Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, 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: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 26
Found at i:198343 original size:2 final size:2
Alignment explanation
Indices: 198211--198334 Score: 129
Period size: 2 Copynumber: 64.0 Consensus size: 2
198201 ATAGTGTTTC
198211 TA TA -A TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
198251 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA -A TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
198292 GA T- TA CTA TA T- TA GTA TA CTA TA TA CTA TA T- TA -A TA TA T-
1 TA TA TA -TA TA TA TA -TA TA -TA TA TA -TA TA TA TA TA TA TA TA
198331 TA TA
1 TA TA
198335 AACTATATAG
Statistics
Matches: 104, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
1 8 0.08
2 88 0.85
3 8 0.08
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:198377 original size:4 final size:4
Alignment explanation
Indices: 198368--200782 Score: 3863
Period size: 4 Copynumber: 616.2 Consensus size: 4
198358 ACATATACAT
* * * *
198368 ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
198416 ATAC ATGC ATGC ATGC ATAC ATGC ATGC ATGC ATAC -TAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
198463 ATGC ATAC ATGC ATAC ATGC ATGC ATGC ATAC ATAC ATGC ATAC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
198511 ATAC ATAC ATAC ATGC ATAC ATAC ATAC A-GC ATAC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
198558 ATAC ATAC ATGC ATAC ATGC ATAC ATGC ATAC ATGC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
198606 ATAC ATAC ATAC ATCAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
198655 AGAC ATAC ATAC ATAC ATAC -TAC ATAC A-A- ATAC ATAC AGAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
198700 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
198748 ATAC ATAC ATAC ATAC ATAC ATACC ATAC ATAC -CAC ATAC A-AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC
*
198795 -TAC ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
198842 ATAC ATAC ATAC CTAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
198889 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATACC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC
*
198938 ATAC -TAC AT-C ATAC ATAC ACAC ATAC ATAC ATAC --AC ATAC A-AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
198981 ATAC ATAC ATAC AGAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
199028 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
199076 ATAC -TAC ATAC ATAC AT-C -TAC ATAC ATAC ATAC AGAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
199121 ATAC ATAC ATAC AT-C ATAC ATAC -TAC ATAC ATAC ATAC A-CC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
199166 ATAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC A-AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
199213 AT-C ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
199259 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-C
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
199306 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
199353 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
199401 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
199449 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
199497 ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
199543 AATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC ATAC
1 -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
199592 ATAC ATAC ATAC ATAC ATAC ATAC ACAC -TAC ATAC ATAC ATAC AT-C
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
199638 ATAC A-AC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ACATC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC
199685 ATAC ATAC ATAC ATAC AT-C ATAC ATAC -TAC ATAC ATAC ATAC ATACC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C
199732 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
199780 ATAC ATAC ATAC ATAC ACAT ACAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
199827 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
199875 ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
199922 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
199970 A-AC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
200016 ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
200062 A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
200108 ATAC ATAC ATAC ATAC ATAC ATAC ATAAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC
200157 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
200204 --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
200250 ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
200297 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
200344 ATAC ATAC ATAC ATAC CTAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
200390 ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
200434 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
200482 ATAC ATAC ATA- ATAC CTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
200529 A-AC ATAC ATAC --AC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
200574 ATAC ATAC ATAC ATAC ATAC AT-C ATAACC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC AT-A-C ATAC ATAC ATAC ATAC ATAC
*
200623 ATAC ATAC AATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC AACAC
1 ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC
200672 ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
200719 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
200766 ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC A
200783 GAAAATTAAA
Statistics
Matches: 2259, Mismatches: 80, Indels: 144
0.91 0.03 0.06
Matches are distributed among these distances:
2 16 0.01
3 129 0.06
4 2076 0.92
5 35 0.02
6 3 0.00
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:201170 original size:15 final size:15
Alignment explanation
Indices: 201150--201188 Score: 64
Period size: 13 Copynumber: 2.7 Consensus size: 15
201140 GTATACTTTT
201150 TATAGTTTATACATA
1 TATAGTTTATACATA
201165 TATAG-TT-TACATA
1 TATAGTTTATACATA
201178 TATAGTTTATA
1 TATAGTTTATA
201189 TATAAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.50
14 4 0.18
15 7 0.32
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (15 bp):
TATAGTTTATACATA
Found at i:201175 original size:13 final size:13
Alignment explanation
Indices: 201159--201192 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
201149 TTATAGTTTA
201159 TACATATATAGTT
1 TACATATATAGTT
201172 TACATATATAGTT
1 TACATATATAGTT
*
201185 TATATATA
1 TACATATA
201193 AACTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (13 bp):
TACATATATAGTT
Found at i:202027 original size:26 final size:25
Alignment explanation
Indices: 201991--202040 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
201981 TGGTGTCAAA
* *
201991 TTTACCTGACTTGACATGTATCCGAT
1 TTTACCCGACTTGACA-GGATCCGAT
202017 TTTACCCGACTTGACAGGATCCGA
1 TTTACCCGACTTGACAGGATCCGA
202041 CTGAAACATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (25 bp):
TTTACCCGACTTGACAGGATCCGAT
Found at i:203658 original size:43 final size:42
Alignment explanation
Indices: 203605--203721 Score: 180
Period size: 43 Copynumber: 2.8 Consensus size: 42
203595 TCAGTTAAAA
*
203605 TTACAAACGCCACAATAGGTTCATACATTTAGCAGTTTTTTT
1 TTACAAACGCCACAATAGGTTCATACATTTAGCAGTGTTTTT
* *
203647 TTACAAAACGCCGCAATAGGTTCATACATTTAGCGGTGTTTTT
1 TTAC-AAACGCCACAATAGGTTCATACATTTAGCAGTGTTTTT
* *
203690 CTACAAACACCACAATAGGTTCATACATTTAG
1 TTACAAACGCCACAATAGGTTCATACATTTAG
203722 TTTCTTTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 30 0.44
43 38 0.56
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (42 bp):
TTACAAACGCCACAATAGGTTCATACATTTAGCAGTGTTTTT
Found at i:203689 original size:42 final size:42
Alignment explanation
Indices: 203605--203721 Score: 173
Period size: 42 Copynumber: 2.8 Consensus size: 42
203595 TCAGTTAAAA
* *
203605 TTACAAACGCCACAATAGGTTCATACATTTAGCAGTTTTTTT
1 TTACAAACGCCACAATAGGTTCATACATTTAGCAGGTGTTTT
*
203647 TTACAAAACGCCGCAATAGGTTCATACATTTAGC-GGTGTTTT
1 TTAC-AAACGCCACAATAGGTTCATACATTTAGCAGGTGTTTT
*
203689 TCTACAAACACCACAATAGGTTCATACATTTAG
1 T-TACAAACGCCACAATAGGTTCATACATTTAG
203722 TTTCTTTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
42 37 0.54
43 31 0.46
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (42 bp):
TTACAAACGCCACAATAGGTTCATACATTTAGCAGGTGTTTT
Found at i:203731 original size:42 final size:42
Alignment explanation
Indices: 203606--203741 Score: 168
Period size: 42 Copynumber: 3.2 Consensus size: 42
203596 CAGTTAAAAT
*
203606 TACAAACGCCACAATAGGTTCATACATTTAGCAGTTTTTTTT-
1 TACAAACACCACAATAGGTTCATACATTTAGC-GTTTTTTTTC
* * * *
203648 TACAAAACGCCGCAATAGGTTCATACATTTAGCGGTGTTTTTC
1 TAC-AAACACCACAATAGGTTCATACATTTAGCGTTTTTTTTC
*
203691 TACAAACACCACAATAGGTTCATACATTTAG-TTTCTTTTTTC
1 TACAAACACCACAATAGGTTCATACATTTAGCGTT-TTTTTTC
203733 TTACAAACA
1 -TACAAACA
203742 TCGTAATATG
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.01
42 42 0.51
43 39 0.48
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.36
Consensus pattern (42 bp):
TACAAACACCACAATAGGTTCATACATTTAGCGTTTTTTTTC
Found at i:203738 original size:43 final size:43
Alignment explanation
Indices: 203605--203741 Score: 172
Period size: 43 Copynumber: 3.2 Consensus size: 43
203595 TCAGTTAAAA
*
203605 TTACAAACGCCACAATAGGTTCATACATTTAGCAGTTTTTTT-
1 TTACAAACACCACAATAGGTTCATACATTTAGCAGTTTTTTTC
* * * *
203647 TTACAAAACGCCGCAATAGGTTCATACATTTAGCGGTGTTTTTC
1 TTAC-AAACACCACAATAGGTTCATACATTTAGCAGTTTTTTTC
**
203691 -TACAAACACCACAATAGGTTCATACATTTAG-TTTCTTTTTTC
1 TTACAAACACCACAATAGGTTCATACATTTAGCAGT-TTTTTTC
203733 TTACAAACA
1 TTACAAACA
203742 TCGTAATATG
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
41 1 0.01
42 36 0.43
43 46 0.55
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (43 bp):
TTACAAACACCACAATAGGTTCATACATTTAGCAGTTTTTTTC
Found at i:203755 original size:85 final size:85
Alignment explanation
Indices: 203606--203763 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
203596 CAGTTAAAAT
* *
203606 TACAAACGCCACAATAGGTTCATACATTTAGCAGTTTTTTTTTACAAAACGCCGCAATAGGTTCA
1 TACAAACACCACAATAGGTTCATACATTTAGCAGTTTTTTTTTACAAAACACCGCAATAGGTTCA
203671 TA-CATTTAGCGGTGTTTTTC
66 -AGCATTTAGCGGTGTTTTTC
** * * *
203691 TACAAACACCACAATAGGTTCATACATTTAG-TTTCTTTTTTCTTAC-AAACATCGTAATATGTT
1 TACAAACACCACAATAGGTTCATACATTTAGCAGT-TTTTTT-TTACAAAACACCGCAATAGGTT
203754 CAAGCATTTA
64 CAAGCATTTA
203764 ACGACATTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
84 2 0.03
85 57 0.90
86 4 0.06
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (85 bp):
TACAAACACCACAATAGGTTCATACATTTAGCAGTTTTTTTTTACAAAACACCGCAATAGGTTCA
AGCATTTAGCGGTGTTTTTC
Found at i:204087 original size:42 final size:42
Alignment explanation
Indices: 203930--204184 Score: 264
Period size: 42 Copynumber: 6.1 Consensus size: 42
203920 AGACTAAACA
* * * * * *
203930 ATTGTGGCGTTT-TAAAAAAATGTCGTTAAATGTCTAAACCT
1 ATTGTGACGTTTGTAAAAAAACGCCGCTAAATGTATGAACCT
* *
203971 ATTGCGACGTTTGTAAGAATAACGCCGCTAAATGTATGAACCT
1 ATTGTGACGTTTGTAA-AAAAACGCCGCTAAATGTATGAACCT
** * *
204014 ATTGTGACGTTTGT-AAAAAATTCCTCTAAATGTATGAACCC
1 ATTGTGACGTTTGTAAAAAAACGCCGCTAAATGTATGAACCT
* * *
204055 ATTGTGATGTTTGTAAAAAAACGCTGCAAAATGTATGAACCT
1 ATTGTGACGTTTGTAAAAAAACGCCGCTAAATGTATGAACCT
* *
204097 ATTG-CAGCGTTTGTAAAAAAACGCCGCTAAATGTATGAACTT
1 ATTGTGA-CGTTTGTAAAAAAACGCCGCTAAATGTATGAACCT
** ** * *
204139 ATTACGGTGTTTGTAAAAAAACACCGCTAAATGTCTGAACCT
1 ATTGTGACGTTTGTAAAAAAACGCCGCTAAATGTATGAACCT
204181 ATTG
1 ATTG
204185 AGGCATTTTT
Statistics
Matches: 175, Mismatches: 34, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
41 45 0.26
42 97 0.55
43 33 0.19
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (42 bp):
ATTGTGACGTTTGTAAAAAAACGCCGCTAAATGTATGAACCT
Found at i:204523 original size:39 final size:39
Alignment explanation
