CAAAGAATCTCTAAACCAA
10815954 ATATTACAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
95 5 0.06
96 77 0.94
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (96 bp):
TAAAAAGCATGCAAGTGCAATAAACTTTAGATTTTCATACACAAAAGTAATTTTGAAAATTAACA
TCATATTCTCAACAAAGAATCTCTAAACCAA
Found at i:10817423 original size:32 final size:32
Alignment explanation
Indices: 10817353--10817438 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 32
10817343 CATCCTTTAA
* *
10817353 ATATATTTTATTTTCATTTCTTACTATAATCTT
1 ATATATTTTATTTTTATTT-TTAATATAATCTT
*
10817386 ATATATTTTATTTTTATTTTTAATATAATTTT
1 ATATATTTTATTTTTATTTTTAATATAATCTT
* **
10817418 TTATATTAGATATTTTATTTT
1 ATATATTTTAT-TTTTATTTT
10817439 AATTTTTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 19 0.41
33 27 0.59
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (32 bp):
ATATATTTTATTTTTATTTTTAATATAATCTT
Found at i:10817708 original size:15 final size:13
Alignment explanation
Indices: 10817676--10817700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10817666 GCTAATATAA
10817676 TTATATTATAATT
1 TTATATTATAATT
10817689 TTATATTATAAT
1 TTATATTATAAT
10817701 ATTTTATAAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATATTATAATT
Found at i:10817737 original size:27 final size:25
Alignment explanation
Indices: 10817690--10817751 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
10817680 ATTATAATTT
*
10817690 TATATTATAATATTTTATAATAAAA
1 TATATTATAATATATTATAATAAAA
*
10817715 TAAATATTATAATATAATT-TAATTAAA
1 T--ATATTATAATAT-ATTATAATAAAA
10817742 TATATTATAA
1 TATATTATAA
10817752 AAATATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 10 0.31
27 20 0.62
28 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TATATTATAATATATTATAATAAAA
Found at i:10825371 original size:21 final size:21
Alignment explanation
Indices: 10825345--10825395 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
10825335 AAGTTGATTG
10825345 ACTATAGAAAGATTATACTCA
1 ACTATAGAAAGATTATACTCA
10825366 ACTATAGAAAGATTATACTCA
1 ACTATAGAAAGATTATACTCA
10825387 ACTATAGAA
1 ACTATAGAA
10825396 GCCTTAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (21 bp):
ACTATAGAAAGATTATACTCA
Found at i:10828885 original size:17 final size:16
Alignment explanation
Indices: 10828849--10828891 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
10828839 TACAGGATTT
*
10828849 TATAT-AATGGTTAAA
1 TATATAAATAGTTAAA
10828864 TATATAAATAGTTAAA
1 TATATAAATAGTTAAA
10828880 TAATATAAATAG
1 T-ATATAAATAG
10828892 AAAGAAGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.20
16 10 0.40
17 10 0.40
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.37
Consensus pattern (16 bp):
TATATAAATAGTTAAA
Found at i:10829282 original size:49 final size:49
Alignment explanation
Indices: 10829193--10829289 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
10829183 TTTTGAGAGA
* *
10829193 ACCATTAAAAATATATAGTAAATAAATAATTCCATAAATTTTGAAAGGG
1 ACCATTAAAAATATATAGTAAATAAAAAATTCCAAAAATTTTGAAAGGG
* * *
10829242 ACCATTAATATATATATA-TAAAATAAAAAATT-TAAAAATTTTGGAAGG
1 ACCATTAA-AAATATATAGT-AAATAAAAAATTCCAAAAATTTTGAAAGG
10829290 CCGTAGCCAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
49 22 0.54
50 19 0.46
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (49 bp):
ACCATTAAAAATATATAGTAAATAAAAAATTCCAAAAATTTTGAAAGGG
Found at i:10837578 original size:4 final size:4
Alignment explanation
Indices: 10837571--10837597 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
10837561 GATATATATA
10837571 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
10837598 ATCTTGATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:10846173 original size:12 final size:12
Alignment explanation
Indices: 10846152--10846190 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
10846142 TATATAAAAC
10846152 TAAT-TATTTTT
1 TAATGTATTTTT
10846163 TAATGTATTTTT
1 TAATGTATTTTT
*
10846175 TAAAGCTATTTTT
1 TAATG-TATTTTT
10846188 TAA
1 TAA
10846191 ATTTATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 4 0.16
12 11 0.44
13 10 0.40
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (12 bp):
TAATGTATTTTT
Found at i:10846184 original size:13 final size:12
Alignment explanation
Indices: 10846156--10846191 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
10846146 TAAAACTAAT
*
10846156 TATTTTTTAATG
1 TATTTTTTAAAG
10846168 TATTTTTTAAAG
1 TATTTTTTAAAG
10846180 CTATTTTTTAAA
1 -TATTTTTTAAA
10846192 TTTATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (12 bp):
TATTTTTTAAAG
Found at i:10846744 original size:30 final size:30
Alignment explanation
Indices: 10846710--10846773 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
10846700 CAAGAAGTTA
* * **
10846710 ATGAAGAGATTCAAACTGATCATAGTAATC
1 ATGAAGAGATTCAAAATGACCATAAAAATC
10846740 ATGAAGAGATTCAAAATGACCATAAAAATC
1 ATGAAGAGATTCAAAATGACCATAAAAATC
10846770 ATGA
1 ATGA
10846774 TGAATAGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.23
Consensus pattern (30 bp):
ATGAAGAGATTCAAAATGACCATAAAAATC
Found at i:10847853 original size:30 final size:30
Alignment explanation
Indices: 10847813--10847870 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
10847803 TAAGAAGTTA
*
10847813 ATGAAGAGATTCAAAATGATCATAAAAATC
1 ATGAAAAGATTCAAAATGATCATAAAAATC
10847843 ATGAAAAGATTCAAAATGATCATAAAAA
1 ATGAAAAGATTCAAAATGATCATAAAAA
10847871 GTATGACGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.57, C:0.09, G:0.12, T:0.22
Consensus pattern (30 bp):
ATGAAAAGATTCAAAATGATCATAAAAATC
Found at i:10848905 original size:27 final size:27
Alignment explanation
Indices: 10848875--10849025 Score: 104
Period size: 27 Copynumber: 5.8 Consensus size: 27
10848865 AAATGACCCT
10848875 TTATTAATATTTTAAATAAATTATAAA
1 TTATTAATATTTTAAATAAATTATAAA
* * *
10848902 TTATTAATATTTAAAAATAAAATAAAAA
1 TTATTAATATTT-TAAATAAATTATAAA
* * * * * *
10848930 TAAATAATAACATTTAAAT-TATAAGGAAA
