Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 252 of 343
Found at i:83415945 original size:28 final size:28
Alignment explanation
Indices: 83415903--83416005 Score: 147
Period size: 28 Copynumber: 3.7 Consensus size: 28
83415893 TGGCCCCTTT
*
83415903 AGGCCCAATCTCATTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCTATC
83415931 -GAGCCCAATCACATTCATATGGTCC-ATC
1 AG-GCCCAATCACATTCATATGG-CCTATC
* *
83415959 AGGCCCAATCACTTTCATATGGCCTGTC
1 AGGCCCAATCACATTCATATGGCCTATC
83415987 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
83416006 GTCATGCAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
27 3 0.04
28 61 0.91
29 3 0.04
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCTATC
Found at i:83416243 original size:16 final size:16
Alignment explanation
Indices: 83416219--83416253 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
83416209 GTAGCCAAAC
83416219 TTTTAGCTTTTCGGCA
1 TTTTAGCTTTTCGGCA
* *
83416235 TTTTGGCTTTTTGGCA
1 TTTTAGCTTTTCGGCA
83416251 TTT
1 TTT
83416254 CGGGATTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.14, G:0.20, T:0.57
Consensus pattern (16 bp):
TTTTAGCTTTTCGGCA
Found at i:83416540 original size:21 final size:21
Alignment explanation
Indices: 83416511--83416550 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
83416501 AACTATACAC
*
83416511 AAGTGACTCGAAAATCATCTT
1 AAGTCACTCGAAAATCATCTT
**
83416532 AAGTCACTCTTAAATCATC
1 AAGTCACTCGAAAATCATC
83416551 CATGACATTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (21 bp):
AAGTCACTCGAAAATCATCTT
Found at i:83419569 original size:34 final size:34
Alignment explanation
Indices: 83419524--83419604 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
83419514 TTGTACAATC
* *
83419524 GGGCCTAAGCCCA-TATCAGTCGCAATATCAATGT
1 GGGCCTTAGCCCATTA-CAGTAGCAATATCAATGT
* * *
83419558 GGGCCTTAGCCCATTACAGTAGCAGTATCAGTTT
1 GGGCCTTAGCCCATTACAGTAGCAATATCAATGT
83419592 GGGCCTTAGCCCA
1 GGGCCTTAGCCCA
83419605 ATTCAATACA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
34 39 0.95
35 2 0.05
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (34 bp):
GGGCCTTAGCCCATTACAGTAGCAATATCAATGT
Found at i:83425957 original size:15 final size:16
Alignment explanation
Indices: 83425928--83425957 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83425918 CAAACATGCT
83425928 TTAACACATTATCAAA
1 TTAACACATTATCAAA
83425944 TTAACACA-TATCAA
1 TTAACACATTATCAA
83425958 CAAGGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:83427101 original size:25 final size:25
Alignment explanation
Indices: 83427054--83427135 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
83427044 GTATGCTTGT
*
83427054 ACGAGCT-ATGAATCGATATGCTCTC
1 ACGAGCTGA-GAATCGATAAGCTCTC
* *
83427079 ATGAGCTGTA-AATCGGTAAGCTCAT-
1 ACGAGCTG-AGAATCGATAAGCTC-TC
*
83427104 ACGAGTTGAGAATCGATAAGCTCTC
1 ACGAGCTGAGAATCGATAAGCTCTC
83427129 ACGAGCT
1 ACGAGCT
83427136 ACAATCGGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
24 2 0.04
25 41 0.91
26 1 0.02
27 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (25 bp):
ACGAGCTGAGAATCGATAAGCTCTC
Found at i:83432619 original size:41 final size:41
Alignment explanation
Indices: 83432574--83432661 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
83432564 GTTAATTAAG
83432574 TGGAAAATGAATATATAAAATGATTATATGAATCAGTTATA
1 TGGAAAATGAATATATAAAATGATTATATGAATCAGTTATA
* **
83432615 TGGAAAATGATTATATAAAATGATTATATGAATTGGTTATA
1 TGGAAAATGAATATATAAAATGATTATATGAATCAGTTATA
*
83432656 AGGAAA
1 TGGAAA
83432662 TAGTTATATG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.48, C:0.01, G:0.17, T:0.34
Consensus pattern (41 bp):
TGGAAAATGAATATATAAAATGATTATATGAATCAGTTATA
Found at i:83432641 original size:28 final size:27
Alignment explanation
Indices: 83432577--83432646 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
83432567 AATTAAGTGG
*
83432577 AAAATGAATATAT-AAAATGATTATAT
1 AAAATGATTATATGAAAATGATTATAT
* *
83432603 -GAATCAGTTATATGGAAAATGATTATAT
1 AAAATGA-TTATAT-GAAAATGATTATAT
83432631 AAAATGATTATATGAA
1 AAAATGATTATATGAA
83432647 TTGGTTATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
25 4 0.11
26 5 0.14
27 3 0.09
28 19 0.54
29 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.34
Consensus pattern (27 bp):
AAAATGATTATATGAAAATGATTATAT
Found at i:83432654 original size:13 final size:13
Alignment explanation
Indices: 83432578--83432697 Score: 84
Period size: 13 Copynumber: 9.0 Consensus size: 13
83432568 ATTAAGTGGA
* *
83432578 AAATGAATATATA
1 AAATGATTATATG
83432591 AAATGATTATATG
1 AAATGATTATATG
*
83432604 -AATCAGTTATATGG
1 AAATGA-TTATAT-G
*
83432618 AAAATGATTATATA
1 -AAATGATTATATG
83432632 AAATGATTATATG
1 AAATGATTATATG
* * *
83432645 AATTGGTTATAAGG
1 AAATGATTAT-ATG
83432659 AAAT-AGTTATATG
1 AAATGA-TTATATG
*
83432672 -AATTATGTATATG
1 AAATGAT-TATATG
*
83432685 AAATGTTTATATG
1 AAATGATTATATG
83432698 GATATATATG
Statistics
Matches: 84, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
12 8 0.10
13 52 0.62
14 14 0.17
15 6 0.07
16 4 0.05
ACGTcount: A:0.45, C:0.01, G:0.16, T:0.38
Consensus pattern (13 bp):
AAATGATTATATG
Found at i:83434178 original size:22 final size:21
Alignment explanation
Indices: 83434134--83434179 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
83434124 GGAAAAAGAA
*
83434134 AAAGAAAAAAAAAGGAAGGAC
1 AAAGAAAAAAAAAAGAAGGAC
83434155 AAAGAAAAAGAAAAAG-AGGTAC
1 AAAGAAAAA-AAAAAGAAGG-AC
83434177 AAA
1 AAA
83434180 CAGGTTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAAAAAAGAAGGAC
Found at i:83437150 original size:3 final size:3
Alignment explanation
Indices: 83437142--83437180 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
83437132 GTGTACTACA
83437142 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
83437181 TACAATACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:83445803 original size:9 final size:9
Alignment explanation
Indices: 83445791--83445822 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
83445781 ACAAATATTA
83445791 AAAATAAAC
1 AAAATAAAC
83445800 AAAATAAAC
1 AAAATAAAC
83445809 AAAATAAAC
1 AAAATAAAC
83445818 AAAAT
1 AAAAT
83445823 GCACCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:83453053 original size:6 final size:6
Alignment explanation
Indices: 83453042--83453074 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
83453032 TTAGCCATTT
83453042 TTTTTA TTTTTA TTTTTA TATTTT- TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTT
83453075 AATTGTTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.16
6 17 0.68
7 4 0.16
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:83453087 original size:23 final size:24
Alignment explanation
Indices: 83453039--83453088 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
83453029 AAATTAGCCA
* * *
83453039 TTTTTTTTATTTTTATTTTTATAT
1 TTTTTTTTATTTTAATTGTTACAT
83453063 TTTTTTTTA-TTTAATTGTTACAT
1 TTTTTTTTATTTTAATTGTTACAT
83453086 TTT
1 TTT
83453089 AATTGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (24 bp):
TTTTTTTTATTTTAATTGTTACAT
Found at i:83458914 original size:22 final size:22
Alignment explanation
Indices: 83458843--83458961 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
83458833 GTATATTTGA
83458843 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
83458865 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
83458890 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
83458912 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
83458937 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
83458959 GAT
1 GAT
83458962 GAATGCGAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:83458983 original size:25 final size:25
Alignment explanation
Indices: 83458861--83458986 Score: 92
Period size: 25 Copynumber: 5.3 Consensus size: 25
83458851 CGAATGGCCA
*
83458861 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGCGAACATGCATAT
* *
83458886 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-CGAACAT-GCATAT
*
83458908 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGCGAACATGCATAT
* *
83458933 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-CGAACAT-GCATAT
83458955 ATGTGATGAATGCGAACATGCATAT
1 ATGTGATGAATGCGAACATGCATAT
83458980 ATGTGAT
1 ATGTGAT
83458987 AAGGTAGAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
22 17 0.22
23 18 0.24
24 18 0.24
25 23 0.30
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGTGATGAATGCGAACATGCATAT
Found at i:83459041 original size:94 final size:94
Alignment explanation
Indices: 83458846--83459051 Score: 299
Period size: 94 Copynumber: 2.2 Consensus size: 94
83458836 TATTTGAGAT
* *
83458846 AAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
1 AAGGCCGAATGGCCAATGTGATGAATGCGAACATGCATATATGTGATAAGGCAGAATGGCCAATG
* *
83458911 TGATGAATGTGAACATGCATATATGTGAT
66 TGATGAACGTGAACATGCATATATGTGAG
*
83458940 AAGGCCGAATGGCCAATGTGATGAATGCGAACATGCATATATGTGATAAGGTAGAATGGCCAATG
1 AAGGCCGAATGGCCAATGTGATGAATGCGAACATGCATATATGTGATAAGGCAGAATGGCCAATG
* * *
83459005 TGATGAACGTGGAAGA-GTATATATGTGGCG
66 TGATGAACGT-GAACATGCATATATGT-GAG
*
83459035 AA-GCCGAATGGCTAATG
1 AAGGCCGAATGGCCAATG
83459052 CGAAACGTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
94 94 0.93
95 7 0.07
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.24
Consensus pattern (94 bp):
AAGGCCGAATGGCCAATGTGATGAATGCGAACATGCATATATGTGATAAGGCAGAATGGCCAATG
TGATGAACGTGAACATGCATATATGTGAG
Found at i:83459046 original size:47 final size:47
Alignment explanation
Indices: 83458818--83459011 Score: 316
Period size: 47 Copynumber: 4.1 Consensus size: 47
83458808 GATTTTATGA
** * * *
83458818 GATGAATGTGAATGTGTATATTTGAGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
83458865 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
83458912 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* **
83458959 GATGAATGCGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
83459006 GATGAA
1 GATGAA
83459012 CGTGGAAGAG
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 139 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:83460036 original size:10 final size:9
Alignment explanation
Indices: 83460021--83460047 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