Indices: 204469--204547 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
204459 AAAATCAAAG
204469 ATTACAGAAAAATATGATTCATCTTCTAGTCGTTCAACT
1 ATTACAGAAAAATATGATTCATCTTCTAGTCGTTCAACT
204508 ATTACAGAAAAATATGATTCATCTTCTAGTCGTTCAACT
1 ATTACAGAAAAATATGATTCATCTTCTAGTCGTTCAACT
204547 A
1 A
204548 GTGTGAGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (39 bp):
ATTACAGAAAAATATGATTCATCTTCTAGTCGTTCAACT
Found at i:206620 original size:28 final size:28
Alignment explanation
Indices: 206572--206627 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
206562 GTTCTAAAGT
*
206572 TTAAGGACTAGATCTAAAAGAAGTCTAAA
1 TTAAGGACTAAATCTAAAAGAA-TCTAAA
*
206601 TTAAGGATTAAAT-TAAAAGAATCTAAA
1 TTAAGGACTAAATCTAAAAGAATCTAAA
206628 CCTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.24
28 8 0.32
29 11 0.44
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (28 bp):
TTAAGGACTAAATCTAAAAGAATCTAAA
Found at i:207830 original size:39 final size:36
Alignment explanation
Indices: 207745--207999 Score: 203
Period size: 36 Copynumber: 7.2 Consensus size: 36
207735 ATATATATAG
** *
207745 ATATATATATATATTATAG-TTTTAAAATATTTTTAAA
1 ATATATATA-ATA-TATAGTTTTTAAAGCATTTTGAAA
*
207782 ACCTATATATAATATATAGTTTTGAAAGCATGTTTGAAA
1 A--TATATATAATATATAGTTTTTAAAGCAT-TTTGAAA
* *
207821 ATATTTATATATTATATAGTTTTTAAAGTATTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAAGCATTTTGAAA
*
207859 ATAAATAT-A-ATATAG-TTTT--A-CATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAGCATTTTGAAA
* * *
207889 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAGCATTTTGAAA
* * * *
207925 ATAAATATACTATATAATTTTTAAAACATTTT----
1 ATATATATAATATATAGTTTTTAAAGCATTTTGAAA
* * *
207957 -TTTAAAAAATATATAGTTTTTAAA-CATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAGCATTTTGAAA
207991 ATATATATA
1 ATATATATA
208000 GTTTTAAAAA
Statistics
Matches: 172, Mismatches: 29, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
30 21 0.12
31 19 0.11
32 6 0.03
33 8 0.05
34 6 0.03
35 6 0.03
36 39 0.23
37 8 0.05
38 21 0.12
39 38 0.22
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAGCATTTTGAAA
Found at i:207889 original size:68 final size:66
Alignment explanation
Indices: 207745--207938 Score: 219
Period size: 66 Copynumber: 2.8 Consensus size: 66
207735 ATATATATAG
* * *
207745 ATATATATATATATTATAG-TTTTAAAATATTTTTAAAACCTATATATAATATATAGTTTTGAAA
1 ATATATATAT-TA-TATAGTTTTTAAAGTATTTTGAAAA--TAAATAT-A-ATATAGTTTT---A
207809 GCATGTTTGAAA
57 -CAT-TTTGAAA
207821 ATATTTATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATAGTTTTACATTTTG
1 ATA--TATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATAGTTTTACATTTTG
207886 AAA
64 AAA
* *
207889 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAAATAAATATACTATA
1 ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATA
207939 TAATTTTTAA
Statistics
Matches: 110, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
66 45 0.41
68 10 0.09
69 3 0.03
70 1 0.01
73 10 0.09
74 1 0.01
75 6 0.05
76 8 0.07
77 19 0.17
78 7 0.06
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (66 bp):
ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATAGTTTTACATTTTGAA
A
Found at i:207946 original size:102 final size:103
Alignment explanation
Indices: 207785--207999 Score: 249
Period size: 102 Copynumber: 2.1 Consensus size: 103
207775 TTTTAAAACC
* * * **
207785 TATATATAATATATAGTTTTGAAAGCATGTTTGAAAATATTTATATATTATATAGTTTTTAAAGT
1 TATATATAATATATAGTTTTGAAAGCATGTTTGAAAATA-TAATATACTATATAATTTTTAAAAC
207850 ATTTTGAAAATAAATATAATATAG-TTTT-ACATTTTGAAAA
65 ATTTTGAAAA-AAA-AT-ATATAGTTTTTAACATTTTGAAAA
* * * *
207890 TATATGTATTATATAGTTTTTAAAGTAT-TTTGAAAATA-AATATACTATATAATTTTTAAAACA
1 TATATATAATATATAGTTTTGAAAGCATGTTTGAAAATATAATATACTATATAATTTTTAAAACA
***
207953 TTTTTTTAAAAAATATATAGTTTTTAAACATTTTGAAAA
66 TTTTGAAAAAAAATATATAGTTTTT-AACATTTTGAAAA
207992 TATATATA
1 TATATATA
208000 GTTTTAAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
99 6 0.06
100 6 0.06
101 3 0.03
102 45 0.48
104 10 0.11
105 24 0.26
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (103 bp):
TATATATAATATATAGTTTTGAAAGCATGTTTGAAAATATAATATACTATATAATTTTTAAAACA
TTTTGAAAAAAAATATATAGTTTTTAACATTTTGAAAA
Found at i:207956 original size:36 final size:36
Alignment explanation
Indices: 207745--207999 Score: 203
Period size: 39 Copynumber: 7.2 Consensus size: 36
207735 ATATATATAG
* *
207745 ATATATATATATATTATAG-TTTTAAAATATTTTTAAA
1 ATATATATAT-TA-TATAGTTTTTAAAACATTTTGAAA
* * *
207782 ACCTATATATAATATATAGTTTTGAAAGCATGTTTGAAA
1 A--TATATATATTATATAGTTTTTAAAACAT-TTTGAAA
**
207821 ATATTTATATATTATATAGTTTTTAAAGTATTTTGAAA
1 ATA--TATATATTATATAGTTTTTAAAACATTTTGAAA
*
207859 ATA-A-ATATAATATAG-TTTT---ACATTTTGAAA
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAA
* **
207889 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAA
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAA
* * * ***
207925 ATAAATATACTATATAATTTTTAAAACATTTTTTTA
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAA
207961 A-A-A-A-A-TATATAGTTTTT-AAACATTTTGAAA
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAA
207991 ATATATATA
1 ATATATATA
208000 GTTTTAAAAA
Statistics
Matches: 174, Mismatches: 28, Indels: 35
0.73 0.12 0.15
Matches are distributed among these distances:
30 23 0.13
31 13 0.07
32 11 0.06
33 10 0.06
34 12 0.07
35 2 0.01
36 37 0.21
37 8 0.05
38 20 0.11
39 38 0.22
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (36 bp):
ATATATATATTATATAGTTTTTAAAACATTTTGAAA
Found at i:207996 original size:28 final size:30
Alignment explanation
Indices: 207935--208031 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 30
207925 ATAAATATAC
* *
207935 TATATAATTTTTAAAACATTTTTTTAAAAAA
1 TATATAGTTTTTAAAACA-TTTTTGAAAAAA
*
207966 TATATAGTTTTT-AAACA-TTTTGAAAATA
1 TATATAGTTTTTAAAACATTTTTGAAAAAA
* * *
207994 TATATAGTTTTAAAAAAATATTTTGAAGAACA
1 TATATAGTTTTTAAAACAT-TTTTGAA-AAAA
208026 TATATA
1 TATATA
208032 TATTATAGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
28 20 0.36
29 4 0.07
30 5 0.09
31 18 0.32
32 9 0.16
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (30 bp):
TATATAGTTTTTAAAACATTTTTGAAAAAA
Found at i:208039 original size:67 final size:66
Alignment explanation
Indices: 207968--208097 Score: 163
Period size: 67 Copynumber: 2.0 Consensus size: 66
207958 TTAAAAAATA
** * * *
207968 TATAGTTTTTAAACATTTTGAAAA-TATATATAGTTTTAAAAAAATATTTTGAAGAACATATATA
1 TATAGTTTTTAAACATTTCAAAAACT-TATATAATTTTAAAAAAACATTTTGAAAAAC-TATATA
208032 TAT
64 TAT
* * *
208035 TATAGTTTTTAATCATTTCAAAAACTTATATAATTTTTAAAAAACATTTTTAAAAACTATATA
1 TATAGTTTTTAAACATTTCAAAAACTTATATAATTTTAAAAAAACATTTTGAAAAACTATATA
208098 ATTTTGGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
66 6 0.11
67 47 0.87
68 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (66 bp):
TATAGTTTTTAAACATTTCAAAAACTTATATAATTTTAAAAAAACATTTTGAAAAACTATATATA
T
Found at i:208152 original size:33 final size:35
Alignment explanation
Indices: 208093--208184 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 35
208083 TTTAAAAACT
*
208093 ATATAATTTTGGAAATGTTTTTAAAAAAACATATA
1 ATATAATTTTGAAAATGTTTTTAAAAAAACATATA
* * *
208128 ATATAATTTT-AAAAT-TTTTTAAAAATATATATT
1 ATATAATTTTGAAAATGTTTTTAAAAAAACATATA
*
208161 ATATATTTTTGGAAAATGTGTTTT
1 ATATAATTTT-GAAAATGT-TTTT
208185 TAGTTTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
33 24 0.50
34 4 0.08
35 15 0.31
36 1 0.02
37 4 0.08
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (35 bp):
ATATAATTTTGAAAATGTTTTTAAAAAAACATATA
Found at i:208202 original size:11 final size:11
Alignment explanation
Indices: 208181--208257 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
208171 GGAAAATGTG
208181 TTTTTAGTTTAT
1 TTTTTA-TTTAT
208193 TTTTTATTTA-
1 TTTTTATTTAT
208203 --TTTATTTACCT
1 TTTTTATTTA--T
*
208214 TTGTTATTTAT
1 TTTTTATTTAT
*
208225 TTATTATTTAT
1 TTTTTATTTAT
208236 TTTACTTATTT-T
1 TTT--TTATTTAT
208248 ATTTTTATTT
1 -TTTTTATTT
208258 TGTTGAAGGG
Statistics
Matches: 54, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
8 8 0.15
11 23 0.43
12 7 0.13
13 16 0.30
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:208204 original size:4 final size:4
Alignment explanation
Indices: 208183--208251 Score: 54
Period size: 4 Copynumber: 16.8 Consensus size: 4
208173 AAAATGTGTT
*
208183 TTTA GTTTA TTT- TTTA TTTA TTTA TTTA CCTTT- GTTA TTTA TTTA -TTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA --TTTA TTTA TTTA TTTA TTTA
*
208231 TTTA TTTTA CTTA TTTTA TTT
1 TTTA -TTTA TTTA -TTTA TTT
208252 TTATTTTGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
3 8 0.15
4 31 0.58
5 11 0.21
6 3 0.06
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:208244 original size:24 final size:25
Alignment explanation
Indices: 208194--208257 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
208184 TTAGTTTATT
*
208194 TTTTATTTATTTATTTACCTTTGTTA
1 TTTTATTTA-TTATTTACCTTTCTTA
*
208220 -TTTATTTATTATTTA-TTTTACTTA
1 TTTTATTTATTATTTACCTTT-CTTA
208244 TTTTATTT-TTATTT
1 TTTTATTTATTATTT
208258 TGTTGAAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 3 0.09
24 16 0.47
25 15 0.44
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTATTTATTATTTACCTTTCTTA
Found at i:209589 original size:23 final size:22
Alignment explanation
Indices: 209563--209621 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
209553 TTTTGTTTCC
*
209563 ATTTGTTTTTTTATTTTACATTT
1 ATTTATTTTTTTATTTT-CATTT
* * *
209586 ATTTATTATTATTGTTTTTATTT
1 ATTTATT-TTTTTATTTTCATTT
209609 ATTTATTTTTTTA
1 ATTTATTTTTTTA
209622 CTAACATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 4 0.14
23 17 0.59
24 8 0.28
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (22 bp):
ATTTATTTTTTTATTTTCATTT
Found at i:210688 original size:17 final size:17
Alignment explanation
Indices: 210668--210700 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
210658 CTCACTAACC
*
210668 CTTTTATTTTTTGTTCT
1 CTTTTATTTTGTGTTCT
210685 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
210701 ATCGTTTGCA
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:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:211345 original size:18 final size:18
Alignment explanation
Indices: 211311--211355 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
211301 TATTTAGACA
211311 TTTTGCA-TTTCTTATTT
1 TTTTGCATTTTCTTATTT
*
211328 TTTTGCATTTTGTTATTT
1 TTTTGCATTTTCTTATTT
211346 TCTTTGCATT
1 T-TTTGCATT
211356 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 7 0.28
18 10 0.40
19 8 0.32
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (18 bp):
TTTTGCATTTTCTTATTT
Found at i:214984 original size:165 final size:165
Alignment explanation
Indices: 214712--216541 Score: 3354
Period size: 165 Copynumber: 11.2 Consensus size: 165
214702 TAAACAAACT
214712 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
214777 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
214842 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
214877 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
214942 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
215007 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
215042 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
215107 GCTTCGAGGGCACATCATTTGCAGCATAACTT-AGTCGAGAA-GGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
215170 TTTGAGTTCGACTACTCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
215205 ATTTGCAGCATAGCTTAAGTCGAGAAGAGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
*
215270 GCTTCGAGGGCACATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
215335 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
215370 ATTCGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
*
215435 GCTTCGA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAA-GGTTATCTTCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
215498 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
215533 ATTTGCAGCAAAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