1 TTATTAAT-A-TTTTAAATAAATTA-TAAA
* *
10848959 -TATTATTA-TTTAAAT--A--ATCAA
1 TTATTAATATTTTAAATAAATTATAAA
10848980 TTATTAATATTTTAAATAAATTATAAA
1 TTATTAATATTTTAAATAAATTATAAA
10849007 TTATTAATA-TTTAAA-AAAT
1 TTATTAATATTTTAAATAAAT
10849026 AAAATAAAAT
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
21 2 0.02
22 8 0.08
23 7 0.07
24 1 0.01
25 12 0.12
26 6 0.06
27 26 0.27
28 24 0.25
29 8 0.08
30 2 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (27 bp):
TTATTAATATTTTAAATAAATTATAAA
Found at i:10848975 original size:22 final size:23
Alignment explanation
Indices: 10848950--10848998 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
10848940 CATTTAAATT
* *
10848950 ATAAGGAAATATTATTA-TTTAA
1 ATAAGCAAATATTAATATTTTAA
* *
10848972 ATAATCAATTATTAATATTTTAA
1 ATAAGCAAATATTAATATTTTAA
10848995 ATAA
1 ATAA
10848999 ATTATAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
ATAAGCAAATATTAATATTTTAA
Found at i:10848992 original size:105 final size:105
Alignment explanation
Indices: 10848837--10849043 Score: 319
Period size: 105 Copynumber: 2.0 Consensus size: 105
10848827 ATATTAATAA
* * **
10848837 TTAAATTATAAATAAAATATTAATATTTAAATGACCCTTTATTAATATTTTAAATAAATTATAAA
1 TTAAATTATAAAGAAAATATTAATATTTAAATAACCAATTATTAATATTTTAAATAAATTATAAA
10848902 TTATTAATATTT-AAAAATAAAATAAAAATAAATAATAACAT
66 TTATTAATATTTAAAAAATAAAAT-AAAATAAA-AATAACAT
* * *
10848943 TTAAATTAT-AAGGAAATATTATTATTTAAATAATCAATTATTAATATTTTAAATAAATTATAAA
1 TTAAATTATAAAGAAAATATTAATATTTAAATAACCAATTATTAATATTTTAAATAAATTATAAA
10849007 TTATTAATATTTAAAAAATAAAATAAAATAAAAATAA
66 TTATTAATATTTAAAAAATAAAATAAAATAAAAATAA
10849044 ATAACCATAA
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
104 5 0.05
105 68 0.73
106 20 0.22
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (105 bp):
TTAAATTATAAAGAAAATATTAATATTTAAATAACCAATTATTAATATTTTAAATAAATTATAAA
TTATTAATATTTAAAAAATAAAATAAAATAAAAATAACAT
Found at i:10849364 original size:16 final size:16
Alignment explanation
Indices: 10849343--10849374 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10849333 TAAGAACTAT
*
10849343 TTTATTTTATTCTCAC
1 TTTATTTTATTATCAC
10849359 TTTATTTTATTATCAC
1 TTTATTTTATTATCAC
10849375 ATAATAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATTTTATTATCAC
Found at i:10869466 original size:56 final size:57
Alignment explanation
Indices: 10869380--10869492 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 57
10869370 TCCGGTTAAG
10869380 TTCATCACCATTCTTGTATGATTGTAAATTTCTCGGTTTTT-CCTGTCAAATTGAGA
1 TTCATCACCATTCTTGTATGATTGTAAATTTCTCGGTTTTTCCCTGTCAAATTGAGA
10869436 TTCATCACCATTCTTGTATGATTGTAAATTTCTCGGTTTTTCCCTGTCAAATTGAGA
1 TTCATCACCATTCTTGTATGATTGTAAATTTCTCGGTTTTTCCCTGTCAAATTGAGA
10869493 AAGTCGAGTA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 41 0.73
57 15 0.27
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (57 bp):
TTCATCACCATTCTTGTATGATTGTAAATTTCTCGGTTTTTCCCTGTCAAATTGAGA
Found at i:10871981 original size:25 final size:25
Alignment explanation
Indices: 10871948--10872005 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
10871938 CCAACATCAA
*
10871948 AAACCAAATAACCACCAAATAAAAG
1 AAACTAAATAACCACCAAATAAAAG
* *
10871973 AAACTAAATAATCACCAAGTAAAAG
1 AAACTAAATAACCACCAAATAAAAG
10871998 AAATCTAA
1 AAA-CTAA
10872006 TTAGCACACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.62, C:0.19, G:0.05, T:0.14
Consensus pattern (25 bp):
AAACTAAATAACCACCAAATAAAAG
Found at i:10872216 original size:21 final size:21
Alignment explanation
Indices: 10872180--10872230 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
10872170 ATATGTTGAA
10872180 TAGTT-AA-TTTAAGTTATTT
1 TAGTTAAATTTTAAGTTATTT
*
10872199 TAGTTAAATTTTATGTTATTT
1 TAGTTAAATTTTAAGTTATTT
*
10872220 TATTTTAAATT
1 TA-GTTAAATT
10872231 ACTTTAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 2 0.07
21 13 0.48
22 7 0.26
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (21 bp):
TAGTTAAATTTTAAGTTATTT
Found at i:10874949 original size:20 final size:21
Alignment explanation
Indices: 10874924--10874962 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10874914 TGAAAAGAGC
10874924 TTAG-AAAAATAAACACTCGT
1 TTAGAAAAAATAAACACTCGT
10874944 TTAGAAAAAATAAACACTC
1 TTAGAAAAAATAAACACTC
10874963 TTACTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (21 bp):
TTAGAAAAAATAAACACTCGT
Found at i:10878906 original size:15 final size:16
Alignment explanation
Indices: 10878875--10878908 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10878865 ATAATTTTTT
*
10878875 AATTTTTAAAAATTAA
1 AATTATTAAAAATTAA
10878891 AATTATTAAAAA-TAA
1 AATTATTAAAAATTAA
10878906 AAT
1 AAT
10878909 CTACATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTATTAAAAATTAA
Found at i:10881645 original size:13 final size:12
Alignment explanation
Indices: 10881628--10881661 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
10881618 AGATAATGTT
10881628 AAAAATAAACAA
1 AAAAATAAACAA
*
10881640 ATAAAATTAACAA
1 A-AAAATAAACAA
10881653 AAAAATAAA
1 AAAAATAAA
10881662 TAACACTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATAAACAA
Found at i:10887521 original size:47 final size:47
Alignment explanation
Indices: 10887422--10888083 Score: 577
Period size: 47 Copynumber: 14.2 Consensus size: 47
10887412 TGAAACAAGG
* * *
10887422 CTGTGACATGGCAGGGTTCAGAGTTTGGTGACACGCCATGGAGGGAAT
1 CTGTGACACGTCAGAGTTCAGAGTTT-GTGACACGCCATGGAGGGAAT
* ** *
10887470 CTGTGACACTTCAGAGTTCAGAGTTTGTGACACGCCATGGAGACAAC
1 CTGTGACACGTCAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* * ** *
10887517 CTGTGACAC-TCTAGAGTTCATAGTTTGTGACATGATATGAAGGGAAT
1 CTGTGACACGTC-AGAGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
** * * * *
10887564 CTGTGACACACCAGAGTTCAAAG-TT-TGACACGACGTGGATGGAAT
1 CTGTGACACGTCAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* * *
10887609 CTGTGACACGGCAGTA-TTCAGAGTTTGTGACATGTCATGGAGGGAAT