83460011 AGGAATGTTC
83460021 AAAAAAAAT
1 AAAAAAAAT
83460030 AAAAAAAAT
1 AAAAAAAAT
83460039 AAAAAAAAT
1 AAAAAAAAT
83460048 TTACTGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:83461359 original size:21 final size:22
Alignment explanation
Indices: 83461335--83461378 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
83461325 CACGACCTAC
83461335 CCACACAGGCGTGT-CCTATGT
1 CCACACAGGCGTGTACCTATGT
*
83461356 CCACACGGGCGTGTGACCTATGT
1 CCACACAGGCGTGT-ACCTATGT
83461379 TTAGTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
23 7 0.35
ACGTcount: A:0.18, C:0.32, G:0.27, T:0.23
Consensus pattern (22 bp):
CCACACAGGCGTGTACCTATGT
Found at i:83466717 original size:26 final size:26
Alignment explanation
Indices: 83466681--83466733 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
83466671 CCCAAGAAAG
83466681 AATTCACCTAGATTTCATCTATCACT
1 AATTCACCTAGATTTCATCTATCACT
83466707 AATTCACCTAGATTTCATCTATCACT
1 AATTCACCTAGATTTCATCTATCACT
83466733 A
1 A
83466734 TCAATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (26 bp):
AATTCACCTAGATTTCATCTATCACT
Found at i:83468908 original size:41 final size:41
Alignment explanation
Indices: 83468785--83469003 Score: 280
Period size: 41 Copynumber: 5.2 Consensus size: 41
83468775 TAGCGGAAAT
* * * *
83468785 GCCGCT-AAAAACTGAGCAATAGCGGCGTTTTTTGTTAAAAC
1 GCCGCTAAAAAACAGAGCATTAGCGGCG-CTTTTGGTAAAAC
*
83468826 GCTGCT-AAAAACAGAGCATTAGTGGCGCGGCGCTTTTGGTAAAAC
1 GCCGCTAAAAAACAGAGCATTA-----GCGGCGCTTTTGGTAAAAC
83468871 GCCGCTAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAAC
1 GCCGCTAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAAC
*
83468912 GCCGCTAAAAAATAGAGCATTAGCGGCGCTTTTGGTAAAAC
1 GCCGCTAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAAC
* * *
83468953 GCCGCTAAAAACCAGAGCATTAGCCGCGCTTTTAGTAAAAC
1 GCCGCTAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAAC
*
83468994 GCCACTAAAA
1 GCCGCTAAAA
83469004 GTCATATAAC
Statistics
Matches: 160, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
41 123 0.77
45 16 0.10
46 21 0.13
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (41 bp):
GCCGCTAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAAC
Found at i:83470257 original size:8 final size:8
Alignment explanation
Indices: 83470238--83470292 Score: 62
Period size: 8 Copynumber: 7.2 Consensus size: 8
83470228 AATCTTCAAA
83470238 AAAAATTT
1 AAAAATTT
83470246 -AAAATTT
1 AAAAATTT
*
83470253 AAAAA-TA
1 AAAAATTT
83470260 AAAAATTT
1 AAAAATTT
*
83470268 AAAAA-TA
1 AAAAATTT
*
83470275 AAAAACTT
1 AAAAATTT
83470283 AAAAATTT
1 AAAAATTT
83470291 AA
1 AA
83470293 TATTTAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
7 19 0.49
8 20 0.51
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAAATTT
Found at i:83470257 original size:19 final size:22
Alignment explanation
Indices: 83470216--83470262 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
83470206 ATGTTAATTT
*
83470216 AAAAATTATAAAAATCTTCAAA
1 AAAAATTATAAAAATCTTAAAA
83470238 AAAAATT-T-AAAAT-TTAAAA
1 AAAAATTATAAAAATCTTAAAA
83470257 ATAAAA
1 A-AAAA
83470263 AATTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 1 0.04
22 7 0.30
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAAATTATAAAAATCTTAAAA
Found at i:83470258 original size:15 final size:15
Alignment explanation
Indices: 83470246--83470288 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
83470236 AAAAAAATTT
83470246 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
83470261 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
*
83470276 AAAACTTAAAAAT
1 AAAATTTAAAAAT
83470289 TTAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTAAAAATAA
Found at i:83470299 original size:15 final size:15
Alignment explanation
Indices: 83470238--83470299 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
83470228 AATCTTCAAA
83470238 AAAAATTTAAAATTT
1 AAAAATTTAAAATTT
**
83470253 AAAAATAAAAAATTT
1 AAAAATTTAAAATTT
** *
83470268 AAAAATAAAAAACTT
1 AAAAATTTAAAATTT
*
83470283 AAAAATTTAATATTT
1 AAAAATTTAAAATTT
83470298 AA
1 AA
83470300 TATTTAATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAATTTAAAATTT
Found at i:83474818 original size:19 final size:19
Alignment explanation
Indices: 83474795--83474841 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
83474785 ATTTAATCTA
*
83474795 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
83474813 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
83474833 ATTTTTATT
1 ATTTTTATT
83474842 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:83475717 original size:28 final size:28
Alignment explanation
Indices: 83475670--83475732 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
83475660 TGAGCACACT
*
83475670 AATAAAAAGATAGACAAAAATAAAATAA
1 AATAAAAAGATAGACAAAAACAAAATAA
* * *
83475698 GATAAAGAGATA-ACATAAAACATAATAA
1 AATAAAAAGATAGACA-AAAACAAAATAA
83475726 AATAAAA
1 AATAAAA
83475733 CATATAAGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.71, C:0.05, G:0.08, T:0.16
Consensus pattern (28 bp):
AATAAAAAGATAGACAAAAACAAAATAA
Found at i:83475730 original size:15 final size:15
Alignment explanation
Indices: 83475707--83475736 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83475697 AGATAAAGAG
*
83475707 ATAACATAAAACATA
1 ATAAAATAAAACATA
83475722 ATAAAATAAAACATA
1 ATAAAATAAAACATA
83475737 TAAGTCTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAAATAAAACATA
Found at i:83475815 original size:22 final size:21
Alignment explanation
Indices: 83475775--83475817 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
83475765 ATAACAACAA
*
83475775 AAATACAAATAAAAATAAATG
1 AAATAAAAATAAAAATAAATG
*
83475796 AAATAAAACATAAAACTAAATG
1 AAATAAAA-ATAAAAATAAATG
83475818 GAATCAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.19
Consensus pattern (21 bp):
AAATAAAAATAAAAATAAATG
Found at i:83476095 original size:96 final size:97
Alignment explanation
Indices: 83475982--83476219 Score: 306
Period size: 97 Copynumber: 2.5 Consensus size: 97
83475972 TTTTTAAATT
* * * *
83475982 TAATTATTTAATCTTATTTTCCTA-TACAAGAAAATCTTAATTATTTTTATTATCATTAACATTA
1 TAATTATTTAATCTTATTTTCCTACTAAAAGAAAATATTAATTACTTTCATTATCATTAACA-TA
*
83476046 AAATTA-TTTATTAATTATTTAA-TTTTTGAACAA
65 AAA-AACTTTATTAATTATTTAACTTTTT-AACAA
*
83476079 TAATTATTT-ATCTTATTTGT-CTACTAAAATAAAATATTAATTACTTTCATTATCATTAACATA
1 TAATTATTTAATCTTATTT-TCCTACTAAAAGAAAATATTAATTACTTTCATTATCATTAACATA
**
83476142 AAAAACTTTATTAATTATTTAACTTTTTAATGA
65 AAAAACTTTATTAATTATTTAACTTTTTAACAA
* * *
83476175 TAATTATTTAATATTATTTTCTTATTAAAAGAAAATATTAATTAC
1 TAATTATTTAATCTTATTTTCCTACTAAAAGAAAATATTAATTAC
83476220 ATTAACATTA
Statistics
Matches: 123, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
95 1 0.01
96 46 0.37
97 76 0.62
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (97 bp):
TAATTATTTAATCTTATTTTCCTACTAAAAGAAAATATTAATTACTTTCATTATCATTAACATAA
AAAACTTTATTAATTATTTAACTTTTTAACAA
Found at i:83477140 original size:14 final size:13
Alignment explanation
Indices: 83477116--83477164 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
83477106 TTTTGAGCAA
*
83477116 TTTAATTCTTTTC
1 TTTATTTCTTTTC
83477129 TTTATGTTCTTTTAAC
1 TTTAT-TTCTTTT--C
*
83477145 TTTATTTTTTTTC
1 TTTATTTCTTTTC
83477158 TTTATTT
1 TTTATTT
83477165 TCCATTCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 12 0.39
14 7 0.23
15 6 0.19
16 6 0.19
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTATTTCTTTTC
Found at i:83482944 original size:22 final size:22
Alignment explanation
Indices: 83482897--83482949 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
83482887 ATTTTATTCT
*
83482897 TTTC-CTTTTTCTTTCCTTCCC
1 TTTCTCTTTTTCATTCCTTCCC
83482918 TTTCTCTTTTTCCATTCCTTCCC
1 TTTCTCTTTTT-CATTCCTTCCC
83482941 -TTCTCTTTT
1 TTTCTCTTTT
83482950 CCTTTTCTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.14
22 15 0.52
23 10 0.34
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTCTCTTTTTCATTCCTTCCC
Found at i:83483186 original size:85 final size:87
Alignment explanation
Indices: 83483009--83483193 Score: 209
Period size: 90 Copynumber: 2.1 Consensus size: 87
83482999 TTAAAAGTAT
* * * *
83483009 AAAAAGCTCTCAAACTTTTTCAAAAAAAATAATTAAGCCCTCCTTTTTTTCTACACTCAATTGAG
1 AAAAAGCCCTCAAACTTCTTCAAAAAAAACAATTAA--CATCCTTTTTTTCTACACTCAATTGAG
*
83483074 CACTTAAACTTTCAAAATGCATTAA
64 CACTTAAACTTTCAAAATACA-TAA
* * * *
83483099 AAAAGGCCCTCAAACTTCTTCAAAAAAAGCAATTAA-ATCCTTTTTTT-TA-ACTCAATTGGGTA
1 AAAAAGCCCTCAAACTTCTTCAAAAAAAACAATTAACATCCTTTTTTTCTACACTCAATTGAGCA
* *
83483161 CTTAAATTTTTAAAATACAT-A
66 CTTAAACTTTCAAAATACATAA
83483182 AAAAA-CCCTCAA
1 AAAAAGCCCTCAA
83483194 TTTTTTTCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
82 7 0.08
83 5 0.06
84 1 0.01
85 27 0.33
86 2 0.02
87 10 0.12
90 31 0.37
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (87 bp):
AAAAAGCCCTCAAACTTCTTCAAAAAAAACAATTAACATCCTTTTTTTCTACACTCAATTGAGCA
CTTAAACTTTCAAAATACATAA
Found at i:83483308 original size:19 final size:18
Alignment explanation
Indices: 83483256--83483311 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
83483246 ATTATAAAAA
*
83483256 ATAAAAATAATAAATTTT
1 ATAAAAATTATAAATTTT
*
83483274 AGAAAAATTATTAAATTTT
1 ATAAAAATTA-TAAATTTT
*
83483293 ATTAAAAATTAGAAATTTT
1 A-TAAAAATTATAAATTTT
83483312 TTTATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.25
19 16 0.50
20 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (18 bp):
ATAAAAATTATAAATTTT
Found at i:83483312 original size:20 final size:21
Alignment explanation
Indices: 83483256--83483323 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 21
83483246 ATTATAAAAA
*
83483256 ATAAAAATAAT-AAA-TTT-T
1 ATAAAAATTATGAAATTTTAT
* *
83483274 AGAAAAATTATTAAATTTTAT
1 ATAAAAATTATGAAATTTTAT
*
83483295 -TAAAAATTA-GAAATTTTTTT
1 ATAAAAATTATGAAA-TTTTAT
83483315 ATAAAAATT
1 ATAAAAATT
83483324 GTAAAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 9 0.22
19 6 0.15
20 16 0.40
21 9 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
ATAAAAATTATGAAATTTTAT
Found at i:83483388 original size:19 final size:19
Alignment explanation