215598 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
215663 TTTGAGTTCGACTACGCTCAGTTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
215698 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCTGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
215763 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
215828 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
215863 ATTTGCAGC-TAGCTTAAGTCGAGAAGGGC-ATATGCCAAAGACCCCCGAGTTCGATTAC-CTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
*
215925 GCTTCGAGGGCACATCATTTGTAGCATAACTTAAGTCGAGAA-GGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
215989 TTTGAGTTCGACTACGCTCAGCTCC-AGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
216023 ATTCGCAGCATAGCTTAAGTCGAGAA-GGCTATATGCCAAAGA-CCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
216086 GCTTCGAGGGCACATCATTTGCA-CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
216150 TTT---TTCGACTACGCTCAGCTCCAATGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
216182 A-TTGCAGCAAAGCTTAAGTCGAGAA-GGCTATA-GCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
*
216244 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
216309 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
216344 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
216409 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGCTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
216474 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
216509 ATTCGCAACAAAGCTTAAGTCGAGAAGGGCTAT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
216542 CTGCTCCAAG
Statistics
Matches: 1613, Mismatches: 35, Indels: 34
0.96 0.02 0.02
Matches are distributed among these distances:
157 8 0.00
158 92 0.06
159 52 0.03
160 54 0.03
161 126 0.08
162 74 0.05
163 327 0.20
164 112 0.07
165 768 0.48
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:215317 original size:328 final size:330
Alignment explanation
Indices: 214712--216541 Score: 3354
Period size: 328 Copynumber: 5.6 Consensus size: 330
214702 TAAACAAACT
214712 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
214777 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
214842 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAAAGCTTAAGTCGAGAAGGGC
214907 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
196 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
214972 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
215037 ACATC
326 ACATC
*
215042 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
215107 GCTTCGAGGGCACATCATTTGCAGCATAACTT-AGTCGAGAA-GGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
* * *
215170 TTTGAGTTCGACTACTCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGAGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAAAGCTTAAGTCGAGAAGGGC
*
215235 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGTAGCATAAC
196 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
215300 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
215365 ACATC
326 ACATC
*
215370 ATTCGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
*
215435 GCTTCGA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAA-GGTTATCTTCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
215498 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAAAGCTTAAGTCGAGAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAAAGCTTAAGTCGAGAAGGGC
215563 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
196 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
*
215628 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGTTCCAAGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
215693 ACATC
326 ACATC
* *
215698 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCTGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
215763 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
215828 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGC-TAGCTTAAGTCGAGAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAAAGCTTAAGTCGAGAAGGGC
*
215892 -ATATGCCAAAGACCCCCGAGTTCGATTAC-CTCAGCTTCGAGGGCACATCATTTGTAGCATAAC
196 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
215955 TTAAGTCGAGAA-GGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCC-AGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
216018 ACATC
326 ACATC
*
216023 ATTCGCAGCATAGCTTAAGTCGAGAA-GGCTATATGCCAAAGA-CCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
216086 GCTTCGAGGGCACATCATTTGCA-CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
216150 TTT---TTCGACTACGCTCAGCTCCAATGCACATCA-TTGCAGCAAAGCTTAAGTCGAGAA-GGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAAAGCTTAAGTCGAGAAGGGC
216210 TATA-GCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
196 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
*
216274 TTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
216339 ACATC
326 ACATC
216344 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
216409 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGCTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
* *
216474 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTCGCAACAAAGCTTAAGTCGAGAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAAAGCTTAAGTCGAGAAGGGC
216539 TAT
196 TAT
216542 CTGCTCCAAG
Statistics
Matches: 1452, Mismatches: 32, Indels: 33
0.96 0.02 0.02
Matches are distributed among these distances:
318 35 0.02
319 92 0.06
320 46 0.03
321 34 0.02
322 60 0.04
323 87 0.06
324 58 0.04
325 33 0.02
326 46 0.03
327 98 0.07
328 634 0.44
329 68 0.05
330 161 0.11
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (330 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAAAGCTTAAGTCGAGAAGGGC
TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
ACATC
Found at i:215647 original size:493 final size:495
Alignment explanation
Indices: 214712--216541 Score: 3354
Period size: 493 Copynumber: 3.7 Consensus size: 495
214702 TAAACAAACT
214712 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
214777 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
214842 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
214907 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
196 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
214972 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
* * *
215037 ACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTAC
326 ACATCATTCGCAGCAAAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTAC
215102 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTT-AGTCGAGAA-GGTTATCTGCCAACCAA
391 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
*
215165 AGACCTTTGAGTTCGACTACTCTCAGCTCCAAGGCACATC
456 AGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
215205 ATTTGCAGCATAGCTTAAGTCGAGAAGAGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
*
215270 GCTTCGAGGGCACATCATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
215335 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTCGCAGCATAGCTTAAGTCGAGAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
215400 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGA-GGCACATCATTTGCAGCATAAC
196 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
*
215464 TTAAGTCGAGAA-GGTTATCTTCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
*
215528 ACATCATTTGCAGCAAAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTAC
326 ACATCATTCGCAGCAAAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTAC
215593 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
391 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
*
215658 AGACCTTTGAGTTCGACTACGCTCAGTTCCAAGGCACATC
456 AGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
215698 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCTGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
215763 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
215828 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGC-TAGCTTAAGTCGAGAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
*
215892 -ATATGCCAAAGACCCCCGAGTTCGATTAC-CTCAGCTTCGAGGGCACATCATTTGTAGCATAAC
196 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
215955 TTAAGTCGAGAA-GGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCC-AGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
*
216018 ACATCATTCGCAGCATAGCTTAAGTCGAGAA-GGCTATATGCCAAAGA-CCCCGAGTTCGATTAC
326 ACATCATTCGCAGCAAAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTAC
216081 ACTCAGCTTCGAGGGCACATCATTTGCA-CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
391 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
*
216145 AGACCTTT---TTCGACTACGCTCAGCTCCAATGCACATC
456 AGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
216182 A-TTGCAGCAAAGCTTAAGTCGAGAA-GGCTATA-GCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
*
216244 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
216309 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
216374 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
196 TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
* *
216439 TTAAATCGAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
261 TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
*
216504 ACATCATTCGCAACAAAGCTTAAGTCGAGAAGGGCTAT
326 ACATCATTCGCAGCAAAGCTTAAGTCGAGAAGGGCTAT
216542 CTGCTCCAAG
Statistics
Matches: 1300, Mismatches: 28, Indels: 24
0.96 0.02 0.02
Matches are distributed among these distances:
481 137 0.11
482 27 0.02
483 51 0.04
484 72 0.06
485 46 0.04
486 33 0.03
487 50 0.04
488 44 0.03
489 16 0.01
490 44 0.03
491 259 0.20
492 63 0.05
493 458 0.35
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (495 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
TATATGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAAC
TTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTCGCAGCAAAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTAC
ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
AGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:216553 original size:50 final size:50
Alignment explanation
Indices: 216494--216596 Score: 127
Period size: 50 Copynumber: 2.1 Consensus size: 50
216484 ACTACGCTCA
216494 GCTCCAAGGCACATCATTCGCAACA-AAGCTTAAGTCGAGAAGGGCTATCT
1 GCTCCAAGGCACATCATTCGCAACACAA-CTTAAGTCGAGAAGGGCTATCT
* * * * * * *
216544 GCTCCAAGGCATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCT
1 GCTCCAAGGCACATCATTCGCAACACAACTTAAGTCGAGAAGGGCTATCT
216594 GCT
1 GCT
216597 AACAAAAGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 43 0.96
51 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (50 bp):
GCTCCAAGGCACATCATTCGCAACACAACTTAAGTCGAGAAGGGCTATCT
Found at i:216662 original size:134 final size:134
Alignment explanation
Indices: 216417--216680 Score: 386
Period size: 134 Copynumber: 2.0 Consensus size: 134
216407 CAGCTTCGAG
* *
216417 GGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGCTATCTGCCAACCAAAGACCTTTGAGTT
1 GGCACATCATTTGCAGCACAACTTAAATCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTT
*
216482 CGACTACGCTCAGCTCCAAGGCACATCATTCGCAACAAAGCTTAAGTCGAGAAGGGCTATCTGCT
66 CGACTACACTCAGCTCCAAGGCACATCATTCGCAACAAAGCTTAAGTCGAGAAGGGCTATCTGCT
216547 CCAA
131 CCAA
* * * * * * *
216551 GGCATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGCTAACAAAAGACCTTTGAGTT
1 GGCACATCATTTGCAGCACAACTTAAATCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTT
* * * *
216616 CGACTACATTCAGCT-CAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
66 CGACTACACTCAGCTCCAA-GGCACATCATTCGCAACAAAGCTTAAGTCGAGAAGGGCTATCTGC
216680 T
130 T
216681 AAAGACCTTC
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
133 3 0.03
134 112 0.97
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (134 bp):
GGCACATCATTTGCAGCACAACTTAAATCGAGAAGGGCTATCTGCCAACAAAAGACCTTTGAGTT
CGACTACACTCAGCTCCAAGGCACATCATTCGCAACAAAGCTTAAGTCGAGAAGGGCTATCTGCT
CCAA