1 CTGTGACACGTCAG-AGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* * * *
10887656 TTGTGACATGACATG-GTTCA-AGGATTGTGACACGCCATGGAGGGAAT
1 CTGTGACACGTCA-GAGTTCAGA-GTTTGTGACACGCCATGGAGGGAAT
* * *
10887703 CTGTGACACGTCAGTGTTCAGAGTTGGTGACACGGCATGGAGGGAAT
1 CTGTGACACGTCAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* *
10887750 CTGTGACACCTCAGAGTTCAGAG-TT-TGACACGACATGGAGGGAAT
1 CTGTGACACGTCAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* * * *
10887795 CTGTGATA-GGCA-AGGTTCATG-GTTTGTGACAAGCCATGGAGGGAAA
1 CTGTGACACGTCAGA-GTTCA-GAGTTTGTGACACGCCATGGAGGGAAT
* * *
10887841 CTGTGACAC-TCCAGAGTTCAGAG-TT-TGACATGGCATGGATGGAAT
1 CTGTGACACGT-CAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
*
10887886 CTGTGACACGGCAGTA-TTCAGAGTTTGTGACACGCCATGGAGGGAAT
1 CTGTGACACGTCAG-AGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* * * * *
10887933 TTGTGACACGACAGGGTTCAGGGTTTGTGACATGCCATGGAGGGAAT
1 CTGTGACACGTCAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
* * * * * **
10887980 CTGTGAGACGCCAGTGTTCAGAGTTAGTGACACGGCA-GCGAAAGACAT
1 CTGTGACACGTCAGAGTTCAGAGTTTGTGACACGCCATG-GAGGGA-AT
* * * * * * *
10888028 TTGTGACACGGCAGCGTTTAG-GGTTGTGACACACCACT-GAGAGAAT
1 CTGTGACACGTCAGAGTTCAGAGTTTGTGACACGCCA-TGGAGGGAAT
10888074 CTGTGACACG
1 CTGTGACACG
10888084 CCATGTGTGT
Statistics
Matches: 500, Mismatches: 87, Indels: 56
0.78 0.14 0.09
Matches are distributed among these distances:
43 1 0.00
44 8 0.02
45 97 0.19
46 52 0.10
47 298 0.60
48 44 0.09
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (47 bp):
CTGTGACACGTCAGAGTTCAGAGTTTGTGACACGCCATGGAGGGAAT
Found at i:10887613 original size:139 final size:138
Alignment explanation
Indices: 10887422--10888082 Score: 624
Period size: 139 Copynumber: 4.7 Consensus size: 138
10887412 TGAAACAAGG
* * * * **
10887422 CTGTGACATGGCAGGGTTCAGAGTTTGGTGACACGCCATGGAGGGAATCTGTGACACTTCAG-AG
1 CTGTGACACGCCAGAGTTCAGAG-TT-GTGACACGGCATGGAGGGAATCTGTGACACGGCAGTA-
** *
10887486 TTCAGAGTTTGTGACACGCCATGGAGACAACCTGTGACACTCTAGAGTTCATAGTTTGTGACATG
63 TTCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTC-AG-GTTCATAGTTTGTGACATG
** *
10887551 ATATGAAGGGAAT
126 CCATGGAGGGAAT
* * * * *
10887564 CTGTGACACACCAGAGTTCAAAGTT-TGACACGACGTGGATGGAATCTGTGACACGGCAGTATTC
1 CTGTGACACGCCAGAGTTCAGAGTTGTGACACGGCATGGAGGGAATCTGTGACACGGCAGTATTC
* * * * *
10887628 AGAGTTTGTGACATGTCATGGAGGGAATTTGTGACA-TGACATGGTTCA-AGGATTGTGACACGC
66 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACT--CA-GGTTCATA-GTTTGTGACATGC
10887691 CATGGAGGGAAT
127 CATGGAGGGAAT
* * **
10887703 CTGTGACACGTCAGTGTTCAGAGTTGGTGACACGGCATGGAGGGAATCTGTGACACCTCAG-AGT
1 CTGTGACACGCCAGAGTTCAGAGTT-GTGACACGGCATGGAGGGAATCTGTGACACGGCAGTA-T
* * ** * *
10887767 TCAGAG-TT-TGACACGACATGGAGGGAATCTGTGATAGGCAAGGTTCATGGTTTGTGACAAGCC
64 TCAGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTC-AGGTTCATAGTTTGTGACATGCC
*
10887830 ATGGAGGGAAA
128 ATGGAGGGAAT
* * *
10887841 CTGTGACACTCCAGAGTTCAGAGTT-TGACATGGCATGGATGGAATCTGTGACACGGCAGTATTC
1 CTGTGACACGCCAGAGTTCAGAGTTGTGACACGGCATGGAGGGAATCTGTGACACGGCAGTATTC
* * **
10887905 AGAGTTTGTGACACGCCATGGAGGGAATTTGTGACACGACAGGGTTCAGGGTTTGTGACATGCCA
66 AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACAC-TCA-GGTTCATAGTTTGTGACATGCCA
10887970 TGGAGGGAAT
129 TGGAGGGAAT
* * ** * **
10887980 CTGTGAGACGCCAGTGTTCAGAGTTAGTGACACGGCA-GCGAAAGACATTTGTGACACGGCAGCG
1 CTGTGACACGCCAGAGTTCAGAGTT-GTGACACGGCATG-GAGGGA-ATCTGTGACACGGCAGTA
* * * *
10888044 TTTAG-GGTTGTGACACACCACT-GAGAGAATCTGTGACAC
63 TTCAGAGTTTGTGACACGCCA-TGGAGGGAATCTGTGACAC
10888083 GCCATGTGTG
Statistics
Matches: 430, Mismatches: 68, Indels: 43
0.79 0.13 0.08
Matches are distributed among these distances:
136 37 0.09
137 3 0.01
138 79 0.18
139 187 0.43
140 7 0.02
141 79 0.18
142 38 0.09
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (138 bp):
CTGTGACACGCCAGAGTTCAGAGTTGTGACACGGCATGGAGGGAATCTGTGACACGGCAGTATTC
AGAGTTTGTGACACGCCATGGAGGGAATCTGTGACACTCAGGTTCATAGTTTGTGACATGCCATG
GAGGGAAT
Found at i:10887655 original size:186 final size:184
Alignment explanation
Indices: 10887422--10888011 Score: 570
Period size: 186 Copynumber: 3.2 Consensus size: 184
10887412 TGAAACAAGG
* *
10887422 CTGTGACATGGCAGGGTTCAGAGTTTGGTGACACGCCATGGAGGGAATCTGTGACACTTCAGAGT
1 CTGTGACA-GGCA-GGTTCAGAGTTT-GTGACAAGCCATGGAGGGAATCTGTGACACTACAGAGT
* * *
10887487 TCAGAGTTTGTGACACGCCATGGAGACAACCTGTGACAC-TCTAGAGTTCATAGTTTGTGACATG
63 TCAGAGTTTGTGACACGCCATGGAGACAACCTGTGACACGTC-AGAGTTCAGAGTTGGTGACACG
* * *
10887551 ATATGAAGGGAATCTGTGACACAC-CAGAGTTCAAAGTTTGACACGACGTGGATGGAAT
127 ACATGAAGGGAATCTGTGACAC-CTCAGAGTTCAAAGTTTGACACGACATGGAGGGAAT
* * * *
10887609 CTGTGACACGGCAGTATTCAGAGTTTGTGACATGTCATGGAGGGAATTTGTGACA-TGACATG-G
1 CTGTGACA-GGCAG-GTTCAGAGTTTGTGACAAGCCATGGAGGGAATCTGTGACACT-ACA-GAG
* ** * *
10887672 TTCA-AGGATTGTGACACGCCATGGAGGGAATCTGTGACACGTCAGTGTTCAGAGTTGGTGACAC
62 TTCAGA-GTTTGTGACACGCCATGGAGACAACCTGTGACACGTCAGAGTTCAGAGTTGGTGACAC
* * *
10887736 GGCATGGAGGGAATCTGTGACACCTCAGAGTTCAGAGTTTGACACGACATGGAGGGAAT
126 GACATGAAGGGAATCTGTGACACCTCAGAGTTCAAAGTTTGACACGACATGGAGGGAAT
* * *
10887795 CTGTGATAGGCAAGGTTCATG-GTTTGTGACAAGCCATGGAGGGAAACTGTGACACTCCAGAGTT
1 CTGTGACAGGC-AGGTTCA-GAGTTTGTGACAAGCCATGGAGGGAATCTGTGACACTACAGAGTT
* * * * * *
10887859 CAGAG-TT-TGACATGGCATGGATG-GAATCTGTGACACGGCAGTA-TTCAGAGTTTGTGACACG
64 CAGAGTTTGTGACACGCCATGGA-GACAACCTGTGACACGTCAG-AGTTCAGAGTTGGTGACACG
* * * ** * ** * *
10887920 CCATGGAGGGAATTTGTGACACGACAGGGTTCAGGGTTTGTGACATGCCATGGAGGGAAT
127 ACATGAAGGGAATCTGTGACACCTCAGAGTTCAAAG-TT-TGACACGACATGGAGGGAAT
* * *
10887980 CTGTGAGACGCCAGTGTTCAGAGTTAGTGACA
1 CTGTGACA-GGCAG-GTTCAGAGTTTGTGACA
10888012 CGGCAGCGAA
Statistics
Matches: 342, Mismatches: 43, Indels: 37
0.81 0.10 0.09
Matches are distributed among these distances:
183 76 0.22
184 6 0.02
185 75 0.22
186 160 0.47
187 25 0.07
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (184 bp):