Indices: 83483345--83483389 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
83483335 AAAAATAAAT
* * *
83483345 TAAAATATTATACAATTCA
1 TAAAAAATTATAAAATGCA
83483364 TAAAAAATTATAAAATGCA
1 TAAAAAATTATAAAATGCA
*
83483383 TCAAAAA
1 TAAAAAA
83483390 GCCCCTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAAATTATAAAATGCA
Found at i:83483510 original size:10 final size:10
Alignment explanation
Indices: 83483491--83483544 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
83483481 GACATGTGAC
*
83483491 AAAAAATAAT
1 AAAAATTAAT
83483501 AAAAATTAAT
1 AAAAATTAAT
*
83483511 AAAAATCAAT
1 AAAAATTAAT
* *
83483521 AAAAGTTAAAG
1 AAAAATT-AAT
83483532 AAAAATT-AT
1 AAAAATTAAT
83483541 AAAA
1 AAAA
83483545 TATTTCTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
9 5 0.14
10 23 0.64
11 8 0.22
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:83483653 original size:9 final size:9
Alignment explanation
Indices: 83483634--83483702 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
83483624 CTTTATAAAA
83483634 TTTTATAATT
1 TTTTAT-ATT
83483644 TTTTATA-T
1 TTTTATATT
* *
83483652 TTCTATATA
1 TTTTATATT
*
83483661 TTTTATAAT
1 TTTTATATT
*
83483670 TTTTACGATT
1 TTTTA-TATT
83483680 TTTATATATT
1 TTT-TATATT
83483690 TTTCT-TATT
1 TTT-TATATT
83483699 TTTT
1 TTTT
83483703 TCTAATTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
8 8 0.17
9 19 0.40
10 18 0.38
11 2 0.04
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:83483668 original size:27 final size:27
Alignment explanation
Indices: 83483633--83483691 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
83483623 ACTTTATAAA
*
83483633 ATTTTATAATTTTTTA-TATTTCTATAT
1 ATTTTATAA-TTTTTACGATTTCTATAT
*
83483660 ATTTTATAATTTTTACGATTTTTATAT
1 ATTTTATAATTTTTACGATTTCTATAT
83483687 ATTTT
1 ATTTT
83483692 TCTTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (27 bp):
ATTTTATAATTTTTACGATTTCTATAT
Found at i:83483699 original size:19 final size:18
Alignment explanation
Indices: 83483651--83483701 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
83483641 ATTTTTTATA
83483651 TTTCTATATATTTTATAATT
1 TTTCT-TAT-TTTTATAATT
*
83483671 TTTAC-GATTTTTATATATT
1 TTT-CTTATTTTTATA-ATT
83483690 TTTCTTATTTTT
1 TTTCTTATTTTT
83483702 TTCTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 8 0.31
19 14 0.54
20 3 0.12
21 1 0.04
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTATTTTTATAATT
Found at i:83490352 original size:13 final size:13
Alignment explanation
Indices: 83490334--83490377 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
83490324 TATTAAATAA
83490334 TAAAATATCTAAT
1 TAAAATATCTAAT
*
83490347 TAAAATATCTTAT
1 TAAAATATCTAAT
83490360 TAAAATAT-TAA-
1 TAAAATATCTAAT
83490371 TAAAATA
1 TAAAATA
83490378 ATATTTATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 7 0.24
12 2 0.07
13 20 0.69
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAATATCTAAT
Found at i:83502517 original size:210 final size:209
Alignment explanation
Indices: 83502108--83502731 Score: 960
Period size: 210 Copynumber: 3.0 Consensus size: 209
83502098 AGATCATGTT
* *
83502108 ATTTGTATCCCTTTTCACATAATTTTATCATGTTTAATAGTAAAATTTAGTCAATTCAGTAATAA
1 ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTCAGTAATAA
* *
83502173 TTTATGTTTTTATAGTTTAAGTAGTCAATTTATGGTTTTTAGTAGTTTTGTGGTATTTGATATCT
66 TTTATGTTTTTATAGTTTAAGTAGTCAATTTATGATTTTTAGTAGTTTTATGGTATTTGATATCT
* * * * **
83502238 AAATAAGGTTATCTGGTTAGGTAGGATAGATCAAGAGCCAAAAATGCAACTTTAGGCTGAAATTT
131 AAATAAGGTTATGTGGTTACGTAGGATAGATCGAGAGCCAAAGATGCAACTTCGGGCTGAAATTT
**
83502303 TTGCCAATGTTGCA
196 TTGCCAATGTCACA
*
83502317 ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTTAGTAATAA
1 ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTCAGTAATAA
* * *
83502382 TTTATGTTTTTTATAGTTTAAGTAGTCAACTTATGATTTTTAATAGTTTTATGGCATTTGATATC
66 TTTATG-TTTTTATAGTTTAAGTAGTCAATTTATGATTTTTAGTAGTTTTATGGTATTTGATATC
* * * *
83502447 TAAATAAGGTTATGTGGTTACGTAGGACATATCGAGAGCCAAAGATGCAACTTCGGGCTCAAAAT
130 TAAATAAGGTTATGTGGTTACGTAGGATAGATCGAGAGCCAAAGATGCAACTTCGGGCTGAAATT
*
83502512 TTTGCCAATGTCACG
195 TTTGCCAATGTCACA
*
83502527 ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTCAGTAATAT
1 ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTCAGTAATAA
*
83502592 TTTATGTTTTTATAGTTTAAGTAGTTAATTTATGATTTTTTTAGTAGTTTTATGGTATTTGATAT
66 TTTATGTTTTTATAGTTTAAGTAGTCAATTTATGA--TTTTTAGTAGTTTTATGGTATTTGATAT
* ** * * *
83502657 CTAAATAAGGTTATGTGATTATATAGGATAGATCGGGAGCCAAAGATGCAATTTCGAGCTGAAAT
129 CTAAATAAGGTTATGTGGTTACGTAGGATAGATCGAGAGCCAAAGATGCAACTTCGGGCTGAAAT
83502722 TTTTGCCAAT
194 TTTTGCCAAT
83502732 ATTACGACCA
Statistics
Matches: 375, Mismatches: 37, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
209 95 0.25
210 189 0.50
211 91 0.24
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (209 bp):
ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTCAGTAATAA
TTTATGTTTTTATAGTTTAAGTAGTCAATTTATGATTTTTAGTAGTTTTATGGTATTTGATATCT
AAATAAGGTTATGTGGTTACGTAGGATAGATCGAGAGCCAAAGATGCAACTTCGGGCTGAAATTT
TTGCCAATGTCACA
Found at i:83507252 original size:2 final size:2
Alignment explanation
Indices: 83507245--83507279 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
83507235 ATATGCTATC
83507245 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
83507280 CTACAACCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:83509508 original size:36 final size:36
Alignment explanation
Indices: 83509461--83509532 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
83509451 TCTCGTAATA
83509461 CTAGGCTAAGATGTTGTTTTACAATGATTTTAACTT
1 CTAGGCTAAGATGTTGTTTTACAATGATTTTAACTT
*
83509497 CTAGGCTAAGATGTTGTTTTACAGTGATTTTAACTT
1 CTAGGCTAAGATGTTGTTTTACAATGATTTTAACTT
83509533 ATTTTGATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.44
Consensus pattern (36 bp):
CTAGGCTAAGATGTTGTTTTACAATGATTTTAACTT
Found at i:83510755 original size:6 final size:6
Alignment explanation
Indices: 83510744--83510774 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
83510734 GCAAGTTTCC
*
83510744 ATTTTT ATTTTT ATTTTT ATTTTC ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
83510775 GAAACCTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:83513298 original size:16 final size:16
Alignment explanation
Indices: 83513279--83513309 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
83513269 GGATGCAATT
83513279 GAATAGAGCTGTAATA
1 GAATAGAGCTGTAATA
83513295 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
83513310 CAACAATCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (16 bp):
GAATAGAGCTGTAATA
Found at i:83513510 original size:14 final size:14
Alignment explanation
Indices: 83513474--83513514 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
83513464 GTTATTAAAT
*
83513474 TTTAAT-AAAATTA
1 TTTAATAAAAATAA
*
83513487 -TTATTAAAAATAA
1 TTTAATAAAAATAA
83513500 TTTAATAAAAATAA
1 TTTAATAAAAATAA
83513514 T
1 T
83513515 AAATAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 4 0.17
13 6 0.26
14 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAATAAAAATAA
Found at i:83513544 original size:58 final size:57
Alignment explanation
Indices: 83513473--83513614 Score: 160
Period size: 58 Copynumber: 2.5 Consensus size: 57
83513463 TGTTATTAAA
* *
83513473 TTTTAATAAAATTATTATTAAA-AATAATTTAATAAAAATAATAAATAATTTAACCATT
1 TTTTAACAAAATTATTATTAAATAA-AACTTAAT-AAAATAATAAATAATTTAACCATT
* * ** *
83513531 TTTTAACATAATTATTATTAAATAAAACTTAATAAAATAATATATAATTTAATAAAAT
1 TTTTAACAAAATTATTATTAAATAAAACTTAATAAAATAATAAATAATTTAA-CCATT
* * *
83513589 TTTTAATACAATTATTATTATATAAA
1 TTTTAACAAAATTATTATTAAATAAA
83513615 TTAAAAAATC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
57 18 0.25
58 52 0.72
59 2 0.03
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (57 bp):
TTTTAACAAAATTATTATTAAATAAAACTTAATAAAATAATAAATAATTTAACCATT
Found at i:83533546 original size:36 final size:36
Alignment explanation
Indices: 83533505--83533577 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
83533495 TTTATGTGTT
83533505 TAATTTTTAATTCGTTTAATAATATATTTTTATTCC
1 TAATTTTTAATTCGTTTAATAATATATTTTTATTCC
*
83533541 TAATTTTTAATTTGTTTAATAATATATTTTTATTCC
1 TAATTTTTAATTCGTTTAATAATATATTTTTATTCC
83533577 T
1 T
83533578 TATAAAGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (36 bp):
TAATTTTTAATTCGTTTAATAATATATTTTTATTCC
Found at i:83533593 original size:39 final size:36
Alignment explanation
Indices: 83533513--83533593 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
83533503 TTTAATTTTT
* *** *
83533513 AATTCGTTTAATAATATATTTTTATTCCTAATTTTT
1 AATTTGTTTAATAATATATTTTTATTCCTAAAAGTA
83533549 AATTTGTTTAATAATATATTTTTATTCCTTATAAAGTA
1 AATTTGTTTAATAATATATTTTTATTCC-TA-AAAGTA
83533587 ATATTTG
1 A-ATTTG
83533594 AATTATTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 27 0.73
37 2 0.05
38 3 0.08
39 5 0.14
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (36 bp):
AATTTGTTTAATAATATATTTTTATTCCTAAAAGTA
Found at i:83535655 original size:18 final size:18
Alignment explanation
Indices: 83535615--83535656 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
83535605 ACACCCTGCT
**
83535615 TATATATACATGTATTGA
1 TATATATACATGTATACA
*
83535633 AATATATACATGTATACA
1 TATATATACATGTATACA
83535651 TATATA
1 TATATA
83535657 AGCAGGGGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (18 bp):
TATATATACATGTATACA
Found at i:83545096 original size:48 final size:48
Alignment explanation
Indices: 83545017--83545288 Score: 289
Period size: 48 Copynumber: 5.7 Consensus size: 48
83545007 GTGTGCACTC
* * *
83545017 GTGTAAGACCATATCTGGGACATGGCGTCGGCCACAATATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCA
* * * * * * *
83545065 GTGTAAGACCATGTTTGGAACATTGCATCGGCAATGTTGTGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCA
* * *
83545113 GTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGATATGTGCGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCCA
* * * **
83545161 GTGTAAGACCATGTTTGGGACATGGCATCGG-CATTC-AGACGAGAGTTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCA--CGATATGAGAGCCA
* * * *
83545209 GTGTAAGACTATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCA
*
83545257 GTGTAAGACCATGTTTGGGACATGGCATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