Found at i:217440 original size:36 final size:36
Alignment explanation
Indices: 217311--217568 Score: 230
Period size: 36 Copynumber: 7.2 Consensus size: 36
217301 TATATAATAT
* *
217311 ATATATATATATATTATAG-TTTTAAAATATTTTTAAA
1 ATATATATA-ATA-TATAGTTTTTAAAGTATTTTGAAA
* *
217348 ACCTATATATAATATATAGTTTTGAAAGCATGTTTGAAA
1 A--TATATATAATATATAGTTTTTAAAGTAT-TTTGAAA
*
217387 ATATTTATATATTATATAGTTTTTAAAGTATTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAAGTATTTTGAAA
* *
217425 ATAAATATAATATATAGTTTTTACA-T-TTTTGAAA
1 ATATATATAATATATAGTTTTTAAAGTATTTTGAAA
* *
217459 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAGTATTTTGAAA
* * * **
217495 ATAAATATACTATATAATTTTTAAAACATTTT----
1 ATATATATAATATATAGTTTTTAAAGTATTTTGAAA
* * *
217527 -T-TAAAAAATATATAGTTTTTAAA-CATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAGTATTTTGAAA
217560 ATATATATA
1 ATATATATA
217569 GTTTTTAAAA
Statistics
Matches: 180, Mismatches: 27, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
29 6 0.03
30 17 0.09
31 1 0.01
34 30 0.17
35 6 0.03
36 53 0.29
37 8 0.04
38 21 0.12
39 38 0.21
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAGTATTTTGAAA
Found at i:217481 original size:70 final size:71
Alignment explanation
Indices: 217311--217517 Score: 256
Period size: 70 Copynumber: 2.8 Consensus size: 71
217301 TATATAATAT
* * * *
217311 ATATATATATATATTATAG-TTTTAAAATATTTTTAAAACCTATATATAATATATAGTTTTGAAA
1 ATATATATAT-TA-TATAGTTTTTAAAGTATTTTGAAAA--TAAATATAATATATAGTTTT--TA
217375 GCATGTTTGAAA
60 GCATGTTTGAAA
217387 ATATTTATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTTA-CAT
1 ATA--TATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTTAGCAT
*
217451 TTTTGAAA
64 GTTTGAAA
* * *
217459 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAAATAAATATACTATATAATTTTTA
1 ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTTA
217518 AAACATTTTT
Statistics
Matches: 120, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
70 53 0.44
72 13 0.11
73 1 0.01
75 19 0.16
76 8 0.07
77 19 0.16
78 7 0.06
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (71 bp):
ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTTAGCATGT
TTGAAA
Found at i:217540 original size:30 final size:29
Alignment explanation
Indices: 217505--217578 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 29
217495 ATAAATATAC
* *
217505 TATATAATTTTTAAAACATTTTTTAAAAAA
1 TATATAGTTTTTAAAACA-TTTTGAAAAAA
*
217535 TATATAGTTTTT-AAACATTTTGAAAATA
1 TATATAGTTTTTAAAACATTTTGAAAAAA
217563 TATATAGTTTTTAAAA
1 TATATAGTTTTTAAAA
217579 AAATATTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 21 0.52
29 8 0.20
30 11 0.28
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (29 bp):
TATATAGTTTTTAAAACATTTTGAAAAAA
Found at i:217766 original size:36 final size:35
Alignment explanation
Indices: 217671--217766 Score: 101
Period size: 36 Copynumber: 2.7 Consensus size: 35
217661 TTTTAAAAAC
217671 TATATAATTTTGG-AAATGTTTTTAAAAAAACATATAA
1 TATATAATTTTGGAAAATGTTTTT---AAAACATATAA
* *
217708 TATATAATTTT--AAAATATTTTTAAAA-ATATAT
1 TATATAATTTTGGAAAATGTTTTTAAAACATATAA
217740 TATATAGATTTTGGAAAATGTGTTTTA
1 TATATA-ATTTTGGAAAATGT-TTTTA
217767 GTTATTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
32 11 0.22
33 9 0.18
35 6 0.12
36 14 0.27
37 11 0.22
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (35 bp):
TATATAATTTTGGAAAATGTTTTTAAAACATATAA
Found at i:219001 original size:17 final size:18
Alignment explanation
Indices: 218961--219001 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
218951 TTTTTATTCA
218961 ATTTGATCCTTTTATTTTC
1 ATTT-ATCCTTTTATTTTC
*
218980 A-TTATCC-TTTGTTTTC
1 ATTTATCCTTTTATTTTC
218996 ATTTAT
1 ATTTAT
219002 TCTATTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 9 0.45
17 8 0.40
18 2 0.10
19 1 0.05
ACGTcount: A:0.17, C:0.15, G:0.05, T:0.63
Consensus pattern (18 bp):
ATTTATCCTTTTATTTTC
Found at i:219056 original size:22 final size:22
Alignment explanation
Indices: 219022--219068 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
219012 CTCTTATTTT
* *
219022 TTTAAACTCATTTTTTGTTCTC
1 TTTAAACTCATTTATTATTCTC
* *
219044 TTTAATCTTATTTATTATTCTC
1 TTTAAACTCATTTATTATTCTC
219066 TTT
1 TTT
219069 CTTTGACTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTAAACTCATTTATTATTCTC
Found at i:219167 original size:23 final size:22
Alignment explanation
Indices: 219141--219199 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
219131 TTTTGTTTCC
*
219141 ATTTGTTTTTTTATTTTACATTT
1 ATTTATTTTTTTATTTT-CATTT
* * *
219164 ATTTATTATTATTGTTTTTATTT
1 ATTTATT-TTTTTATTTTCATTT
219187 ATTTATTTTTTTA
1 ATTTATTTTTTTA
219200 CTAACATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 4 0.14
23 17 0.59
24 8 0.28
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (22 bp):
ATTTATTTTTTTATTTTCATTT
Found at i:219279 original size:12 final size:13
Alignment explanation
Indices: 219262--219291 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
219252 TCGAATCGAG
219262 TAATTTAAA-TTT
1 TAATTTAAATTTT
219274 TAATTTAAATTTT
1 TAATTTAAATTTT
219287 TAATT
1 TAATT
219292 ATTCGCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAATTTAAATTTT
Found at i:229730 original size:2 final size:2
Alignment explanation
Indices: 229723--229748 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
229713 TGTATATCAA
229723 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
229749 TGACTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:237884 original size:52 final size:52
Alignment explanation
Indices: 237801--237900 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
237791 CCCAGCACTC
*
237801 ATATTTTGATATGCTTGATCCTCCACTTGGCCAACACCTTGGTTTTGCCTCG
1 ATATTTTGATATGCTTGATCCTCCACATGGCCAACACCTTGGTTTTGCCTCG
*
237853 ATATTTTGATATGTTTGATCCTCCACATGGCCAACACCTTGGTTTTGC
1 ATATTTTGATATGCTTGATCCTCCACATGGCCAACACCTTGGTTTTGC
237901 AGTCTACACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (52 bp):
ATATTTTGATATGCTTGATCCTCCACATGGCCAACACCTTGGTTTTGCCTCG
Found at i:242343 original size:20 final size:20
Alignment explanation
Indices: 242286--242351 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
242276 CAGTCAGTAG
* * **
242286 GTATCGATACCAAAAGGTGG
1 GTATCGATACTAAAGGGTCA
* * *
242306 GTATTGATACTCAGGGGTCA
1 GTATCGATACTAAAGGGTCA
242326 GTATCGATACTAAAGGGTCA
1 GTATCGATACTAAAGGGTCA
*
242346 ATATCG
1 GTATCG
242352 GTACCATCAG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (20 bp):
GTATCGATACTAAAGGGTCA
Found at i:243084 original size:20 final size:20
Alignment explanation
Indices: 243059--243100 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
243049 CTCTGTACAT
243059 TAAACTCAGTAT-TTTGATTC
1 TAAACTCAGTATGTTT-ATTC
243079 TAAACTCAGTATGTTTATTC
1 TAAACTCAGTATGTTTATTC
243099 TA
1 TA
243101 GATGATTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (20 bp):
TAAACTCAGTATGTTTATTC
Found at i:252724 original size:35 final size:35
Alignment explanation
Indices: 252685--252763 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
252675 AACACATTCC
*
252685 TCAATTTAATTCTAAACCCTGAATTCTAAAATAAT
1 TCAATTTAATTCTAAACCCTAAATTCTAAAATAAT
* * *
252720 TCAATTAAATTTTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCTAAATTCTAAAATAAT
*
252755 TTAATTTAA
1 TCAATTTAA
252764 GGTTTAGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.44, C:0.15, G:0.01, T:0.39
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCTAAATTCTAAAATAAT
Found at i:252830 original size:35 final size:35
Alignment explanation
Indices: 252757--252831 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
252747 AAAATACTTT
* **
252757 AATTTAAGGTTTAGAATGTAAATAAAGTATTTTGG
1 AATTTAAGGTTTAGAATATAAATAAAGTATTTCAG
* * * *
252792 AATTTGAGGTTTAGAATATAATTGAAGTGTTTCAG
1 AATTTAAGGTTTAGAATATAAATAAAGTATTTCAG
252827 AATTT
1 AATTT
252832 TGAACATGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.37, C:0.01, G:0.20, T:0.41
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATATAAATAAAGTATTTCAG
Found at i:255501 original size:42 final size:44
Alignment explanation
Indices: 255444--255536 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 44
255434 AAACATCTAA
* * *
255444 AAAGCAACATTAATAATTT-TTTT-ATAAATCTAAAATGAATAT
1 AAAGTAACACTAATAATTTCTTTTGATAAATCTAAAATAAATAT
* *
255486 AAAGTAACACTAATAATTTCTTTTGATAAATCTGAGATAAATAT
1 AAAGTAACACTAATAATTTCTTTTGATAAATCTAAAATAAATAT
255530 AAAGTAA
1 AAAGTAA
255537 TATATGTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 17 0.39
43 4 0.09
44 23 0.52
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (44 bp):
AAAGTAACACTAATAATTTCTTTTGATAAATCTAAAATAAATAT
Found at i:256421 original size:5 final size:5
Alignment explanation
Indices: 256398--256644 Score: 104
Period size: 5 Copynumber: 48.6 Consensus size: 5
256388 TAAAAACCCT
**
256398 AAATA AAATA TAAAT- AAATA AAATA ATAATA AAGGATTA ATCTA AAA-A
1 AAATA AAATA -AAATA AAATA AAATA A-AATA AA--A-TA AAATA AAATA
* * * * *
256446 AAAGAA AAAGA AAATA AAACA CAAT- AAAGA AAATA ATAATA ATAA-A
1 AAA-TA AAATA AAATA AAATA AAATA AAATA AAATA A-AATA A-AATA
* *
256492 AAAT- AAGTA AAATA AAA-A ACAAGA TAAATA AAAT- AAATA AAAT- AAATA
1 AAATA AAATA AAATA AAATA A-AATA -AAATA AAATA AAATA AAATA AAATA
* * * * *
256540 AAATA AGA-A AAATA ATATT AAATC AAATA AAA-A CAGAA-A CAA-A AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA -A-AATA AAATA AAATA
* * * *
256588 ATATA AAATA ATAATA ATAATA ATAGA AAATA AGATAAA AAATA AAATA
1 AAATA AAATA A-AATA A-AATA AAATA AAATA A-A-ATA AAATA AAATA
256637 AAATA AAA
1 AAATA AAA
256645 CTAATATATA
Statistics
Matches: 186, Mismatches: 32, Indels: 48
0.70 0.12 0.18
Matches are distributed among these distances:
4 34 0.18
5 103 0.55
6 41 0.22
7 5 0.03
8 3 0.02
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:256489 original size:9 final size:8
Alignment explanation
Indices: 256475--256650 Score: 61
Period size: 9 Copynumber: 22.1 Consensus size: 8
256465 CACAATAAAG
256475 AAAATAAT
1 AAAATAAT
256483 AATAATAA-
1 AA-AATAAT
256491 AAAATAAGT
1 AAAATAA-T
256500 AAAATAA-
1 AAAATAAT
*
256507 AAAACAA-
1 AAAATAAT
* *
256514 GATA-AAT
1 AAAATAAT
256521 AAAATAAAT
1 AAAAT-AAT
256530 AAAATAAAT
1 AAAAT-AAT
*
256539 AAAATAAGA
1 AAAATAA-T
256548 AAAATAAT
1 AAAATAAT
**
256556 ATTA-AAT
1 AAAATAAT
*
256563 CAAATAA-
1 AAAATAAT
*
256570 AAACAGAA-
1 AAA-ATAAT
*
256578 ACAAAAAAT
1 A-AAATAAT
*
256587 AATATAA-
1 AAAATAAT
256594 AATAATAAT
1 AA-AATAAT
256603 AATAATAAT
1 AA-AATAAT
*
256612 AGAA-AAT
1 AAAATAAT
*
256619 AAGATAA-
1 AAAATAAT
256626 AAAATAA-
1 AAAATAAT
256633 AATAA-AAT
1 AA-AATAAT
256641 AAAACTAAT
1 AAAA-TAAT
256650 A
1 A
256651 TATATATATA
Statistics
Matches: 128, Mismatches: 22, Indels: 35
0.69 0.12 0.19
Matches are distributed among these distances:
6 2 0.02
7 40 0.31
8 33 0.26
9 53 0.41
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (8 bp):
AAAATAAT
Found at i:256511 original size:46 final size:48
Alignment explanation
Indices: 256456--256554 Score: 127
Period size: 48 Copynumber: 2.1 Consensus size: 48
256446 AAAGAAAAAG
* *
256456 AAAATAAAACAC-A-ATAAAGAAAAT-AATAATAAT-AA-AAAATAAGT
1 AAAATAAAAAACAAGATAAAGAAAATAAATAA-AATAAATAAAATAAGA
*
256500 AAAATAAAAAACAAGATAAATAAAATAAATAAAATAAATAAAATAAGA
1 AAAATAAAAAACAAGATAAAGAAAATAAATAAAATAAATAAAATAAGA
256548 AAAATAA
1 AAAATAA
256555 TATTAAATCA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 11 0.23
45 1 0.02
46 13 0.28
47 7 0.15
48 15 0.32
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (48 bp):
AAAATAAAAAACAAGATAAAGAAAATAAATAAAATAAATAAAATAAGA
Found at i:256519 original size:17 final size:17
Alignment explanation
Indices: 256481--256524 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
256471 AAAGAAAATA
*
256481 ATAATAATAAAAAATAAG
1 ATAA-AATAAAAAACAAG
256499 -TAAAATAAAAAACAAG
1 ATAAAATAAAAAACAAG
256515 AT-AAATAAAA
1 ATAAAATAAAA
256525 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (17 bp):
ATAAAATAAAAAACAAG
Found at i:256552 original size:18 final size:18