CTGTGACAGGCAGGTTCAGAGTTTGTGACAAGCCATGGAGGGAATCTGTGACACTACAGAGTTCA
GAGTTTGTGACACGCCATGGAGACAACCTGTGACACGTCAGAGTTCAGAGTTGGTGACACGACAT
GAAGGGAATCTGTGACACCTCAGAGTTCAAAGTTTGACACGACATGGAGGGAAT
Found at i:10887661 original size:23 final size:23
Alignment explanation
Indices: 10887632--10887758 Score: 78
Period size: 23 Copynumber: 5.4 Consensus size: 23
10887622 GTATTCAGAG
*
10887632 TTTGTGACATGTCATGGAGGGAA
1 TTTGTGACACGTCATGGAGGGAA
* * *
10887655 TTTGTGACATGACATGGTTCAAGG-A
1 TTTGTGACACGTCATGG---AGGGAA
*
10887680 -TTGTGACACGCCATGGAGGGAA
1 TTTGTGACACGTCATGGAGGGAA
* **** *
10887702 TCTGTGACACGTCAGTGTTCAGAG
1 TTTGTGACACGTCA-TGGAGGGAA
* *
10887726 TTGGTGACACGGCATGGAGGGAA
1 TTTGTGACACGTCATGGAGGGAA
*
10887749 TCTGTGACAC
1 TTTGTGACAC
10887759 CTCAGAGTTC
Statistics
Matches: 76, Mismatches: 22, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
21 3 0.04
22 1 0.01
23 39 0.51
24 29 0.38
25 1 0.01
26 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (23 bp):
TTTGTGACACGTCATGGAGGGAA
Found at i:10887886 original size:277 final size:280
Alignment explanation
Indices: 10887422--10888016 Score: 854
Period size: 277 Copynumber: 2.1 Consensus size: 280
10887412 TGAAACAAGG
* * * * *
10887422 CTGTGACATGGCAGGGTTCAGAGTTTGGTGACACGCCATGGAGGGAATCTGTGACACTTCAGAGT
1 CTGTGACACGCCAGTGTTCAGAG-TTGGTGACACGGCATGGAGGGAATCTGTGACACCTCAGAGT
* * * *
10887487 TCAGAGTTTGTGACACGCCATGGAGACAACCTGTGACACTCTAGAGTTCATAGTTTGTGACATGA
65 TCAGAGTTTGTGACACGACATGGAGACAACCTGTGACACGCAAGAGTTCATAGTTTGTGACAAGA
* * *
10887552 TATGAAGGGAATCTGTGACACACCAGAGTTCAAAGTTTGACACGACGTGGATGGAATCTGTGACA
130 CATGAAGGGAAACTGTGACACACCAGAGTTCAAAGTTTGACACGACATGGATGGAATCTGTGACA
* * * *
10887617 CGGCAGTATTCAGAGTTTGTGACATGTCATGGAGGGAATTTGTGACATGACATGGTTCAAGGATT
195 CGGCAGTATTCAGAGTTTGTGACACGCCATGGAGGGAATTTGTGACACGACAGGGTTCAAGGATT
10887682 GTGACACGCCATGGAGGGAAT
260 GTGACACGCCATGGAGGGAAT
*
10887703 CTGTGACACGTCAGTGTTCAGAGTTGGTGACACGGCATGGAGGGAATCTGTGACACCTCAGAGTT
1 CTGTGACACGCCAGTGTTCAGAGTTGGTGACACGGCATGGAGGGAATCTGTGACACCTCAGAGTT
** * * * * *
10887768 CAGAG-TT-TGACACGACATGGAGGGAATCTGTGATAGGCAAG-GTTCATGGTTTGTGACAAGCC
66 CAGAGTTTGTGACACGACATGGAGACAACCTGTGACACGCAAGAGTTCATAGTTTGTGACAAGAC
* * * * *
10887830 ATGGAGGGAAACTGTGACACTCCAGAGTTCAGAGTTTGACATGGCATGGATGGAATCTGTGACAC
131 ATGAAGGGAAACTGTGACACACCAGAGTTCAAAGTTTGACACGACATGGATGGAATCTGTGACAC
* *
10887895 GGCAGTATTCAGAGTTTGTGACACGCCATGGAGGGAATTTGTGACACGACAGGGTTCAGGGTTTG
196 GGCAGTATTCAGAGTTTGTGACACGCCATGGAGGGAATTTGTGACACGACAGGGTTCAAGGATTG
*
10887960 TGACATGCCATGGAGGGAAT
261 TGACACGCCATGGAGGGAAT
* *
10887980 CTGTGAGACGCCAGTGTTCAGAGTTAGTGACACGGCA
1 CTGTGACACGCCAGTGTTCAGAGTTGGTGACACGGCA
10888017 GCGAAAGACA
Statistics
Matches: 280, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
277 187 0.67
278 26 0.09
279 2 0.01
280 45 0.16
281 20 0.07
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (280 bp):
CTGTGACACGCCAGTGTTCAGAGTTGGTGACACGGCATGGAGGGAATCTGTGACACCTCAGAGTT
CAGAGTTTGTGACACGACATGGAGACAACCTGTGACACGCAAGAGTTCATAGTTTGTGACAAGAC
ATGAAGGGAAACTGTGACACACCAGAGTTCAAAGTTTGACACGACATGGATGGAATCTGTGACAC
GGCAGTATTCAGAGTTTGTGACACGCCATGGAGGGAATTTGTGACACGACAGGGTTCAAGGATTG
TGACACGCCATGGAGGGAAT
Found at i:10887898 original size:23 final size:23
Alignment explanation
Indices: 10887866--10887942 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
10887856 GTTCAGAGTT
* *
10887866 TGACATGGCATGGATGGAATCTG
1 TGACACGGCATGGATGGAATTTG
* * *
10887889 TGACACGGCA-GTATTCAGAGTTTG
1 TGACACGGCATGGA-T-GGAATTTG
* *
10887913 TGACACGCCATGGAGGGAATTTG
1 TGACACGGCATGGATGGAATTTG
10887936 TGACACG
1 TGACACG
10887943 ACAGGGTTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
22 2 0.05
23 23 0.56
24 14 0.34
25 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (23 bp):
TGACACGGCATGGATGGAATTTG
Found at i:10888649 original size:31 final size:31
Alignment explanation
Indices: 10888612--10888704 Score: 123
Period size: 31 Copynumber: 3.0 Consensus size: 31
10888602 GTCTGCATAT
*
10888612 CGTGTCACGACATTTGATTTGTTATGCATGG
1 CGTGTCACGACATTTGACTTGTTATGCATGG
* *
10888643 CTTGTCATGACATTTGACTTGTTATGCATGG
1 CGTGTCACGACATTTGACTTGTTATGCATGG
* * *
10888674 CGTGTCACAACCTTTTTACTTGTTATGCATG
1 CGTGTCACGA-CATTTGACTTGTTATGCATG
10888705 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 35 0.66
32 18 0.34
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (31 bp):
CGTGTCACGACATTTGACTTGTTATGCATGG
Found at i:10891131 original size:20 final size:21
Alignment explanation
Indices: 10891101--10891143 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
10891091 TAAAAATTAT
10891101 TTTTTATTATTTT-TATTTAAA
1 TTTTTATTATTTTAT-TTTAAA
10891122 TTTTTA-TATTTTATTTTAAA
1 TTTTTATTATTTTATTTTAAA
10891142 TT
1 TT
10891144 AAATAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTATTATTTTATTTTAAA
Found at i:10891349 original size:33 final size:33
Alignment explanation
Indices: 10891285--10891349 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
10891275 CCACATTAGT
* * * *
10891285 ATATTATACCATCATTAATTATGATATGTTAAC
1 ATATTACACCATCATCAATTATGACACGTTAAC
*
10891318 ATATTACATCATCATCAATTATGACACGTTAA
1 ATATTACACCATCATCAATTATGACACGTTAA
10891350 AATGATACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (33 bp):
ATATTACACCATCATCAATTATGACACGTTAAC
Found at i:10891483 original size:30 final size:30
Alignment explanation
Indices: 10891413--10891483 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
10891403 TAATCATAGT
* *
10891413 AATAAGAATTTATTTGATTTAAAATAAAAT
1 AATAAGAATTTATTTAATTTAAAATAAAAA
** *
10891443 TTTAAAAATTTATTTAATTTAAAATAAAAA
1 AATAAGAATTTATTTAATTTAAAATAAAAA
10891473 AATAAGAATTT
1 AATAAGAATTT
10891484 TATTAAAAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (30 bp):
AATAAGAATTTATTTAATTTAAAATAAAAA
Found at i:10891506 original size:29 final size:28
Alignment explanation
Indices: 10891465--10891519 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