83545289 AATTTGCCCT
Statistics
Matches: 184, Mismatches: 36, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
47 2 0.01
48 179 0.97
49 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCA
Found at i:83545189 original size:96 final size:97
Alignment explanation
Indices: 83545017--83545292 Score: 371
Period size: 96 Copynumber: 2.9 Consensus size: 97
83545007 GTGTGCACTC
* * * *
83545017 GTGTAAGACCATATCTGGGACATGGCGTCGGCCA-CAATATGAGAGCCAGTGTAAGACCATGTTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGATATGTGAGCCAGTGTAAGACCATGTTT
* * * *
83545081 GGAACATTGCATCGGCAATGT-TG-TGAGAGCCA
65 GGGACATGGCATCGGCAAT-TCAGACGAGAGCCA
* *
83545113 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGCGCTAGTGTAAGACCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTTG
**
83545178 GGACATGGCATCGGC-ATTCAGACGAGAGTTA
66 GGACATGGCATCGGCAATTCAGACGAGAGCCA
* * *
83545209 GTGTAAGACTATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTTTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTTG
83545274 GGACATGGCATCGGCAATT
66 GGACATGGCATCGGCAATT
83545293 TGCCCTCTTG
Statistics
Matches: 159, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
94 1 0.01
95 5 0.03
96 150 0.94
97 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (97 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCCAGTGTAAGACCATGTTTG
GGACATGGCATCGGCAATTCAGACGAGAGCCA
Found at i:83554065 original size:48 final size:48
Alignment explanation
Indices: 83553993--83554302 Score: 212
Period size: 48 Copynumber: 6.5 Consensus size: 48
83553983 CTAGTATAAG
*
83553993 ACCATGTCTAGGACATGGCGTCAGCCACAATATGAGAGCCAGTGTAAA
1 ACCATGTCTAGGACATGGCATCAGCCACAATATGAGAGCCAGTGTAAA
* * * *** * *
83554041 ACCATGTTTAGAACATGGCATCAGCAATGTTGTGAGAGCCAGTGTAAG
1 ACCATGTCTAGGACATGGCATCAGCCACAATATGAGAGCCAGTGTAAA
*** * * * * *
83554089 ACCATGTCT-GGAACATGGCATCAGTGTCGATTTGTGTA-CTAGTGTAAG
1 ACCATGTCTAGG-ACATGGCATCAGCCACAATATGAG-AGCCAGTGTAAA
* * * * *
83554137 ACCATGTCTGGGACACGGCGTTAGCCACATTATGAGAGCCAGTGTAAA
1 ACCATGTCTAGGACATGGCATCAGCCACAATATGAGAGCCAGTGTAAA
* ** * * * *
83554185 ACCATATCTAGGACATGGCATCAG-CATTGAGACGAGAGCTAGTGTAAG
1 ACCATGTCTAGGACATGGCATCAGCCA-CAATATGAGAGCCAGTGTAAA
* * ** * * * * *
83554233 ACCATGTCTGGGACATGGTATTGGCCTCGACATGTGAGCCAGTGTAAG
1 ACCATGTCTAGGACATGGCATCAGCCACAATATGAGAGCCAGTGTAAA
* *
83554281 ACTATGTCTGGGACATGGCATC
1 ACCATGTCTAGGACATGGCATC
83554303 GGTAATTTGC
Statistics
Matches: 199, Mismatches: 57, Indels: 12
0.74 0.21 0.04
Matches are distributed among these distances:
47 4 0.02
48 191 0.96
49 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
ACCATGTCTAGGACATGGCATCAGCCACAATATGAGAGCCAGTGTAAA
Found at i:83554173 original size:96 final size:95
Alignment explanation
Indices: 83554073--83554302 Score: 248
Period size: 96 Copynumber: 2.4 Consensus size: 95
83554063 AGCAATGTTG
** *** *
83554073 TGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGTGTCGATTTGTGTA-CTAGTGTAAG
1 TGAGAGCCAGTGTAAGACCATGTCTGG-ACATGGCATCAGCATCGAGACGAG-AGCTAGTGTAAG
* *
83554137 ACCATGTCTGGGACACGGCGTTAGCCAC-ATTA
64 ACCATGTCTGGGACACGGCATTAGCCACGA-CA
* * *
83554169 TGAGAGCCAGTGTAAAACCATATCTAGGACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCT-GGACATGGCATCAGCATCGAGACGAGAGCTAGTGTAAGA
* * * *
83554234 CCATGTCTGGGACATGGTATTGGCCTCGACA
65 CCATGTCTGGGACACGGCATTAGCCACGACA
* *
83554265 TGTGAGCCAGTGTAAGACTATGTCTGGGACATGGCATC
1 TGAGAGCCAGTGTAAGACCATGTCT-GGACATGGCATC
83554303 GGTAATTTGC
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
95 1 0.01
96 107 0.96
97 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (95 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGACATGGCATCAGCATCGAGACGAGAGCTAGTGTAAGAC
CATGTCTGGGACACGGCATTAGCCACGACA
Found at i:83554243 original size:144 final size:144
Alignment explanation
Indices: 83553983--83554250 Score: 403
Period size: 144 Copynumber: 1.9 Consensus size: 144
83553973 GATGTGTGCG
* *
83553983 CTAGTATAAGACCATGTCTAGGACATGGCGTCAGCCACAATATGAGAGCCAGTGTAAAACCATGT
1 CTAGTATAAGACCATGTCTAGGACACGGCGTCAGCCACAATATGAGAGCCAGTGTAAAACCATAT
* * *
83554048 TTAGAACATGGCATCAGCAATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAG
66 CTAGAACATGGCATCAGCAATGTAGCGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAG
83554113 TGTCGATTTGTGTA
131 TGTCGATTTGTGTA
* * * *
83554127 CTAGTGTAAGACCATGTCTGGGACACGGCGTTAGCCACATTATGAGAGCCAGTGTAAAACCATAT
1 CTAGTATAAGACCATGTCTAGGACACGGCGTCAGCCACAATATGAGAGCCAGTGTAAAACCATAT
* * * *
83554192 CTAGGACATGGCATCAGCATTG-AGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGG
66 CTAGAACATGGCATCAGCAATGTAG-CGAGAGCCAGTGTAAGACCATGTCTGGAACATGG
83554251 TATTGGCCTC
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
143 1 0.01
144 109 0.99
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (144 bp):
CTAGTATAAGACCATGTCTAGGACACGGCGTCAGCCACAATATGAGAGCCAGTGTAAAACCATAT
CTAGAACATGGCATCAGCAATGTAGCGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAG
TGTCGATTTGTGTA
Found at i:83554277 original size:144 final size:144
Alignment explanation
Indices: 83553989--83554295 Score: 393
Period size: 144 Copynumber: 2.1 Consensus size: 144
83553979 TGCGCTAGTA
* * * *
83553989 TAAGACCATGTCTAGGACATGGCGTCAGCCACAATATGAGAGCCAGTGTAAAACCATGTTTAGAA
1 TAAGACCATGTCTGGGACACGGCGTCAGCCACAATATGAGAGCCAGTGTAAAACCATATCTAGAA
* * **
83554054 CATGGCATCAGCAATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGTGTCGA
66 CATGGCATCAGCAATGTAGCGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGA
** *
83554119 TTTGTGTACTAGTG
131 CATGTGTACCAGTG
* * *
83554133 TAAGACCATGTCTGGGACACGGCGTTAGCCACATTATGAGAGCCAGTGTAAAACCATATCTAGGA
1 TAAGACCATGTCTGGGACACGGCGTCAGCCACAATATGAGAGCCAGTGTAAAACCATATCTAGAA
* * * * **
83554198 CATGGCATCAGCATTG-AGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGTATTGGCCTCG
66 CATGGCATCAGCAATGTAG-CGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCG
83554262 ACATGTG-AGCCAGTG
130 ACATGTGTA-CCAGTG
*
83554277 TAAGACTATGTCTGGGACA
1 TAAGACCATGTCTGGGACA
83554296 TGGCATCGGT
Statistics
Matches: 140, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
143 2 0.01
144 138 0.99
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (144 bp):
TAAGACCATGTCTGGGACACGGCGTCAGCCACAATATGAGAGCCAGTGTAAAACCATATCTAGAA
CATGGCATCAGCAATGTAGCGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGA
CATGTGTACCAGTG
Found at i:83554779 original size:59 final size:58
Alignment explanation
Indices: 83554687--83554862 Score: 273
Period size: 59 Copynumber: 3.0 Consensus size: 58
83554677 CTTTTTCATT
* * *
83554687 TTCTTATAGTGCCACCAAGTCAGTACCGAGGATCAAGGGACTTCGGAGACATCGATCAC
1 TTCTTATAGTG-CAGCAAGTTAGTACCGGGGATCAAGGGACTTCGGAGACATCGATCAC
83554746 TTCTTATAGTGCTAGCAAGTTAGTACCGGGGATCAAGGGACTTCGGAGACATCGATCAC
1 TTCTTATAGTGC-AGCAAGTTAGTACCGGGGATCAAGGGACTTCGGAGACATCGATCAC
*
83554805 TTCTTATAGTGCCGCCAAGTTAGTACCGGGGATCAAGGGA-TGTCGGAGACATCGATCA
1 TTCTTATAGTGCAG-CAAGTTAGTACCGGGGATCAAGGGACT-TCGGAGACATCGATCA
83554863 AACTATCACC
Statistics
Matches: 110, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
58 3 0.03
59 107 0.97
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (58 bp):
TTCTTATAGTGCAGCAAGTTAGTACCGGGGATCAAGGGACTTCGGAGACATCGATCAC
Found at i:83563016 original size:13 final size:13
Alignment explanation
Indices: 83562998--83563024 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
83562988 AAAGTAATCG
83562998 CACACGGGCGTGT
1 CACACGGGCGTGT
83563011 CACACGGGCGTGT
1 CACACGGGCGTGT
83563024 C
1 C
83563025 CCTGCGGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:83570286 original size:37 final size:37
Alignment explanation
Indices: 83570227--83570372 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
83570217 AGCTCAGACG
* * *
83570227 AAATCACCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
83570264 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
83570301 TAATCTCCACACGTAGTCATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
83570338 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
83570373 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:83570576 original size:50 final size:50
Alignment explanation
Indices: 83570522--83570619 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
83570512 CATTGCCTAC
*
83570522 ATATTTCACACTAG-CCATTCGGCTTTACCACCTATACATATCTCATATAT
1 ATATTTCACA-TAGACCATTCGGCTTTACCACATATACATATCTCATATAT
* *
83570572 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
1 ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATAT
83570620 TCACCCCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 2 0.05
50 42 0.95
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (50 bp):
ATATTTCACATAGACCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:83570679 original size:47 final size:46
Alignment explanation
Indices: 83570577--83570769 Score: 221
Period size: 47 Copynumber: 4.1 Consensus size: 46
83570567 TATATATATT
* * * *
83570577 TCACATTGACCATTCGGCTTTA-CCACATATGCATATCTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCCACATATGCAT-GCTCACATTCA
* *
83570623 CCCCATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATC-CACATATGCATGCTCACATTCA
* * *
83570670 TCATATTGGCCATTCGGCCTTATCGCATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATC-CACATATGCATGCTCACATTCA
*
83570717 TCACATTGGCCATTCGGCCTTATCTCATATATACGCAT--TCACATTCA
1 TCACATTGGCCATTCGGCCTTATC-CACATAT--GCATGCTCACATTCA
83570764 TCACAT
1 TCACAT
83570770 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
46 18 0.14
47 96 0.74
48 11 0.09
49 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCCACATATGCATGCTCACATTCA
Found at i:83574886 original size:40 final size:40
Alignment explanation
Indices: 83574854--83575112 Score: 401
Period size: 40 Copynumber: 6.5 Consensus size: 40
83574844 CCAGCATCAT
* * * *
83574854 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
83574894 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
83574934 TGCTCTTTGGAACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
83574974 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
83575014 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