Alignment explanation
Indices: 256476--256644 Score: 94
Period size: 18 Copynumber: 8.9 Consensus size: 18
256466 ACAATAAAGA
256476 AAATAATAATAATAAAAAAT
1 AAATAA-AATAA-AAAAAAT
*
256496 AAGTAAAATAAAAAACAAGAT
1 AAATAAAAT-AAAAA-AA-AT
*
256517 AAATAAAATAAATAAAAT
1 AAATAAAATAAAAAAAAT
*
256535 AAATAAAATAAGAAAAAT
1 AAATAAAATAAAAAAAAT
* * *
256553 AATATTAAAT-CAAATAA-
1 AA-ATAAAATAAAAAAAAT
* * *
256570 AAACAGAA-ACAAAAAAT
1 AAATAAAATAAAAAAAAT
256587 AATATAAAATAATAATAATAAT
1 AA-ATAAAATAA-AA-AA-AAT
* * *
256609 AATAGAAAATAAGATAAA-
1 AA-ATAAAATAAAAAAAAT
256627 AAATAAAATAAAATAAAA
1 AAATAAAATAAAA-AAAA
256645 CTAATATATA
Statistics
Matches: 115, Mismatches: 22, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
16 9 0.08
17 13 0.11
18 33 0.29
19 17 0.15
20 16 0.14
21 13 0.11
22 14 0.12
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
AAATAAAATAAAAAAAAT
Found at i:256577 original size:29 final size:27
Alignment explanation
Indices: 256468--256644 Score: 91
Period size: 27 Copynumber: 6.4 Consensus size: 27
256458 AATAAAACAC
*
256468 AATAAAGAAAAT-AATAATAAT-A-AAA
1 AATAAATAAAATAAATAA-AATAAGAAA
* *
256493 AATAAGTAAAATAAAAAACAAGATAA-ATAA
1 AATAAATAAAAT-AAATA-AA-ATAAGA-AA
256523 AATAAATAAAATAAATAAAATAAGAAA
1 AATAAATAAAATAAATAAAATAAGAAA
*
256550 AATAATATTAAATCAAATAAAA-ACAGAAA
1 AATAA-ATAAAAT-AAATAAAATA-AGAAA
* * * * *
256579 CAAAAAATAATATAAA-ATAATAATAAT
1 -AATAAATAAAATAAATAAAATAAGAAA
* *
256606 AATAATAGAAAATAAGATAAAA-AA-TAA
1 AATAA-ATAAAATAA-ATAAAATAAGAAA
256633 AATAAAATAAAA
1 AAT-AAATAAAA
256645 CTAATATATA
Statistics
Matches: 117, Mismatches: 19, Indels: 30
0.70 0.11 0.18
Matches are distributed among these distances:
25 10 0.09
26 4 0.03
27 37 0.32
28 22 0.19
29 27 0.23
30 17 0.15
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (27 bp):
AATAAATAAAATAAATAAAATAAGAAA
Found at i:256761 original size:42 final size:45
Alignment explanation
Indices: 256706--256788 Score: 109
Period size: 43 Copynumber: 1.9 Consensus size: 45
256696 TAAATAACAT
*
256706 TATATAAAG-AAAAATAATATGAAAAAATAA-AA-AATAAATATA
1 TATATAAAGAAAAAATAATAGGAAAAAATAATAATAATAAATATA
* **
256748 TATATAAATAAAAAATGTTAGGAAAAAATAATAATAATAAA
1 TATATAAAGAAAAAATAATAGGAAAAAATAATAATAATAAA
256789 AAATAAACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 8 0.24
43 18 0.53
44 2 0.06
45 6 0.18
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (45 bp):
TATATAAAGAAAAAATAATAGGAAAAAATAATAATAATAAATATA
Found at i:256869 original size:2 final size:2
Alignment explanation
Indices: 256862--256895 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
256852 TAAATAAGAA
256862 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
256896 ATAAGGGACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:259137 original size:68 final size:60
Alignment explanation
Indices: 259055--259202 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 60
259045 GTTTCAAGAT
* *
259055 GCCCTTTACGGGTTTTCATCTTGAACCTACCTTATTTCCTTTTTTCTTTTTCTTTTTTCAATTTA
1 GCCCTTT-CGGGTTTTCATCTT-AA---ACATT-TTTCC-TTTTT-TTTTTC-TTTTTCAACTTA
259120 GGAC
57 GGAC
* * *
259124 GCCCTTTCGGGTTTTCACCTTAAACATTTTTTCTTTTTTTTTTCTTTTTCAACTTAGGAT
1 GCCCTTTCGGGTTTTCATCTTAAACATTTTTCCTTTTTTTTTTCTTTTTCAACTTAGGAC
* *
259184 GCCCTCTCGAGTTTTCATC
1 GCCCTTTCGGGTTTTCATC
259203 ATAAGTGAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
60 30 0.42
61 6 0.08
62 5 0.07
63 4 0.06
64 4 0.06
67 2 0.03
68 13 0.18
69 7 0.10
ACGTcount: A:0.14, C:0.24, G:0.11, T:0.51
Consensus pattern (60 bp):
GCCCTTTCGGGTTTTCATCTTAAACATTTTTCCTTTTTTTTTTCTTTTTCAACTTAGGAC
Found at i:260131 original size:14 final size:14
Alignment explanation
Indices: 260112--260142 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
260102 GAATATTTAT
260112 TTTATCTCCGTAAA
1 TTTATCTCCGTAAA
260126 TTTATCTCCGTAAA
1 TTTATCTCCGTAAA
260140 TTT
1 TTT
260143 GACATTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (14 bp):
TTTATCTCCGTAAA
Found at i:270337 original size:5 final size:5
Alignment explanation
Indices: 270327--270368 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
270317 GCTTTCAAAG
*
270327 AAGAA AAGAA AA-AA AAGAA GA-AA AAGAA AAG-A AAGAA AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
270369 CAAAAAGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 11 0.34
5 21 0.66
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:270344 original size:9 final size:9
Alignment explanation
Indices: 270330--270365 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
270320 TTCAAAGAAG
270330 AAAAGAAAA
1 AAAAGAAAA
*
270339 AAAAGAAGA
1 AAAAGAAAA
270348 AAAAGAAAA
1 AAAAGAAAA
*
270357 GAAAGAAAA
1 AAAAGAAAA
270366 GAACAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:270353 original size:18 final size:17
Alignment explanation
Indices: 270323--270375 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
270313 GCAAGCTTTC
270323 AAAGAAGAAAAGAAAAA
1 AAAGAAGAAAAGAAAAA
*
270340 AAAGAAGAAAA-AGAAA
1 AAAGAAGAAAAGAAAAA
* *
270356 AGA-AAGAAAAGAACAA
1 AAAGAAGAAAAGAAAAA
270372 AAAG
1 AAAG
270376 TTGAAACACT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 7 0.24
16 11 0.38
17 11 0.38
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAGAAGAAAAGAAAAA
Found at i:270354 original size:23 final size:23
Alignment explanation
Indices: 270322--270375 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
270312 TGCAAGCTTT
270322 CAAAGAAGAAAAGAAAAAAAAGAA
1 CAAA-AAGAAAAGAAAAAAAAGAA
* *
270346 GAAAAAGAAAAGAAAGAAAAGAA
1 CAAAAAGAAAAGAAAAAAAAGAA
270369 CAAAAAG
1 CAAAAAG
270376 TTGAAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.78, C:0.04, G:0.19, T:0.00
Consensus pattern (23 bp):
CAAAAAGAAAAGAAAAAAAAGAA
Found at i:270375 original size:9 final size:8
Alignment explanation
Indices: 270323--270365 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 8
270313 GCAAGCTTTC
*
270323 AAAGAAGA
1 AAAGAAAA
270331 AAAGAAAAA
1 AAAG-AAAA
270340 AAAGAAGAA
1 AAAGAA-AA
270349 AAAGAAAA
1 AAAGAAAA
270357 GAAAGAAAA
1 -AAAGAAAA
270366 GAACAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
8 8 0.26
9 23 0.74
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAGAAAA
Found at i:274333 original size:24 final size:24
Alignment explanation
Indices: 274306--274354 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
274296 TGCATGACAT
274306 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
274330 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
274354 T
1 T
274355 CAGGAAGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:277838 original size:24 final size:24
Alignment explanation
Indices: 277811--277872 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
277801 AGAGCTAAAC
*
277811 AAATATAAAAAAAAAAAGAAATA-G
1 AAATAGAAAAAAAAAAAGAAA-AGG
*
277835 AAATAGAAGAAAAAAATAGAAAAGG
1 AAATAGAA-AAAAAAAAAGAAAAGG
277860 AAA-AGAAAAAAAA
1 AAATAGAAAAAAAA
277873 GAAAACAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 6 0.18
24 12 0.35
25 16 0.47
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (24 bp):
AAATAGAAAAAAAAAAAGAAAAGG
Found at i:277870 original size:7 final size:7
Alignment explanation
Indices: 277817--277936 Score: 86
Period size: 7 Copynumber: 16.7 Consensus size: 7
277807 AAACAAATAT
277817 AAAAA-A
1 AAAAAGA
277823 AAAAAG-
1 AAAAAGA
*
277829 AAATAGA
1 AAAAAGA
277836 AATAGAAGA
1 AA-A-AAGA
277845 AAAAA-A
1 AAAAAGA
277851 TAGAAAAGGA
1 -A-AAAA-GA
277861 AAAGAA-A
1 AAA-AAGA
277868 AAAAAGA
1 AAAAAGA
*
277875 AAACAGA
1 AAAAAGA
*
277882 AAACAGA
1 AAAAAGA
*
277889 AAACAGA
1 AAAAAGA
*
277896 AAACAGA
1 AAAAAGA
*
277903 AAACAGA
1 AAAAAGA
*
277910 AAACAGAA
1 AAAAAG-A
277918 AAAAAGA
1 AAAAAGA
277925 AAAAAGA
1 AAAAAGA
277932 AAAAA
1 AAAAA
277937 ATGAGAGATG
Statistics
Matches: 99, Mismatches: 4, Indels: 21
0.80 0.03 0.17
Matches are distributed among these distances:
6 13 0.13
7 63 0.64
8 14 0.14
9 8 0.08
10 1 0.01
ACGTcount: A:0.78, C:0.05, G:0.14, T:0.03
Consensus pattern (7 bp):
AAAAAGA
Found at i:277884 original size:14 final size:14
Alignment explanation
Indices: 277867--277934 Score: 100
Period size: 14 Copynumber: 4.8 Consensus size: 14
277857 AGGAAAAGAA
*
277867 AAAAAAGAAAACAG
1 AAAACAGAAAACAG
277881 AAAACAGAAAACAG
1 AAAACAGAAAACAG
277895 AAAACAGAAAACAG
1 AAAACAGAAAACAG
*
277909 AAAACAGAAAAAAAG
1 AAAACAG-AAAACAG
*
277924 AAAAAAGAAAA
1 AAAACAGAAAA
277935 AAATGAGAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
14 38 0.76
15 12 0.24
ACGTcount: A:0.78, C:0.09, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAACAGAAAACAG
Found at i:277957 original size:2 final size:2
Alignment explanation
Indices: 277952--278017 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
277942 AGATGATTAA
277952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
277994 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
278018 CAATTGTGGA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:279957 original size:15 final size:16
Alignment explanation
Indices: 279918--279964 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
279908 TTGCAGCTAG
279918 GGGGTATAGATACCCCT
1 GGGGTATAGATA-CCCT
*
279935 GTGGGTATCGATACCC-
1 G-GGGTATAGATACCCT
*
279951 GGGGTATGGATACC
1 GGGGTATAGATACC
279965 TCTGCAGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
17 4 0.15
18 10 0.37
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.23
Consensus pattern (16 bp):
GGGGTATAGATACCCT
Found at i:280078 original size:29 final size:29
Alignment explanation
Indices: 280057--280114 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
280047 AAACTTTGAA
280057 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
280086 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
280115 TGTCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:280104 original size:30 final size:30
Alignment explanation
Indices: 280057--280117 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 30
280047 AAACTTTGAA
280057 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
280086 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
280117 T
1 T
280118 CTTAAATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.37
30 11 0.37
31 8 0.27
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:282387 original size:34 final size:32
Alignment explanation
Indices: 282325--282394 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
282315 ACCTTACAAC
* *
282325 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
282357 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
282391 TCCC
1 TCCC
282395 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:282773 original size:18 final size:17
Alignment explanation
Indices: 282750--282850 Score: 102
Period size: 18 Copynumber: 5.9 Consensus size: 17
282740 TTACAGCCAG
282750 GGGGTATAGATACCCCTA
1 GGGGTATAGATA-CCCTA
*
282768 GGGGTATCGATACCC--
1 GGGGTATAGATACCCTA
*
282783 GAGGTATAGATACCCTA
1 GGGGTATAGATACCCTA
*
282800 GGGGGTATCGATACCCT-
1 -GGGGTATAGATACCCTA
*
282817 -GGGTATGGATACCCCTA
1 GGGGTATAGATA-CCCTA
282834 GGGGGTATAGATACCCT
1 -GGGGTATAGATACCCT
282851 CTGAGCAATC
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
15 23 0.33
16 4 0.06
17 3 0.04
18 29 0.42
19 10 0.14
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.23
Consensus pattern (17 bp):
GGGGTATAGATACCCTA
Found at i:282822 original size:15 final size:15
Alignment explanation
Indices: 282769--282830 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 15
282759 ATACCCCTAG
282769 GGGTATCGATACCC-
1 GGGTATCGATACCCT
*
282783 GAGGTATAGATACCCT
1 G-GGTATCGATACCCT
282799 AGGGGGTATCGATACCCT
1 ---GGGTATCGATACCCT
*
282817 GGGTATGGATACCC
1 GGGTATCGATACCC
282831 CTAGGGGGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
14 1 0.03
15 25 0.62
18 13 0.32
19 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.23
Consensus pattern (15 bp):
GGGTATCGATACCCT
Found at i:282838 original size:34 final size:34
Alignment explanation
Indices: 282751--282850 Score: 152