10891455 TTTAATTTAA
10891465 AATAAAAAAATAAGA-ATTTTATTAAAAGT
1 AATAAAAAAATAA-ATATTTT-TTAAAAGT
*
10891494 AATAAAAATATAAATATTTTTTAAAA
1 AATAAAAAAATAAATATTTTTTAAAA
10891520 TAGTGTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (28 bp):
AATAAAAAAATAAATATTTTTTAAAAGT
Found at i:10895787 original size:2 final size:2
Alignment explanation
Indices: 10895780--10895809 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10895770 TGACTGACGA
10895780 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10895810 TTGTTTCAGG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10898767 original size:3 final size:3
Alignment explanation
Indices: 10898759--10898800 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
10898749 CTCAAAACTA
10898759 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10898801 GAGGAAACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10906414 original size:2 final size:2
Alignment explanation
Indices: 10906407--10906433 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10906397 GGCTAAACAA
10906407 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10906434 AAAGATTAAA
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10908001 original size:57 final size:57
Alignment explanation
Indices: 10907912--10908021 Score: 147
Period size: 57 Copynumber: 1.9 Consensus size: 57
10907902 NNNNNNNNNN
10907912 TCTTGTCTTAAATTAAGACAAATATATTTTCTTGTCT-AATATAAGATCAAACATATTT
1 TCTTGTCTTAAATTAAGACAAATATATTTTCTTGTCTAAAT-TAAGA-CAAACATATTT
*
10907970 TCTTGTC-TAAATTAAGTA-AAACT-TGTTTTCTTGTCTAAATTAAGACAAACAT
1 TCTTGTCTTAAATTAAG-ACAAA-TATATTTTCTTGTCTAAATTAAGACAAACAT
10908022 GTTAAAGTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
56 7 0.15
57 29 0.60
58 12 0.25
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (57 bp):
TCTTGTCTTAAATTAAGACAAATATATTTTCTTGTCTAAATTAAGACAAACATATTT
Found at i:10908024 original size:28 final size:28
Alignment explanation
Indices: 10907912--10908021 Score: 143
Period size: 28 Copynumber: 3.9 Consensus size: 28
10907902 NNNNNNNNNN
*
10907912 TCTTGTCTTAAATTAAGACAAATATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
10907941 TCTTGTCT-AATATAAGATCAAACATATTT
1 TCTTGTCTAAAT-TAAGA-CAAACATATTT
* *
10907970 TCTTGTCTAAATTAAGTA-AAACTTGTTT
1 TCTTGTCTAAATTAAG-ACAAACATATTT
10907998 TCTTGTCTAAATTAAGACAAACAT
1 TCTTGTCTAAATTAAGACAAACAT
10908022 GTTAAAGTTG
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
27 4 0.06
28 35 0.49
29 29 0.40
30 4 0.06
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:10917815 original size:22 final size:22
Alignment explanation
Indices: 10917774--10917815 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10917764 AAAATTGATT
* *
10917774 AGATTGGTTTTTAAGTATTGCG
1 AGATTGATTTTTAAGCATTGCG
*
10917796 AGATTGATTTTTAGGCATTG
1 AGATTGATTTTTAAGCATTG
10917816 TGTGACTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.05, G:0.26, T:0.45
Consensus pattern (22 bp):
AGATTGATTTTTAAGCATTGCG
Found at i:10917909 original size:23 final size:23
Alignment explanation
Indices: 10917864--10917922 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
10917854 CATAATGCCG
*
10917864 AAGTCACACAATACCTTACTAAC
1 AAGTCACACAATACCATACTAAC
* * *
10917887 AAGTCACGCAATGCCATATTAACC
1 AAGTCACACAATACCATACTAA-C
*
10917911 AA-TCATACAATA
1 AAGTCACACAATA
10917923 TTTAAAAACT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.44, C:0.27, G:0.07, T:0.22
Consensus pattern (23 bp):
AAGTCACACAATACCATACTAAC
Found at i:10917971 original size:43 final size:42
Alignment explanation
Indices: 10917910--10918023 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
10917900 CCATATTAAC
* * *
10917910 CAATCATACAATATTTAAAAACTAGTCATGTAATGCTCAAAGT
1 CAATCACACAATATTTAAAAACTAGTCAT-CAATGCCCAAAGT
* * * *
10917953 CAATTACACAATACTTAAAAATTAGTCAATCACTGCCCAAAGT
1 CAATCACACAATATTTAAAAACTAGTC-ATCAATGCCCAAAGT
* *
10917996 CAATCACGCAATGTTTAAAAACTAGTCA
1 CAATCACACAATATTTAAAAACTAGTCA
10918024 CGCAATACTC
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 1 0.02
43 55 0.95
44 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (42 bp):
CAATCACACAATATTTAAAAACTAGTCATCAATGCCCAAAGT
Found at i:10918259 original size:59 final size:60
Alignment explanation
Indices: 10918135--10918260 Score: 146
Period size: 59 Copynumber: 2.1 Consensus size: 60
10918125 CTACCTGATA
* * * * * * **
10918135 AAAAATGTTCCAAATGTTTAAAAGTTTTTCTTCATATATTAAAAATTACTTCAAAATTTT
1 AAAAATGCTCAAAACGTTTAAAAGTTTTTCTTCATATATCAAAAACTACTCCAAAATGCT
* *
10918195 AAAAATGCTCAAAACGTTTAAAAG-TTTTCTTCGTGTATCAAAAACTACTCCAAAATGCT
1 AAAAATGCTCAAAACGTTTAAAAGTTTTTCTTCATATATCAAAAACTACTCCAAAATGCT
*
10918254 CAAAATG
1 AAAAATG
10918261 TTTAAACTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
59 34 0.62
60 21 0.38
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (60 bp):
AAAAATGCTCAAAACGTTTAAAAGTTTTTCTTCATATATCAAAAACTACTCCAAAATGCT
Found at i:10926644 original size:34 final size:35
Alignment explanation
Indices: 10926606--10926682 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
10926596 ATCATCAAAT
10926606 TAGGCTTGCTGAAGAAGC-TACATTCTTTCCAACA
1 TAGGCTTGCTGAAGAAGCTTACATTCTTTCCAACA
** ** *
10926640 TAGGCTTGCTGGTGTGGCTTACATTCTTTCCAACT
1 TAGGCTTGCTGAAGAAGCTTACATTCTTTCCAACA
*
10926675 TGGGCTTG
1 TAGGCTTG
10926683 TTGGTGTGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 14 0.39
35 22 0.61
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (35 bp):
TAGGCTTGCTGAAGAAGCTTACATTCTTTCCAACA
Found at i:10926669 original size:35 final size:35
Alignment explanation
Indices: 10926624--10926694 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
10926614 CTGAAGAAGC
10926624 TACATTCTTTCCAACATAGGCTTGCTGGTGTGGCT
1 TACATTCTTTCCAACATAGGCTTGCTGGTGTGGCT
* * *
10926659 TACATTCTTTCCAACTTGGGCTTGTTGGTGTGGCT
1 TACATTCTTTCCAACATAGGCTTGCTGGTGTGGCT
10926694 T
1 T