83575054 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
83575094 TGCTCTTCGGGACTTAGCC
1 TGCTCTTCGGGACTTAGCC
83575113 TGGGTATATC
Statistics
Matches: 201, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 201 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:83576432 original size:37 final size:37
Alignment explanation
Indices: 83576391--83576531 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
83576381 AGCTCAGACG
* *
83576391 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
83576428 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
83576465 TAATCTCCACACGTAGTCA---GGTCTTA-CCGGAC-
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
83576497 ATATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
83576532 ATATATTTCC
Statistics
Matches: 95, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
32 17 0.18
33 6 0.06
34 7 0.07
35 7 0.07
36 5 0.05
37 53 0.56
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:83576759 original size:49 final size:50
Alignment explanation
Indices: 83576681--83576777 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 50
83576671 CATCGCCTAC
83576681 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
83576731 ATATTTCACATTA-CCATTCGGCTTTACCACATATGCATATCTCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
83576778 TCACCACATT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 33 0.73
50 12 0.27
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (50 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:83576834 original size:47 final size:47
Alignment explanation
Indices: 83576736--83576927 Score: 237
Period size: 47 Copynumber: 4.1 Consensus size: 47
83576726 TATATATATT
* * * *
83576736 TCACATT-ACCATTCGGCTTTA-C-CACATATGCATATCTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTCACATTCA
*
83576781 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
83576828 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * * ***
83576875 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
83576922 TCACAT
1 TCACAT
83576928 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 6 0.05
46 12 0.09
47 103 0.78
48 11 0.08
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:83576854 original size:22 final size:22
Alignment explanation
Indices: 83576827--83576898 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
83576817 GCTCACATTC
83576827 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
83576849 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
83576873 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
83576896 ATC
1 ATC
83576899 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:83584920 original size:43 final size:43
Alignment explanation
Indices: 83584859--83585026 Score: 241
Period size: 43 Copynumber: 4.0 Consensus size: 43
83584849 AATGTGACAT
*
83584859 TCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
*
83584902 TCGGGCTTCGAGCCTAGCAGGCTATAATGCTGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
** * * * *
83584945 TCTAGCTTTGGGCCTAGTAGGCTATAATACCGGTGAGATGATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
*
83584988 TCGGGCTTCGAGCCTAGCAGGCGA-AATGCCGGTGA-ATGA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGA
83585027 GTTCAGACTT
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
41 4 0.04
42 10 0.09
43 95 0.87
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATA
Found at i:83585616 original size:16 final size:18
Alignment explanation
Indices: 83585584--83585617 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
83585574 CAACTCGTCA
83585584 TACTATCTATCGTTTTGG
1 TACTATCTATCGTTTTGG
83585602 TACTAT-TAT-GTTTTGG
1 TACTATCTATCGTTTTGG
83585618 AATTCGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (18 bp):
TACTATCTATCGTTTTGG
Found at i:83590253 original size:39 final size:38
Alignment explanation
Indices: 83590168--83590353 Score: 214
Period size: 39 Copynumber: 4.7 Consensus size: 38
83590158 ACTACTTGCT
*
83590168 CAAATGCCTTCGGGACTT-GACCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTA-A-TAACTCGCA
83590208 CAAATGCCTTCGGGACTTAGCCCGGTTCAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-AATAACTCGCA
*
83590247 CCAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-T-TAATAACTCGCA
* * * * *
83590287 CAATTGCCTTCGGG-TTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG--TTAATAACTCGCA
*
83590326 CAAATTCCTTCGGGACTTAGCCCGGTTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA
83590354 TCATCCGAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 3 0.02
39 63 0.49
40 60 0.47
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTAATAACTCGCA
Found at i:83590282 original size:79 final size:78
Alignment explanation
Indices: 83590168--83590350 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 78
83590158 ACTACTTGCT
* * *
83590168 CAAATGCCTTCGGGACTT-GACCCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAG-CCCGGATATAATAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
*
83590232 G-TTCAATAACTCGCA
64 GATT-AATAACTAGCA
* * *
83590247 CCAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTGCCTTCGGGTTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGCTTAGCCCGG-
* *
83590312 ATTAGTCACTAGCA
65 ATTAATAACTAGCA
*
83590326 CAAATTCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
83590351 TTATCATCCG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 9 0.10
79 78 0.87
80 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
TTAATAACTAGCA
Found at i:83593728 original size:27 final size:27
Alignment explanation
Indices: 83593565--83593737 Score: 204
Period size: 27 Copynumber: 6.4 Consensus size: 27
83593555 TGGATAAGTT
** *
83593565 GTAGAATTACTAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
83593592 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
83593619 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
83593646 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
83593673 ATAGAAATACTGAAATACTCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
83593700 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
83593727 GTA-AAGTTACC
1 GTAGAA-TTACC
83593738 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.02
27 123 0.98
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:83594426 original size:27 final size:26
Alignment explanation
Indices: 83594388--83594439 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
83594378 CTCGCTGCAA
*
83594388 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
83594415 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
83594440 GCAACCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:83600741 original size:27 final size:27
Alignment explanation
Indices: 83600707--83600878 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
83600697 TGGATAAGTT
* *
83600707 GTAGAATTACTAAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
83600734 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
83600761 GTAGAATTA-TCGAAATACCCCTATAGG
1 GTAGAATTACT-GAAATACCCCTGTAGG
* * *
83600788 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
83600815 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * ** *
83600842 GTAGAATTACCGAGATACCGTTGTGGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
83600869 GTAAAATTAC
1 GTAGAATTAC
83600879 CATTTTGCCC
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:83600843 original size:81 final size:81
Alignment explanation
Indices: 83600708--83600860 Score: 234
Period size: 81 Copynumber: 1.9 Consensus size: 81
83600698 GGATAAGTTG
* * *
83600708 TAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCG
83600773 AAATACCCCTATAGGA
66 AAATACCCCTATAGGA
* * * *
83600789 TAGAATTACCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCG
*
83600854 AGATACC
66 AAATACC
83600861 GTTGTGGGGT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (81 bp):
TAGAATTACCAAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCG
AAATACCCCTATAGGA
Found at i:83600871 original size:54 final size:54
Alignment explanation
Indices: 83600707--83600875 Score: 225
Period size: 54 Copynumber: 3.1 Consensus size: 54
83600697 TGGATAAGTT
* * * *
83600707 GTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * *
83600761 GTAGAATTA-TCGAAATACCCCTATAGGATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAAATACT-GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
* * *
83600815 GTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCGTTGTGGG
1 GTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
83600869 GTA-AAAT
1 GTAGAAAT
83600876 TACCATTTTG
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
53 5 0.05
54 96 0.94
55 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (54 bp):
GTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:83605193 original size:24 final size:24
Alignment explanation
Indices: 83605148--83605194 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
83605138 ATAGAAACAA
* *
83605148 ACGTAACAATAGATGAAGCCACTG
1 ACGTAAAAATAGAAGAAGCCACTG
83605172 ACGTAAAAATAGAAGTAA-CCACT
1 ACGTAAAAATAGAAG-AAGCCACT
83605195 AACATAGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (24 bp):
ACGTAAAAATAGAAGAAGCCACTG
Found at i:83607462 original size:21 final size:21
Alignment explanation
Indices: 83607436--83607526 Score: 119
Period size: 21 Copynumber: 4.3 Consensus size: 21
83607426 AAAGCTCGAA
* *
83607436 AGCTGAACAGAAGCTTATAAG
1 AGCTGAATAGAAGCTCATAAG
* *
83607457 AGCTGAATAGAAACTCGTAAG
1 AGCTGAATAGAAGCTCATAAG
*
83607478 AGCTAAATAGAAGCTCATAAG
1 AGCTGAATAGAAGCTCATAAG
**
83607499 AGCTGAATAGAAGCTTGTAAG
1 AGCTGAATAGAAGCTCATAAG
83607520 AGCTGAA
1 AGCTGAA
83607527 CAAAAAGTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (21 bp):
AGCTGAATAGAAGCTCATAAG
Found at i:83607503 original size:42 final size:42
Alignment explanation
Indices: 83607444--83607523 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
83607434 AAAGCTGAAC
*
83607444 AGAAGCTTATAAGAGCTGAATAGAAACTCGTAAGAGCTAAAT
1 AGAAGCTCATAAGAGCTGAATAGAAACTCGTAAGAGCTAAAT
* *
83607486 AGAAGCTCATAAGAGCTGAATAGAAGCTTGTAAGAGCT
1 AGAAGCTCATAAGAGCTGAATAGAAACTCGTAAGAGCT
83607524 GAACAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (42 bp):