Period size: 33 Copynumber: 3.0 Consensus size: 34
282741 TACAGCCAGG
282751 GGGTATAGATACCCCTA-GGGGTATCGATACCC-
1 GGGTATAGATACCCCTAGGGGGTATCGATACCCT
282783 GAGGTATAGATA-CCCTAGGGGGTATCGATACCCT
1 G-GGTATAGATACCCCTAGGGGGTATCGATACCCT
* *
282817 GGGTATGGATACCCCTAGGGGGTATAGATACCCT
1 GGGTATAGATACCCCTAGGGGGTATCGATACCCT
282851 CTGAGCAATC
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
32 6 0.10
33 34 0.55
34 22 0.35
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (34 bp):
GGGTATAGATACCCCTAGGGGGTATCGATACCCT
Found at i:283009 original size:29 final size:33
Alignment explanation
Indices: 282977--283049 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 33
282967 GAAACCTTTT
282977 AAAAC-TTTG-AA-TAAATTCAATT-AAGTCCA
1 AAAACATTTGAAATTAAATTCAATTCAAGTCCA
*
283006 AAAACATTTTGTAAATTCAATTCAATTCAAGTCCA
1 AAAACA-TTTG-AAATTAAATTCAATTCAAGTCCA
*
283041 AAACCATTT
1 AAAACATTT
283050 TCCCTTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
29 5 0.14
31 4 0.11
33 2 0.06
34 13 0.36
35 12 0.33
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (33 bp):
AAAACATTTGAAATTAAATTCAATTCAAGTCCA
Found at i:285024 original size:13 final size:13
Alignment explanation
Indices: 285006--285031 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
284996 GAAAAGTTGG
285006 TTCCAATGTTAAA
1 TTCCAATGTTAAA
285019 TTCCAATGTTAAA
1 TTCCAATGTTAAA
285032 AGGAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TTCCAATGTTAAA
Found at i:285708 original size:61 final size:61
Alignment explanation
Indices: 285637--285751 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 61
285627 GAAGGTGGAT
* *
285637 ACGACCTTATGTATCATGTCTGGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
1 ACGACCTTATGTATCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
* * *
285698 ACGACCTTATGTGTCATATCCGGATTAGCATTATGGCGTAAGCTTAGTGCAGGT
1 ACGACCTTATGTATCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGT
285752 TTAGCACTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (61 bp):
ACGACCTTATGTATCATATCCGGATTAGCACTATAGCGTAAGCTTAGTGCAGGTGGTGGGC
Found at i:287019 original size:20 final size:20
Alignment explanation
Indices: 286994--287041 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
286984 ATTATGTACT
286994 TAGCTCATGATATGCATTCA
1 TAGCTCATGATATGCATTCA
287014 TAGCTCATGATATGCATTCA
1 TAGCTCATGATATGCATTCA
287034 TAGCTCAT
1 TAGCTCAT
287042 ATCACTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (20 bp):
TAGCTCATGATATGCATTCA
Found at i:289477 original size:14 final size:14
Alignment explanation
Indices: 289458--289556 Score: 50
Period size: 14 Copynumber: 7.5 Consensus size: 14
289448 AATCTAAATA
289458 AATAAAATAATAAT
1 AATAAAATAATAAT
** *
289472 AATAAAGGACTAAT
1 AATAAAATAATAAT
* *
289486 -CTAAAA-AAGAA-
1 AATAAAATAATAAT
289497 AATAAAATAA-AAT
1 AATAAAATAATAAT
* * *
289510 AA-AACACAATAAA
1 AATAAAATAATAAT
* *
289523 AATAAAAAAATAAA
1 AATAAAATAATAAT
289537 AAT-AAATAAGTAA-
1 AATAAAATAA-TAAT
289550 AATAAAA
1 AATAAAA
289557 AACAAGGTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
12 15 0.23
13 20 0.31
14 29 0.45
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:289498 original size:5 final size:5
Alignment explanation
Indices: 289490--289732 Score: 67
Period size: 5 Copynumber: 47.6 Consensus size: 5
289480 ACTAATCTAA
* * *
289490 AAAAG AAAAT AAAAT AAAAT AAAAC ACAAT AAAA- ATAAA- AAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT
* *
289538 ATAAAT -AAGT AAAAT AAAA- AACAAGGT -AAAT AAAAT -AAAT AAAAC
1 A-AAAT AAAAT AAAAT AAAAT AA-AA--T AAAAT AAAAT AAAAT AAAAT
** * * * *
289583 AAAGC AAATT TAAAT AGGAAT AAAAT AATAA- AAAAT ATTAAAT CAAAT
1 AAAAT AAAAT AAAAT A-AAAT AAAAT AA-AAT AAAAT A--AAAT AAAAT
* * * * * *
289631 AAAAAC ATAAAC AAAAA AACAAT ATAA- AAAAT AATAAT AATAG AAAAT
1 -AAAAT A-AAAT AAAAT AA-AAT AAAAT AAAAT AA-AAT AAAAT AAAAT
* * * * *
289679 AAGAT AAAA- AAAAT AAAAC AAAACT AATAT ATATAT ATAAT AAAA- AAAGAT
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT A-AAAT AAAAT AAAAT AAA-AT
289730 AAA
1 AAA
289733 TATATATATA
Statistics
Matches: 177, Mismatches: 35, Indels: 51
0.67 0.13 0.19
Matches are distributed among these distances:
4 27 0.15
5 110 0.62
6 35 0.20
7 5 0.03
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:289524 original size:21 final size:20
Alignment explanation
Indices: 289500--289576 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 20
289490 AAAAGAAAAT
289500 AAAATAAAATAAAACACAATA
1 AAAATAAAATAAAA-ACAATA
*
289521 AAAATAAAA-AAATAAAAATA
1 AAAATAAAATAAA-AACAATA
**
289541 AATAAGTAAAATAAAAAACAAGG
1 AA-AA-TAAAAT-AAAAACAATA
*
289564 TAAATAAAATAAA
1 AAAATAAAATAAA
289577 TAAAACAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
20 13 0.28
21 18 0.39
22 7 0.15
23 5 0.11
24 3 0.07
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (20 bp):
AAAATAAAATAAAAACAATA
Found at i:289551 original size:13 final size:14
Alignment explanation
Indices: 289500--289558 Score: 68
Period size: 14 Copynumber: 4.2 Consensus size: 14
289490 AAAAGAAAAT
289500 AAAAT-AAAATAAA
1 AAAATAAAAATAAA
289513 ACACAATAAAAATAAA
1 A-A-AATAAAAATAAA
289529 AAAATAAAAATAAA
1 AAAATAAAAATAAA
* *
289543 TAAGT-AAAATAAA
1 AAAATAAAAATAAA
289556 AAA
1 AAA
289559 CAAGGTAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 11 0.28
14 16 0.40
15 4 0.10
16 9 0.22
ACGTcount: A:0.80, C:0.03, G:0.02, T:0.15
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:294956 original size:3 final size:3
Alignment explanation
Indices: 294948--294987 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
294938 ATTAATATAT
* *
294948 TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA -AT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
294988 TTTTGGTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 1 0.03
3 31 0.97
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:295461 original size:43 final size:43
Alignment explanation
Indices: 295413--295561 Score: 148
Period size: 43 Copynumber: 3.6 Consensus size: 43
295403 ATAACACAGT
*
295413 TCCTACGTGATGAGGACGGT-TGGTTATCTAGGGGTGACACGAC
1 TCCTACGTGATGAGGA-GGTCTGGTTATCTAGGGGTGACACGGC
* * * * *
295456 TCCTACATGATGAGGATGTCTGG---TC-AGGGATAACACGGT
1 TCCTACGTGATGAGGAGGTCTGGTTATCTAGGGGTGACACGGC
* * * *
295495 TCTTACGCGATAAGGACGG-CTGATTATCTAGGGGTGACACGGC
1 TCCTACGTGATGAGGA-GGTCTGGTTATCTAGGGGTGACACGGC
295538 TCCTACGTGATGAGGAGGTCTGGT
1 TCCTACGTGATGAGGAGGTCTGGT
295562 CGACGGATGA
Statistics
Matches: 80, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
39 25 0.31
40 3 0.04
42 6 0.08
43 46 0.57
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.26
Consensus pattern (43 bp):
TCCTACGTGATGAGGAGGTCTGGTTATCTAGGGGTGACACGGC
Found at i:295469 original size:131 final size:132
Alignment explanation
Indices: 295183--295492 Score: 455
Period size: 134 Copynumber: 2.3 Consensus size: 132
295173 TTCTAAAGGC
* * *
295183 GACACGGCTCCTACGTGATTAGGAGATCTGGTCAGTGGATGACACGATTCCTATATGATGAGGAC
1 GACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGTGGATGACACGATTCCTACATGATGAGGAC
** **
295248 GGTAGGCCATCTTTAGGGAGGGTGATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTGA
66 GACAAACCATCTTTAGGGA--GTGATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTGA
*
295313 GGTT
129 GGGT
295317 GACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGTGGATGACACGATTCCTACATGATGAGGAC
1 GACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGTGGATGACACGATTCCTACATGATGAGGAC
*
295382 GACAAACCATCTTTAGGGA-TGATAACACAGTTCCTACGTGATGAGGACGGTTGGTTATCT-AGG
66 GACAAACCATCTTTAGGGAGTGATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTGA-G
295445 GGT
130 GGT
* * * *
295448 GACACGACTCCTACATGATGAGGATGTCTGGTCAG-GGATAACACG
1 GACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGTGGATGACACG
295493 GTTCTTACGC
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
130 10 0.06
131 75 0.46
134 77 0.48
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (132 bp):
GACACGGCTCCTACGTGATGAGGAGGTCTGGTCAGTGGATGACACGATTCCTACATGATGAGGAC
GACAAACCATCTTTAGGGAGTGATAACACAGTTCCTACGTGATGAGGACGGCTGGTTATCTGAGG
GT
Found at i:295541 original size:82 final size:83
Alignment explanation
Indices: 295402--295593 Score: 278
Period size: 82 Copynumber: 2.3 Consensus size: 83
295392 CTTTAGGGAT
* * * *
295402 GATAACACAGTTCCTACGTGATGAGGACGGTTGGTTATCTAGGGGTGACACGACTCCTACATGAT
1 GATAACACGGTTCCTACGCGATGAGGACGGCTGATTATCTAGGGGTGACACGACTCCTACATGAT
* *
295467 GAGGATGTCTGGTC-AGG
66 GAGGAGGTCTGGTCGACG
* * * *
295484 GATAACACGGTTCTTACGCGATAAGGACGGCTGATTATCTAGGGGTGACACGGCTCCTACGTGAT
1 GATAACACGGTTCCTACGCGATGAGGACGGCTGATTATCTAGGGGTGACACGACTCCTACATGAT
295549 GAGGAGGTCTGGTCGACG
66 GAGGAGGTCTGGTCGACG
*
295567 GATGACACGGTTCCTACGCGATGAGGA
1 GATAACACGGTTCCTACGCGATGAGGA
295594 TGGTAGACCA
Statistics
Matches: 96, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 70 0.73
83 26 0.27
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (83 bp):
GATAACACGGTTCCTACGCGATGAGGACGGCTGATTATCTAGGGGTGACACGACTCCTACATGAT
GAGGAGGTCTGGTCGACG
Found at i:295742 original size:66 final size:67
Alignment explanation
Indices: 295619--295747 Score: 163
Period size: 66 Copynumber: 1.9 Consensus size: 67
295609 AGGGATAATA
* * *
295619 TCTCAAAAGAGACAAAATTTTGTTTCAAGGGAAACAGACTCAGAGATGGGTGCTTCAAGAGAAGT
1 TCTCAAAAGAGACAAAATTTCGTTTCAAGGGAAACAGACTCAAAGATGAGTGCTTCAAGAGAAGT
295684 TG
66 TG
* * * * *
295686 TCTCAAGAGAGAGAAAA-TTCGTTTCAAGGGAAATA-ATCTCAAATATGAGTGTTTCAAGAGAA
1 TCTCAAAAGAGACAAAATTTCGTTTCAAGGGAAACAGA-CTCAAAGATGAGTGCTTCAAGAGAA
295748 ACTGTTTCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
65 1 0.02
66 37 0.70
67 15 0.28
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (67 bp):
TCTCAAAAGAGACAAAATTTCGTTTCAAGGGAAACAGACTCAAAGATGAGTGCTTCAAGAGAAGT
TG
Found at i:295925 original size:35 final size:37
Alignment explanation
Indices: 295873--296023 Score: 146
Period size: 37 Copynumber: 4.1 Consensus size: 37
295863 TTTCTTAAAG
* *
295873 GAAAAATGTCTCAAGCGAGACGAAATTTG-TTTGAGA
1 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTGAGA
* * * *
295909 G-AAATTGTCTCAAGCGAGAAAAAATTTGTTTTTAGC
1 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTGAGA
* * *
295945 GAAAACTGTCTCAAGTGAGACAAAATTTATTTTTA-A
1 GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTGAGA
* ** *
295981 GAAAACTTGTCTCAAACGAGACAACCCTTTGTTTCGAGA
1 GAAAAC-TGTCTCAAGCGAGACAA-AATTTGTTTTGAGA
296020 GAAA
1 GAAA
296024 CAATCTCAAA
Statistics
Matches: 93, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
35 24 0.26
36 13 0.14
37 44 0.47
38 7 0.08
39 5 0.05
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (37 bp):
GAAAACTGTCTCAAGCGAGACAAAATTTGTTTTGAGA
Found at i:295970 original size:37 final size:37
Alignment explanation
Indices: 295856--296004 Score: 160
Period size: 37 Copynumber: 4.0 Consensus size: 37
295846 AACAAACTCG
* * *
295856 AAATTTGTTTCTTAAAGGAAAAATGTCTCAAGCGAGACG
1 AAATTTGTTT-TTAGA-GAAAACTGTCTCAAGCGAGACA
* * *
295895 AAATTTG-TTTGAGAG-AAATTGTCTCAAGCGAGAAA
1 AAATTTGTTTTTAGAGAAAACTGTCTCAAGCGAGACA
* *
295930 AAATTTGTTTTTAGCGAAAACTGTCTCAAGTGAGACA
1 AAATTTGTTTTTAGAGAAAACTGTCTCAAGCGAGACA
* *
295967 AAATTTATTTTTA-AGAAAACTTGTCTCAAACGAGACA
1 AAATTTGTTTTTAGAGAAAAC-TGTCTCAAGCGAGACA
296004 A
1 A
296005 CCCTTTGTTT
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
35 24 0.26
36 13 0.14
37 47 0.51
38 2 0.02
39 7 0.08
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (37 bp):
AAATTTGTTTTTAGAGAAAACTGTCTCAAGCGAGACA
Found at i:295984 original size:72 final size:75
Alignment explanation
Indices: 295856--296001 Score: 176
Period size: 72 Copynumber: 2.0 Consensus size: 75
295846 AACAAACTCG
*
295856 AAATTTGTTTCTTAAAGGAAAAATGTCTCAAGCGAGACGAAATTTGTTTGAGAG-AAA-TTGTCT
1 AAATTTGTTTCTT-AAGGAAAAATGTCTCAAGCGAGACAAAATTTGTTTGAGAGAAAACTTGTCT
*
295919 CAAGCGAGAAA
65 CAAACGAGAAA
* * * *
295930 AAATTTGTTT-TT-AGCGAAAACTGTCTCAAGTGAGACAAAATTTATTTTTA-AGAAAACTTGTC