10926695 GCTGGTGCGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.41
Consensus pattern (35 bp):
TACATTCTTTCCAACATAGGCTTGCTGGTGTGGCT
Found at i:10935161 original size:22 final size:22
Alignment explanation
Indices: 10935136--10935186 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
10935126 GGATTTCCCT
* *
10935136 CCCTTGCGCATCGTGTCCCCCA
1 CCCTTGCGCATCATGGCCCCCA
*
10935158 CCCTTGGGCATCATGGCCCCCA
1 CCCTTGCGCATCATGGCCCCCA
10935180 CCCTTGC
1 CCCTTGC
10935187 ACCCCCCAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.10, C:0.49, G:0.20, T:0.22
Consensus pattern (22 bp):
CCCTTGCGCATCATGGCCCCCA
Found at i:10937339 original size:84 final size:84
Alignment explanation
Indices: 10937191--10937358 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 84
10937181 AGAGACAGAT
* * * * *
10937191 CTTTTGGGATGTGTTCTCGCCTTTGTAAATGGGGAGTATGTATATATCCTGACAGCACACCATGC
1 CTTTTGGGATGTGTTCTCACCTTTATAAATGGGGAGTATGTAAATATCCTAACAACACACCATGC
* *
10937256 CAACCCTTGATGGCAGCTG
66 AAACACTTGATGGCAGCTG
* * *
10937275 CTTTTGGGATGTGTTCTCACCTTTATATATGGGGAGTATGTAAATATCCTAACAACATAGCATGC
1 CTTTTGGGATGTGTTCTCACCTTTATAAATGGGGAGTATGTAAATATCCTAACAACACACCATGC
* *
10937340 AAACACTTGGTGGTAGCTG
66 AAACACTTGATGGCAGCTG
10937359 TCAAGAATAC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (84 bp):
CTTTTGGGATGTGTTCTCACCTTTATAAATGGGGAGTATGTAAATATCCTAACAACACACCATGC
AAACACTTGATGGCAGCTG
Found at i:10937683 original size:32 final size:35
Alignment explanation
Indices: 10937618--10937684 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 35
10937608 GATCTCATGT
* *
10937618 TGAGATTTTTTTTTTGGTTTTGTTATTTTAATTGA
1 TGAGATTTTTCTTTTGGTTTTCTTATTTTAATTGA
10937653 TGAGA-TTTTCTTTT-GTTTTCTT-TTTTAATTGA
1 TGAGATTTTTCTTTTGGTTTTCTTATTTTAATTGA
10937685 ATAATAGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 10 0.33
33 7 0.23
34 8 0.27
35 5 0.17
ACGTcount: A:0.16, C:0.03, G:0.15, T:0.66
Consensus pattern (35 bp):
TGAGATTTTTCTTTTGGTTTTCTTATTTTAATTGA
Found at i:10949398 original size:18 final size:16
Alignment explanation
Indices: 10949370--10949415 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 16
10949360 TTTTAAAAAG
10949370 TTTTTAAAAAATAACTT
1 TTTTTAAAAAATAA-TT
10949387 TTTTTAAGAAAAATAATT
1 TTTTT-A-AAAAATAATT
10949405 TTTTTAAAAAA
1 TTTTTAAAAAA
10949416 AAAAAGCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.19
17 6 0.22
18 8 0.30
19 8 0.30
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TTTTTAAAAAATAATT
Found at i:10949400 original size:19 final size:17
Alignment explanation
Indices: 10949370--10949416 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 17
10949360 TTTTAAAAAG
10949370 TTTTT-AAAAAATAACTT
1 TTTTTAAAAAAATAA-TT
10949387 TTTTTAAGAAAAATAATT
1 TTTTTAA-AAAAATAATT
10949405 TTTTTAAAAAAA
1 TTTTTAAAAAAA
10949417 AAAAGCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.36
18 10 0.36
19 8 0.29
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TTTTTAAAAAAATAATT
Found at i:10949418 original size:19 final size:19
Alignment explanation
Indices: 10949375--10949417 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
10949365 AAAAGTTTTT
10949375 AAAAAATAACTTTTTTTAA
1 AAAAAATAACTTTTTTTAA
*
10949394 GAAAAATAA-TTTTTTTAA
1 AAAAAATAACTTTTTTTAA
10949412 AAAAAA
1 AAAAAA
10949418 AAAGCTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAAATAACTTTTTTTAA
Found at i:10961489 original size:2 final size:2
Alignment explanation
Indices: 10961482--10961508 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10961472 GCAATATGTG
10961482 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10961509 CGTGAAAGTA
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10962152 original size:365 final size:365
Alignment explanation
Indices: 10961511--10962183 Score: 1150
Period size: 365 Copynumber: 1.8 Consensus size: 365
10961501 TATATATACG
**
10961511 TGAAAGTATTTGATTGTAATTGAAATTTTATTAAAAAAAATCTATTCAAAAATTAAACTTAAACA
1 TGAAAGTATTTGATTGTAATTGAAATTTTATTAAAAAAAATCTATGAAAAAATTAAACTTAAACA
*
10961576 TAAAATAATTATCAATTAAAATTATTTCTGAAATAATGAAATTGTCATATTAACAAGGAGAAGGG
66 TAAAATAATTATCAATTAAAATTATTTCGGAAATAATGAAATTGTCATATTAACAAGGAGAAGGG
* *
10961641 AAAAGGAAAAAACTTAAAGGGAGTTTAATTTTAGATGATAGCAATCAACTTGTTTGAACTTTAAT
131 AAAAGGAAAAAAATTAAAGCGAGTTTAATTTTAGATGATAGCAATCAACTTGTTTGAACTTTAAT
** * **
10961706 TTTGACATTTTGATCAATGATTCAAAATTTTGTACAGTACGTCAACATTTGTGCTTTTATTATTA
196 TTTGACATTTTGATCAACAATTCAAAATTTTATACAACACGTCAACATTTGTGCTTTTATTATTA
* * *
10961771 TTATTGTTGCTGTTGTTGTTGTTGTAAATCATGCCAATTGCAATCAACTGTGATGTGTGTGTGTG
261 TTATTGTTGCTGTTGTTGTGGTAGTAAATCATGCCAACTGCAATCAACTGTGATGTGTGTGTGTG
10961836 TGTATATATATATATATATATATACATATGTGTGTGTGTA
326 TGTATATATATATATATATATATACATATGTGTGTGTGTA
*
10961876 TGAAAGTATTTGATTGTAATTTAAATTTTA-TAAAAAAAATCTATGAAAAAATTAAACTTAAAAC
1 TGAAAGTATTTGATTGTAATTGAAATTTTATTAAAAAAAATCTATGAAAAAATTAAACTT-AAAC
10961940 ATAAAATAATTATCAATTAAAATTATTTCGGAAATAATGAAATTGTCATATTAACAAGGAGAAGG
65 ATAAAATAATTATCAATTAAAATTATTTCGGAAATAATGAAATTGTCATATTAACAAGGAGAAGG
*
10962005 GAAACGGAAAAAAATTAAAGCGAGTTTAATTTTAGATGATAGCAATCAACTTGTTTGAACTTTAA
130 GAAAAGGAAAAAAATTAAAGCGAGTTTAATTTTAGATGATAGCAATCAACTTGTTTGAACTTTAA
* *
10962070 TTTTGACATTTTGATCAACAATTCAAAATTTTATATAACAGGTCAACATTTGTGCTTTTATTATT
195 TTTTGACATTTTGATCAACAATTCAAAATTTTATACAACACGTCAACATTTGTGCTTTTATTATT
* * *
10962135 ATTGTTGTTGTTGTTGTTGTGGTAGTATATCATGCCAACTGCAATCAAC
260 ATTATTGTTGCTGTTGTTGTGGTAGTAAATCATGCCAACTGCAATCAAC
10962184 CCAAATTGGT
Statistics
Matches: 287, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
364 27 0.09
365 260 0.91
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (365 bp):
TGAAAGTATTTGATTGTAATTGAAATTTTATTAAAAAAAATCTATGAAAAAATTAAACTTAAACA
TAAAATAATTATCAATTAAAATTATTTCGGAAATAATGAAATTGTCATATTAACAAGGAGAAGGG
AAAAGGAAAAAAATTAAAGCGAGTTTAATTTTAGATGATAGCAATCAACTTGTTTGAACTTTAAT
TTTGACATTTTGATCAACAATTCAAAATTTTATACAACACGTCAACATTTGTGCTTTTATTATTA