AGAAGCTCATAAGAGCTGAATAGAAACTCGTAAGAGCTAAAT
Found at i:83610891 original size:17 final size:18
Alignment explanation
Indices: 83610861--83610894 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
83610851 TGTGACGATG
*
83610861 CTTCAACGATCTTCCAAC
1 CTTCAACGAGCTTCCAAC
83610879 CTTC-ACGAGCTTCCAA
1 CTTCAACGAGCTTCCAA
83610895 GCACTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.38, G:0.09, T:0.26
Consensus pattern (18 bp):
CTTCAACGAGCTTCCAAC
Found at i:83614032 original size:15 final size:15
Alignment explanation
Indices: 83614012--83614049 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
83614002 AAGGCCATGT
83614012 ATCACACGTGATCGA
1 ATCACACGTGATCGA
83614027 ATCACACGTGATCGA
1 ATCACACGTGATCGA
83614042 ATCACACG
1 ATCACACG
83614050 CCCGTGTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.18
Consensus pattern (15 bp):
ATCACACGTGATCGA
Found at i:83615089 original size:47 final size:47
Alignment explanation
Indices: 83615030--83615161 Score: 151
Period size: 47 Copynumber: 2.8 Consensus size: 47
83615020 TCTAAATTGA
* * *
83615030 TAAGTACATATACCATGACCCGTAGCCAAATCAAGGTAACTTATCTC
1 TAAGTACCTATACCATGACTCGTAGCCAAATCAAGGTAACTCATCTC
* *
83615077 -AGAGTACCTATACCAT-AGCTCGTAGCCAAATTAAGGTAACTCCTCTC
1 TA-AGTACCTATACCATGA-CTCGTAGCCAAATCAAGGTAACTCATCTC
* * **
83615124 TAAATACCTATACCATGTCTTATAGCCAAATCAAGGTA
1 TAAGTACCTATACCATGACTCGTAGCCAAATCAAGGTA
83615162 TTATTCGCAC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
46 2 0.03
47 68 0.96
48 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.27
Consensus pattern (47 bp):
TAAGTACCTATACCATGACTCGTAGCCAAATCAAGGTAACTCATCTC
Found at i:83619952 original size:120 final size:121
Alignment explanation
Indices: 83619790--83620011 Score: 313
Period size: 122 Copynumber: 1.8 Consensus size: 121
83619780 CACAATAACA
* **
83619790 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAAT-CTCAATTTAACACGGAATG
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATACTCAATTTAACACAAAATG
* *
83619854 TATGATAACTAACTTACGAATGCAAATTAAATGATATACATTGGTATGGTAATAGC
66 TATGATAACTAACCTAAGAATGCAAATTAAATGATATACATTGGTATGGTAATAGC
* * ** **
83619910 ATGAGAATAA-ACATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTATTACAAAA
1 ATGAGAATAAGA-ATAGAAATGTAATGGGTATGAGGTGTTCCTAAT-ACTCAATTTAACACAAAA
83619974 TGTATGATAACTAACCTAAGAATGCAAATTAAATGATA
64 TGTATGATAACTAACCTAAGAATGCAAATTAAATGATA
83620012 GAAAATGAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
119 1 0.01
120 40 0.45
122 47 0.53
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (121 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATACTCAATTTAACACAAAATG
TATGATAACTAACCTAAGAATGCAAATTAAATGATATACATTGGTATGGTAATAGC
Found at i:83620511 original size:55 final size:55
Alignment explanation
Indices: 83620451--83620574 Score: 140
Period size: 55 Copynumber: 2.3 Consensus size: 55
83620441 TTAATTTAAT
* * * * *
83620451 AGGTTCGACCATGGGTGTTTCACACGGGTGTGTCGAACGCCCATGTTGTTTTGGC
1 AGGTTCGACCACGGGTCTTCCACACGAGCGTGTCGAACGCCCATGTTGTTTTGGC
* * * * *
83620506 AGGTTCGCCCACGGTTCTTCCATACGAGCGTGTCGCACGCCCGTGTTGTTTTGGC
1 AGGTTCGACCACGGGTCTTCCACACGAGCGTGTCGAACGCCCATGTTGTTTTGGC
* *
83620561 AGGCTCAACCACGG
1 AGGTTCGACCACGG
83620575 CCATATCTCA
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (55 bp):
AGGTTCGACCACGGGTCTTCCACACGAGCGTGTCGAACGCCCATGTTGTTTTGGC
Found at i:83632292 original size:28 final size:28
Alignment explanation
Indices: 83632272--83632337 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
83632262 TTTCGCTTAT
*
83632272 TAAGTGCCATTCTCAATATTTTGCACAC
1 TAAGTGCCATTCTCAATATTTCGCACAC
* *
83632300 TAAGTGTCATTCTCAATATTTCCCACAC
1 TAAGTGCCATTCTCAATATTTCGCACAC
*
83632328 TAAGTTCCAT
1 TAAGTGCCAT
83632338 ATTTGATGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (28 bp):
TAAGTGCCATTCTCAATATTTCGCACAC
Found at i:83632417 original size:40 final size:40
Alignment explanation
Indices: 83632373--83632451 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
83632363 TGTACATAGC
* *
83632373 TGAAGCTATCTCAAATCGCACACTAAGTGCCAAATTTAGT
1 TGAAGCTATATCAAACCGCACACTAAGTGCCAAATTTAGT
* *
83632413 TGAAGCTATATCGAACCGCACACTAAGTGCCATATTTAG
1 TGAAGCTATATCAAACCGCACACTAAGTGCCAAATTTAG
83632452 CCGATATGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (40 bp):
TGAAGCTATATCAAACCGCACACTAAGTGCCAAATTTAGT
Found at i:83641047 original size:18 final size:18
Alignment explanation
Indices: 83641010--83641051 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
83641000 AAGTCAAATT
83641010 GGGCAGTGTGGGCCACAC
1 GGGCAGTGTGGGCCACAC
*
83641028 GGGC-GTGTGGGCCCATAC
1 GGGCAGTGTGGG-CCACAC
83641046 GGGCAG
1 GGGCAG
83641052 GGCACACGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 13 0.62
19 1 0.05
ACGTcount: A:0.14, C:0.26, G:0.48, T:0.12
Consensus pattern (18 bp):
GGGCAGTGTGGGCCACAC
Found at i:83647520 original size:45 final size:45
Alignment explanation
Indices: 83647466--83647561 Score: 183
Period size: 45 Copynumber: 2.1 Consensus size: 45
83647456 TTCTCTGTCG
*
83647466 TTTCTTCCTCTTCCAAACCCTTGCTACTGAAATTCTTTTCTTTTC
1 TTTCTTCCTCTTCCAAACCCTTGCTACCGAAATTCTTTTCTTTTC
83647511 TTTCTTCCTCTTCCAAACCCTTGCTACCGAAATTCTTTTCTTTTC
1 TTTCTTCCTCTTCCAAACCCTTGCTACCGAAATTCTTTTCTTTTC
83647556 TTTCTT
1 TTTCTT
83647562 TTTCCTTCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.15, C:0.31, G:0.04, T:0.50
Consensus pattern (45 bp):
TTTCTTCCTCTTCCAAACCCTTGCTACCGAAATTCTTTTCTTTTC
Found at i:83647585 original size:16 final size:16
Alignment explanation
Indices: 83647546--83647591 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
83647536 ACCGAAATTC
83647546 TTTTCTT-TTCTTTCT
1 TTTTCTTCTTCTTTCT
83647561 TTTTCCTTCTTC-TTCGT
1 TTTT-CTTCTTCTTTC-T
*
83647578 TTTTCTTCTCCTTT
1 TTTTCTTCTTCTTT
83647592 GATTTTCTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 12 0.46
17 10 0.38
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTCTTCTTCTTTCT
Found at i:83648712 original size:40 final size:38
Alignment explanation
Indices: 83648642--83648733 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 38
83648632 GTACCTTTTG
* ** *
83648642 GTGTGCAGGGTTGGATGGGTTGATTATATCCCCACACTT
1 GTGTGTAGGGTTGGATGGGTCAATTATATCCCCACA-TA
* *
83648681 GATGTGTAGGGTTGGGTGGGTCAATTCTATCCCCACATA
1 G-TGTGTAGGGTTGGATGGGTCAATTATATCCCCACATA
*
83648720 GTGTGTTGGGTTGG
1 GTGTGTAGGGTTGG
83648734 TCGGAGATGG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 12 0.27
39 3 0.07
40 30 0.67
ACGTcount: A:0.16, C:0.15, G:0.35, T:0.34
Consensus pattern (38 bp):
GTGTGTAGGGTTGGATGGGTCAATTATATCCCCACATA
Found at i:83663653 original size:18 final size:18
Alignment explanation
Indices: 83663630--83663666 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
83663620 AACATAAATT
83663630 CATACAATTTAAGACTAA
1 CATACAATTTAAGACTAA
83663648 CATACAATTTAAGACTAA
1 CATACAATTTAAGACTAA
83663666 C
1 C
83663667 CTATGCTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (18 bp):
CATACAATTTAAGACTAA
Found at i:83664865 original size:51 final size:51
Alignment explanation
Indices: 83664733--83665293 Score: 431
Period size: 50 Copynumber: 10.9 Consensus size: 51
83664723 ATCCATTGTG
* *
83664733 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATATGTACCGGATAA-TT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
* * *
83664783 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
* * * * * **
83664833 CGATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
* *
83664883 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
* * * * * * **
83664934 CGATCACTTGTGTAGTACTAAGTGCAGGCTACGACGTGTATCAGAT-GGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
* **
83664984 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
* * * * * * * * * *
83665035 TGGCTACAAGTGTG-A-AAATATGTGTA-G-TACTAAGTGCAGGCTACTACGTGTACCGGATAAT
1 AGG-T-CACGTGTGTAGTACTAAGTGCAGGCTACT-A-TG--TG-TACCA-G-ATAAC---T--T
* * * * *
83665096 TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
* * * * * * * **
83665147 CGATTACATGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGAT-GGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
* * * **
83665197 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGAT-GGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
*
83665247 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
83665294 GCTTTGGCTA
Statistics
Matches: 404, Mismatches: 84, Indels: 45
0.76 0.16 0.08
Matches are distributed among these distances:
49 47 0.12
50 174 0.43
51 130 0.32
52 2 0.00
53 9 0.02
54 4 0.01
55 1 0.00
56 5 0.01
57 1 0.00
58 3 0.01
59 7 0.02
60 2 0.00
61 13 0.03
62 2 0.00
63 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
Found at i:83664917 original size:101 final size:101
Alignment explanation
Indices: 83664740--83665280 Score: 622
Period size: 101 Copynumber: 5.3 Consensus size: 101
83664730 GTGAGGTCAC
** * * ** * *
83664740 GTGTGTAGTACTAAGTGCAGGCTACTATATGTACCGGATAATT-GGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
*
83664804 TGCAGGCTACTATGTGTACCCGATAACTTCGATCAT
66 TGCAGGCTACTATGCGTACCCGATAACTTCGATCAT
83664840 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
83664905 TGCAGGCTACTATGCGTACCCGATAACTTCGATCACT
66 TGCAGGCTACTATGCGTACCCGATAACTTCGATCA-T
*
83664942 -TGTGTAGTACTAAGTGCAGGCTACGACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
* ** * *
83665006 TGCAGGCTACTATGCGTACCAGATAGTTTTGGCTACAAGTGT
66 TGCAGGCTACTATGCGTACCCGATA-ACTTCGAT-C-A---T
* * ** * *
83665048 GAAAATATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCATGTGTAGT
1 G------TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGT
* *
83665112 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATTAC
60 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCAT
* *
83665154 ATGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
* * * * * ** * * *
83665219 TGTAGGCTACTACGTGTATCAGAT-GGTTAGGTCAC
66 TGCAGGCTACTATGCGTACCCGATAACTTCGATCAT
83665254 GTGTGTAGTACTAAGTGCAGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
83665281 TGCGTACCAG
Statistics
Matches: 376, Mismatches: 50, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
100 105 0.28
101 178 0.47