1 AAATTTGTTTCTTAAG-GAAAAATGTCTCAAGCGAGACAAAATTT-GTTTGAGAGAAAACTTGTC
295992 TCAAACGAGA
64 TCAAACGAGA
296002 CAACCCTTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
71 2 0.03
72 27 0.44
73 9 0.15
74 24 0.39
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (75 bp):
AAATTTGTTTCTTAAGGAAAAATGTCTCAAGCGAGACAAAATTTGTTTGAGAGAAAACTTGTCTC
AAACGAGAAA
Found at i:297238 original size:13 final size:13
Alignment explanation
Indices: 297187--297241 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
297177 CTTGTCATCA
*
297187 TTTTCTTTTGCTTT
1 TTTTCTTTT-CTCT
* *
297201 TTTTCTCTGCTCT
1 TTTTCTTTTCTCT
*
297214 TTGT-TTTT-TCT
1 TTTTCTTTTCTCT
297225 TTTTCTTTTCTCT
1 TTTTCTTTTCTCT
297238 TTTT
1 TTTT
297242 TTGCTTTGCT
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
11 6 0.19
12 6 0.19
13 13 0.41
14 7 0.22
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.76
Consensus pattern (13 bp):
TTTTCTTTTCTCT
Found at i:297254 original size:20 final size:19
Alignment explanation
Indices: 297217--297281 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
297207 CTGCTCTTTG
* *
297217 TTTTTTCTTTTTCTTTTCTCT
1 TTTTTTC-TTTGC-TTTCTAT
297238 TTTTTTGCTTTGCTTTCTAT
1 TTTTTT-CTTTGCTTTCTAT
* *
297258 TTTTTTTTTTGCTCTCTAT
1 TTTTTTCTTTGCTTTCTAT
297277 TTTTT
1 TTTTT
297282 GTTTTTGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 16 0.41
20 12 0.31
21 10 0.26
22 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTTTTCTTTGCTTTCTAT
Found at i:297286 original size:19 final size:19
Alignment explanation
Indices: 297233--297286 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
297223 CTTTTTCTTT
*
297233 TCTCT-TTTTTTGCTTTGC
1 TCTCTATTTTTTGTTTTGC
* *
297251 TTTCTATTTTTTTTTTTGC
1 TCTCTATTTTTTGTTTTGC
297270 TCTCTATTTTTTGTTTT
1 TCTCTATTTTTTGTTTT
297287 TGTTTTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.04, C:0.15, G:0.07, T:0.74
Consensus pattern (19 bp):
TCTCTATTTTTTGTTTTGC
Found at i:297330 original size:15 final size:14
Alignment explanation
Indices: 297276--297329 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
297266 TTGCTCTCTA
*
297276 TTTTTTGTTTTTGT
1 TTTTTTCTTTTTGT
297290 TTTTTTC-TTTTGTT
1 TTTTTTCTTTTTG-T
297304 TTTTTCTCTTTATTGT
1 TTTTT-TCTTT-TTGT
297320 TTTTTTCTTT
1 TTTTTTCTTT
297330 ACTTTGATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
13 5 0.14
14 12 0.34
15 7 0.20
16 8 0.23
17 3 0.09
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTTTTCTTTTTGT
Found at i:307144 original size:21 final size:21
Alignment explanation
Indices: 307118--307162 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
307108 AGATGAGCTA
* *
307118 TGACTTCGAAGTAAGGCGCCT
1 TGACTTCAAAGTAAAGCGCCT
* *
307139 TGACTTTAAAGTAAAGCTCCT
1 TGACTTCAAAGTAAAGCGCCT
307160 TGA
1 TGA
307163 TTCTTAATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (21 bp):
TGACTTCAAAGTAAAGCGCCT
Found at i:315834 original size:21 final size:23
Alignment explanation
Indices: 315808--315858 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
315798 AGGGAATCAA
315808 TCCCCCCTTG-A-GGGAACCGAT
1 TCCCCCCTTGAAGGGGAACCGAT
*
315829 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCTTGAAGGGGAACCGAT
315852 TCCCCCC
1 TCCCCCC
315859 CACAGGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.35
22 1 0.04
23 16 0.62
ACGTcount: A:0.18, C:0.41, G:0.22, T:0.20
Consensus pattern (23 bp):
TCCCCCCTTGAAGGGGAACCGAT
Found at i:318817 original size:16 final size:17
Alignment explanation
Indices: 318796--318828 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
318786 AGAAGCCATT
318796 GATCAA-CAACAAGAAA
1 GATCAAGCAACAAGAAA
*
318812 GATCAAGCAATAAGAAA
1 GATCAAGCAACAAGAAA
318829 TTATAGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.15, G:0.15, T:0.09
Consensus pattern (17 bp):
GATCAAGCAACAAGAAA
Found at i:320146 original size:32 final size:32
Alignment explanation
Indices: 320110--320172 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
320100 ATAACAAAAT
*
320110 TACACAAACAAAAGAGAAGAAATAAGTTAGTG
1 TACACAAACAAAAGAAAAGAAATAAGTTAGTG
*
320142 TACACAAACAAAAGAAAAGAAATTAGTTAGT
1 TACACAAACAAAAGAAAAGAAATAAGTTAGT
320173 ACAGGTAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.17
Consensus pattern (32 bp):
TACACAAACAAAAGAAAAGAAATAAGTTAGTG
Found at i:322615 original size:2 final size:2
Alignment explanation
Indices: 322608--322637 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
322598 CAGCATAAAC
322608 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
322638 ACTCTCTCAA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:325603 original size:20 final size:20
Alignment explanation
Indices: 325578--325645 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
325568 TTTTCCAAAT
*
325578 TCGCAACG-GAAATAGATAAA
1 TCGCAACGCG-AATAGGTAAA
*
325598 TCGCAATGCGAATAGGTAAA
1 TCGCAACGCGAATAGGTAAA
325618 TCGCAACGCGAATAGGTAAA
1 TCGCAACGCGAATAGGTAAA
325638 TTCGCAAC
1 -TCGCAAC
325646 TCAATTACCG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
20 35 0.81
21 8 0.19
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAATAGGTAAA
Found at i:325720 original size:20 final size:20
Alignment explanation
Indices: 325691--325784 Score: 161
Period size: 20 Copynumber: 4.7 Consensus size: 20
325681 TCACGTTGTT
* *
325691 ATAGTATTGTTTACATTGCA
1 ATAGTGTTGTTTACATTGCG
325711 ATAGTGTTGTTTACATTGCG
1 ATAGTGTTGTTTACATTGCG
325731 ATAGTGTTGTTTACATTGCG
1 ATAGTGTTGTTTACATTGCG
325751 ATAGTGTTGTTTACATTGCG
1 ATAGTGTTGTTTACATTGCG
*
325771 ATAGTATTGTTTAC
1 ATAGTGTTGTTTAC
325785 CTATATCGGT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (20 bp):
ATAGTGTTGTTTACATTGCG
Found at i:325825 original size:20 final size:20
Alignment explanation
Indices: 325800--325848 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
325790 TCGGTAATTA
*
325800 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTAAAAATC
325820 GCGTTGCGAATTTAAAAATC
1 GCGTTGCGAATTTAAAAATC
*
325840 GCATTGCGA
1 GCGTTGCGA
325849 TAGTAATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (20 bp):
GCGTTGCGAATTTAAAAATC
Found at i:325993 original size:77 final size:77
Alignment explanation
Indices: 325743--325995 Score: 337
Period size: 77 Copynumber: 3.3 Consensus size: 77
325733 AGTGTTGTTT
* *
325743 ACATTGCGATAGTGTTGTTTACATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCG
1 ACATTGCGATAGTATTGTTTACATTGCGATAGTAATGTTTACCTATATCGGTAATTAGCGTTGCG
325808 AATTTGAAAATC
66 AATTTGAAAATC
* * * **** **
325820 GCGTTGCGA-ATTTAAAAATCGCATTGCGATAGTAATGTTTACCTATATCGGTAATTAGCGTTGC
1 ACATTGCGATA-GTATTGTTTACATTGCGATAGTAATGTTTACCTATATCGGTAATTAGCGTTGC
325884 GAATTTGAAAATC
65 GAATTTGAAAATC
* * * * *
325897 GCATTGCAATAGTATTGTTTATATTGCGATAGCACTGTTTACCTATATCGGTAATTAGCGTTGCG
1 ACATTGCGATAGTATTGTTTACATTGCGATAGTAATGTTTACCTATATCGGTAATTAGCGTTGCG
325962 AATTTGAAAATC
66 AATTTGAAAATC
*
325974 ACATTGCGATAGTACTGTTTAC
1 ACATTGCGATAGTATTGTTTAC
325996 CTATGTCGGT
Statistics
Matches: 147, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
76 1 0.01
77 145 0.99
78 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (77 bp):
ACATTGCGATAGTATTGTTTACATTGCGATAGTAATGTTTACCTATATCGGTAATTAGCGTTGCG
AATTTGAAAATC
Found at i:326007 original size:57 final size:57
Alignment explanation
Indices: 325919--326039 Score: 197
Period size: 57 Copynumber: 2.1 Consensus size: 57
325909 TATTGTTTAT
*
325919 ATTGCGATAGCACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCAC
1 ATTGCGATAGCACTGTTTACCTATATCGGTAATTACCGTTGCGAATTTGAAAATCAC
* * *
325976 ATTGCGATAGTACTGTTTACCTATGTCGGTAATTACCGTTGCGAATTTGAAAATCGC
1 ATTGCGATAGCACTGTTTACCTATATCGGTAATTACCGTTGCGAATTTGAAAATCAC
*
326033 GTTGCGA
1 ATTGCGA
326040 ATTTGAAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (57 bp):
ATTGCGATAGCACTGTTTACCTATATCGGTAATTACCGTTGCGAATTTGAAAATCAC
Found at i:326037 original size:20 final size:20
Alignment explanation
Indices: 326012--326059 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
326002 CGGTAATTAC
*
326012 CGTTGCGAATTTGAAAATCG
1 CGTTGCGAATTTGAAAATCA
326032 CGTTGCGAATTTGAAAATCA
1 CGTTGCGAATTTGAAAATCA
326052 CGTTGCGA
1 CGTTGCGA
326060 TTTACCTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (20 bp):
CGTTGCGAATTTGAAAATCA
Found at i:326075 original size:20 final size:20
Alignment explanation
Indices: 326049--326102 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
326039 AATTTGAAAA
326049 TCACGTTGCGATTTACCTAT
1 TCACGTTGCGATTTACCTAT
* * *
326069 TCGCGTTGTGATTTATCTAT
1 TCACGTTGCGATTTACCTAT
326089 TCACGTTGCGATTT
1 TCACGTTGCGATTT
326103 TGGAACATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (20 bp):
TCACGTTGCGATTTACCTAT
Found at i:340171 original size:21 final size:21
Alignment explanation
Indices: 340147--340189 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
340137 ATCTCATTAC
*
340147 TTAACTATAAAAATTTTCAAT
1 TTAAATATAAAAATTTTCAAT
* *
340168 TTAAATATCAAAATTTTGAAT
1 TTAAATATAAAAATTTTCAAT
340189 T
1 T
340190 ATTCTGTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAATATAAAAATTTTCAAT
Found at i:344268 original size:62 final size:63
Alignment explanation
Indices: 344139--344277 Score: 190
Period size: 62 Copynumber: 2.2 Consensus size: 63
344129 TTTAGATTGC
* * *
344139 GAAAACATCATTATTAAAGAGAATAATATTTTTTTAAAATTTTATTCTCATATTTGGTTTATG
1 GAAAACATCATTATTAAAGAGAATAATATTTTTTTAAAATTGTATTATCATATTTGGTTTATA
* * * * *
344202 GAAAAGATTATTATTAAGGAGAATAAT-TTTTTTTTAAATTGTATTATCATGTTTGGTTTATA
1 GAAAACATCATTATTAAAGAGAATAATATTTTTTTAAAATTGTATTATCATATTTGGTTTATA
*
344264 GAAAATATCATTAT
1 GAAAACATCATTAT
344278 CAAGTAATAA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
62 42 0.64
63 24 0.36
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (63 bp):
GAAAACATCATTATTAAAGAGAATAATATTTTTTTAAAATTGTATTATCATATTTGGTTTATA
Found at i:345267 original size:2 final size:2
Alignment explanation
Indices: 345262--345301 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
345252 AAAAGTAGAA
345262 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
345302 GATTTTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:346215 original size:23 final size:23
Alignment explanation
Indices: 346168--346217 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
346158 AATAACATAT
**
346168 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
346191 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
346214 TAGG
1 TAGG
346218 CATTTATCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:346277 original size:87 final size:87
Alignment explanation
Indices: 346131--346293 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
346121 AATATTATAT
*
346131 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
346196 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
346218 CATTTATCCGGAAATATTATCAAGTACAATAACATATTAGGTAACTCTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
346283 AGCGCTTATAT
66 AGCGCTTATAT
346294 TGACCTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (87 bp):
CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:346740 original size:200 final size:198
Alignment explanation
Indices: 346288--347019 Score: 818
Period size: 200 Copynumber: 3.6 Consensus size: 198
346278 TAGGTAGCGC
* ** * *
346288 TTATATTGACCTATTTTCGAAGT-AAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTA
1 TTATGTTGACCTATTTTCTCA-TAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* * ** ** *
346352 TTACATTATTATTATCGGTTACGATGTTTTTTAGATCGATACAATTT-TAAATGTATCGACAGTT
65 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTT
* ** * *
346416 TATGCTTGCACCTGGTTGGGCATTCATATTTCATTCTGGAAAAAAGTATCGACACAAACTAACAA
130 TATGGTTGCACCT-GTT-----TTGGTA-TTCATTCTGGACAAAAGTATCGACACAAATTAACAA
346481 CGTGTCGATACA
188 -GTGTCGATACA
* **
346493 TTAT-TTAGACCTATTCTCTCATAAAACCGGTATATTTATACCGGTTACATTAAAAATTTACCTA
1 TTATGTT-GACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTA
* * * *
346557 TTACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATATTTTTTATAAATGTATCGACACTT
65 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTT
* *
346622 TATGGTTGCACCCT-TTTTGGTATTCATTCTGGACCAAAAGTATCGACACAAGTTTATCAAGTGT
130 TATGGTTGCA-CCTGTTTTGGTATTCATTCTGGA-CAAAAGTATCGACACAA-ATTAACAAGTGT
*
346686 CGATACT
192 CGATACA
* * * *
346693 TTATGTTGACCTATTTTATCATAAAACTGGTATATTTATATCGGTTACATTGTAAATTTACCTAA
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* *
346758 TACATTATAATTATCAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTT
*
346823 ATGCG-TGCACCTCG-TTTGTGCATTCA-TCTTGGACAATAAGTATCGACACAAATTACACAAGT
131 ATG-GTTGCACCT-GTTTTG-GTATTCATTC-TGGACAA-AAGTATCGACACAAATTA-ACAAGT
346885 GTCGATACA
190 GTCGATACA
* * * * *
346894 TTATGTTGACCTGTTTTCTAAT-TAACCGGTATATTTATACTGGTTACATTGTTAATTTACCTAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * * *
346958 TACATTATAATTATTGGTTTTGATGTTTTTTGGG-TCGATAC-TTGTATAAAATGTATTGACAC
66 TACATTATAATTATCGGTTTCGATG-TTTTTGGGATCGATACTTTTTAT-AAATGTATCGACAC
347020 ATATTTAGGT
Statistics
Matches: 454, Mismatches: 57, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
199 18 0.04
200 241 0.53
201 72 0.16
204 3 0.01
205 92 0.20
206 25 0.06
207 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (198 bp):
TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTT
ATGGTTGCACCTGTTTTGGTATTCATTCTGGACAAAAGTATCGACACAAATTAACAAGTGTCGAT
ACA
Found at i:349962 original size:51 final size:52
Alignment explanation
Indices: 349854--349963 Score: 118
Period size: 51 Copynumber: 2.2 Consensus size: 52
349844 GGTTTCGATA
* * *
349854 TTTTTGGGATCGACACTTTTAATAAATGTATCGATACTTTATACGTGCAACC
1 TTTTTTGGATCGACACTTATAATAAATGTATCGACACTTTATACGTGCAACC
* * * * *
349906 -CTTTTGGATCGACACTCTATGA-AAATGTATCGACACTTTGTATGTTC-ACC
1 TTTTTTGGATCGACACT-TATAATAAATGTATCGACACTTTATACGTGCAACC
349956 TTTTTTGG
1 TTTTTTGG
349964 CATCCATTCT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
50 3 0.06
51 41 0.87
52 3 0.06
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.40
Consensus pattern (52 bp):
TTTTTTGGATCGACACTTATAATAAATGTATCGACACTTTATACGTGCAACC
Found at i:350145 original size:250 final size:252
Alignment explanation
Indices: 349655--350145 Score: 691
Period size: 251 Copynumber: 2.0 Consensus size: 252
349645 GTTTCGATGT
* * *
349655 TTTTGGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCAT
1 TTTTGGGATCGACACTCTATGAAAATGTATCGACACTTTATACGTTCACCCTTTTTGGCATCCAT
* * * *
349720 TATGGACAACAATTATCAACACAATATTAATAAGTGTCGATACATATTATAGACCTATTCTCTCA
66 TATGGACAAAAAGTATCAACACAATATTAATAAGTGTCGATAAATATTATAGACATATTCTCTCA
*
349785 TAAAACCGGTATATGTATACCGGTTATATTAAAAAATTACCTATTACATTATAATTATGGGTTTC
131 TAAAACCGGTATATGTATACCGGTTATATTAAAAAATTACCAATTACATTATAATTATGGGTTTC
* *
349850 GATATTTTTGGGATCGACACTTTTAATAAATGTATCGATACTTTATACGTGCAACCC
196 GATATTTTTGGGATCGACACTTTTAATAAATGGATCGACACTTTATACGTGCAACCC
* * *
349907 TTTT-GGATCGACACTCTATGAAAATGTATCGACACTTTGTATGTTCACCTTTTTTGGCATCCAT
1 TTTTGGGATCGACACTCTATGAAAATGTATCGACACTTTATACGTTCACCCTTTTTGGCATCCAT
* * * * * *
349971 TCTGGACAAAAAGTATCGACACAATATTAATAAGTGTCGATAAATGTTGTATACATATT-TTTCA
66 TATGGACAAAAAGTATCAACACAATATTAATAAGTGTCGATAAATATTATAGACATATTCTCTCA
* * * *
350035 TAAAACTGGTATATTTATACCGGTTATATTGAAAAATTACCAATTACATTATAATTATGGGTTTT
131 TAAAACCGGTATATGTATACCGGTTATATTAAAAAATTACCAATTACATTATAATTATGGGTTTC
* * ** * *
350100 GATGTTTTTTTGG-TCGTTACTTTTTATATATGGATCGACACTTTAT
196 GAT-ATTTTTGGGATCGACACTTTTAATAAATGGATCGACACTTTAT
350146 GTGAAACTTT
Statistics
Matches: 209, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
250 94 0.45
251 111 0.53
252 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (252 bp):
TTTTGGGATCGACACTCTATGAAAATGTATCGACACTTTATACGTTCACCCTTTTTGGCATCCAT
TATGGACAAAAAGTATCAACACAATATTAATAAGTGTCGATAAATATTATAGACATATTCTCTCA
TAAAACCGGTATATGTATACCGGTTATATTAAAAAATTACCAATTACATTATAATTATGGGTTTC
GATATTTTTGGGATCGACACTTTTAATAAATGGATCGACACTTTATACGTGCAACCC
Found at i:352953 original size:21 final size:21
Alignment explanation
Indices: 352927--352979 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
352917 TGTTTTTGGG
352927 ATCGACACTTTTTGAAAATGT
1 ATCGACACTTTTTGAAAATGT
352948 ATCGACACTTTTTGAAAATGT
1 ATCGACACTTTTTGAAAATGT
352969 ATCGACACTTT
1 ATCGACACTTT
352980 ATGCGTTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
ATCGACACTTTTTGAAAATGT
Found at i:353174 original size:21 final size:21
Alignment explanation
Indices: 353148--353201 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
353138 ATGTTTCTGA
353148 TATCGACTCTTTTTGAAAATG
1 TATCGACTCTTTTTGAAAATG
*
353169 TATCGA-TATTTTTTGAAAATG
1 TATCGACT-CTTTTTGAAAATG
* *
353190 TATTGACACTTT
1 TATCGACTCTTT
353202 ATGCGTTCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (21 bp):
TATCGACTCTTTTTGAAAATG
Found at i:353184 original size:222 final size:202
Alignment explanation
Indices: 352948--353754 Score: 1201
Period size: 201 Copynumber: 3.9 Consensus size: 202
352938 TTGAAAATGT
352948 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCC-TTTTTGGCATCCATTCTGGA
1 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGGCATCCATTCTGGA
* *
353012 CCAAAAGTATCGACACAAAATTAAAAACGTGTCGATACATGTTATAGACCTATTCTCTCATAAAA
66 CCAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
*
353077 TCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTCCGATGT
131 TCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGT
**
353142 TTCTGAT
196 TTCTGGG
* * * * * *
353149 ATCGACTCTTTTTGAAAATGTATCGATATTTTTTGAAAATGTATTGACACTTTATGCGTTCACCC
1 ATCGACACTTTTTGAAAATGTATCGACA----CT-----T-TA-TG---C-GT-T-C--AC-CCT
353214 TTTTTGGCATCCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGT
46 TTTTTGGCATCCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGT
* *
353279 ACACCTATTCTCTCATAAAATCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATT
111 AGACCTATTCTCTCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATT
*
353344 ATAATTATGGGTTTCGATGTTTCTTGG
176 ATAATTATGGGTTTCGATGTTTCTGGG
353371 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCC-TTTTTGGCATCCATTCTGGA
1 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGGCATCCATTCTGGA
353435 CCAAAAGTATCGACACAAAATTTAAAAAA-TGTCGATACATGTTGTAGACCTATTCTCTCATAAA
66 CCAAAAGTATCGACACAAAA-TTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAA
* *
353499 ATTGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATA
130 ATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATG
353564 TTTCTGGG
195 TTTCTGGG
353572 ATCGACAC-TTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTT-GCATCCATTCTGGA
1 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGGCATCCATTCTGGA
*
353635 CCAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACATATTCTCTCATAAAA
66 CCAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
* ** *
353700 CCGGTATATTTATACCGGTTACATTAAAAATTTACCTATTACATTATACTTATGG
131 TCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGG
353755 ATGCATATGT
Statistics
Matches: 553, Mismatches: 29, Indels: 49
0.88 0.05 0.08
Matches are distributed among these distances:
199 8 0.01
200 154 0.28
201 182 0.33
202 10 0.02
203 1 0.00
205 2 0.00
206 1 0.00
207 1 0.00
208 1 0.00
210 1 0.00
211 4 0.01
212 4 0.01
213 1 0.00
215 1 0.00
216 1 0.00
217 1 0.00
218 2 0.00
220 1 0.00
221 2 0.00
222 175 0.32
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (202 bp):
ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGGCATCCATTCTGGA
CCAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
TCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGT
TTCTGGG
Found at i:353523 original size:201 final size:201
Alignment explanation
Indices: 352948--353754 Score: 1143
Period size: 200 Copynumber: 3.9 Consensus size: 201
352938 TTGAAAATGT
352948 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGAC
1 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGAC
* *
353013 CAAAAGTATCGACACAAAATTAAAAACGTGTCGATACATGTTATAGACCTATTCTCTCATAAAAT
66 CAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAT
*
353078 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTCCGATGTT
131 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
*
353143 TC-TGAT
196 TCTTG-G
* * * ** * * * *
353149 ATCGACTCTTTTTGAAAATGTATCGATATTTTTTGAAAATGTATTGACACTTTATGCGTTCACCC
1 ATCGACACTTTTTGAAAATGTATCGACA--CTTT----ATGCGTTCACCCTTTTTG-G--CATCC
* * *
353214 TTTTTGGCATCCATTCTGGACCAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGT
57 ATTCTGG-A--C---C---A--AAAG-TATCGACACAAAATTAAAAAAGTGTCGATACATGTTGT
* *
353279 ACACCTATTCTCTCATAAAATCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATT
110 AGACCTATTCTCTCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATT
353344 ATAATTATGGGTTTCGATGTTTCTTGG
175 ATAATTATGGGTTTCGATGTTTCTTGG
353371 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGAC
1 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGAC
353436 CAAAAGTATCGACACAAAATTTAAAAAA-TGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
66 CAAAAGTATCGACACAAAA-TTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA
* *
353500 TTGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATAT
130 TCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGT
*
353565 TTCTGGG
195 TTCTTGG
*
353572 ATCGACAC-TTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCATCCATTCTGGAC
1 ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGAC
* *
353636 CAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACATATTCTCTCATAAAAC
66 CAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAT
** *
353701 CGGTATATTTATACCGGTTACATTAAAAATTTACCTATTACATTATACTTATGG
131 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGG
353755 ATGCATATGT
Statistics
Matches: 540, Mismatches: 42, Indels: 49
0.86 0.07 0.08
Matches are distributed among these distances:
199 8 0.01
200 159 0.29
201 150 0.28
202 11 0.02
203 3 0.01
204 1 0.00
207 14 0.03
208 1 0.00
210 10 0.02
211 1 0.00
212 1 0.00
213 10 0.02
215 1 0.00
216 14 0.03
219 1 0.00
220 3 0.01
221 3 0.01
222 147 0.27
223 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (201 bp):
ATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTCTGGAC
CAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAT
CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
TCTTGG
Found at i:354655 original size:4 final size:4
Alignment explanation
Indices: 354646--355070 Score: 841
Period size: 4 Copynumber: 106.2 Consensus size: 4
354636 AATGTCCTTT
354646 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
354694 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
354742 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
354790 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
354838 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
354886 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
354934 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
354982 CATA CATA CATA CATA TATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
355030 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C
355071 CAATCTCTTA
Statistics
Matches: 419, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 419 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:356297 original size:33 final size:33
Alignment explanation
Indices: 356260--356325 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
356250 CATCTTAAGA
*
356260 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
356293 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
356326 CCATCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:356383 original size:21 final size:21
Alignment explanation
Indices: 356358--356423 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
356348 CCCCCTTATG
* *
356358 TCTCTCAAGTGTATCTTCGAC
1 TCTCTCAAGTTTCTCTTCGAC
*
356379 TCTCTCAAGTTTCTCTTCGGC
1 TCTCTCAAGTTTCTCTTCGAC
*
356400 TCTCTCAAGTTTCTCTTCAAC
1 TCTCTCAAGTTTCTCTTCGAC
356421 TCT
1 TCT
356424 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.15, C:0.32, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTCTCAAGTTTCTCTTCGAC
Done.