TTATTGTTGCTGTTGTTGTGGTAGTAAATCATGCCAACTGCAATCAACTGTGATGTGTGTGTGTG
TGTATATATATATATATATATATACATATGTGTGTGTGTA
Found at i:10973928 original size:15 final size:17
Alignment explanation
Indices: 10973910--10973952 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
10973900 TTAATAAGTC
10973910 AAATATTTA-AATG-TA
1 AAATATTTATAATGTTA
*
10973925 AAATATTTATGATGTTA
1 AAATATTTATAATGTTA
*
10973942 AAATATATATA
1 AAATATTTATA
10973953 TTTTACTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 9 0.39
16 3 0.13
17 11 0.48
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (17 bp):
AAATATTTATAATGTTA
Found at i:10980380 original size:11 final size:11
Alignment explanation
Indices: 10980364--10980401 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
10980354 TTCTTAATTT
*
10980364 TTTTGTTCTTG
1 TTTTGTTTTTG
10980375 TTTTGTTTTTG
1 TTTTGTTTTTG
10980386 TTTTGTTTTTG
1 TTTTGTTTTTG
10980397 TTTTG
1 TTTTG
10980402 ATATGTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.00, C:0.03, G:0.18, T:0.79
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:10980385 original size:17 final size:17
Alignment explanation
Indices: 10980363--10980400 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
10980353 GTTCTTAATT
10980363 TTTTTGTTCTTG-TTTTG
1 TTTTTGTT-TTGTTTTTG
10980380 TTTTTGTTTTGTTTTTG
1 TTTTTGTTTTGTTTTTG
10980397 TTTT
1 TTTT
10980401 GATATGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.82
Consensus pattern (17 bp):
TTTTTGTTTTGTTTTTG
Found at i:10981261 original size:26 final size:26
Alignment explanation
Indices: 10981228--10981277 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10981218 TAGTAATTTA
*
10981228 TAATTAAAAATTTAACTTATTTTTTG
1 TAATTAAAAATTTAACTTAATTTTTG
* *
10981254 TAATTAAAATTTTAATTTAATTTT
1 TAATTAAAAATTTAACTTAATTTT
10981278 AAAAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
TAATTAAAAATTTAACTTAATTTTTG
Found at i:10990012 original size:11 final size:12
Alignment explanation
Indices: 10989992--10990025 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
10989982 CTTATACCCA
10989992 TTTATATAATAT
1 TTTATATAATAT
10990004 TTTAT-TAATA-
1 TTTATATAATAT
10990014 TTTATATAATAT
1 TTTATATAATAT
10990026 ATAATAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.25
11 10 0.50
12 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTATATAATAT
Found at i:10990618 original size:15 final size:15
Alignment explanation
Indices: 10990593--10990630 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10990583 TTGTGTTAAT
*
10990593 ATTACAAAATTA-TA
1 ATTATAAAATTATTA
10990607 ACTTATAAAATTATTA
1 A-TTATAAAATTATTA
10990623 ATTATAAA
1 ATTATAAA
10990631 TATGTATACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 17 0.81
16 3 0.14
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTATAAAATTATTA
Found at i:10996536 original size:27 final size:26
Alignment explanation
Indices: 10996487--10996542 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
10996477 AAAAAAGATG
* *
10996487 AAAAAAAAAAAAGACAAACGAGATAA
1 AAAAAAAAAAAAGACAAAAGAGAGAA
10996513 AAAAGAAAAAAAAGGA-AAAAGAGAGAA
1 AAAA-AAAAAAAA-GACAAAAGAGAGAA
10996540 AAA
1 AAA
10996543 TGAGCTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 20 0.77
28 2 0.08
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.02
Consensus pattern (26 bp):
AAAAAAAAAAAAGACAAAAGAGAGAA
Found at i:10997695 original size:61 final size:61
Alignment explanation
Indices: 10997587--10998682 Score: 688
Period size: 61 Copynumber: 17.9 Consensus size: 61
10997577 AGAGGATTTC
* * * * * * **
10997587 AGCCCAATTTAGTTGGCGTCCAAGATGTTTAAGTCCAATTACATTGGCACGAAAGAGTTTA
1 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGAGTTTA
* *
10997648 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGCTATGTTGGCATGAAA-AGATTTA
1 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGAG-TTTA
* * *
10997709 AGCCTAATTTACCTAGCATCCAAGATGTTTAAGTCTAGCTATGTTAGCAC-AAAGAGATTTA
1 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGAG-TTTA
* * * * * ** * *
10997770 AGCCTAGTTTA-CTTGACATCCAAGATGTATAAGTCCAATTAAATTGACACAAAAGAGTTTA
1 AGCCTAATTTAGCTAG-CATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGAGTTTA
* * * ** * * * ** **
10997831 AG-TTCAATTTAGCTGGCATCTAAGACATTTAAGCCCAGTTATATTGGCGTG-AAGACCATTA
1 AGCCT-AATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGA-GTTTA
* * * * *
10997892 AGCCTAATGTAGTTAGCATCCAAGATGTTTGAGTCTAGCTATGTTGGCATGAAA-AGGTTTA
1 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGA-GTTTA
* * * * *
10997953 TGCCTAATTTAGCTAACATCTAAGATGTTTAAGTCTAGCTT-CGTTGGCACAAAATGGAGTTTA
1 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAG-TTATGTTGGCACGAAA--GAGTTTA
* *
10998016 AG-CTCAATTTAACTAGCATCCAAGATGTTTAAGTCTAGTTACGTTGGCACGAAA-AGATTTA
1 AGCCT-AATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGAG-TTTA
* * * * * *
10998077 AGCCCAATTTA-CTTGACTTCCAAGATGTATAAGTCTAGTTACGTTGGCACAAAAGATGTTTA
1 AGCCTAATTTAGCTAG-CATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGA-GTTTA
* ** * * * * * * *
10998139 AGCCCAATCGAGCTAACATCCAGGATGTTCAAGTCTAGCTATATTAGCAC-AAAGATGATTA
1 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGA-GTTTA
* * * ** * ** * * **
10998200 AGCCTAATTTAACTAGTATCCCAGATGTTTAAACCCAGTTACATTAGCA-TAAAGACAATTA
1 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGA-GTTTA
* * ** * *
10998261 AGCCCAATTTAGCTAGCATCCAAGATGTTTAAATCTACCTATGTTAGCATG--A-A-TTTA
1 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGAGTTTA
* * * * * * ** *
10998318 AGCCCAATTTAACTGGCATCTAAGATGTATAAGTCTAGTTACGTTCACCACAAAAAGAGTTTA
1 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTT-GGCAC-GAAAGAGTTTA
* * * * *
10998381 AGCCTAATTTA-CTTGGCATCCAAGATGTATAAATCCAGTTATGTTGGCAC-AAAAAGATTTA
1 AGCCTAATTTAGC-TAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGAG-TTTA
* * * * * * *
10998442 AGCCCAATTTA-CTTGACATCCGAGATGTGTAAGTCCAATTATGTTGGCACAAAAAGAGTTTA