102 5 0.01
103 1 0.00
104 1 0.00
106 1 0.00
109 1 0.00
111 4 0.01
112 43 0.11
113 37 0.10
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (101 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
TGCAGGCTACTATGCGTACCCGATAACTTCGATCAT
Found at i:83665209 original size:213 final size:214
Alignment explanation
Indices: 83664841--83665230 Score: 674
Period size: 213 Copynumber: 1.8 Consensus size: 214
83664831 TTCGATCATG
* ** *
83664841 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGTAGTACTAAGT
* *
83664906 GCAGGCTACTATGCGTACCCGATAACTTCGATCACTTGTGTAGTACTAAGTGCAGGCTACGACGT
66 GCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTACAGGCTACGACGT
83664971 GTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTT
131 GTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTT
83665036 GGCTACAAGTGTGAAAATA
196 GGCTACAAGTGTGAAAATA
* *
83665055 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGTAGTACTAAGT
* *
83665119 GCAGGCTACTATGCGTACCCGATAACTTCGATTACATGTGTAGTACTAAGTACAGGCTACTACGT
66 GCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTACAGGCTACGACGT
*
83665184 GTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTA
131 GTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
83665231 CGTGTATCAG
Statistics
Matches: 165, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
213 127 0.77
214 38 0.23
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (214 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGTAGTACTAAGT
GCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTACAGGCTACGACGT
GTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTT
GGCTACAAGTGTGAAAATA
Found at i:83665255 original size:22 final size:22
Alignment explanation
Indices: 83665180--83665257 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
83665170 ACAGGCTACT
83665180 ACGTGTATCAGATGGTTAGGTC
1 ACGTGTATCAGATGGTTAGGTC
* *
83665202 ACGTGTGT-AGTACTAAGTGTAGGCTAC
1 ACGTGTATCAG-A-T-GGT-TAGG-T-C
83665229 TACGTGTATCAGATGGTTAGGTC
1 -ACGTGTATCAGATGGTTAGGTC
83665252 ACGTGT
1 ACGTGT
83665258 GTAGTACTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.05
22 14 0.32
23 2 0.05
24 3 0.07
25 8 0.18
26 3 0.07
27 2 0.05
28 8 0.18
29 2 0.05
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (22 bp):
ACGTGTATCAGATGGTTAGGTC
Found at i:83665258 original size:263 final size:265
Alignment explanation
Indices: 83664789--83665321 Score: 775
Period size: 263 Copynumber: 2.0 Consensus size: 265
83664779 AATTGGTCGC
* **
83664789 ATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTCGATCATGTGTGTAGTACTAA
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAACTTCGATCACATGTGTAGTACTAA
* * ** * * * *
83664854 GTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATG
66 GTGCAGGCTACTACGCGTACCAGATACTTAGATCACATGTGTAGTACTAAGTACAGGCTACTACG
* * *
83664919 CGTACCCGATAACTTCGATCACTTGTGTAGTACTAAGTGCAGGCTACGACGTGTATCAGATGGTT
131 CGTACCAGATAACTTAGATCACGTGTGTAGTACTAAGTGCAGGCTACGACGTGTATCAGATGGTT
*
83664984 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTTGGCTACAAGTGTG
196 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTG
83665049 AAAAT
261 AAAAT
* * *
83665054 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCATGTGTAGTACTAA
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAACTTCGATCACATGTGTAGTACTAA
* * * *
83665117 GTGCAGGCTACTATGCGTACCCGATAACTTCGATTACATGTGTAGTACTAAGTACAGGCTACTAC
66 GTGCAGGCTACTACGCGTACCAGAT-ACTTAGATCACATGTGTAGTACTAAGTACAGGCTACTAC
* * ** * * *
83665182 GTGTATCAGAT-GGTTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGT
130 GCGTACCAGATAACTTAGATCACGTGTGTAGTACTAAGTGCAGGCTACGACGTGTATCAGATGGT
83665246 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGT
195 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGT
83665311 GAAAAT
260 GAAAAT
83665317 ATGTG
1 ATGTG
83665322 CAAGCAACTG
Statistics
Matches: 238, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
263 158 0.66
264 41 0.17
265 39 0.16
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (265 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGATAACTTCGATCACATGTGTAGTACTAA
GTGCAGGCTACTACGCGTACCAGATACTTAGATCACATGTGTAGTACTAAGTACAGGCTACTACG
CGTACCAGATAACTTAGATCACGTGTGTAGTACTAAGTGCAGGCTACGACGTGTATCAGATGGTT
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTG
AAAAT
Found at i:83669193 original size:13 final size:13
Alignment explanation
Indices: 83669154--83669187 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
83669144 TTTATGGTCT
83669154 ATGATTTCACGAA
1 ATGATTTCACGAA
83669167 ATGATTTCACGAA
1 ATGATTTCACGAA
83669180 ATGATTTC
1 ATGATTTC
83669188 TTGAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (13 bp):
ATGATTTCACGAA
Found at i:83670018 original size:101 final size:99
Alignment explanation
Indices: 83669833--83670476 Score: 576
Period size: 101 Copynumber: 6.3 Consensus size: 99
83669823 TGAGGTCATG
* * * *
83669833 TGTGTAGTACTAAGTGTAGGCTACTACATGTACTGGATAAT--TT--GTCACATGTGTAATACTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-T-CA-AATGGTTAGGTCACATGTGTAGTACTA
* * * * **
83669894 AGTGCAGGCTACTATGCGTACCCGATAACTTCGATCATG
63 AGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACA
**
83669933 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCATGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACTAAGT
* * * * * *
83669998 GCAGGCTACTATGCGCACCCGATAACTTCGATCACG
66 GCAGGCTACTACGTGTACCAGATAA-TT-GGTCACA
* * **
83670034 TGTGTAGTACTAAGTGCAGGCTACGACGTGTATCAGATGGTTAGGTCACGGGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACTAAGT
* * *
83670099 GCAGGCTACTACGTGTATCGGATAATTGGTCGCA
66 GCAGGCTACTACGTGTACCAGATAATTGGTCACA
* * * * * * *
83670133 TGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTGAAAATATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-A-A----TGG-T--TAG-GT---CACATG
* * *
83670198 TGTAGTACTAAGTGCAAGCTACTACATGTACCAGATAATTGGTCGCA
53 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACA
* * * ** ** * *
83670245 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAAT-GGTTAGGTCACATGTGTAGTACTAAG
* *
83670310 TGCAGGCTACTACGTGTATCAGATAGTTAGGTCACA
65 TGCAGGCTACTACGTGTACCAGATAATT-GGTCACA
* * *
83670346 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACTAAGT
* *
83670411 GCAGGCTACTACGTGTATCAGATAATTGGTCGCA
66 GCAGGCTACTACGTGTACCAGATAATTGGTCACA
* * *
83670445 TGTGTAATACTAAGTGCAAGCTACTATGTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA
83670477 CCAGATAGCT
Statistics
Matches: 459, Mismatches: 66, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
97 3 0.01
98 1 0.00
99 71 0.15
100 120 0.26
101 173 0.38
103 1 0.00
104 1 0.00
105 3 0.01
106 3 0.01
108 2 0.00
109 2 0.00
110 1 0.00
112 78 0.17
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAGATAATTGGTCACA
Found at i:83670307 original size:262 final size:264
Alignment explanation
Indices: 83669933--83670421 Score: 766
Period size: 262 Copynumber: 1.9 Consensus size: 264
83669923 TTCGATCATG
* * * ** **
83669933 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCATGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAAGCTACTACATGTACCAAATAATTAGGTCACATGTGTAGTACTAAGT
*
83669998 GCAGGCTACTATGCGCACCCGATAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACGACGT
66 GCAGGCTACTATGCGCACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACGACGT
* * *
83670063 GTATCAGATGGTTAGGTCACGGGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT-G
131 GTATCAGATAGTTAGGTCACAGGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTAG
*
83670127 GTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTGAA
196 GTCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTGAA
83670192 AATA
261 AATA
* *
83670196 TGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATAATT-GGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAAGCTACTACATGTACCAAATAATTAGGTCACATGTGTAGTACTAAGT
* *
83670260 GCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACTACGT
66 GCAGGCTACTATGCGCACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACGACGT
* * **
83670325 GTATCAGATAGTTAGGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAG
131 GTATCAGATAGTTAGGTCACAGGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTAG
* *
83670390 GTCACGTGTGTAGTACTAAGTGCAGGCTACTA
196 GTCACATGTGTAGTACTAAATGCAGGCTACTA
83670422 CGTGTATCAG
Statistics
Matches: 203, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
262 137 0.67
263 66 0.33
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (264 bp):
TGTGTAGTACTAAGTGCAAGCTACTACATGTACCAAATAATTAGGTCACATGTGTAGTACTAAGT
GCAGGCTACTATGCGCACCCGATAACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACGACGT
GTATCAGATAGTTAGGTCACAGGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTAG
GTCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGATAGCTTTGGCTACAAGTGTGAA
AATA
Found at i:83670367 original size:50 final size:49
Alignment explanation
Indices: 83670195--83670484 Score: 364
Period size: 50 Copynumber: 5.8 Consensus size: 49
83670185 GTGTGAAAAT
* * * *
83670195 ATGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATAATTGGTCGC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCAC
* * * * *
83670244 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT-GGTCAC
*
83670295 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GGTCAC
* * *
83670345 ATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCAC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GGTCAC
* * * *
83670395 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGC
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCAC
* * *
83670444 ATGTGTAATACTAAGTGCAAGCTACTATGTGTACCAGATAG
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
83670485 CTTTGGCTAC
Statistics
Matches: 211, Mismatches: 28, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
49 74 0.35
50 98 0.46
51 39 0.18
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (49 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCAC
Found at i:83670401 original size:100 final size:100
Alignment explanation
Indices: 83670195--83670483 Score: 409
Period size: 100 Copynumber: 2.9 Consensus size: 100
83670185 GTGTGAAAAT
* * *