1 AGCCTAATTTAGCTAG-CATCCAAGATGTTTAAGTCTAGTTATGTTGGCAC-GAAAGAGTTTA
* * * * * * **
10998504 AGCCAAATTTAACT-GACATCCAAGATGTATAAGTCTAGTTATATTAGCACGAATGACCTTA
1 AGCCTAATTTAGCTAG-CATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGAGTTTA
* * * * * * *** ** *
10998565 AGTCTAATTAAACTAGCATCCAAAATATTTAAGCCTAGTTATAAGGGCATAAAAAAAGTTTA
1 AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCA-CGAAAGAGTTTA
* * * * *
10998627 AGCC-CATTTATACTAGCATCCAAGATGTTTAAGCCCAGTTATATTGGCAC-AAAGAG
1 AGCCTAATTTA-GCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGAG
10998683 ATGTATAAAC
Statistics
Matches: 818, Mismatches: 179, Indels: 77
0.76 0.17 0.07
Matches are distributed among these distances:
57 40 0.05
58 3 0.00
59 1 0.00
60 31 0.04
61 492 0.60
62 150 0.18
63 100 0.12
64 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (61 bp):
AGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAGAGTTTA
Found at i:10997740 original size:31 final size:31
Alignment explanation
Indices: 10997639--10997741 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
10997629 ATTGGCACGA
10997639 AAGA-GTTTAAGCCTAATTTAGCTAGCATCC
1 AAGATGTTTAAGCCTAATTTAGCTAGCATCC
* ** * * *
10997669 AAGATGTTTAAGTCT-AGCTATGTTGGCAT-G
1 AAGATGTTTAAGCCTAATTTA-GCTAGCATCC
* *
10997699 AA-AAGATTTAAGCCTAATTTACCTAGCATCC
1 AAGATG-TTTAAGCCTAATTTAGCTAGCATCC
10997730 AAGATGTTTAAG
1 AAGATGTTTAAG
10997742 TCTAGCTATG
Statistics
Matches: 52, Mismatches: 15, Indels: 11
0.67 0.19 0.14
Matches are distributed among these distances:
29 2 0.04
30 22 0.42
31 26 0.50
32 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (31 bp):
AAGATGTTTAAGCCTAATTTAGCTAGCATCC
Found at i:10997757 original size:31 final size:31
Alignment explanation
Indices: 10997661--10997757 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
10997651 CTAATTTAGC
10997661 TAGCATCCAAGATGTTTAAGTCTAGCTATGT
1 TAGCATCCAAGATGTTTAAGTCTAGCTATGT
* * * * * * **
10997692 TGGCAT-GAA-AAGATTTAAGCCTA-ATTTACC
1 TAGCATCCAAGATG-TTTAAGTCTAGCTAT-GT
10997722 TAGCATCCAAGATGTTTAAGTCTAGCTATGT
1 TAGCATCCAAGATGTTTAAGTCTAGCTATGT
10997753 TAGCA
1 TAGCA
10997758 CAAAGAGATT
Statistics
Matches: 45, Mismatches: 16, Indels: 10
0.63 0.23 0.14
Matches are distributed among these distances:
29 4 0.09
30 16 0.36
31 21 0.47
32 4 0.09
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (31 bp):
TAGCATCCAAGATGTTTAAGTCTAGCTATGT
Found at i:10998441 original size:365 final size:362
Alignment explanation
Indices: 10997638--10998658 Score: 1087
Period size: 365 Copynumber: 2.8 Consensus size: 362
10997628 CATTGGCACG
* *
10997638 AAAGAGTTTAAGCCTAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGCTATGTTGGCATGAAAA
1 AAAGAGTTTAAGCCTAATTTA-CTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAA
* * * * *
10997703 GATTTAAGCCTAATTTACCT-AGCATCCAAGATGTTTAAGTCTAGCTATGTTAGCAC-AAAGAGA
65 GATTTAAGCCCAATTTACTTGA-CATCCAAGATGTATAAGTCTAGTTATGTTGGCACAAAAGAG-
* * * * * *
10997766 TTTAAGCCTAGTTTACTTGACATCCAAGATGTATAAGTCCAATTAAATT-GACACAAAAGA-GTT
128 TTTAAGCCAAATTTAC-TGACATCCAAGATGTATAAGTCTAGTTATATTAG-CAC-AAAGATGAT
* * * * * * * *
10997829 TAAGTTCAATTTAGCTGGCATCTAAGACATTTAAGCCCAGTTATATTGGCGTGAAGACCATTAAG
190 TAAGCT-AATTTAACTAGCATCCAAGATATTTAAGCCCAGTTATATTGGCATAAAGACAATTAAG
* * * * * * * * *
10997894 CCTAATGTAGTTAGCATCCAAGATGTTTGAGTCTAGCTATGTTGGCATGAAAAGGTTTATGCCTA
254 CCCAATTTAGCTAGCATCCAAGATGTTTAAATCTACCTATGTTAGCATG-AAA-GTTTAAGCCCA
* * **
10997959 ATTTAGCTAACATCTAAGATGTTTAAGTCTAGCTTCGTTGGCACAA
317 ATTTAACTAACATCTAAGATGTATAAGTCTAGCTTCGTTACCACAA
* *
10998005 AATGGAGTTTAAG-CTCAATTTAACTAGCATCCAAGATGTTTAAGTCTAGTTACGTTGGCACGAA
1 AA-AGAGTTTAAGCCT-AATTT-ACTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAA
* *
10998069 AAGATTTAAGCCCAATTTACTTGACTTCCAAGATGTATAAGTCTAGTTACGTTGGCACAAAAGAT
63 AAGATTTAAGCCCAATTTACTTGACATCCAAGATGTATAAGTCTAGTTATGTTGGCACAAAAGA-
* ** * * *
10998134 GTTTAAGCCCAATCGAGCTAACATCCAGGATGT-TCAAGTCTAGCTATATTAGCACAAAGATGAT
127 GTTTAAGCCAAATTTA-CTGACATCCAAGATGTAT-AAGTCTAGTTATATTAGCACAAAGATGAT
* * * * * *
10998198 TAAGCCTAATTTAACTAGTATCCCAGATGTTTAAACCCAGTTACATTAGCATAAAGACAATTAAG
190 TAAG-CTAATTTAACTAGCATCCAAGATATTTAAGCCCAGTTATATTGGCATAAAGACAATTAAG
10998263 CCCAATTTAGCTAGCATCCAAGATGTTTAAATCTACCTATGTTAGCATG-AA-TTTAAGCCCAAT
254 CCCAATTTAGCTAGCATCCAAGATGTTTAAATCTACCTATGTTAGCATGAAAGTTTAAGCCCAAT
**
10998326 TTAACTGGCATCTAAGATGTATAAGTCTAG-TTACGTTCACCACAA
319 TTAACTAACATCTAAGATGTATAAGTCTAGCTT-CGTT-ACCACAA
* * * * *
10998371 AAAGAGTTTAAGCCTAATTTACTTGGCATCCAAGATGTATAAATCCAGTTATGTTGGCACAAAAA
1 AAAGAGTTTAAGCCTAATTTAC-TAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAA
* * * *
10998436 GATTTAAGCCCAATTTACTTGACATCCGAGATGTGTAAGTCCAATTATGTTGGCACAAAAAGAGT
65 GATTTAAGCCCAATTTACTTGACATCCAAGATGTATAAGTCTAGTTATGTTGGCAC-AAAAGAGT
*
10998501 TTAAGCCAAATTTAACTGACATCCAAGATGTATAAGTCTAGTTATATTAGCAC-GA-ATGACCTT
129 TTAAGCCAAATTT-ACTGACATCCAAGATGTATAAGTCTAGTTATATTAGCACAAAGATGA--TT
* * * ** *
10998564 AAGTCTAATTAAACTAGCATCCAAAATATTTAAGCCTAGTTATAAGGGCATAAA-AAAAGTTTAA
191 AAG-CTAATTTAACTAGCATCCAAGATATTTAAGCCCAGTTATATTGGCATAAAGACAA--TTAA
*
10998628 GCCC-ATTTATACTAGCATCCAAGATGTTTAA
253 GCCCAATTTA-GCTAGCATCCAAGATGTTTAA
10998659 GCCCAGTTAT
Statistics
Matches: 546, Mismatches: 85, Indels: 47
0.81 0.13 0.07
Matches are distributed among these distances:
363 4 0.01
364 8 0.01
365 234 0.43
366 45 0.08
367 6 0.01
368 107 0.20
369 138 0.25
370 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (362 bp):
AAAGAGTTTAAGCCTAATTTACTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAAAAG
ATTTAAGCCCAATTTACTTGACATCCAAGATGTATAAGTCTAGTTATGTTGGCACAAAAGAGTTT
AAGCCAAATTTACTGACATCCAAGATGTATAAGTCTAGTTATATTAGCACAAAGATGATTAAGCT
AATTTAACTAGCATCCAAGATATTTAAGCCCAGTTATATTGGCATAAAGACAATTAAGCCCAATT
TAGCTAGCATCCAAGATGTTTAAATCTACCTATGTTAGCATGAAAGTTTAAGCCCAATTTAACTA
ACATCTAAGATGTATAAGTCTAGCTTCGTTACCACAA
Done.