83670195 ATGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACTAAGT
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCATGTGTAGTACTAAGT
* * *
83670260 GCAGGCTACTATGCGTACCCGATAACTTCGATCAC
66 GCAGGCTACTATGTGTACCAGATAACTTAGATCAC
* *
83670295 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTCACATGTGTAGTACTAAG
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCGCATGTGTAGTACTAAG
* * * ** *
83670360 TGTAGGCTACTACGTGTATCAGAT-GGTTAGGTCAC
65 TGCAGGCTACTATGTGTACCAGATAACTTAGATCAC
* *
83670395 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCATGTGTAATACTAAGT
1 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCATGTGTAGTACTAAGT
*
83670460 GCAAGCTACTATGTGTACCAGATA
66 GCAGGCTACTATGTGTACCAGATA
83670484 GCTTTGGCTA
Statistics
Matches: 165, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
99 39 0.24
100 87 0.53
101 39 0.24
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (100 bp):
ATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGTGTACCAGATAACTTAGATCAC
Found at i:83671888 original size:15 final size:15
Alignment explanation
Indices: 83671870--83671900 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83671860 TAATAAATCC
83671870 ATTATTAACCAATTT
1 ATTATTAACCAATTT
83671885 ATTATTAACCAATTT
1 ATTATTAACCAATTT
83671900 A
1 A
83671901 CATATTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATTAACCAATTT
Found at i:83675473 original size:37 final size:37
Alignment explanation
Indices: 83675415--83675522 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
83675405 TAGCTCGAAT
* *
83675415 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
* *
83675452 AATCTCCACACGTAGTCATCGGGTCTTACCCGAACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
83675489 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
83675523 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:83675721 original size:48 final size:48
Alignment explanation
Indices: 83675663--83675904 Score: 385
Period size: 48 Copynumber: 5.0 Consensus size: 48
83675653 TTATACACAC
* * *
83675663 ATCTCCTACATATTTCACATTAGTCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
83675711 ATCTCATACATACTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
**
83675759 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
83675807 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
83675855 ATCTCATACATATTTAACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
83675903 AT
1 AT
83675905 ATTTATCTTG
Statistics
Matches: 178, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 178 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:83680883 original size:15 final size:16
Alignment explanation
Indices: 83680844--83680889 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
83680834 ATCAACAAGG
*
83680844 TAAACAAGAAAAAAAAT
1 TAAACAA-AAAAAGAAT
83680861 TAAA-AAAAAAAGAA-
1 TAAACAAAAAAAGAAT
*
83680875 TAAACAAAACAAGAA
1 TAAACAAAAAAAGAA
83680890 AAAAAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 16 0.62
16 2 0.08
17 4 0.15
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.09
Consensus pattern (16 bp):
TAAACAAAAAAAGAAT
Found at i:83680895 original size:12 final size:12
Alignment explanation
Indices: 83680845--83680898 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
83680835 TCAACAAGGT
83680845 AAACAAGAAAAA
1 AAACAAGAAAAA
*
83680857 AAATTAA-AAAAA
1 AAA-CAAGAAAAA
* * *
83680869 AAAGAATAAACA
1 AAACAAGAAAAA
83680881 AAACAAGAAAAA
1 AAACAAGAAAAA
83680893 AAACAA
1 AAACAA
83680899 AGGCACTATC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 2 0.06
12 30 0.88
13 2 0.06
ACGTcount: A:0.81, C:0.07, G:0.06, T:0.06
Consensus pattern (12 bp):
AAACAAGAAAAA
Found at i:83684883 original size:24 final size:26
Alignment explanation
Indices: 83684854--83684903 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
83684844 ATTTGTTTTA
*
83684854 ATATTTG-TTT-CTATGTTTTTAAAT
1 ATATTTGATTTACTATATTTTTAAAT
*
83684878 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTGATTTACTATATTTTTAAAT
83684904 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (26 bp):
ATATTTGATTTACTATATTTTTAAAT
Found at i:83689148 original size:157 final size:157
Alignment explanation
Indices: 83688938--83689250 Score: 581
Period size: 157 Copynumber: 2.0 Consensus size: 157
83688928 GTTTTTGGAA
* *
83688938 ATGACATTGCAATGATCTGGACTTTTGTTTGCCTTCAAAAGCATTGAATTGAGATGCAAGCATGT
1 ATGACATTGCAATGATCTGGACTTCTGTTTGCCTTCAAAAGCATTGAACTGAGATGCAAGCATGT
83689003 TCTTTGAGGAAATATTTGTGAATGAAGCAAATTATGTGGTAATTGTCGTATCATTCTCTGCATCA
66 TCTTTGAGGAAATATTTGTGAATGAAGCAAATTATGTGGTAATTGTCGTATCATTCTCTGCATCA
*
83689068 TTTAGTTTGGTTAGATGTTCTCTTTAG
131 TTTAGTTTGGTTAGACGTTCTCTTTAG
*
83689095 ATGACATTGCAATGTTCTGGACTTCTGTTTGCCTTCAAAAGCATTGAACTGAGATGCAAGCATGT
1 ATGACATTGCAATGATCTGGACTTCTGTTTGCCTTCAAAAGCATTGAACTGAGATGCAAGCATGT
*
83689160 TCTTTGAGGAAATATTTGTGAATGAAGCAAATTATGTGGTAATTGTTGTATCATTCTCTGCATCA
66 TCTTTGAGGAAATATTTGTGAATGAAGCAAATTATGTGGTAATTGTCGTATCATTCTCTGCATCA
83689225 TTTAGTTTGGTTAGACGTTCTCTTTA
131 TTTAGTTTGGTTAGACGTTCTCTTTA
83689251 TATTACTCAA
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 151 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (157 bp):
ATGACATTGCAATGATCTGGACTTCTGTTTGCCTTCAAAAGCATTGAACTGAGATGCAAGCATGT
TCTTTGAGGAAATATTTGTGAATGAAGCAAATTATGTGGTAATTGTCGTATCATTCTCTGCATCA
TTTAGTTTGGTTAGACGTTCTCTTTAG
Found at i:83689965 original size:22 final size:22
Alignment explanation
Indices: 83689940--83689983 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
83689930 TAGTCATATA
83689940 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
83689962 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
83689984 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:83690019 original size:13 final size:14
Alignment explanation
Indices: 83690003--83690044 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
83689993 TTTCGATTTT
83690003 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
83690016 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
83690031 ATTTTAAATAATAT
1 ATTTT-AATAATAT
83690045 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:83690029 original size:16 final size:16
Alignment explanation
Indices: 83690007--83690043 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
83689997 GATTTTATTT
83690007 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
83690024 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
83690039 TAATA
1 TAATA
83690044 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:83690096 original size:15 final size:15
Alignment explanation
Indices: 83690076--83690133 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
83690066 ATTCAATATT
83690076 AATATTTTAATAATA
1 AATATTTTAATAATA
*
83690091 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
83690110 AATATATTAATAATA
1 AATATTTTAATAATA
*
83690125 AATGTTTTA
1 AATATTTTA
83690134 TCGTATAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:83691522 original size:16 final size:16
Alignment explanation
Indices: 83691503--83691557 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
83691493 TAACAAAGTA
83691503 TAAAAATTACATTTTT
1 TAAAAATTACATTTTT
* *
83691519 TAAAAA-GATATTTATT
1 TAAAAATTACATTT-TT
83691535 ATAAAAATTACATTTTT
1 -TAAAAATTACATTTTT
83691552 TAAAAA
1 TAAAAA
83691558 GATATTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 5 0.16
16 14 0.44
17 8 0.25
18 5 0.16
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (16 bp):
TAAAAATTACATTTTT
Found at i:83691531 original size:15 final size:15
Alignment explanation
Indices: 83691513--83691564 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
83691503 TAAAAATTAC
83691513 ATTTTTTAAAAAGAT
1 ATTTTTTAAAAAGAT
* *
83691528 ATTTATTATAAAAATTAC
1 ATTT-TT-TAAAAA-GAT
83691546 ATTTTTTAAAAAGAT
1 ATTTTTTAAAAAGAT
83691561 ATTT
1 ATTT
83691565 ATTCTTTCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 9 0.30
16 8 0.27
17 8 0.27
18 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (15 bp):
ATTTTTTAAAAAGAT
Found at i:83691539 original size:33 final size:33
Alignment explanation
Indices: 83691501--83691567 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
83691491 ATTAACAAAG
83691501 TATAAAAATTACATTTTTTAAAAAGATATTTAT
1 TATAAAAATTACATTTTTTAAAAAGATATTTAT
83691534 TATAAAAATTACATTTTTTAAAAAGATATTTAT
1 TATAAAAATTACATTTTTTAAAAAGATATTTAT
83691567 T
1 T
83691568 CTTTCCTCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (33 bp):
TATAAAAATTACATTTTTTAAAAAGATATTTAT
Found at i:83692215 original size:1 final size:1
Alignment explanation
Indices: 83692211--83692242 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
83692201 ATAGTCCTGG
83692211 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
83692243 GCTGTAGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:83698959 original size:17 final size:19
Alignment explanation
Indices: 83698937--83698974 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
83698927 TTTTTTGCAT
*
83698937 TTTTTAA-AAATA-AATTA
1 TTTTTAATAAACATAATTA
83698954 TTTTTAATAAACATAATTA
1 TTTTTAATAAACATAATTA
83698973 TT
1 TT
83698975 CATTTTCCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTTAATAAACATAATTA
Found at i:83699525 original size:18 final size:18
Alignment explanation
Indices: 83699465--83699526 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
83699455 AAATTACAAA
*
83699465 AAAAGTATTAAAAAATAATT
1 AAAA-TATT-AAAATTAATT
* * *
83699485 AAAATAATAAATTTTA-T
1 AAAATATTAAAATTAATT
83699502 AGAAATATTAAAATTAATT
1 A-AAATATTAAAATTAATT
83699521 AAAATA
1 AAAATA
83699527 ATATAAAGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 2 0.06
18 22 0.67
19 5 0.15
20 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAATATTAAAATTAATT
Found at i:83700572 original size:18 final size:18
Alignment explanation
Indices: 83700549--83700585 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
83700539 ATTTGTATGT
83700549 AAAAGAAAATTCAAGCAG
1 AAAAGAAAATTCAAGCAG
83700567 AAAAGAAAATTCAAGCAG
1 AAAAGAAAATTCAAGCAG
83700585 A
1 A
83700586 CTTTATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.11, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAAGAAAATTCAAGCAG
Done.